Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 22 of 373
Found at i:6286558 original size:832 final size:832
Alignment explanation
Indices: 6284955--6286622 Score: 3185
Period size: 832 Copynumber: 2.0 Consensus size: 832
6284945 AAAATTGACC
6284955 AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
1 AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
* * *
6285020 GTGTCATACCCATGTCGATATTAATCCAAGTTAGAATTGCACACGGCCTGAGCACCTTCATACGG
66 GTGTCATACCCATGTCGACATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
*
6285085 GCATGGCACACGGCTGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCGGAAAAGGCTAATTTTG
131 GCATGGCACACGGCTGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCGAAAAAGGCTAATTTTG
*
6285150 GGTAATTTTAGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACGCACAGAG
196 GGCAATTTTAGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACGCACAGAG
6285215 TTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAGA
261 TTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAGA
6285280 CTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCCAAA
326 CTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCCAAA
*
6285345 CTTTGAGATGTTTTCCATTATTATTATGAACTAAACTCCCAAAATACCTAAGGGAGATGAACCCT
391 CTTTGAGATGTTTTCCATTATTATTATGAACTAAACTCCCAAAATACCTAAGGGAGATAAACCCT
*
6285410 ATGACGAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGTT
456 ATGACAAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGTT
6285475 CTAAATTCTTGTTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGCA
521 CTAAATTCTTGTTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGCA
6285540 AAAGTCCCTGTTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAATCCTAGAGATAGG
586 AAAGTCCCTGTTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAATCCTAGAGATAGG
6285605 ACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCGA
651 ACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCGA
6285670 CAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAGTCTC
716 CAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAGTCTC
*
6285735 GATAGAGATATTAACATAAATTAGGGATTTCTACGAATTAAGTTAAGTGAAT
781 GATAGAGATATTAACATAAACTAGGGATTTCTACGAATTAAGTTAAGTGAAT
6285787 AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
1 AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
*
6285852 GTGTCATACCCGTGTCGACATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
66 GTGTCATACCCATGTCGACATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
6285917 GCATGGCACACGG-TCGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCGAAAAAGGCTAATTTT
131 GCATGGCACACGGCT-GTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCGAAAAAGGCTAATTTT
*
6285981 GGGCAATTTTGGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACGCACAGA
195 GGGCAATTTTAGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACGCACAGA
6286046 GTTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAG
260 GTTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAG
*
6286111 ACTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCTAA
325 ACTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCCAA
*
6286176 ACTTTGAGATGTTTTCCATTATTATTATGAACTAAATTCCCAAAATACCTAAGGGAGATAAACCC
390 ACTTTGAGATGTTTTCCATTATTATTATGAACTAAACTCCCAAAATACCTAAGGGAGATAAACCC
6286241 TATGACAAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGT
455 TATGACAAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGT
6286306 TCTAAATTCTTGTTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGC
520 TCTAAATTCTTGTTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGC
*
6286371 AAAAGTCCCTGTTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAGTCCTAGAGATAG
585 AAAAGTCCCTGTTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAATCCTAGAGATAG
6286436 GACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCG
650 GACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCG
6286501 ACAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAGTCT
715 ACAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAGTCT
* *
6286566 CGATAGAGATATTAGCATAAACTAGGGATTTCTACGGATTAAGTTAAGTGAAT
780 CGATAGAGATATTAACATAAACTAGGGATTTCTACGAATTAAGTTAAGTGAAT
6286619 AAAT
1 AAAT
6286623 TGTCTAATTC
Statistics
Matches: 820, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
831 1 0.00
832 819 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (832 bp):
AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
GTGTCATACCCATGTCGACATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
GCATGGCACACGGCTGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCGAAAAAGGCTAATTTTG
GGCAATTTTAGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACGCACAGAG
TTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAGA
CTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCCAAA
CTTTGAGATGTTTTCCATTATTATTATGAACTAAACTCCCAAAATACCTAAGGGAGATAAACCCT
ATGACAAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGTT
CTAAATTCTTGTTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGCA
AAAGTCCCTGTTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAATCCTAGAGATAGG
ACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCGA
CAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAGTCTC
GATAGAGATATTAACATAAACTAGGGATTTCTACGAATTAAGTTAAGTGAAT
Found at i:6287010 original size:16 final size:16
Alignment explanation
Indices: 6286989--6287019 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6286979 TAGCCATTAT
*
6286989 TTTTATTTTTATTTAA
1 TTTTATTTTGATTTAA
6287005 TTTTATTTTGATTTA
1 TTTTATTTTGATTTA
6287020 CTAAATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTATTTTGATTTAA
Found at i:6287039 original size:19 final size:20
Alignment explanation
Indices: 6287003--6287040 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6286993 ATTTTTATTT
6287003 AATTTTATTTTGATTTACTA
1 AATTTTATTTTGATTTACTA
*
6287023 AATTTTCTTTT-ATTTACT
1 AATTTTATTTTGATTTACT
6287041 TCTAGCAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
AATTTTATTTTGATTTACTA
Found at i:6290945 original size:30 final size:30
Alignment explanation
Indices: 6290909--6291067 Score: 282
Period size: 30 Copynumber: 5.3 Consensus size: 30
6290899 TTAGCCTTTG
6290909 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6290939 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
6290969 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
6290999 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
6291029 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6291059 CCACCACCA
1 CCACCACCA
6291068 CTTGTACCTA
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 126 1.00
ACGTcount: A:0.25, C:0.50, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:6291650 original size:27 final size:25
Alignment explanation
Indices: 6291543--6291754 Score: 93
Period size: 25 Copynumber: 8.6 Consensus size: 25
6291533 TCTTTTTTGT
* *
6291543 TATTAT-TATAT-TTTTTAATATTA
1 TATTATGTATATATATTTAATACTA
** *
6291566 TATTA--TATATATATTCTTTTAATA
1 TATTATGTATATATATT-TAATACTA
* * * *
6291590 TATTAGGTATAT-T-CTAAATTCTA
1 TATTATGTATATATATTTAATACTA
*
6291613 TATTACGTATATATATATT-ATACTA
1 TATTATGTATATATAT-TTAATACTA
* *
6291638 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATATTTAATACTA
* **
6291663 TATTATTTATATATATTTTTTCTACATTGTA
1 TATTATGTATATATA----TT-TA-ATACTA
*
6291694 TCTTATGTATATAT-TTTAAT--TA
1 TATTATGTATATATATTTAATACTA
* * * *
6291716 TATTATGTATGTATTTTTTACACTA
1 TATTATGTATATATATTTAATACTA
*
6291741 TATTATGTACATAT
1 TATTATGTATATAT
6291755 TTTTTTTATA
Statistics
Matches: 142, Mismatches: 30, Indels: 32
0.70 0.15 0.16
Matches are distributed among these distances:
22 19 0.13
23 26 0.18
24 16 0.11
25 53 0.37
26 8 0.06
29 2 0.01
30 2 0.01
31 16 0.11
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATATTTAATACTA
Found at i:6291849 original size:25 final size:24
Alignment explanation
Indices: 6291821--6291876 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
6291811 GTTATATTTT
*
6291821 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
6291846 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
6291869 CACTATTA
1 CACTATTA
6291877 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:6302721 original size:12 final size:12
Alignment explanation
Indices: 6302700--6302738 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
6302690 GGGGCATCTT
6302700 AAAA-AAAAGAG
1 AAAAGAAAAGAG
*
6302711 AAAAGAAAAGAA
1 AAAAGAAAAGAG
*
6302723 AAAAGAAAAAAG
1 AAAAGAAAAGAG
6302735 AAAA
1 AAAA
6302739 AGAGAGAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAG
Found at i:6302726 original size:19 final size:19
Alignment explanation
Indices: 6302702--6302738 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6302692 GGCATCTTAA
*
6302702 AAAAAAGAGAAAAGAAAAG
1 AAAAAAGAAAAAAGAAAAG
6302721 AAAAAAGAAAAAAGAAAA
1 AAAAAAGAAAAAAGAAAA
6302739 AGAGAGAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAAGAAAAG
Found at i:6303747 original size:14 final size:13
Alignment explanation
Indices: 6303723--6303768 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
6303713 CACGCCGAGG
6303723 TATTTTTAATTTC
1 TATTTTTAATTTC
6303736 TATTTTTCAATTTC
1 TATTTTT-AATTTC
**
6303750 TGCTTTTAATTTC
1 TATTTTTAATTTC
6303763 T-TTTTT
1 TATTTTT
6303769 TCAAAAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (13 bp):
TATTTTTAATTTC
Found at i:6303834 original size:100 final size:101
Alignment explanation
Indices: 6303635--6303933 Score: 417
Period size: 100 Copynumber: 3.0 Consensus size: 101
6303625 CATCTTTTGG
** *
6303635 TATTTTT-AATTTCTGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
1 TATTTTTCAATTTCTGCCTTTT-AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
* * * *
6303699 GCTGAGCCTCGGGGCACGCCGAGGTATTTTTAATTTC
65 GTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
**
6303736 TATTTTTCAATTTCTG-CTTTTAATTTCTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
1 TATTTTTCAATTTCTGCCTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
6303800 TTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
66 TTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * ** * *
6303836 TGTTTTTCAATTTTTGCCTTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGATGTGAG
1 TATTTTTCAATTTCTGCCTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
*
6303899 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
66 TTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
6303934 TCGTTTTTTT
Statistics
Matches: 179, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
99 60 0.34
100 86 0.48
101 25 0.14
102 8 0.04
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (101 bp):
TATTTTTCAATTTCTGCCTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
Found at i:6304060 original size:73 final size:73
Alignment explanation
Indices: 6303939--6304480 Score: 669
Period size: 76 Copynumber: 7.3 Consensus size: 73
6303929 AATTTTCGTT
* * * * * * *
6303939 TTTTTAATTTATGTTTCTAAAAAAATTAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
6304004 GCTGAGGTA
65 GTTGAGGTA
* * * *
6304013 ATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
6304077 GTTGAGGTA
65 GTTGAGGTA
* *
6304086 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTG-TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
6304151 CGCTGAGGTA
64 CGTTGAGGTA
* * *
6304161 ATTTCAATTTTTGTTTGTC-AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
6304225 GTTGAGGTA
65 GTTGAGGTA
* * *
6304234 TTTTCAATTTCTGTTTTAAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGTTTT---CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
6304299 ACGTTGAGGTA
63 ACGTTGAGGTA
*
6304310 TTTTCAATTTCTGTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGAC
1 TTTTCAATTTCTG--TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
6304375 ACGTTGAGGTA
63 ACGTTGAGGTA
* *
6304386 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGT-TTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* * *
6304449 ATGCTGAGGTG
63 ACGTTGAGGTA
*
6304460 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTT-TTCAA
6304481 TTTCTGTGTT
Statistics
Matches: 412, Mismatches: 42, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
72 3 0.01
73 125 0.30
74 45 0.11
75 66 0.16
76 169 0.41
78 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
TTGAGGTA
Found at i:6304136 original size:148 final size:148
Alignment explanation
Indices: 6303939--6304446 Score: 757
Period size: 148 Copynumber: 3.4 Consensus size: 148
6303929 AATTTTCGTT
* * * * * * *
6303939 TTTTTAATTTATGTTTCT-AAAAAAATTAACTCATATTGTGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACA
* *
6304003 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
6304068 TCAAGACACGTTGAGGTA
131 TCAAGACACGTTGAGGTA
* *
6304086 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACA
*
6304151 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
6304216 TCAAGACACGTTGAGGTA
131 TCAAGACACGTTGAGGTA
** * *
6304234 TTTTCAATTTCTGTTTTAAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGTTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGAC
* * * *
6304299 ACGTTGAGGTATTTTCAATTTCTGTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
65 ACGCTGAGGTAATTTCAATTTTTG-TTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
6304364 AGCCTTAAGACACGTTGAGGTA
127 AGCCTCAAGACACGTTGAGGTA
* *
6304386 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
6304447 AGATGCTGAG
Statistics
Matches: 330, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
147 15 0.05
148 139 0.42
149 62 0.19
150 5 0.02
152 109 0.33
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (148 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACA
CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAAGACACGTTGAGGTA
Found at i:6304581 original size:13 final size:14
Alignment explanation
Indices: 6304551--6304583 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6304541 CGCTGAGGTA
6304551 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
6304565 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
6304579 TTTTC
1 TTTTC
6304584 TAAAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:6304617 original size:92 final size:89
Alignment explanation
Indices: 6304386--6304939 Score: 379
Period size: 87 Copynumber: 6.0 Consensus size: 89
6304376 CGTTGAGGTA
* * * * *
6304386 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AG
1 TTTTCAATTTATGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCAC
* * *
6304449 ATGCTGAGGTGTTTTCCATTTCTGT
65 ACGCTGAGGTATTTTCAATTTCTGT
* * * * * * * *
6304474 TCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCATTGACTCA
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-CTCA-GCA
* *
6304539 TACGCTGAGGTATTTTCAAATTCTGT
64 CACGCTGAGGTATTTTCAATTTCTGT
* * *
6304565 TTTTCAAATTT-TGTTTTTCTAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTC-AATTTATGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCA
* *
6304629 CACGCTAAGATATTTTCAATTTATCT-T
64 CACGCTGAGGTATTTTCAA-TT-TCTGT
* *
6304656 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATCA
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CA
* * *
6304721 CACGCCGAGGTATTTTCAATTGATTTTT
64 CACGCTGAGGTATTTTCAATT--TCTGT
* * * * ** * * *
6304749 ATTTTTATTTTTTTTCAATTTATGCTTTGCAAAAATCAACTCATATTACAATAGGTGAGTTGAGC
1 -TTTTCAATTTATGT---TTT-T-C---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* ** **
6304814 CTCGGGTCACATACTGAGGTATTTTCAAAATCTGT
57 CTC-AG-CACACGCTGAGGTATTTTCAATTTCTGT
* * * ** *
6304849 TTTACAAATTT-TG-TTTT---AAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTC
1 TTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCAC
*
6304909 ACGTGCTGAGCTATTTTCAATTTCTGT
65 AC--GCTGAGGTATTTTCAATTTCTGT
6304936 TTTT
1 TTTT
6304940 AATGTTTAGT
Statistics
Matches: 370, Mismatches: 70, Indels: 53
0.75 0.14 0.11
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 89 0.24
88 19 0.05
90 61 0.16
91 51 0.14
92 61 0.16
93 1 0.00
94 11 0.03
95 3 0.01
97 2 0.01
98 1 0.00
99 5 0.01
100 7 0.02
102 53 0.14
103 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (89 bp):
TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:6304733 original size:182 final size:179
Alignment explanation
Indices: 6304386--6304739 Score: 428
Period size: 182 Copynumber: 2.0 Consensus size: 179
6304376 CGTTGAGGTA
* * * * *
6304386 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAT
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAACCTCAACAC
* * * * * *
6304451 GCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGA
66 GCTAAGATATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGA
* * * * *
6304516 GTGGTGAGTTGAGCATTGACTCATACGCTGAGGTATTTTCAAATTCTGT
131 GAGGTGAGTTGAACATAGACTCACACGCCGAGGTATTTTCAAATTCTGT
* * *
6304565 TTTTCAAATTT-TGTTTTTCTAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTC-AATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAACCTCA--A
*
6304629 CACGCTAAGATATTTTCAATTTATCT-TTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATA
63 CACGCTAAGATATTTTCAA-TT-TCTGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATA
*
6304692 TTGCGAGAGGTGAGTTGAACCTCAGA-TCACACGCCGAGGTATTTTCAA
125 TTGCGAGAGGTGAGTTGAACAT-AGACTCACACGCCGAGGTATTTTCAA
6304740 TTGATTTTTA
Statistics
Matches: 147, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
179 49 0.33
180 5 0.03
181 16 0.11
182 72 0.49
183 5 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (179 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAACCTCAACAC
GCTAAGATATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAACATAGACTCACACGCCGAGGTATTTTCAAATTCTGT
Found at i:6304748 original size:90 final size:92
Alignment explanation
Indices: 6304386--6304741 Score: 358
Period size: 90 Copynumber: 3.9 Consensus size: 92
6304376 CGTTGAGGTA
*
6304386 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAT
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-AGAT
* * *
6304451 -----GCTGAGGTGTTTTCCATTTCTGT
65 CACACGCTGAGGTATTTTCAATTTATGT
* * * * * * *
6304474 TCTTCAATTTCTGTGTTTC-AAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCAT-TGACT
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGA-T
* * *
6304537 CATACGCTGAGGTATTTTCAAATTCTGT
65 CACACGCTGAGGTATTTTCAATTTATGT
* * * * *
6304565 TTTTCAAATTT-TGTTTTTCTAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAGCCTCAG--
1 TTTTC-AATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGAT
* * * *
6304627 GACACGCTAAGATATTTTCAATTTATCTT
65 CACACGCTGAGGTATTTTCAATTTAT-GT
*
6304656 TTTTCAATTTATGT-TTGTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGAT
1 TTTTCAATTTCTGTCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGAT
*
6304719 CACACGCCGAGGTATTTTCAATT
65 CACACGCTGAGGTATTTTCAATT
6304742 GATTTTTATT
Statistics
Matches: 223, Mismatches: 31, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.01
86 1 0.00
87 36 0.16
88 17 0.08
90 66 0.30
91 42 0.19
92 58 0.26
93 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (92 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATC
ACACGCTGAGGTATTTTCAATTTATGT
Found at i:6304824 original size:102 final size:103
Alignment explanation
Indices: 6304648--6304841 Score: 266
Period size: 102 Copynumber: 1.9 Consensus size: 103
6304638 ATATTTTCAA
* *
6304648 TTTATCTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
1 TTTATCTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACAAGAGGTGAGTTGAACC
*
6304713 TCAGATCACACGCCGAGGTATTTTCAATTGATTTTTATT
65 TCAGATCACACACCGAGGTATTTTCAATTGATTTTTATT
* * *
6304752 TTTATTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACAATAGGTGAGTTGAGCC
1 TTTATCTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAACC
* * * *
6304815 TCGGGTCACATACTGAGGTATTTTCAA
65 TCAGATCACACACCGAGGTATTTTCAA
6304842 AATCTGTTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
102 54 0.68
104 21 0.27
105 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (103 bp):
TTTATCTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAACCT
CAGATCACACACCGAGGTATTTTCAATTGATTTTTATT
Found at i:6304925 original size:87 final size:87
Alignment explanation
Indices: 6304779--6304984 Score: 227
Period size: 87 Copynumber: 2.4 Consensus size: 87
6304769 TATGCTTTGC
* * * * * *
6304779 AAAAATCAACTCATATTACAATAGGTGAGTTGAGCCTCGGGTCACATACTGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACTGAGCTATTTTCAAAA
6304844 TCTGTTTTACAAAT-TTT-GTTTT
66 TCTGTTTT--AAATGTTTAGTTTT
* * * * **
6304866 AAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACTGAGCTATTTTCAAAA
*
