Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 22 of 141
Found at i:7115562 original size:57 final size:57
Alignment explanation
Indices: 7115469--7115577 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
7115459 AATTCGGATT
*
7115469 ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAGAATC
1 ACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAGAATC
* *
7115526 ACCCATCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCA
1 ACCCATCCGGGCTAAATCCATTTTC-CACATATTCTTCGGGAGGGCTATATCA
7115578 AGATCNNNNN
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 6 0.12
57 42 0.88
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (57 bp):
ACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAGAATC
Found at i:7118053 original size:29 final size:29
Alignment explanation
Indices: 7117975--7118053 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 29
7117965 TTTAAAGCCT
*
7117975 TTATTGGAGCATCTTCGAAAAGGTTTAACCC
1 TTATTTGAGCAT-TTCG-AAAGGTTTAACCC
* * * *
7118006 TTATTTAACCATTTTGAAAGG-TTAACTC
1 TTATTTGAGCATTTCGAAAGGTTTAACCC
7118034 TTATTTGAGCACTTTCGAAA
1 TTATTTGAGCA-TTTCGAAA
7118054 AGCTATAGTC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 15 0.38
29 12 0.31
30 3 0.08
31 9 0.23
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (29 bp):
TTATTTGAGCATTTCGAAAGGTTTAACCC
Found at i:7118517 original size:20 final size:20
Alignment explanation
Indices: 7118492--7118529 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7118482 ATAGCTGATA
7118492 TATTTATAATTTTAAAGGAT
1 TATTTATAATTTTAAAGGAT
* *
7118512 TATTTATCATTTTTAAGG
1 TATTTATAATTTTAAAGG
7118530 GGGCAAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
TATTTATAATTTTAAAGGAT
Found at i:7122447 original size:135 final size:136
Alignment explanation
Indices: 7122300--7122581 Score: 543
Period size: 135 Copynumber: 2.1 Consensus size: 136
7122290 TTATTGAACA
7122300 AAATTA-A-AAAAATTAAACATACTTATATTGATATATCTAATTATATCCTACATTCTTACTCGC
1 AAATTATATAAAAATTAAACATACTTATATTGATATATCTAATTATATCCTACATTCTTACTCGC
7122363 ATTCAAATAATACAATTATATAATTATTTTACTTAATATATTAAATTTATAAACATTAATACCAC
66 ATTCAAATAATACAATTATATAATTATTTTACTTAATATATTAAATTTATAAACATTAATACCAC
7122428 TTATTT
131 TTATTT
7122434 -AATTATATAAAAATTAAACATACTTATATTGATATATCTAATTATATCCTACATTCTTACTCGC
1 AAATTATATAAAAATTAAACATACTTATATTGATATATCTAATTATATCCTACATTCTTACTCGC
7122498 ATTCAAATAATACAATTATATAATTATTTTACTTAATATATTAAATTTATAAACATTAATACCAC
66 ATTCAAATAATACAATTATATAATTATTTTACTTAATATATTAAATTTATAAACATTAATACCAC
7122563 TTATTT
131 TTATTT
7122569 AAATTATATAAAA
1 AAATTATATAAAA
7122582 GATATTTTTG
Statistics
Matches: 145, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
133 5 0.03
134 1 0.01
135 127 0.88
136 12 0.08
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (136 bp):
AAATTATATAAAAATTAAACATACTTATATTGATATATCTAATTATATCCTACATTCTTACTCGC
ATTCAAATAATACAATTATATAATTATTTTACTTAATATATTAAATTTATAAACATTAATACCAC
TTATTT
Found at i:7123296 original size:24 final size:24
Alignment explanation
Indices: 7123262--7123313 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7123252 TTTCTAGAAG
* *
7123262 ATTTAGTATTTATGAGTATAACAT
1 ATTTAGCATTTATGAGCATAACAT
* *
7123286 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAACAT
7123310 ATTT
1 ATTT
7123314 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAACAT
Found at i:7127500 original size:24 final size:24
Alignment explanation
Indices: 7127473--7127524 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7127463 TTTCTAGAAT
* *
7127473 ATTTAGTATTTATGAGTATAATAA
1 ATTTAGCATTTATGAGCATAATAA
* *
7127497 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAA
7127521 ATTT
1 ATTT
7127525 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAA
Found at i:7130991 original size:15 final size:15
Alignment explanation
Indices: 7130971--7131000 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7130961 GCTCGAGCAT
7130971 GAAATAGAGCATGAC
1 GAAATAGAGCATGAC
7130986 GAAATAGAGCATGAC
1 GAAATAGAGCATGAC
7131001 CTTCCCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.27, T:0.13
Consensus pattern (15 bp):
GAAATAGAGCATGAC
Found at i:7141132 original size:33 final size:33
Alignment explanation
Indices: 7141093--7141160 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
7141083 AAGAAAACTA
7141093 TCAAGTTTAGGTACCAAATTAGAAAAAAAA-ATG
1 TCAAGTTTAGGTACCAAATT-GAAAAAAAATATG
*
7141126 TCAAGTTTAGGTACCGAATTGAAAAAAAATATG
1 TCAAGTTTAGGTACCAAATTGAAAAAAAATATG
7141159 TC
1 TC
7141161 CGAAAAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 9 0.27
33 24 0.73
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.26
Consensus pattern (33 bp):
TCAAGTTTAGGTACCAAATTGAAAAAAAATATG
Found at i:7141270 original size:2 final size:2
Alignment explanation
Indices: 7141263--7141288 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7141253 GTAAAGCATT
7141263 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7141289 AAGACCATGC
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7142708 original size:15 final size:16
Alignment explanation
Indices: 7142672--7142710 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
7142662 TGTTAAGATG
*
7142672 ATTATATAAAAAATTC
1 ATTAAATAAAAAATTC
*
7142688 AATAAATAAAAAATT-
1 ATTAAATAAAAAATTC
7142703 ATTAAATA
1 ATTAAATA
7142711 TTAATATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAATAAAAAATTC
Found at i:7142734 original size:27 final size:26
Alignment explanation
Indices: 7142672--7142744 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
7142662 TGTTAAGATG
7142672 ATTATATAAAAAATTCAATA-AATAAAAA
1 ATTAT-TAAAAAA-T-AATATAATAAAAA
* * *
7142700 ATTATTAAATATTAATATAATATAAAT
1 ATTATTAAAAAATAATATAATA-AAAA
*
7142727 ATTTTTAAAAAATAATAT
1 ATTATTAAAAAATAATAT
7142745 GGGTGAGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
25 4 0.11
26 5 0.14
27 23 0.62
28 5 0.14
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTATTAAAAAATAATATAATAAAAA
Found at i:7146738 original size:25 final size:25
Alignment explanation
Indices: 7146704--7146751 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
7146694 TGAGTTGACA
*
7146704 TTTGTGCAGACTGTGTTTGGCAGAC
1 TTTGTGCAGACTGTGTTTAGCAGAC
7146729 TTTGTGCAGACTGTGTTTAGCAG
1 TTTGTGCAGACTGTGTTTAGCAG
7146752 GCCCCATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.38
Consensus pattern (25 bp):
TTTGTGCAGACTGTGTTTAGCAGAC
Found at i:7150919 original size:31 final size:32
Alignment explanation
Indices: 7150858--7150923 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
7150848 AAAATGGGGG
* * *
7150858 TTTAGGTTTCTTACAAGTTGGAGAAAAAAATT
1 TTTAGGTCTCATAAAAGTTGGAGAAAAAAATT
*
7150890 TTTAGGTCTCATAAAAGTTGG-TAAAAAAATT
1 TTTAGGTCTCATAAAAGTTGGAGAAAAAAATT
7150921 TTT
1 TTT
7150924 GGACTCTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (32 bp):
TTTAGGTCTCATAAAAGTTGGAGAAAAAAATT
Found at i:7157395 original size:28 final size:29
Alignment explanation
Indices: 7157345--7157400 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
7157335 TATAGATACA
*
7157345 TGATCAAATTAGTCCCTCTACTATTAAAT
1 TGATCAAATTAGTCCCTCAACTATTAAAT
* *
7157374 TGATC-AATTAGTCCTTGAACTATTAAA
1 TGATCAAATTAGTCCCTCAACTATTAAA
7157401 AGGAATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (29 bp):
TGATCAAATTAGTCCCTCAACTATTAAAT
Found at i:7158114 original size:5 final size:5
Alignment explanation
Indices: 7158104--7158144 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
7158094 CCCAAGTATT
7158104 CAACC CAACC CAATTACC CAACC CAACC CAACC CAACC CAA
1 CAACC CAACC C-A--ACC CAACC CAACC CAACC CAACC CAA
7158145 TCATAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 27 0.82
6 1 0.03
7 1 0.03
8 4 0.12
ACGTcount: A:0.41, C:0.54, G:0.00, T:0.05
Consensus pattern (5 bp):
CAACC
Found at i:7158115 original size:18 final size:18
Alignment explanation
Indices: 7158092--7158134 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7158082 ACCCAATCTA
**
7158092 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
7158110 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
7158128 AACCCAA
1 AACCCAA
7158135 CCCAACCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:7158266 original size:9 final size:9
Alignment explanation
Indices: 7158252--7158336 Score: 125
Period size: 9 Copynumber: 9.4 Consensus size: 9
7158242 GTAGTGATTC
*
7158252 AATTTGGTT
1 AATTCGGTT
*
7158261 AATTTGGTT
1 AATTCGGTT
*
7158270 AATTCGGGT
1 AATTCGGTT
7158279 AATTCGGTT
1 AATTCGGTT
*
7158288 AATTCGGGT
1 AATTCGGTT
*
7158297 AATTCGGGT
1 AATTCGGTT
7158306 AATTCGGTT
1 AATTCGGTT
7158315 AATTCGGTT
1 AATTCGGTT
7158324 AATTCGGTT
1 AATTCGGTT
7158333 AATT
1 AATT
7158337 TTTAACCAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 71 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7164265 original size:95 final size:96
