Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 53 of 335
Found at i:18987978 original size:30 final size:31
Alignment explanation
Indices: 18987942--18988004 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
18987932 ATAATTTACA
*
18987942 AAAATTAGATC-AAATTAAAATTT-TATGTAT
1 AAAATTAGA-CAAAATTAAAATTTATATATAT
*
18987972 AAAATTATACAAAATTAAAATTTATATATAT
1 AAAATTAGACAAAATTAAAATTTATATATAT
18988003 AA
1 AA
18988005 TTACATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 20 0.69
31 8 0.28
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAATTAGACAAAATTAAAATTTATATATAT
Found at i:19003564 original size:21 final size:20
Alignment explanation
Indices: 19003540--19003590 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
19003530 ATTTATAACA
* *
19003540 TATTCAATTCTCATCTCTTAC
1 TATTCAAATCTCAT-ACTTAC
*
19003561 TATTTCAAATCTCATACTTGC
1 TA-TTCAAATCTCATACTTAC
19003582 TATTCAAAT
1 TATTCAAAT
19003591 AGTTTTTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 11 0.42
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTCAAATCTCATACTTAC
Found at i:19003763 original size:40 final size:38
Alignment explanation
Indices: 19003713--19003880 Score: 151
Period size: 37 Copynumber: 4.3 Consensus size: 38
19003703 GTTTGGTACC
* * *
19003713 CAGTACCTCATCGGATAATTCGAAGTAATAATTTGACACT
1 CAGTGCCTCATCGGCTAAATCGAAGTAA-AA-TTGACACT
* *
19003753 TAGTGTCTCATCGGCTAAATCGAAGT-AAATTGACACT
1 CAGTGCCTCATCGGCTAAATCGAAGTAAAATTGACACT
* * *
19003790 CAGTGCCTCATCGGCTAAACCGAAGT-AAATTGGCACC
1 CAGTGCCTCATCGGCTAAATCGAAGTAAAATTGACACT
* ** * *
19003827 CAGTGCCTCATTGAATTAATCCGAAGTAATAGATTGACACC
1 CAGTGCCTCATCGGCTAAAT-CGAAGTAA-A-ATTGACACT
*
19003868 CAGTGTCTCATCG
1 CAGTGCCTCATCG
19003881 ACTCGAAGTC
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
37 55 0.52
38 8 0.08
39 2 0.02
40 22 0.21
41 19 0.18
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (38 bp):
CAGTGCCTCATCGGCTAAATCGAAGTAAAATTGACACT
Found at i:19004851 original size:22 final size:21
Alignment explanation
Indices: 19004822--19004890 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 21
19004812 TTTTCTTTTC
19004822 TTTATTTATT-TCATTTACTTA
1 TTTATTTATTAT-ATTTACTTA
19004843 TTTATTTTATTATATTTACTTTA
1 TTTA-TTTATTATATTTAC-TTA
19004866 TTATTATATTATATATATTTACTTA
1 -T-TTAT-TTAT-TATATTTACTTA
19004891 AATATTAAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
21 4 0.10
22 12 0.29
23 4 0.10
24 2 0.05
25 10 0.24
26 9 0.22
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTTATTATATTTACTTA
Found at i:19004860 original size:14 final size:14
Alignment explanation
Indices: 19004841--19004886 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
19004831 TTCATTTACT
19004841 TATTTATTTTATTA
1 TATTTATTTTATTA
*
19004855 TATTTACTTTATTA
1 TATTTATTTTATTA
* *
19004869 T-TATATTATA-TA
1 TATTTATTTTATTA
19004881 TATTTA
1 TATTTA
19004887 CTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTATTTTATTA
Found at i:19004886 original size:26 final size:27
Alignment explanation
Indices: 19004835--19004889 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
19004825 ATTTATTTCA
*
19004835 TTTACTTATTTATTTTATTATATTTAC
1 TTTACTTATTTATTATATTATATTTAC
19004862 TTTA-TTATTATATTATA-TATATTTAC
1 TTTACTTATT-TATTATATTATATTTAC
19004888 TT
1 TT
19004890 AAATATTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTACTTATTTATTATATTATATTTAC
Found at i:19004896 original size:26 final size:25
Alignment explanation
Indices: 19004844--19004897 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
19004834 ATTTACTTAT
* * *
19004844 TTATTTTATTATATTTACTTTATTA
1 TTATATTATTATATTTACTTAAATA
19004869 TTATATTATATATATTTACTTAAATA
1 TTATATTAT-TATATTTACTTAAATA
19004895 TTA
1 TTA
19004898 AGTAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATTATTATATTTACTTAAATA
Found at i:19004909 original size:26 final size:26
Alignment explanation
Indices: 19004854--19004911 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
19004844 TTATTTTATT
* * * *
19004854 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAC
19004880 ATATTTACTTAAATATTA-AGTAATAC
1 ATATTTACTTAAATATTATA-TAATAC
19004906 ATATTT
1 ATATTT
19004912 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAC
Found at i:19013075 original size:15 final size:16
Alignment explanation
Indices: 19013048--19013077 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19013038 AGATATTCCA
19013048 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
19013064 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
19013078 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:19021033 original size:3 final size:3
Alignment explanation
Indices: 19021025--19021054 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
19021015 TCCTTCCATC
*
19021025 TAA TAA TAA TAA TAA GAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19021055 AAGGTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:19034752 original size:28 final size:27
Alignment explanation
Indices: 19034707--19034760 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
19034697 GATGTTGATG
19034707 ATATTTTATAATTATTTAATTGAGATAA
1 ATATTTTATAATTATTTAA-TGAGATAA
*
19034735 ATATTATTTTAATT-TTTAATGAGATA
1 ATATT-TTATAATTATTTAATGAGATA
19034761 TTTTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
28 10 0.42
29 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (27 bp):
ATATTTTATAATTATTTAATGAGATAA
Found at i:19034785 original size:11 final size:10
Alignment explanation
Indices: 19034763--19034796 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
19034753 ATGAGATATT
19034763 TTATTATTTA
1 TTATTATTTA
19034773 TTATTATTTTA
1 TTATTA-TTTA
19034784 TTATTAATTTA
1 TTATT-ATTTA
19034795 TT
1 TT
19034797 TAATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 15 0.68
12 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTTA
Found at i:19036554 original size:40 final size:40
Alignment explanation
Indices: 19036437--19036573 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
19036427 CTCGAGAATA
* * ** *
19036437 TAAAGTGAATAGGATTCATCCCTGATTCACTATAATACCT
1 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
* * * *
19036477 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
* *
19036517 TAAAGTGAATAGGATTTATTCCTAATTCACTACGGTAACT
1 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
* * *
19036557 TAAGGCGGATAGGATTT
1 TAAAGTGAATAGGATTT
19036574 GACCTGAAAA
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (40 bp):
TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
Found at i:19036640 original size:79 final size:79
Alignment explanation
Indices: 19036552--19036760 Score: 285
Period size: 79 Copynumber: 2.7 Consensus size: 79
19036542 TTCACTACGG
* * * * *
19036552 TAACTTAAGGCGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTACGGTTACATAATAT
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACACAATAC
*
19036617 ATGATTCATTATGG
66 ATGATTCATTATGA
* *
19036631 TAGCCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACACGATAC
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACACAATAC
*
19036696 ATGATTCCTTATGA
66 ATGATTCATTATGA
* * * * *
19036710 TAACTTAAGATGGGTAGGATTTGACCT-AAAAAGGTAATCTTGATTCACTAC
1 TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTAC
19036761 AGCTACATGA
Statistics
Matches: 115, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 22 0.19
79 93 0.81
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (79 bp):
TAACCTAAGGTGGATAGGATTTGACCTGAAAAAGGTAATCCTGATTCGCTACGGTTACACAATAC
ATGATTCATTATGA
Found at i:19037240 original size:57 final size:56
Alignment explanation
Indices: 19037139--19037305 Score: 133
Period size: 57 Copynumber: 3.0 Consensus size: 56
19037129 GTAAACGAAT
* * * * * * *
19037139 TTGAAATG-CATTGAAGTGAATTGTGTGTAATTGGTAGAATCTTATTGGTTGATAA
1 TTGATATGTCATTGAAATGAATTATGTGTAAATGGTAGAACCTTATAGATTGATAA
*
19037194 GTTGATATGTCATTGAAATGAATTATGT-TCAAATGGTATAACCTTATAGATTGATAA
1 -TTGATATGTCATTGAAATGAATTATGTGT-AAATGGTAGAACCTTATAGATTGATAA
* * ** * * * *
19037251 TGGGATATTTCATTGAAATGTGTTAAT-TGTAATTGGTATAATCTTATGGATTGAT
1 T-TGATATGTCATTGAAATGAATT-ATGTGTAAATGGTAGAACCTTATAGATTGAT
19037306 GTTAGAATAT
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
56 9 0.10
57 79 0.87
58 3 0.03
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (56 bp):
TTGATATGTCATTGAAATGAATTATGTGTAAATGGTAGAACCTTATAGATTGATAA
Found at i:19038487 original size:2 final size:2
Alignment explanation
Indices: 19038480--19038506 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19038470 TTTTAAAGCA
19038480 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19038507 AAATACACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19041634 original size:2 final size:2
Alignment explanation
Indices: 19041629--19041653 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19041619 ATATATATAT
19041629 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
19041654 AAACACCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19049366 original size:14 final size:14
Alignment explanation
Indices: 19049347--19049383 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
19049337 AATACCCCCA
19049347 CCCCCCCCCGGCCC
1 CCCCCCCCCGGCCC
19049361 CCCCCCCCCGGCCC
1 CCCCCCCCCGGCCC
19049375 CCCCCCCCC
1 CCCCCCCCC
19049384 CCCCAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.89, G:0.11, T:0.00
Consensus pattern (14 bp):
CCCCCCCCCGGCCC
Found at i:19049367 original size:15 final size:15
Alignment explanation
Indices: 19049342--19049384 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
19049332 AAAACAATAC
19049342 CCCCACCCCCCCCCGG
1 CCCC-CCCCCCCCCGG