6304931 TCTGTTTTTAATGTTTAGTTTT
66 TCTGTTTTAAATGTTTAGTTTT
* * *
6304953 AAAGAGTCAATTCATATTGCGAGAAATGAGTT
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTT
6304985 AAGCTCAGCA
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 69 0.70
88 24 0.24
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACTGAGCTATTTTCAAAA
TCTGTTTTAAATGTTTAGTTTT
Found at i:6305653 original size:18 final size:18
Alignment explanation
Indices: 6305630--6305683 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
6305620 CCACCACCAA
6305630 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
6305648 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
6305660 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
6305678 CTCCAC
1 CTCCAC
6305684 CACCTACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:6305656 original size:30 final size:30
Alignment explanation
Indices: 6305620--6305718 Score: 155
Period size: 30 Copynumber: 3.3 Consensus size: 30
6305610 CTAGCCATTG
6305620 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
6305650 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
6305680 CCACCACCTACTCCA-TCAACCACACTTGCT
1 CCACCACCAACTCCACT-AGCCACACTTGCT
6305710 CCACCACCA
1 CCACCACCA
6305719 CTTGTACCTA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
29 1 0.02
30 64 0.98
ACGTcount: A:0.26, C:0.52, G:0.05, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:6306289 original size:25 final size:26
Alignment explanation
Indices: 6306261--6306331 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
6306251 ATTCTAAATT
*
6306261 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
6306286 CTATTTTATGTATATAT-TTTTAATA
1 CTATATTATGTATATATATATTAATA
*
6306311 CTATATTATTTATATATATAT
1 CTATATTATGTATATATATAT
6306332 ATTTTTTCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 3 0.08
25 33 0.87
26 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.55
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:6306306 original size:14 final size:14
Alignment explanation
Indices: 6306275--6306336 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
6306265 ATTACGTATA
6306275 TATATATTATACTATTT
1 TATATA-TATA-T-TTT
*
6306292 TATGTATATATTTT
1 TATATATATATTTT
6306306 TA-ATACTATATTATT
1 TATATA-TATATT-TT
6306321 TATATATATATATTT
1 TATATATATAT-TTT
6306336 T
1 T
6306337 TTCTACATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 2 0.05
14 11 0.28
15 13 0.33
16 8 0.21
17 5 0.13
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (14 bp):
TATATATATATTTT
Found at i:6306359 original size:29 final size:30
Alignment explanation
Indices: 6306282--6306384 Score: 83
Period size: 31 Copynumber: 3.6 Consensus size: 30
6306272 ATATATATAT
* *
6306282 TATACTATTTTATGTATATATTTTTAATAC
1 TATATTATCTTATGTATATATTTTTAATAC
* * **
6306312 TATATTATTTATATATATATATTTTTTCTAC
1 TATATTATCT-TATGTATATATTTTTAATAC
6306343 -AT-TGTATCTTATGTATATA-TTTTAAT--
1 TATAT-TATCTTATGTATATATTTTTAATAC
*
6306369 TATATTAT-GTATGTAT
1 TATATTATCTTATGTAT
6306385 TTTTTACACT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
26 7 0.12
27 5 0.08
28 6 0.10
29 10 0.17
30 15 0.25
31 17 0.28
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (30 bp):
TATATTATCTTATGTATATATTTTTAATAC
Found at i:6306402 original size:25 final size:24
Alignment explanation
Indices: 6306352--6306414 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
6306342 CATTGTATCT
*
6306352 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
6306378 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
6306403 TACATATTTTTT
1 TATGTATTTTTT
6306415 TATATCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:6306503 original size:25 final size:24
Alignment explanation
Indices: 6306475--6306530 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
6306465 GTTATATTTT
*
6306475 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
6306500 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
6306523 CACTATTA
1 CACTATTA
6306531 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:6313502 original size:24 final size:26
Alignment explanation
Indices: 6313455--6313506 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
6313445 TTGTAGATTG
* *
6313455 AAATCTTCACAAATAATTGTATAATA
1 AAATCTTCACAAATAAATGCATAATA
6313481 AAATCTTCA-AAA-AAATGCATAATA
1 AAATCTTCACAAATAAATGCATAATA
6313505 AA
1 AA
6313507 CATCCTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.50
25 3 0.12
26 9 0.38
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.29
Consensus pattern (26 bp):
AAATCTTCACAAATAAATGCATAATA
Found at i:6316900 original size:15 final size:15
Alignment explanation
Indices: 6316880--6316930 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 15
6316870 AGTATAAAAC
6316880 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
6316895 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
6316914 ATTTATTATTAA-AT
1 ATTTATTATTAATAT
6316928 ATT
1 ATT
6316931 AATATTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:6316994 original size:16 final size:16
Alignment explanation
Indices: 6316963--6316999 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
6316953 ATGTGAATAA
6316963 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
6316979 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
6316995 TATTA
1 TATTA
6317000 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:6317040 original size:20 final size:22
Alignment explanation
Indices: 6317011--6317052 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
6317001 AATAAAATTG
*
6317011 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
6317031 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
6317053 TATGAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:6320991 original size:5 final size:5
Alignment explanation
Indices: 6320981--6321011 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
6320971 TATGTGAAAC
6320981 AAATA AAATA AAATA AAATA AAAT- AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
6321012 GCACTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:6321450 original size:26 final size:25
Alignment explanation
Indices: 6321421--6321485 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
6321411 AAAAATAAGT
6321421 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
6321447 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
6321472 -TATATTTATATATA
1 GTATATGTATATATA
6321486 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:6321533 original size:3 final size:3
Alignment explanation
Indices: 6321518--6321580 Score: 53
Period size: 3 Copynumber: 21.0 Consensus size: 3
6321508 AAGAGCAACT
*
6321518 ATA ATA ATG ATA ATA ATA ATA ATA CA-A A-A ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
6321561 TATA A-A TATA ATA ATGA ATA
1 -ATA ATA -ATA ATA AT-A ATA
6321581 GATGAGTAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
2 6 0.12
3 37 0.73
4 8 0.16
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6322643 original size:46 final size:46
Alignment explanation
Indices: 6322590--6322679 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
6322580 TTAGGGGTTA
*
6322590 GGTCTGTTTTGAGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
1 GGTCTGTTTTGAGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTTTG
*
6322636 GGTCTGTTTTGGGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTT
1 GGTCTGTTTTGAGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTT
6322680 GTACAGCTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.07, C:0.11, G:0.39, T:0.43
Consensus pattern (46 bp):
GGTCTGTTTTGAGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTTTG
Found at i:6323007 original size:44 final size:44
Alignment explanation
Indices: 6322959--6323048 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 44
6322949 ACTCATATCC
* * * *
6322959 TCAACTTGCCCCACTACAACTTCAGGGGGATAAGATTCGTGACT
1 TCAACCTGCCCCACTACAACTTCAGAGAGACAAGATTCGTGACT
*** * *
6323003 TCAACCTGCTTTACTGCAACTTCAGAGAGACAAGATTTGTGACT
1 TCAACCTGCCCCACTACAACTTCAGAGAGACAAGATTCGTGACT
6323047 TC
1 TC
6323049 GCTTCCATCT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
TCAACCTGCCCCACTACAACTTCAGAGAGACAAGATTCGTGACT
Found at i:6323475 original size:46 final size:45
Alignment explanation
Indices: 6323318--6323648 Score: 223
Period size: 44 Copynumber: 7.6 Consensus size: 45
6323308 ATTTTAATCC
* * *
6323318 GCTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* * * **
6323361 GCTCCGCTGTAATCTCAGGGAGATAAGATCT--CTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* *
6323405 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCT
* * * * *
6323451 GTTCCACTGTAATCTCAGGAAGATAAGACCCG-A---TGTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCT
* * * *
6323492 TCTCTACTGTAA-CTTCAGAGAGATAAGATC------CTTTAATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTGATCT
* * * * *
6323531 GCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCCTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* *
6323575 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCT
*
6323621 GTTCCACTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
6323649 CCTGTATAAT
Statistics
Matches: 226, Mismatches: 44, Indels: 33
0.75 0.15 0.11
Matches are distributed among these distances:
39 27 0.12
40 2 0.01
41 28 0.12
43 24 0.11
44 73 0.32
45 2 0.01
46 67 0.30
47 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (45 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCT
Found at i:6335739 original size:5 final size:5
Alignment explanation
Indices: 6335729--6335759 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
6335719 TATGTGAAAC
6335729 AAATA AAATA AAATA AAATA AAAT- AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
6335760 GCACTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:6335749 original size:15 final size:14
Alignment explanation
Indices: 6335689--6335759 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
6335679 CATAACAACT
6335689 AAATAAAATAAATA
1 AAATAAAATAAATA
* *
6335703 AAAAACAAATCAATA
1 AAATA-AAATAAATA
* * *
6335718 ATATGTGAAACAAATA
1 A-A-ATAAAATAAATA
6335734 AAATAAAATAAAATA
1 AAATAAAAT-AAATA
6335749 AAAT-AAATAAA
1 AAATAAAATAAA
6335760 GCACTTATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
