Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 5 of 52
Found at i:650182 original size:102 final size:102
Alignment explanation
Indices: 650063--650340 Score: 348
Period size: 102 Copynumber: 2.7 Consensus size: 102
650053 TCGAAAATAA
* * *
650063 CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGGTGTTTTGAAAATAAAACCAGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGAT-TATGAAAAATTGGTGTTTTGAAAATAAAACC-GGGTTGGAGTA
**
650128 TCCCCGATT-GTGAAAAATT-AGTGTTTAG-AAATAAAAC
64 TCCCCGATTAAAGAAAAATTGA-TGTTTAGAAAATAAAAC
* * * *
650165 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACC-GGGTTGGAGTAT
* *
650230 CCCCGATTAAAGGAAAATTGATGTTTTGAAAATAAAAC
65 CCCCGATTAAAGAAAAATTGATGTTTAGAAAATAAAAC
* * * *
650268 CGGGATTGGAGTATCCCTGATTATGAAAAATT-GTGTTTTGAAAATAAAATCGGAGTTGGAATAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGG-GTTGGAGTAT
650332 CCCCGATTA
65 CCCCGATTA
650341 CGGAGAATTG
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
101 46 0.30
102 66 0.43
103 40 0.26
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (102 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGGGTTGGAGTATC
CCCGATTAAAGAAAAATTGATGTTTAGAAAATAAAAC
Found at i:650248 original size:153 final size:153
Alignment explanation
Indices: 650063--650340 Score: 452
Period size: 153 Copynumber: 1.8 Consensus size: 153
650053 TCGAAAATAA
*
650063 CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGGTGTTTTGAAAATAAAACCAGGG-TTGGAGT
1 CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGATGTTTTGAAAATAAAACC-GGGATTGGAGT
* * *
650127 ATCCCCGATTGTGAAAAATTAGTGTTTAG-AAATAAAACCGGGGTTGGAGTATCCCCGATTATGA
65 ATCCCCGATTATGAAAAATT-GTGTTTAGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGA
650191 AAAATTGATATTTTGGAAATAAAGC
129 AAAATTGATATTTTGGAAATAAAGC
*
650216 CGGGGTTGGAGTATCCCCGATTAAAGGAAAATTGATGTTTTGAAAATAAAACCGGGATTGGAGTA
1 CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGATGTTTTGAAAATAAAACCGGGATTGGAGTA
* * *
650281 TCCCTGATTATGAAAAATTGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTA
66 TCCCCGATTATGAAAAATTGTGTTTAGAAAATAAAACCGGAGTTGGAATATCCCCGATTA
650341 CGGAGAATTG
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
152 10 0.09
153 105 0.91
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (153 bp):
CGGGGTTGGAGTATCCCCGATGAAAGGAAAATTGATGTTTTGAAAATAAAACCGGGATTGGAGTA
TCCCCGATTATGAAAAATTGTGTTTAGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGAAA
AATTGATATTTTGGAAATAAAGC
Found at i:650350 original size:50 final size:49
Alignment explanation
Indices: 650065--650340 Score: 329
Period size: 50 Copynumber: 5.4 Consensus size: 49
650055 GAAAATAACG
* * *
650065 GGGTTGGAGTATCCCCGATGAAAGGAAAATTGGTGTTTTGAAAATAAAACC
1 GGGTTGGAGTATCCCCGAT-TATGAAAAATT-GTGTTTTGAAAATAAAACC
* *
650116 AGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTAG-AAATAAAACC
1 -GGGTTGGAGTATCCCCGATTATGAAAAATT-GTGTTTTGAAAATAAAACC
* * *
650166 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAGCC
1 -GGGTTGGAGTATCCCCGATTATGAAAAATTG-TGTTTTGAAAATAAAACC
* *
650217 GGGGTTGGAGTATCCCCGATTAAAGGAAAATTGATGTTTTGAAAATAAAACC
1 -GGGTTGGAGTATCCCCGATT-ATGAAAAATTG-TGTTTTGAAAATAAAACC
* *
650269 GGGATTGGAGTATCCCTGATTATGAAAAATTGTGTTTTGAAAATAAAATC
1 GGG-TTGGAGTATCCCCGATTATGAAAAATTGTGTTTTGAAAATAAAACC
*
650319 GGAGTTGGAATATCCCCGATTA
1 GG-GTTGGAGTATCCCCGATTA
650341 CGGAGAATTG
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 79 0.40
51 57 0.29
52 60 0.30
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (49 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGTGTTTTGAAAATAAAACC
Found at i:652732 original size:20 final size:21
Alignment explanation
Indices: 652684--652739 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
652674 TAAAATTCCT
652684 AGATGTATCGATACAAAGAAA
1 AGATGTATCGATACAAAGAAA
*
652705 AGATGTATCGATACACAGAAA
1 AGATGTATCGATACAAAGAAA
652726 A-ATGTATCGATACA
1 AGATGTATCGATACA
652740 TTTCCTTGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (21 bp):
AGATGTATCGATACAAAGAAA
Found at i:652839 original size:21 final size:22
Alignment explanation
Indices: 652813--652870 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
652803 GTTGGGACCT
* *
652813 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
652834 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
652855 TGTATCGATACATTTG
1 TGTATCGATACATTTG
652871 GATAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:653399 original size:32 final size:32
Alignment explanation
Indices: 653314--653597 Score: 181
Period size: 31 Copynumber: 9.0 Consensus size: 32
653304 ACTTTACAAG
653314 AGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
1 AGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
* * * * * *
653346 A-AGATGCCACTAAGTTTTGTGGGCTTTGAAG
1 AGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
* * *
653377 GGGGTTGCCACCAACTTGTGTGGACTTT-AGAG
1 AGGGTTGCCACCAACTTGTGTGGGCTTTGA-AA
* * *
653409 AGGGTTGCCAGCGACTTATGTGGGCTTT-AAA