19049358 -CCCCCCCCCCCCGG
1 CCCCCCCCCCCCCGG
19049372 CCCCCCCCCCCCC
1 CCCCCCCCCCCCC
19049385 CCCAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.02, C:0.88, G:0.09, T:0.00
Consensus pattern (15 bp):
CCCCCCCCCCCCCGG
Found at i:19055603 original size:46 final size:44
Alignment explanation
Indices: 19055499--19055606 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
19055489 TGTCTTTGAC
** * * *
19055499 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
19055543 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
19055589 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
19055607 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:19063926 original size:30 final size:30
Alignment explanation
Indices: 19063883--19063939 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19063873 ATATACACTT
19063883 AAATACAATTTTAAACTTCAATAAATATTC
1 AAATACAATTTTAAACTTCAATAAATATTC
* *
19063913 AAATA-AATATTTAAACTTTAATTAATA
1 AAATACAAT-TTTAAACTTCAATAAATA
19063940 AGCAGCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATACAATTTTAAACTTCAATAAATATTC
Found at i:19065679 original size:51 final size:51
Alignment explanation
Indices: 19065608--19065717 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
19065598 CTGATCACAT
*
19065608 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACCTATCAC
*
19065659 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACCTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACCTATCAC
*
19065710 TTGTCACT
1 TTATCACT
19065718 GATCAGAAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACCTATCAC
Found at i:19083586 original size:24 final size:26
Alignment explanation
Indices: 19083538--19083587 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
19083528 AATTACATGT
* *
19083538 ATTATAAAATAACTACAAATTTATTA
1 ATTATAAAATAACAACAAATATATTA
19083564 ATTATAAAA-AA-AACAAATATATTA
1 ATTATAAAATAACAACAAATATATTA
19083588 TAAGTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 2 0.09
26 9 0.41
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (26 bp):
ATTATAAAATAACAACAAATATATTA
Found at i:19083628 original size:22 final size:23
Alignment explanation
Indices: 19083587--19083629 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19083577 CAAATATATT
19083587 ATAAGTTTCATTATTTAAAAAAC
1 ATAAGTTTCATTATTTAAAAAAC
*
19083610 ATAAGTTTTATT-TTTAAAAA
1 ATAAGTTTCATTATTTAAAAA
19083630 TAATCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
ATAAGTTTCATTATTTAAAAAAC
Found at i:19084307 original size:18 final size:17
Alignment explanation
Indices: 19084264--19084316 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
19084254 GCTCGATCCA
19084264 TTTTTA-ATT-TGTAAT
1 TTTTTATATTATGTAAT
*
19084279 GTTTTTATATTATGTTAT
1 -TTTTTATATTATGTAAT
19084297 TTTTATATATTATGTAAT
1 TTTT-TATATTATGTAAT
19084315 TT
1 TT
19084317 ATAACAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 6 0.19
17 7 0.22
18 19 0.59
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (17 bp):
TTTTTATATTATGTAAT
Found at i:19090639 original size:29 final size:29
Alignment explanation
Indices: 19090597--19090656 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
19090587 TTGACTGTAT
*
19090597 TGCAGTTTATTGTTCATAAACCCTTTAAA
1 TGCAGTTTATTGTTCATAAACCCTTCAAA
19090626 TGCAGTTTATTGTTCATAAACCCTTCAAA
1 TGCAGTTTATTGTTCATAAACCCTTCAAA
19090655 TG
1 TG
19090657 ATGAAAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (29 bp):
TGCAGTTTATTGTTCATAAACCCTTCAAA
Found at i:19094460 original size:28 final size:28
Alignment explanation
Indices: 19094426--19094485 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
19094416 ATGTTTATCT
19094426 TCTTTTCTTAATTGTTCCTTAAATTTAC
1 TCTTTTCTTAATTGTTCCTTAAATTTAC
*
19094454 TCTTTTCTTAATTGTTCCTTAAATTTAT
1 TCTTTTCTTAATTGTTCCTTAAATTTAC
19094482 TCTT
1 TCTT
19094486 AAATATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (28 bp):
TCTTTTCTTAATTGTTCCTTAAATTTAC
Found at i:19101664 original size:20 final size:20
Alignment explanation
Indices: 19101639--19101676 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19101629 TTAAACCGTC
*
19101639 GTTTATTATTTTATTATTCG
1 GTTTATCATTTTATTATTCG
19101659 GTTTATCATTTTATTATT
1 GTTTATCATTTTATTATT
19101677 ATTTGTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (20 bp):
GTTTATCATTTTATTATTCG
Found at i:19102183 original size:42 final size:42
Alignment explanation
Indices: 19102137--19102224 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
19102127 GCGACAGCCT
**
19102137 TGATGACGATCAACTCCAAGGCAGCGACAGCCATAATGACGA
1 TGATGACGATCAACTCCAAAACAGCGACAGCCATAATGACGA
* * * * *
19102179 TGATGACGATCTACTCCAAAACAGCGACTGGCATGATGACGG
1 TGATGACGATCAACTCCAAAACAGCGACAGCCATAATGACGA
19102221 TGAT
1 TGAT
19102225 CATGATTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (42 bp):
TGATGACGATCAACTCCAAAACAGCGACAGCCATAATGACGA
Found at i:19106418 original size:2 final size:2
Alignment explanation
Indices: 19106411--19106436 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19106401 TTTTATTTTA
19106411 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19106437 CTAATAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19110458 original size:3 final size:3
Alignment explanation
Indices: 19110450--19110665 Score: 145
Period size: 3 Copynumber: 72.0 Consensus size: 3
19110440 TAAAAATGAC
* * *
19110450 AAT AAT AAT GAA- AAC AAT AAT AAT AAT AAT AAT ATT GAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * *
19110495 AAT AAT AGT GGT AA- AA- AAT AAT AAT ACT AAT GAT AAT AAT AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
19110541 ATT AAT AAT AGT ATT AAT AAT AAT GAT AAT AGT AAT ACAA AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * **
19110587 AAT AAA AAT AAT -AT AGT AAT AGT AAT AAT AAT GGT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* *
19110632 AAG AAT AAT AAC AAT AAT ACA- AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT
19110666 CTAAAGTTTG
Statistics
Matches: 162, Mismatches: 42, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
2 9 0.06
3 142 0.88
4 11 0.07
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:19110847 original size:3 final size:3
Alignment explanation
Indices: 19110839--19111005 Score: 92
Period size: 3 Copynumber: 55.7 Consensus size: 3
19110829 GAAAGAAAAT
* * * *
19110839 ATA ATA ATA ATA ATA GTA ATA AT- ATA ATA GTA ATA ATA ATA AGA AGGGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * *
19110888 ATA ATA AT- ATA TTA GATA GTAA ATA ATA ATA ATA ATA ATA ACA GTA
1 ATA ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
19110934 ATA A-A A-A ATG ATA ATA GTG ATA TTA GTA ATA ATA ATA ATA ACA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
19110979 GTA TTA ATA ATA GTA TATA TTA ATA AT
1 ATA ATA ATA ATA ATA -ATA ATA ATA AT
19111006 GACAGGTGTT
Statistics
Matches: 123, Mismatches: 32, Indels: 18
0.71 0.18 0.10
Matches are distributed among these distances:
2 9 0.07
3 105 0.85
4 6 0.05
5 3 0.02
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19110924 original size:28 final size:28
Alignment explanation
Indices: 19110887--19110990 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 28
19110877 ATAAGAAGGG
*
19110887 AATAATAATATATTAGATAGTAAATAAT
1 AATAATAATATATTAGATAATAAATAAT
* * *
19110915 AATAATAATA-ATAACAGTAATAAAAAAT
1 AATAATAATATATTAGA-TAATAAATAAT
* *
19110943 GATAATAGTGATATTAG-TAAT-AATAAT
1 AATAATAAT-ATATTAGATAATAAATAAT
* *
19110970 AATAACAATGTATTA-ATAATA
1 AATAATAATATATTAGATAATA
19110991 GTATATATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
26 9 0.16
27 15 0.26
28 30 0.52
29 1 0.02
30 3 0.05
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.33
Consensus pattern (28 bp):
AATAATAATATATTAGATAATAAATAAT
Found at i:19112174 original size:12 final size:12
Alignment explanation
Indices: 19112146--19112235 Score: 66
Period size: 12 Copynumber: 7.9 Consensus size: 12
19112136 TTAGCATATA
*
19112146 TAAAAATGATAG
1 TAAAAATAATAG
19112158 T-AAAATAATAG
1 TAAAAATAATAG
19112169 TAAAAA-AATAG
1 TAAAAATAATAG
* *
19112180 TTAAAATAATAA
1 TAAAAATAATAG
*
19112192 TAACAGA-AATAG
1 TAA-AAATAATAG
*
19112204 TAATAATAAT-G
1 TAAAAATAATAG
* *
19112215 T--AAATAGTAA
1 TAAAAATAATAG
19112225 TAAAAATAATA
1 TAAAAATAATA
19112236 ACGAAAATAG
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
9 5 0.08
10 1 0.02
11 23 0.39
12 28 0.47
13 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (12 bp):
TAAAAATAATAG
Found at i:19112184 original size:23 final size:22
Alignment explanation
Indices: 19112154--19112218 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
19112144 TATAAAAATG
19112154 ATAGTAAAATAATAGTAAAAAA
1 ATAGTAAAATAATAGTAAAAAA
* *
19112176 ATAGTTAAAATAATAATAACAGAA
1 ATAG-TAAAATAATAGTAA-AAAA
19112200 ATAGTAATAATAAT-GTAAA
1 ATAGTAA-AATAATAGTAAA
19112219 TAGTAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 5 0.14
23 19 0.51
24 13 0.35
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (22 bp):
ATAGTAAAATAATAGTAAAAAA
Found at i:19112209 original size:18 final size:18
Alignment explanation
Indices: 19112186--19112227 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
19112176 ATAGTTAAAA
19112186 TAATAATAACAG-AAATAG
1 TAATAATAA-AGTAAATAG
*
19112204 TAATAATAATGTAAATAG
1 TAATAATAAAGTAAATAG
19112222 TAATAA
1 TAATAA
19112228 AAATAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (18 bp):
TAATAATAAAGTAAATAG
Found at i:19112211 original size:24 final size:22
Alignment explanation
Indices: 19112154--19112260 Score: 73
Period size: 24 Copynumber: 4.9 Consensus size: 22
19112144 TATAAAAATG
* *
19112154 ATAGTAA-AATAATAGTAAAAAA
1 ATAGTAATAATAATAAT-AAGAA
