Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 197 of 199
Found at i:62209151 original size:18 final size:17
Alignment explanation
Indices: 62209124--62209168 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
62209114 AAAAAAATCG
* *
62209124 TGTTTTAAAAATTTTCA
1 TGTTTCAAAAATTCTCA
*
62209141 TGTCTTCAAAAATTCTCG
1 TGT-TTCAAAAATTCTCA
62209159 TGTTTCAAAA
1 TGTTTCAAAA
62209169 TAATAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (17 bp):
TGTTTCAAAAATTCTCA
Found at i:62209283 original size:35 final size:35
Alignment explanation
Indices: 62209243--62209322 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
62209233 TATTATTGTG
*
62209243 TTTCAAAAATTATCGTGAATAAAAAAATTTCGTGT
1 TTTCAAAAATTACCGTGAATAAAAAAATTTCGTGT
* ** *
62209278 TTTCAAAAATTCCCGTGTTTAAAAAATTTTCGTGT
1 TTTCAAAAATTACCGTGAATAAAAAAATTTCGTGT
62209313 TTTCACAAAA
1 TTTCA-AAAA
62209323 AATTCTCGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 35 0.90
36 4 0.10
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (35 bp):
TTTCAAAAATTACCGTGAATAAAAAAATTTCGTGT
Found at i:62209285 original size:18 final size:18
Alignment explanation
Indices: 62209240--62209349 Score: 93
Period size: 17 Copynumber: 6.1 Consensus size: 18
62209230 GAATATTATT
*
62209240 GTGTTTC-AAAAATTATC
1 GTGTTTCAAAAAATTCTC
** *
62209257 GTGAATAAAAAAATT-TC
1 GTGTTTCAAAAAATTCTC
*
62209274 GTGTTTTC-AAAAATTCCC
1 GTG-TTTCAAAAAATTCTC
*
62209292 GTGTTT-AAAAAATTTTC
1 GTGTTTCAAAAAATTCTC
62209309 GTGTTTTCACAAAAAATTCTC
1 GTG-TTT--CAAAAAATTCTC
*
62209330 GTGTTTCAAAAAACTCTC
1 GTGTTTCAAAAAATTCTC
62209348 GT
1 GT
62209350 AAATATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
17 30 0.41
18 28 0.38
20 3 0.04
21 13 0.18
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
GTGTTTCAAAAAATTCTC
Found at i:62209439 original size:17 final size:18
Alignment explanation
Indices: 62209401--62209450 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
62209391 GTGTTTGACG
* *
62209401 AATTTTCGTGTTTCCAAA
1 AATTTTCATGTTTTCAAA
62209419 AATTTTCATGTTTTC-AA
1 AATTTTCATGTTTTCAAA
62209436 AATTTTCATGTTTTC
1 AATTTTCATGTTTTC
62209451 GTGTTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.52
Consensus pattern (18 bp):
AATTTTCATGTTTTCAAA
Found at i:62209458 original size:80 final size:80
Alignment explanation
Indices: 62209364--62209529 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 80
62209354 ATTTTTTTGG
* * ** * *
62209364 TGTTATCGTGTTTTCAAAAAAATTCCCGTGTTTGACGAATTTTCGTGTTTCCAAAAA-TTTTCAT
1 TGTTTTCGTGTTTTCAAAAAAATTCCCGTGTTTCAAAAAATTTCGTATTT-CAAAAATTTTTCAT
62209428 GTTTTCAAAATTTTCA
65 GTTTTCAAAATTTTCA
** *
62209444 TGTTTTCGTGTTTTCAAAAAAATTCTGGTGTTTCAAAAAATTTCGTATTTGAAAAATTTTTCATG
1 TGTTTTCGTGTTTTCAAAAAAATTCCCGTGTTTCAAAAAATTTCGTATTTCAAAAATTTTTCATG
*
62209509 TTTTCAAAATTTTCG
66 TTTTCAAAATTTTCA
62209524 TGTTTT
1 TGTTTT
62209530 AAATTTTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.48
Consensus pattern (80 bp):
TGTTTTCGTGTTTTCAAAAAAATTCCCGTGTTTCAAAAAATTTCGTATTTCAAAAATTTTTCATG
TTTTCAAAATTTTCA
Found at i:62209527 original size:17 final size:17
Alignment explanation
Indices: 62209446--62209606 Score: 76
Period size: 17 Copynumber: 9.0 Consensus size: 17
62209436 AATTTTCATG
62209446 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTC-AAAA
**
62209464 AATTC-TGGTGTTTCAAAAA
1 TTTTCGT-GT-TTTC-AAAA
* * **
62209483 ATTTCGTATTTGAAAAA
1 TTTTCGTGTTTTCAAAA
*
62209500 TTTTTCATGTTTTCAAAA
1 -TTTTCGTGTTTTCAAAA
*
62209518 TTTTCGTGTTTT-AAATTTT
1 TTTTCGTGTTTTCAAA---A
62209537 TTTTCGTGTTATT-AAAA
1 TTTTCGTGTT-TTCAAAA
* * * *
62209554 TTCTCATGTATTGAAAA
1 TTTTCGTGTTTTCAAAA
62209571 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTC-AAAA
**
62209589 AATTCTGTGTTTTCAAAA
1 TTTTC-GTGTTTTCAAAA
62209607 AAAAATTCGT
Statistics
Matches: 109, Mismatches: 23, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
16 5 0.05
17 36 0.33
18 30 0.28
19 32 0.29
20 6 0.06
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.49
Consensus pattern (17 bp):
TTTTCGTGTTTTCAAAA
Found at i:62209592 original size:20 final size:20
Alignment explanation
Indices: 62209567--62209646 Score: 101
Period size: 19 Copynumber: 4.1 Consensus size: 20
62209557 TCATGTATTG
62209567 AAAATTTTCGTGTTTTCAAA
1 AAAATTTTCGTGTTTTCAAA
*
62209587 AAAATTCT-GTGTTTTCAAA
1 AAAATTTTCGTGTTTTCAAA
** *
62209606 AAAAAATTCGTG-TTTCAAT
1 AAAATTTTCGTGTTTTCAAA
*
62209625 AAAATCTTCGTGTTTTCAAA
1 AAAATTTTCGTGTTTTCAAA
62209645 AA
1 AA
62209647 TTATTATTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 32 0.64
20 18 0.36
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAATTTTCGTGTTTTCAAA
Found at i:62214333 original size:24 final size:23
Alignment explanation
Indices: 62214291--62214338 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
62214281 ATTTTTTTAT
* *
62214291 ATATAAAGAAATACTAAAATGAAA
1 ATATAAAGAAAAAC-AAAAAGAAA
*
62214315 ATATAAAGAAAAAGAAAAAGAAA
1 ATATAAAGAAAAACAAAAAGAAA
62214338 A
1 A
62214339 CATCATTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (23 bp):
ATATAAAGAAAAACAAAAAGAAA
Found at i:62217102 original size:2 final size:2
Alignment explanation
Indices: 62217097--62217122 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62217087 AAAGAGCGCG
62217097 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
62217123 TATATCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:62222141 original size:86 final size:86
Alignment explanation
Indices: 62221996--62222165 Score: 286
Period size: 86 Copynumber: 2.0 Consensus size: 86
62221986 TTAAGCCTAT
* *
62221996 GAGCATCAAATATATGATCAATGTTTTTTACGAGACCTTGGCATCTGTGAGTGTTGAAGTTTAAT
1 GAGCATCAAATATATAATCAATGTTTTTTACGAGACCTTGGCATCTGTGAGTGTTGAAGTTTAAC
*
62222061 CCGTGCACATAATCTTAGTAC
66 CCGTACACATAATCTTAGTAC
* *
62222082 GAGCATCAAATATGTAATCAATGTTTTTTACTAGACCTTGGCATCTGTGAGTGTTGAAGTTTAAC
1 GAGCATCAAATATATAATCAATGTTTTTTACGAGACCTTGGCATCTGTGAGTGTTGAAGTTTAAC
*
62222147 CCGTACACATATTCTTAGT
66 CCGTACACATAATCTTAGT
62222166 GTTCTCAAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (86 bp):
GAGCATCAAATATATAATCAATGTTTTTTACGAGACCTTGGCATCTGTGAGTGTTGAAGTTTAAC
CCGTACACATAATCTTAGTAC
Found at i:62230932 original size:23 final size:23
Alignment explanation
Indices: 62230906--62230981 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
62230896 CATAAGTGCA
62230906 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
62230929 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
62230952 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
62230975 CACTGAT
1 CACTGAT
62230982 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:62231232 original size:18 final size:17
Alignment explanation
Indices: 62231206--62231244 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
62231196 ATTTTCCTTC
62231206 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
62231223 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
62231241 CACA
1 CACA
62231245 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:62234415 original size:50 final size:50
Alignment explanation
Indices: 62234300--62234498 Score: 245
Period size: 50 Copynumber: 3.8 Consensus size: 50
62234290 GATAATAACA
* ** *
62234300 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
62234351 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
62234401 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* * *
62234456 ATTCCAATGCCATGTCCCAGAAATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
62234499 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
50 50 0.39
51 34 0.26
53 5 0.04
55 2 0.02
56 38 0.29
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:62237934 original size:19 final size:18
Alignment explanation
Indices: 62237912--62237952 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
62237902 ATTTGTTTGT
62237912 AAAGTTAAAATATTGCACC
1 AAAGTT-AAATATTGCACC
62237931 AAAG-TAAATATTGCACC
1 AAAGTTAAATATTGCACC
62237948 AAAGT
1 AAAGT
62237953 AGGGCTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 16 0.76
18 1 0.05
19 4 0.19
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (18 bp):
AAAGTTAAATATTGCACC
Found at i:62237941 original size:17 final size:17
Alignment explanation
Indices: 62237919--62237953 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
62237909 TGTAAAGTTA
62237919 AAATATTGCACCAAAGT
1 AAATATTGCACCAAAGT
62237936 AAATATTGCACCAAAGT
1 AAATATTGCACCAAAGT
62237953 A
1 A
62237954 GGGCTGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (17 bp):
AAATATTGCACCAAAGT
Found at i:62238879 original size:29 final size:28
Alignment explanation
Indices: 62238825--62238879 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
62238815 GTATTGCGAT
* ** *
62238825 ATATAAAAATATGTATGTGAATTATAAA
1 ATATAAAAATATGTAAGAAAAATATAAA
62238853 ATATAGAAAATATGTAAGAAAAATATA
1 ATATA-AAAATATGTAAGAAAAATATA
62238880 GATTTTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 5 0.23
29 17 0.77
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (28 bp):
ATATAAAAATATGTAAGAAAAATATAAA
Found at i:62239233 original size:18 final size:18
Alignment explanation
Indices: 62239212--62239273 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
62239202 ATATATAGAT
62239212 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
62239230 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
62239249 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
62239264 ATA-ATAATAA