13 3 0.07
14 12 0.28
15 19 0.44
16 9 0.21
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:6336197 original size:26 final size:25
Alignment explanation
Indices: 6336168--6336232 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
6336158 AAAAATAAGT
6336168 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
6336194 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
6336219 -TATATTTATATATA
1 GTATATGTATATATA
6336233 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:6337303 original size:20 final size:20
Alignment explanation
Indices: 6337263--6337303 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
6337253 TGGTGGTTGC
*
6337263 GGCGGTGGCAGGGAGTTGGT
1 GGCGGTGGCAGGGAGTAGGT
6337283 GGCGGTGGCAGAGG-GTAGGT
1 GGCGGTGGCAG-GGAGTAGGT
6337303 G
1 G
6337304 ATGGGTGCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.12, C:0.10, G:0.61, T:0.17
Consensus pattern (20 bp):
GGCGGTGGCAGGGAGTAGGT
Found at i:6337386 original size:46 final size:46
Alignment explanation
Indices: 6337333--6337422 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
6337323 TTAGGGGTTA
*
6337333 GGTCTGTTTTGAGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
1 GGTCTGTTTTGAGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTTTG
*
6337379 GGTCTGTTTTGGGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTT
1 GGTCTGTTTTGAGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTT
6337423 GTACAAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.07, C:0.11, G:0.39, T:0.43
Consensus pattern (46 bp):
GGTCTGTTTTGAGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTTTG
Found at i:6341380 original size:12 final size:12
Alignment explanation
Indices: 6341363--6341387 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6341353 AACAGATCGA
6341363 TCGGTTGGCTAT
1 TCGGTTGGCTAT
6341375 TCGGTTGGCTAT
1 TCGGTTGGCTAT
6341387 T
1 T
6341388 TGATCTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (12 bp):
TCGGTTGGCTAT
Found at i:6343894 original size:21 final size:22
Alignment explanation
Indices: 6343870--6343911 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
6343860 AAAATAACAA
6343870 TAACAATAAAAT-AATAGTAAT
1 TAACAATAAAATGAATAGTAAT
* *
6343891 TAACAATGAAATGATTAGTAA
1 TAACAATAAAATGAATAGTAA
6343912 ACGTGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (22 bp):
TAACAATAAAATGAATAGTAAT
Found at i:6356799 original size:21 final size:21
Alignment explanation
Indices: 6356773--6356813 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6356763 AGACGAGCAA
* *
6356773 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6356794 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6356814 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6360836 original size:17 final size:19
Alignment explanation
Indices: 6360816--6360853 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6360806 CAGGGGAAGG
6360816 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
6360833 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
6360852 AA
1 AA
6360854 ATTAAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:6363560 original size:16 final size:15
Alignment explanation
Indices: 6363539--6363599 Score: 77
Period size: 16 Copynumber: 3.9 Consensus size: 15
6363529 TTTGCCCGGG
6363539 CTAAAAAGCCCAACAT
1 CTAAAAA-CCCAACAT
6363555 CTAAAAACCCCAACAT
1 CTAAAAA-CCCAACAT
*
6363571 CTAAAAACCCAACAG
1 CTAAAAACCCAACAT
**
6363586 CCCAAAACCCAACA
1 CTAAAAACCCAACA
6363600 ACCTCCAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
15 19 0.46
16 22 0.54
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (15 bp):
CTAAAAACCCAACAT
Found at i:6363593 original size:31 final size:31
Alignment explanation
Indices: 6363539--6363599 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
6363529 TTTGCCCGGG
* *
6363539 CTAAAAAGCCCAACATCTAAAAACCCCAACAT
1 CTAAAAAGCCCAACAGCCAAAAA-CCCAACAT
*
6363571 CTAAAAA-CCCAACAGCCCAAAACCCAACA
1 CTAAAAAGCCCAACAGCCAAAAACCCAACA
6363600 ACCTCCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.27
31 12 0.46
32 7 0.27
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (31 bp):
CTAAAAAGCCCAACAGCCAAAAACCCAACAT
Found at i:6363620 original size:17 final size:17
Alignment explanation
Indices: 6363574--6363614 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
6363564 CCAACATCTA
*
6363574 AAAACCCAAC-AGC-CC
1 AAAACCCAACAACCTCC
6363589 AAAACCCAACAACCTCC
1 AAAACCCAACAACCTCC
*
6363606 AAAGCCCAA
1 AAAACCCAA
6363615 TCACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.49, C:0.44, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACCCAACAACCTCC
Found at i:6363701 original size:13 final size:13
Alignment explanation
Indices: 6363683--6363792 Score: 100
Period size: 13 Copynumber: 9.4 Consensus size: 13
6363673 TCTTCACTCC
6363683 AACCACCCCACTA
1 AACCACCCCACTA
*
6363696 AACCACTCCACTA
1 AACCACCCCACTA
*
6363709 AACCA-CTC-C--
1 AACCACCCCACTA
6363718 AACCACCCCACTA
1 AACCACCCCACTA
6363731 AACCA-CCC-C--
1 AACCACCCCACTA
6363740 AACCACCCCACTA
1 AACCACCCCACTA
*
6363753 AACCA-CTC-C--
1 AACCACCCCACTA
6363762 AACCACCCCACTA
1 AACCACCCCACTA
*
6363775 AACCACTCCACTA
1 AACCACCCCACTA
6363788 AACCA
1 AACCA
6363793 TCCAAACCAC
Statistics
Matches: 78, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
9 15 0.19
10 7 0.09
11 6 0.08
12 6 0.08
13 44 0.56
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.09
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:6363721 original size:22 final size:22
Alignment explanation
Indices: 6363696--6363784 Score: 160
Period size: 22 Copynumber: 4.0 Consensus size: 22
6363686 CACCCCACTA
*
6363696 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
*
6363718 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCACTCC
6363740 AACCACCCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
6363762 AACCACCCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
6363784 A
1 A
6363785 CTAAACCATC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.37, C:0.54, G:0.00, T:0.09
Consensus pattern (22 bp):
AACCACCCCACTAAACCACTCC
Found at i:6363723 original size:35 final size:35
Alignment explanation
Indices: 6363677--6363802 Score: 146
Period size: 35 Copynumber: 3.3 Consensus size: 35
6363667 CAAATATCTT
6363677 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
1 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
*
6363712 CACTCCAACCACCCCACTAAACCACCCCAACCACCCCACTAAAC
1 CACTCCAACCACCCCACT-----A----AACCACTCCACTAAAC
6363756 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
1 CACTCCAACCACCCCACTAAACCACTCCACTAAAC
6363791 CA-TCCAAACCAC
1 CACTCC-AACCAC
6363803 TTCACTTGCC
Statistics
Matches: 79, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.04
35 41 0.52
39 1 0.01
40 1 0.01
44 33 0.42
ACGTcount: A:0.37, C:0.53, G:0.00, T:0.10
Consensus pattern (35 bp):
CACTCCAACCACCCCACTAAACCACTCCACTAAAC
Found at i:6363800 original size:44 final size:44
Alignment explanation
Indices: 6363683--6363803 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 44
6363673 TCTTCACTCC
6363683 AACCACCCCACTAAACCACTCCACTAAACCACTCCAACCACCCCACTA
1 AACCACCCCACTAAACCA-T-C-C-AAACCACTCCAACCACCCCACTA
* ** *
6363731 AACCACCCCAACCACCCCA-CTAAACCACTCCAACCACCCCACTA
1 AACCACCCC-ACTAAACCATCCAAACCACTCCAACCACCCCACTA
*
6363775 AACCACTCCACTAAACCATCCAAACCACT
1 AACCACCCCACTAAACCATCCAAACCACT
6363804 TCACTTGCCT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.10
44 40 0.65
46 1 0.02
48 9 0.15
49 6 0.10
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.10
Consensus pattern (44 bp):
AACCACCCCACTAAACCATCCAAACCACTCCAACCACCCCACTA
Found at i:6364528 original size:17 final size:19
Alignment explanation
Indices: 6364508--6364547 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6364498 TGTTCGACTC
*
6364508 ATTTATC-TTACT-TTCGT
1 ATTTATCGTTACTATTCAT
6364525 ATTTATCGTTACTATTCAT
1 ATTTATCGTTACTATTCAT
6364544 ATTT
1 ATTT
6364548 GTGTTTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTATCGTTACTATTCAT
Found at i:6376349 original size:206 final size:206
Alignment explanation
Indices: 6375992--6376662 Score: 1141
Period size: 206 Copynumber: 3.3 Consensus size: 206
6375982 GATCTGGCCA
* *
6375992 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGCTGA-
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
6376055 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
6376120 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCTTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
6376185 TGTTTATACTG
196 TGTTTATACTG
* * *
6376196 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAATGAGCAAATCGAGGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
6376261 TTGGCTTTCGCATGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
6376326 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAAATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
6376391 TGTTTATACTG
196 TGTTTATACTG
* * *
6376402 AAGCAAGATCCAGGATGATTTGGCATCCTTGTGCTTACAAGGAGTAAATCGAATG-CATAGTTGA
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAA-GACATAGCTGA
* *
6376466 TTTGGCTTTCGTGTGCTTATGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
65 TTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
* *
6376531 AACAAGCCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAG
130 AACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAG
*
6376596 ATGTTTATACCG
195 ATGTTTATACTG
* * *
6376608 AAGCAAGATCCAAGATGATTTGGCATCTTTGTGCTTACAAGGAACAAATTGAAGA
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGA
6376663 AGCAGATTTG
Statistics
Matches: 437, Mismatches: 26, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
204 4 0.01
205 55 0.13
206 377 0.86
207 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACTG
Found at i:6377010 original size:15 final size:15
Alignment explanation
Indices: 6376983--6377028 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
6376973 TTTTGCCCGG
6376983 GCCAAAAAGCCCAACA
1 GCCAAAAA-CCCAACA
* *
6376999 TCTAAAAACCCAACA
1 GCCAAAAACCCAACA
*
6377014 GCCCAAAACCCAACA
1 GCCAAAAACCCAACA
6377029 ACCTCCAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.50, C:0.39, G:0.07, T:0.04
Consensus pattern (15 bp):