19112176 ATAGTTAA-AATAATAATAACAGAA
1 ATAG-TAATAATAATAAT-A-AGAA
*
19112200 ATAGTAATAATAAT-GT---AA
1 ATAGTAATAATAATAATAAGAA
*
19112218 ATAGTAATAAAAATAATAACGAAA
1 ATAGTAATAATAATAATAA-G-AA
*
19112242 ATAGTAATGATAATAATAA
1 ATAGTAATAATAATAATAA
19112261 TATCTAATAG
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
18 15 0.22
19 1 0.01
22 4 0.06
23 17 0.25
24 32 0.46
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (22 bp):
ATAGTAATAATAATAATAAGAA
Found at i:19112233 original size:42 final size:42
Alignment explanation
Indices: 19112174--19112255 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
19112164 AATAGTAAAA
*
19112174 AAATAGTTAAAATAATAATAAC-AGAAATAGTAATAATAATGT
1 AAATAGTTAAAAAAATAATAACGA-AAATAGTAATAATAATGT
*
19112216 AAATAG-TAATAAAAATAATAACGAAAATAGTAATGATAAT
1 AAATAGTTAA-AAAAATAATAACGAAAATAGTAATAATAAT
19112256 AATAATATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 3 0.08
42 32 0.89
43 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (42 bp):
AAATAGTTAAAAAAATAATAACGAAAATAGTAATAATAATGT
Found at i:19115041 original size:79 final size:81
Alignment explanation
Indices: 19114932--19115114 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
19114922 TACTCGTTCA
* *
19114932 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
19114995 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
19115012 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
19115075 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
19115091 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19115115 TATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:19115114 original size:40 final size:40
Alignment explanation
Indices: 19114911--19115117 Score: 253
Period size: 40 Copynumber: 5.2 Consensus size: 40
19114901 CGGAATTTAA
** *
19114911 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19114951 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19114991 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19115030 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
19115070 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19115110 CCGGATAT
1 CCGGATAT
19115118 CATTCGAATA
Statistics
Matches: 145, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 98 0.68
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19139246 original size:101 final size:101
Alignment explanation
Indices: 19139071--19139272 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
19139061 TGAACAGTGT
*
19139071 AAGAAATTTAACATTTATTTAAGTCATATAATAATCATAGTAACTTGTAAATCACTAAATAATAA
1 AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTGTAAATCACTAAATAATAA
19139136 TACTTGTCATTCATATATATACATTCGAGCTTTAAA
66 TACTTGTCATTCATATATATACATTCGAGCTTTAAA
19139172 AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTGTAAATCACTAAATAATAA
1 AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTGTAAATCACTAAATAATAA
19139237 TACTTGTCATTCATATATATACATTCGAGCTTTAAA
66 TACTTGTCATTCATATATATACATTCGAGCTTTAAA
19139273 CTTTAACTTC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (101 bp):
AAGAAATTTAACATTTACTTAAGTCATATAATAATCATAGTAACTTGTAAATCACTAAATAATAA
TACTTGTCATTCATATATATACATTCGAGCTTTAAA
Found at i:19141053 original size:13 final size:13
Alignment explanation
Indices: 19141035--19141059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19141025 TTCTTTCCTT
19141035 TTTCTTTATTTCA
1 TTTCTTTATTTCA
19141048 TTTCTTTATTTC
1 TTTCTTTATTTC
19141060 TTTTGTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:19141204 original size:15 final size:14
Alignment explanation
Indices: 19141176--19141208 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
19141166 CATACACTTG
19141176 TATTTTATTTATTA
1 TATTTTATTTATTA
19141190 TATTTTATATTATTA
1 TATTTTAT-TTATTA
19141205 TATT
1 TATT
19141209 AATATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTATTTATTA
Found at i:19141732 original size:3 final size:3
Alignment explanation
Indices: 19141718--19141995 Score: 252
Period size: 3 Copynumber: 93.3 Consensus size: 3
19141708 AATAGGTAAA
* *
19141718 AAT AAT AA- AAT AAT AAT -AT AAT AGT AAT AAT AAC AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
19141763 AGT AAT AAA AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
19141810 ATT TAT AAT TAT AAT AAT AGTT AAT GAT AAT AAA AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
19141855 AGAA AAG AA- AAGT AA- AATT AAT AAT AACG AAT -AT AAGT AGT AAT
1 A-AT AAT AAT AA-T AAT AA-T AAT AAT AA-T AAT AAT AA-T AAT AAT
19141899 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
19141947 AAT AAT AAT AAT GAA- AAT AA- AAGT AAT AAT AAT AGT GAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
19141992 AAT A
1 AAT A
19141996 TATTAAATTA
Statistics
Matches: 224, Mismatches: 33, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
2 19 0.08
3 190 0.85
4 15 0.07
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19144787 original size:20 final size:21
Alignment explanation
Indices: 19144749--19144788 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19144739 TCAAAATTCT
19144749 TTTAAATTTCAGATCAATAAA
1 TTTAAATTTCAGATCAATAAA
* *
19144770 TTTAAGTTT-AGATGAATAA
1 TTTAAATTTCAGATCAATAA
19144789 TCTAAATGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTAAATTTCAGATCAATAAA
Found at i:19151328 original size:2 final size:2
Alignment explanation
Indices: 19151321--19151348 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19151311 TTAGACGAGT
19151321 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19151349 CAACTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19151581 original size:29 final size:30
Alignment explanation
Indices: 19151522--19151584 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
19151512 AAAAGTAATT
* *
19151522 AAATATTTAAAAGTGTTTTTGGGAGAAAAA
1 AAATATTTAAAAATGTTTTTGGAAGAAAAA
19151552 AAATATTTAAAAATGTTTTTGGAAGAAAAA
1 AAATATTTAAAAATGTTTTTGGAAGAAAAA
19151582 AAA
1 AAA
19151585 ACTAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (30 bp):
AAATATTTAAAAATGTTTTTGGAAGAAAAA
Found at i:19156535 original size:23 final size:23
Alignment explanation
Indices: 19156505--19156548 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19156495 GTCTCATATA
* *
19156505 TTATTTATTTTACATTGTTTTAT
1 TTATTTATTTTAAATTCTTTTAT
19156528 TTATTTATTTTAAATTCTTTT
1 TTATTTATTTTAAATTCTTTT
19156549 TATATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATTTATTTTAAATTCTTTTAT
Found at i:19156558 original size:23 final size:23
Alignment explanation
Indices: 19156501--19156583 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
19156491 AATTGTCTCA
* *
19156501 TATATTATTTATTTTACATTGTTT
1 TATA-TATTTATTTTAAATTCTTT
*
19156525 TATTTATTTATTTTAAATTCTTT
1 TATATATTTATTTTAAATTCTTT
* *
19156548 T-TATATGTTATTTCTGAATTGTTAT
1 TATATAT-TTATTT-TAAATTCTT-T
*
19156573 TATAAATTTAT
1 TATATATTTAT
19156584 ATATATGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
22 4 0.08
23 24 0.50
24 10 0.21
25 6 0.12
26 4 0.08
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.64
Consensus pattern (23 bp):
TATATATTTATTTTAAATTCTTT
Found at i:19156567 original size:24 final size:23
Alignment explanation
Indices: 19156524--19156576 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
19156514 TTACATTGTT
19156524 TTATT-TAT-TTATTTTAAATTC
1 TTATTATATGTTATTTTAAATTC
* * *
19156545 TTTTTATATGTTATTTCTGAATTG
1 TTATTATATGTTATTT-TAAATTC
19156569 TTATTATA
1 TTATTATA
19156577 AATTTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 4 0.16
22 3 0.12
23 6 0.24
24 12 0.48
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (23 bp):
TTATTATATGTTATTTTAAATTC
Found at i:19156650 original size:25 final size:26
Alignment explanation
Indices: 19156607--19156666 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
19156597 TCTTAAAATT
* * *
19156607 TTTTTATAGATTATTTATTTTCAA-A
1 TTTTTATATATTATCTATTTTAAACA
*
19156632 TTTTTATATATTGTCTATTTTAAACA
1 TTTTTATATATTATCTATTTTAAACA
*
19156658 CTTTTATAT
1 TTTTTATAT
19156667 TTTTACATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTTTATATATTATCTATTTTAAACA
Found at i:19158820 original size:8 final size:8
Alignment explanation
Indices: 19158807--19158853 Score: 94
Period size: 8 Copynumber: 5.9 Consensus size: 8
19158797 ATTTAAGTAA
19158807 ATATTATT
1 ATATTATT
19158815 ATATTATT
1 ATATTATT
19158823 ATATTATT
1 ATATTATT
19158831 ATATTATT
1 ATATTATT
19158839 ATATTATT
1 ATATTATT
19158847 ATATTAT
1 ATATTAT
19158854 ATTAATTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATATTATT
Found at i:19160009 original size:39 final size:39
Alignment explanation
Indices: 19159953--19160067 Score: 144
Period size: 39 Copynumber: 2.9 Consensus size: 39
19159943 CCTTCTCGAG
*
19159953 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTA-AAGA
1 AATT-AAAGTGAGTAGGATTTATTCCTGATTCACTAGAA-A
19159993 AATTAAAGTGAGTAGGATTTATTCCTGATTCACTAGAAA
1 AATTAAAGTGAGTAGGATTTATTCCTGATTCACTAGAAA
* * *
19160032 TATATAAAGTG-GATAGGATTTGTTCCTGACTCACTA
1 AAT-TAAAGTGAG-TAGGATTTATTCCTGATTCACTA
19160068 TGGTAACTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
39 34 0.50
40 34 0.50
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (39 bp):
AATTAAAGTGAGTAGGATTTATTCCTGATTCACTAGAAA
Found at i:19160051 original size:40 final size:39
Alignment explanation
Indices: 19159953--19160067 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 39
19159943 CCTTCTCGAG
*
19159953 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTAAAGA
1 AATT-AAAGTGGATAGGATTTATTCCTGATTCACTAAAGA
19159993 AATTAAAGT-GAGTAGGATTTATTCCTGATTCACTAGAA-A
1 AATTAAAGTGGA-TAGGATTTATTCCTGATTCACTA-AAGA