1 ATATATAATAA
62239274 TAATAATAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:62239264 original size:35 final size:33
Alignment explanation
Indices: 62239209--62239273 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
62239199 GAGATATATA
62239209 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
62239244 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
62239274 TAATAATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:62240564 original size:15 final size:16
Alignment explanation
Indices: 62240538--62240567 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62240528 TAGTGTTTAG
62240538 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
62240554 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
62240568 CTTTTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:62241389 original size:44 final size:43
Alignment explanation
Indices: 62241331--62241748 Score: 248
Period size: 44 Copynumber: 9.7 Consensus size: 43
62241321 ACTTGATGCG
* * * *
62241331 ATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTT-CTTTA
* * * ** * **
62241375 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTTCTTTA
* * **
62241418 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATC-CTTTCTTTA
*
62241462 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCT----TTCTTTA
* * * ** * *
62241508 GTCTGTTCCACTGTAATCTCAGGGA-ATAAGA-CC-TGATGTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTTCTTTA
* * * *
62241548 ATCTTCTCTACTGTAACTTCAGAGAGATAAGAT-C---CTTTA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTTCTTTA
* * * * * * * *
62241587 ATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA-TCCTTTCTTTA
* * * *
62241631 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-C-TGCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTTCTTTA
* *
62241672 ATCTGCTCCGCTGTAACCTCA-GGAGATAAGAT-CTGAAATTCTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCT----TTCTTTA
* * *
62241717 GTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA
62241749 CCTGTATAAT
Statistics
Matches: 285, Mismatches: 70, Indels: 36
0.73 0.18 0.09
Matches are distributed among these distances:
39 25 0.09
40 35 0.12
41 31 0.11
42 3 0.01
43 31 0.11
44 96 0.34
45 28 0.10
46 36 0.13
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCTTTCTTTA
Found at i:62241577 original size:86 final size:90
Alignment explanation
Indices: 62241419--62241581 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 90
62241409 GTGTCTTCGA
* * *
62241419 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTTAATCTGCTCCACTGTAACCTCAG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGATGTAATCTGCTCCACTGTAACCTCAG
*
62241484 GGAGATAAGATCTGAAATTCTTTGG
66 AGAGATAAGATCTGAAATTCTTTGG
* * * * *
62241509 TCTGTTCCACTGTAATCTCAGGGA-ATAAGA-C-CT-GATGTGATCTTCTCTACTGTAACTTCAG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGATGTAATCTGCTCCACTGTAACCTCAG
62241570 AGAGATAAGATC
66 AGAGATAAGATC
62241582 CTTTAATCCG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 33 0.52
87 2 0.03
88 1 0.02
89 6 0.09
90 22 0.34
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (90 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGATGTAATCTGCTCCACTGTAACCTCAG
AGAGATAAGATCTGAAATTCTTTGG
Found at i:62253805 original size:29 final size:28
Alignment explanation
Indices: 62253751--62253805 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
62253741 GTATTGCGAT
* ** *
62253751 ATATAAAAATATGTATGTGAATTATAAA
1 ATATAAAAATATGTAAGAAAAATATAAA
62253779 ATATAGAAAATATGTAAGAAAAATATA
1 ATATA-AAAATATGTAAGAAAAATATA
62253806 GATTTTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 5 0.23
29 17 0.77
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (28 bp):
ATATAAAAATATGTAAGAAAAATATAAA
Found at i:62254159 original size:18 final size:18
Alignment explanation
Indices: 62254138--62254199 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
62254128 ATATATAGAT
62254138 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
62254156 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
62254175 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
62254190 ATA-ATAATAA
1 ATATATAATAA
62254200 TAATAATAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:62254190 original size:35 final size:33
Alignment explanation
Indices: 62254135--62254199 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
62254125 GAGATATATA
62254135 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
62254170 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
62254200 TAATAATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:62255486 original size:15 final size:16
Alignment explanation
Indices: 62255460--62255489 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62255450 TAGTGTTTAG
62255460 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
62255476 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
62255490 CTTTTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:62255965 original size:22 final size:22
Alignment explanation
Indices: 62255922--62255965 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
62255912 TTAATATGAT
**
62255922 ATAAAAAAAAAGCCATACAAAA
1 ATAAAAAAAAAGAAATACAAAA
62255944 ATAAAATAAAAAGAAATA-AAAA
1 ATAAAA-AAAAAGAAATACAAAA
62255966 GAATTTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (22 bp):
ATAAAAAAAAAGAAATACAAAA
Found at i:62259620 original size:28 final size:29
Alignment explanation
Indices: 62259558--62259620 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
62259548 TAAACCAAAA
* **
62259558 TATATTTTTATTTAATATATAATTTATTT
1 TATATTTTTATTTAATATAAAATAAATTT
62259587 TA-ATTTTTA-TT-ATATAAAATAAATATT
1 TATATTTTTATTTAATATAAAATAAAT-TT
62259614 TATATTT
1 TATATTT
62259621 AAATTAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 10 0.34
27 6 0.21
28 11 0.38
29 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TATATTTTTATTTAATATAAAATAAATTT
Found at i:62263450 original size:23 final size:23
Alignment explanation
Indices: 62263424--62263489 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
62263414 TACACCAAAC
62263424 CAAATTTTATGTATTAAATTAGA
1 CAAATTTTATGTATTAAATTAGA
62263447 CAAATTTTATGTATTAAATTAGA
1 CAAATTTTATGTATTAAATTAGA
*
62263470 CAATTTTTGATGTA-TAAATT
1 CAAATTTT-ATGTATTAAATT
62263490 TAATAATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
23 36 0.88
24 5 0.12
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (23 bp):
CAAATTTTATGTATTAAATTAGA
Found at i:62263789 original size:31 final size:32
Alignment explanation
Indices: 62263754--62263814 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
62263744 TTGGTACATG
*
62263754 TACTTTCATAA-AATATCCAATGTGATACTTA
1 TACTTTCAAAAGAATATCCAATGTGATACTTA
* *
62263785 TACTTTGAAAATGAATGTCCAATGTGATAC
1 TACTTTCAAAA-GAATATCCAATGTGATAC
62263815 ATGAACTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 9 0.36
33 16 0.64
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (32 bp):
TACTTTCAAAAGAATATCCAATGTGATACTTA
Found at i:62263883 original size:31 final size:31
Alignment explanation
Indices: 62263745--62263886 Score: 79
Period size: 31 Copynumber: 4.5 Consensus size: 31
62263735 ATGTCACATT
*
62263745 TGGTACATGTACTTTCATAAAATATCCAATG
1 TGGTACATGTACTTTCATAAAATTTCCAATG
* * * * * *
62263776 TGATACTTATACTTTGAAAATGAATGTCCAATG
1 TGGTACATGTACTTTCATAA--AATTTCCAATG
* * * * ** * *
62263809 TGATACATGAACTATCA-AAATGTGTTTTATTA
1 TGGTACATGTACTTTCATAAA-AT-TTCCAATG
* * *
62263841 TGGTGCTTGTACTTTCATAAAATTTTCAATG
1 TGGTACATGTACTTTCATAAAATTTCCAATG
62263872 TGGTACATGTACTTT
1 TGGTACATGTACTTT
62263887 GAAAATATCT
Statistics
Matches: 78, Mismatches: 28, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
30 1 0.01
31 34 0.44
32 18 0.23
33 25 0.32
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (31 bp):
TGGTACATGTACTTTCATAAAATTTCCAATG
Found at i:62268768 original size:4 final size:4
Alignment explanation
Indices: 62268759--62268796 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
62268749 ATATGTGAAA
* *
62268759 AAAT AAAT AAGT -AAT AAAT AAAT AACT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
62268797 ATGAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:62268779 original size:15 final size:16
Alignment explanation
Indices: 62268759--62268796 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
62268749 ATATGTGAAA
*
62268759 AAATAAATAAGT-AAT
1 AAATAAATAACTAAAT
62268774 AAATAAATAACTAAAT
1 AAATAAATAACTAAAT
62268790 AAATAAA
1 AAATAAA
62268797 ATGAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAATAAATAACTAAAT
Found at i:62268790 original size:12 final size:11
Alignment explanation
Indices: 62268760--62268795 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
62268750 TATGTGAAAA
*
62268760 AATAAATAAGT
1 AATAAATAAAT
62268771 AATAAATAAAT
1 AATAAATAAAT
62268782 AACTAAATAAAT
1 AA-TAAATAAAT
62268794 AA
1 AA
62268796 AATGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:62278369 original size:13 final size:13
Alignment explanation
Indices: 62278351--62278389 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
62278341 GAAATGCTCT
*
62278351 AAACCTAAATGCC
1 AAACCTAAATGAC
62278364 AAACCTAAATGAC
1 AAACCTAAATGAC
62278377 -AACCTCAAATGAC
1 AAACCT-AAATGAC
62278390 TTAGACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.49, C:0.28, G:0.08, T:0.15
Consensus pattern (13 bp):
AAACCTAAATGAC