GCCAAAAACCCAACA
Found at i:6377049 original size:17 final size:17
Alignment explanation
Indices: 6377003--6377043 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
6376993 CCAACATCTA
*
6377003 AAAACCCAAC-AGC-CC
1 AAAACCCAACAACCTCC
6377018 AAAACCCAACAACCTCC
1 AAAACCCAACAACCTCC
*
6377035 AAAGCCCAA
1 AAAACCCAA
6377044 TCACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.49, C:0.44, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACCCAACAACCTCC
Found at i:6377130 original size:13 final size:13
Alignment explanation
Indices: 6377112--6377204 Score: 94
Period size: 13 Copynumber: 7.8 Consensus size: 13
6377102 TCTTCACTCC
6377112 AACCACCCCACTA
1 AACCACCCCACTA
*
6377125 AACCACTCCACTA
1 AACCACCCCACTA
*
6377138 AACCA-CTC-C--
1 AACCACCCCACTA
6377147 AACCACCCCACTA
1 AACCACCCCACTA
6377160 AACCA-CCC-C--
1 AACCACCCCACTA
6377169 AACCACCCCACTA
1 AACCACCCCACTA
*
6377182 AACCACTCCACTA
1 AACCACCCCACTA
*
6377195 AACCATCCCA
1 AACCACCCCA
6377205 ACCACTCCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
9 10 0.15
10 5 0.08
11 4 0.06
12 4 0.06
13 42 0.65
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:6377150 original size:22 final size:22
Alignment explanation
Indices: 6377125--6377191 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
6377115 CACCCCACTA
*
6377125 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
*
6377147 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCACTCC
6377169 AACCACCCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
6377191 A
1 A
6377192 CTAAACCATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.37, C:0.54, G:0.00, T:0.09
Consensus pattern (22 bp):
AACCACCCCACTAAACCACTCC
Found at i:6377186 original size:35 final size:36
Alignment explanation
Indices: 6377106--6377215 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 36
6377096 CAAATATCTT
* * * *
6377106 CACTCCAACCACCCCACTAAACCACTCC-ACTAAAC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
* *
6377141 CACTCCAACCACCCCACTAAACCACCCCAACCACCC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
* * *
6377177 CACT-AAACCACTCCACTAAACCATCCCAACCACTC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
6377212 CACT
1 CACT
6377216 TGCCTACAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
35 58 0.88
36 8 0.12
ACGTcount: A:0.35, C:0.54, G:0.00, T:0.11
Consensus pattern (36 bp):
CACTCAAACCACCCCACTAAACCACCCCAACCACAC
Found at i:6384921 original size:31 final size:31
Alignment explanation
Indices: 6384883--6385031 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
6384873 ACAAATGACA
6384883 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
6384914 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
6384945 AGTGAAAAGTGGCAGCTCCGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
6384976 AGTGAAAAATGGTAGCTCCGGTTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
6385007 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
6385032 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:6385119 original size:47 final size:47
Alignment explanation
Indices: 6385050--6385262 Score: 190
Period size: 47 Copynumber: 4.6 Consensus size: 47
6385040 AGTGATTTCC
** * *
6385050 GTATAAGACCATATTTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
* * *
6385097 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATACGT
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC-T
* *
6385145 GTAT--GACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-
1 GTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TACT
* * * *
6385192 GTGTAAGACCATAGCTGGGCTATGGCATC-G-AT-ATATG-AATA-T
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
* * *
6385234 GTGTAAGATCATAGCTGGGCTATGGCATC
1 GTATAAGACCATAGCTGGGATATGGCATC
6385263 ATTATGTGAA
Statistics
Matches: 144, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
42 30 0.21
43 1 0.01
44 5 0.03
45 1 0.01
46 21 0.15
47 44 0.31
48 16 0.11
49 26 0.18
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (47 bp):
GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
Found at i:6385203 original size:49 final size:48
Alignment explanation
Indices: 6385053--6385306 Score: 209
Period size: 42 Copynumber: 5.6 Consensus size: 48
6385043 GATTTCCGTA
** * * * * *
6385053 TAAGACCATATTTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATAC-GTG
* * * *
6385100 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
*
6385146 TATGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA-TACGTG
*
6385195 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-AT--GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
*
6385237 TAAGATCATAGCTGGGCTATGGCATC-ATTATGTGA-A---GAT--GTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATACGTG
* **
6385279 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
6385307 GAAAACGAAG
Statistics
Matches: 182, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 62 0.34
43 1 0.01
44 1 0.01
45 1 0.01
46 26 0.14
47 39 0.21
48 12 0.07
49 39 0.21
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
Found at i:6385271 original size:91 final size:93
Alignment explanation
Indices: 6385053--6385271 Score: 234
Period size: 91 Copynumber: 2.4 Consensus size: 93
6385043 GATTTCCGTA
** * * * * * *
6385053 TAAGACCATATTTGGGATATGGCATCG--GTGTGATATATG-CTACTGTATAAGACCATATCTGG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-GTGTAAGACCATAGCTGG
*
6385115 GATATGGCATCAGTGAGATATGTGATACGTG
65 GATATGGCATCA--GAGATATGTAATACGTG
*
6385146 TATGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGCTGGG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGCTGGG
* * *
6385211 CTATGGCATC-GATATATG-AATATGTG
66 ATATGGCATCAGAGATATGTAATACGTG
*
6385237 TAAGATCATAGCTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
6385272 AGATGTGTAA
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
90 1 0.01
91 37 0.35
92 7 0.07
93 23 0.21
95 36 0.34
96 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (93 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGCTGGG
ATATGGCATCAGAGATATGTAATACGTG
Found at i:6386767 original size:13 final size:13
Alignment explanation
Indices: 6386744--6386783 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6386734 GAAAAATATT
6386744 TCAAA-AATTTTC
1 TCAAATAATTTTC
* *
6386756 TGAAATAATTTTT
1 TCAAATAATTTTC
6386769 TCAAATAATTTTC
1 TCAAATAATTTTC
6386782 TC
1 TC
6386784 TCTACAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (13 bp):
TCAAATAATTTTC
Found at i:6387269 original size:19 final size:20
Alignment explanation
Indices: 6387245--6387285 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6387235 TGACTAGTTA
*
6387245 TTGGG-TCTCGATCTCAATT
1 TTGGGTTCTCGATCCCAATT
6387264 TTGGGTTCTCGATCCCAATT
1 TTGGGTTCTCGATCCCAATT
6387284 TT
1 TT
6387286 TTATCTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGGGTTCTCGATCCCAATT
Found at i:6392857 original size:18 final size:18
Alignment explanation
Indices: 6392832--6392873 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6392822 ATTTTTATAA
* *
6392832 AAATAAAATATAATTTTT
1 AAATAAAATAAAACTTTT
*
6392850 ACATAAAATAAAACTTTT
1 AAATAAAATAAAACTTTT
6392868 AAATAA
1 AAATAA
6392874 TTTTGATTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATAAAATAAAACTTTT
Found at i:6393286 original size:14 final size:14
Alignment explanation
Indices: 6393267--6393298 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6393257 TACACTCAAA
*
6393267 TTTTAAATTTTAAT
1 TTTTAAACTTTAAT
6393281 TTTTAAACTTTAAT
1 TTTTAAACTTTAAT
6393295 TTTT
1 TTTT
6393299 TTAGCATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTAAACTTTAAT
Found at i:6393879 original size:17 final size:17
Alignment explanation
Indices: 6393857--6393889 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6393847 TTATAATGTT
6393857 ATTAAT-TAGTCTAAATG
1 ATTAATATAGT-TAAATG
6393874 ATTAATATAGTTAAAT
1 ATTAATATAGTTAAAT
6393890 TTTCAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (17 bp):
ATTAATATAGTTAAATG
Found at i:6397666 original size:30 final size:31
Alignment explanation
Indices: 6397605--6397668 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
6397595 TAAATATATG
* ***
6397605 AATCTAATGGTTATAAGATTTTTTTTAAAAA
1 AATCTAATGGTTAGAAGATTTTAAATAAAAA
6397636 AATCTAATGGTTAGAAGA-TTTAAATAAAAA
1 AATCTAATGGTTAGAAGATTTTAAATAAAAA
6397666 AAT
1 AAT
6397669 TGACCCCTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (31 bp):
AATCTAATGGTTAGAAGATTTTAAATAAAAA
Found at i:6398370 original size:11 final size:11
Alignment explanation
Indices: 6398340--6398373 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
6398330 TTTTTTATTG
*
6398340 ATATAAAAATA
1 ATATATAAATA
6398351 ATAATATAAATA
1 AT-ATATAAATA
6398363 ATATATAAATA
1 ATATATAAATA
6398374 TTTTATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATATAAATA
Found at i:6398380 original size:11 final size:11
Alignment explanation
Indices: 6398355--6398402 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
6398345 AAAATAATAA
* *
6398355 TATAAATAATA
1 TATAAATATTT
6398366 TATAAATATTT
1 TATAAATATTT
*
6398377 TAT-AATTTTT
1 TATAAATATTT
*
6398387 TAAAAATATTT
1 TATAAATATTT
6398398 TATAA
1 TATAA
6398403 TTAATTGGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 8 0.27
11 22 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TATAAATATTT
Found at i:6405192 original size:20 final size:20
Alignment explanation
Indices: 6405169--6405218 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6405159 AAAATTAAAA
**
6405169 AATATTTTTTTTATAATTTT
1 AATATTTTTTAAATAATTTT
*
6405189 AATACTTTTTAAATAATTTT
1 AATATTTTTTAAATAATTTT
6405209 AATGATTTTT
1 AAT-ATTTTT
6405219 AATTTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
AATATTTTTTAAATAATTTT
Found at i:6410155 original size:19 final size:21
Alignment explanation
Indices: 6410111--6410156 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
6410101 CAATTGTCGA
*
6410111 TTCAATCAAATTTTTAGTTAG
1 TTCAATCAAATTTGTAGTTAG
*
6410132 TTCAATC-AATTTGTA-TTGG
1 TTCAATCAAATTTGTAGTTAG
6410151 TTCAAT
1 TTCAAT
6410157 TAGTCTAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 7 0.30
21 7 0.30
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (21 bp):
TTCAATCAAATTTGTAGTTAG
Found at i:6413990 original size:14 final size:15