* * *
19160032 TATATAAAGTGGATAGGATTTGTTCCTGACTCACTA
1 AAT-TAAAGTGGATAGGATTTATTCCTGATTCACTA
19160068 TGGTAACTCA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
38 1 0.01
39 31 0.46
40 33 0.49
41 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (39 bp):
AATTAAAGTGGATAGGATTTATTCCTGATTCACTAAAGA
Found at i:19162665 original size:53 final size:53
Alignment explanation
Indices: 19162584--19162734 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
19162574 CTTACACGGT
* *
19162584 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
19162639 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
19162692 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
19162735 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:19170182 original size:53 final size:53
Alignment explanation
Indices: 19170101--19170251 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
19170091 CTTACACGGT
* *
19170101 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
19170156 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
19170209 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
19170252 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:19176094 original size:38 final size:39
Alignment explanation
Indices: 19176051--19176131 Score: 155
Period size: 38 Copynumber: 2.1 Consensus size: 39
19176041 AAAAACCGTA
19176051 AGAAAAACGAATGAAATGCAATGAAGGGATCGTAAA-TT
1 AGAAAAACGAATGAAATGCAATGAAGGGATCGTAAATTT
19176089 AGAAAAACGAATGAAATGCAATGAAGGGATCGTAAATTT
1 AGAAAAACGAATGAAATGCAATGAAGGGATCGTAAATTT
19176128 AGAA
1 AGAA
19176132 CGAAAAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 36 0.86
39 6 0.14
ACGTcount: A:0.51, C:0.07, G:0.23, T:0.19
Consensus pattern (39 bp):
AGAAAAACGAATGAAATGCAATGAAGGGATCGTAAATTT
Found at i:19177353 original size:25 final size:24
Alignment explanation
Indices: 19177323--19177401 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
19177313 AATAAGAGAG
19177323 TTTAAAATATGATGTATAAGACAAA
1 TTTAAAATAT-ATGTATAAGACAAA
* *
19177348 TTT-AAATA-A-GAATAAGACAAG
1 TTTAAAATATATGTATAAGACAAA
* *
19177369 TTTAAAATAATATATATAA-AGAAA
1 TTTAAAAT-ATATGTATAAGACAAA
19177393 TTTAAAATA
1 TTTAAAATA
19177402 AATATTAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 13 0.30
22 5 0.11
23 2 0.05
24 17 0.39
25 7 0.16
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.32
Consensus pattern (24 bp):
TTTAAAATATATGTATAAGACAAA
Found at i:19177374 original size:46 final size:44
Alignment explanation
Indices: 19177291--19177398 Score: 111
Period size: 45 Copynumber: 2.5 Consensus size: 44
19177281 TGAAATGAAC
*
19177291 AATA-ATA-AAAC-AATTTAAA-ACA-AATAAGAGAGTTTAAAAT
1 AATATATATAAACAAATTTAAATA-AGAATAAGAAAGTTTAAAAT
*
19177331 -ATGATGTATAAGACAAATTTAAATAAGAATAAGACAAGTTTAAAAT
1 AAT-ATATATAA-ACAAATTTAAATAAGAATAAGA-AAGTTTAAAAT
*
19177377 AATATATATAAAGAAATTTAAA
1 AATATATATAAACAAATTTAAA
19177399 ATAAATATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 2 0.04
40 1 0.02
41 2 0.04
42 2 0.04
43 2 0.04
44 9 0.16
45 18 0.33
46 17 0.31
47 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (44 bp):
AATATATATAAACAAATTTAAATAAGAATAAGAAAGTTTAAAAT
Found at i:19177394 original size:45 final size:45
Alignment explanation
Indices: 19177313--19177398 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
19177303 ATTTAAAACA
* *
19177313 AATAAGAGAGTTTAAAATATGATGTATAAGACAAATTTAAATAAG
1 AATAAGAAAGTTTAAAATATGATATATAAGACAAATTTAAATAAG
*
19177358 AATAAGACAAGTTTAAAATAAT-ATATATAA-AGAAATTTAAA
1 AATAAGA-AAGTTTAAAAT-ATGATATATAAGACAAATTTAAA
19177399 ATAAATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 17 0.47
46 17 0.47
47 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (45 bp):
AATAAGAAAGTTTAAAATATGATATATAAGACAAATTTAAATAAG
Found at i:19177400 original size:24 final size:23
Alignment explanation
Indices: 19177369--19177467 Score: 85
Period size: 24 Copynumber: 4.1 Consensus size: 23
19177359 ATAAGACAAG
*
19177369 TTTAAAATAATATATATAAAGAAA
1 TTTAAAATAA-ATATGTAAAGAAA
**
19177393 TTTAAAATAAATAT-T-AAGAGG
1 TTTAAAATAAATATGTAAAGAAA
* *
19177414 CTCAAAATAATAATATGTAAAAGAAA
1 TTTAAAAT-A-AATATGT-AAAGAAA
19177440 TTTAAAATAAATAATGTATAAGAAA
1 TTTAAAATAAAT-ATGTA-AAGAAA
19177465 TTT
1 TTT
19177468 TAAAGTGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
21 10 0.17
22 2 0.03
23 9 0.15
24 15 0.25
25 14 0.23
26 10 0.17
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (23 bp):
TTTAAAATAAATATGTAAAGAAA
Found at i:19177401 original size:46 final size:45
Alignment explanation
Indices: 19177302--19177450 Score: 128
Period size: 46 Copynumber: 3.3 Consensus size: 45
19177292 ATAATAAAAC
* * * * *
19177302 AATTTAAAA-CAAATAAGAGAGTTTAAAAT-ATGATGTATAAGACA
1 AATTTAAAATAAAATAAGAAAGTTTAAAATAATAATATATAA-AGA
19177346 AATTT-AAATAAGAATAAGACAAGTTTAAAATAAT-ATATATAAAGA
1 AATTTAAAATAA-AATAAGA-AAGTTTAAAATAATAATATATAAAGA
* * * *
19177391 AATTTAAAATAAATATTAAG-AGGCTCAAAATAATAATATGTAAAAGA
1 AATTTAAAATAAA-A-TAAGAAAGTTTAAAATAATAATATAT-AAAGA
19177438 AATTTAAAATAAA
1 AATTTAAAATAAA
19177451 TAATGTATAA
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.03
44 6 0.07
45 26 0.30
46 29 0.33
47 24 0.27
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.28
Consensus pattern (45 bp):
AATTTAAAATAAAATAAGAAAGTTTAAAATAATAATATATAAAGA
Found at i:19177406 original size:21 final size:21
Alignment explanation
Indices: 19177377--19177452 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
19177367 AGTTTAAAAT
*
19177377 AATATATATAAAGAAATTTAA
1 AATAAATATAAAGAAATTTAA
* *** *
19177398 AATAAATATTAAGAGGCTCAA
1 AATAAATATAAAGAAATTTAA
19177419 AATAATAATATGTAAAAGAAATTTAA
1 AAT-A-AATA--T-AAAGAAATTTAA
19177445 AATAAATA
1 AATAAATA
19177453 ATGTATAAGA
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
21 18 0.46
22 1 0.03
23 4 0.10
24 4 0.10
25 2 0.05
26 10 0.26
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (21 bp):
AATAAATATAAAGAAATTTAA
Found at i:19177446 original size:26 final size:26
Alignment explanation
Indices: 19177369--19177604 Score: 93
Period size: 26 Copynumber: 9.3 Consensus size: 26
19177359 ATAAGACAAG
*
19177369 TTTAAAATAAT-ATATAT-AAAGAAA
1 TTTAAAATAATAATATGTAAAAGAAA
**
19177393 TTTAAAAT-A-AATAT-T--AAGAGG
1 TTTAAAATAATAATATGTAAAAGAAA
* *
19177414 CTCAAAATAATAATATGTAAAAGAAA
1 TTTAAAATAATAATATGTAAAAGAAA
*
19177440 TTTAAAAT-A-AATAATGTATAAGAAA
1 TTTAAAATAATAAT-ATGTAAAAGAAA
* * * *
19177465 TTTTAAAGTGAATAACATGCAAAA-TAA
1 -TTTAAAAT-AATAATATGTAAAAGAAA
** ** * *
19177492 TTTAAACCAAGTAATACATATAA-AAC
1 TTTAAAATAA-TAATATGTAAAAGAAA
* **
19177518 TTTAAAATAGATGATATACACAAAG--A
1 TTTAAAATA-ATAATATGTA-AAAGAAA
* *
19177544 TTTAAAATAAATCATATGTAAAAAAAA
1 TTTAAAAT-AATAATATGTAAAAGAAA
* *
19177571 CTTAAAATAATTAATATGTAAAAGTAA
1 TTTAAAATAA-TAATATGTAAAAGAAA
*
19177598 TATAAAA
1 TTTAAAA
19177605 AAAATACATA
Statistics
Matches: 153, Mismatches: 40, Indels: 35
0.67 0.18 0.15
Matches are distributed among these distances:
21 10 0.07
22 2 0.01
23 10 0.07
24 12 0.08
25 17 0.11
26 61 0.40
27 32 0.21
28 7 0.05
29 2 0.01
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.30
Consensus pattern (26 bp):
TTTAAAATAATAATATGTAAAAGAAA
Found at i:19177452 original size:27 final size:27
Alignment explanation
Indices: 19177417--19177610 Score: 105
Period size: 26 Copynumber: 7.4 Consensus size: 27
19177407 TAAGAGGCTC
19177417 AAAAT-AATAATATGTAAAAGAAATTT
1 AAAATAAATAATATGTAAAAGAAATTT
*
19177443 AAAATAAAT-A-ATGTATAAGAAATTTT
1 AAAATAAATAATATGTAAAAGAAA-TTT
* * * * *
19177469 AAAGTGAATAACATGCAAAA-TAATTT
1 AAAATAAATAATATGTAAAAGAAATTT
** * ** * *
19177495 AAACCAAGTAATACATATAA-AACTTT
1 AAAATAAATAATATGTAAAAGAAATTT
* * **
19177521 AAAATAGATGATATACACAAAG--ATTT
1 AAAATAAATAATATGTA-AAAGAAATTT
* * *
19177547 AAAATAAATCATATGTAAAAAAAACTT
1 AAAATAAATAATATGTAAAAGAAATTT
* * *
19177574 AAAATAATTAATATGTAAAAGTAATAT
1 AAAATAAATAATATGTAAAAGAAATTT
*
19177601 AAAAAAAATA
1 AAAATAAATA
19177611 CATAATATAT
Statistics
Matches: 120, Mismatches: 40, Indels: 15
0.69 0.23 0.09
Matches are distributed among these distances:
25 14 0.12
26 60 0.50
27 40 0.33
28 6 0.05
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATAAATAATATGTAAAAGAAATTT
Found at i:19177462 original size:25 final size:25
Alignment explanation
Indices: 19177350--19177467 Score: 72
Period size: 25 Copynumber: 4.8 Consensus size: 25
19177340 AAGACAAATT
*
19177350 TAAATAA-GAATAAGACAAGTTTAAAA
1 TAAATAATGTATAAGA-AA-TTTAAAA
*
19177376 T-AAT-ATATATAAAGAAATTTAAAA
1 TAAATAATGTAT-AAGAAATTTAAAA
*** *
19177400 TAAAT-A--T-TAAGAGGCTCAAAA
1 TAAATAATGTATAAGAAATTTAAAA
*
19177421 T-AATAATATGTAAAAGAAATTTAAAA
1 TAAAT-A-ATGTATAAGAAATTTAAAA
19177447 TAAATAATGTATAAGAAATTT
1 TAAATAATGTATAAGAAATTT
19177468 TAAAGTGAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
20 3 0.04
21 10 0.14
22 1 0.01
23 2 0.03
24 9 0.13
25 26 0.37
26 16 0.23
27 3 0.04
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (25 bp):
TAAATAATGTATAAGAAATTTAAAA
Found at i:19178101 original size:14 final size:14
Alignment explanation
Indices: 19178084--19178126 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
19178074 ATGATGATGG
*
19178084 TAATAGTAATAATA
1 TAATAATAATAATA
19178098 TAATAATAATAATA
1 TAATAATAATAATA
*
19178112 -AATAA-AATAAAA
1 TAATAATAATAATA
19178124 TAA
1 TAA
19178127 GTAGTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 7 0.27
14 13 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:19181086 original size:19 final size:19
Alignment explanation
Indices: 19181051--19181088 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19181041 ATACTTCACC
*
19181051 AAAAAAAAAAGGGAAAAAG
1 AAAAAAAAAAGGAAAAAAG