Alignment explanation
Indices: 7164129--7164351 Score: 308
Period size: 96 Copynumber: 2.3 Consensus size: 96
7164119 AGATAACATA
* * *
7164129 TACAAATCTTATCTCCCTGAACTTGCAGTGGAGCAGATTGAAGAT-GCGAATCTTA-TTTCTCTG
1 TACAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTTCT-TG
7164192 AAGTTATAGTGGAATAGATTAAAGCTACAAGT
65 AAGTTATAGTGGAATAGATTAAAGCTACAAGT
* * *
7164224 TACAAATCTTATCTTCCTAAAGTTGCATTGGAGCAGTTTGAATATAGCGAATCTTATTTTCTTGA
1 TACAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTTCTTGA
*
7164289 AGTTGTAGTGGAATAGATTAAAGCTACAAGT
66 AGTTATAGTGGAATAGATTAAAGCTACAAGT
* * * *
7164320 TATAAATTTTAT-TTCCCTCAAGTTGTAGTGGA
1 TACAAATCTTATCTT-CCTAAAGTTGCAGTGGA
7164352 ATAGATTAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
95 41 0.36
96 67 0.59
97 5 0.04
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (96 bp):
TACAAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTTCTTGA
AGTTATAGTGGAATAGATTAAAGCTACAAGT
Found at i:7164350 original size:51 final size:51
Alignment explanation
Indices: 7164286--7164505 Score: 245
Period size: 51 Copynumber: 4.4 Consensus size: 51
7164276 CTTATTTTCT
* * *
7164286 TGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTTATAAATTTTATTTCCC
1 TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCC
* *
7164337 TCAAGTTGTAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCC
1 TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCC
** * * * *
7164388 TGAAGTTACAGTGGAGCAAATTGAA--T---A-TTATAAATCTTATTTCCC
1 TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCC
* * *
7164433 TGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATTTTATCTCCC
1 TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCC
* * *
7164484 TAAAGTTTTAGTGGAGCAGATT
1 TGAAGTTGTAGTGGAACAGATT
7164506 GAAGATAGCG
Statistics
Matches: 141, Mismatches: 22, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
45 38 0.27
46 1 0.01
47 1 0.01
49 1 0.01
50 1 0.01
51 99 0.70
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (51 bp):
TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCC
Found at i:7164358 original size:147 final size:146
Alignment explanation
Indices: 7164192--7164656 Score: 505
Period size: 147 Copynumber: 3.2 Consensus size: 146
7164182 TATTTCTCTG
* * * *
7164192 AAGTTATAGTGGAATAGATTAAAGCTACAAGTTACAAATCTTATCTTCCTAAAGTTGCATTGGAG
1 AAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAG
* * *
7164257 CAGTTTGAATATAGCGAATCTTATTTTCTTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTTA
66 CAGATTGAATATA-CAAATCTTATTTTCTTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTA
* *
7164322 TAAATTTTATTTCCCTC
130 TAAATTTTATCTCCCTA
* * * *
7164339 AAGTTGTAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCCTGAAGTTACAGTGGAG
1 AAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAG
* * * * *
7164404 CAAATTGAATATTATAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
66 CAGATTGAATA-TACAAATCTTATTTTCTTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTA
*
7164469 CAAATTTTATCTCCCTA
130 TAAATTTTATCTCCCTA
* * * * * * *
7164486 AAGTTTTAGTGGAGCAGATTGAAG--A-TAG---CGAATCTTAT-TTCCATGGAGTTGCAGTGTA
1 AAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTTCC-TGAAGTTGCAGTGGA
* * * ** *
7164544 GTAGATTGAAGATAACAAATCTTATTTTTCTAG-AGTTGTAGTAAAACAGATTAAAGCTACGAGT
65 GCAGATTGAATAT-ACAAATCTTA-TTTTCTTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGT
*
7164608 TATAAATTTTATCTCTCTA
128 TATAAATTTTATCTCCCTA
* * *
7164627 AAGTTGCAGTAGAACAGATTAAAGCGACAA
1 AAGTTGTAGTGGAACAGATTAAAGCTACAA
7164657 TTCCTATACC
Statistics
Matches: 264, Mismatches: 47, Indels: 17
0.80 0.14 0.05
Matches are distributed among these distances:
140 4 0.02
141 101 0.38
142 5 0.02
143 1 0.00
144 3 0.01
145 1 0.00
147 147 0.56
148 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (146 bp):
AAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTTCCTGAAGTTGCAGTGGAG
CAGATTGAATATACAAATCTTATTTTCTTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTAT
AAATTTTATCTCCCTA
Found at i:7164430 original size:96 final size:96
Alignment explanation
Indices: 7164319--7164508 Score: 290
Period size: 96 Copynumber: 2.0 Consensus size: 96
7164309 AAGCTACAAG
* * * *
7164319 TTATAAATTTTATTTCCCTCAAGTTGTAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATC
1 TTATAAATCTTATTTCCCTCAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATC
*
7164384 TCCCTGAAGTTACAGTGGAGCAAATTGAATA
66 TCCCTAAAGTTACAGTGGAGCAAATTGAATA
* *
7164415 TTATAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATTTTATC
1 TTATAAATCTTATTTCCCTCAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATC
** *
7164480 TCCCTAAAGTTTTAGTGGAGCAGATTGAA
66 TCCCTAAAGTTACAGTGGAGCAAATTGAA
7164509 GATAGCGAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (96 bp):
TTATAAATCTTATTTCCCTCAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATC
TCCCTAAAGTTACAGTGGAGCAAATTGAATA
Found at i:7164520 original size:96 final size:96
Alignment explanation
Indices: 7164323--7164541 Score: 287
Period size: 96 Copynumber: 2.3 Consensus size: 96
7164313 TACAAGTTAT
* * * * *
7164323 AAATTTTATTTCCCTCAAGTTGTAGTGGAATAGATTAAAGCTACAAGTTATAAATCTTATCTCCC
1 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
* * *
7164388 TGAAGTTACAGTGGAGCAAATTGAATATTAT
66 TAAAGTTACAGTGGAGCAAATTGAAGATTAC
*
7164419 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATTTTATCTCCC
1 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
** *
7164484 TAAAGTTTTAGTGGAGCAGATTGAAGA-TAGC
66 TAAAGTTACAGTGGAGCAAATTGAAGATTA-C
* * *
7164515 GAATCTTATTTCCATGGAGTTGCAGTG
1 AAATCTTATTTCCCTGAAGTTGCAGTG
7164542 TAGTAGATTG
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 2 0.02
96 105 0.98
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (96 bp):
AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
TAAAGTTACAGTGGAGCAAATTGAAGATTAC
Found at i:7164908 original size:13 final size:13
Alignment explanation
Indices: 7164890--7164914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7164880 AGACCAAATA
7164890 TTACAAGCCCAAC
1 TTACAAGCCCAAC
7164903 TTACAAGCCCAA
1 TTACAAGCCCAA
7164915 AACAAACAAA
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:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (13 bp):
TTACAAGCCCAAC
Found at i:7171547 original size:69 final size:64
Alignment explanation
Indices: 7171463--7171808 Score: 275
Period size: 69 Copynumber: 5.1 Consensus size: 64
7171453 ATCATTCTTT
* * * *
7171463 TTTTAAATACCTAAATTTAATATTATTCATATCTATTATATTTACTTATTTGTTCATTATTCTTT
1 TTTTAAATACTTAAATTTAATATTATT-ATATTTATTTTATCTA-TTATTT-TT-ATTATTCTTT
7171528 TATC
62 TA-C
* * * * *
7171532 TTTTAAATATTTAAATGTAATATTATTTATATTTGTTTTATCAATTTATTTATTTATCATTCTTT
1 TTTTAAATACTTAAATTTAATATTA-TTATATTTATTTTATCTA-TTA-TT-TTTATTATTCTTT
7171597 TAC
62 TAC
* *
7171600 TTTTAAAATATTTAAATTGAATATTATGTATATTTATTTTATCTATT-TTTTTATTATTCTTTTA
1 TTTT-AAATACTTAAATTTAATATTAT-TATATTTATTTTATCTATTATTTTTATTATTCTTTTA
7171664 C
64 C
* * * * * *
7171665 TTTTTAAATGCTTACATTTAATATTGTTTATATTTGTTTTATCTATTTATTCACTTATTTGTTCT
1 -TTTTAAATACTTAAATTTAATATT-ATTATATTTATTTTATCTA-TTATT--TTTA-TTATTCT
7171730 TTTAC
60 TTTAC
* *
7171735 TTTTAAA-ACATTTAAATTCAATATTATTTATATTTGA-TTTATCAATTTATATATTTATTTATT
1 TTTTAAATAC--TTAAATTTAATATTA-TTATATTT-ATTTTATCTA-TTAT-T-TTTA-TTATT
7171798 CTTTTAC
58 CTTTTAC
7171805 TTTT
1 TTTT
7171809 TCAAGTGCTT
Statistics
Matches: 229, Mismatches: 31, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
65 47 0.21
66 9 0.04
67 2 0.01
68 9 0.04
69 91 0.40
70 69 0.30
71 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (64 bp):
TTTTAAATACTTAAATTTAATATTATTATATTTATTTTATCTATTATTTTTATTATTCTTTTAC
Found at i:7171658 original size:134 final size:133
Alignment explanation
Indices: 7171390--7171808 Score: 386
Period size: 134 Copynumber: 3.2 Consensus size: 133
7171380 TGTTAACTTA
*
7171390 TTTATTATTCTTCATT--TTTTAAATATCTAAA-GCTAATATTATTTATATTTG-TTT-T-A--T
1 TTTATTATTCTT--TTACTTTTAAATATTTAAATG-TAATATTATTTATATTTGTTTTATCATTT
** * * * *
7171447 A--TATTTATCATTC-TTT--TTTT-AAATACCTAAATTTAATATTATTCATATCTATTATATTT
63 ATTTATTTATCATTCTTTTACTTTTAAAATATTTAAATTCAATATTATT-ATATTTATTTTATCT
7171506 ACTTATT
127 ACTTATT
7171513 TGTTCATTATTCTTTTATCTTTTAAATATTTAAATGTAATATTATTTATATTTGTTTTATCAATT
1 T-TT-ATTATTCTTTTA-CTTTTAAATATTTAAATGTAATATTATTTATATTTGTTTTATC-ATT
*
7171578 TATTTATTTATCATTCTTTTACTTTTAAAATATTTAAATTGAATATTATGTATATTTATTTTATC
62 TATTTATTTATCATTCTTTTACTTTTAAAATATTTAAATTCAATATTAT-TATATTTATTTTATC
7171643 TA-TT-TT
126 TACTTATT
** * * *
7171649 TTTATTATTCTTTTACTTTTTAAATGCTTACATTTAATATTGTTTATATTTGTTTTATCTATTTA
1 TTTATTATTCTTTTAC-TTTTAAATATTTAAATGTAATATTATTTATATTTGTTTTATC-ATTTA
* * ** *