1 AGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
**** *
653440 AAAAATGCCACCAACTTGTGTAGGCGTTTGAAA
1 AGGGTTGCCACCAACTTGTGTGGGC-TTTGAAA
* * **
653473 AGGGGTGCCACCGACTTGTGTGGGCTTTGACTC
1 AGGGTTGCCACCAACTTGTGTGGGCTTTGA-AA
* * * ** * *
653506 A-GG-TACCGCCAAGTCATGCGGG-TATTGATA
1 AGGGTTGCCACCAACTTGTGTGGGCT-TTGAAA
* *
653536 A-GG-TGCCACCAACTTGTATGGGCTTTGACA
1 AGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
* *
653566 AGGG-TGCCGCCAACTTGTGTGGGCTTTAAAA
1 AGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
653597 A
1 A
653598 AAGCGTCCTG
Statistics
Matches: 189, Mismatches: 55, Indels: 17
0.72 0.21 0.07
Matches are distributed among these distances:
30 23 0.12
31 86 0.46
32 57 0.30
33 23 0.12
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (32 bp):
AGGGTTGCCACCAACTTGTGTGGGCTTTGAAA
Found at i:653488 original size:64 final size:63
Alignment explanation
Indices: 653382--653500 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 63
653372 TGAAGGGGGT
* * *
653382 TGCCACCAACTTGTGTGGACTTTAGAGAGGGTTGCCAGCGACTTATGTGGGCTTTAAAAAAAA
1 TGCCACCAACTTGTGTGGACTTTAGAAAGGGGTGCCACCGACTTATGTGGGCTTTAAAAAAAA
*
653445 TGCCACCAACTTGTGTAGG-CGTTT-GAAAAGGGGTGCCACCGACTTGTGTGGGCTTT
1 TGCCACCAACTTGTGT-GGAC-TTTAG-AAAGGGGTGCCACCGACTTATGTGGGCTTT
653501 GACTCAGGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
63 18 0.37
64 31 0.63
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (63 bp):
TGCCACCAACTTGTGTGGACTTTAGAAAGGGGTGCCACCGACTTATGTGGGCTTTAAAAAAAA
Found at i:653662 original size:58 final size:59
Alignment explanation
Indices: 653567--654114 Score: 467
Period size: 58 Copynumber: 9.1 Consensus size: 59
653557 GCTTTGACAA
* * *
653567 GGGTGCCGCCAACTTGTGTGGGC-TTTAAAAAAAGCGTCCTGCTCTTTGAGGACTAAAT
1 GGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAC
* * * * *
653625 GGGTGCCACTAACTTATGTAGGCTTTT-AAAAAGGCGTCCTTCTCTTTGAAGACTAAAC
1 GGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAC
** * * * * * * *
653683 ATGTGCCACCAACTTATTTGGGCTTTTTAAAAAAGACATCTTACTATTTGAGGA-TGAAAC
1 GGGTGCCACCAACTTGTGTGGGC-TTTTAAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAC
* * * * *
653743 AGGTGCCACCAACTTGTGTGGGTTTTTTTAAAAAAAAAGTGTCCTGCTCTTTGAAGACTAAAC
1 GGGTGCCACCAACTTGTGTGGG--CTTTT--AAAAAAGGCGTCCTGCTCTTTGAGGACTAAAC
* * * ** * *
653806 GAGTGCCACCAACTTATGTGAGCTTTTTTAAAAAAAATACGTCTTGCTCTTTGAGGACTAAAT
1 GGGTGCCACCAACTTGTGTGGGC--TTTT--AAAAAAGGCGTCCTGCTCTTTGAGGACTAAAC
* * *
653869 GAGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAGGCATCCTGCTCTTTGAAGACTAAAC
1 GGGTGCCACCAACTTGTGTGGGCTTTT-AAAAAAGGCGTCCTGCTCTTTGAGGACTAAAC
* * * * * * *
653929 TGGTGCCATCAACTTGTTTGGGC-TTTAAAAAAGGCATTCTGCTCTTTAAGGACTAAAG
1 GGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAC
*
653987 GGGTGCCACCAACTTGTGTGGGCTTTTAAAAGAAAAAAGGCGTCCTACTCTTTGAGGACTAAAC
1 GGGTGCCACCAACTTGTGTGGGCTTTT-----AAAAAAGGCGTCCTGCTCTTTGAGGACTAAAC
* * * * ** * *
654051 GTGTGCTACCAACTTATGTGGGC-TTTAAGAGAAAAGTATCCTGCTTTTTGAGGACTAAAA
1 GGGTGCCACCAACTTGTGTGGGCTTTTAA-A-AAAGGCGTCCTGCTCTTTGAGGACTAAAC
654111 GGGT
1 GGGT
654115 TTTAAGTTTC
Statistics
Matches: 395, Mismatches: 76, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
58 114 0.29
59 15 0.04
60 114 0.29
61 8 0.02
63 96 0.24
64 48 0.12
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (59 bp):
GGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAAAC
Found at i:653812 original size:123 final size:120
Alignment explanation
Indices: 653569--654112 Score: 486
Period size: 123 Copynumber: 4.5 Consensus size: 120
653559 TTTGACAAGG
* * * * * *
653569 GTGCCGCCAACTTGTGTGGGC-TTTAAAAAAAG-CGTCCTGCTCTTTGAGGACTAAATGGGTGCC
1 GTGCCACCAACTTATGTGGGCTTTTTAAAAAAGACATCTTGCTCTTTGAGGACTAAA-AGGTGCC
* * * * * *
653632 ACTAACTTATGTAGGCTTTT---AAAAAGGCGTCCTTCTCTTTGAAGACTAAAC-A
65 ACCAACTTGTGTGGGTTTTTAAAAAAAAAGCGTCCTGCTCTTTGAAGACTAAACGA
* * *
653684 TGTGCCACCAACTTATTTGGGCTTTTTAAAAAAGACATCTTACTATTTGAGGA-TGAAACAGGTG
1 -GTGCCACCAACTTATGTGGGCTTTTTAAAAAAGACATCTTGCTCTTTGAGGACT-AAA-AGGTG
*
653748 CCACCAACTTGTGTGGGTTTTTTTAAAAAAAAAGTGTCCTGCTCTTTGAAGACTAAACGA
63 CCACCAACTTGTGTGGG--TTTTTAAAAAAAAAGCGTCCTGCTCTTTGAAGACTAAACGA
* * * *
653808 GTGCCACCAACTTATGTGAGCTTTTTTAAAAAAAATACGTCTTGCTCTTTGAGGACTAAATGAGT
1 GTGCCACCAACTTATGTGGGC-TTTTT--AAAAAAGACATCTTGCTCTTTGAGGACTAAAAG-GT
* * *
653873 GCCACCAACTTGTGTGGGCTTTT-AAAAAAAGGCATCCTGCTCTTTGAAGACTAAACTG-
62 GCCACCAACTTGTGTGGGTTTTTAAAAAAAAAGCGTCCTGCTCTTTGAAGACTAAAC-GA
* * * * * *
653931 GTGCCATCAACTTGTTTGGGC--TTTAAAAAAGGCAT-TCTGCTCTTTAAGGACTAAAGGGGTGC
1 GTGCCACCAACTTATGTGGGCTTTTTAAAAAAGACATCT-TGCTCTTTGAGGACTAAA-AGGTGC
* * * *
653993 CACCAACTTGTGTGGGCTTTTAAAAGAAAAAAGGCGTCCTACTCTTTGAGGACTAAACGT
64 CACCAACTTGTGTGGG-TTTTTAAA-AAAAAA-GCGTCCTGCTCTTTGAAGACTAAACGA
* * * * *
654053 GTGCTACCAACTTATGTGGGC-TTTAAGAGAAAAG-TATCCTGCTTTTTGAGGACTAAAAGG
1 GTGCCACCAACTTATGTGGGCTTTTTA-A-AAAAGACATCTTGCTCTTTGAGGACTAAAAGG
654113 GTTTTAAGTT
Statistics
Matches: 349, Mismatches: 53, Indels: 45
0.78 0.12 0.10