Found at i:62278647 original size:16 final size:16
Alignment explanation
Indices: 62278626--62278660 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
62278616 GAAATACATT
*
62278626 AAACTTGGAATGATTC
1 AAACTTGGAATGACTC
*
62278642 AAACTTGTAATGACTC
1 AAACTTGGAATGACTC
62278658 AAA
1 AAA
62278661 GAATTTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (16 bp):
AAACTTGGAATGACTC
Found at i:62279679 original size:4 final size:4
Alignment explanation
Indices: 62279670--62279708 Score: 51
Period size: 4 Copynumber: 9.0 Consensus size: 4
62279660 GTAGTTTTGC
62279670 TTAT TTAT TTAT TTAT TTAT TTAT GGTTAT TTCAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT --TTAT TT-AT TTAT
62279709 AAAGCTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 24 0.75
5 4 0.12
6 4 0.12
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:62284926 original size:5 final size:5
Alignment explanation
Indices: 62284916--62284946 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
62284906 TGAGCATTCG
62284916 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
62284947 AATTTTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:62285895 original size:30 final size:31
Alignment explanation
Indices: 62285854--62285914 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
62285844 GGGTTGGGAG
*
62285854 GGGAGAGGAGTAAAAGTTTTGGGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
62285885 GGGA-AGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
62285915 AAAAAGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:62285980 original size:9 final size:9
Alignment explanation
Indices: 62285963--62285999 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
62285953 TATAGTTTGA
62285963 TATTCGAAT
1 TATTCGAAT
*
62285972 TATTTGAAT
1 TATTCGAAT
*
62285981 TATTCGAGT
1 TATTCGAAT
62285990 TATTCGAAT
1 TATTCGAAT
62285999 T
1 T
62286000 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:62296441 original size:22 final size:22
Alignment explanation
Indices: 62296411--62296453 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
62296401 CTAGTACCGA
*
62296411 GGCTTATAGTTTAGGAAACTTG
1 GGCTCATAGTTTAGGAAACTTG
*
62296433 GGCTCATAGTTTAGGGAACTT
1 GGCTCATAGTTTAGGAAACTT
62296454 TAAGTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.35
Consensus pattern (22 bp):
GGCTCATAGTTTAGGAAACTTG
Found at i:62296471 original size:82 final size:82
Alignment explanation
Indices: 62296329--62296497 Score: 250
Period size: 82 Copynumber: 2.1 Consensus size: 82
62296319 TTGGAACTTG
*
62296329 GGCTCATAGTTTAGGAATCTCAGGGTCATAGTTTAGGAAACTCTAAGCAATAAGTTAAATCCAAA
1 GGCTCATAGTTTAGGAAACTCAGGGTCATAGTTTAGGAAACTCTAAGCAATAAGTTAAATCCAAA
62296394 CTATGCACTAGTACCGA
66 CTATGCACTAGTACCGA
* * * * *
62296411 GGCTTATAGTTTAGGAAACT-TGGGCTCATAGTTTAGGGAACTTTAAGTAATAAGTTAAATCCAA
1 GGCTCATAGTTTAGGAAACTCAGGG-TCATAGTTTAGGAAACTCTAAGCAATAAGTTAAATCCAA
* *
62296475 ATTATGCACTAGTACTGA
65 ACTATGCACTAGTACCGA
62296493 GGCTC
1 GGCTC
62296498 CAAGTCACTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 3 0.04
82 74 0.96
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (82 bp):
GGCTCATAGTTTAGGAAACTCAGGGTCATAGTTTAGGAAACTCTAAGCAATAAGTTAAATCCAAA
CTATGCACTAGTACCGA
Found at i:62298068 original size:63 final size:63
Alignment explanation
Indices: 62297991--62298120 Score: 251
Period size: 63 Copynumber: 2.1 Consensus size: 63
62297981 AGTTTACCTG
62297991 CAGCCCCGTCTCACTATCCATCATCCTATCAAGGTTCCGAGACTCCTTACAATCCTCCACAGT
1 CAGCCCCGTCTCACTATCCATCATCCTATCAAGGTTCCGAGACTCCTTACAATCCTCCACAGT
*
62298054 CAGCCCCGTCTCACTATCCATCATCCTATCAAGGTTCCGAGACTCCTTACAATCCTCCCCAGT
1 CAGCCCCGTCTCACTATCCATCATCCTATCAAGGTTCCGAGACTCCTTACAATCCTCCACAGT
62298117 CAGC
1 CAGC
62298121 TCCTCCGACA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.23, C:0.41, G:0.12, T:0.25
Consensus pattern (63 bp):
CAGCCCCGTCTCACTATCCATCATCCTATCAAGGTTCCGAGACTCCTTACAATCCTCCACAGT
Found at i:62298637 original size:5 final size:5
Alignment explanation
Indices: 62298627--62298653 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
62298617 TTTAGACTTG
62298627 TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TT
62298654 GATCATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTAAT
Found at i:62300027 original size:4 final size:4
Alignment explanation
Indices: 62300018--62300044 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
62300008 GTAGAAGAAG
62300018 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
62300045 TATGAAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:62300320 original size:29 final size:30
Alignment explanation
Indices: 62300282--62300340 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
62300272 CTTTGTTTTG
62300282 TTAATGCACTTCAATGCCACTCTGTTCTGA
1 TTAATGCACTTCAATGCCACTCTGTTCTGA
* * *
62300312 TTAA-GCACTTCAGTGCTATTCTGTTCTGA
1 TTAATGCACTTCAATGCCACTCTGTTCTGA
62300341 CATTCCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (30 bp):
TTAATGCACTTCAATGCCACTCTGTTCTGA
Found at i:62303435 original size:33 final size:33
Alignment explanation
Indices: 62303397--62303462 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
62303387 CAACATTCTC
62303397 GTAAATAATTCTTAACTCAACCTATTTTAGTAA
1 GTAAATAATTCTTAACTCAACCTATTTTAGTAA
* * * * *
62303430 GTAAATAATTTTTATCTTAATCTATTTTCGTAA
1 GTAAATAATTCTTAACTCAACCTATTTTAGTAA
62303463 ATATATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (33 bp):
GTAAATAATTCTTAACTCAACCTATTTTAGTAA
Found at i:62304276 original size:18 final size:20
Alignment explanation
Indices: 62304233--62304276 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
62304223 ATATCATACT
*
62304233 TAATTTTTTGTATTTGTTAA
1 TAATTTTTTATATTTGTTAA
62304253 -AA-TTTTTATA-TT-TTAA
1 TAATTTTTTATATTTGTTAA
62304269 TAATTTTT
1 TAATTTTT
62304277 CGGTGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.19
17 4 0.19
18 11 0.52
19 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TAATTTTTTATATTTGTTAA
Found at i:62310107 original size:161 final size:162
Alignment explanation
Indices: 62309042--62310161 Score: 1467
Period size: 162 Copynumber: 7.0 Consensus size: 162
62309032 TTTTTGTGCT
** * * * *
62309042 ATGGTTGTTTACTCTGAA-TTGGAATGAACCTTATCTTTTTGGTTAGGAGATCGGTGTTCGTCGG
1 ATGGTTGTTTACTCTGAACTT-GAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGG
* * * * *
62309106 -AACCGATATTCTCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTTTCGTCTCGAGACTAAGG
65 AAACCGATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGG
*
62309170 AAGTTCACTTTTGTTTGATTGTCATCTCCTCCC
130 AAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* ** *
62309203 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTTGATAGGAGATCAGTGTTCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
* * * * *
62309268 AACCAATATTCCTGGATTTTCGTCGTGATTTAGTATAGCTTGGTTTATCATCTAGAGACTAAGGA
66 AACCGATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
* *
62309333 AGTCCACTTTTGTTTGATTGTGATCTCCTGCC
131 AGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* *
62309365 ATGGTTGTTTACTCTCAACTTGAATGAACCTTATCGA-TT---T--G-GATTGGTGATCCTCAGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
* * * * *
62309423 AACCAATATTCCCAGATTTTCATCTTGA-TTAGTACATAGCTTGGTTTATCATCTAGAGACCAGG
66 AACCGATATTCCCGGATTTTCATCGTGATTTAGT--ATAGCTTGGTTTGTCATCTAGAGACTAGG
62309487 GAAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
129 GAAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* * *
62309521 ATGGTTGTTTACACTGAACTTGAATAAACCTTATCGATTTTGATAGGAGATTGGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
* * * *
62309586 AACCGGTATTCCCGGATTTTTATTGTGATTCAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
66 AACCGATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
62309651 AGTTCACTTTTGTTTGATTGTCATCTCCTGCC
131 AGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* * * * **
62309683 ATGTTTGTTTACTCTAAACTTGAATGAACCTT-TCAATTTGGATTGGAGATCAGTGATCCTCGGA
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
* * * * *
62309747 AACAGATATT-CCTGATTTCTCATCGTGATTTAGTGTAGCTTCGTTTGGCATCTAGAGACTA-GG
66 AACCGATATTCCCGGATTT-TCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGG
*
62309810 AAGTTCACTTTTGTTTGATTGTCGTCTCCTGCC
130 AAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* * *
62309843 ATTGTTGTTTACT-TGAACTTGAATGAACCTTATC-AGTTTGGATAGGAGAATGGTGATCTTC--
1 ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGA-TTTGGATAGGAGATTGGTGATCCTCGG
* *
62309904 --A--GATATTCCTGGATTTTCATCGTGATTTAGTATAGTTTGGTTTGTCATCTAGAGACTAGGG
65 AAACCGATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGG
*
62309965 AAGTT-ACTTTTGTTTGATTATCATCTCCTGCC
130 AAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
* *
62309997 ATGGTT-TTATACTCTCAACTTGAATGAACCTTATTGATTTGGATAGGAGATTGGTGATCCTCGG
1 ATGGTTGTT-TACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGG
* * *
62310061 AAACTGATATTCCCGGATTTTCATCATGATTTAGTATAGCTTGGTTTGTTATCTAGAGACTAGGG
65 AAACCGATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGG
* *
62310126 AAGTTCACTTTTGTTTGATTATCATCTCCTTCC
130 AAGTTCACTTTTGTTTGATTGTCATCTCCTGCC
62310159 ATG
1 ATG
62310162 ATACCCTATA
Statistics
Matches: 845, Mismatches: 87, Indels: 53
0.86 0.09 0.05
Matches are distributed among these distances:
153 2 0.00
154 83 0.10
155 92 0.11
156 96 0.11
157 2 0.00
158 1 0.00
159 19 0.02
160 75 0.09
161 189 0.22
162 244 0.29
163 38 0.04
164 4 0.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (162 bp):