7171714 TTCACTTATTTGTTCTTTTACTTTTAAAACATTTAAATTCAATATTATTTATATTTGA-TTTATC
64 TTTATTTA-TCATTCTTTTACTTTTAAAATATTTAAATTCAATATTA-TTATATTT-ATTTTATC
* *
7171778 AATTTATAT
126 TACTTAT-T
7171787 ATTTATTTATTCTTTTACTTTT
1 -TTTA-TTATTCTTTTACTTTT
7171809 TCAAGTGCTT
Statistics
Matches: 248, Mismatches: 20, Indels: 40
0.81 0.06 0.13
Matches are distributed among these distances:
123 3 0.01
124 2 0.01
125 9 0.04
126 32 0.13
127 4 0.02
128 1 0.00
130 1 0.00
132 2 0.01
133 1 0.00
134 72 0.29
135 53 0.21
136 7 0.03
137 7 0.03
138 33 0.13
139 9 0.04
140 12 0.05
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (133 bp):
TTTATTATTCTTTTACTTTTAAATATTTAAATGTAATATTATTTATATTTGTTTTATCATTTATT
TATTTATCATTCTTTTACTTTTAAAATATTTAAATTCAATATTATTATATTTATTTTATCTACTT
ATT
Found at i:7171758 original size:70 final size:67
Alignment explanation
Indices: 7171518--7171808 Score: 338
Period size: 70 Copynumber: 4.3 Consensus size: 67
7171508 TTATTTGTTC
7171518 ATTATTCTTTTATCTTTT-AAATATTTAAATGTAATATTATTTATATTTGTTTTATCAATTTATT
1 ATTATTCTTTTA-CTTTTAAAATATTTAAAT-TAATATTATTTATATTTGTTTTATCAATTTA-T
7171582 TATTT
63 TATTT
* * * *
7171587 ATCATTCTTTTACTTTTAAAATATTTAAATTGAATATTATGTATATTTATTTTATCTA-TT-TT-
1 ATTATTCTTTTACTTTTAAAATATTTAAATT-AATATTATTTATATTTGTTTTATCAATTTATTA
7171649 TTT
65 TTT
* ** * * *
7171652 ATTATTCTTTTACTTTTTAAATGCTTACATTTAATATTGTTTATATTTGTTTTATCTATTTATTC
1 ATTATTCTTTTACTTTTAAAATATTTA-AATTAATATTATTTATATTTGTTTTATCAATTTATT-
*
7171717 ACTT
64 ATTT
* * *
7171721 ATTTGTTCTTTTACTTTTAAAACATTTAAATTCAATATTATTTATATTTGATTTATCAATTTATA
1 A-TTATTCTTTTACTTTTAAAATATTTAAATT-AATATTATTTATATTTGTTTTATCAATTTAT-
7171786 TATTT
63 TATTT
7171791 ATTTATTCTTTTACTTTT
1 A-TTATTCTTTTACTTTT
7171809 TCAAGTGCTT
Statistics
Matches: 188, Mismatches: 24, Indels: 19
0.81 0.10 0.08
Matches are distributed among these distances:
65 49 0.26
66 7 0.04
67 2 0.01
68 8 0.04
69 52 0.28
70 69 0.37
71 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (67 bp):
ATTATTCTTTTACTTTTAAAATATTTAAATTAATATTATTTATATTTGTTTTATCAATTTATTAT
TT
Found at i:7174697 original size:30 final size:31
Alignment explanation
Indices: 7174659--7174725 Score: 111
Period size: 30 Copynumber: 2.2 Consensus size: 31
7174649 TATCATCTAT
7174659 ATTA-TGAAAAGTCAAAGATATGGGTATC-A
1 ATTATTGAAAAGTCAAAGATATGGGTATCGA
7174688 ATTATTGAAAAGTCAAAGATATGGGTATCGA
1 ATTATTGAAAAGTCAAAGATATGGGTATCGA
*
7174719 AATATTG
1 ATTATTG
7174726 GCATAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 4 0.11
30 24 0.69
31 7 0.20
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (31 bp):
ATTATTGAAAAGTCAAAGATATGGGTATCGA
Found at i:7180290 original size:41 final size:40
Alignment explanation
Indices: 7180203--7180347 Score: 138
Period size: 41 Copynumber: 3.5 Consensus size: 40
7180193 TTAAACAGAT
* * **
7180203 TCACCGGCATTTAGCCTGCTAGGATCA-AAGCCTGATTTAGTA
1 TCACCGGCATTAAGCCTGCTA-GA-CATAAGTCTGAAAT-GTA
7180245 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACATA-AGTCTGAAATGTA
*
7180285 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACAT-AAGTCTGAAATGTA
7180324 CTTCACCGGCATTAAGCCTGCTAG
1 --TCACCGGCATTAAGCCTGCTAG
7180348 GTACAGAACC
Statistics
Matches: 91, Mismatches: 4, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
39 4 0.04
40 11 0.12
41 73 0.80
42 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGACATAAGTCTGAAATGTA
Found at i:7180361 original size:41 final size:39
Alignment explanation
Indices: 7180201--7180362 Score: 136
Period size: 41 Copynumber: 4.0 Consensus size: 39
7180191 ATTTAAACAG
* *
7180201 ATTCACCGGCATTTAGCCTGCTAGGATCAAAGCCTGATTT
1 ATTCACCGGCATTAAGCCTGCTAGGA-CAAAGCCTGAATT
* *
7180241 AGTACACCGGCACTT-AGCCTGCTA-GACATATAGTCTGAAATGT
1 A-TTCACCGGCA-TTAAGCCTGCTAGGACA-A-AGCCTG-AAT-T
*
7180284 A-TCACCGGCATTAAGCCTGCTA-GACGTAAAGTCTGAATT
1 ATTCACCGGCATTAAGCCTGCTAGGAC--AAAGCCTGAATT
7180323 ACTTCACCGGCATTAAGCCTGCTAGGTACAGAA-CCTGAAT
1 A-TTCACCGGCATTAAGCCTGCTAGG-ACA-AAGCCTGAAT
7180363 ATCACAAATA
Statistics
Matches: 103, Mismatches: 5, Indels: 27
0.76 0.04 0.20
Matches are distributed among these distances:
39 4 0.04
40 9 0.09
41 77 0.75
42 8 0.08
43 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (39 bp):
ATTCACCGGCATTAAGCCTGCTAGGACAAAGCCTGAATT
Found at i:7202637 original size:15 final size:16
Alignment explanation
Indices: 7202607--7202645 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
7202597 TAGTAAAAAT
7202607 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
7202624 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
7202639 ATAATTT
1 ATAATTT
7202646 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:7202638 original size:24 final size:25
Alignment explanation
Indices: 7202606--7202736 Score: 70
Period size: 24 Copynumber: 5.0 Consensus size: 25
7202596 ATAGTAAAAA
*
7202606 TATAATTTTATTATTTT-AATAATT
1 TATATTTTTATTATTTTAAATAATT
* *
7202630 TATATTTTTATAATTTTTAAAAAATT
1 TATATTTTTATTA-TTTTAAATAATT
* * **
7202656 AAATTAATTTTT-TATATTTATTAAAAGAAAA
1 -TA-T-ATTTTTAT-TA-TT-TT-AAATAATT
*
7202687 TATAATTTTATTATTTT-AATAATT
1 TATATTTTTATTATTTTAAATAATT
* *
7202711 TATATTTTTATAATTTTTAAAAAATT
1 TATATTTTTATTA-TTTTAAATAATT
7202737 AAATTAATTT
Statistics
Matches: 80, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
24 26 0.32
25 8 0.10
26 14 0.17
27 3 0.04
28 9 0.11
29 12 0.15
30 3 0.04
31 5 0.06
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (25 bp):
TATATTTTTATTATTTTAAATAATT
Found at i:7202687 original size:81 final size:81
Alignment explanation
Indices: 7202602--7202782 Score: 362
Period size: 81 Copynumber: 2.2 Consensus size: 81
7202592 TATGATAGTA
7202602 AAAATATAATTTTATTATTTTAATAATTTATATTTTTATAATTTTTAAAAAATTAAATTAATTTT
1 AAAATATAATTTTATTATTTTAATAATTTATATTTTTATAATTTTTAAAAAATTAAATTAATTTT
7202667 TTATATTTATTAAAAG
66 TTATATTTATTAAAAG
7202683 AAAATATAATTTTATTATTTTAATAATTTATATTTTTATAATTTTTAAAAAATTAAATTAATTTT
1 AAAATATAATTTTATTATTTTAATAATTTATATTTTTATAATTTTTAAAAAATTAAATTAATTTT
7202748 TTATATTTATTAAAAG
66 TTATATTTATTAAAAG
7202764 AAAATATAATTTTATTATT
1 AAAATATAATTTTATTATT
7202783 ACTAATTTAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (81 bp):
AAAATATAATTTTATTATTTTAATAATTTATATTTTTATAATTTTTAAAAAATTAAATTAATTTT
TTATATTTATTAAAAG
Found at i:7202718 original size:15 final size:16
Alignment explanation
Indices: 7202688--7202726 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
7202678 AAAAGAAAAT
7202688 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
7202705 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
7202720 ATAATTT
1 ATAATTT
7202727 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:7202773 original size:29 final size:28
Alignment explanation
Indices: 7202634--7202781 Score: 105
Period size: 30 Copynumber: 5.2 Consensus size: 28
7202624 ATAATTTATA
7202634 TTTTTATAATTTTTAAAAAATTAAAT-TAAT
1 TTTTTAT-ATTTTTAAAAAA--AAATATAAT
*
7202664 TTTTTATATTTATTAAAAGAAAATATAAT
1 TTTTTATATTT-TTAAAAAAAAATATAAT
* * **
7202693 TTTAT-TA-TTTT--AATAATTTAT-A-
1 TTTTTATATTTTTAAAAAAAAATATAAT
7202715 TTTTTATAATTTTTAAAAAATTAAAT-TAAT
1 TTTTTAT-ATTTTTAAAAAA--AAATATAAT
*
7202745 TTTTTATATTTATTAAAAGAAAATATAAT
1 TTTTTATATTT-TTAAAAAAAAATATAAT
7202774 TTTATTAT
1 TTT-TTAT
7202782 TACTAATTTA
Statistics
Matches: 94, Mismatches: 10, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
22 4 0.04
23 2 0.02
24 8 0.09
25 4 0.04
26 2 0.02
27 5 0.05
28 11 0.12
29 26 0.28
30 32 0.34
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (28 bp):
TTTTTATATTTTTAAAAAAAAATATAAT
Found at i:7206567 original size:136 final size:135
Alignment explanation
Indices: 7206318--7206576 Score: 319
Period size: 136 Copynumber: 1.9 Consensus size: 135
7206308 TGTATTCATA
* * * * *
7206318 TGATATTATCAATATTAGTTTTCTTTATGAATGAATTGTTTTAGAAATTAGCTCCAAATCATGGT
1 TGATATTATCAATAGTAGTTGTCTTTATGAATGAATAGTTTCAGAAATCAGCTCCAAATCATGGT
* * *
7206383 GTCTAGAATCTACAACAAATGGTGATATGGAATTTTTACATACTTTCAGGTTTCTCAGCATGGCA
66 GTCTAGAATCTACAACAAATGGTGACATGGAATTATTACATACTTTCAGATTTCTCAGCATGGCA
7206448 ACATG
131 ACATG
* * * *
7206453 TGATATTATCATTAGTAGTTGTCTTTATGAATGAATAGTTTCAGAAATCCCGGTCCAAATTATGG
1 TGATATTATCAATAGTAGTTGTCTTTATGAATGAATAGTTTCAGAAAT-CAGCTCCAAATCATGG
* *
7206518 TGTCTA-AAT-TGCGGAACCAAA-GGTGCCATGGAATTATTACATA-TATTCAGATTTCTCAG
65 TGTCTAGAATCTAC--AA-CAAATGGTGACATGGAATTATTACATACT-TTCAGATTTCTCAG
7206577 TGTGGAAAGC
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
134 2 0.02
135 47 0.45
136 52 0.50
137 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (135 bp):
TGATATTATCAATAGTAGTTGTCTTTATGAATGAATAGTTTCAGAAATCAGCTCCAAATCATGGT
GTCTAGAATCTACAACAAATGGTGACATGGAATTATTACATACTTTCAGATTTCTCAGCATGGCA
ACATG
Found at i:7250839 original size:41 final size:41
Alignment explanation
Indices: 7250732--7251066 Score: 222