Matches are distributed among these distances:
116 18 0.05
117 12 0.03
118 80 0.23
119 4 0.01
120 9 0.03
121 6 0.02
122 39 0.11
123 99 0.28
124 30 0.09
125 6 0.02
126 45 0.13
127 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (120 bp):
GTGCCACCAACTTATGTGGGCTTTTTAAAAAAGACATCTTGCTCTTTGAGGACTAAAAGGTGCCA
CCAACTTGTGTGGGTTTTTAAAAAAAAAGCGTCCTGCTCTTTGAAGACTAAACGA
Found at i:654223 original size:26 final size:26
Alignment explanation
Indices: 654194--654243 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
654184 TCAACTTTAT
*
654194 GACTATTGGTATTAAGAATCCATACC
1 GACTATTGGTATTAAAAATCCATACC
654220 GACTATTGGTATTAAAAATCCATA
1 GACTATTGGTATTAAAAATCCATA
654244 TCAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (26 bp):
GACTATTGGTATTAAAAATCCATACC
Found at i:668173 original size:8 final size:9
Alignment explanation
Indices: 668152--668176 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
668142 ATTATTATTT
668152 TTTTTATAC
1 TTTTTATAC
668161 TTTTTATAC
1 TTTTTATAC
668170 TTTTTAT
1 TTTTTAT
668177 TTATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTATAC
Found at i:668775 original size:4 final size:3
Alignment explanation
Indices: 668759--668802 Score: 52
Period size: 3 Copynumber: 13.3 Consensus size: 3
668749 TCTTTCATTA
668759 TCT TCT TCT TCCT TCCT TCCT TCT TCT TCT TCT TCT TCCT TCT T
1 TCT TCT TCT T-CT T-CT T-CT TCT TCT TCT TCT TCT T-CT TCT T
668803 TCTCACCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 25 0.64
4 14 0.36
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:668787 original size:6 final size:7
Alignment explanation
Indices: 668759--668802 Score: 58
Period size: 6 Copynumber: 6.6 Consensus size: 7
668749 TCTTTCATTA
668759 TCTT-CT
1 TCTTCCT
668765 TCTTCCT
1 TCTTCCT
668772 TCCTTCCT
1 T-CTTCCT
668780 TCTT-CT
1 TCTTCCT
668786 TCTT-CT
1 TCTTCCT
668792 TCTTCCT
1 TCTTCCT
668799 TCTT
1 TCTT
668803 TCTCACCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.46
7 12 0.34
8 7 0.20
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (7 bp):
TCTTCCT
Found at i:669267 original size:23 final size:20
Alignment explanation
Indices: 669214--669257 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
669204 TTTGTTTCCA
* *
669214 TTTTTTTCTTTTTTAACAAC
1 TTTTTTTCTCTTTAAACAAC
669234 TTTTTTTCTCTTTAAACAAC
1 TTTTTTTCTCTTTAAACAAC
669254 TTTT
1 TTTT
669258 GTTTTTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTTCTCTTTAAACAAC
Found at i:669417 original size:17 final size:17
Alignment explanation
Indices: 669386--669419 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
669376 AAAAGTTGTC
*
669386 TTATTTTTATCTTTTTT
1 TTATTTTTATATTTTTT
*
669403 TTATTTTTCTATTTTTT
1 TTATTTTTATATTTTTT
669420 CATAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTATTTTTATATTTTTT
Found at i:672326 original size:97 final size:97
Alignment explanation
Indices: 672212--672441 Score: 282
Period size: 97 Copynumber: 2.4 Consensus size: 97
672202 TTTTTACGGT
* ** * *
672212 GATACTCTAACCCCATTCTTCCGAGAGGATACTTTAATCCTATTTTTAAACTCATCAAGATTTAA
1 GATACTCCAACCCCATTCTTCCGAGAGGATACTCCAACCCCATTTTTAAACTCATCAAGATTTAA
* * ** * *
672277 CTCTTATTTTTGCTTAAATTGTCATC-TCTGGG
66 ATCTTATTATCACCTAAATTGTCATCGTC-AGG
* * **
672309 GATACTCCAACCCCATTCTTTCGAGGGGATACTCCAACCCCATTTTTAAACTTGTCAAGATTTAA
1 GATACTCCAACCCCATTCTTCCGAGAGGATACTCCAACCCCATTTTTAAACTCATCAAGATTTAA
*
672374 ATCTTATTATCACCTAAATTGTTATCGTCAGG
66 ATCTTATTATCACCTAAATTGTCATCGTCAGG
* *
672406 GATACTCCAACCCCATTCCTCCGAGAAGATACTCCA
1 GATACTCCAACCCCATTCTTCCGAGAGGATACTCCA
672442 GCCATGTTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
97 110 0.98
98 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (97 bp):
GATACTCCAACCCCATTCTTCCGAGAGGATACTCCAACCCCATTTTTAAACTCATCAAGATTTAA
ATCTTATTATCACCTAAATTGTCATCGTCAGG
Found at i:674645 original size:68 final size:68
Alignment explanation
Indices: 674533--674670 Score: 222
Period size: 68 Copynumber: 2.0 Consensus size: 68
674523 AGCTAAACAT
*
674533 AATTACTTATAAATTTGAAAATCATAAAAAAATTATTTAAATTGATATTAATCTTTTTATATTTA
1 AATTACTCATAAATTTGAAAATCATAAAAAAATTATTTAAATTGATATTAATCTTTTTATATTTA
674598 ATG
66 ATG
* * * * *
674601 AATTACTCATAAATTTGATAATCATAAAAAAGTTATTTAGATTGATATTAATTTTTTTATATTTG
1 AATTACTCATAAATTTGAAAATCATAAAAAAATTATTTAAATTGATATTAATCTTTTTATATTTA
674666 ATG
66 ATG
674669 AA
1 AA
674671 AGTTTTTTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (68 bp):
AATTACTCATAAATTTGAAAATCATAAAAAAATTATTTAAATTGATATTAATCTTTTTATATTTA
ATG
Found at i:679379 original size:63 final size:64
Alignment explanation
Indices: 679257--679397 Score: 248
Period size: 63 Copynumber: 2.2 Consensus size: 64
679247 TATGTTGGTG
*
679257 AAGATAAGAAAAATAATGTCTTAAAAGGCAAAAACAAATGATCTCATCTGTTTTGGAGGACAAGC
1 AAGATAAGAAAAATAATGTCTTAAAAGG-AAAAACAAAAGATCTCATCTGTTTTGGAGGACAAGC
*
679322 AAGATAAGAAAAATAATGTCTTAAAAGG-TAAACAAAAGATCTCATCTGTTTTGGAGGACAAGC
1 AAGATAAGAAAAATAATGTCTTAAAAGGAAAAACAAAAGATCTCATCTGTTTTGGAGGACAAGC
679385 AAGATAAGAAAAA