ATGGTTGTTTACTCTGAACTTGAATGAACCTTATCGATTTGGATAGGAGATTGGTGATCCTCGGA
AACCGATATTCCCGGATTTTCATCGTGATTTAGTATAGCTTGGTTTGTCATCTAGAGACTAGGGA
AGTTCACTTTTGTTTGATTGTCATCTCCTGCC
Found at i:62310327 original size:61 final size:62
Alignment explanation
Indices: 62310256--62310383 Score: 249
Period size: 61 Copynumber: 2.1 Consensus size: 62
62310246 CAGCAACTGT
62310256 CTGTTGTTGGATGATGTAAGTTTATGTTTAGTTTCATATATGTATGCACAAACACATACATA
1 CTGTTGTTGGATGATGTAAGTTTATGTTTAGTTTCATATATGTATGCACAAACACATACATA
62310318 -TGTTGTTGGATGATGTAAGTTTATGTTTAGTTTCATATATGTATGCACAAACACATACATA
1 CTGTTGTTGGATGATGTAAGTTTATGTTTAGTTTCATATATGTATGCACAAACACATACATA
62310379 CTGTT
1 CTGTT
62310384 TATACATATA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 61 0.94
62 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (62 bp):
CTGTTGTTGGATGATGTAAGTTTATGTTTAGTTTCATATATGTATGCACAAACACATACATA
Found at i:62311805 original size:62 final size:63
Alignment explanation
Indices: 62311723--62311853 Score: 173
Period size: 62 Copynumber: 2.1 Consensus size: 63
62311713 TGATGTTAAA
* *
62311723 TATAAAAAATTCAAAGAATTTA-ACTTTCAATATTTACAAAATTTGTCATTTTAGTT-TAAATTT
1 TATAAAAAATTCAAAGAATTTAGACCTT-AATATTTACAAAATTTGTCAATTTAGTTCT-AATTT
*
62311786 TATAAAAAA-TCAATA-AATTTAGCCCTTAATATTTACAAAATTTGTCAATTTAGTTCTAATTT
1 TATAAAAAATTCAA-AGAATTTAGACCTTAATATTTACAAAATTTGTCAATTTAGTTCTAATTT
62311848 TA-AAAA
1 TATAAAA
62311854 TTAAAGAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
61 4 0.06
62 44 0.71
63 14 0.23
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (63 bp):
TATAAAAAATTCAAAGAATTTAGACCTTAATATTTACAAAATTTGTCAATTTAGTTCTAATTT
Found at i:62318523 original size:61 final size:61
Alignment explanation
Indices: 62318454--62318577 Score: 144
Period size: 62 Copynumber: 2.0 Consensus size: 61
62318444 AAAAATCAAC
* * *
62318454 AAATTTAACCCTGAATA-TT-AACAAAACTTGTCATTTTAGTTCAAATTCTAAAAAATTTAAT
1 AAATTTAACCCTGAATATTTCAA-AAAAATAG-CAATTTAGTTCAAATTCTAAAAAATTTAAT
* * * *
62318515 AAATTTAACCTTTAATATTTTCAAAAAAATAGCAATTTAGTTCTAATTCTAAAAATTTTAAT
1 AAATTTAACCCTGAATA-TTTCAAAAAAATAGCAATTTAGTTCAAATTCTAAAAAATTTAAT
62318577 A
1 A
62318578 TATATATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
61 15 0.28
62 28 0.53
63 8 0.15
64 2 0.04
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (61 bp):
AAATTTAACCCTGAATATTTCAAAAAAATAGCAATTTAGTTCAAATTCTAAAAAATTTAAT
Found at i:62318960 original size:54 final size:54
Alignment explanation
Indices: 62318901--62319010 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
62318891 ATATATATAT
* * *
62318901 ATATAAAAGAAAACACATTTTTATGAAATATAAGATTTTGTTAAAAGAAAGAGC
1 ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
* * *
62318955 ATATAAAAGCATACACGTTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
1 ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
62319009 AT
1 AT
62319011 CCAATTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (54 bp):
ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
Found at i:62325055 original size:28 final size:28
Alignment explanation
Indices: 62325019--62325081 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
62325009 TTACAAAATT
62325019 ATAAAAATTAAAAAT-TAAATGAAAGTAG
1 ATAAAAATTAAAAATATAAAT-AAAGTAG
* **
62325047 ATAAGAATTTCAAATATAAATAAAGTGAG
1 ATAAAAATTAAAAATATAAATAAAGT-AG
*
62325076 AGAAAA
1 ATAAAA
62325082 TGAGGGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.24
Consensus pattern (28 bp):
ATAAAAATTAAAAATATAAATAAAGTAG
Found at i:62336549 original size:11 final size:11
Alignment explanation
Indices: 62336533--62336580 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
62336523 TACTCTTATT
62336533 AAAAATTAGAA
1 AAAAATTAGAA
* *
62336544 AAAAA-T-CAT
1 AAAAATTAGAA
62336553 AAAAA-TA-AA
1 AAAAATTAGAA
62336562 AAAAATTAGAA
1 AAAAATTAGAA
62336573 AAAAATTA
1 AAAAATTA
62336581 TTAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 13 0.42
10 3 0.10
11 15 0.48
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:62336701 original size:29 final size:28
Alignment explanation
Indices: 62336640--62336702 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
62336630 AGAAAAATCG
* **
62336640 TCAAAAAATAAAAAATTATAAAATTTTA
1 TCAAAAAATAAAAAAATATAAAATTCCA
62336668 T-AAAAATCATAAAAAAATATAAAA-TCCA
1 TCAAAAA--ATAAAAAAATATAAAATTCCA
62336696 TCAAAAA
1 TCAAAAA
62336703 GTCCTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.17
28 4 0.14
29 20 0.69
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (28 bp):
TCAAAAAATAAAAAAATATAAAATTCCA
Found at i:62336930 original size:10 final size:9
Alignment explanation
Indices: 62336902--62337026 Score: 62
Period size: 9 Copynumber: 13.4 Consensus size: 9
62336892 TTTTACAAAA
62336902 TTTATAATT
1 TTTATAATT
*
62336911 CTTTA-CATT
1 -TTTATAATT
62336920 TTGTATAATTT
1 TT-TATAA-TT
*
62336931 TCTTATAA-C
1 T-TTATAATT
*
62336940 TTTATAAAAT
1 TTTAT-AATT
62336950 TTTATAATT
1 TTTATAATT
62336959 TTT-TATATT
1 TTTATA-ATT
*
62336968 TCTAT-ATAT
1 TTTATAAT-T
62336977 TTTATAATT
1 TTTATAATT
*
62336986 TTATAAAATT
1 TT-TATAATT
*
62336996 TTTATAAAAT
1 TTTAT-AATT
*
62337006 TTTACAA-T
1 TTTATAATT
*
62337014 TTTACAATT
1 TTTATAATT
62337023 TTTA
1 TTTA
62337027 ATATTTTATT
Statistics
Matches: 91, Mismatches: 11, Indels: 27
0.71 0.09 0.21
Matches are distributed among these distances:
8 18 0.20
9 36 0.40
10 28 0.31
11 8 0.09
12 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (9 bp):
TTTATAATT
Found at i:62336958 original size:8 final size:8
Alignment explanation
Indices: 62336933--62337028 Score: 59
Period size: 8 Copynumber: 10.9 Consensus size: 8
62336923 TATAATTTTC
62336933 TTATAACTT
1 TTATAA-TT
*
62336942 TATAAAATT
1 T-TATAATT
62336951 TTATAATT
1 TTATAATT
*
62336959 TTTTATATT
1 TTATA-ATT
62336968 TCTATATATT
1 T-TATA-ATT
62336978 TTATAATT
1 TTATAATT
62336986 TTATAAAATTT
1 TTAT--AA-TT
62336997 TTATAAAATT
1 TTAT--AATT
*
62337007 TTACAATT
1 TTATAATT
*
62337015 TTACAATT
1 TTATAATT
62337023 TT-TAAT
1 TTATAAT
62337029 ATTTTATTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
7 3 0.04
8 31 0.41
9 12 0.16
10 19 0.25
11 10 0.13
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (8 bp):
TTATAATT
Found at i:62337000 original size:11 final size:11
Alignment explanation
Indices: 62336984--62337008 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62336974 TATTTTATAA
62336984 TTTTATAAAAT
1 TTTTATAAAAT
62336995 TTTTATAAAAT
1 TTTTATAAAAT
62337006 TTT
1 TTT
62337009 ACAATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTATAAAAT
Found at i:62337059 original size:28 final size:32
Alignment explanation
Indices: 62337025--62337082 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
62337015 TTACAATTTT
62337025 TAATATT-TT-ATTTT-TT-ATTATAATTTAA
1 TAATATTATTGATTTTATTGATTATAATTTAA
*
62337053 TAATATTATTGATTTTATTGATTTTAATTT
1 TAATATTATTGATTTTATTGATTATAATTT
62337083 TTTTTCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 7 0.28
29 2 0.08
30 5 0.20
31 2 0.08
32 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (32 bp):
TAATATTATTGATTTTATTGATTATAATTTAA
Found at i:62337256 original size:92 final size:91
Alignment explanation
Indices: 62337100--62337320 Score: 274
Period size: 92 Copynumber: 2.5 Consensus size: 91
62337090 AATTTTTAAT
**
62337100 AAAAGTAGGGGCTTAATT--TATTTTTT--AAAAGTTTGAGGGTGTTTTTGATGCATTTTGAAAG
1 AAAAGTAGGGGCTTAATTGCT-TTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAG
*
62337161 TTCAAGTACCCAATTGAGTGCA-AAAA
65 TTCAAGTACCCAAATGAGTGCATAAAA
* ** *
62337187 AGAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAATGTTTGAGGGCCTTTTTGGTTTATTTTGAAC
1 A-AAAGTAGGGGCTTAATTGCTTTTTTTGAAAAA-GTTTGAGGGCCTTTTTGATGCATTTTGAAA
62337252 GTTCAAGTACCCAAATGAGTGCATAAAA
64 GTTCAAGTACCCAAATGAGTGCATAAAA
* * * *
62337280 AAAA-CAGGGGTTTAGTTGCTATTTTTGAAAAAGTTTGAGGG
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGG
62337321 ATTTTTGCAC
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
87 1 0.01
88 17 0.15
89 6 0.05
90 10 0.09
91 28 0.24
92 49 0.42
93 5 0.04
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.36
Consensus pattern (91 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGT
TCAAGTACCCAAATGAGTGCATAAAA
Found at i:62345317 original size:14 final size:15
Alignment explanation
Indices: 62345291--62345319 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62345281 GTAAAAAGGG
62345291 TTAAAAATAATTTTT
1 TTAAAAATAATTTTT
62345306 TTAAAAAT-ATTTTT
1 TTAAAAATAATTTTT
62345320 ATTTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAAATAATTTTT
Found at i:62346250 original size:54 final size:54
Alignment explanation
Indices: 62346169--62346277 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
62346159 CACGTGAATT
* *
62346169 TATATAAGTATACACATTTTTATGAAATACAAGATCTTGCTAAAAGAAAAAGCA
1 TATAAAAGTATAAACATTTTTATGAAATACAAGATCTTGCTAAAAGAAAAAGCA
* *
62346223 TATAAAAGTATAAACGTTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGCA
1 TATAAAAGTATAAACATTTTTATGAAATACAAGATCTTGCTAAAAGAAAAAGCA
62346277 T
1 T
62346278 CCAATTTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (54 bp):
TATAAAAGTATAAACATTTTTATGAAATACAAGATCTTGCTAAAAGAAAAAGCA
Found at i:62350602 original size:87 final size:87
Alignment explanation
Indices: 62350468--62350728 Score: 240
Period size: 89 Copynumber: 3.0 Consensus size: 87
62350458 ATTTAAGTCC
* * * * * * * * * *
62350468 TTTTTTTCTACTCAATTGAGCACTTAAACTTTTAAAATGTATCAAAAATATCTTTACA-CTTCTT