19181070 AAAAAATAAAA-GAAAAAAG
1 AAAAAA-AAAAGGAAAAAAG
19181089 GAGAAGCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAGGAAAAAAG
Found at i:19182495 original size:89 final size:88
Alignment explanation
Indices: 19182387--19182664 Score: 262
Period size: 89 Copynumber: 3.1 Consensus size: 88
19182377 AGCTATTAGC
*
19182387 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGATGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
*
19182452 GGAAATAGACTGAAGATTGAAGAT
66 GGAAACAGACTGAAGATT-AAGAT
* * * * * *
19182476 CTTATCTCCCTGAGATAGC-AGTGGAGTA-GATCGAAGATGGTGAATCTTATCTTTAC-GAGGTA
1 CTTATCTCCCTGAGGTAGCAAG-AGAGCAGGAT-GAAGATTGT-AGTCTTATC-TTCCTGAGGTA
* * * * ** *
19182538 GCAGGGGAGCAGA-TTATAGCCA-CCAG-C
62 GCAAGGAAACAGACTGA-AG--ATTAAGAT
* *
19182565 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
1 CTTATCTCCCTGAGGTAGCAAGAGAGCAGGATGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
*
19182630 GGAAACAGACTGAAGATTATAAAT
66 GGAAACAGACTGAAGATTA-AGAT
*
19182654 CTTATTTCCCT
1 CTTATCTCCCT
19182665 AAGCAGTAGT
Statistics
Matches: 142, Mismatches: 33, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
86 1 0.01
87 3 0.02
88 31 0.22
89 72 0.51
90 31 0.22
91 3 0.02
92 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (88 bp):
CTTATCTCCCTGAGGTAGCAAGAGAGCAGGATGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAA
GGAAACAGACTGAAGATTAAGAT
Found at i:19182644 original size:44 final size:44
Alignment explanation
Indices: 19182387--19182647 Score: 176
Period size: 44 Copynumber: 5.9 Consensus size: 44
19182377 AGCTATTAGC
* *
19182387 CTTATCTCCCTGAGGTAGCAA-GAGAGCAGGCTGAAGATTGTAGT
1 CTTATCTTCCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGT
** *
19182431 CTTATCTTCCTGAGGTAGCAAGGAAATAGACTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAG-T
* * * * * *
19182476 CTTATCTCCCTGAGATAGC-AGTGGAGTAGA-TCGAAGATGGTGAAT
1 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACT-GAAGATTGT-AGT
* * * * ***** *
19182521 CTTATCTTTAC-GAGGTAGCAGGGGAGCAGA-TTATAGCCACCAGC
1 CTTATC-TTCCTGAGGTAGCAAGGAAGCAGACTGA-AGATTGTAGT
**
19182565 CTTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGT
*
19182609 CTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATT
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
19182648 ATAAATCTTA
Statistics
Matches: 164, Mismatches: 39, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 94 0.57
45 63 0.38
46 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGT
Found at i:19182761 original size:86 final size:86
Alignment explanation
Indices: 19182660--19183370 Score: 469
Period size: 86 Copynumber: 8.2 Consensus size: 86
19182650 AAATCTTATT
* * * *
19182660 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACAATGAATCTTGTCCCCCTAAGTAGTAGTGGAGCA
1 TCCCTAAGCAGTAGTGGAGTAGATCGAAGACAA-G-ATCTTATCTCCCTAAGCAGTAGTGGAGCA
19182725 GATTTAAG-CCAC-CATCCTATC
64 GATTTAAGACCACACATCCTATC
* * * **
19182746 TCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAAT
1 TCCCTAAGCAGTAGTGGAGTAGATC-GAAGA-CA-AGATCTTATCTCCCTAAGCAGTAGTGGAGC
** ** *
19182810 AGATCAAAGACGGCGA-ATCTTATC
63 AGATTTAAGACCAC-ACATCCTATC
* * ** * ** * * * *
19182834 TCCTTAAGCAATAGTGGAGTAGATTTAAGTCACCATCCTATCTCCCTAAGCAGTAGTGAAGTAGG
1 TCCCTAAGCAGTAGTGGAGTAGATCGAAGACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * ** * * *
19182899 CTGAAGATTACAGATCTTATT
66 TTTAAGACCACACATCCTATC
* * ** * * *
19182920 TCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTTTCTCTCTATGCAGTAGTGGAGCA
1 TCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-AAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCA
*
19182985 GATTTAAG-CCAC-CATCCTAAC
64 GATTTAAGACCACACATCCTATC
* * * * *
19183006 TCTCTAAACAGTAGTGGAATATGAT-AAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 TCCCTAAGCAGTAGTGGAGTA-GATCGAAGA-CA-AGATCTTATCTCCCTAAGCAGTAGTGGAGC
** * **
19183070 AGATCGAAGACGACGA-ATTTTATC
63 AGATTTAAGACCAC-ACATCCTATC
** ** * * ** *
19183094 TCCCTAAGCAGTAGTGGAGTAGATTTAAG-CTACCATCCTATCTCCCTAAGTAGTAGTAAAGTAG
1 TCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
** * ** * **
19183158 GCTGAAGATTACAGATATTATC
65 ATTTAAGACCACACATCCTATC
* * * * * **
19183180 TCTCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTCCCTAAACAGTAGTAGAATA
1 TCCCTAAGCAGTAGTGGAGTAGATCGAAGACA-AG-ATCTTATCTCCCTAAGCAGTAGTGGAGCA
19183245 GATTTAAG-CCAC-CATCCTATC
64 GATTTAAGACCACACATCCTATC
* * *
19183266 TCCCTAAGCAGTAGTGGAGTATGCT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAAC
1 TCCCTAAGCAGTAGTGGAGTA-GATCGAAGA-CA-AGATCTTATCTCCCTAAGCAGTAGTGGAGC
19183330 AGATTTAAG-CCA-ACATCCTATC
63 AGATTTAAGACCACACATCCTATC
19183352 TCCCTAAGCAGTAGTGGAG
1 TCCCTAAGCAGTAGTGGAG
19183371 CAGGTTGAAA
Statistics
Matches: 478, Mismatches: 122, Indels: 50
0.74 0.19 0.08
Matches are distributed among these distances:
85 3 0.01
86 335 0.70
87 26 0.05
88 114 0.24
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (86 bp):
TCCCTAAGCAGTAGTGGAGTAGATCGAAGACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
TTTAAGACCACACATCCTATC
Found at i:19182814 original size:130 final size:130
Alignment explanation
Indices: 19182639--19183370 Score: 993
Period size: 130 Copynumber: 5.6 Consensus size: 130
19182629 AGGAAACAGA
* * * *** *
19182639 CTGAAGATTATAAATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAATGAATCTTGTC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* * *
19182704 CCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
66 TCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
* ** *
19182769 CTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAATAGATCAAAGACGGCGAATCTTATC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* * * *
19182834 TCCTTAAGCAATAGTGGAGTAGATTTAAGTCACCATCCTATCTCCCTAAGCAGTAGTGAAGTAGG
66 TCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
* * *
19182899 CTGAAGATTACAGATCTTATTTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTTTC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* * * * * * * *
19182964 TCTCTATGCAGTAGTGGAGCAGATTTAAGCCACCATCCTAACTCTCTAAACAGTAGTGGAATATG
66 TCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
* * * *
19183029 ATAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATTTTATC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* * **
19183094 TCCCTAAGCAGTAGTGGAGTAGATTTAAGCTACCATCCTATCTCCCTAAGTAGTAGTAAAGTAGG
66 TCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
* * *
19183159 CTGAAGATTACAGATATTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATC
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* * * *
19183224 TCCCTAAACAGTAGTAGAATAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTATG
66 TCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
* ** * *
19183289 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTTAAG-C--CAACATCCTAT
1 CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA-ATCTTAT
19183351 CTCCCTAAGCAGTAGTGGAG
65 CTCCCTAAGCAGTAGTGGAG
19183371 CAGGTTGAAA
Statistics
Matches: 520, Mismatches: 81, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
127 2 0.00
128 23 0.04
129 1 0.00
130 494 0.95
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (130 bp):
CTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
TCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
Found at i:19183529 original size:44 final size:44
Alignment explanation
Indices: 19183481--19184051 Score: 202
Period size: 44 Copynumber: 12.6 Consensus size: 44
19183471 TAAAAACCTC
* *
19183481 ATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTA-CAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATCAA-TCTT
* * * * * * * *
19183525 ATCTCCTTGAAGTTGCAATGAAGCGGACTGAAGA-CACCAATATT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTATCAATCTT
* *
19183569 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATTAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATCAATCTT
* * * *
19183613 ATCT-CTTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGTGAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTA-TCAATCTT
* * *
19183657 ATCTCCCTGACGTTGCAGTGG-GTCAGATT-AAAGCTACAAATCACAAGCCTT
1 ATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAA--T---TAT--CAA-TCTT
* *
19183708 ATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAAGTTA-CGAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTATC-AATCTT
* * * * * * *
19183752 ATCTCTCTGAAGTTGTAATGGAGTAGACT-AAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTATC-AATCTT
* * * * * * * *
19183797 ATCTCTCTGAAGTTACAGTAGAACCGATT-AAAGCTATAAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTATCAATCTT
* * * * ** * *
19183841 ATAC-CTCTAAAGTTGCAGTAGG-TCGGATCAAACATACCATGGTGAATCTT
1 AT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAA-AT----T-ATCAATCTT
** * * *** *
19183891 ATCTCTTTGAAGTTGTAGTGGAGTAGATTGAAGCCA-CAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATC-AATCTT
* * *
19183935 ATCCCCCTGAAGTTGCAGTGGGGCA-AGTTGAAGTTA-CAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAATTATCAA-TCTT
* * * *
19183979 ATCTCCCTGAAGTTACTGTGGAGCAGACTGAAGA-TAGCAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTATCA-ATCTT
* *
19184024 ATCTCCTTGAAGTTGCAATGGAGCAGAT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAT
19184052 CAAGCTACGA
Statistics
Matches: 388, Mismatches: 102, Indels: 73
0.69 0.18 0.13
Matches are distributed among these distances:
43 32 0.08
44 197 0.51
45 91 0.23
46 2 0.01
47 1 0.00
48 1 0.00
49 5 0.01
50 28 0.07
51 30 0.08
52 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATCAATCTT
Found at i:19183661 original size:88 final size:88
Alignment explanation