1 AAGATAAGAAAAA
679398 GAAATAGTTA
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
63 46 0.62
65 28 0.38
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (64 bp):
AAGATAAGAAAAATAATGTCTTAAAAGGAAAAACAAAAGATCTCATCTGTTTTGGAGGACAAGC
Found at i:681361 original size:250 final size:250
Alignment explanation
Indices: 680914--681411 Score: 825
Period size: 250 Copynumber: 2.0 Consensus size: 250
680904 TCGTGATGAA
* * * * *
680914 GTTGTTATGGAACCAAGGAAAAGCCATAGGTTGAGAAAAGAAAGAATCTAGGTCCAGATTTTATT
1 GTTGTAATGGAACCAAGGAAAAACCATAGGGTGAGAAAAAAAAGAATCTAGGTCCAGATTTTACT
* * **
680979 TCTTCACAATCTATAGTTTTTCTATTTGTAGGAAACAGGGATTCTATAATTAATAAAATCCTTAT
66 TCTTCACAATCTATAGTTTTTCTAGTTGCAGGAAACAAAGATTCTATAATTAATAAAATCCTTAT
* * * *
681044 AATGCTGAATGGGGAAGAAGATTCATAAAATTATAATGAAGCATTGTTTTTTAAAGATTCGGCAT
131 AATGCTAAATGGGGAAGAAGATTCATAAAATTATAATGAAGCATTGGTTTCTAAAGATTCAGCAT
681109 TTTGAAAAGAGGCAATGAATGATGAAATAAACTCGATATTATCAAACAATACTAG
196 TTTGAAAAGAGGCAATGAATGATGAAATAAACTCGATATTATCAAACAATACTAG
*
681164 GTTGTAATGGAACCAAGGAAAAACCATAGGGTGAGAAAAAAAAGCATCTAGGTCCAGATTTTACT
1 GTTGTAATGGAACCAAGGAAAAACCATAGGGTGAGAAAAAAAAGAATCTAGGTCCAGATTTTACT
* *
681229 TCTTCACAATCTATAGTTTTTCTAGTTGCAGGAAATAAAGATTCTATAATTAATAAAATCTTTAT
66 TCTTCACAATCTATAGTTTTTCTAGTTGCAGGAAACAAAGATTCTATAATTAATAAAATCCTTAT
* * *
681294 AATGCTAAATGTGGAAGAAGATTCATAAAATTATACTGAAGCATTGGTTTCTAAAGATTTAGCAT
131 AATGCTAAATGGGGAAGAAGATTCATAAAATTATAATGAAGCATTGGTTTCTAAAGATTCAGCAT
681359 TTTGAAAAGAGGCAATGAATGATGAAATAAACTCGATATTATCAAACAATACT
196 TTTGAAAAGAGGCAATGAATGATGAAATAAACTCGATATTATCAAACAATACT
681412 TGGATCTTAG
Statistics
Matches: 229, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
250 229 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (250 bp):
GTTGTAATGGAACCAAGGAAAAACCATAGGGTGAGAAAAAAAAGAATCTAGGTCCAGATTTTACT
TCTTCACAATCTATAGTTTTTCTAGTTGCAGGAAACAAAGATTCTATAATTAATAAAATCCTTAT
AATGCTAAATGGGGAAGAAGATTCATAAAATTATAATGAAGCATTGGTTTCTAAAGATTCAGCAT
TTTGAAAAGAGGCAATGAATGATGAAATAAACTCGATATTATCAAACAATACTAG
Found at i:683417 original size:18 final size:19
Alignment explanation
Indices: 683396--683452 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
683386 TATGAAAATG
683396 TGCATTTT-GATGAAATAA
1 TGCATTTTGGATGAAATAA
*
683414 TGCATTAGTTGGATGAAATGA
1 TGCATT--TTGGATGAAATAA
*
683435 TACATTTTTTGGATGAAA
1 TGCA--TTTTGGATGAAA
683453 AAAATACAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 6 0.19
20 2 0.06
21 22 0.69
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (19 bp):
TGCATTTTGGATGAAATAA
Found at i:683430 original size:21 final size:21
Alignment explanation
Indices: 683404--683452 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
683394 TGTGCATTTT
*
683404 GATGAAATAATGCATTAGTTG
1 GATGAAATAATACATTAGTTG
* **
683425 GATGAAATGATACATTTTTTG
1 GATGAAATAATACATTAGTTG
683446 GATGAAA
1 GATGAAA
683453 AAAATACAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (21 bp):
GATGAAATAATACATTAGTTG
Found at i:684885 original size:2 final size:2
Alignment explanation
Indices: 684878--684918 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
684868 ATTATTTAGA
684878 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
684919 AATACATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:685245 original size:2 final size:2
Alignment explanation
Indices: 685238--685267 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
685228 TGATAGAAAA
685238 AT AT 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 AT AT
685268 CAATCCATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:688784 original size:21 final size:21
Alignment explanation
Indices: 688758--688797 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
688748 GGTTTTGGTT
688758 TTAATTTAATT-TTAATTTAAA
1 TTAATTT-ATTATTAATTTAAA
688779 TTAATTTATTATTAATTTA
1 TTAATTTATTATTAATTTA
688798 TTATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATTTATTATTAATTTAAA
Found at i:688798 original size:11 final size:11
Alignment explanation
Indices: 688758--688802 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
688748 GGTTTTGGTT
688758 TTAATTTAATT-
1 TTAATTT-ATTA
*
688769 TTAATTTA-AA
1 TTAATTTATTA
688779 TTAATTTATTA
1 TTAATTTATTA
688790 TTAATTTATTA
1 TTAATTTATTA
688801 TT
1 TT
688803 TTAAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTAATTTATTA
Found at i:689016 original size:30 final size:28
Alignment explanation
Indices: 688970--689042 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
688960 TTTATTATAT
**
688970 TTAAATAAATTTTTAATATTTAATTTACA
1 TTAAATAAATCATTAAT-TTTAATTTACA
* *
688999 TTAAAATAAATCATTAATTTTCATTTATA
1 TT-AAATAAATCATTAATTTTAATTTACA
* *
689028 TTTAATAAATGATTA
1 TTAAATAAATCATTA
689043 TCTTTTAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 11 0.30
29 13 0.35
30 13 0.35
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (28 bp):
TTAAATAAATCATTAATTTTAATTTACA
Found at i:689638 original size:2 final size:2
Alignment explanation