1 TTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAA-AACCTTAAATCTTCTT
62350532 CAAAAAAAGCAATTAAACCCCT-T
65 CAAAAAAA-CAATTAAACCCCTAT
* * * *
62350555 TTTTTTTCCGCTCAATTGGGTACTTGAACTTTCATAATGCATAAAAAAAACCTTAAATTTTTTTT
1 TTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAAACCTTAAA--TCTTCT
* * *
62350620 TCAAAGAAACAATTAAGCCTCTAT
64 TCAAAAAAACAATTAAACCCCTAT
* ** * * *
62350644 TTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGGCCTT-TATTTTTTTC
1 TTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAAACCTTAAATCTTCTTC
* *
62350708 AAAAAAGCAATTAAGCCCCTA
66 AAAAAAACAATTAAACCCCTA
62350729 CTCTTATTAA
Statistics
Matches: 144, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
86 32 0.22
87 39 0.27
88 12 0.08
89 61 0.42
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (87 bp):
TTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAAACCTTAAATCTTCTTC
AAAAAAACAATTAAACCCCTAT
Found at i:62350659 original size:89 final size:85
Alignment explanation
Indices: 62350534--62350727 Score: 264
Period size: 89 Copynumber: 2.2 Consensus size: 85
62350524 CACTTCTTCA
* * *
62350534 AAAAAAGCAATTAAACCCCTTTTTTTTTCCGCTCAATTGGGTACTTGAACTTTCATAATGCATAA
1 AAAAAAGCAATTAAGCCCCTTTTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCATAA
*
62350599 AAAAAACCTTAAATTTTTTTTTC
66 AAAAAACCTT---TATTTTTTTC
*
62350622 AAAGAAA-CAATTAAGCCTCTATTTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCAT
1 AAA-AAAGCAATTAAGCCCCT-TTTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCAT
* **
62350686 CAAAAAGGCCTTTATTTTTTTC
64 AAAAAAAACCTTTATTTTTTTC
62350708 AAAAAAGCAATTAAGCCCCT
1 AAAAAAGCAATTAAGCCCCT
62350728 ACTCTTATTA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
85 3 0.03
86 24 0.26
88 14 0.15
89 53 0.56
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (85 bp):
AAAAAAGCAATTAAGCCCCTTTTTTTTCCCACTCAATTGGGTACTTGAACTTTCATAATGCATAA
AAAAAACCTTTATTTTTTTC
Found at i:62352569 original size:50 final size:50
Alignment explanation
Indices: 62352500--62352620 Score: 172
Period size: 50 Copynumber: 2.4 Consensus size: 50
62352490 GCAAGTGTGA
* ** *
62352500 AGTCAATAGACAACTGATAGTCTTAGTCTTTTTTTGTCGAGTT-AAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAG-CCCTTTTTGTCGAGTTAAAAGTAT
*
62352550 AGTCAATAGACAATTGATAGTCTTAGCCCTTTTTGTGGAGTTAAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGCCCTTTTTGTCGAGTTAAAAGTAT
*
62352600 AGTCAATAAACAATTGATAGT
1 AGTCAATAGACAATTGATAGT
62352621 TAAATTTGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 13 0.20
50 51 0.80
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (50 bp):
AGTCAATAGACAATTGATAGTCTTAGCCCTTTTTGTCGAGTTAAAAGTAT
Found at i:62356132 original size:61 final size:61
Alignment explanation
Indices: 62356012--62356135 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 61
62356002 AAATGTCTAG
* * *
62356012 TGGTACAAGTACTTTGAAATATATAATGTGGTACCTGAACTATCAATAGGTGTTATTATTA
1 TGGTACAAGTACTTTGAAATATATAATGTGGTACCTAAACTATCAATAGATATTATTATTA
* * * *
62356073 TGGTACATGTACTTTGAAAATGTTTAATGTGGTACCTAAACTATCAATATATATT-TTATTA
1 TGGTACAAGTACTTTG-AAATATATAATGTGGTACCTAAACTATCAATAGATATTATTATTA
62356134 TG
1 TG
62356136 ATACTTGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 23 0.42
62 32 0.58
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (61 bp):
TGGTACAAGTACTTTGAAATATATAATGTGGTACCTAAACTATCAATAGATATTATTATTA
Found at i:62356297 original size:30 final size:31
Alignment explanation
Indices: 62356263--62356343 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
62356253 GCCCTCAAAA
*
62356263 TTTTTGAAAATTTTCATTATA-C-CTTTTAATT
1 TTTTTGAAAATTTTCATTA-AGCACTCTTAA-T
*
62356294 TTTTTGAAAATTTTAATTAAGCACTCTTAA-
1 TTTTTGAAAATTTTCATTAAGCACTCTTAAT
* *
62356324 ATTTTGAAAATTCTCATTAA
1 TTTTTGAAAATTTTCATTAA
62356344 TCTCACAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.42
31 19 0.44
32 6 0.14
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTTTGAAAATTTTCATTAAGCACTCTTAAT
Found at i:62356297 original size:61 final size:61
Alignment explanation
Indices: 62356223--62356342 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 61
62356213 TTTGTTTTTT
* * *
62356223 CCTTTAAAATTTTTAGAAAATTTCAATTAGGCCCTC-AAAATTTTTGAAAATTTTCATTATA
1 CCTTTAAAATTTTTAGAAAATTTCAATTAAGCACTCTAAAA-TTTTGAAAATTCTCATTATA
* * * * *
62356284 CCTTTTAATTTTTTTGAAAATTTTAATTAAGCACTCTTAAATTTTGAAAATTCTCATTA
1 CCTTTAAAATTTTTAGAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTA
62356343 ATCTCACAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
61 47 0.94
62 3 0.06
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (61 bp):
CCTTTAAAATTTTTAGAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTATA
Found at i:62358058 original size:5 final size:5
Alignment explanation
Indices: 62358050--62358075 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
62358040 TGAGATGGAT
62358050 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
62358076 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:62358893 original size:30 final size:30
Alignment explanation
Indices: 62358854--62358913 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
62358844 GGGGTTGGGA
* * *
62358854 GGGAGGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAAGGAGTAAAAGTTTTGAGGGAAAAGT
62358884 GGGAAGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGAGTAAAAGTTTTGAGGGAAAAGT
62358914 AAAAAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.45, T:0.20
Consensus pattern (30 bp):
GGGAAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:62358975 original size:9 final size:9
Alignment explanation
Indices: 62358961--62358997 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
62358951 TATAGTTTGA
62358961 TATTCGAAT
1 TATTCGAAT
62358970 TATTCGAAT
1 TATTCGAAT
*
62358979 TATTCGAGT
1 TATTCGAAT
62358988 TATTCGAAT
1 TATTCGAAT
62358997 T
1 T
62358998 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:62359264 original size:30 final size:29
Alignment explanation
Indices: 62359199--62359329 Score: 124
Period size: 30 Copynumber: 4.4 Consensus size: 29
62359189 TTTTGGGGCA
* * *
62359199 AAAATGTAATTTTGAGAAAGTTT-AGGGTC
1 AAAATATAATTTT-AAAAAATTTAAGGGTC
*
62359228 -AAATATAATTTTAAAAAATATTAAGGGTT
1 AAAATATAATTTTAAAAAAT-TTAAGGGTC
62359257 AAAATATAATTTTATAAAAATTTAAGGGTC
1 AAAATATAATTTTA-AAAAATTTAAGGGTC
* * *
62359287 AAAATGA-AATTTTAGAAAAGTTCAGAGGTC
1 AAAAT-ATAATTTTAAAAAATTTAAG-GGTC
*
62359317 AAAATACAATTTT
1 AAAATATAATTTT
62359330 TAAATTTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.06
28 13 0.15
29 14 0.16
30 48 0.55
31 7 0.08
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (29 bp):
AAAATATAATTTTAAAAAATTTAAGGGTC
Found at i:62629821 original size:15 final size:16
Alignment explanation
Indices: 62629790--62629822 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62629780 GACAAAACCT
62629790 AAAATAAAATCAAATC
1 AAAATAAAATCAAATC
*
62629806 AAAATTAAAT-AAATC
1 AAAATAAAATCAAATC
62629821 AA
1 AA
62629823 TTAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAAATCAAATC
Found at i:62629853 original size:13 final size:14
Alignment explanation
Indices: 62629789--62629853 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
62629779 TGACAAAACC
62629789 TAAAATAAAATCAAA
1 TAAAATAAAAT-AAA
*
62629804 TCAAAATTAAATAAA
1 T-AAAATAAAATAAA
* *
62629819 TCAATTAAAATAAA
1 TAAAATAAAATAAA
*
62629833 T-AACTAAAATAAA
1 TAAAATAAAATAAA
62629846 -AAAATAAA
1 TAAAATAAA
62629854 TCAAAGATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.40
14 11 0.26
15 5 0.12
16 9 0.21
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAATAAAATAAA
Found at i:62632767 original size:15 final size:16
Alignment explanation
Indices: 62632747--62632783 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
62632737 ACCCATAGAA
*
62632747 TATTTTTTT-ATTTTT
1 TATTTTTTTCATATTT
62632762 TATTTTTTTCATATTT
1 TATTTTTTTCATATTT
62632778 TATTTT
1 TATTTT
62632784 ATTTTTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTTTTCATATTT
Found at i:62632770 original size:16 final size:16
Alignment explanation
Indices: 62632749--62632788 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
62632739 CCATAGAATA
*
62632749 TTTTTTTATTTTTTAT
1 TTTTTTTATATTTTAT
*
62632765 TTTTTTCATATTTTAT
1 TTTTTTTATATTTTAT
62632781 TTTATTTT
1 TTT-TTTT
62632789 TTCACTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTATATTTTAT
Found at i:62634689 original size:86 final size:88
Alignment explanation
Indices: 62634594--62634782 Score: 208
Period size: 89 Copynumber: 2.2 Consensus size: 88
62634584 AAACTTTTTA
* * * * *
62634594 AATGTATCAAAAATATCTTTA-CACTTCTT-AAAAAAAGCAATTAAATTCC-TA-TTTTTTT-CT
1 AATGCATCAAAAAGATCTTAATCACTTCTTCAAAAAAA-CAATT-AA-GCCTTATTTTTTTTCCC
*
62634654 GCTCAATTGGGTACTTGAACTTTCAT
63 ACTCAATTGGGTACTTGAACTTTCAT
*** * *
62634680 AATGCATCAAAAAGATCTTAATTTTTTTTTCAAAGAAACAATTAAGCCTTTATTTTTTTTCCCAC
1 AATGCATCAAAAAGATCTTAATCACTTCTTCAAAAAAACAATTAAGCC-TTATTTTTTTTCCCAC
62634745 TCAATTGGGTACTTGAACTTTCAT
65 TCAATTGGGTACTTGAACTTTCAT
62634769 AATGCATCAAAAAG
1 AATGCATCAAAAAG
62634783 GCCTTAAATT
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
85 2 0.02
86 20 0.23
87 11 0.13
88 13 0.15
89 40 0.47
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (88 bp):
AATGCATCAAAAAGATCTTAATCACTTCTTCAAAAAAACAATTAAGCCTTATTTTTTTTCCCACT
CAATTGGGTACTTGAACTTTCAT
Found at i:62634953 original size:41 final size:40