Indices: 19183478--19183685 Score: 251
Period size: 88 Copynumber: 2.4 Consensus size: 88
19183468 AGCTAAAAAC
* * *
19183478 CTCATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCTTGAAGTTGCAA
1 CTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGCCTTATCTCCTTGAAGTTGCAA
*
19183543 TGAAGCGGACTGAAGACACCAAT
66 TGAAGCAGACTGAAGACACCAAT
* * *
19183566 ATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATTAA-CCTTATCT-CTTGAAGTTGCA
1 CTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTA-CAAGCCTTATCTCCTTGAAGTTGCA
* * * **
19183629 GTGGAGCAGACTGAAGATAGTGAAT
65 ATGAAGCAGACTGAAGACA-CCAAT
*
19183654 CTCATCTCCCTGACGTTGCAGTGG-GTCAGATT
1 CTCATCTCCCTGAAGTTGCAGTGGAG-CAGATT
19183686 AAAGCTACAA
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
87 28 0.27
88 72 0.71
89 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (88 bp):
CTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGCCTTATCTCCTTGAAGTTGCAA
TGAAGCAGACTGAAGACACCAAT
Found at i:19183784 original size:95 final size:96
Alignment explanation
Indices: 19183609--19183794 Score: 207
Period size: 95 Copynumber: 1.9 Consensus size: 96
19183599 AAATTATTAA
* * * *
19183609 CCTTATCTCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTCATCTCCCTGACGTTGCA
1 CCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTCATCTCCCTGAAGTTGCA
* * *
19183674 GTGGGTCAGATTAAAGCTA-CAAATCACAAG
66 ATGGGTCAGACTAAAGATAGCAAATCACAAG
** * * * * *
19183704 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTA-CGAGTCTTATCTCTCTGAAGTTGT
1 CCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTCATCTCCCTGAAGTTGC
19183768 AATGGAGT-AGACTAAAGATAGCAAATC
65 AATGG-GTCAGACTAAAGATAGCAAATC
19183795 TTATCTCTCT
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
95 40 0.54
96 34 0.46
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (96 bp):
CCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTCATCTCCCTGAAGTTGCA
ATGGGTCAGACTAAAGATAGCAAATCACAAG
Found at i:19183826 original size:140 final size:139
Alignment explanation
Indices: 19183567--19183838 Score: 339
Period size: 140 Copynumber: 1.9 Consensus size: 139
19183557 GACACCAATA
** *
19183567 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATTAACCTTATCTCTTGAAGTTGCAGTG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACGAACCTTATCTCTTGAAGTTGCAATG
* ** * * * **
19183632 GAGCAGACTGAAGATAGTGAATCTCATCTCCCTGACGTTGCAGTGGGTCAGATTAAAGCTACAAA
66 GAGCAGACTAAAGATAGCAAATCTCATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTACAAA
19183697 TCACAAGCC
131 TCACAAGCC
* ** *
19183706 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAAGTTACGAGTCTTATCTCTCTGAAGTTGTAA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTACGAACCTTATCTCT-TGAAGTTGCAA
* * * * *
19183770 TGGAGTAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTAGAACCGATTAAAGCTATA
64 TGGAGCAGACTAAAGATAGCAAATCTCATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTACA
19183835 AATC
129 AATC
19183839 CTATACCTCT
Statistics
Matches: 111, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
138 3 0.03
139 43 0.39
140 65 0.59
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (139 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACGAACCTTATCTCTTGAAGTTGCAATG
GAGCAGACTAAAGATAGCAAATCTCATCTCCCTGAAGTTACAGTAGAACAGATTAAAGCTACAAA
TCACAAGCC
Found at i:19185780 original size:23 final size:23
Alignment explanation
Indices: 19185750--19185793 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19185740 GCCTTATATA
*
19185750 TTATTTATTTTACATTATTTTAT
1 TTATTTATTTTAAATTATTTTAT
*
19185773 TTATTTATTTTAAATTCTTTT
1 TTATTTATTTTAAATTATTTT
19185794 TATATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTATTTTAAATTATTTTAT
Found at i:19185803 original size:23 final size:23
Alignment explanation
Indices: 19185746--19185805 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
19185736 AATTGCCTTA
*
19185746 TATATTATTTATTTTACATTATTT
1 TATA-TATTTATTTTAAATTATTT
* *
19185770 TATTTATTTATTTTAAATTCTTT
1 TATATATTTATTTTAAATTATTT
19185793 T-TATATGTTATTT
1 TATATAT-TTATTT
19185806 CTGAATGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 4 0.13
23 24 0.77
24 3 0.10
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (23 bp):
TATATATTTATTTTAAATTATTT
Found at i:19185896 original size:24 final size:26
Alignment explanation
Indices: 19185855--19185912 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
19185845 CTTAAATTTT
* * *
19185855 TTTTATAGATTATTTATTTTCAA-A-
1 TTTTATATATTATCTATTTTAAACAC
*
19185879 TTTTATATATTGTCTATTTTAAACAC
1 TTTTATATATTATCTATTTTAAACAC
19185905 TTTTATAT
1 TTTTATAT
19185913 TTTTACATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 19 0.68
25 1 0.04
26 8 0.29
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTTATATATTATCTATTTTAAACAC
Found at i:19188837 original size:131 final size:131
Alignment explanation
Indices: 19188661--19188910 Score: 419
Period size: 131 Copynumber: 1.9 Consensus size: 131
19188651 TATTCATTCA
* * * *
19188661 AAAATTCTTCAAAACGAAGGCAAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTCCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
*
19188726 TGGGTTGCAATTTCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
19188791 T
131 T
*
19188792 AAAATTCTCCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTCCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
* * *
19188857 TGGGTTGCAATTTCGCGTTTGTTCAAAATAATCGAGTATCCCTTCAAAATTTCA
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCA
19188911 ATAATTTAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 110 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (131 bp):
AAAATTCTCCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:19190738 original size:29 final size:28
Alignment explanation
Indices: 19190673--19190755 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 28
19190663 TAAAAAGTAC
**
19190673 ATATAAAAATTATTTATAAAAATTAAAAATC
1 ATAT-AAAATTA-TT-TAAAAATTAAAAAAA
19190704 AT-TAAAATTATTTAAAAATTATAAAAAA
1 ATATAAAATTATTTAAAAATTA-AAAAAA
* *
19190732 ATAT-AAATT-TTTTAAATTTAAAAA
1 ATATAAAATTATTTAAAAATTAAAAA
19190756 GTTAGTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 18 0.39
28 13 0.28
29 8 0.17
30 1 0.02
31 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
ATATAAAATTATTTAAAAATTAAAAAAA
Found at i:19194255 original size:139 final size:140
Alignment explanation
Indices: 19194005--19194288 Score: 491
Period size: 139 Copynumber: 2.0 Consensus size: 140
19193995 TAGGTGAGAG
* *
19194005 GGTTCTTGTTTGGCGGCTTATACTTTAATAACATTTCCAGGTTTTTTCTCTTCTTTTTTGGCTGT
1 GGTTCTTGTTTGGCGGCTCATACTTTAATAACATTTCCAGCTTTTTTCTCTTCTTTTTTGGCTGT
*
19194070 CCCACTGCTAACTGCTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATAT-A-GATGTAAT
66 CCCACTGCTAACTACTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATAAGGATGTAAT
19194133 AAAAAATTTT
131 AAAAAATTTT
* *
19194143 AGGTTCTTGTTTGGCGGCTCATACTTTAATAACATTTCCAGCTTTTTTTTGTTCTTTTTTGGCTG
1 -GGTTCTTGTTTGGCGGCTCATACTTTAATAACATTTCCAGCTTTTTTCTCTTCTTTTTTGGCTG
19194208 TCCCACTGCTAACTACTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATAGAGGATGTA
65 TCCCACTGCTAACTACTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATA-AGGATGTA
19194273 ATAAAAAATTTT
129 ATAAAAAATTTT
19194285 GGTT
1 GGTT
19194289 GGTTAACATT
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
139 114 0.83
141 5 0.04
142 18 0.13
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (140 bp):
GGTTCTTGTTTGGCGGCTCATACTTTAATAACATTTCCAGCTTTTTTCTCTTCTTTTTTGGCTGT
CCCACTGCTAACTACTTAATTAGTCGGTCAGCTCCTTTCTAAAATAAGATATATAAGGATGTAAT
AAAAAATTTT
Found at i:19194365 original size:16 final size:16
Alignment explanation
Indices: 19194327--19194368 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
19194317 TAAGTAAAAA
19194327 TGTAATTTTATTATTT
1 TGTAATTTTATTATTT
*
19194343 TAATAATTTATATT-TTT
1 T-GTAATTT-TATTATTT
19194360 TGTAATTTT
1 TGTAATTTT
19194369 TAAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 1 0.05
16 7 0.32
17 10 0.45
18 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TGTAATTTTATTATTT
Found at i:19194754 original size:28 final size:27
Alignment explanation
Indices: 19194723--19194840 Score: 84
Period size: 28 Copynumber: 4.3 Consensus size: 27
19194713 CATAAAAATG
19194723 TTATAAAAAATTAAAAATATATATAAA
1 TTATAAAAAATTAAAAATATATATAAA
** *
19194750 CTTATAAAACCTATAAAAAT-TATAAAAA
1 -TTATAAAAAAT-TAAAAATATATATAAA
*
19194778 CTTATAATAAATTATACAAATAGTA-A-AAA
1 -TTATAAAAAATTA-A-AAATA-TATATAAA
*
19194807 --ATAAAACATATTAAAAATATTTATAAA
1 TTATAAAA-A-ATTAAAAATATATATAAA
19194834 TTATAAA
1 TTATAAA
19194841 TATTATAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
25 1 0.01
26 11 0.15
27 7 0.10
28 30 0.42
29 19 0.27
30 1 0.01
31 2 0.03
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (27 bp):
TTATAAAAAATTAAAAATATATATAAA
Found at i:19194768 original size:10 final size:10
Alignment explanation
Indices: 19194742--19194793 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
19194732 ATTAAAAATA
*
19194742 TATATAAACT
1 TATAAAAACT
*
19194752 TAT-AAAACC
1 TATAAAAACT
19194761 TATAAAAA-T
1 TATAAAAACT
19194770 TATAAAAACT
1 TATAAAAACT
19194780 TATAATAAA-T
1 TATAA-AAACT
19194790 TATA
1 TATA
19194794 CAAATAGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 15 0.42
10 18 0.50
11 3 0.08
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (10 bp):
TATAAAAACT
Found at i:19194836 original size:17 final size:16
Alignment explanation
Indices: 19194816--19194849 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19194806 AATAAAACAT
19194816 ATTAAAAATATTTATAA
1 ATTAAAAATA-TTATAA
*
19194833 ATTATAAATATTATAA
1 ATTAAAAATATTATAA