Indices: 689631--689658 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
689621 TTCTATTGAA
689631 AT 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 AT
689659 TTGTGTTTAC
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:691551 original size:32 final size:32
Alignment explanation
Indices: 691515--691580 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
691505 CTTCTCCAAC
691515 CTAAATTAACTCCAAAATCCCCTTAAATATGA
1 CTAAATTAACTCCAAAATCCCCTTAAATATGA
* * *
691547 CTAAATTGACTCCAAAATCTCTTTAAATATGA
1 CTAAATTAACTCCAAAATCCCCTTAAATATGA
691579 CT
1 CT
691581 TAAAAGACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (32 bp):
CTAAATTAACTCCAAAATCCCCTTAAATATGA
Found at i:692738 original size:21 final size:20
Alignment explanation
Indices: 692714--692764 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
692704 TTCTACAATT
692714 TGTATCGATACAACAAGTGAA
1 TGTATCGATAC-ACAAGTGAA
*
692735 TGTATCGATACATAAGTGAA
1 TGTATCGATACACAAGTGAA
692755 TGTATCGATA
1 TGTATCGATA
692765 TATGTTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACAAGTGAA
Found at i:692753 original size:20 final size:20
Alignment explanation
Indices: 692714--692788 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 20
692704 TTCTACAATT
*
692714 TGTATCGATACAACAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
692735 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* ***
692755 TGTATCGATATATGTTTGAAA
1 TGTATCGATACATAAGTG-AA
692776 TGTATCGATACAT
1 TGTATCGATACAT
692789 GAGCATGTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 22 0.47
21 25 0.53
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:692946 original size:52 final size:51
Alignment explanation
Indices: 692845--693046 Score: 228
Period size: 52 Copynumber: 4.0 Consensus size: 51
692835 TTCATTTTTT
* * * * * *
692845 ATTGTATCGATATATTCT-GG-TTTGATCCAAATGTATCGATATATTATTC
1 ATTGTATCGATACATTCTGGGTTTTGACCCAAATATAACTATACATTATTC
* *
692894 ATTGTATTGATACATTCTGGAGTTTTAACCCAAATATAACTATACATTATTC
1 ATTGTATCGATACATTCTGG-GTTTTGACCCAAATATAACTATACATTATTC
* *
692946 ATTGTATCGATACATTTTGGGGTTTTGACTCAAATATAACTATACATTATTC
1 ATTGTATCGATACATTCT-GGGTTTTGACCCAAATATAACTATACATTATTC
* * * * * *
692998 ATTATATCGATACATTCTAGGTTTTGACCTAAATGTATCAATACATTAT
1 ATTGTATCGATACATTCTGGGTTTTGACCCAAATATAACTATACATTAT
693047 ATCGATACAT
Statistics
Matches: 129, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 16 0.12
50 1 0.01
51 26 0.20
52 84 0.65
53 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (51 bp):
ATTGTATCGATACATTCTGGGTTTTGACCCAAATATAACTATACATTATTC
Found at i:693375 original size:52 final size:53
Alignment explanation
Indices: 693289--693388 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 53
693279 AAATCAAATG
* * ** *
693289 AAAAAAATCAAAATTAATAAAAAAATCAGTAAAAAAAGTAGAA-AAAATTTCA
1 AAAAAAATCAAAATCAATAAAAAAATAAAAAAAAAAAGGAGAAGAAAATTTCA
* *
693341 AAAAAAATCAAAATCAATCAAAAAGTAAAAAAAAAAAGGAGAAGAAAA
1 AAAAAAATCAAAATCAATAAAAAAATAAAAAAAAAAAGGAGAAGAAAA
693389 AAGGAAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 36 0.90
53 4 0.10
ACGTcount: A:0.72, C:0.06, G:0.08, T:0.14
Consensus pattern (53 bp):
AAAAAAATCAAAATCAATAAAAAAATAAAAAAAAAAAGGAGAAGAAAATTTCA
Found at i:693378 original size:13 final size:13
Alignment explanation
Indices: 693360--693404 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
693350 AAAATCAATC
*
693360 AAAAAGTAAAAAA
1 AAAAAGGAAAAAA
* *
693373 AAAAAGGAGAAGA
1 AAAAAGGAAAAAA
693386 AAAAAGGAAAAAA
1 AAAAAGGAAAAAA
693399 GAAAAA
1 -AAAAA
693405 AGATCTAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 21 0.81
14 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAAAGGAAAAAA
Found at i:694928 original size:30 final size:29
Alignment explanation
Indices: 694885--694984 Score: 96
Period size: 29 Copynumber: 3.4 Consensus size: 29
694875 AGCAACCTTC
* * *
694885 TCAAAGTCGACAACTTTGTAGCACCTCTTT
1 TCAAAATCCACAACTTCGT-GCACCTCTTT
*
694915 TTAAAATCCACAACTTCGTG-ACACTCTTT
1 TCAAAATCCACAACTTCGTGCAC-CTCTTT
* *
694944 TCAAAGTCCACAACTCCGTGGCACC-CTTT
1 TCAAAATCCACAACTTCGT-GCACCTCTTT
*
694973 TCAAAACCCACA
1 TCAAAATCCACA
694985 CAAGTCGGTG
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
28 2 0.03
29 37 0.64
30 17 0.29
31 2 0.03
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.28
Consensus pattern (29 bp):
TCAAAATCCACAACTTCGTGCACCTCTTT
Found at i:694944 original size:29 final size:29
Alignment explanation
Indices: 694909--694984 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
694899 TTTGTAGCAC
* *
694909 CTCTTTTTAAAATCCACAACTTCGTGACA
1 CTCTTTTCAAAATCCACAACTCCGTGACA
* *
694938 CTCTTTTCAAAGTCCACAACTCCGTGGCA
1 CTCTTTTCAAAATCCACAACTCCGTGACA
* *
694967 CCCTTTTCAAAACCCACA
1 CTCTTTTCAAAATCCACA
694985 CAAGTCGGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.29, C:0.34, G:0.08, T:0.29
Consensus pattern (29 bp):
CTCTTTTCAAAATCCACAACTCCGTGACA
Found at i:694996 original size:31 final size:32
Alignment explanation
Indices: 694952--695106 Score: 161
