| /dports/biology/viennarna/ViennaRNA-2.4.18/RNA-Tutorial/Data/genefinding/rnaz/herpes/x/ |
| H A D | results.dat | 1 locus1 NC_007605.genome 1947 2061 3 67.51 0.522821 -1.74
3 locus2 NC_007605.genome 5713 5832 2 50.83 0.990207 -2.03
5 locus3 NC_007605.genome 6575 6766 2 79.17 0.999027 -3.45
11 locus4 NC_007605.genome 7343 8031 2 77.50 0.999984 -10.65
43 locus5 NC_007605.genome 8951 9069 2 55.00 0.996224 -2.34
46 locus6 NC_007605.genome 9109 9226 2 53.33 0.999215 -2.36
49 locus7 NC_007605.genome 9652 9754 2 60.83 0.694714 -1.37
51 locus8 NC_007605.genome 9874 9994 2 85.83 0.663130 -1.53
53 locus9 NC_007605.genome 10154 10346 2 85.00 0.997454 -2.46
57 locus10 NC_007605.genome 11081 11587 2 80.83 0.999987 -4.27
[all …]
|
| H A D | results_annotated.dat | 1 locus1 NC_007605.genome 1947 2061 3 67.51 0.522821 -1.74 "BNRF1"
3 locus2 NC_007605.genome 5713 5832 2 50.83 0.990207 -2.03 "BNRF1"
5 locus3 NC_007605.genome 6575 6766 2 79.17 0.999027 -3.45 "EBER-1"
11 locus4 NC_007605.genome 7343 8031 2 77.50 0.999984 -10.65 -
43 locus5 NC_007605.genome 8951 9069 2 55.00 0.996224 -2.34 -
46 locus6 NC_007605.genome 9109 9226 2 53.33 0.999215 -2.36 -
95 locus16 NC_007605.genome 14025 14195 2 81.31 0.973658 -2.33 -
138 locus25 NC_007605.genome 17125 17283 2 78.33 0.969985 -2.17 -
141 locus26 NC_007605.genome 17402 17592 2 85.83 0.996828 -3.24 -
146 locus27 NC_007605.genome 17949 18508 2 89.17 0.999944 -3.32 -
[all …]
|
| H A D | annotation.bed | 1 genome 1 171823 LMP-2A
2 genome 1 171823 LMP-2B
3 genome 1691 5856 BNRF1
4 genome 6629 6795 EBER-1
5 genome 6956 7128 EBER-2
6 genome 9631 10262 BCRF1
7 genome 11305 97654 EBNA-1
10 genome 11305 37739 EBNA-2
11 genome 12541 13692 BWRF1
13 genome 15613 16764 BWRF1
[all …]
|
| H A D | windows_random.maf | 2 s NC_007605.genome 97 120 + 171823 CACCGTTCAGTTCTAGGTGTGTATCTCTTGCCCTGACCGCGGGGCATTGGTTTCATGCGTAACC…
1266 s NC_007605.genome 14131 91 + 171823 CCATTCCGTGCGCGGTGTCAAACGAATGGGTGATTACGGTGCAGAGTGATGGCGAGGGCGTT…
1267 s NC_006146.genome 14580 91 + 171096 --ATTCCTTGTGCGGTGGCAAACGAATGGGCGATGCCGGTGCAGAGTGATGGCGAGGGCGTT…
1270 s NC_007605.genome 14143 91 + 171823 CGGTGTCAAACGAATGGGTGATTACGGTGCAGAGTGATGGCGAGGGCGTTAGTCCAACAGGT…
5385 s NC_007605.genome 69927 86 + 171823 GACAACTGCCATCTGCTGTAGGGGTGAGGGGGTGATGTAGTTGTCGGAGTTTCACTAAATGT…
5386 s NC_006146.genome 63650 86 + 171096 GGCAACTGCC----GCTGCGCGGGGGCGGGGTCGGTGTACATGTTGAAGTTTTAATAGTTGT…