19194849 A
1 A
19194850 AAATCTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAAAAATATTATAA
Found at i:19195438 original size:17 final size:17
Alignment explanation
Indices: 19195413--19195455 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
19195403 TTAACTACCT
19195413 TTTTATAATTTCTAATG
1 TTTTATAATTTCTAATG
* * *
19195430 TTTTCTAATTTTTAATAA
1 TTTTATAATTTCTAAT-G
19195448 TTTTATAA
1 TTTTATAA
19195456 GTTTTTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTATAATTTCTAATG
Found at i:19195501 original size:19 final size:17
Alignment explanation
Indices: 19195477--19195520 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
19195467 ATTTAATAGA
19195477 AATTTTTGTAAGTTTATAT
1 AATTTTT-TAAGTTT-TAT
19195496 AATTTTATT-AGTTTTAT
1 AATTTT-TTAAGTTTTAT
19195513 AATTTTTT
1 AATTTTTT
19195521 TAAGATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 9 0.38
18 5 0.21
19 7 0.29
20 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
AATTTTTTAAGTTTTAT
Found at i:19195756 original size:12 final size:13
Alignment explanation
Indices: 19195738--19195771 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
19195728 GTAACGTAGA
19195738 CTTTTCTTTTTTT
1 CTTTTCTTTTTTT
19195751 -TTTTCTTTTTTT
1 CTTTTCTTTTTTT
19195763 CTTTT-TTTT
1 CTTTTCTTTT
19195772 AGTATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
CTTTTCTTTTTTT
Found at i:19198384 original size:2 final size:2
Alignment explanation
Indices: 19198377--19198409 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19198367 TAGATATTTG
19198377 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19198410 GATGGTTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19198611 original size:24 final size:24
Alignment explanation
Indices: 19198579--19198625 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
19198569 ATTTACTTTT
*
19198579 CCTTGATAAATTTTTTGTAATATA
1 CCTTGATAAACTTTTTGTAATATA
19198603 CCTTGATAAACTTTTTGTAATAT
1 CCTTGATAAACTTTTTGTAATAT
19198626 TGAAACCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (24 bp):
CCTTGATAAACTTTTTGTAATATA
Found at i:19201636 original size:22 final size:19
Alignment explanation
Indices: 19201608--19201659 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 19
19201598 TTTAATTTTT
19201608 AATTTTTAAATATAAAGTTTAG
1 AATTTTTAAA-A-AAA-TTTAG
*
19201630 AATTTTTAAAAATATTTAG
1 AATTTTTAAAAAAATTTAG
19201649 AA-TTTTAAAAA
1 AATTTTTAAAAA
19201660 TTATTTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.31
19 7 0.24
20 2 0.07
21 1 0.03
22 10 0.34
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
AATTTTTAAAAAAATTTAG
Found at i:19201649 original size:19 final size:20
Alignment explanation
Indices: 19201625--19201671 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
19201615 AAATATAAAG
19201625 TTTAGAATTTTTAAAAA-TA
1 TTTAGAATTTTTAAAAATTA
19201644 TTTAGAA-TTTTAAAAATTA
1 TTTAGAATTTTTAAAAATTA
*
19201663 TTTTGAATT
1 TTTAGAATT
19201672 ATTTTATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (20 bp):
TTTAGAATTTTTAAAAATTA
Found at i:19201894 original size:3 final size:3
Alignment explanation
Indices: 19201886--19201945 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
19201876 TGCTCACCCA
19201886 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19201934 TAT TAT TAT TAT
1 TAT TAT TAT TAT
19201946 AAGAAAAACG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19205118 original size:21 final size:22
Alignment explanation
Indices: 19205092--19205133 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
19205082 TGACCTTTCC
*
19205092 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
19205113 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
19205134 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:19205119 original size:11 final size:10
Alignment explanation
Indices: 19205092--19205133 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
19205082 TGACCTTTCC
19205092 AAGGTATGGG
1 AAGGTATGGG
*
19205102 TAGGTATGGG
1 AAGGTATGGG
19205112 AAAGGTATGGG
1 -AAGGTATGGG
19205123 CAAGGTATGGG
1 -AAGGTATGGG
19205134 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:19209194 original size:18 final size:18
Alignment explanation
Indices: 19209171--19209242 Score: 90
Period size: 18 Copynumber: 4.0 Consensus size: 18
19209161 CCCAACTACT
*
19209171 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
19209189 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
* *
19209207 GTATACATGAATAGTATC
1 GTATACGTGAATAGTACC
*
19209225 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
19209243 ATAAACGGTC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:19209228 original size:36 final size:36
Alignment explanation
Indices: 19209169--19209239 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
19209159 ATCCCAACTA
*
19209169 CTGTATACGTGAACAGTACCGTATACGTGAATAGTG
1 CTGTATACATGAACAGTACCGTATACGTGAATAGTG
* * *
19209205 CTGTATACATGAATAGTATCGTATATGTGAATAGT
1 CTGTATACATGAACAGTACCGTATACGTGAATAGT
19209240 ACCATAAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (36 bp):
CTGTATACATGAACAGTACCGTATACGTGAATAGTG
Found at i:19210049 original size:52 final size:51
Alignment explanation
Indices: 19209971--19210093 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
19209961 GAGGAAGTGC
*
19209971 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGTCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCG
*
19210023 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
*
19210074 AAAATGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
19210094 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 10 0.15
51 22 0.32
52 36 0.53
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
Found at i:19210068 original size:25 final size:26
Alignment explanation
Indices: 19209971--19210093 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
19209961 GAGGAAGTGC
**
19209971 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
19209997 AAAAGGGCTTATGTCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
19210023 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
19210049 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
19210074 AAAATGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
19210094 ATTAAAGAGG
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 32 0.37
26 54 0.63
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:19210297 original size:42 final size:42
Alignment explanation
Indices: 19210238--19210325 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
19210228 TAGTCTCCCC
* ** *
19210238 AAATAGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
19210280 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
19210322 AAAT
1 AAAT
19210326 GGGTCTAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:19210430 original size:31 final size:31
Alignment explanation
Indices: 19210353--19210431 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
19210343 CGTTTACAGT
*
19210353 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
19210384 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
19210415 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
19210432 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:19211878 original size:17 final size:17
Alignment explanation
Indices: 19211858--19211906 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
19211848 TAATACTTCA
19211858 TAAATATATATACATAC
1 TAAATATATATACATAC
*
19211875 TAAA-A-ATATACATAA
1 TAAATATATATACATAC
19211890 T-AATAATATATACATAC
1 TAAAT-ATATATACATAC
19211907 AAAGTACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 2 0.07
17 13 0.48
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATATATACATAC
Found at i:19211885 original size:15 final size:17
Alignment explanation
Indices: 19211863--19211906 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
19211853 CTTCATAAAT
19211863 ATATATACATACTAA-A
1 ATATATACATACTAATA
*
19211879 A-ATATACATAATAATA
1 ATATATACATACTAATA
19211895 ATATATACATAC
1 ATATATACATAC
19211907 AAAGTACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATATACATACTAATA
Found at i:19211952 original size:18 final size:18
Alignment explanation
Indices: 19211926--19211960 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19211916 TAATATTTAA
19211926 AATAATAATAGTAAATAT
1 AATAATAATAGTAAATAT
* *
19211944 AATACTAATATTAAATA
1 AATAATAATAGTAAATA
19211961 AAATTAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AATAATAATAGTAAATAT
Found at i:19213022 original size:23 final size:23
Alignment explanation
Indices: 19212996--19213070 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
19212986 AATGGCTGTT
19212996 GGGTTAGGTTTAGTGGGCCATTC
1 GGGTTAGGTTTAGTGGGCCATTC
* * * * ** *
19213019 GGGTTTGGGTAATTGGTTGTAAGT-
1 GGGTTAGGTTTAGTGG--GCCATTC
19213043 GGGTTAGGTTTAGTGGGCCATTC
1 GGGTTAGGTTTAGTGGGCCATTC
19213066 GGGTT
1 GGGTT
19213071 TGGGTAATTG
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 3 0.09
23 17 0.49
24 12 0.34
25 3 0.09
ACGTcount: A:0.13, C:0.08, G:0.41, T:0.37
Consensus pattern (23 bp):
GGGTTAGGTTTAGTGGGCCATTC
Found at i:19213024 original size:41 final size:43
Alignment explanation
Indices: 19212978--19213081 Score: 131
Period size: 47 Copynumber: 2.3 Consensus size: 43
19212968 GTGGGATCTA
19212978 GGGTTTGTAA-TGGCTGT-TGGGTTAGGTTTAGTGGGCCATTC
1 GGGTTTGTAATTGGCTGTATGGGTTAGGTTTAGTGGGCCATTC
*
19213019 GGGTTTGGGTAATTGGTTGTAAGTGGGTTAGGTTTAGTGGGCCATTC
1 GGGTTT--GTAATTGGCTGT-A-TGGGTTAGGTTTAGTGGGCCATTC
19213066 GGGTTTGGGTAATTGG
1 GGGTTT--GTAATTGG
19213082 TTGTTGTTGG
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
41 6 0.11
43 4 0.07
