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Searched refs:reads (Results 1 – 25 of 10407) sorted by relevance

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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/rabema/tests/
H A Dreads.fasta1 >reads.000000000
3 >reads.000000001
5 >reads.000000002
7 >reads.000000003
9 >reads.000000004
11 >reads.000000005
13 >reads.000000006
15 >reads.000000007
17 >reads.000000008
19 >reads.000000009
[all …]
H A Dgold-adeno-hamming-08.gsi4 reads.000000000 0 gi|9632547|ref|NC_002077.1| F 3132 3132
5 reads.000000000 1 gi|9632547|ref|NC_002077.1| F 3132 3132
6 reads.000000000 2 gi|9632547|ref|NC_002077.1| F 3132 3132
7 reads.000000000 3 gi|9632547|ref|NC_002077.1| F 3132 3132
8 reads.000000000 4 gi|9632547|ref|NC_002077.1| F 3132 3132
9 reads.000000000 5 gi|9632547|ref|NC_002077.1| F 3132 3132
10 reads.000000000 6 gi|9632547|ref|NC_002077.1| F 3132 3132
11 reads.000000000 7 gi|9632547|ref|NC_002077.1| F 3132 3132
12 reads.000000000 8 gi|9632547|ref|NC_002077.1| F 3132 3132
13 reads.000000001 0 gi|9632547|ref|NC_002077.1| R 3916 3916
[all …]
H A Dgold-adeno-edit-08.gsi4 reads.000000000 0 gi|9632547|ref|NC_002077.1| F 3132 3132
5 reads.000000000 1 gi|9632547|ref|NC_002077.1| F 3132 3132
6 reads.000000000 2 gi|9632547|ref|NC_002077.1| F 3132 3132
7 reads.000000000 3 gi|9632547|ref|NC_002077.1| F 3131 3132
8 reads.000000000 4 gi|9632547|ref|NC_002077.1| F 3131 3132
9 reads.000000000 5 gi|9632547|ref|NC_002077.1| F 3131 3132
10 reads.000000000 6 gi|9632547|ref|NC_002077.1| F 3131 3133
11 reads.000000000 7 gi|9632547|ref|NC_002077.1| F 3131 3133
12 reads.000000000 8 gi|9632547|ref|NC_002077.1| F 3131 3133
13 reads.000000001 0 gi|9632547|ref|NC_002077.1| R 3916 3916
[all …]
H A Dreads.fasta.sam4 reads.000000464 0 gi|9632547|ref|NC_002077.1| 5 255 36M * 0 0 CCACTCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGG …
5 reads.000000894 0 gi|9632547|ref|NC_002077.1| 8 255 36M * 0 0 CTCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCCT …
6 reads.000000538 16 gi|9632547|ref|NC_002077.1| 9 255 36M * 0 0 TCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCCTG…
7 reads.000000547 16 gi|9632547|ref|NC_002077.1| 13 255 36M * 0 0 TCTCTGCGCGCTCGCTCGCTCGGTGGGGCCTGCGG…
8 reads.000000345 0 gi|9632547|ref|NC_002077.1| 15 255 36M * 0 0 TCTGCGCGCTCGCTCGCTCGGTGGGGCCTGCGGACC…
9 reads.000000851 16 gi|9632547|ref|NC_002077.1| 19 255 35M1I * 0 0 CGCGCTCGCTCGCTCGGTGGGGCCTGCGGACCA…
16 reads.000000120 16 gi|9632547|ref|NC_002077.1| 55 255 36M * 0 0 GTCCGCAGACGGCAGAGCTCTGCTCTGCCGGCCCC…
17 reads.000000785 16 gi|9632547|ref|NC_002077.1| 58 255 36M * 0 0 CGCAGACGGCAGAGCTCTGCTCTGCCGGCCCCACC…