10831 s NC_007605.genome 125779 64 + 171823 TCGGATTCCAGATGCTCGATACAGGCCAGCCCAATATGAGGCCCACACTTCTTCCTCTAAT…
10832 s NC_006146.genome 119718 64 + 171096 TCGGATTCCAAATGCCCGATCCAGGCCCGCCCGATCTGAGGCCCACACTCCTTCCTCTAAT…
10833 s NC_004367.genome 112101 64 - 149696 TCGTACTCTAGAAATCCATTTGACGCGCGCTGTATCTGGGGTCCCTATTTGTTCCTTTAAC…
10868 s NC_007605.genome 126217 62 + 171823 CGGCCTGCGGAAGGGTGCCCGCGCGCCCGCTCAACGAAAGCTAAGAGAACCTGGACGTGCCC
[all …]
|
| H A D | results_random.dat | 1 locus1 NC_007605.genome 7308 7423 2 55.83 0.968068 -1.69
3 locus2 NC_007605.genome 12959 13116 2 88.33 0.927591 -2.13
7 locus3 NC_007605.genome 16031 16148 2 87.50 0.629170 -1.54
9 locus4 NC_007605.genome 17989 18109 2 82.50 0.650057 -1.67
11 locus5 NC_007605.genome 18269 18389 2 70.00 0.886454 -1.02
13 locus6 NC_007605.genome 18941 19178 2 91.67 0.993423 -2.56
17 locus7 NC_007605.genome 19794 19914 2 87.50 0.792190 -1.87
19 locus8 NC_007605.genome 20194 20313 2 78.33 0.667006 -1.35
21 locus9 NC_007605.genome 20471 20589 2 88.33 0.915321 -1.88
23 locus10 NC_007605.genome 20701 20821 2 86.67 0.585076 -1.59
[all …]
|
| H A D | windows.maf | 2 s NC_007605.genome 137 120 + 171823 CCTCAGTTAGTACCGTTGTGACCGCCACCGGCTTGGCCCTCTCACTTCTACTCTTGGCAGCAG…
1255 s NC_007605.genome 14131 91 + 171823 CCCCCAGGAAGCGGGTCTATGGTTGGCTGCGCTGCTGCTATCTTTAGAGGGGAAAAGAGGAA…
1256 s NC_006146.genome 14580 91 + 171096 --CCCAGGAAACGGGTCTATGGTTGGCTGCGCCACGTCTATCTTTAGAGGGGAAAAGAGGAA…
1259 s NC_007605.genome 14143 91 + 171823 GGGTCTATGGTTGGCTGCGCTGCTGCTATCTTTAGAGGGGAAAAGAGGAATAAGCCCCCAGA…
5261 s NC_007605.genome 69927 86 + 171823 TTCTTGGGGGACTTGAGTTAGCTGTCTTTCCTCTTATTACATTGGGCTAACGGGAGGAAATG…
5262 s NC_006146.genome 63650 86 + 171096 TACTTGGGGG----GAGTGTTCTGACCTTCCCATCATTATCTTGTGTTAACGCGTGGGGATG…
10681 s NC_007605.genome 125779 64 + 171823 CACTTCTTCTCCTGGAGCACATTCATGCTGTCATGGCCAAACAATGCCACACTCCGGGAGA…
10682 s NC_006146.genome 119718 64 + 171096 CACCTCTTCTCCTGGAGCACGTTCATACTGTCCTGGCCCAACAACGCCACCCTCCGGGAGA…
10683 s NC_004367.genome 112101 64 - 149696 CACTTGTTTTGCCTAGGGTCTCTTATGTTGAGTTGCCCCAATAACACTATCCTCCGAGAGC…
10718 s NC_007605.genome 126217 62 + 171823 GACCCGGCCCGGAGACTGGTGGCCCTCCTGCGAAGGGAAGATGGGGCACCTAAAGACCCCCC
[all …]
|
| H A D | raw-tba.maf | 333 s NC_006146.genome 35113 1 + 171096 C
334 s NC_007605.genome 41264 1 + 171823 T