Alignment explanation
Indices: 62634915--62634991 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
62634905 ATTAAAAATT
62634915 AGAAAAAAATTTTAGAAAAATCATCAAAAAAATAAAAAAAA
1 AGAAAAAAATTTTAGAAAAATCAT-AAAAAAATAAAAAAAA
** * * *
62634956 ATTATAAAATTTTATAAAAATCATAAAAATATAAAA
1 AGAAAAAAATTTTAGAAAAATCATAAAAAAATAAAA
62634992 TCCATCAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 11 0.35
41 20 0.65
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.25
Consensus pattern (40 bp):
AGAAAAAAATTTTAGAAAAATCATAAAAAAATAAAAAAAA
Found at i:62634964 original size:10 final size:10
Alignment explanation
Indices: 62634898--62634984 Score: 50
Period size: 10 Copynumber: 8.4 Consensus size: 10
62634888 ATACAAATTT
*
62634898 AAAAATTATT
1 AAAAATTATA
*
62634908 AAAAATTAGAA
1 AAAAATTA-TA
*
62634919 AAAAATTTTA
1 AAAAATTATA
*
62634929 GAAAAATCATCAA
1 -AAAAATTAT--A
* *
62634942 AAAAATAAAA
1 AAAAATTATA
62634952 AAAAATTATA
1 AAAAATTATA
**
62634962 AAATTTTAT-
1 AAAAATTATA
*
62634971 AAAAATCATA
1 AAAAATTATA
62634981 AAAA
1 AAAA
62634985 TATAAAATCC
Statistics
Matches: 57, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
9 6 0.11
10 29 0.51
11 14 0.25
12 7 0.12
13 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.26
Consensus pattern (10 bp):
AAAAATTATA
Found at i:62635273 original size:29 final size:28
Alignment explanation
Indices: 62635222--62635327 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 28
62635212 TTACATTTTG
* *
62635222 TATAATTTTCTTATGACTTTATAAAATTT
1 TATAATTTTTTTAT-AATTTATAAAATTT
* *
62635251 TATAATTTTTTTATAATTCTATATATTTT
1 TATAATTTTTTTATAATT-TATAAAATTT
* *
62635280 TAAAATTTTTTTAAAATTTTTATAAAATTT
1 TATAATTTTTTTATAA--TTTATAAAATTT
* * *
62635310 CACAATTTTTATA-AATTT
1 TATAATTTTTTTATAATTT
62635328 TTTAATAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 3 0.05
28 3 0.05
29 37 0.59
30 18 0.29
31 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.58
Consensus pattern (28 bp):
TATAATTTTTTTATAATTTATAAAATTT
Found at i:62635292 original size:11 final size:11
Alignment explanation
Indices: 62635276--62635309 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
62635266 ATTCTATATA
62635276 TTTTTAAAATT
1 TTTTTAAAATT
62635287 TTTTTAAAATT
1 TTTTTAAAATT
*
62635298 TTTATAAAATT
1 TTTTTAAAATT
62635309 T
1 T
62635310 CACAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:62635292 original size:40 final size:40
Alignment explanation
Indices: 62635248--62635341 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
62635238 CTTTATAAAA
* *
62635248 TTTTATAATTTTTTTATAA-TTCTATATATTTTTA-AAATTT
1 TTTTATAATTTTTTTAAAATTTC-ACA-ATTTTTATAAATTT
* *
62635288 TTTTAAAATTTTTATAAAATTTCACAATTTTTATAAATTT
1 TTTTATAATTTTTTTAAAATTTCACAATTTTTATAAATTT
* *
62635328 TTTAATAAATTTTT
1 TTTTATAATTTTTT
62635342 AATATTTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
39 7 0.16
40 34 0.77
41 3 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTATAATTTTTTTAAAATTTCACAATTTTTATAAATTT
Found at i:62635331 original size:11 final size:10
Alignment explanation
Indices: 62635239--62635342 Score: 72
Period size: 10 Copynumber: 10.4 Consensus size: 10
62635229 TTCTTATGAC
*
62635239 TTTATAAAAT
1 TTTATAAATT
62635249 TTTAT-AATT
1 TTTATAAATT
*
62635258 TTTTTATAA-T
1 TTTATA-AATT
* *
62635268 TCTATATATT
1 TTTATAAATT
62635278 TTTA-AAATT
1 TTTATAAATT
*
62635287 TTTTTAAAATT
1 TTTAT-AAATT
*
62635298 TTTATAAAAT
1 TTTATAAATT
* *
62635308 TTCA-CAATT
1 TTTATAAATT
62635317 TTTATAAATTT
1 TTTATAAA-TT
62635328 TTTAATAAATT
1 TTT-ATAAATT
62635339 TTTA
1 TTTA
62635343 ATATTTGAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
9 21 0.30
10 24 0.34
11 21 0.30
12 5 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTATAAATT
Found at i:62635339 original size:30 final size:30
Alignment explanation
Indices: 62635239--62635336 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
62635229 TTCTTATGAC
* * * *
62635239 TTTATAAAATTTTATAATTTTTTTATAA-T
1 TTTATAAAATTTCACAATTTTTATAAAATT
* * * * * *
62635268 TCTATATATTTTTAAAATTTTTTTAAAATT
1 TTTATAAAATTTCACAATTTTTATAAAATT
*
62635298 TTTATAAAATTTCACAATTTTTATAAATTT
1 TTTATAAAATTTCACAATTTTTATAAAATT
62635328 TTTAATAAA
1 TTT-ATAAA
62635337 TTTTTAATAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 23 0.42
30 27 0.49
31 5 0.09
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTATAAAATTTCACAATTTTTATAAAATT
Found at i:62635343 original size:11 final size:11
Alignment explanation
Indices: 62635313--62635345 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
62635303 AAAATTTCAC
62635313 AATTTTT-ATA
1 AATTTTTAATA
62635323 AATTTTTTAATA
1 AA-TTTTTAATA
62635335 AATTTTTAATA
1 AATTTTTAATA
62635346 TTTGAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.10
11 14 0.67
12 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTTTTAATA
Found at i:62640987 original size:32 final size:29
Alignment explanation
Indices: 62640921--62640987 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
62640911 GATAGTTCAC
*
62640921 GTACCACATTAGACATTTTTAAAGTACAA
1 GTACTACATTAGACATTTTTAAAGTACAA
* *
62640950 ATACTACATTAGACATTTTATAAAAAGTACAT
1 GTACTACATTAGACATTTT-T--AAAGTACAA
62640982 GTACTA
1 GTACTA
62640988 TGATAGAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 17 0.55
30 1 0.03
32 13 0.42
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (29 bp):
GTACTACATTAGACATTTTTAAAGTACAA
Found at i:62642208 original size:87 final size:86
Alignment explanation
Indices: 62642110--62642296 Score: 272
Period size: 88 Copynumber: 2.2 Consensus size: 86
62642100 CACTTCTTCA
* *
62642110 AAAAAAGCAATTAAA-CTCTTATTTTATTT-CGCTCAATTGGGTACTTGAACTTTCATAATGCAT
1 AAAAAAGCAATTAAACCTC-TATTTT-TTTCCACTCAATTGGGTACTTGAACTTTCATAATACAT
62642173 CAAAAAGGCCTTAAATTTTTTTTC
64 CAAAAAGGCCTTAAA-TTTTTTTC
* *
62642197 AAAGAAA-CAATTAAGCCTCTATTTTTTTCCCACTTAATTGGGTACTTGAACTTTCATAATACAT
1 AAA-AAAGCAATTAAACCTCTATTTTTTT-CCACTCAATTGGGTACTTGAACTTTCATAATACAT
62642261 CAAAAAGGCCTTAAATTTTTTTC
64 CAAAAAGGCCTTAAATTTTTTTC
62642284 AAAAAAGCAATTA
1 AAAAAAGCAATTA
62642297 TGCCCCTACT
Statistics
Matches: 91, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
86 6 0.07
87 33 0.36
88 52 0.57
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (86 bp):
AAAAAAGCAATTAAACCTCTATTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATACATCA
AAAAGGCCTTAAATTTTTTTC
Found at i:62642442 original size:10 final size:10
Alignment explanation
Indices: 62642429--62642454 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
62642419 TCGTCAAAAA
62642429 ATAAAATTTT
1 ATAAAATTTT
62642439 ATAAAATTTT
1 ATAAAATTTT
62642449 ATAAAA
1 ATAAAA
62642455 ATCATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:62642712 original size:10 final size:9
Alignment explanation
Indices: 62642684--62642808 Score: 62
Period size: 9 Copynumber: 13.4 Consensus size: 9
62642674 TTTTACAAAA
62642684 TTTATAATT
1 TTTATAATT
*
62642693 CTTTA-CATT
1 -TTTATAATT
62642702 TTGTATAATTT
1 TT-TATAA-TT
*
62642713 TCTTATAA-C
1 T-TTATAATT
*
62642722 TTTATAAAAT
1 TTTAT-AATT
62642732 TTTATAATT
1 TTTATAATT
62642741 TTT-TATATT
1 TTTATA-ATT
*
62642750 TCTAT-ATAT
1 TTTATAAT-T
62642759 TTTATAATTT
1 TTTATAA-TT
*
62642769 TTTAAAATT
1 TTTATAATT
*
62642778 TTTATAAAAT
1 TTTAT-AATT
*
62642788 TTTACAA-T
1 TTTATAATT
*
62642796 TTTACAATT
1 TTTATAATT
62642805 TTTA
1 TTTA
62642809 ATATTTTATT
Statistics
Matches: 91, Mismatches: 11, Indels: 27
0.71 0.09 0.21
Matches are distributed among these distances:
8 18 0.20
9 37 0.41
10 26 0.29
11 9 0.10
12 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTATAATT
Found at i:62642740 original size:8 final size:8
Alignment explanation
Indices: 62642715--62642823 Score: 51
Period size: 8 Copynumber: 12.5 Consensus size: 8
62642705 TATAATTTTC
62642715 TTATAACTT
1 TTATAA-TT
*
62642724 TATAAAATT
1 T-TATAATT
62642733 TTATAATT
1 TTATAATT
*
62642741 TTTTATATT
1 TTATA-ATT
62642750 TCTATATATT
1 T-TATA-ATT
62642760 TTATAATTTT
1 TTATAA--TT
*
62642770 TTAAAATTT
1 TTATAA-TT
62642779 TTATAAAATT
1 TTAT--AATT
*
62642789 TTACAATT
1 TTATAATT
*
62642797 TTACAATT
1 TTATAATT
62642805 TT-TAATAT
1 TTATAAT-T
*
62642813 TT-TATTT
1 TTATAATT
62642820 TTAT
1 TTAT
62642824 TATAATTTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
7 6 0.07
8 32 0.39
9 18 0.22
10 24 0.29
11 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATAATT
Found at i:62642780 original size:19 final size:18
Alignment explanation
Indices: 62642672--62642817 Score: 71
Period size: 19 Copynumber: 7.9 Consensus size: 18
62642662 TTATAAAATT
*
62642672 TTTTTTACAAAATTTATAA
1 TTTTTTA-AAATTTTATAA
* * *
62642691 TTCTTTACATTTTGTATAA
1 TTTTTTAAAATTT-TATAA
* *
62642710 TTTTCTTATAACTTTATAA
1 TTTT-TTAAAATTTTATAA
** * *
62642729 AATTTTATAATTTT-TTA
1 TTTTTTAAAATTTTATAA
* *
62642746 TATTTCTATATATTTTATAA
1 T-TTTTTA-AAATTTTATAA
62642766 TTTTTTAAAATTTTTATAA
1 TTTTTTAAAA-TTTTATAA
** * *
62642785 AATTTTACAATTTTACAA
1 TTTTTTAAAATTTTATAA
*
62642803 -TTTTTAATATTTTAT
1 TTTTTTAAAATTTTAT
62642818 TTTTATTATA
Statistics
Matches: 93, Mismatches: 28, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
17 13 0.14
18 25 0.27
19 46 0.49
20 9 0.10
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTTTTAAAATTTTATAA
Found at i:62643037 original size:92 final size:90
Alignment explanation
Indices: 62642881--62643100 Score: 261
Period size: 92 Copynumber: 2.5 Consensus size: 90
62642871 AATTTTTAAT