18 reads.000000878 0 gi|9632547|ref|NC_002077.1| 66 255 36M * 0 0 GCAGAGCTCTGCTCTGCCGGCCCCACCGAGCGAGCG…
19 reads.000000549 16 gi|9632547|ref|NC_002077.1| 74 255 36M * 0 0 CTGCTCTGCCGGCCCCACCGAGCGAGCGAGCGCGC…
[all …]
H A Dgold-adeno-hamming-08.sam20 reads.000000015 256 gi|9632547|ref|NC_002077.1| 84 255 36M * 0 0 * * NM:i:0 MD:Z:36
21 reads.000000015 272 gi|9632547|ref|NC_002077.1| 4600 255 36M * 0 0 * * NM:i:0 MD:Z:36
22 reads.000000015 256 gi|9632547|ref|NC_002077.1| 4677 255 36M * 0 0 * * NM:i:0 MD:Z:36
57 reads.000000050 256 gi|9632547|ref|NC_002077.1| 4638 255 36M * 0 0 * * NM:i:1 MD:Z:34C1
70 reads.000000062 272 gi|9632547|ref|NC_002077.1| 4582 255 36M * 0 0 * * NM:i:0 MD:Z:36
82 reads.000000073 256 gi|9632547|ref|NC_002077.1| 89 255 36M * 0 0 * * NM:i:0 MD:Z:36
83 reads.000000073 272 gi|9632547|ref|NC_002077.1| 4595 255 36M * 0 0 * * NM:i:0 MD:Z:36
84 reads.000000073 256 gi|9632547|ref|NC_002077.1| 4682 255 36M * 0 0 * * NM:i:0 MD:Z:36
96 reads.000000084 256 gi|9632547|ref|NC_002077.1| 4610 255 36M * 0 0 * * NM:i:0 MD:Z:36
131 reads.000000120 272 gi|9632547|ref|NC_002077.1| 4648 255 36M * 0 0 * * NM:i:0 MD:Z:36
[all …]
H A Drazers2-adeno-hamming-08.sam20 reads.000000015 256 gi|9632547|ref|NC_002077.1| 84 255 36M * 0 0 * * NM:i:0 MD:Z:36
21 reads.000000015 272 gi|9632547|ref|NC_002077.1| 4600 255 36M * 0 0 * * NM:i:0 MD:Z:36
22 reads.000000015 256 gi|9632547|ref|NC_002077.1| 4677 255 36M * 0 0 * * NM:i:0 MD:Z:36
57 reads.000000050 256 gi|9632547|ref|NC_002077.1| 4638 255 36M * 0 0 * * NM:i:1 MD:Z:34C1
70 reads.000000062 272 gi|9632547|ref|NC_002077.1| 4582 255 36M * 0 0 * * NM:i:0 MD:Z:36
82 reads.000000073 256 gi|9632547|ref|NC_002077.1| 89 255 36M * 0 0 * * NM:i:0 MD:Z:36
83 reads.000000073 272 gi|9632547|ref|NC_002077.1| 4595 255 36M * 0 0 * * NM:i:0 MD:Z:36
84 reads.000000073 256 gi|9632547|ref|NC_002077.1| 4682 255 36M * 0 0 * * NM:i:0 MD:Z:36
96 reads.000000084 256 gi|9632547|ref|NC_002077.1| 4610 255 36M * 0 0 * * NM:i:0 MD:Z:36
131 reads.000000120 272 gi|9632547|ref|NC_002077.1| 4648 255 36M * 0 0 * * NM:i:0 MD:Z:36
[all …]
H A Drazers2-adeno-hamming-04.by_qname.sam4 reads.000000000 0 gi|9632547|ref|NC_002077.1| 3098 255 36M * 0 0 TTCACCACGTGACTGGCAGCGACTCATCAACAAC…
5 reads.000000001 16 gi|9632547|ref|NC_002077.1| 802 255 36M * 0 0 CCTCCTGCCCAAGACTCAGCCCGAGCTGCAGTGG…
6 reads.000000002 0 gi|9632547|ref|NC_002077.1| 3814 255 36M * 0 0 AAGACAAGTTCTTTCCCATGAGCGGTGTCATGAT…
7 reads.000000003 0 gi|9632547|ref|NC_002077.1| 1551 255 36M * 0 0 AGTCGTCCGCCCAGATCGACCCCACCCCCGTGAT…