335 s NC_004367.genome 34017 1 - 149696 C
418 s NC_006146.genome 101661 1 + 171096 C
419 s NC_007605.genome 107858 1 + 171823 T
420 s NC_004367.genome 91141 1 - 149696 C
428 s NC_006146.genome 111924 1 + 171096 A
610 s NC_006146.genome 37439 1 + 171096 C
611 s NC_007605.genome 43594 1 + 171823 C
681 s NC_007605.genome 71273 1 + 171823 G
[all …]
|
| H A D | NC_007605.NC_004367.orig.maf | 180 s NC_007605.genome 50788 36 + 171823 TTTCTTCTCCCGTTGCATGATAGAATGGCCATAGGG
181 s NC_004367.genome 43392 36 - 149696 TTTTTTCTCGCGTTGACCAATGGAATGGCTGTAGAG
220 s NC_007605.genome 79112 99 + 171823 CACGGGACTCGTTGATGTGAGAATTCCGCCGCTGGGAACATGGCTCTCGTATCCACTGCAGG…
240 s NC_007605.genome 91515 36 + 171823 GTTGGCCCACGGGGATCCGGGTGGATGGAAGGGCCT
241 s NC_004367.genome 75621 36 - 149696 GTTAGCCCATGGGGACCCGGGTGGATGAAAGGGCCT
492 s NC_007605.genome 115367 41 + 171823 CCCCGGATGTTGCTGGGGTTCTCGAGGGCTGGGTGGTGCTT
493 s NC_004367.genome 101782 41 - 149696 CCCCTTATGTTACTTGGTTCCTCGAGGGCCGGGTGGTGCCT
508 s NC_007605.genome 119976 88 + 171823 TTATAAAAGACTTCCACCCTCTCCCCGCTGGCCAAGACACGCCGCTCGTGGACCACGCCAT…
509 s NC_004367.genome 106202 88 - 149696 TTGTAAAAAACTTCCACGGTTTCTCCAGAGGACAGTTTCTGCTTCTCATGCACCACACCAT…
516 s NC_007605.genome 126217 62 + 171823 GACCCGGCCCGGAGACTGGTGGCCCTCCTGCGAAGGGAAGATGGGGCACCTAAAGACCCCCC
[all …]
|
| H A D | random.maf | 2 s NC_007605.genome 0 57 + 171823 CTGTTATTTCAGTCACTCACCGATTTCTGCCTTGTCTTCACATTTCCTTTGTTTCTC
70 s NC_007605.genome 36521 23 + 171823 GTCAATACCGGGACGCAACGGGA
71 s NC_006146.genome 30902 23 + 171096 GGCAACATGAGAACGCAACGGGA
72 s NC_004367.genome 30564 23 - 149696 GGCAATATAAGAACGCAACGAGA
158 s NC_007605.genome 50788 36 + 171823 CTGATCCAGTGACTAGCAATGCTTCTTGGTTTAGCG
159 s NC_006146.genome 44644 36 + 171096 CTGACCCAGTGACTAGCAGTGTTTCTTGGGCTAGCG
181 s NC_007605.genome 57261 31 + 171823 TGCACCCACGGGGAAGAGCGCGATCCGCAGA
182 s NC_006146.genome 51075 31 + 171096 TGCACCCGCGGGGAAGTGCTCGAGCAGCGGA
365 s NC_007605.genome 96049 26 + 171823 GGGAGAGGGAAGGAGGAGAGCGCCGG---
366 s NC_004367.genome 79705 24 - 149696 GGTCGAGAGAA-----AGAGCTCCGGGGC
[all …]
|
| H A D | NC_006146.NC_004367.orig.maf | 20 s NC_006146.genome 14104 110 + 171096 CCTCCCCGGCCACCCCAGGCCCGTCCAGGGGGGACTTTAGGTGACC--CTCGGGCCTGG-C…
136 s NC_006146.genome 30902 23 + 171096 AGGGACGTGGGAACACAAGAACC
137 s NC_004367.genome 30564 23 - 149696 AAGGATGTAGGAACACAAGAACC