Alignment explanation
Indices: 6413960--6413995 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
6413950 GTTTATATAC
6413960 TGAAATTAAATTATG
1 TGAAATTAAATTATG
*
6413975 TGAAATTATA-TATG
1 TGAAATTAAATTATG
6413989 TGAAATT
1 TGAAATT
6413996 CGAATGTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (15 bp):
TGAAATTAAATTATG
Found at i:6414177 original size:43 final size:41
Alignment explanation
Indices: 6414128--6414242 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 41
6414118 ATATGTGTTC
*
6414128 TCGTGTAAGACCACATCTGGGACGTTGGCATCG-ATCTGTGAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGTAT-T-TGAT
* * * * **
6414170 TACGTGTAAGACCATGTTTGGGACATCGAAATCGTATTTGAT
1 T-CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAT
6414212 TCGTGTAAGACC-CTGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCAC-GTCTGGGACGTTGGCAT
6414243 TGTTTGATAT
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
41 23 0.40
42 6 0.11
43 26 0.46
44 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAT
Found at i:6415568 original size:11 final size:11
Alignment explanation
Indices: 6415554--6415598 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
6415544 AGATAAATAT
6415554 TATTTTATTAA
1 TATTTTATTAA
*
6415565 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
6415578 TATTTTATTAT
1 TATTTTATTAA
6415589 TATTTTATTA
1 TATTTTATTA
6415599 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:6416859 original size:22 final size:22
Alignment explanation
Indices: 6416834--6416877 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6416824 AACATGTCAG
6416834 AAATGACCAAATTGCATGAAAT
1 AAATGACCAAATTGCATGAAAT
6416856 AAATGACCAAATTGCATGAAAT
1 AAATGACCAAATTGCATGAAAT
6416878 GGATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATGACCAAATTGCATGAAAT
Found at i:6417812 original size:46 final size:46
Alignment explanation
Indices: 6417745--6417961 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
6417735 TGGCAACCTG
*
6417745 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* * *
6417791 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
6417837 TGTGTAAGACCATGGTTGAAAGATACCATGGAAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
6417883 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
6417929 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
6417962 TCACGTCAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 152 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:6418919 original size:22 final size:21
Alignment explanation
Indices: 6418889--6418944 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
6418879 ATAATGGAGT
6418889 AAATGATGTATGTTATTGAGTTA-
1 AAAT-ATGTATG-TATT-AGTTAG
6418912 AAATATGTAATGTATTAGTTAG
1 AAATATGT-ATGTATTAGTTAG
*
6418934 TAATATGTATG
1 AAATATGTATG
6418945 CCATATACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.27
22 15 0.50
23 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATATGTATGTATTAGTTAG
Found at i:6419811 original size:36 final size:36
Alignment explanation
Indices: 6419765--6419869 Score: 138
Period size: 36 Copynumber: 2.9 Consensus size: 36
6419755 TTCAGAGCCA
* * * *
6419765 CATTGGTGTGTTTTCGAATGGATTAACTCTTATAAG
1 CATTGATGTGTTTTTGGATGGATTAGCTCTTATAAG
* *
6419801 CATTGATGTGTTTTTGGATGAATTAGCTCTTATGAG
1 CATTGATGTGTTTTTGGATGGATTAGCTCTTATAAG
* *
6419837 AATTGATGTATTTTTGGATGGATTAGCTCTTAT
1 CATTGATGTGTTTTTGGATGGATTAGCTCTTAT
6419870 GAGTATCTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (36 bp):
CATTGATGTGTTTTTGGATGGATTAGCTCTTATAAG
Found at i:6420287 original size:26 final size:26
Alignment explanation
Indices: 6420251--6420303 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6420241 TCGGATTATA
6420251 TGGCATGTAATAGGCTTGTATGTCTT
1 TGGCATGTAATAGGCTTGTATGTCTT
6420277 TGGCATGTAATAGGCTTGTATGTCTT
1 TGGCATGTAATAGGCTTGTATGTCTT
6420303 T
1 T
6420304 ACTATTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.43
Consensus pattern (26 bp):
TGGCATGTAATAGGCTTGTATGTCTT
Found at i:6428477 original size:27 final size:27
Alignment explanation
Indices: 6428439--6428492 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6428429 ATAAGATGTT
6428439 GTCATTGGGGAACAATTACTGAACTAA
1 GTCATTGGGGAACAATTACTGAACTAA
6428466 GTCATTGGGGAACAATTACTGAACTAA
1 GTCATTGGGGAACAATTACTGAACTAA
6428493 CACATTACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (27 bp):
GTCATTGGGGAACAATTACTGAACTAA
Found at i:6428498 original size:27 final size:27
Alignment explanation
Indices: 6428441--6428498 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
6428431 AAGATGTTGT
**
6428441 CATTGGGGAACAATTACTGAACTAAGT
1 CATTGGGGAACAATTACTGAACTAACA
6428468 CATTGGGGAACAATTACTGAACTAACA
1 CATTGGGGAACAATTACTGAACTAACA
6428495 CATT
1 CATT
6428499 ACGAGAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (27 bp):
CATTGGGGAACAATTACTGAACTAACA
Found at i:6428588 original size:81 final size:81
Alignment explanation
Indices: 6428453--6428616 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 81
6428443 TTGGGGAACA
*
6428453 ATTACTGAACTAAGTCATTGGGGAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
1 ATTACTGAACTAAGTCATTGGGAAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
6428518 ATTATATAAAAATCAC
66 ATTATATAAAAATCAC
6428534 ATTACTGAACTAAGTCATTGGGAAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
1 ATTACTGAACTAAGTCATTGGGAAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
6428599 ATTATATAAAAATCAC
66 ATTATATAAAAATCAC
6428615 AT
1 AT
6428617 CAATTCTCGT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (81 bp):
ATTACTGAACTAAGTCATTGGGAAACAATTACTGAACTAACACATTACGAGAATGTTCTCAGACT
ATTATATAAAAATCAC
Found at i:6435670 original size:18 final size:19
Alignment explanation
Indices: 6435642--6435677 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6435632 TTAAATTCCC
6435642 TTTTAATTTCTCACTCAAA
1 TTTTAATTTCTCACTCAAA
*
6435661 TTTT-ATTTCTCTCTCAA
1 TTTTAATTTCTCACTCAA
6435678 CTCTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTCTCACTCAAA
Found at i:6435684 original size:18 final size:18
Alignment explanation
Indices: 6435647--6435685 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6435637 TTCCCTTTTA
*
6435647 ATTTCTCACTCAAATTTT
1 ATTTCTCACTCAAATCTT
* *
6435665 ATTTCTCTCTCAACTCTT
1 ATTTCTCACTCAAATCTT
6435683 ATT
1 ATT
6435686 ATTATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTCTCACTCAAATCTT
Found at i:6438568 original size:39 final size:39
Alignment explanation
Indices: 6438525--6438603 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
6438515 ATTTCGATGT
*
6438525 CTGTCCTTGAGTATTTTCTCCTTTCTACTTTGCGTCCCC
1 CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCCCC
6438564 CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCCCC
1 CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCCCC
6438603 C
1 C
6438604 CTTTGATCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.08, C:0.35, G:0.13, T:0.44
Consensus pattern (39 bp):
CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCCCC
Found at i:6440675 original size:6 final size:6
Alignment explanation
Indices: 6440664--6440725 Score: 63
Period size: 6 Copynumber: 10.3 Consensus size: 6
6440654 CTTTAGAACT
* * ***
6440664 AAAATA AAAATA AAAATA AAAATG AAAATG AAAATA AAGCGA AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
6440711 AAAATA TAAAATA AA
1 AAAATA -AAAATA AA
6440726 TAGACTCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
5 5 0.11
6 35 0.76
7 6 0.13
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:6440692 original size:24 final size:23
Alignment explanation
Indices: 6440663--6440725 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
6440653 TCTTTAGAAC
*
6440663 TAAAATAAAAATAAAAATAAAAA
1 TAAAATAAAAATAAAAAGAAAAA
* **
6440686 TGAAAATGAAAATAAAGCGAAAAA
1 T-AAAATAAAAATAAAAAGAAAAA
6440710 TAAAATATAAAATAAA
1 TAAAATA-AAAATAAA
6440726 TAGACTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 6 0.18
24 27 0.82
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (23 bp):
TAAAATAAAAATAAAAAGAAAAA
Found at i:6442300 original size:19 final size:21
Alignment explanation
Indices: 6442276--6442317 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6442266 AATCATAATA
6442276 AATAACA-AAT-ATAATGAAG
1 AATAACAGAATAATAATGAAG
6442295 AATAACAGTAATAATAATGAAG
1 AATAACAG-AATAATAATGAAG
6442317 A
1 A
6442318 CTAATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (21 bp):
AATAACAGAATAATAATGAAG
Found at i:6448237 original size:39 final size:39
Alignment explanation
Indices: 6448183--6448257 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
6448173 ATTCCAATGT
*
6448183 CTGTCCTTGAGTATTTTCTCCTTTCTACTCTGCGTCGCC
1 CTGTCATTGAGTATTTTCTCCTTTCTACTCTGCGTCGCC
6448222 CTGTCATTGAGTATTTTCTCCTTTCTACTCTGCGTC
1 CTGTCATTGAGTATTTTCTCCTTTCTACTCTGCGTC
6448258 CCCCCTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.09, C:0.31, G:0.15, T:0.45
Consensus pattern (39 bp):
CTGTCATTGAGTATTTTCTCCTTTCTACTCTGCGTCGCC
Found at i:6449161 original size:50 final size:50
Alignment explanation
Indices: 6449001--6449169 Score: 197
Period size: 48 Copynumber: 3.5 Consensus size: 50
6448991 CCTGTGTGCT
* ** * *
6449001 AGTGTAAGA-CATGTCTGAGACAT-GCATTGGCCAC-AT-TCTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
* * * * *
6449047 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG--AGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
*
6449095 AGTGTAAGACTATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
6449145 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
6449170 ATATCGACTT
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 9 0.09
47 13 0.13
48 46 0.46
50 32 0.32
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATATGAGAGCC
Found at i:6449201 original size:98 final size:98
Alignment explanation
Indices: 6449039--6449218 Score: 231
Period size: 98 Copynumber: 1.8 Consensus size: 98
6449029 GGCCACATTC
* * * *
6449039 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCATTGAGACGAGAGCCAATATAAGA
*
6449104 CTATG-TCTGGGACATGGCATCAGCCTCGATATA
66 CAATGTTC-GGGACATGGCATCAGCCTCGATATA
* * * *
6449137 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGATATC-GACTTTGATG-TGTGAGCCAATATAA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAG-CATTGA-GACGAGAGCCAATATAA