Period size: 33 Copynumber: 4.8 Consensus size: 32
694942 TTTCAAAGTC
* *
694952 CACAACTCCGTGGCACCCTTTTCAAAA-CCCA
1 CACAAGTCGGTGGCACCCTTTTCAAAAGCCCA
694983 CACAAGTCGGTGGCAACCCTTTTCAAAAGCCCA
1 CACAAGTCGGTGGC-ACCCTTTTCAAAAGCCCA
* ** *
695016 CATAAGTTAGTGGTAACCCTTTTCAAAAGCCCA
1 CACAAGTCGGTGG-CACCCTTTTCAAAAGCCCA
* * * *
695049 CATAAGTTGGTGCCAACCTTTTC-AAAGCCCA
1 CACAAGTCGGTGGCACCCTTTTCAAAAGCCCA
* *
695080 CACTAGTCGGTGGCATCCTTTCTCAAA
1 CACAAGTCGGTGGCACCCTTT-TCAAA
695107 CTCTACACGA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
31 36 0.35
32 23 0.22
33 45 0.43
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (32 bp):
CACAAGTCGGTGGCACCCTTTTCAAAAGCCCA
Found at i:695034 original size:33 final size:33
Alignment explanation
Indices: 694961--695094 Score: 170
Period size: 33 Copynumber: 4.2 Consensus size: 33
694951 CCACAACTCC
* *
694961 GTGGC-ACCCTTTTCAAAA-CCCACACAAGTCG
1 GTGGCAACCCTTTTCAAAAGCCCACATAAGTTG
*
694992 GTGGCAACCCTTTTCAAAAGCCCACATAAGTTA
1 GTGGCAACCCTTTTCAAAAGCCCACATAAGTTG
*
695025 GTGGTAACCCTTTTCAAAAGCCCACATAAGTTG
1 GTGGCAACCCTTTTCAAAAGCCCACATAAGTTG
* *
695058 GTGCCAA-CCTTTTC-AAAGCCCACACT-AGTCG
1 GTGGCAACCCTTTTCAAAAGCCCACA-TAAGTTG
695089 GTGGCA
1 GTGGCA
695095 TCCTTTCTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
31 24 0.26
32 21 0.23
33 46 0.51
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (33 bp):
GTGGCAACCCTTTTCAAAAGCCCACATAAGTTG
Found at i:695398 original size:52 final size:52
Alignment explanation
Indices: 695257--695452 Score: 185
Period size: 52 Copynumber: 3.8 Consensus size: 52
695247 AATGTTGCTA
* * * * * *
695257 GCCTTCAATTAGCACATTAGCATTCTTATCATCTTTAAATCTAATAATACTG
1 GCCTTGAATCAGCATATTAGCATTTTTATCATCTTTAAGTCTAATAACACTG
* * * * * * * **
695309 GCTTTGAATTAGCATATTGGCACTTTTCTTATTTTTAAGTCTAATAACGTTG
1 GCCTTGAATCAGCATATTAGCATTTTTATCATCTTTAAGTCTAATAACACTG
* * * * *
695361 GCCTTGAATCAGCATATTAGCATTTTTTTCATCTTTAATTCCAATATCACTA
1 GCCTTGAATCAGCATATTAGCATTTTTATCATCTTTAAGTCTAATAACACTG
* **
695413 GCCTTGAATCAACATATTAGCACCTTTATCATCTTTAAGT
1 GCCTTGAATCAGCATATTAGCATTTTTATCATCTTTAAGT
695453 TTGATGTCGC
Statistics
Matches: 113, Mismatches: 31, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
52 113 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (52 bp):
GCCTTGAATCAGCATATTAGCATTTTTATCATCTTTAAGTCTAATAACACTG
Found at i:695450 original size:104 final size:104
Alignment explanation
Indices: 695257--695452 Score: 232
Period size: 104 Copynumber: 1.9 Consensus size: 104
695247 AATGTTGCTA
* * * * * *
695257 GCCTTCAATTAGCACATTAGCATTCTTATCATCTTTAAATCTAATAATACTGGCTTTGAATTAGC
1 GCCTTCAATCAGCACATTAGCATTCTTATCATCTTTAAATCCAATAATACTAGCCTTGAATCAAC
* * * * *
695322 ATATTGGCACTTTTCTTATTTTTAAGTCTAATAACGTTG
66 ATATTAGCACCTTTATCATCTTTAAGTCTAATAACGTTG
* * * * *
695361 GCCTTGAATCAGCATATTAGCATTTTTTTCATCTTTAATTCCAAT-ATCACTAGCCTTGAATCAA
1 GCCTTCAATCAGCACATTAGCATTCTTATCATCTTTAAATCCAATAAT-ACTAGCCTTGAATCAA
695425 CATATTAGCACCTTTATCATCTTTAAGT
65 CATATTAGCACCTTTATCATCTTTAAGT
695453 TTGATGTCGC
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
103 2 0.03
104 73 0.97
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (104 bp):
GCCTTCAATCAGCACATTAGCATTCTTATCATCTTTAAATCCAATAATACTAGCCTTGAATCAAC
ATATTAGCACCTTTATCATCTTTAAGTCTAATAACGTTG
Found at i:695581 original size:52 final size:51
Alignment explanation
Indices: 695514--695698 Score: 181
Period size: 52 Copynumber: 3.6 Consensus size: 51
695504 TTCAAAGCCC
* * * *
695514 AATGTCGCTAGCCTTGAATCAATACATTGGTATCCTTATCATTTTTAAGTCT
1 AATGTCACTAGCCTTGAATCAACACATTGGCA-CCTTATCATATTTAAGTCT
* * * * *
695566 GATGTCACTGGCCTTGAATCAACATATTGGCACTTTTATCATATTTAAGTCC
1 AATGTCACTAGCCTTGAATCAACACATTGGCAC-CTTATCATATTTAAGTCT
* * * *
695618 AATTTCACTAACCTTGAATCAACACATTGGCACCTTTATCATCTCTAAGTCT
1 AATGTCACTAGCCTTGAATCAACACATTGGCACC-TTATCATATTTAAGTCT
* * * **
695670 AGTGTCGCAAGCCTTGAATCTGCACATTG
1 AATGTCACTAGCCTTGAATCAACACATTG
695699 ACACATTTGT
Statistics
Matches: 106, Mismatches: 25, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
51 1 0.01
52 105 0.99
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (51 bp):
AATGTCACTAGCCTTGAATCAACACATTGGCACCTTATCATATTTAAGTCT
Found at i:696647 original size:14 final size:14
Alignment explanation
Indices: 696604--696656 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
696594 ATTAATTAAT
696604 TTAAA-AAAT-AAA
1 TTAAATAAATAAAA
*
696616 TT-AATAAACACAAA
1 TTAAATAAATA-AAA
696630 -TAAATAAATAAAA
1 TTAAATAAATAAAA
*
696643 TTAAAAAAATAAAA
1 TTAAATAAATAAAA
696657 AAAAATCGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 4 0.12
14 22 0.67
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (14 bp):
TTAAATAAATAAAA
Found at i:696649 original size:38 final size:36
Alignment explanation
Indices: 696556--696651 Score: 92
Period size: 39 Copynumber: 2.6 Consensus size: 36
696546 ATTTAACATG
696556 AATAATAAA-AAAA-TAAAAAAAATATAATAACAAC
1 AATAATAAATAAAATTAAAAAAAATATAATAACAAC
* * *