224 s NC_006146.genome 85738 36 + 171096 GTTGGCCCACGGGGACCCTGGTGGATGAAAGGGCCT
225 s NC_004367.genome 75621 36 - 149696 GTTAGCCCATGGGGACCCGGGTGGATGAAAGGGCCT
284 s NC_006146.genome 113899 92 + 171096 TTGTAAAACACTTCCACCCTCTCCCCGCTGGCCAGGACGCGCCGCTCGTGGACTACGCCGT…
285 s NC_004367.genome 106202 92 - 149696 TTGTAAAAAACTTCCACGGTTTCTCCAGAGGACAGTTTCTGCTTCTCATGCACCACACCAT…
292 s NC_006146.genome 119718 64 + 171096 CACCTCTTCTCCTGGAGCACGTTCATACTGTCCTGGCCCAACAACGCCACCCTCCGGGAGA…
293 s NC_004367.genome 112101 64 - 149696 CACTTGTTTTGCCTAGGGTCTCTTATGTTGAGTTGCCCCAATAACACTATCCTCCGAGAGC…
304 s NC_006146.genome 131373 73 + 171096 CCGCCTCCAAGGCCAAGGCAGTCTCAGCCCACCTCAAGTCCATCTTCTGCGAGGAATTACT…
[all …]
|
| /dports/biology/viennarna/ViennaRNA-2.4.18/RNA-Tutorial/Data/rnaz/herpes/x/ |
| H A D | results.dat | 1 locus1 NC_007605.genome 1947 2061 3 67.51 0.522821 -1.74
3 locus2 NC_007605.genome 5713 5832 2 50.83 0.990207 -2.03
5 locus3 NC_007605.genome 6575 6766 2 79.17 0.999027 -3.45
11 locus4 NC_007605.genome 7343 8031 2 77.50 0.999984 -10.65
43 locus5 NC_007605.genome 8951 9069 2 55.00 0.996224 -2.34
46 locus6 NC_007605.genome 9109 9226 2 53.33 0.999215 -2.36
49 locus7 NC_007605.genome 9652 9754 2 60.83 0.694714 -1.37
51 locus8 NC_007605.genome 9874 9994 2 85.83 0.663130 -1.53
53 locus9 NC_007605.genome 10154 10346 2 85.00 0.997454 -2.46
57 locus10 NC_007605.genome 11081 11587 2 80.83 0.999987 -4.27
[all …]
|
| H A D | results_annotated.dat | 1 locus1 NC_007605.genome 1947 2061 3 67.51 0.522821 -1.74 "BNRF1"
3 locus2 NC_007605.genome 5713 5832 2 50.83 0.990207 -2.03 "BNRF1"
5 locus3 NC_007605.genome 6575 6766 2 79.17 0.999027 -3.45 "EBER-1"
11 locus4 NC_007605.genome 7343 8031 2 77.50 0.999984 -10.65 -
43 locus5 NC_007605.genome 8951 9069 2 55.00 0.996224 -2.34 -
46 locus6 NC_007605.genome 9109 9226 2 53.33 0.999215 -2.36 -
95 locus16 NC_007605.genome 14025 14195 2 81.31 0.973658 -2.33 -
138 locus25 NC_007605.genome 17125 17283 2 78.33 0.969985 -2.17 -
141 locus26 NC_007605.genome 17402 17592 2 85.83 0.996828 -3.24 -
146 locus27 NC_007605.genome 17949 18508 2 89.17 0.999944 -3.32 -
[all …]
|
| H A D | annotation.bed | 1 genome 1 171823 LMP-2A
2 genome 1 171823 LMP-2B
3 genome 1691 5856 BNRF1
4 genome 6629 6795 EBER-1
5 genome 6956 7128 EBER-2
6 genome 9631 10262 BCRF1
7 genome 11305 97654 EBNA-1
10 genome 11305 37739 EBNA-2
11 genome 12541 13692 BWRF1