6449200 GACAATGTTCGGGACATGG
64 GACAATGTTCGGGACATGG
6449219 TGTCGACATC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
97 1 0.01
98 66 0.94
99 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (98 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCATTGAGACGAGAGCCAATATAAGA
CAATGTTCGGGACATGGCATCAGCCTCGATATA
Found at i:6453500 original size:19 final size:19
Alignment explanation
Indices: 6453436--6453500 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
6453426 TTTATATCTC
*
6453436 AAAAAATTATAAAGAAAA-T
1 AAAAAAATATAAA-AAAACT
*
6453455 AAAGAATATATAAAAAAAACT
1 AAA-AAAATAT-AAAAAAACT
**
6453476 TGAAAAATATAAAAAAACT
1 AAAAAAATATAAAAAAACT
6453495 AAAAAA
1 AAAAAA
6453501 CCTTAAACCT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 16 0.44
20 15 0.42
21 5 0.14
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAAAAATATAAAAAAACT
Found at i:6473680 original size:131 final size:131
Alignment explanation
Indices: 6473444--6473710 Score: 311
Period size: 131 Copynumber: 2.0 Consensus size: 131
6473434 GATTATTCAC
* * * **
6473444 TTAAAAATTCTTTAAAACGAAGGCAATGTTCAATGTTCGGCAACTTGGGAATCGTACCCTATCGT
1 TTAAAAATTCTTTAAAACAAAGGCAATGTTCAATGTTCGACAACTGGGGAATCACACCCTATCGT
* * * * *
6473509 GCTGGGTTGCGATTTCCCATTTGTTCAAAACCATCTAATATTCTTTTGGAATTTCACCCATG-TC
66 GCTGGGTTACGATTTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACCCATGTTC
6473573 T
131 T
* * ** * * *
6473574 TTAAAAATTCTTTAAAACAAATGTAATGTTTGATGTTTGACAACTCGGGGAATCACGCCCTATTG
1 TTAAAAATTCTTTAAAACAAAGGCAATGTTCAATGTTCGACAACT-GGGGAATCACACCCTATCG
* ** * * *
6473639 TGTTGGGTTACGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTT
65 TGCTGGGTTACGATTTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACCCATGTT
6473704 CT
130 CT
6473706 TTAAA
1 TTAAA
6473711 TTCTAAAATA
Statistics
Matches: 112, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
130 38 0.34
131 66 0.59
132 8 0.07
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (131 bp):
TTAAAAATTCTTTAAAACAAAGGCAATGTTCAATGTTCGACAACTGGGGAATCACACCCTATCGT
GCTGGGTTACGATTTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACCCATGTTC
T
Found at i:6478786 original size:36 final size:37
Alignment explanation
Indices: 6478746--6478827 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 37
6478736 AAATTTTGTC
6478746 AAAAAATATTT-AAAAACAATAAGTTTTCAAGTCAAT
1 AAAAAATATTTAAAAAACAATAAGTTTTCAAGTCAAT
6478782 AAAAAATATTTAAAAAAACAATAAGTTTTCAAGTCAAT
1 AAAAAATATTT-AAAAAACAATAAGTTTTCAAGTCAAT
6478820 AAAAAATA
1 AAAAAATA
6478828 ATCAATTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 11 0.25
38 33 0.75
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (37 bp):
AAAAAATATTTAAAAAACAATAAGTTTTCAAGTCAAT
Found at i:6483080 original size:20 final size:21
Alignment explanation
Indices: 6483055--6483095 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6483045 TTTCTTTCAC
6483055 TATTTTAAAT-ATAAAATATT
1 TATTTTAAATCATAAAATATT
*
6483075 TATTTTATATCATAAAATATT
1 TATTTTAAATCATAAAATATT
6483096 AAAATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTTAAATCATAAAATATT
Found at i:6490188 original size:32 final size:30
Alignment explanation
Indices: 6490114--6490195 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
6490104 GTATACAATT
* *
6490114 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
6490146 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
6490178 GCTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
6490196 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 21 0.47
33 4 0.09
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:6490469 original size:20 final size:20
Alignment explanation
Indices: 6490444--6490483 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6490434 ATAACAAACA
**
6490444 GGAAAGAAATGAAGAAAAGG
1 GGAAAGAAAAAAAGAAAAGG
6490464 GGAAAGAAAAAAAGAAAAGG
1 GGAAAGAAAAAAAGAAAAGG
6490484 AAAAACTAGG
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:0.65, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
GGAAAGAAAAAAAGAAAAGG
Found at i:6491387 original size:5 final size:5
Alignment explanation
Indices: 6491377--6491404 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6491367 GTCTAGTAAA
6491377 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
6491405 GTTATATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6492403 original size:21 final size:20
Alignment explanation
Indices: 6492366--6492420 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
6492356 TATTAAAATA
6492366 TAAAAATA-ATA-ATAGTAT
1 TAAAAATATATACATAGTAT
6492384 TAAAAAGTATATACATAGTAT
1 TAAAAA-TATATACATAGTAT
*
6492405 TAACAATATATACATA
1 TAAAAATATATACATA
6492421 ATATAGTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 6 0.18
19 2 0.06
20 13 0.39
21 12 0.36
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
TAAAAATATATACATAGTAT
Found at i:6492469 original size:74 final size:74
Alignment explanation
Indices: 6492360--6492499 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 74
6492350 TGTATATATT
* *
6492360 AAAATATAAAAATAATAATAGTATTAAAAAGTATAT-ACATAGTATTAACAATATATACATAATA
1 AAAATATAAAAATAATAATAATATTAAAAAGTATATAACATAGTATTAA-AAAATATACATAATA
6492424 TAGTTATTAA
65 TAGTTATTAA
* * ** * *
6492434 AAAATATATAAATAA-AATAATATGTAATATTTATATAATATAGTATTAAAAAATATACATGATA
1 AAAATATAAAAATAATAATAATAT-TAAAAAGTATATAACATAGTATTAAAAAATATACATAATA
6492498 TA
65 TA
6492500 TATAAAATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
73 7 0.12
74 38 0.68
75 11 0.20
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (74 bp):
AAAATATAAAAATAATAATAATATTAAAAAGTATATAACATAGTATTAAAAAATATACATAATAT
AGTTATTAA
Found at i:6492554 original size:24 final size:24
Alignment explanation
Indices: 6492527--6492589 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
6492517 AAAAGATATA
*
6492527 TATACGTAATATATA-TAAAAAAT
1 TATACATAATATATATTAAAAAAT
*
6492550 GTATACATAATATAGTATTAAAATAT
1 -TATACATAATATA-TATTAAAAAAT
6492576 T-TACATAATATATA
1 TATACATAATATATA
6492590 CATATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 3 0.09
26 7 0.20
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATATATTAAAAAAT
Found at i:6492668 original size:21 final size:20
Alignment explanation
Indices: 6492639--6492692 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
6492629 TAATACTACA
*
6492639 TAAATATATACATATATATAT
1 TAAACATATACATATATA-AT
*
6492660 TAAAGATATATGCATATATAAT
1 TAAACATATA--CATATATAAT
*
6492682 AAAACATATAC
1 TAAACATATAC
6492693 TAATATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 9 0.32
22 10 0.36
23 8 0.29
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (20 bp):
TAAACATATACATATATAAT
Found at i:6494633 original size:77 final size:75
Alignment explanation
Indices: 6494535--6494730 Score: 245
Period size: 77 Copynumber: 2.6 Consensus size: 75
6494525 TCCTCAGTGT
* * * *
6494535 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAGACT-AAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
6494599 GATACCTCAGC
66 -ATACCTCAGC
*
6494610 GTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAAACAGAAATTG
1 G--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACAGAAATTG
*
6494673 AAAATACCTCGGC
63 AAAATACCTCAGC
* * * *
6494686 GTGTCTCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6494731 GAAACATAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
74 35 0.34
75 6 0.06
76 23 0.22
77 40 0.38
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (75 bp):
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
ATACCTCAGC
Found at i:6494723 original size:74 final size:75
Alignment explanation
Indices: 6494543--6494971 Score: 331
Period size: 75 Copynumber: 5.5 Consensus size: 75
6494533 GTGTGACCTG
* *
6494543 AGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTG-AAAAACAGAGACTAAAGATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAACAGAAACTAAAGATACCTC
*
6494607 AGCGTATGACCCG
64 AGCG-ATGACCCA
* * *
6494620 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATTGAAA-ATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAACT-AAAGATACCTCA
* *
6494684 GCG-TGTCTCA
65 GCGATGACCCA
* *
6494694 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAACATAA-ATTGAAAAATAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-AACA--G-AAACT--AAA--G
* ** *
6494758 AAAATACCTTAGC-ATGTGAGTCG
57 ---ATACCTCAGCGA--TGACCCA
* *
6494781 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ATAAACAGAAATTAAA-ATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAACAGAAACTAAAGA-TACCT
* **
6494844 CAGCG-TGTCCTG
63 CAGCGATGACCCA
* *
6494856 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGACAGAAATTGAAA-ATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAACAGAAACT-AAAGATACCT
* * ***
6494919 CAACG-TGTCTTG
63 CAGCGATGACCCA
6494931 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
6494972 TAGAAATAAA
Statistics
Matches: 300, Mismatches: 28, Indels: 51
0.79 0.07 0.13
Matches are distributed among these distances:
73 6 0.02
74 45 0.15
75 108 0.36
76 28 0.09
77 43 0.14
78 4 0.01
79 4 0.01
82 3 0.01
84 4 0.01
85 9 0.03
86 2 0.01
87 37 0.12
88 1 0.00
89 6 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAACTAAAGATACCTCAG
CGATGACCCA
Found at i:6494760 original size:85 final size:86
Alignment explanation
Indices: 6494659--6494817 Score: 239
Period size: 87 Copynumber: 1.8 Consensus size: 86
6494649 TGAATTTTGA
* * *
6494659 AAAAACAGAAATTGAAAATACCTCGGC-GTGTCTCAAGGCTCAACTCACCTCTCGTAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCAGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGT
6494723 TGATTTTTGAAACATAAATTG
66 TGATTTTTGAAACATAAATTG
* * * *
6494744 AAAAATAGAAATTGAAAATACCTTAGCATGTGAGTCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCA-GTGACTCAAGGCTCAACTCACCTCTCGCAATATGAG
6494809 TTGATTTTT
65 TTGATTTTT
6494818 TTGATAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 24 0.37
87 41 0.63
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (86 bp):
AAAAACAGAAATTGAAAATACCTCAGCAGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAACATAAATTG
Found at i:6494882 original size:162 final size:151
Alignment explanation
Indices: 6494543--6494967 Score: 502