696590 AATAATTAATTAATTTAAAAAATAA-ATTAATAA-ACAC
1 AATAATAAATAAAATTAAAAAA-AATA-TAATAACA-AC
696627 AAATAAATAAATAAAATTAAAAAAA
1 -AAT-AATAAATAAAATTAAAAAAA
696652 TAAAAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
34 8 0.16
35 2 0.04
36 9 0.18
37 10 0.20
38 4 0.08
39 16 0.33
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (36 bp):
AATAATAAATAAAATTAAAAAAAATATAATAACAAC
Found at i:696963 original size:32 final size:32
Alignment explanation
Indices: 696893--696974 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
696883 ATGCATGCTT
* * *
696893 TCATGCAAATGAAATGAAAGCAACAAATGCCAAT
1 TCATGCAAAT-AAA-GAAAGCAACAAAGGCAAAA
696927 TCATGCAAATAAAGAAAG-AACAAACGGCAAAA
1 TCATGCAAATAAAGAAAGCAACAAA-GGCAAAA
696959 TCATGCAACA-AAAGAA
1 TCATGCAA-ATAAAGAA
696975 GAAATCGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
31 6 0.14
32 23 0.53
33 4 0.09
34 10 0.23
ACGTcount: A:0.55, C:0.17, G:0.15, T:0.13
Consensus pattern (32 bp):
TCATGCAAATAAAGAAAGCAACAAAGGCAAAA
Found at i:697524 original size:14 final size:14
Alignment explanation
Indices: 697505--697534 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
697495 TCGAAACAAC
*
697505 AAAAATAGAAATAG
1 AAAAATAGAAAAAG
697519 AAAAATAGAAAAAG
1 AAAAATAGAAAAAG
697533 AA
1 AA
697535 GAGCAACGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (14 bp):
AAAAATAGAAAAAG
Found at i:705454 original size:85 final size:85
Alignment explanation
Indices: 705308--706345 Score: 955
Period size: 85 Copynumber: 12.2 Consensus size: 85
705298 CTTTCCTACT
* ** * * * * *
705308 TTCAGTCTGCTTGTTAGCTTTGACCGTAGAGACTG-CTTCATCTAAAGTCTGTCTGTCGGCTTTA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT-ACCTAAAGTCTGCCTGTCGGCTTTG
*
705372 ACCTTGGAGACTTTCTTACCC
65 ACCCTGGAGACTTTCTTACCC
* ** * * * *
705393 TTTAGTCTGCCTGTCAACTTTGACCTTGGAGACTGACTTATCTAAAGTCTGCTTGTTGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
* *
705458 TCTTGGAGACTTTCTTACCC
66 CCCTGGAGACTTTCTTACCC
* * * * * *
705478 -TCAGTCTGCCTATCGGCTTTGACCCTGGAGACTACCTCACCTTAAGTCTGCCTGTCAGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
*
705542 CCCTGAAGACTTTCTTACCC
66 CCCTGGAGACTTTCTTACCC
* * * * * * * * *
705562 TTCAATCTGCCTGTTGGCTTTGACCCTAGAGATTGCCTCACCTCAAGTTTGCCTATCGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
705627 CCCTAGG-GACTTTCTTACCC
66 CCCT-GGAGACTTTCTTACCC
* * * *
705647 TTCAGTCTGCCTGTCGGCTTTGACCTTGAAGACTGCCTTACCTAAAGTCTACCTATCGGTTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
* *
705712 CCCTAGAGA-TTGCCTTA-CC
66 CCCTGGAGACTT-TCTTACCC
* * * *** * * *
705731 -TCAAGTCTGCATGTCGGCTTTGACCCTAGAGACTTTTTTACCCCT-TAGTCTGTCTATCGTG-T
1 TTC-AGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTA--CCTAAAGTCTGCCTGTCG-GCT
* **
705793 TTGACCCTAGAGACTGCCTTA-CC
62 TTGACCCTGGAGACTTTCTTACCC
* * * * ** ** *
705816 TTAAGTCTGCCTGTCGGTTTTGACCATAGAGACTTTCTTACCCTTCAGTCTGCCTGTTGGCTTTG
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTA-CCTAAAGTCTGCCTGTCGGCTTTG
* *
705881 ATCCTGGAGACTTTCCTACCC
65 ACCCTGGAGACTTTCTTACCC
** * * * * *
705902 -TCAGTCTATCTATCGACTTTGACCTTGGAGACTGTCTCACCTCAAGTCTGCCTGTCGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
* *
705966 CCCTAGAGACTTTCTTATCC
66 CCCTGGAGACTTTCTTACCC
* * * * * * * *
705986 TTCAGTCAGTCTGTCGGCTTTGACCCTGGAGATTGCCTTAACTAAAGTCTGCTTGTCAGCTTCGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
*
706051 CCCTGAAGACTTTCTTACCC
66 CCCTGGAGACTTTCTTACCC
* * * * * * * * *
706071 TTCAGTCTGCCTATCAGCTTTGATCTTAGAGACTGCCTCATCTAAAGCCTGCTTGTTGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
706136 CCCTGGAGACTTTCTTACCC
66 CCCTGGAGACTTTCTTACCC
* * * * * * *
706156 CTCAGTCTGCCTATTGGCTTTGACCCTAGGAGACTGTCTCATCTAAAGTCTGCCTGTCGGCTTTG
1 TTCAGTCTGCCTGTCGGCTTTGA-CCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTG
*
706221 ACCCTAGAGACTTTCTTACCC
65 ACCCTGGAGACTTTCTTACCC
* * *
706242 TTCAGTCTGCCTGTTGGCTTTGACC-TGGAGACTACCTTACCTAAAGTCTGCCTGTCGGCTTTAA
1 TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
* * * *
706306 CGCTAGAGACTTTTTTATCC
66 CCCTGGAGACTTTCTTACCC
* *
706326 TTCAGTCTGCTTGTAGGCTT
1 TTCAGTCTGCCTGTCGGCTT
706346 AGTTCTAAGT
Statistics
Matches: 789, Mismatches: 148, Indels: 33
0.81 0.15 0.03
Matches are distributed among these distances:
83 2 0.00
84 214 0.27
85 486 0.62
86 87 0.11
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (85 bp):
TTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGA
CCCTGGAGACTTTCTTACCC
Found at i:705571 original size:127 final size:126
Alignment explanation
Indices: 705353--706303 Score: 771
Period size: 127 Copynumber: 7.5 Consensus size: 126
705343 CTTCATCTAA
* * * * * *
705353 AGTCTGTCTGTCGGCTTTAACCTTGGAGACTTTCTTACCCTTTAGTCTGCCTGTCAACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTA-CCTTAAGTCTGCCTGTCAGCTTTGACC
* * * * * * * * * *
705418 TTGGAGACTGACTTATCTAAAGTCTGCTTGTTGGCTTTGATCTTGGAGACTTTCTTACCCTC
65 CTGAAGACTGTCTTACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTC
* * *