13 genome 15613 16764 BWRF1
[all …]
|
| H A D | windows_random.maf | 2 s NC_007605.genome 97 120 + 171823 CACCGTTCAGTTCTAGGTGTGTATCTCTTGCCCTGACCGCGGGGCATTGGTTTCATGCGTAACC…
1266 s NC_007605.genome 14131 91 + 171823 CCATTCCGTGCGCGGTGTCAAACGAATGGGTGATTACGGTGCAGAGTGATGGCGAGGGCGTT…
1267 s NC_006146.genome 14580 91 + 171096 --ATTCCTTGTGCGGTGGCAAACGAATGGGCGATGCCGGTGCAGAGTGATGGCGAGGGCGTT…
1270 s NC_007605.genome 14143 91 + 171823 CGGTGTCAAACGAATGGGTGATTACGGTGCAGAGTGATGGCGAGGGCGTTAGTCCAACAGGT…
5385 s NC_007605.genome 69927 86 + 171823 GACAACTGCCATCTGCTGTAGGGGTGAGGGGGTGATGTAGTTGTCGGAGTTTCACTAAATGT…
5386 s NC_006146.genome 63650 86 + 171096 GGCAACTGCC----GCTGCGCGGGGGCGGGGTCGGTGTACATGTTGAAGTTTTAATAGTTGT…
10831 s NC_007605.genome 125779 64 + 171823 TCGGATTCCAGATGCTCGATACAGGCCAGCCCAATATGAGGCCCACACTTCTTCCTCTAAT…
10832 s NC_006146.genome 119718 64 + 171096 TCGGATTCCAAATGCCCGATCCAGGCCCGCCCGATCTGAGGCCCACACTCCTTCCTCTAAT…
10833 s NC_004367.genome 112101 64 - 149696 TCGTACTCTAGAAATCCATTTGACGCGCGCTGTATCTGGGGTCCCTATTTGTTCCTTTAAC…
10868 s NC_007605.genome 126217 62 + 171823 CGGCCTGCGGAAGGGTGCCCGCGCGCCCGCTCAACGAAAGCTAAGAGAACCTGGACGTGCCC
[all …]
|
| H A D | results_random.dat | 1 locus1 NC_007605.genome 7308 7423 2 55.83 0.968068 -1.69
3 locus2 NC_007605.genome 12959 13116 2 88.33 0.927591 -2.13
7 locus3 NC_007605.genome 16031 16148 2 87.50 0.629170 -1.54
9 locus4 NC_007605.genome 17989 18109 2 82.50 0.650057 -1.67
11 locus5 NC_007605.genome 18269 18389 2 70.00 0.886454 -1.02
13 locus6 NC_007605.genome 18941 19178 2 91.67 0.993423 -2.56
17 locus7 NC_007605.genome 19794 19914 2 87.50 0.792190 -1.87
19 locus8 NC_007605.genome 20194 20313 2 78.33 0.667006 -1.35
21 locus9 NC_007605.genome 20471 20589 2 88.33 0.915321 -1.88
23 locus10 NC_007605.genome 20701 20821 2 86.67 0.585076 -1.59
[all …]
|
| H A D | windows.maf | 2 s NC_007605.genome 137 120 + 171823 CCTCAGTTAGTACCGTTGTGACCGCCACCGGCTTGGCCCTCTCACTTCTACTCTTGGCAGCAG…
1255 s NC_007605.genome 14131 91 + 171823 CCCCCAGGAAGCGGGTCTATGGTTGGCTGCGCTGCTGCTATCTTTAGAGGGGAAAAGAGGAA…
1256 s NC_006146.genome 14580 91 + 171096 --CCCAGGAAACGGGTCTATGGTTGGCTGCGCCACGTCTATCTTTAGAGGGGAAAAGAGGAA…
1259 s NC_007605.genome 14143 91 + 171823 GGGTCTATGGTTGGCTGCGCTGCTGCTATCTTTAGAGGGGAAAAGAGGAATAAGCCCCCAGA…
5261 s NC_007605.genome 69927 86 + 171823 TTCTTGGGGGACTTGAGTTAGCTGTCTTTCCTCTTATTACATTGGGCTAACGGGAGGAAATG…