8 reads.000000004 0 gi|9632547|ref|NC_002077.1| 2265 255 36M * 0 0 CTCTCTGAGGGCATTCGCGAGTGGTGGGACTTGA…
9 reads.000000005 16 gi|9632547|ref|NC_002077.1| 4210 255 36M * 0 0 CAGCTACAAAGTTTGCTTCATTCATCACCCAAT…
10 reads.000000006 16 gi|9632547|ref|NC_002077.1| 1990 255 36M * 0 0 GAGAATGAATCAGAATTTCAACATTTGCTTCAC…
11 reads.000000007 16 gi|9632547|ref|NC_002077.1| 2231 255 36M * 0 0 CGATGGTTATCTTCCAGATTGGCTCGAGGACAA…
12 reads.000000008 16 gi|9632547|ref|NC_002077.1| 3490 255 36M * 0 0 GCAGCTACGCGCACAGCCAGAGCCTGGACCGGC…
13 reads.000000009 0 gi|9632547|ref|NC_002077.1| 2878 255 36M * 0 0 ACGGAGTGGGTAATGCCTCAGGAAATTGGCATTG…
[all …]
H A Drazers2-adeno-hamming-04.sam19 reads.000000015 256 gi|9632547|ref|NC_002077.1| 84 255 36M * 0 0 * * NM:i:0 MD:Z:36
20 reads.000000015 272 gi|9632547|ref|NC_002077.1| 4600 255 36M * 0 0 * * NM:i:0 MD:Z:36
21 reads.000000015 256 gi|9632547|ref|NC_002077.1| 4677 255 36M * 0 0 * * NM:i:0 MD:Z:36
53 reads.000000050 256 gi|9632547|ref|NC_002077.1| 4638 255 36M * 0 0 * * NM:i:1 MD:Z:34C1
66 reads.000000062 272 gi|9632547|ref|NC_002077.1| 4582 255 36M * 0 0 * * NM:i:0 MD:Z:36
78 reads.000000073 256 gi|9632547|ref|NC_002077.1| 89 255 36M * 0 0 * * NM:i:0 MD:Z:36
79 reads.000000073 272 gi|9632547|ref|NC_002077.1| 4595 255 36M * 0 0 * * NM:i:0 MD:Z:36
80 reads.000000073 256 gi|9632547|ref|NC_002077.1| 4682 255 36M * 0 0 * * NM:i:0 MD:Z:36
92 reads.000000084 256 gi|9632547|ref|NC_002077.1| 4610 255 36M * 0 0 * * NM:i:0 MD:Z:36
126 reads.000000120 272 gi|9632547|ref|NC_002077.1| 4648 255 36M * 0 0 * * NM:i:0 MD:Z:36
[all …]
H A Dgold-adeno-edit-08.by_coordinate.sam1 reads.000000073 16 gi|9632547|ref|NC_002077.1| 2 0 36M * 0 0 TGCCCACTCCCTCTCTGCGCGCTCGCTCGCTCGGTG ]…
2 reads.000000947 16 gi|9632547|ref|NC_002077.1| 2 0 36M * 0 0 TGCCCACTCCCTCTCTGCGCGCTCGCTCGCTCGGTG ]…
3 reads.000000464 0 gi|9632547|ref|NC_002077.1| 5 0 36M * 0 0 CCACTCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGG ]]…
4 reads.000000015 16 gi|9632547|ref|NC_002077.1| 7 0 36M * 0 0 ACTCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCC ]…
6 reads.000000894 0 gi|9632547|ref|NC_002077.1| 8 0 36M * 0 0 CTCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCCT ]]…
7 reads.000000538 16 gi|9632547|ref|NC_002077.1| 9 0 36M * 0 0 TCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCCTG ]…
8 reads.000000694 16 gi|9632547|ref|NC_002077.1| 10 0 36M * 0 0 CCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCCGGC …
10 reads.000000547 16 gi|9632547|ref|NC_002077.1| 13 0 36M * 0 0 TCTCTGCGCGCTCGCTCGCTCGGTGGGGCCTGCGGA …
11 reads.000000345 0 gi|9632547|ref|NC_002077.1| 15 0 36M * 0 0 TCTGCGCGCTCGCTCGCTCGGTGGGGCCTGCGGACC ]…