Period size: 161 Copynumber: 2.7 Consensus size: 151
6494533 GTGTGACCTG
* * *
6494543 AGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAGACT-AAAGATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA-ATACCTC
* * *
6494607 AGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAAACAGAAA
65 AACG--TGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAA
*
6494670 TTGAAAATACCTCGGCGTGTCTCA
128 TTGAAAATACCTCAGCGTGTCTCA
* *
6494694 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAAAATAGAAATTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT------T---TTGAAAAACAGAAATTGA
* * * *
6494759 AAATACCTTAGCATGTGAGTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AT
56 AAATACCTCA--ACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
*
6494823 AAACAGAAATT-AAAATTACCTCAGCGTGTC-CTG
119 AAACAGAAATTGAAAA-TACCTCAGCGTGTCTC-A
*
6494856 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
* *
6494921 ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
66 ACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6494968 GAAATAGAAA
Statistics
Matches: 235, Mismatches: 22, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
150 43 0.18
151 30 0.13
152 29 0.12
155 1 0.00
158 1 0.00
161 66 0.28
162 59 0.25
163 6 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (151 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
ACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTG
AAAATACCTCAGCGTGTCTCA
Found at i:6494971 original size:237 final size:237
Alignment explanation
Indices: 6494542--6494971 Score: 686
Period size: 237 Copynumber: 1.8 Consensus size: 237
6494532 TGTGTGACCT
*
6494542 GAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAGACTAAAGATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAAACTAAAGATACCTC
6494607 AGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATT
66 AGCG-ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATT
** *
6494672 GAAAATACCTCGGCGTGTCTCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAACA
130 GAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA
6494737 TAAATTGAAAAATAGAAATTGAAAATACCTTAGCATGTGAGTC
195 TAAATTGAAAAATAGAAATTGAAAATACCTTAGCATGTGAGTC
* * *
6494780 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAACAGAAATTAAA-ATTACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAAACTAAAGA-TACCT
* * * *
6494844 CAGCG-TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGACAGAAA
65 CAGCGATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAAACAGAAA
**
6494907 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
128 TTGAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
6494972 TAGAAATAAA
Statistics
Matches: 176, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
236 37 0.21
237 71 0.40
238 68 0.39
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (237 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGGTGATTTTTTTGAAAAACAGAAACTAAAGATACCTC
AGCGATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATTG
AAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAT
AAATTGAAAAATAGAAATTGAAAATACCTTAGCATGTGAGTC
Found at i:6503293 original size:22 final size:22
Alignment explanation
Indices: 6503262--6503303 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6503252 ATGCAATGAA
*
6503262 TGAATGAATGACAAATGAATAT
1 TGAATAAATGACAAATGAATAT
*
6503284 TGAATAAATGACGAATGAAT
1 TGAATAAATGACAAATGAAT
6503304 GTTAGTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATAT
Found at i:6507291 original size:21 final size:20
Alignment explanation
Indices: 6507257--6507310 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
6507247 ATTAAAATAT
6507257 AAACATAATA-ATAGTATTAA
1 AAACAT-ATACATAGTATTAA
6507277 AAAGCATATACATAGTATTAA
1 AAA-CATATACATAGTATTAA
* *
6507298 CAATATATACATA
1 AAACATATACATA
6507311 ATATAGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.30
Consensus pattern (20 bp):
AAACATATACATAGTATTAA
Found at i:6507307 original size:20 final size:21
Alignment explanation
Indices: 6507267--6507310 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6507257 AAACATAATA
6507267 ATAGTATTAAAAAGCATATAC
1 ATAGTATTAAAAAGCATATAC
* *
6507288 ATAGTATTAACAA-TATATAC
1 ATAGTATTAAAAAGCATATAC
6507308 ATA
1 ATA
6507311 ATATAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (21 bp):
ATAGTATTAAAAAGCATATAC
Found at i:6507312 original size:47 final size:46
Alignment explanation
Indices: 6507246--6507337 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 46
6507236 CATATGTATA
*
6507246 TATTAAAATATAAACATAATAATAG-TATTAAAAAGCATATACATAG
1 TATTAAAATATAAACATAAT-ATAGTTATTAAAAAACATATACATAG
* *
6507292 TATTAACAATATATACATAATATAGTTATTAAAAAATATATACATA
1 TATTAA-AATATAAACATAATATAGTTATTAAAAAACATATACATA
6507338 AAACAATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
46 10 0.24
47 31 0.76
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (46 bp):
TATTAAAATATAAACATAATATAGTTATTAAAAAACATATACATAG
Found at i:6507332 original size:29 final size:27
Alignment explanation
Indices: 6507299--6507481 Score: 105
Period size: 24 Copynumber: 6.6 Consensus size: 27
6507289 TAGTATTAAC
6507299 AATATATACATAATATAGTTATT-AAAA
1 AATATATACATAATATAG-TATTAAAAA
* * *
6507326 AATATATACATAAAACAATATGTAAAAAA
1 AATATATACATAATATAGTAT-T-AAAAA
*
6507355 AATATATAAATAATATAGTATT--AAA
1 AATATATACATAATATAGTATTAAAAA
*
6507380 AA-ATATACATGATATA-TA-TAAAATA
1 AATATATACATAATATAGTATTAAAA-A
* *
6507405 TAATATTAAAAAGATATATATACGTAATATATAAAA
1 -AATA-T--ATACATA-ATATA-GT-AT-TA-AAAA
*
6507441 AATGTATACATAATATAGTATT---AA
1 AATATATACATAATATAGTATTAAAAA
*
6507465 AATATTTACATAATATA
1 AATATATACATAATATA
6507482 TACATATTAG
Statistics
Matches: 121, Mismatches: 17, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 31 0.26
25 6 0.05
26 5 0.04
27 17 0.14
28 3 0.02
29 23 0.19
30 6 0.05
31 10 0.08
32 5 0.04
33 1 0.01
34 2 0.02
35 3 0.02
36 3 0.02
37 3 0.02
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
AATATATACATAATATAGTATTAAAAA
Found at i:6507335 original size:27 final size:26
Alignment explanation
Indices: 6507230--6507386 Score: 116
Period size: 27 Copynumber: 6.2 Consensus size: 26
6507220 TAATGTTACC
*
6507230 TATATACATATGTATA-TATT--AAAA
1 TATATACATA-ATATAGTATTAAAAAA
* *
6507254 TATAAACATAATAATAGTATTAAAAAG
1 TATATACATAAT-ATAGTATTAAAAAA
* *
6507281 CATATAC-----ATAGTATT-AACAA
1 TATATACATAATATAGTATTAAAAAA
6507301 TATATACATAATATAGTTATTAAAAAA
1 TATATACATAATATAG-TATTAAAAAA
* * *
6507328 TATATACATAAAACAATATGTAAAAAAAA
1 TATATACATAATATAGTAT-T--AAAAAA
*
6507357 TATATAAATAATATAGTATTAAAAAA
1 TATATACATAATATAGTATTAAAAAA
6507383 TATA
1 TATA
6507387 CATGATATAT
Statistics
Matches: 103, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
20 9 0.09
21 8 0.08
23 1 0.01
24 12 0.12
25 8 0.08
26 17 0.17
27 26 0.25
28 1 0.01
29 21 0.20
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
TATATACATAATATAGTATTAAAAAA
Found at i:6507353 original size:13 final size:13
Alignment explanation
Indices: 6507322--6507386 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
6507312 TATAGTTATT
6507322 AAAAAATATATACA
1 AAAAAATATATA-A
*
6507336 TAAAACAATATGTAA
1 -AAAA-AATATATAA
6507351 AAAAAATATATAA
1 AAAAAATATATAA
* * *
6507364 ATAATATAGTAT-T
1 AAAAAATA-TATAA
6507377 AAAAAATATA
1 AAAAAATATA
6507387 CATGATATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
12 2 0.05
13 20 0.49
14 7 0.17
15 5 0.12
16 7 0.17
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (13 bp):
AAAAAATATATAA
Found at i:6507410 original size:64 final size:64
Alignment explanation
Indices: 6507342--6507469 Score: 147
Period size: 64 Copynumber: 2.0 Consensus size: 64
6507332 TACATAAAAC
*
6507342 AATATGTAAAAA-AAATATATAAATAATATAGTATTAAAAA-ATATACATGATATA-TA-TAAAA
1 AATAT-TAAAAAGAAATATATAAATAATATA-TA--AAAAATATATACATAATATAGTATTAAAA
6507403 TAT
62 TAT
* ** *
6507406 AATATTAAAAAGATATATATACGTAATATATAAAAAATGTATACATAATATAGTATTAAAATAT
1 AATATTAAAAAGAAATATATAAATAATATATAAAAAATATATACATAATATAGTATTAAAATAT
6507470 TTACATAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
61 5 0.09
62 12 0.22
63 10 0.18
64 28 0.51
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (64 bp):
AATATTAAAAAGAAATATATAAATAATATATAAAAAATATATACATAATATAGTATTAAAATAT
Found at i:6507435 original size:38 final size:34
Alignment explanation
Indices: 6507355--6507440 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 34
6507345 ATGTAAAAAA
*
6507355 AATATATAAATAATATAGTATTAAAAAATATACATG
1 AATATAT-AA-AATATAATATTAAAAAATATACATG
*
6507391 ATATATATAAAATATAATATTAAAAAGATATATATACG
1 A-ATATATAAAATATAATATTAAAAA-ATATACAT--G
6507429 TAATATATAAAA
1 -AATATATAAAA
6507441 AATGTATACA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
35 15 0.35
36 10 0.23
37 6 0.14
38 11 0.26
39 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (34 bp):
AATATATAAAATATAATATTAAAAAATATACATG
Found at i:6507485 original size:11 final size:11
Alignment explanation
Indices: 6507420--6507487 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
6507410 TTAAAAAGAT
*
6507420 ATATATACGTA
1 ATATATACATA
* *
6507431 ATATATAAAAA
1 ATATATACATA
*
6507442 ATGTATACATA
1 ATATATACATA
* *
6507453 ATATAGTATTAAA
1 ATATA-TA-CATA
*
6507466 ATATTTACATA
1 ATATATACATA
6507477 ATATATACATA
1 ATATATACATA
6507488 TTAGAAATAA
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
11 32 0.76
12 4 0.10
13 6 0.14
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (11 bp):
ATATATACATA
Found at i:6507559 original size:21 final size:21
Alignment explanation
Indices: 6507529--6507575 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6507519 ATAATACTAC
* *
6507529 ATAAATATATACATATATATA
1 ATAAAGATATACACATATATA
* *
6507550 TTAAAGATATATACATATATA
1 ATAAAGATATACACATATATA
6507571 ATAAA
1 ATAAA
6507576 ACACATATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAAAGATATACACATATATA
Found at i:6510489 original size:23 final size:23
Alignment explanation
Indices: 6510459--6510503 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6510449 GGACAATTCG
6510459 ACTTCTTATTTTAATTGGATAGA
1 ACTTCTTATTTTAATTGGATAGA
6510482 ACTTCTTATTTTAATTGGATAG
1 ACTTCTTATTTTAATTGGATAG
6510504 GAGAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (23 bp):
ACTTCTTATTTTAATTGGATAGA
Done.