5262 s NC_006146.genome 63650 86 + 171096 TACTTGGGGG----GAGTGTTCTGACCTTCCCATCATTATCTTGTGTTAACGCGTGGGGATG…
10681 s NC_007605.genome 125779 64 + 171823 CACTTCTTCTCCTGGAGCACATTCATGCTGTCATGGCCAAACAATGCCACACTCCGGGAGA…
10682 s NC_006146.genome 119718 64 + 171096 CACCTCTTCTCCTGGAGCACGTTCATACTGTCCTGGCCCAACAACGCCACCCTCCGGGAGA…
10683 s NC_004367.genome 112101 64 - 149696 CACTTGTTTTGCCTAGGGTCTCTTATGTTGAGTTGCCCCAATAACACTATCCTCCGAGAGC…
10718 s NC_007605.genome 126217 62 + 171823 GACCCGGCCCGGAGACTGGTGGCCCTCCTGCGAAGGGAAGATGGGGCACCTAAAGACCCCCC
[all …]
|
| H A D | raw-tba.maf | 333 s NC_006146.genome 35113 1 + 171096 C
334 s NC_007605.genome 41264 1 + 171823 T
335 s NC_004367.genome 34017 1 - 149696 C
418 s NC_006146.genome 101661 1 + 171096 C
419 s NC_007605.genome 107858 1 + 171823 T
420 s NC_004367.genome 91141 1 - 149696 C
428 s NC_006146.genome 111924 1 + 171096 A
610 s NC_006146.genome 37439 1 + 171096 C
611 s NC_007605.genome 43594 1 + 171823 C
681 s NC_007605.genome 71273 1 + 171823 G
[all …]
|
| H A D | NC_007605.NC_004367.orig.maf | 180 s NC_007605.genome 50788 36 + 171823 TTTCTTCTCCCGTTGCATGATAGAATGGCCATAGGG
181 s NC_004367.genome 43392 36 - 149696 TTTTTTCTCGCGTTGACCAATGGAATGGCTGTAGAG
220 s NC_007605.genome 79112 99 + 171823 CACGGGACTCGTTGATGTGAGAATTCCGCCGCTGGGAACATGGCTCTCGTATCCACTGCAGG…
240 s NC_007605.genome 91515 36 + 171823 GTTGGCCCACGGGGATCCGGGTGGATGGAAGGGCCT
241 s NC_004367.genome 75621 36 - 149696 GTTAGCCCATGGGGACCCGGGTGGATGAAAGGGCCT
492 s NC_007605.genome 115367 41 + 171823 CCCCGGATGTTGCTGGGGTTCTCGAGGGCTGGGTGGTGCTT
493 s NC_004367.genome 101782 41 - 149696 CCCCTTATGTTACTTGGTTCCTCGAGGGCCGGGTGGTGCCT
508 s NC_007605.genome 119976 88 + 171823 TTATAAAAGACTTCCACCCTCTCCCCGCTGGCCAAGACACGCCGCTCGTGGACCACGCCAT…
509 s NC_004367.genome 106202 88 - 149696 TTGTAAAAAACTTCCACGGTTTCTCCAGAGGACAGTTTCTGCTTCTCATGCACCACACCAT…
516 s NC_007605.genome 126217 62 + 171823 GACCCGGCCCGGAGACTGGTGGCCCTCCTGCGAAGGGAAGATGGGGCACCTAAAGACCCCCC
[all …]
|
| H A D | random.maf | 2 s NC_007605.genome 0 57 + 171823 CTGTTATTTCAGTCACTCACCGATTTCTGCCTTGTCTTCACATTTCCTTTGTTTCTC
70 s NC_007605.genome 36521 23 + 171823 GTCAATACCGGGACGCAACGGGA
71 s NC_006146.genome 30902 23 + 171096 GGCAACATGAGAACGCAACGGGA
72 s NC_004367.genome 30564 23 - 149696 GGCAATATAAGAACGCAACGAGA
158 s NC_007605.genome 50788 36 + 171823 CTGATCCAGTGACTAGCAATGCTTCTTGGTTTAGCG