**
62642881 AAAAGTAGGGGCTTAATT--TATTTTTT--AAAAGTTTGAGGGTGTTTTTGATGCATTTTGAAAG
1 AAAAGTAGGGGCTTAATTGCT-TTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAG
*
62642942 TTCAAGTACCCAATTGAGTGCAAAAA
65 TTCAAGTACCCAAATGAGTGCAAAAA
* ** *
62642968 AGAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAATGTTTGAGGGCCTTTTTGGTTTATTTTGAAC
1 A-AAAGTAGGGGCTTAATTGCTTTTTTTGAAAAA-GTTTGAGGGCCTTTTTGATGCATTTTGAAA
**
62643033 GTTCAAGTACCCAAATGAGTGCCTAAA
64 GTTCAAGTACCCAAATGAGTGCAAAAA
* * * *
62643060 AAAA-CAGGGGTTTAGTTGCTATTTTTGAAAAAGTTTGAGGG
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGG
62643101 ATTTTTGCAC
Statistics
Matches: 114, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
87 1 0.01
88 17 0.15
89 15 0.13
90 25 0.22
91 7 0.06
92 49 0.43
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (90 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGT
TCAAGTACCCAAATGAGTGCAAAAA
Found at i:62645078 original size:51 final size:51
Alignment explanation
Indices: 62644973--62645071 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
62644963 AACCCACCCT
*
62644973 TAGTTTTAGCCTTTTTTTGTCGAGTTAAAAGTATAGTCAATAGACAATGAA
1 TAGTCTTAGCCTTTTTTTGTCGAGTTAAAAGTATAGTCAATAGACAATGAA
* *
62645024 TAGTCTTAGTCTTTTTTTGTGGAGTTAAAAGTATAGTCAATAGACAAT
1 TAGTCTTAGCCTTTTTTTGTCGAGTTAAAAGTATAGTCAATAGACAAT
62645072 TGATAGTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (51 bp):
TAGTCTTAGCCTTTTTTTGTCGAGTTAAAAGTATAGTCAATAGACAATGAA
Found at i:62645548 original size:13 final size:13
Alignment explanation
Indices: 62645532--62645556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62645522 TAAATATATA
62645532 TTTTTATTTTTAT
1 TTTTTATTTTTAT
62645545 TTTTTATTTTTA
1 TTTTTATTTTTA
62645557 AAATACTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:62645611 original size:21 final size:20
Alignment explanation
Indices: 62645574--62645613 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62645564 TTAAATATAT
*
62645574 ATTTTTTTTATTTTTAAAAG
1 ATTTTTTGTATTTTTAAAAG
*
62645594 ATTTTTTGTGTTTATTAAAA
1 ATTTTTTGTATTT-TTAAAA
62645614 ACCGGGCCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
ATTTTTTGTATTTTTAAAAG
Found at i:62648854 original size:62 final size:61
Alignment explanation
Indices: 62648779--62648903 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 61
62648769 AAATGTCTAG
* * * *
62648779 TGGTACAAGTACTTCGAAAATATATAATGTGGTACTTGAACTATCAATATGTGTTATTATTA
1 TGGTACAAGTACTTCGAAAATATATAATGTGGTACCTAAACTATCAATATATGGT-TTATTA
* * * *
62648841 TGGTACATGTACTTTGAAAATATTTAATGTGGTACCTAAACTATTAATATATGGTTTATTA
1 TGGTACAAGTACTTCGAAAATATATAATGTGGTACCTAAACTATCAATATATGGTTTATTA
62648902 TG
1 TG
62648904 ATACTTGGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 8 0.15
62 47 0.85
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (61 bp):
TGGTACAAGTACTTCGAAAATATATAATGTGGTACCTAAACTATCAATATATGGTTTATTA
Found at i:62648874 original size:29 final size:29
Alignment explanation
Indices: 62648778--62648875 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
62648768 AAAATGTCTA
* * *
62648778 GTGGTACAAGTACTTCGAAAATATATAAT
1 GTGGTACATGTACTTTGAAAATATTTAAT
* * * * * *
62648807 GTGGTACTTGAACTATCAATATGTGTTATTATT
1 GTGGTACATGTACTTTGAAAATAT-TTA--A-T
*
62648840 ATGGTACATGTACTTTGAAAATATTTAAT
1 GTGGTACATGTACTTTGAAAATATTTAAT
62648869 GTGGTAC
1 GTGGTAC
62648876 CTAAACTATT
Statistics
Matches: 48, Mismatches: 17, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
29 23 0.48
30 3 0.06
32 4 0.08
33 18 0.38
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (29 bp):
GTGGTACATGTACTTTGAAAATATTTAAT
Found at i:62649155 original size:30 final size:30
Alignment explanation
Indices: 62649113--62649189 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
62649103 TAATCTCACA
*
62649113 AAAATTTT-AAAAATTTTTATTAGACCCCT
1 AAAATTTTAAAAAATTTTTATTAAACCCCT
** * * *
62649142 AATTTTTTAAAAAAATCTTATTAAACCCTT
1 AAAATTTTAAAAAATTTTTATTAAACCCCT
62649172 AAAATTTTAGAAAAATTT
1 AAAATTTTA-AAAAATTT
62649190 ACCTGTCCCC
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
29 6 0.17
30 24 0.67
31 6 0.17
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (30 bp):
AAAATTTTAAAAAATTTTTATTAAACCCCT
Found at i:62652220 original size:20 final size:20
Alignment explanation
Indices: 62652195--62652244 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
62652185 TGGCTTAAAA
62652195 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
62652215 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
62652232 GTGGTAGTGGATT
1 TTGGTAGTGGATT
62652245 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:62656849 original size:20 final size:20
Alignment explanation
Indices: 62656824--62656873 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
62656814 TGGCTTAAAA
62656824 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
62656844 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
62656861 GTGGTAGTGGATT
1 TTGGTAGTGGATT
62656874 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:62659513 original size:42 final size:42
Alignment explanation
Indices: 62659454--62659540 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
62659444 TTTCAAATCA
62659454 TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
1 TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
62659496 TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
1 TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
62659538 TTC
1 TTC
62659541 AAGATGACGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (42 bp):
TTCTACAATTCAAGTGGATCTTTTATGTTCAAATATTCTGCC
Found at i:62660191 original size:7 final size:7
Alignment explanation
Indices: 62660181--62660211 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
62660171 ATTTCCCCTC
62660181 CCCATTT
1 CCCATTT
62660188 CCCATTT
1 CCCATTT
62660195 CCCATTT
1 CCCATTT
62660202 CCCATTT
1 CCCATTT
62660209 CCC
1 CCC
62660212 TAAGCCCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.48, G:0.00, T:0.39
Consensus pattern (7 bp):
CCCATTT
Found at i:62660193 original size:20 final size:21
Alignment explanation
Indices: 62660164--62660211 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
62660154 TTAAAAAAAA
*
62660164 ATTTCTCATTTCCC-CTCCCC
1 ATTTCCCATTTCCCACTCCCC
* *
62660184 ATTTCCCATTTCCCATTTCCC
1 ATTTCCCATTTCCCACTCCCC
62660205 ATTTCCC
1 ATTTCCC
62660212 TAAGCCCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.12, C:0.46, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTCCCATTTCCCACTCCCC
Found at i:62672051 original size:67 final size:67
Alignment explanation
Indices: 62671943--62672073 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
62671933 CAATTCAGAG
62671943 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTGCAAG
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTGCAAG
62672008 AT
66 AT
* * *
62672010 AGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCTTGCAA
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTGCAA
62672074 CGACAATTAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (67 bp):
AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAAGCTAAATCCCCTGCAAG
AT
Found at i:62675879 original size:13 final size:12
Alignment explanation
Indices: 62675847--62675881 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
62675837 TTTCTTTTAC
*
62675847 TATATTTATTAT
1 TATATCTATTAT
62675859 TATATCTATTAT
1 TATATCTATTAT
62675871 TACTATCTATT
1 TA-TATCTATT
62675882 TATGCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATCTATTAT
Found at i:62675977 original size:4 final size:4
Alignment explanation
Indices: 62675970--62676004 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
62675960 TATTTTTCTC
**
62675970 TTTA TTTA TTTA CATA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
62676005 GTCTTCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:62676094 original size:19 final size:19
Alignment explanation
Indices: 62676070--62676111 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
62676060 TAGAACTATC
*
62676070 ATTTATTTTATT-ATTGATT
1 ATTTATTTAATTAATT-ATT
62676089 ATTTATTTAATTAATTATT
1 ATTTATTTAATTAATTATT
62676108 ATTT
1 ATTT
62676112 TTGAATGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTAATTAATTATT
Found at i:62676525 original size:131 final size:130
Alignment explanation
Indices: 62676265--62676530 Score: 417
Period size: 130 Copynumber: 2.0 Consensus size: 130
62676255 GAAAATTTCA
* * *
62676265 AAAAATAAAGGTAATATTTCATATTTAGAAATTCGAAAAGTTGTGCCCTAACTTACTGGTTTTCG
1 AAAAATAAAGGCAATATTCCATATTTAAAAATTCGAAAAGTTGTGCCCTAACTTACTGGTTTTCG
*
62676330 ATTTTTCTCACGTTAAACCTAATAACCGAATATCCTTTTAAAACTAAAATAACTGTGTTTTAAAT
66 ATTTTTCTCACGTTAAACCTAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
* * *
62676395 AAAAATAAAGGCAATATTCCGTATTTAAAAATTCGAGAAGTTGTGCCTTAACTTACTGGGTTTT-
1 AAAAATAAAGGCAATATTCCATATTTAAAAATTCGAAAAGTTGTGCCCTAACTTACT-GGTTTTC
* * *
62676459 GATTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAA
65 GATTTTTCTCACGTTAAACCT-AATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAA
62676524 AT
129 AT
62676526 AAAAA
1 AAAAA
62676531 CAAATGCGAG
Statistics
Matches: 124, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
130 70 0.56
131 54 0.44
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (130 bp):
AAAAATAAAGGCAATATTCCATATTTAAAAATTCGAAAAGTTGTGCCCTAACTTACTGGTTTTCG
ATTTTTCTCACGTTAAACCTAATAACCGAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