12 reads.000000084 0 gi|9632547|ref|NC_002077.1| 17 0 36M * 0 0 TGCGCGCTCGCTCGCTCGGTGGGGCCTGCGGACCAA ]…
[all …]
H A Dgold-adeno-edit-08.by_qname.sam4 reads.000000000 0 gi|9632547|ref|NC_002077.1| 3098 255 36M * 0 0 TTCACCACGTGACTGGCAGCGACTCATCAACAAC…
5 reads.000000001 16 gi|9632547|ref|NC_002077.1| 802 255 36M * 0 0 CCTCCTGCCCAAGACTCAGCCCGAGCTGCAGTGG…
6 reads.000000002 0 gi|9632547|ref|NC_002077.1| 3814 255 25M1P11M * 0 0 AAGACAAGTTCTTTCCCATGAGCGGTGTC…
7 reads.000000003 0 gi|9632547|ref|NC_002077.1| 1551 255 36M * 0 0 AGTCGTCCGCCCAGATCGACCCCACCCCCGTGAT…
8 reads.000000004 0 gi|9632547|ref|NC_002077.1| 2265 255 36M * 0 0 CTCTCTGAGGGCATTCGCGAGTGGTGGGACTTGA…
9 reads.000000005 16 gi|9632547|ref|NC_002077.1| 4210 255 36M * 0 0 CAGCTACAAAGTTTGCTTCATTCATCACCCAAT…
11 reads.000000007 16 gi|9632547|ref|NC_002077.1| 2231 255 36M * 0 0 CGATGGTTATCTTCCAGATTGGCTCGAGGACAA…
12 reads.000000008 16 gi|9632547|ref|NC_002077.1| 3490 255 36M * 0 0 GCAGCTACGCGCACAGCCAGAGCCTGGACCGGC…
13 reads.000000009 0 gi|9632547|ref|NC_002077.1| 2878 255 36M * 0 0 ACGGAGTGGGTAATGCCTCAGGAAATTGGCATTG…
14 reads.000000010 16 gi|9632547|ref|NC_002077.1| 3309 255 36M * 0 0 CTCCCTCCGTTCCCGGCGGACGTGTTCATGATT…
[all …]
H A Dgold-adeno-edit-08.sam20 reads.000000015 256 gi|9632547|ref|NC_002077.1| 84 255 36M * 0 0 * * NM:i:0 MD:Z:36
21 reads.000000015 272 gi|9632547|ref|NC_002077.1| 4600 255 36M * 0 0 * * NM:i:0 MD:Z:36
22 reads.000000015 256 gi|9632547|ref|NC_002077.1| 4677 255 36M * 0 0 * * NM:i:0 MD:Z:36
58 reads.000000050 256 gi|9632547|ref|NC_002077.1| 4638 255 36M * 0 0 * * NM:i:1 MD:Z:34C1
72 reads.000000062 272 gi|9632547|ref|NC_002077.1| 4582 255 36M * 0 0 * * NM:i:0 MD:Z:36
84 reads.000000073 256 gi|9632547|ref|NC_002077.1| 89 255 36M * 0 0 * * NM:i:0 MD:Z:36
85 reads.000000073 272 gi|9632547|ref|NC_002077.1| 4595 255 36M * 0 0 * * NM:i:0 MD:Z:36
86 reads.000000073 256 gi|9632547|ref|NC_002077.1| 4682 255 36M * 0 0 * * NM:i:0 MD:Z:36
98 reads.000000084 256 gi|9632547|ref|NC_002077.1| 4610 255 36M * 0 0 * * NM:i:0 MD:Z:36
134 reads.000000120 272 gi|9632547|ref|NC_002077.1| 4648 255 36M * 0 0 * * NM:i:0 MD:Z:36
[all …]
H A Drazers2-adeno-edit-08.sam20 reads.000000015 256 gi|9632547|ref|NC_002077.1| 84 255 36M * 0 0 * * NM:i:0 MD:Z:36
21 reads.000000015 272 gi|9632547|ref|NC_002077.1| 4600 255 36M * 0 0 * * NM:i:0 MD:Z:36
22 reads.000000015 256 gi|9632547|ref|NC_002077.1| 4677 255 36M * 0 0 * * NM:i:0 MD:Z:36
58 reads.000000050 256 gi|9632547|ref|NC_002077.1| 4638 255 36M * 0 0 * * NM:i:1 MD:Z:34C1
72 reads.000000062 272 gi|9632547|ref|NC_002077.1| 4582 255 36M * 0 0 * * NM:i:0 MD:Z:36
84 reads.000000073 256 gi|9632547|ref|NC_002077.1| 89 255 36M * 0 0 * * NM:i:0 MD:Z:36