159 s NC_006146.genome 44644 36 + 171096 CTGACCCAGTGACTAGCAGTGTTTCTTGGGCTAGCG
181 s NC_007605.genome 57261 31 + 171823 TGCACCCACGGGGAAGAGCGCGATCCGCAGA
182 s NC_006146.genome 51075 31 + 171096 TGCACCCGCGGGGAAGTGCTCGAGCAGCGGA
365 s NC_007605.genome 96049 26 + 171823 GGGAGAGGGAAGGAGGAGAGCGCCGG---
366 s NC_004367.genome 79705 24 - 149696 GGTCGAGAGAA-----AGAGCTCCGGGGC
[all …]
|
| H A D | NC_006146.NC_004367.orig.maf | 20 s NC_006146.genome 14104 110 + 171096 CCTCCCCGGCCACCCCAGGCCCGTCCAGGGGGGACTTTAGGTGACC--CTCGGGCCTGG-C…
136 s NC_006146.genome 30902 23 + 171096 AGGGACGTGGGAACACAAGAACC
137 s NC_004367.genome 30564 23 - 149696 AAGGATGTAGGAACACAAGAACC
224 s NC_006146.genome 85738 36 + 171096 GTTGGCCCACGGGGACCCTGGTGGATGAAAGGGCCT
225 s NC_004367.genome 75621 36 - 149696 GTTAGCCCATGGGGACCCGGGTGGATGAAAGGGCCT
284 s NC_006146.genome 113899 92 + 171096 TTGTAAAACACTTCCACCCTCTCCCCGCTGGCCAGGACGCGCCGCTCGTGGACTACGCCGT…
285 s NC_004367.genome 106202 92 - 149696 TTGTAAAAAACTTCCACGGTTTCTCCAGAGGACAGTTTCTGCTTCTCATGCACCACACCAT…
292 s NC_006146.genome 119718 64 + 171096 CACCTCTTCTCCTGGAGCACGTTCATACTGTCCTGGCCCAACAACGCCACCCTCCGGGAGA…
293 s NC_004367.genome 112101 64 - 149696 CACTTGTTTTGCCTAGGGTCTCTTATGTTGAGTTGCCCCAATAACACTATCCTCCGAGAGC…
304 s NC_006146.genome 131373 73 + 171096 CCGCCTCCAAGGCCAAGGCAGTCTCAGCCCACCTCAAGTCCATCTTCTGCGAGGAATTACT…
[all …]
|
| /dports/biology/viennarna/ViennaRNA-2.4.18/RNA-Tutorial/Data/genefinding/rnaz/herpes/ |
| H A D | annotation.bed | 1 genome 1 171823 LMP-2A
2 genome 1 171823 LMP-2B
3 genome 1691 5856 BNRF1
4 genome 6629 6795 EBER-1
5 genome 6956 7128 EBER-2
6 genome 9631 10262 BCRF1
7 genome 11305 97654 EBNA-1
10 genome 11305 37739 EBNA-2
11 genome 12541 13692 BWRF1
13 genome 15613 16764 BWRF1
[all …]
|
| /dports/biology/viennarna/ViennaRNA-2.4.18/RNA-Tutorial/Data/rnaz/herpes/ |
| H A D | annotation.bed | 1 genome 1 171823 LMP-2A
2 genome 1 171823 LMP-2B
3 genome 1691 5856 BNRF1
4 genome 6629 6795 EBER-1
5 genome 6956 7128 EBER-2
6 genome 9631 10262 BCRF1
7 genome 11305 97654 EBNA-1
10 genome 11305 37739 EBNA-2
11 genome 12541 13692 BWRF1
13 genome 15613 16764 BWRF1
[all …]
|
| /dports/biology/hisat2/hisat2-2.2.1/evaluation/ |
| H A D | build_indexes.py | 15 for genome in genomes:
17 if genome == "genome":
26 cmd = "../../aligners/bin/hisat2-build ../../data/%s.fa %s" % (genome, genome)