Found at i:62682440 original size:18 final size:18
Alignment explanation
Indices: 62682417--62682509 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
62682407 CCCAACTACT
* *
62682417 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTGCC
*
62682435 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTGCC
*
62682453 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* *
62682471 GTATACATGAATAGTGTC
1 GTATACGTGAATAGTGCC
* *
62682489 GTACACGTGAATAGTACC
1 GTATACGTGAATAGTGCC
62682507 GTA
1 GTA
62682510 AACGGTCGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:62682473 original size:36 final size:36
Alignment explanation
Indices: 62682417--62682509 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
62682407 CCCAACTACT
* *
62682417 GTATACGTGAACAGTACCGTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGTC
* *
62682453 GTATATGTGAATAGTGCCGTATACATGAATAGTGTC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGTC
*
62682489 GTACACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
62682510 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATGAATAGTGTC
Found at i:62684866 original size:14 final size:14
Alignment explanation
Indices: 62684847--62684873 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62684837 TATAATTATC
62684847 AAATATTAAATAAT
1 AAATATTAAATAAT
62684861 AAATATTAAATAA
1 AAATATTAAATAA
62684874 AATAATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATATTAAATAAT
Found at i:62687863 original size:17 final size:18
Alignment explanation
Indices: 62687831--62687864 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62687821 TGATTAACTC
*
62687831 AAATATTTTATTTAATTA
1 AAATATTTTATATAATTA
62687849 AAATA-TTTATATAATT
1 AAATATTTTATATAATT
62687865 TTTAAGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATATTTTATATAATTA
Found at i:62690672 original size:18 final size:17
Alignment explanation
Indices: 62690649--62690682 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
62690639 GGTGCTAATC
62690649 CTTTTATATTTACATAAA
1 CTTTTATATTTA-ATAAA
62690667 CTTTTATATTTAATAA
1 CTTTTATATTTAATAA
62690683 TTTTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
CTTTTATATTTAATAAA
Found at i:62691306 original size:108 final size:107
Alignment explanation
Indices: 62691077--62691395 Score: 430
Period size: 108 Copynumber: 3.0 Consensus size: 107
62691067 TTCAAAAAGG
* * *
62691077 AAAAATTTTCTAAATGAGGCAATATTTAGCGTTTGGAAATTCGAGGAAACGTGCTCTAATGTGCT
1 AAAAA-TTTC-AAATAAGGCAATATTTTGCGTTTGGAAATTCGA-GAAACGTGCCCTAATGTGCT
* *
62691142 GGGTTTCGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTC
63 GGGTTTCGA-TTTTTCTCGTTCAACCAAATAGCCAAATAT-CTTTCC
* *
62691189 -AAAATTTCAAAATAAGGCAAT-TTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGTTG
1 AAAAATTTC-AAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAATGTGCTG
62691252 GGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCTTTCC
64 GGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCTTTCC
* * * * *
62691296 AAAAATTTCAAATAAGGAAATGTTTTGCTTTTGGAAATTTGAGGAACGTGCCCTAATGTGCTGGG
1 AAAAATTTCAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAATGTGCTGGG
*
62691361 TTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATC
66 TTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATC
62691396 CTCTTGAATT
Statistics
Matches: 189, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
105 28 0.15
107 41 0.22
108 57 0.30
109 44 0.23
110 15 0.08
111 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (107 bp):
AAAAATTTCAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAATGTGCTGGG
TTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCTTTCC
Found at i:62693988 original size:24 final size:24
Alignment explanation
Indices: 62693961--62694008 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
62693951 AGACATAGTG
62693961 ATGTCCGGAGAAATGATAGAGAAT
1 ATGTCCGGAGAAATGATAGAGAAT
*
62693985 ATGTCTGGAGAAATGATAGAGAAT
1 ATGTCCGGAGAAATGATAGAGAAT
62694009 GCCATAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (24 bp):
ATGTCCGGAGAAATGATAGAGAAT
Found at i:62695749 original size:7 final size:7
Alignment explanation
Indices: 62695739--62695788 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
62695729 GTTAAGATTC
62695739 AAAAAG-
1 AAAAAGA
62695745 AAAAAGA
1 AAAAAGA
62695752 AAAAAGAA
1 AAAAAG-A
62695760 AAAAAGA
1 AAAAAGA
62695767 AGAGAAA-A
1 A-A-AAAGA
62695775 GAAAAAGA
1 -AAAAAGA
62695783 AAAAAG
1 AAAAAG
62695789 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.16
7 17 0.45
8 11 0.29
9 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:62695750 original size:6 final size:6
Alignment explanation
Indices: 62695739--62695786 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
62695729 GTTAAGATTC
*
62695739 AAAAAG AAAAAG AAAAAAG AAAAA- AAGAAG AGAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG AAAAA
62695787 AGGAGAGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 4 0.11
6 22 0.59
7 11 0.30
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:62695779 original size:24 final size:24
Alignment explanation
Indices: 62695742--62695787 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
62695732 AAGATTCAAA
62695742 AAGAAAAAGAAAAAAGAAAAAAAG
1 AAGAAAAAGAAAAAAGAAAAAAAG
62695766 AAGAGAAAAG-AAAAAGAAAAAA
1 AAGA-AAAAGAAAAAAGAAAAAA
62695788 GGAGAGGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (24 bp):
AAGAAAAAGAAAAAAGAAAAAAAG
Found at i:62695788 original size:13 final size:13
Alignment explanation
Indices: 62695739--62695786 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
62695729 GTTAAGATTC
62695739 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
62695752 AAAAAG-AAAA-A
1 AAAAAGAAAAAGA
*
62695763 AAGAAGAGAAAAG-
1 AAAAAGA-AAAAGA
62695776 AAAAAGAAAAA
1 AAAAAGAAAAA
62695787 AGGAGAGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 8 0.27
13 16 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:62697292 original size:50 final size:49
Alignment explanation
Indices: 62697138--62698313 Score: 550
Period size: 50 Copynumber: 23.7 Consensus size: 49
62697128 GCAACGGAAT
* * * * ** * *
62697138 AGATTGAAGCAACGACGGTGAATCTCGCTTCCCTGACATTGTAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCT-TCTTCCCCAACATTGCAATTGAAA
* * * * **
62697188 AGATTGAAGCCACAACGGTGAATCTTACTT-CTCAGGCGA-TGC-AGCGAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCA-AC-ATTGCAATTGAAA
* *
62697237 CAGATTGAAGCTACGACGGCGAATC-TCGTTTCCCCAACATTGCAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTTC--TTCCCCAACATTGCAATTGAAA
* * * * *
62697288 AGATTGAAGCCACAACGGTGAATCTTACTT--CCAGACGA-TGTAATGGAAC
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCA-AC-ATTGCAATTGAAA
* * * * *
62697337 AGATT-TAGCTACAACGACGAATCTTGCTTCCCCGACATTGTAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
* * ***
62697386 AGATTGAAG-TCACAACGGCGAATCTTACTT--CCAGGCAATGCAGCGGAACA
1 AGATTGAAGCT-ACAACGGCGAATCTT-CTTCCCCA-ACATTGCAATTGAA-A
* * *
62697436 A-ATTGAAGCTACAACGGCGAATTTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
* * * * *** *
62697485 AGATTGAAGCTATAACTGCGAATCTTACTT--TCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCA-AC-ATTGCAATTGAAA
*
62697534 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
* * * * *
62697584 AGATTGAAGCCACAACGGCGAATCTTACTT--CCAGGCGA-TGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCA-AC-ATTGCAATTGAAA
* * * ** * *
62697633 AGATTGAAGCTACGATGGCGAATTTTCCTTCCCTGACACTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
* *** *
62697683 AGATTGAAG-TCACAACGGCGAATCTTACTT--CCAGGCGA-TGCAGCAGAAC
1 AGATTGAAGCT-ACAACGGCGAATCTT-CTTCCCCA-AC-ATTGCAATTGAAA
* * * *
62697732 AGATTGAAGCTACAATGGCGAATTTTCCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
*** *
62697782 AGATTGAAG-TCACAACGGCGAATCTTACTT--CCAGACGA-TGCAGCAGAAC
1 AGATTGAAGCT-ACAACGGCGAATCTT-CTTCCCCA-AC-ATTGCAATTGAAA
* * * * *
62697831 AGATTGAAGCTACAATGGCGAATTTTGCTTCCCCGACATTACAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
* * * ** *
62697881 AGATTGAAGCCACAACGGTGAATCTTACTTTCCCAAGCGGTG-AAGTGGAACA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAA-CATTGCAA-TTGAA-A
** * * * *
62697933 A-ATTGAAGCTATGACGGCAAATCTTCCTTCCTCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
* * * * **
62697982 AGATTGAAGCCACAACGGTGAATCTTACTT-TCCAGGCGA-TGC-AGCGAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCA-AC-ATTGCAATTGAAA
* * * *
62698031 CAAATTGAAGCTACAACGGCGAATCTTGCTTCCCCGATATTGCAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
* * * * *** *
62698082 AGATTGAGGCCACAACGGCGAATCTACTT--CCAGGCGA-TGCAGCAGAAT
1 AGATTGAAGCTACAACGGCGAATCTTCTTCCCCA-AC-ATTGCAATTGAAA
* * * *
62698130 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
* * * * ** * * *
62698180 ATATTGAAGCCACAACGGCGAACCTTACTTTCCCAAGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAA-CATTGCAATTGAAA
* * **
62698231 AGATTGAAGCTACGACGGCGAATCTTACTTCCCCGACATTGCGGTT-AAA
1 AGATTGAAGCTACAACGGCGAATCTT-CTTCCCCAACATTGCAATTGAAA
*
62698280 TAGATTGAAGCTACAACAGCGAATCTTACTTCCC
1 -AGATTGAAGCTACAACGGCGAATCTT-CTTCCC
62698314 TGGCGGTGAA
Statistics
Matches: 822, Mismatches: 237, Indels: 134
0.69 0.20 0.11
Matches are distributed among these distances:
47 2 0.00
48 60 0.07
49 226 0.27
50 434 0.53
51 97 0.12
52 3 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (49 bp):
AGATTGAAGCTACAACGGCGAATCTTCTTCCCCAACATTGCAATTGAAA
Done.