Period size: 41 Copynumber: 7.8 Consensus size: 41
7250722 ATTATACAGG
* * * *
7250732 TCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGACTTTCAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATC---G-C-ATCA-GA
* *
7250779 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGCATCAGA
* * * * *
7250820 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGCA-TCA-GA
* * *
7250863 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGCATCAGA
* * *
7250904 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATC---G-C-ATCAGA
* * ** *** *
7250950 TCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAAAAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGA-TCGCAT--CAGA
* ** *
7250994 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTATCCA-A
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGCAT-CAGA
* * *
7251035 TCTTATCTTCCTGAGGTTACAGTGGAGCAGAT
1 TCTTATCTCCCTGAAGTTACAGTGGAGTAGAT
7251067 TGAAGCCGAT
Statistics
Matches: 224, Mismatches: 54, Indels: 26
0.74 0.18 0.09
Matches are distributed among these distances:
41 89 0.40
42 9 0.04
43 36 0.16
44 31 0.14
45 1 0.00
46 30 0.13
47 28 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGCATCAGA
Found at i:7250886 original size:84 final size:84
Alignment explanation
Indices: 7250732--7250942 Score: 341
Period size: 84 Copynumber: 2.5 Consensus size: 84
7250722 ATTATACAGG
*
7250732 TCTTATCTCCCTGAGGTTACAGTGGAATAGACCGAAGACTTTCAGGATCTTATCTCTCTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA----CAGGATCTTATCTCTCTGAAGTT
7250797 ACAGTAGAGTAGATCGCATCAGA
62 ACAGTAGAGTAGATCGCATCAGA
* * *
7250820 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAGGATCTTATCTCTCTGAAGTTACAG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACAGGATCTTATCTCTCTGAAGTTACAG
*
7250885 TAGAGTAGATCGCATCAGG
66 TAGAGTAGATCGCATCAGA
7250904 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAC
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAC
7250943 TTTCAGATCC
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
84 81 0.70
88 34 0.30
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (84 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACAGGATCTTATCTCTCTGAAGTTACAG
TAGAGTAGATCGCATCAGA
Found at i:7251039 original size:131 final size:130
Alignment explanation
Indices: 7250815--7251061 Score: 361
Period size: 131 Copynumber: 1.9 Consensus size: 130
7250805 GTAGATCGCA
* * ** * *
7250815 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAGGATCTTATCTCTCTGAAGT
1 TCAGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATAAAAGAAAAGATCTTATCTCTCTGAAGT
* *
7250880 TACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTT
66 TACAGCAGAGTAGATCGCATCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTT
* *
7250945 TCAGATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAG
1 TCAGATCCTATCTCCCTGAAGTTACAGCGGAGCAGA-TAAAAGAAAAGATCTTATCTCTCTGAAG
* *
7251010 TTACAGCAGAGTAGATCGTATCCA-ATCTTATCTTCCTGAGGTTACAGTGGAG
65 TTACAGCAGAGTAGATCGCAT-CAGATCTTATCTCCCTGAGGTTACAGTGGAG
7251062 CAGATTGAAG
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
130 33 0.32
131 68 0.66
132 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (130 bp):
TCAGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATAAAAGAAAAGATCTTATCTCTCTGAAGT
TACAGCAGAGTAGATCGCATCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTT
Found at i:7253887 original size:21 final size:21
Alignment explanation
Indices: 7253848--7253887 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7253838 AAATTAACTA
* *
7253848 TTGTTATTATTGTGGTTATCT
1 TTGTTATTATTATGATTATCT
*
7253869 TTGTTATTATTATTATTAT
1 TTGTTATTATTATGATTAT
7253888 TTATTTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (21 bp):
TTGTTATTATTATGATTATCT
Found at i:7256189 original size:3 final size:3
Alignment explanation
Indices: 7256181--7256241 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
7256171 TTGTATTAGT
7256181 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7256229 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
7256242 TAATTAATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7258546 original size:14 final size:15
Alignment explanation
Indices: 7258529--7258572 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
7258519 ACAGATAACT
7258529 TTAAAAATATAAAA-
1 TTAAAAATATAAAAG
7258543 TTAAAAATATTTAAAAG
1 TTAAAAATA--TAAAAG
7258560 TTAAAAA-ATAAAA
1 TTAAAAATATAAAA
7258573 AAATTTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 14 0.52
16 6 0.22
17 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
TTAAAAATATAAAAG
Found at i:7258574 original size:16 final size:15
Alignment explanation
Indices: 7258531--7258573 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
7258521 AGATAACTTT
7258531 AAAAATATAAAATTA
1 AAAAATATAAAATTA
*
7258546 AAAATATTTAAAAGTTA
1 AAAA-ATATAAAA-TTA
7258563 AAAAATA-AAAA
1 AAAAATATAAAA
7258574 AATTTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 8 0.33
16 9 0.38
17 7 0.29
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATATAAAATTA
Found at i:7262521 original size:21 final size:20
Alignment explanation
Indices: 7262488--7262545 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
7262478 GATGACATTT
7262488 ACTTAACATAATTAGTGATTAA
1 ACTTAA-ATAATTAGTGATT-A
7262510 ACTTAAATAATTAAG-GATTA
1 ACTTAAATAATT-AGTGATTA
*
7262530 ACTTAATTAAATTAGT
1 ACTTAAAT-AATTAGT
7262546 TTAATTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.31
21 14 0.44
22 8 0.25
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (20 bp):
ACTTAAATAATTAGTGATTA
Found at i:7269254 original size:42 final size:43
Alignment explanation
Indices: 7269173--7269256 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
7269163 ATCATGTCGT
*
7269173 TTACTATTTTCACATAATACTAAAAAAAAGCAAGTCATTTTAG
1 TTACTATTTTCACATAATACTAAAAAAAACCAAGTCATTTTAG
*
7269216 TTACTATTTTCACATAATACT-AAAAAAACCATGTCATTTTA
1 TTACTATTTTCACATAATACTAAAAAAAACCAAGTCATTTTA
7269257 ATTAATGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 18 0.46
43 21 0.54
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (43 bp):
TTACTATTTTCACATAATACTAAAAAAAACCAAGTCATTTTAG
Found at i:7276692 original size:31 final size:30
Alignment explanation
Indices: 7276639--7276697 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
7276629 ATATTTAATT
*
7276639 ACATTGAATCAAAGTTCATGTATTAAATTGC
1 ACATTGAATCAAAATTCATGTA-TAAATTGC
* **
7276670 ACATTGGATCAAAATTTGTGTATAAATT
1 ACATTGAATCAAAATTCATGTATAAATT
7276698 TGAAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (30 bp):
ACATTGAATCAAAATTCATGTATAAATTGC
Found at i:7277121 original size:21 final size:21
Alignment explanation
Indices: 7277097--7277149 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7277087 CATTGTTTCT
*
7277097 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
7277118 AATCTCACTGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
7277139 AATCTCACCGC
1 AATCTCACCGC
7277150 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:7278682 original size:13 final size:13
Alignment explanation
Indices: 7278664--7278695 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
7278654 AAACTAAACG
7278664 CACCGCACTAACC
1 CACCGCACTAACC
7278677 CACCGCACTAACC
1 CACCGCACTAACC
7278690 CACCGC
1 CACCGC
7278696 CCGTCCAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.56, G:0.09, T:0.06
Consensus pattern (13 bp):
CACCGCACTAACC
Found at i:7282598 original size:183 final size:183
Alignment explanation
Indices: 7282277--7282822 Score: 894
Period size: 183 Copynumber: 3.0 Consensus size: 183
7282267 CAGCATTATT
* * **
7282277 CACTGTCGAATTCTTATTTAACTCTAGTACCAGTTCAGCAGTTGAAGACTCCTTCGGAGCTTTGG
1 CACTGTTGAATTCTTATTTAACTC---TACCGGTTCAGCAGTTGAAGACTCCTTCCAAGCTTTGG
* *
7282342 TACCTTCATTGAATGTAGAAGATTTATTCAAGCCCACATCTGCTTCTGTTATAATATCAGTATCT
63 TACCTTCATCGAATGTAGAAGATTTATTCAAGCCCACATCTGCTTCTGTTATAACATCAGTATCT
7282407 ATGTCTCTCCCTTCAAAGATCTCATCATCATGAGCTGTCTCATTACCGGCGTTGTC
128 ATGTCTCTCCCTTCAAAGATCTCATCATCATGAGCTGTCTCATTACCGGCGTTGTC
*
7282463 CACTGTTGAATTCTTATTTAACTCTACCGGTTCAGCAGTTGAAGACTCCTTCCAAGCTTTAGTAC
1 CACTGTTGAATTCTTATTTAACTCTACCGGTTCAGCAGTTGAAGACTCCTTCCAAGCTTTGGTAC
* *
7282528 CTTCATCGAATGTAGAAGATTTATTCAAGCCCACATCTGCTTCTGTTATAACATCAGCATCTAAG
66 CTTCATCGAATGTAGAAGATTTATTCAAGCCCACATCTGCTTCTGTTATAACATCAGTATCTATG
*
7282593 TCTCTCCCTTCAAAGATCTCATCATCATGAGCTGTCTCATTACCGGCTTTGTC
131 TCTCTCCCTTCAAAGATCTCATCATCATGAGCTGTCTCATTACCGGCGTTGTC
* *
7282646 CGCTGTTGAATTCTTATTTAACTCTACCGGTTCAGCAGTCGAAGACTCCTTCCAAGCTTTGGTAC
1 CACTGTTGAATTCTTATTTAACTCTACCGGTTCAGCAGTTGAAGACTCCTTCCAAGCTTTGGTAC
* *
7282711 CTTCACCGAATGTAGAAGATTTATTCAACCCCACATCTGCTTCTGTTATAACATCAGTATCTATG
66 CTTCATCGAATGTAGAAGATTTATTCAAGCCCACATCTGCTTCTGTTATAACATCAGTATCTATG