85 reads.000000073 272 gi|9632547|ref|NC_002077.1| 4595 255 36M * 0 0 * * NM:i:0 MD:Z:36
86 reads.000000073 256 gi|9632547|ref|NC_002077.1| 4682 255 36M * 0 0 * * NM:i:0 MD:Z:36
98 reads.000000084 256 gi|9632547|ref|NC_002077.1| 4610 255 36M * 0 0 * * NM:i:0 MD:Z:36
134 reads.000000120 272 gi|9632547|ref|NC_002077.1| 4648 255 36M * 0 0 * * NM:i:0 MD:Z:36
[all …]
H A Drazers2-adeno-edit-04.by_qname.sam4 reads.000000000 0 gi|9632547|ref|NC_002077.1| 3098 255 36M * 0 0 TTCACCACGTGACTGGCAGCGACTCATCAACAAC…
5 reads.000000001 16 gi|9632547|ref|NC_002077.1| 802 255 36M * 0 0 CCTCCTGCCCAAGACTCAGCCCGAGCTGCAGTGG…
6 reads.000000002 0 gi|9632547|ref|NC_002077.1| 3814 255 25M1P11M * 0 0 AAGACAAGTTCTTTCCCATGAGCGGTGTC…
7 reads.000000003 0 gi|9632547|ref|NC_002077.1| 1551 255 36M * 0 0 AGTCGTCCGCCCAGATCGACCCCACCCCCGTGAT…
8 reads.000000004 0 gi|9632547|ref|NC_002077.1| 2265 255 36M * 0 0 CTCTCTGAGGGCATTCGCGAGTGGTGGGACTTGA…
9 reads.000000005 16 gi|9632547|ref|NC_002077.1| 4210 255 36M * 0 0 CAGCTACAAAGTTTGCTTCATTCATCACCCAAT…
11 reads.000000007 16 gi|9632547|ref|NC_002077.1| 2231 255 36M * 0 0 CGATGGTTATCTTCCAGATTGGCTCGAGGACAA…
12 reads.000000008 16 gi|9632547|ref|NC_002077.1| 3490 255 36M * 0 0 GCAGCTACGCGCACAGCCAGAGCCTGGACCGGC…
13 reads.000000009 0 gi|9632547|ref|NC_002077.1| 2878 255 36M * 0 0 ACGGAGTGGGTAATGCCTCAGGAAATTGGCATTG…
14 reads.000000010 16 gi|9632547|ref|NC_002077.1| 3309 255 36M * 0 0 CTCCCTCCGTTCCCGGCGGACGTGTTCATGATT…
[all …]
H A Drazers2-adeno-edit-04.sam19 reads.000000015 256 gi|9632547|ref|NC_002077.1| 84 255 36M * 0 0 * * NM:i:0 MD:Z:36
20 reads.000000015 272 gi|9632547|ref|NC_002077.1| 4600 255 36M * 0 0 * * NM:i:0 MD:Z:36
21 reads.000000015 256 gi|9632547|ref|NC_002077.1| 4677 255 36M * 0 0 * * NM:i:0 MD:Z:36
55 reads.000000050 256 gi|9632547|ref|NC_002077.1| 4638 255 36M * 0 0 * * NM:i:1 MD:Z:34C1
69 reads.000000062 272 gi|9632547|ref|NC_002077.1| 4582 255 36M * 0 0 * * NM:i:0 MD:Z:36
81 reads.000000073 256 gi|9632547|ref|NC_002077.1| 89 255 36M * 0 0 * * NM:i:0 MD:Z:36
82 reads.000000073 272 gi|9632547|ref|NC_002077.1| 4595 255 36M * 0 0 * * NM:i:0 MD:Z:36
83 reads.000000073 256 gi|9632547|ref|NC_002077.1| 4682 255 36M * 0 0 * * NM:i:0 MD:Z:36
95 reads.000000084 256 gi|9632547|ref|NC_002077.1| 4610 255 36M * 0 0 * * NM:i:0 MD:Z:36
130 reads.000000120 272 gi|9632547|ref|NC_002077.1| 4648 255 36M * 0 0 * * NM:i:0 MD:Z:36
[all …]
H A Dgold-adeno-hamming-08.by_coordinate.sam1 reads.000000073 16 gi|9632547|ref|NC_002077.1| 2 0 36M * 0 0 TGCCCACTCCCTCTCTGCGCGCTCGCTCGCTCGGTG ]…
2 reads.000000947 16 gi|9632547|ref|NC_002077.1| 2 0 36M * 0 0 TGCCCACTCCCTCTCTGCGCGCTCGCTCGCTCGGTG ]…