44 6 0.11
47 40 0.71
ACGTcount: A:0.13, C:0.07, G:0.41, T:0.38
Consensus pattern (43 bp):
GGGTTTGTAATTGGCTGTATGGGTTAGGTTTAGTGGGCCATTC
Found at i:19213049 original size:47 final size:47
Alignment explanation
Indices: 19212995--19213085 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
19212985 TAATGGCTGT
19212995 TGGGTTAGGTTTAGTGGGCCATTCGGGTTTGGGTAATTGGTTGTAAG
1 TGGGTTAGGTTTAGTGGGCCATTCGGGTTTGGGTAATTGGTTGTAAG
19213042 TGGGTTAGGTTTAGTGGGCCATTCGGGTTTGGGTAATTGGTTGT
1 TGGGTTAGGTTTAGTGGGCCATTCGGGTTTGGGTAATTGGTTGT
19213086 TGTTGGTCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.13, C:0.07, G:0.41, T:0.40
Consensus pattern (47 bp):
TGGGTTAGGTTTAGTGGGCCATTCGGGTTTGGGTAATTGGTTGTAAG
Found at i:19214156 original size:98 final size:96
Alignment explanation
Indices: 19213927--19214287 Score: 373
Period size: 89 Copynumber: 3.9 Consensus size: 96
19213917 GAAAAGTAGA
* * ** *
19213927 TTTTGAAAATACCTTGTCATGTGACCCG-GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TTTTGAAAATACCTCGACATGTGGTCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTT
* *
19213991 TTGAAAAATACAAATTG--AAAAAAAAAG-GAA--
64 TTGAAACAT--AAATTGAAAAAAAAAAAGAAAAGG
19214021 --TTGAAAACT-CCTC-AGCATGTGAG-CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
1 TTTTGAAAA-TACCTCGA-CATGTG-GTCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
19214081 TTTGACGAACA-AAATTTGAAAAAAAAAAAGAAAAGG
63 TTTGA--AACATAAA-TTGAAAAAAAAAAAGAAAAGG
*
19214117 TTTTGAAAATACCTCGACATGTGGTTCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 TTTTGAAAATACCTCGACATGTGGTCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
* *
19214182 GAAACATAAATTG--AAAATAACAG---A--
66 GAAACATAAATTGAAAAAAAAAAAGAAAAGG
* * * *
19214206 TTTTGAAAATACCTCGACAGGTGGTTCGAGGCTCAACTTACTTCTTGCAATATGAGTTGATTTTT
1 TTTTGAAAATACCTCGACATGTGGTCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
19214271 GAAACATAAATTGAAAA
66 GAAACATAAATTGAAAA
19214288 TACCTCAACG
Statistics
Matches: 235, Mismatches: 12, Indels: 43
0.81 0.04 0.15
Matches are distributed among these distances:
89 75 0.32
90 3 0.01
91 13 0.06
92 19 0.08
93 44 0.19
94 10 0.04
96 7 0.03
97 5 0.02
98 58 0.25
99 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (96 bp):
TTTTGAAAATACCTCGACATGTGGTCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
GAAACATAAATTGAAAAAAAAAAAGAAAAGG
Found at i:19214258 original size:187 final size:186
Alignment explanation
Indices: 19213927--19214287 Score: 457
Period size: 187 Copynumber: 1.9 Consensus size: 186
19213917 GAAAAGTAGA
* *
19213927 TTTTGAAAATACCTTGTCATGTGACCCGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTTTGAAAATACCTCGACATGTGACCCGGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
19213992 TGAAAAATACAAATTGAAAAAAAAAGGAATTGAAAACTCCTCAGCATGTGAGCCGAGGCTCAACT
65 TGAAAAATA-AAATTGAAAAAAAAAGGAATTGAAAACTCCTCAGCAGGTGAGCCGAGGCTCAACT
19214057 CACTTCTCGCAATATGAGTTGATTTTTGACGAACA-AAATTTGAAAAAAAAAAAGAAAAGG
129 CACTTCTCGCAATATGAGTTGATTTTTGA--AACATAAA-TTGAAAAAAAAAAAGAAAAGG
*** *
19214117 TTTTGAAAATACCTCGACATGTGGTTCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTT
1 TTTTGAAAATACCTCGACATGTGACCCG-GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * *
19214181 TGAAACAT-AAATTGAAAATAACA-GATTTTGAAAA-TACCTC-GACAGGTG-GTTCGAGGCTCA
65 TGAAAAATAAAATTGAAAAAAAAAGGA-ATTGAAAACT-CCTCAG-CAGGTGAG-CCGAGGCTCA
* *
19214241 ACTTACTTCTTGCAATATGAGTTGATTTTTGAAACATAAATTGAAAA
126 ACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAA
19214288 TACCTCAACG
Statistics
Matches: 151, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
185 11 0.07
186 8 0.05
187 68 0.45
189 11 0.07
190 23 0.15
191 30 0.20
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (186 bp):
TTTTGAAAATACCTCGACATGTGACCCGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAATAAAATTGAAAAAAAAAGGAATTGAAAACTCCTCAGCAGGTGAGCCGAGGCTCAACTCA
CTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAAAAAAAAGAAAAGG
Found at i:19227489 original size:15 final size:17
Alignment explanation
Indices: 19227469--19227510 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
19227459 TCATAAATAT
19227469 ATATACATACTAA-AA-
1 ATATACATACTAATAAC
*
19227484 ATATACATAATAATAAC
1 ATATACATACTAATAAC
19227501 ATATACATAC
1 ATATACATAC
19227511 AAAGTACACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 12 0.52
16 2 0.09
17 9 0.39
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATACATACTAATAAC
Found at i:19227571 original size:16 final size:18
Alignment explanation
Indices: 19227531--19227577 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
19227521 AATATTTAAA
* *
19227531 AATAATAATAGTAAATAT
1 AATATTAATATTAAATAT
19227549 AATATTAATATTAAATA-
1 AATATTAATATTAAATAT
19227566 AA-ATTAATATTA
1 AATATTAATATTA
19227578 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATTAAATAT
Found at i:19231647 original size:5 final size:5
Alignment explanation
Indices: 19231637--19231661 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19231627 TTGCATATTA
19231637 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
19231662 GAAAGGGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:19232099 original size:2 final size:2
Alignment explanation
Indices: 19232086--19232136 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
19232076 AGACAACATG
*
19232086 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19232128 TA TA TA TA T
1 TA TA TA TA T
19232137 CTATCTATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19232830 original size:118 final size:114
Alignment explanation
Indices: 19232401--19232844 Score: 339
Period size: 116 Copynumber: 3.8 Consensus size: 114
19232391 AAAAAAATCA
* * * * *
19232401 AATAGATCTAGCTTTAGCGGCGCTTTTT--CA-AAAACGCCGCTAAAAGTTTAAGCAA-GACAAT
1 AATAGATCAATCTTTAGCGGCGTTTTTTAAAATAAAACGCCGCTAAAA-ATTAAGCAACGAC---
** * * ** * * *
19232462 GTCGTTTTACATGAGCTTCATTGGCAGTAGCGGCGTTTTCCCAAAAACGCCGT
62 GTCGTTTTATTTGAGCTTCAATGGCATTAGCGGCACTTTACTAAAAACGCCGC
* * * * *
19232515 AACAGATCAAACTTTAGTGGCG-TTTTTAAAAAAAAACGCCGCTAAAATATTAAACAAAACGACG
1 AATAGATCAATCTTTAGCGGCGTTTTTTAAAATAAAACGCCGCTAAAA-ATTAAGC--AACGACG
* * * *
19232579 TCGTTTTATATGAGCTTCAATGACATTAGCGGCGCTTTCCTAAAAACGCCGC
63 TCGTTTTATTTGAGCTTCAATGGCATTAGCGGCACTTTACTAAAAACGCCGC
* * * ** * ** *
19232631 TATAGGTCGCATAATTAGCGACGTTTTTT--TGT-AAACGCCGCTAATAAGTTAAGGCTAACGAC
1 AATAGATC-AATCTTTAGCGGCGTTTTTTAAAATAAAACGCCGCTAA-AAATTAA-GC-AACGAC
* *
19232693 GTCGTTTTAAATT-AGCTTCAATGGCATTAGCGGCACTTTACTTAAAACGCCGC
62 GTCGTTTT-ATTTGAGCTTCAATGGCATTAGCGGCACTTTACTAAAAACGCCGC
* *
19232746 AATATATCAATCTTTAACGGCGTTTTTTACAAATAAAACGCCGCTAAAACATTAAGCAGACCGAC
1 AATAGATCAATCTTTAGCGGCGTTTTTTA-AAATAAAACGCCGCTAAAA-ATTAAGCA-A-CGAC
* *
19232811 GTCGTTTTGTTTGAACTTCAATGGCATTAGCGGC
62 GTCGTTTTATTTGAGCTTCAATGGCATTAGCGGC
19232845 GTTTCTCGAA
Statistics
Matches: 261, Mismatches: 50, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
113 5 0.02
114 33 0.13
115 72 0.28
116 77 0.30
117 16 0.06
118 55 0.21
119 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (114 bp):
AATAGATCAATCTTTAGCGGCGTTTTTTAAAATAAAACGCCGCTAAAAATTAAGCAACGACGTCG
TTTTATTTGAGCTTCAATGGCATTAGCGGCACTTTACTAAAAACGCCGC
Found at i:19233258 original size:18 final size:18
Alignment explanation
Indices: 19233232--19233295 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
19233222 ATTAGACTAC
*
19233232 TATATATTATATATTTTT
1 TATAAATTATATATTTTT
19233250 TATAAATTATATATTTTAT
1 TATAAATTATATATTTT-T
*
19233269 T-T--ATTATTTATTTTTT
1 TATAAATTATATA-TTTTT
19233285 TATAAATTATA
1 TATAAATTATA
19233296 AAATTACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.24
17 5 0.13
18 17 0.45
19 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATAAATTATATATTTTT
Found at i:19233260 original size:16 final size:16
Alignment explanation
Indices: 19233241--19233295 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
19233231 CTATATATTA
19233241 TATATTTTTTATAAAT
1 TATATTTTTTATAAAT
* **
19233257 TATATATTTTATTTAT
1 TATATTTTTTATAAAT
19233273 TATTTATTTTTTTATAAAT
1 TA--TA-TTTTTTATAAAT
19233292 TATA
1 TATA
19233296 AAATTACATA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 15 0.50
17 2 0.07
18 2 0.07
19 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATTTTTTATAAAT
Found at i:19233434 original size:25 final size:24
Alignment explanation
Indices: 19233384--19233435 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
19233374 TAACTTATTT
**
19233384 TTTAAATGAATTTAAAATTTTCTA
1 TTTAAATGAATTTAAAATTTAATA
* *
19233408 TTTAAACTGATTTTTAAATTTAATA
1 TTTAAA-TGAATTTAAAATTTAATA
19233433 TTT
1 TTT
19233436 TTATAGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTAAATGAATTTAAAATTTAATA
Found at i:19233470 original size:14 final size:13
Alignment explanation
Indices: 19233447--19233493 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
19233437 TATAGGTTTA
19233447 AGGGTTATGATTT
1 AGGGTTATGATTT
19233460 AGGGTTGATGATTT
1 AGGGTT-ATGATTT
**
19233474 ATGTTTTATGATTT
1 A-GGGTTATGATTT
19233488 AGGGTT
1 AGGGTT
19233494 TGAGGTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 9 0.32
14 16 0.57
15 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (13 bp):
AGGGTTATGATTT
Found at i:19233509 original size:28 final size:28
Alignment explanation
Indices: 19233451--19233509 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
19233441 GGTTTAAGGG
**
19233451 TTATGATTTAGGGTTGATGATTTATGTT
1 TTATGATTTAGGGTTGATGATTTATAAT
*
19233479 TTATGATTTAGGGTTTGA-GGTTTATAAT
1 TTATGATTTAGGG-TTGATGATTTATAAT
19233507 TTA
1 TTA
19233510 AAAGGTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (28 bp):
TTATGATTTAGGGTTGATGATTTATAAT
Done.