* * * * *
7282776 TCTTTCCCTTCGAAGATCTCATCATCGTGAACCGTCTCATTACCGGC
131 TCTCTCCCTTCAAAGATCTCATCATCATGAGCTGTCTCATTACCGGC
7282823 ATTTGTACCA
Statistics
Matches: 338, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
183 315 0.93
186 23 0.07
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.34
Consensus pattern (183 bp):
CACTGTTGAATTCTTATTTAACTCTACCGGTTCAGCAGTTGAAGACTCCTTCCAAGCTTTGGTAC
CTTCATCGAATGTAGAAGATTTATTCAAGCCCACATCTGCTTCTGTTATAACATCAGTATCTATG
TCTCTCCCTTCAAAGATCTCATCATCATGAGCTGTCTCATTACCGGCGTTGTC
Found at i:7288709 original size:18 final size:18
Alignment explanation
Indices: 7288678--7288722 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
7288668 AAAATAAATA
* * *
7288678 TAATTTATTCAATTAATT
1 TAATTAATTAAATTAACT
7288696 TAATTAATTAAATTAACT
1 TAATTAATTAAATTAACT
*
7288714 AAATTAATT
1 TAATTAATT
7288723 TCTCAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTAATTAAATTAACT
Found at i:7292077 original size:23 final size:23
Alignment explanation
Indices: 7292046--7292094 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
7292036 ACTTACTTTC
* * *
7292046 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
7292069 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
7292092 TTA
1 TTA
7292095 TAGTCATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:7293468 original size:59 final size:60
Alignment explanation
Indices: 7293395--7293509 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
7293385 GTAACCCCAC
* * * * *
7293395 TATTAGTGAATTTC-TTTTTAGTCACCCAACTATGAAAAGTTACAAAATGATCACCCAAT
1 TATTAGTAAATTTCTTTTTTAATCACCAAACTATAAAAAGTTACAAAATAATCACCCAAT
*
7293454 TATTAGTAAATTTCTTTTTTAATCATCAAACTATAAAAAGTTACAAAATAATCACC
1 TATTAGTAAATTTCTTTTTTAATCACCAAACTATAAAAAGTTACAAAATAATCACC
7293510 TAACTATTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 13 0.27
60 36 0.73
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (60 bp):
TATTAGTAAATTTCTTTTTTAATCACCAAACTATAAAAAGTTACAAAATAATCACCCAAT
Found at i:7296366 original size:14 final size:14
Alignment explanation
Indices: 7296347--7296374 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7296337 TAACTGGCTC
7296347 GAAGTCACATTTTT
1 GAAGTCACATTTTT
7296361 GAAGTCACATTTTT
1 GAAGTCACATTTTT
7296375 ACTCTCGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
GAAGTCACATTTTT
Found at i:7296951 original size:19 final size:19
Alignment explanation
Indices: 7296922--7296965 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
7296912 AAATACTATC
7296922 AATTT-AAATTTAATTTAA
1 AATTTAAAATTTAATTTAA
* *
7296940 AATTTAAAATTTTATTTTA
1 AATTTAAAATTTAATTTAA
7296959 AATTTAA
1 AATTTAA
7296966 TCCTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTAAAATTTAATTTAA
Found at i:7302470 original size:31 final size:31
Alignment explanation
Indices: 7302435--7302498 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
7302425 TATTAAAAAT
* *
7302435 AAAAGTATAACAATTAAATTTT-AAATTTATA
1 AAAAGTATAAAAAATAAATTTTAAAATTT-TA
*
7302466 AAAAGTATAAAAAATATATTTTAAAATTTTA
1 AAAAGTATAAAAAATAAATTTTAAAATTTTA
7302497 AA
1 AA
7302499 TATGTTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 23 0.79
32 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAAGTATAAAAAATAAATTTTAAAATTTTA
Found at i:7304207 original size:13 final size:13
Alignment explanation
Indices: 7304182--7304217 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7304172 ATACTTTTTC
*
7304182 TTCAGTTTTTGTT
1 TTCAGTTTCTGTT
*
7304195 TTCGGTTTCTGTT
1 TTCAGTTTCTGTT
7304208 TTCAGTTTCT
1 TTCAGTTTCT
7304218 ATTGAACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.14, G:0.17, T:0.64
Consensus pattern (13 bp):
TTCAGTTTCTGTT
Found at i:7333532 original size:14 final size:14
Alignment explanation
Indices: 7333510--7333553 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
7333500 TTTTATACAT
* *
7333510 ATTACAAATTATAG
1 ATTATAAATTATAA
*
7333524 ATTATAAATGATAA
1 ATTATAAATTATAA
*
7333538 ATGATAAATTATAA
1 ATTATAAATTATAA
7333552 AT
1 AT
7333554 ATGATATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (14 bp):
ATTATAAATTATAA
Found at i:7335990 original size:22 final size:20
Alignment explanation
Indices: 7335947--7335985 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7335937 TAATTTAAAA
7335947 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
7335967 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
7335986 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:7336109 original size:20 final size:20
Alignment explanation
Indices: 7336084--7336123 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7336074 AATATTTTCC
*
7336084 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7336104 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7336124 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7336138 original size:34 final size:35
Alignment explanation
Indices: 7336072--7336138 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
7336062 CAAACACCAG
*
7336072 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
7336107 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7336139 CATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7337302 original size:17 final size:16
Alignment explanation
Indices: 7337273--7337308 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
7337263 GATGTGGATG
7337273 AAAAATATCTATATTA
1 AAAAATATCTATATTA
*
7337289 AAAATATATTTATATTA
1 AAAA-ATATCTATATTA
7337306 AAA
1 AAA
7337309 TCATGTAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAAATATCTATATTA
Found at i:7339249 original size:14 final size:14
Alignment explanation
Indices: 7339218--7339257 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
7339208 TTTAAATTTT
7339218 ATTTTAATAA-AA-A
1 ATTTTAA-AATAATA
7339231 ATTTTAAAATAATA
1 ATTTTAAAATAATA
7339245 ATTTT-AAATAATA
1 ATTTTAAAATAATA
7339258 TTCTTCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 17 0.68
14 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTTTAAAATAATA
Found at i:7339310 original size:15 final size:15
Alignment explanation
Indices: 7339290--7339346 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7339280 ATTCAATATT
7339290 AATATTTTAATAATA
1 AATATTTTAATAATA
*
7339305 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
7339324 AATATATTAATAATA
1 AATATTTTAATAATA
*
7339339 AATGTTTT
1 AATATTTT
7339347 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:7343036 original size:27 final size:27
Alignment explanation
Indices: 7342983--7343036 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7342973 TTTAAATCTG
* * *
7342983 ATTATATAATATTTAACAATTATTATT
1 ATTATATAATATTTAAAAATGAATATT
7343010 ATTATATAATA-TTAATAAATGAATATT
1 ATTATATAATATTTAA-AAATGAATATT
7343037 TAAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATATAATATTTAAAAATGAATATT
Found at i:7349615 original size:3 final size:3
Alignment explanation
Indices: 7349607--7349635 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7349597 TGGATGCCCT
7349607 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
7349636 TTTTCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:7353950 original size:24 final size:24
Alignment explanation
Indices: 7353923--7353971 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
7353913 TCAAAGCACG
7353923 ATACATAGTCTTGTCCAAAAATTC
1 ATACATAGTCTTGTCCAAAAATTC
*
7353947 ATACATAGTCTTGTCCATAAATTC
1 ATACATAGTCTTGTCCAAAAATTC
7353971 A
1 A
7353972 AGAGCAGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (24 bp):
ATACATAGTCTTGTCCAAAAATTC
Found at i:7362748 original size:28 final size:28
Alignment explanation
Indices: 7362708--7362764 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
7362698 CTTTTTACTA
7362708 TATTTGCCTGTTTAAGGGCATTTCTCGG
1 TATTTGCCTGTTTAAGGGCATTTCTCGG
7362736 TATTTGCCTGTTTAAGGGCATTTCTCGG
1 TATTTGCCTGTTTAAGGGCATTTCTCGG
7362764 T
1 T
7362765 TTAACATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.44
Consensus pattern (28 bp):
TATTTGCCTGTTTAAGGGCATTTCTCGG
Found at i:7369799 original size:89 final size:88
Alignment explanation
Indices: 7369614--7369783 Score: 209
Period size: 89 Copynumber: 1.9 Consensus size: 88
7369604 ACATATGTTA
* *
7369614 TAGTAAAAAAAACATAGGTACTTAATTGGGAGAAAAAAAAGCTCAGATATCAAATTGAACATTGA
1 TAGT-AAAAAAACATAGGTACTTAATTGGGACAAAAAAAAACTCAGATATCAAATTGAACATTGA
* *
7369679 AGACAAATTTAGGTACCTAAGTTC
65 AGACAAACTTAGATACCTAAGTTC
* * * * *
7369703 TAGTAAAAAAATATATGTGCTTAATTGGGACAAAAAAAATACTCAGGT-GCTAAATTGAACATTG
1 TAGTAAAAAAACATAGGTACTTAATTGGGACAAAAAAAA-ACTCAGATATC-AAATTGAACATTG
7369767 AA-ACCAAACTTAGATAC
64 AAGA-CAAACTTAGATAC
7369784 TTAATTTGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
88 33 0.48
89 36 0.52
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (88 bp):