3 reads.000000464 0 gi|9632547|ref|NC_002077.1| 5 0 36M * 0 0 CCACTCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGG ]]…
4 reads.000000015 16 gi|9632547|ref|NC_002077.1| 7 0 36M * 0 0 ACTCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCC ]…
5 reads.000000145 16 gi|9632547|ref|NC_002077.1| 8 0 36M * 0 0 CTCCCTCTCTGCGCCCTCGCTCGCTCGGTGGGGCCG ]…
6 reads.000000894 0 gi|9632547|ref|NC_002077.1| 8 0 36M * 0 0 CTCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCCT ]]…
7 reads.000000538 16 gi|9632547|ref|NC_002077.1| 9 0 36M * 0 0 TCCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCCTG ]…
8 reads.000000694 16 gi|9632547|ref|NC_002077.1| 10 0 36M * 0 0 CCCTCTCTGCGCGCTCGCTCGCTCGGTGGGGCCGGC …
10 reads.000000547 16 gi|9632547|ref|NC_002077.1| 13 0 36M * 0 0 TCTCTGCGCGCTCGCTCGCTCGGTGGGGCCTGCGGA …
11 reads.000000345 0 gi|9632547|ref|NC_002077.1| 15 0 36M * 0 0 TCTGCGCGCTCGCTCGCTCGGTGGGGCCTGCGGACC ]…
[all …]
H A Dgold-adeno-hamming-08.by_qname.sam4 reads.000000000 0 gi|9632547|ref|NC_002077.1| 3098 255 36M * 0 0 TTCACCACGTGACTGGCAGCGACTCATCAACAAC…
5 reads.000000001 16 gi|9632547|ref|NC_002077.1| 802 255 36M * 0 0 CCTCCTGCCCAAGACTCAGCCCGAGCTGCAGTGG…
6 reads.000000002 0 gi|9632547|ref|NC_002077.1| 3814 255 36M * 0 0 AAGACAAGTTCTTTCCCATGAGCGGTGTCATGAT…
7 reads.000000003 0 gi|9632547|ref|NC_002077.1| 1551 255 36M * 0 0 AGTCGTCCGCCCAGATCGACCCCACCCCCGTGAT…
8 reads.000000004 0 gi|9632547|ref|NC_002077.1| 2265 255 36M * 0 0 CTCTCTGAGGGCATTCGCGAGTGGTGGGACTTGA…
9 reads.000000005 16 gi|9632547|ref|NC_002077.1| 4210 255 36M * 0 0 CAGCTACAAAGTTTGCTTCATTCATCACCCAAT…
10 reads.000000006 16 gi|9632547|ref|NC_002077.1| 1990 255 36M * 0 0 GAGAATGAATCAGAATTTCAACATTTGCTTCAC…
11 reads.000000007 16 gi|9632547|ref|NC_002077.1| 2231 255 36M * 0 0 CGATGGTTATCTTCCAGATTGGCTCGAGGACAA…
12 reads.000000008 16 gi|9632547|ref|NC_002077.1| 3490 255 36M * 0 0 GCAGCTACGCGCACAGCCAGAGCCTGGACCGGC…
13 reads.000000009 0 gi|9632547|ref|NC_002077.1| 2878 255 36M * 0 0 ACGGAGTGGGTAATGCCTCAGGAAATTGGCATTG…
[all …]
/dports/astro/gpstk/GPSTk-8.0.0/data/
H A DJPL_405eph_accuracy.exp164 readBinaryHeader reads interval 32
168 readBinaryHeader reads 0 3 14 4
169 readBinaryHeader reads 1 171 10 2
170 readBinaryHeader reads 2 231 13 2
171 readBinaryHeader reads 3 309 11 1
172 readBinaryHeader reads 4 342 8 1
173 readBinaryHeader reads 5 366 7 1
174 readBinaryHeader reads 6 387 6 1
175 readBinaryHeader reads 7 405 6 1
176 readBinaryHeader reads 8 423 6 1
[all …]
H A DJPL_403eph_accuracy.exp152 readBinaryHeader reads interval 32
156 readBinaryHeader reads 0 3 14 4