27 …np ../../data/%s.snp --haplotype ../../data/%s.haplotype %s_snp" % (genome, genome, genome, genome)
28 …a/%s.fa --ss ../../data/%s.ss --exon ../../data/%s.exon %s_tran" % (genome, genome, genome, genome)
29 …data/%s.ss --exon ../../data/%s.exon %s_snp_tran" % (genome, genome, genome, genome, genome, genom…
31 cmd = "../../aligners/bin/hisat-build ../../data/%s.fa %s" % (genome, genome)
34 cmd = "../../aligners/bin/bowtie-build ../../data/%s.fa %s" % (genome, genome)
36 … cmd = "../../aligners/bin/bowtie2-build --threads 6 ../../data/%s.fa %s" % (genome, genome)
43 cmd = "../../aligners/bin/bwa index -p %s.fa ../../data/%s.fa" % (genome, genome)
[all …]
|
| /dports/biology/artemis/artemis-17.0.1-11-g3e43d27e/etc/ |
| H A D | af063097_v_b132222.crunch | 1 …_af063097.fasta_b132222.fasta.00000001 201 434 AF063097 AF063097 Bacteriophage P2, complete genome.
2 …af063097.fasta_b132222.fasta.00000001 202 1173 AF063097 AF063097 Bacteriophage P2, complete genome.
3 …af063097.fasta_b132222.fasta.00000001 218 1159 AF063097 AF063097 Bacteriophage P2, complete genome.
4 …af063097.fasta_b132222.fasta.00000001 993 1157 AF063097 AF063097 Bacteriophage P2, complete genome.
5 …f063097.fasta_b132222.fasta.00000001 2328 2621 AF063097 AF063097 Bacteriophage P2, complete genome.
6 …f063097.fasta_b132222.fasta.00000001 1241 1390 AF063097 AF063097 Bacteriophage P2, complete genome.
7 …f063097.fasta_b132222.fasta.00000001 1366 2547 AF063097 AF063097 Bacteriophage P2, complete genome.
8 …f063097.fasta_b132222.fasta.00000001 2623 3057 AF063097 AF063097 Bacteriophage P2, complete genome.
9 …f063097.fasta_b132222.fasta.00000001 3152 4021 AF063097 AF063097 Bacteriophage P2, complete genome.
10 …f063097.fasta_b132222.fasta.00000001 4068 5126 AF063097 AF063097 Bacteriophage P2, complete genome.
[all …]
|
| /dports/biology/snpeff/snpEff/ |
| H A D | snpEff.config | 176 GRCh37.75.genome : Human genome GRCh37 using transcripts
182 GRCh37.87.genome : Human genome GRCh37 using transcripts
188 GRCh37.p13.RefSeq.genome : Human genome GRCh37 using RefSeq transcripts
194 GRCh38.p13.RefSeq.genome : Human genome GRCh38 using RefSeq transcripts
200 mm9.genome : Mouse
201 mm10.genome : Mouse
350 test_zzz.genome: Test Zzz
369 UMD3.1.75.genome : Bos_taurus
385 Zv9.75.genome : Danio_rerio
648 ARS1.99.genome : Capra_hircus
[all …]
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