TAGTAAAAAAACATAGGTACTTAATTGGGACAAAAAAAAACTCAGATATCAAATTGAACATTGAA
GACAAACTTAGATACCTAAGTTC
Found at i:7369827 original size:23 final size:24
Alignment explanation
Indices: 7369796--7369841 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
7369786 AATTTGGGTT
*
7369796 AAAACAAACTCAAGTATCAAATTG
1 AAAACAAACTCAAGTACCAAATTG
7369820 AAAA-AAACTCAAGTACCAAATT
1 AAAACAAACTCAAGTACCAAATT
7369842 AAATATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.57, C:0.17, G:0.07, T:0.20
Consensus pattern (24 bp):
AAAACAAACTCAAGTACCAAATTG
Found at i:7370747 original size:19 final size:20
Alignment explanation
Indices: 7370720--7370765 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7370710 GCTTTTAAAG
*
7370720 TATACTTATTTTTTAT-TTT
1 TATATTTATTTTTTATGTTT
*
7370739 TATATTTATTTTTTTTGTTT
1 TATATTTATTTTTTATGTTT
7370759 TA-ATTTA
1 TATATTTA
7370766 ATATCTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TATATTTATTTTTTATGTTT
Found at i:7371061 original size:32 final size:32
Alignment explanation
Indices: 7371025--7371086 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
7371015 TAAATTAGTT
7371025 GAAATTA-ATAATATTATTAAAAAA-TGTAAAAA
1 GAAATTATA-AATATTA-TAAAAAATTGTAAAAA
*
7371057 GAAATTGTAAATATTATAAAAAATTGTAAA
1 GAAATTATAAATATTATAAAAAATTGTAAA
7371087 GATATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 7 0.26
32 19 0.70
33 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (32 bp):
GAAATTATAAATATTATAAAAAATTGTAAAAA
Found at i:7371098 original size:18 final size:19
Alignment explanation
Indices: 7371058--7371099 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
7371048 ATGTAAAAAG
*
7371058 AAATTGTAAATATTATAAA
1 AAATTGTAAAGATTATAAA
*
7371077 AAATTGTAAAGA-TATTAA
1 AAATTGTAAAGATTATAAA
7371095 AAATT
1 AAATT
7371100 AATTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
AAATTGTAAAGATTATAAA
Found at i:7371219 original size:20 final size:19
Alignment explanation
Indices: 7371173--7371209 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7371163 TATGTACATT
7371173 TTTTAAATTTTTATATATTA
1 TTTT-AATTTTTATATATTA
7371193 TTTTAATTTTT-TATATT
1 TTTTAATTTTTATATATT
7371210 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTAATTTTTATATATTA
Found at i:7371407 original size:20 final size:19
Alignment explanation
Indices: 7371358--7371424 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
7371348 AATAGTATTT
7371358 TTTAATATTTAACTATTTATTA
1 TTTAA-ATTTAA-TATTT-TTA
**
7371380 -TTATAATTTTTTATTTTTAA
1 TTTA-AATTTAATATTTTT-A
7371400 TTTAAATTTAATATTTTTA
1 TTTAAATTTAATATTTTTA
7371419 TTTAAA
1 TTTAAA
7371425 CAAATTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
19 9 0.24
20 18 0.47
21 10 0.26
22 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAAATTTAATATTTTTA
Found at i:7371898 original size:22 final size:19
Alignment explanation
Indices: 7371834--7371889 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
7371824 AATCTTCAAG
* *
7371834 GATATGCAATCTTAGCTAT
1 GATATGCAATCTTGGATAT
7371853 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
7371874 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
7371890 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:7373734 original size:40 final size:39
Alignment explanation
Indices: 7373680--7373761 Score: 146
Period size: 40 Copynumber: 2.1 Consensus size: 39
7373670 AGATATCTGC
7373680 CTCATCTCCAACCATACAAACTATTTAACTACTATACTA
1 CTCATCTCCAACCATACAAACTATTTAACTACTATACTA
*
7373719 CTCATTCTCCAACCATACAAACTATTTAACTACTATGCTA
1 CTCA-TCTCCAACCATACAAACTATTTAACTACTATACTA
7373759 CTC
1 CTC
7373762 CGACTCTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 4 0.10
40 37 0.90
ACGTcount: A:0.35, C:0.32, G:0.01, T:0.32
Consensus pattern (39 bp):
CTCATCTCCAACCATACAAACTATTTAACTACTATACTA
Found at i:7376401 original size:21 final size:21
Alignment explanation
Indices: 7376376--7376415 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7376366 TACTATTAAA
* *
7376376 TTTAAAATATATAAATAATTT
1 TTTAAAAAATAAAAATAATTT
7376397 TTTAAAAAATAAAAATAAT
1 TTTAAAAAATAAAAATAAT
7376416 ATGAGTAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAAAAAATAAAAATAATTT
Found at i:7378947 original size:16 final size:16
Alignment explanation
Indices: 7378926--7378969 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
7378916 AAATGCCACG
7378926 TTTTATTAATAAAAAA
1 TTTTATTAATAAAAAA
* *
7378942 TTTTATTGAGAAAAAA
1 TTTTATTAATAAAAAA
**
7378958 AGTTATTAATAA
1 TTTTATTAATAA
7378970 TTTTTTTATG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
TTTTATTAATAAAAAA
Found at i:7380882 original size:2 final size:2
Alignment explanation
Indices: 7380875--7380901 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7380865 TCATAGTCTT
7380875 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7380902 TTAAGGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7386416 original size:14 final size:14
Alignment explanation
Indices: 7386397--7386436 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7386387 TTGATTGCCA
*
7386397 GTAAAATGTTTTTT
1 GTAAAATGTTTTCT
*
7386411 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
7386425 GGAAAATGTTTT
1 GTAAAATGTTTT
7386437 ACATTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:7386444 original size:20 final size:20
Alignment explanation
Indices: 7386419--7386458 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7386409 TTGTAAAATG
*
7386419 ATTTCTGGAAAATGTTTTAC
1 ATTTCTGGAAAATGATTTAC
*
7386439 ATTTCTGTAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
7386459 TGGAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:7398511 original size:20 final size:20
Alignment explanation
Indices: 7398486--7398529 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
7398476 AAAATTACAA
7398486 AAAATT-TAATAAATAAAAAT
1 AAAATTCTAA-AAATAAAAAT
* *
7398506 AAAATTCTAAAACTAAAACT
1 AAAATTCTAAAAATAAAAAT
7398526 AAAA
1 AAAA
7398530 CTAAAGTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATTCTAAAAATAAAAAT
Found at i:7398586 original size:9 final size:9
Alignment explanation
Indices: 7398568--7398631 Score: 94
Period size: 9 Copynumber: 7.2 Consensus size: 9
7398558 AGTGATTCAT
7398568 TTCGGTTAA
1 TTCGGTTAA
*
7398577 TTCGGGTAA
1 TTCGGTTAA
7398586 TTCGG-TAA
1 TTCGGTTAA
7398594 TTCGGTTAA
1 TTCGGTTAA
*
7398603 TTCGGGTAA
1 TTCGGTTAA
*
7398612 TTCGATTAA
1 TTCGGTTAA
7398621 TTCGGTTAA
1 TTCGGTTAA
7398630 TT
1 TT
7398632 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
8 8 0.16
9 41 0.84
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.42
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:7398599 original size:26 final size:27
Alignment explanation
Indices: 7398568--7398631 Score: 112
Period size: 26 Copynumber: 2.4 Consensus size: 27
7398558 AGTGATTCAT
7398568 TTCGGTTAATTCGGGTAATTCG-GTAA
1 TTCGGTTAATTCGGGTAATTCGAGTAA
*
7398594 TTCGGTTAATTCGGGTAATTCGATTAA
1 TTCGGTTAATTCGGGTAATTCGAGTAA
7398621 TTCGGTTAATT
1 TTCGGTTAATT
7398632 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.42
Consensus pattern (27 bp):
TTCGGTTAATTCGGGTAATTCGAGTAA
Found at i:7399280 original size:11 final size:11
Alignment explanation
Indices: 7399273--7399380 Score: 62
Period size: 11 Copynumber: 9.8 Consensus size: 11
7399263 AATTGTTGAT
7399273 TAAATGTTGTC
1 TAAATGTTGTC
*
7399284 CAAATGTTGAT-
1 TAAATGTTG-TC
*
7399295 TTAATGTTGTC
1 TAAATGTTGTC
* *
7399306 CAATTGTTGAT-
1 TAAATGTTG-TC
* *
7399317 TGATTGTTGTC
1 TAAATGTTGTC
* *
7399328 CAATTGTTGAT-
1 TAAATGTTG-TC
7399339 TAAATGTTGTC
1 TAAATGTTGTC
* *
7399350 CAAATGTTAAT-
1 TAAATGTT-GTC
7399361 TAAATGTTGTC
1 TAAATGTTGTC
7399372 TAAATGTTG
1 TAAATGTTG
7399381 GATAATTGCT
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
10 4 0.05
11 65 0.89
12 4 0.05
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (11 bp):
TAAATGTTGTC
Found at i:7399286 original size:22 final size:22
Alignment explanation
Indices: 7399258--7399380 Score: 174
Period size: 22 Copynumber: 5.6 Consensus size: 22
7399248 CCACGATTGC
*
7399258 TGTCCAATTGTTGATTAAATGT
1 TGTCCAAATGTTGATTAAATGT
*
7399280 TGTCCAAATGTTGATTTAATGT
1 TGTCCAAATGTTGATTAAATGT
* * *
7399302 TGTCCAATTGTTGATTGATTGT
1 TGTCCAAATGTTGATTAAATGT
*
7399324 TGTCCAATTGTTGATTAAATGT
1 TGTCCAAATGTTGATTAAATGT
*
7399346 TGTCCAAATGTTAATTAAATGT
1 TGTCCAAATGTTGATTAAATGT
*
7399368 TGTCTAAATGTTG
1 TGTCCAAATGTTG
7399381 GATAATTGCT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 90 1.00
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.46
Consensus pattern (22 bp):
TGTCCAAATGTTGATTAAATGT
Found at i:7399898 original size:30 final size:30
Alignment explanation
Indices: 7399864--7399963 Score: 139
Period size: 30 Copynumber: 3.2 Consensus size: 30
7399854 TATAAGCTTA