157 readBinaryHeader reads 1 171 10 2
158 readBinaryHeader reads 2 231 13 2
159 readBinaryHeader reads 3 309 11 1
160 readBinaryHeader reads 4 342 8 1
161 readBinaryHeader reads 5 366 7 1
162 readBinaryHeader reads 6 387 6 1
163 readBinaryHeader reads 7 405 6 1
164 readBinaryHeader reads 8 423 6 1
[all …]
/dports/biology/py-biopython/biopython-1.79/Tests/
H A Dtest_Ace.py701 self.assertIsNone(contig.reads[0].ds)
736 self.assertIsNone(contig.reads[1].ds)
737 self.assertIsNone(contig.reads[1].rt)
738 self.assertIsNone(contig.reads[1].wr)
845 self.assertIsNone(contig.reads[0].rt)
846 self.assertIsNone(contig.reads[0].wr)
877 self.assertIsNone(contig.reads[1].wr)
901 self.assertIsNone(contig.reads[2].rt)
902 self.assertIsNone(contig.reads[2].wr)
933 self.assertIsNone(contig.reads[3].wr)
[all …]
/dports/biology/ugene/ugene-40.1/src/plugins/external_tool_support/src/spades/
H A DSpadesTaskTest.cpp109 taskSettings.reads.append(reads); in init()
147 taskSettings.reads.append(reads); in init()
185 taskSettings.reads.append(reads); in init()
192 taskSettings.reads.append(reads); in init()
199 taskSettings.reads.append(reads); in init()
206 taskSettings.reads.append(reads); in init()
213 taskSettings.reads.append(reads); in init()
220 taskSettings.reads.append(reads); in init()
227 taskSettings.reads.append(reads); in init()
234 taskSettings.reads.append(reads); in init()
[all …]
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers/tests/
H A Dgenerate_outputs.sh15 …${RAZERS} adeno-genome.fa adeno-reads${rl}_1.fa -o se-adeno-reads${rl}_1.razers > se-adeno-reads${…
18 …${RAZERS} -id adeno-genome.fa adeno-reads${rl}_1.fa -o se-adeno-reads${rl}_1-id.razers > se-adeno-…
21 …${RAZERS} -f -id adeno-genome.fa adeno-reads${rl}_1.fa -o se-adeno-reads${rl}_1-id-f.razers > se-a…
22 …${RAZERS} -r -id adeno-genome.fa adeno-reads${rl}_1.fa -o se-adeno-reads${rl}_1-id-r.razers > se-a…
48 …${RAZERS} adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2.raz…
51 …ZERS} -id adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-id.…
54 …} -f -id adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-id-f…
55 …} -r -id adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-id-r…
59 …i} -id adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-id-i${…
66 …-id adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-id-of${of…
[all …]
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3/tests/
H A Dgenerate_outputs.sh16 …RAZERS} -tc ${tc} adeno-genome.fa adeno-reads${rl}_1.fa -o se-adeno-reads${rl}_1-tc${tc}.razers > …
19 … ${tc} --no-gaps adeno-genome.fa adeno-reads${rl}_1.fa -o se-adeno-reads${rl}_1-ng-tc${tc}.razers …
22 …RS} -tc ${tc} -f adeno-genome.fa adeno-reads${rl}_1.fa -o se-adeno-reads${rl}_1-f-tc${tc}.razers >…
23 …RS} -tc ${tc} -r adeno-genome.fa adeno-reads${rl}_1.fa -o se-adeno-reads${rl}_1-r-tc${tc}.razers >…
49 … ${tc} adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-tc${tc…
52 … ${tc} adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-tc${tc…
55 …c} -f adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-f-tc${t…
56 …c} -r adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-r-tc${t…
60 …{i} adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-i${i}-tc$…
67 …} adeno-genome.fa adeno-reads${rl}_1.fa adeno-reads${rl}_2.fa -o pe-adeno-reads${rl}_2-of${of}-tc$…
[all …]
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/spark/pathseq/
H A DPSFilter.java123 return repartitionReadsByName(reads, reads.getNumPartitions()); in repartitionReadsByName()
227 reads = PSUtils.primaryReads(reads);
237 reads = clearAllAlignments(reads, header);
240 reads = reads.map(new ReadTransformerSparkifier(new StripMateNumberTransformer()));
271 reads = doKmerFiltering(reads, filterArgs.kmerFilePath, filterArgs.hostKmerThresh);
276 reads = repartitionReadsByName(reads);
281 reads = doBwaFilter(reads, filterArgs.indexImageFile, filterArgs.minSeedLength,
288 reads = setPairFlags(reads, filterArgs.filterReadsPerPartition);
289 reads = filterDuplicateSequences(reads);
294 reads = setPairFlags(reads, filterArgs.filterReadsPerPartition);
[all …]
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/fiona/tests/
H A Dgenerate_outputs.sh16 ${MASON_SIMULATOR} -ir genome.10k.fa -n 300 -o reads.illumina.fq -oa reads.illumina.sam &>/dev/null
19 …hnology 454 --fragment-mean-size 800 -ir genome.10k.fa -n 300 -o reads.454.fq -oa reads.454.sam &>…
28 …ONA_ILLUMINA} -nt 1 -i 1 -g 10000 reads.illumina.fq reads.illumina.corrected.i1.fa >reads.illumina…
32 …ONA_ILLUMINA} -nt 1 -i 2 -g 10000 reads.illumina.fq reads.illumina.corrected.i2.fa >reads.illumina…
38 ${FIONA} -nt 1 -i 1 -g 10000 reads.454.fq reads.454.corrected.i1.fa >reads.454.fq.i1.stdout 2>reads…
42 ${FIONA} -nt 1 -i 2 -g 10000 reads.454.fq reads.454.corrected.i2.fa >reads.454.fq.i2.stdout 2>reads…
/dports/biology/hisat2/hisat2-2.2.1/scripts/test/
H A DRead.pm71 my ($fh, $color, $reads) = @_;
72 $reads = [] unless defined($reads);
82 return $reads;
90 $reads = [] unless defined($reads);
97 return $reads;
105 $reads = [] unless defined($reads);
114 return $reads;
122 $reads = [] unless defined($reads);
129 return $reads;
137 $reads = [] unless defined($reads);
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