7399864 AATATATATATTGAATATTCGAATGGTATG
1 AATATATATATTGAATATTCGAATGGTATG
*
7399894 AATATA-ATAGTGAATAGGTTCGAACTATGGTATG
1 AATATATATATTGAATA--TTCG-A--ATGGTATG
7399928 AATATATATATTGAATATTCGAATGGTATG
1 AATATATATATTGAATATTCGAATGGTATG
7399958 AATATA
1 AATATA
7399964 GATGTCCAGT
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
29 9 0.15
30 20 0.32
31 4 0.06
32 2 0.03
33 4 0.06
34 14 0.23
35 9 0.15
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (30 bp):
AATATATATATTGAATATTCGAATGGTATG
Found at i:7401088 original size:10 final size:10
Alignment explanation
Indices: 7401073--7401166 Score: 72
Period size: 11 Copynumber: 9.6 Consensus size: 10
7401063 TTCACGGTCA
*
7401073 AAAAATCATT
1 AAAAATTATT
7401083 AAAAATTATT
1 AAAAATTATT
*
7401093 TAAAATTA-T
1 AAAAATTATT
*
7401102 AAAAA-AATT
1 AAAAATTATT
7401111 AAAAA-TA-T
1 AAAAATTATT
*
7401119 AAAAATTAGTA
1 AAAAATTA-TT
7401130 AAAAATTATTT
1 AAAAATTA-TT
*
7401141 AGAAATT-TT
1 AAAAATTATT
*
7401150 TAAAATTATTT
1 AAAAATTA-TT
7401161 AAAAAT
1 AAAAAT
7401167 ATAAAAACAT
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
8 7 0.11
9 21 0.32
10 16 0.24
11 22 0.33
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:7401131 original size:18 final size:18
Alignment explanation
Indices: 7401082--7401133 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
7401072 AAAAAATCAT
*
7401082 TAAAAATTATTTAAAATTA
1 TAAAAATTA-TTAAAAATA
*
7401101 TAAAAA-AATTAAAAATA
1 TAAAAATTATTAAAAATA
*
7401118 TAAAAATTAGTAAAAA
1 TAAAAATTATTAAAAA
7401134 ATTATTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 14 0.50
18 8 0.29
19 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAAATTATTAAAAATA
Found at i:7401251 original size:26 final size:27
Alignment explanation
Indices: 7401208--7401264 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
7401198 TATATAAATA
*
7401208 GATATGTTATTATATATTATAGATTTT
1 GATATGTTATTATATATTATAAATTTT
*
7401235 GATA-GTTGTTATATATTATAAATTTT
1 GATATGTTATTATATATTATAAATTTT
7401261 GATA
1 GATA
7401265 CCCGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
GATATGTTATTATATATTATAAATTTT
Found at i:7401271 original size:26 final size:26
Alignment explanation
Indices: 7401217--7401271 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
7401207 AGATATGTTA
* ***
7401217 TTATATATTATAGATTTTGATAGTTG
1 TTATATATTATAAATTTTGATACCCG
7401243 TTATATATTATAAATTTTGATACCCG
1 TTATATATTATAAATTTTGATACCCG
7401269 TTA
1 TTA
7401272 AAAATGTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (26 bp):
TTATATATTATAAATTTTGATACCCG
Found at i:7404973 original size:20 final size:20
Alignment explanation
Indices: 7404948--7404985 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7404938 CTTTCCACAT
*
7404948 TCAATTCATGAGTATATAGC
1 TCAATTCATGAATATATAGC
*
7404968 TCAATTTATGAATATATA
1 TCAATTCATGAATATATA
7404986 ACTCGTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
TCAATTCATGAATATATAGC
Found at i:7405150 original size:22 final size:23
Alignment explanation
Indices: 7405124--7405183 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
7405114 ATGCACTAAT
7405124 GAACAGAGAGCACAGATGTGCTA
1 GAACAGAGAGCACAGATGTGCTA
* *
7405147 -AACAGATAGCACTGATGTGCTA
1 GAACAGAGAGCACAGATGTGCTA
7405169 GTAATCAGAGAGCAC
1 G-AA-CAGAGAGCAC
7405184 CAACGTGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 20 0.65
24 2 0.06
25 9 0.29
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (23 bp):
GAACAGAGAGCACAGATGTGCTA
Found at i:7405183 original size:25 final size:24
Alignment explanation
Indices: 7405127--7405205 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 24
7405117 CACTAATGAA
7405127 CAGAGAGCACAGATGTGCTA-AA-
1 CAGAGAGCACAGATGTGCTATAAT
* *
7405149 CAGATAGCACTGATGTGCTAGTAAT
1 CAGAGAGCACAGATGTGCTA-TAAT
*
7405174 CAGAGAGCACCA-ACGTGCTAATAAT
1 CAGAGAGCA-CAGATGTGCT-ATAAT
7405199 CAGAGAG
1 CAGAGAG
7405206 GACGCTAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 18 0.38
24 2 0.04
25 25 0.53
26 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (24 bp):
CAGAGAGCACAGATGTGCTATAAT
Found at i:7405820 original size:31 final size:31
Alignment explanation
Indices: 7405785--7405843 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
7405775 TTACAACATA
*
7405785 TTTCATATTCTATTTTCAATTCACTATCGTT
1 TTTCACATTCTATTTTCAATTCACTATCGTT
7405816 TTTCACATTCTATTTTCAATTCACTATC
1 TTTCACATTCTATTTTCAATTCACTATC
7405844 TCATATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTCACATTCTATTTTCAATTCACTATCGTT
Found at i:7405964 original size:22 final size:22
Alignment explanation
Indices: 7405936--7405999 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
7405926 ACTAATGAAT
*
7405936 AGAGAGCACTGAAGTGCTATAC
1 AGAGAGCACTGAAGTGCTAAAC
* *
7405958 AGAGAGCACAT-ATGTGCCAAAC
1 AGAGAGCAC-TGAAGTGCTAAAC
* *
7405980 GGAGAGCACTGACGTGCTAA
1 AGAGAGCACTGAAGTGCTAA
7406000 TAATCGGAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (22 bp):
AGAGAGCACTGAAGTGCTAAAC
Found at i:7407701 original size:13 final size:13
Alignment explanation
Indices: 7407683--7407709 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7407673 CCAATTTTTC
7407683 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
7407696 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
7407709 C
1 C
7407710 CTTCTCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:7413954 original size:10 final size:10
Alignment explanation
Indices: 7413939--7414032 Score: 72
Period size: 11 Copynumber: 9.6 Consensus size: 10
7413929 TTCACGGTCA
*
7413939 AAAAATCATT
1 AAAAATTATT
7413949 AAAAATTATT
1 AAAAATTATT
*
7413959 TAAAATTA-T
1 AAAAATTATT
*
7413968 AAAAA-AATT
1 AAAAATTATT
7413977 AAAAA-TA-T
1 AAAAATTATT
*
7413985 AAAAATTAGTA
1 AAAAATTA-TT
7413996 AAAAATTATTT
1 AAAAATTA-TT
*
7414007 AGAAATT-TT
1 AAAAATTATT
*
7414016 TAAAATTATTT
1 AAAAATTA-TT
7414027 AAAAAT
1 AAAAAT
7414033 ATAAAAACAT
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
8 7 0.11
9 21 0.32
10 16 0.24
11 22 0.33
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:7413997 original size:18 final size:18
Alignment explanation
Indices: 7413948--7413999 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
7413938 AAAAAATCAT
*
7413948 TAAAAATTATTTAAAATTA
1 TAAAAATTA-TTAAAAATA
*
7413967 TAAAAA-AATTAAAAATA
1 TAAAAATTATTAAAAATA
*
7413984 TAAAAATTAGTAAAAA
1 TAAAAATTATTAAAAA
7414000 ATTATTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 14 0.50
18 8 0.29
19 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAAATTATTAAAAATA
Found at i:7414117 original size:26 final size:27
Alignment explanation
Indices: 7414074--7414130 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
7414064 TATATAAATA
7414074 GATATGTTATTATATATTATAGATTTT
1 GATATGTTATTATATATTATAGATTTT
*
7414101 GATA-GTTGTTATATATTATAGATTTT
1 GATATGTTATTATATATTATAGATTTT
7414127 GATA
1 GATA
7414131 CCCGTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (27 bp):
GATATGTTATTATATATTATAGATTTT
Found at i:7414137 original size:26 final size:26
Alignment explanation
Indices: 7414083--7414137 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
7414073 AGATATGTTA
***
7414083 TTATATATTATAGATTTTGATAGTTG
1 TTATATATTATAGATTTTGATACCCG
7414109 TTATATATTATAGATTTTGATACCCG
1 TTATATATTATAGATTTTGATACCCG
7414135 TTA
1 TTA
7414138 AAAATGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (26 bp):
TTATATATTATAGATTTTGATACCCG
Found at i:7414449 original size:18 final size:19
Alignment explanation
Indices: 7414416--7414452 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
7414406 AATGAAAAAT
7414416 AAAAATTAGCAAAGTATTTC
1 AAAAATTA-CAAAGTATTTC
7414436 AAAAATTA-AAAGTATTT
1 AAAAATTACAAAGTATTT
7414453 TTAATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (19 bp):
AAAAATTACAAAGTATTTC
Found at i:7414894 original size:13 final size:13
Alignment explanation
Indices: 7414876--7414903 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7414866 ATTGGATTTG
7414876 ATTTGATTATGTA
1 ATTTGATTATGTA
7414889 ATTTGATTATGTA
1 ATTTGATTATGTA
7414902 AT
1 AT
7414904 CTTCTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
ATTTGATTATGTA
Found at i:7415398 original size:115 final size:115
Alignment explanation
Indices: 7415265--7415497 Score: 466
Period size: 115 Copynumber: 2.0 Consensus size: 115
7415255 TATACTTAAT
7415265 AATTAAAAATTAACTTTTTTTTGGTTTAAAAATCACAATTTAGTCATTTATAATTATTTTGTCAA
1 AATTAAAAATTAACTTTTTTTTGGTTTAAAAATCACAATTTAGTCATTTATAATTATTTTGTCAA
7415330 ATTTTGTAACTAAAATTTTTGATTAAAATATCTTATTAATAGAAAATAAA
66 ATTTTGTAACTAAAATTTTTGATTAAAATATCTTATTAATAGAAAATAAA
7415380 AATTAAAAATTAACTTTTTTTTGGTTTAAAAATCACAATTTAGTCATTTATAATTATTTTGTCAA
1 AATTAAAAATTAACTTTTTTTTGGTTTAAAAATCACAATTTAGTCATTTATAATTATTTTGTCAA
7415445 ATTTTGTAACTAAAATTTTTGATTAAAATATCTTATTAATAGAAAATAAA
66 ATTTTGTAACTAAAATTTTTGATTAAAATATCTTATTAATAGAAAATAAA
7415495 AAT
1 AAT
7415498 GATAAGTAAA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 118 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (115 bp):
AATTAAAAATTAACTTTTTTTTGGTTTAAAAATCACAATTTAGTCATTTATAATTATTTTGTCAA
ATTTTGTAACTAAAATTTTTGATTAAAATATCTTATTAATAGAAAATAAA
Found at i:7415537 original size:3 final size:3
Alignment explanation
Indices: 7415529--7415560 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7415519 AAAAACTATC
7415529 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7415561 AACTAGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7419691 original size:27 final size:27
Alignment explanation
Indices: 7419652--7419707 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
7419642 AGGGCACATG
*
7419652 AAAGCATGTTTAGTTATACTTCTTAAC
1 AAAGCATGCTTAGTTATACTTCTTAAC
7419679 AAAGCATGCTTAGTTATACTTCTTAAC
1 AAAGCATGCTTAGTTATACTTCTTAAC
7419706 AA
1 AA
7419708 CTACATCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (27 bp):
AAAGCATGCTTAGTTATACTTCTTAAC
Found at i:7430559 original size:15 final size:16
Alignment explanation
Indices: 7430541--7430570 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7430531 TTAATGACTT
7430541 AAAGGTTAAT-GCAAG
1 AAAGGTTAATCGCAAG
7430556 AAAGGTTAATCGCAA
1 AAAGGTTAATCGCAA
7430571 AAGGTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (16 bp):
AAAGGTTAATCGCAAG
Found at i:7440262 original size:45 final size:45
Alignment explanation
Indices: 7440198--7440286 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
7440188 TATAGACTCG
** *
7440198 GATAGACCAAATTTGGAGTTAGAACTAGGAAAAAAGAAAATGTCA
1 GATAGACCAAATTCAGAGTTAGAACGAGGAAAAAAGAAAATGTCA
*
7440243 GATAGACCAAATTCAGAGTTAGAACGAGGAAAAGAGAAAATGTC
1 GATAGACCAAATTCAGAGTTAGAACGAGGAAAAAAGAAAATGTC
7440287 GGATTAGTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.18
Consensus pattern (45 bp):
GATAGACCAAATTCAGAGTTAGAACGAGGAAAAAAGAAAATGTCA
Found at i:7440788 original size:26 final size:26
Alignment explanation
Indices: 7440745--7440912 Score: 113
Period size: 26 Copynumber: 6.8 Consensus size: 26
7440735 CCCAATATGT
*
7440745 GGCTATTTG-GAGC-TCCTGATTAAA
1 GGCTCTTTGTGAGCTTCCTGATTAAA
*
7440769 GGCTCTTCGTGAGCTTCCTGATTAAA
1 GGCTCTTTGTGAGCTTCCTGATTAAA
* * * *
7440795 AGTTCTTTGTGAACTTCCTGATT-AT
1 GGCTCTTTGTGAGCTTCCTGATTAAA
* *
7440820 GGCT-ATTATGAGCTTCCTG-TTATATA
1 GGCTCTTTGTGAGCTTCCTGATTA-A-A
**** *
7440846 -GC-CCGAATAAGCTTCCTGA-T--A
1 GGCTCTTTGTGAGCTTCCTGATTAAA
* *
7440867 GGCTCTTTGTGAGCTTCCCGATTAAT
1 GGCTCTTTGTGAGCTTCCTGATTAAA
7440893 GGCTCTTTGTGAGCTTCCTG
1 GGCTCTTTGTGAGCTTCCTG
7440913 TTATATGGCT
Statistics
Matches: 107, Mismatches: 25, Indels: 22
0.69 0.16 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 13 0.12
24 20 0.19
25 22 0.21
26 49 0.46
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAA
Found at i:7442646 original size:26 final size:26
Alignment explanation
Indices: 7442615--7442683 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
7442605 ATAGGAGCCA
* *
7442615 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAAGCTCACAAAGAACCTT
* *
7442641 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAACCTT
7442667 TAATCAGG-AGCTC-CAAA
1 TAATCAGGAAGCTCACAAA
7442684 TAGCCACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 3 0.08
25 5 0.13
26 30 0.79
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAACCTT
Found at i:7442824 original size:63 final size:65
Alignment explanation
Indices: 7442718--7442840 Score: 169
Period size: 63 Copynumber: 1.9 Consensus size: 65
7442708 CGAGCCATAT
* * * * *
7442718 CAGGACACTCACAAAAAGTTGCGTTTATGTCCGCAATATATGCAGGATCACAACCGATCATATAA
1 CAGGACACTCACAAAAAGCTGCGTATATGTCCGCAACACATGCAAGATCACAACCGATCATATAA
* *
7442783 CAGGACACTCACAAAGAGCTGCG-ATA-GTCCGCAACACATGCAAGATCACTACCGATCA
1 CAGGACACTCACAAAAAGCTGCGTATATGTCCGCAACACATGCAAGATCACAACCGATCA
7442841 GAATGCTTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 28 0.55
64 2 0.04
65 21 0.41
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.19
Consensus pattern (65 bp):
CAGGACACTCACAAAAAGCTGCGTATATGTCCGCAACACATGCAAGATCACAACCGATCATATAA
Found at i:7448192 original size:16 final size:16
Alignment explanation
Indices: 7448137--7448192 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
7448127 AATTGAATTA
*
7448137 CTATTACGCATTTATT
1 CTATTACACATTTATT
* *
7448153 CTATTATAGC-TATATT
1 CTATTACA-CATTTATT
7448169 CTATTACACATTTATT
1 CTATTACACATTTATT
7448185 CTATTACA
1 CTATTACA
7448193 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.48
Consensus pattern (16 bp):
CTATTACACATTTATT
Found at i:7448370 original size:27 final size:28
Alignment explanation
Indices: 7448314--7448370 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
7448304 ATAATAAATA
* *
7448314 TAAAAATAATTATATAATATTTGTTTTT
1 TAAAAATAATTATAAAATATTTGTTATT
*
7448342 TAAAATTAATT-TAAAATATTT-TTAATT
1 TAAAAATAATTATAAAATATTTGTT-ATT
7448369 TA
1 TA
7448371 TCTAAGCGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 2 0.08
27 13 0.52
28 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TAAAAATAATTATAAAATATTTGTTATT
Found at i:7448761 original size:20 final size:20
Alignment explanation
Indices: 7448736--7448775 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7448726 AATATTTTCT
*
7448736 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7448756 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
7448776 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7448778 original size:34 final size:35
Alignment explanation
Indices: 7448724--7448790 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
7448714 CAAACAGTAG
* *
7448724 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
7448759 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
7448791 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:7448782 original size:14 final size:14
Alignment explanation
Indices: 7448759--7448798 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7448749 ACAGAAAAGT
*
7448759 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
7448773 AAATCATTTTACGG
1 AAAACATTTTACAG
7448787 AAAACATTTTAC
1 AAAACATTTTAC
7448799 TGACAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:7450632 original size:16 final size:17
Alignment explanation
Indices: 7450599--7450632 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7450589 TGTAAACTAG
*
7450599 TTCAAAATTTTGCATTT
1 TTCAAAAGTTTGCATTT
7450616 TTCAAAAGTTT-CATTT
1 TTCAAAAGTTTGCATTT
7450632 T
1 T
7450633 CTTTCCTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
TTCAAAAGTTTGCATTT
Found at i:7454234 original size:16 final size:16
Alignment explanation
Indices: 7454211--7454256 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
7454201 GCTATATTGA
7454211 AATAGAGGCGTAATGG
1 AATAGAGGCGTAATGG
*
7454227 ATTAGAGGCGTAATGG
1 AATAGAGGCGTAATGG
7454243 AATAGAGGCGTAAT
1 AATAGAGGCGTAAT
7454257 AGCAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.22
Consensus pattern (16 bp):
AATAGAGGCGTAATGG
Found at i:7465414 original size:23 final size:22
Alignment explanation
Indices: 7465351--7465421 Score: 72
Period size: 24 Copynumber: 3.1 Consensus size: 22
7465341 AAAATATAAC
*
7465351 AATAGATAATCAAATATGAGAAA
1 AATAGAGAATCAAATAT-AGAAA
*
7465374 ATAAAGAGAAT-AACATATATGAAA
1 A-ATAGAGAATCAA-ATATA-GAAA
*
7465398 AATAGAGAATCAAATATACAAA
1 AATAGAGAATCAAATATAGAAA
7465420 AA
1 AA
7465422 GAAAAAGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 5 0.12
23 17 0.43
24 18 0.45
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (22 bp):
AATAGAGAATCAAATATAGAAA
Found at i:7465447 original size:47 final size:47
Alignment explanation
Indices: 7465351--7465448 Score: 108
Period size: 47 Copynumber: 2.1 Consensus size: 47
7465341 AAAATATAAC
* * * * * *
7465351 AATAGATAATCAAATATGAGAAAATAAAGAGAATAACATATATGAAA
1 AATAGAGAATCAAATATGAAAAAAGAAAAAGAATAACAAATAAGAAA
* *
7465398 AATAGAGAATCAAATAT-ACAAAAAGAAAAAGAATAATAAATAAGGAA
1 AATAGAGAATCAAATATGA-AAAAAGAAAAAGAATAACAAATAAGAAA
7465445 AATA
1 AATA
7465449 AAGATATGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 1 0.02
47 41 0.98
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.18
Consensus pattern (47 bp):
AATAGAGAATCAAATATGAAAAAAGAAAAAGAATAACAAATAAGAAA
Found at i:7467008 original size:22 final size:22
Alignment explanation
Indices: 7466960--7467011 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7466950 ACCCAAATAA
* *
7466960 ACTATTTTGCTGTTGTTTCACT
1 ACTATTTTGCTATTATTTCACT
*
7466982 GCTATTTTGCTATTATATT-ACT
1 ACTATTTTGCTATTAT-TTCACT
7467004 ACTATTTT
1 ACTATTTT
7467012 CTTGTTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (22 bp):
ACTATTTTGCTATTATTTCACT
Done.