705480 AGTCTGCCTATCGGCTTTGACCCTGGAGACTACCTCACCTTAAGTCTGCCTGTCAGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTAAGTCTGCCTGTCAGCTTTGACCC
* * * *
705545 TGAAGACTTTCTTACCCTTCAA-TCTGCCTGTTGGCTTTGACCCTAGAGA-TTGCCT-CACCTC
66 TGAAGACTGTCTTA-CC-TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTAC-CCTC
* * * * *
705606 AAGTTTGCCTATCGGCTTTGACCCTAGG-GACTTTCTTACCCTTCAGTCTGCCTGTCGGCTTTGA
1 -AGTCTGCCTGTCGGCTTTGACCCT-GGAGACTTCCTTA-CCTTAAGTCTGCCTGTCAGCTTTGA
* * * * * * *
705670 CCTTGAAGACTGCCTTACCTAAAGTCTACCTATCGGTTTTGACCCTAGAGA-TTGCCTTA-CCTC
63 CCCTGAAGACTGTCTTACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-TCTTACCCTC
* * ** * * *
705733 AAGTCTGCATGTCGGCTTTGACCCTAGAGACTTTTTTACCCCTT-AGTCTGTCTATC-GTGTTTG
1 -AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTA--CCTTAAGTCTGCCTGTCAG-CTTTG
* * * *
705796 ACCCT-AGAGACTGCCTTACCTTAAGTCTGCCTGTCGGTTTTGACCATAGAGACTTTCTTACCCT
62 ACCCTGA-AGACTGTCTTACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCC-
705860 TC
125 TC
* * * * ** *
705862 AGTCTGCCTGTTGGCTTTGATCCTGGAGACTTTCC-TACCCTCAGTCTATCTATC-GACTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCCTTACCTTAAGTCTGCCTGTCAG-CTTTGAC
* * * *
705925 CTTGGAGACTGTCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTATCCTTC
64 CCTGAAGACTGTCTTACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTA-CCCTC
* * * * * *
705989 AGTCAGTCTGTCGGCTTTGACCCTGGAGA-TTGCCTTAACTAAAGTCTGCTTGTCAGCTTCGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTT-CCTTACCTTAAGTCTGCCTGTCAGCTTTGACC
* * * * * ** * * *
706053 CTGAAGACTTTCTTACCCTTC-AGTCTGCCTATCAGCTTTGATCTTAGAGACTGCCTCA-TCTAA
65 CTGAAGACTGTCTTA-CC-TCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCT-C
* * * * * * * **
706116 AGCCTGCTTGTTGGCTTTGACCCTGGAGACTTTCTTACCCCTCAGTCTGCCTATTGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTA-CCTTAAGTCTGCCTGTCAGCTTTGACC
* * * *
706181 CTAGGAGACTGTCTCATCTAAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTTC
65 CT-GAAGACTGTCTTACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCC-TC
* * * *
706245 AGTCTGCCTGTTGGCTTTGA-CCTGGAGACTACCTTACCTAAAGTCTGCCTGTCGGCTTT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTAAGTCTGCCTGTCAGCTTT
706304 AACGCTAGAG
Statistics
Matches: 658, Mismatches: 134, Indels: 64
0.77 0.16 0.07
Matches are distributed among these distances:
125 3 0.00
126 56 0.09
127 380 0.58
128 183 0.28
129 35 0.05
130 1 0.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (126 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCCTTACCTTAAGTCTGCCTGTCAGCTTTGACCC
TGAAGACTGTCTTACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTC
Found at i:705739 original size:212 final size:212
Alignment explanation
Indices: 705438--706303 Score: 817
Period size: 212 Copynumber: 4.1 Consensus size: 212
705428 ACTTATCTAA
* * * * ** * *
705438 AGTCTGCTTGTTGGCTTTGATCTTGGAGACTTTCTTACCCTCAGTCTGCCTATCGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCTTGAAGACTGCCTTACCCTAAGTCTACCTATCGGCTTTGACCC
* * *
705503 TGGAGACTACCTCACCTTAAGTCTGCCTGTCAGCTTTGACCCT-GAAGACTTTCTTACCCTTCAA
66 TGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTTTCTTACCCTTCAA
* * * * *
705567 TCTGCCTGTTGGCTTTGACCCTAGAGATTGCCTCACCTCAAGTTTGCCTATCGGCTTTGACCCTA
130 TCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGACCCTA
*
705632 GGGACTTTCTTACCCTTC
195 GAGACTTTCTTACCCTTC
*
705650 AGTCTGCCTGTCGGCTTTGACCTTGAAGACTGCCTTA-CCTAAAGTCTACCTATCGGTTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCTTGAAGACTGCCTTACCCT-AAGTCTACCTATCGGCTTTGACC
* * * * *
705714 CTAGAGATTGCCTTACCTCAAGTCTGCATGTCGGCTTTGACCCTAGAGACTTTTTTACCCCTT-A
65 CTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTA-CCCTTCA
* * * * * * *
705778 GTCTGTCTATCGTG-TTTGACCCTAGAGACTGCCTTACCTTAAGTCTGCCTGTCGGTTTTGACCA
129 ATCTGCCTGTCG-GCTTTGACCCTAGAGATTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGACCC
705842 TAGAGACTTTCTTACCCTTC
193 TAGAGACTTTCTTACCCTTC
* * * * * *
705862 AGTCTGCCTGTTGGCTTTGATCC-TGGAGACTTTCC-TACCCTCAGTCTATCTATCGACTTTGAC
1 AGTCTGCCTGTCGGCTTTGA-CCTTGAAGAC-TGCCTTACCCTAAGTCTACCTATCGGCTTTGAC
* * *
705925 CTTGGAGACTGTCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTATCCTTCA
64 CCTGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTTCA
* * * * * * * *
705990 GTCAGTCTGTCGGCTTTGACCCTGGAGATTGCCTTAACTAAAGTCTGCTTGTCAGCTTCGACCCT
129 ATCTGCCTGTCGGCTTTGACCCTAGAGATTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGACCCT
706055 -GAAGACTTTCTTACCCTTC
194 AG-AGACTTTCTTACCCTTC
* * * * * * * * * *
706074 AGTCTGCCTATCAGCTTTGATCTT-AGAGACTGCCTCA-TCTAAAGCCTGCTTGTTGGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCTTGA-AGACTGCCTTACCCT-AAGTCTACCTATCGGCTTTGAC
* * * * * * * *
706137 CCTGGAGACTTTCTTACCCCTC-AGTCTGCCTATTGGCTTTGACCCTAGGAGACTGTCTCA-TC-
64 CCTGGAGAC-TGCCT-CACCTCAAGTCTGCCTGTCGGCTTTGACCCTA-GAGACTTTCTTACCCT
* * ** *
706199 TAAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-TCTTACCCTTCAGTCTGCCTGTTGGCTTT
126 TCAA-TCTGCCTGTCGGCTTTGACCCTAGAGA-TTGCCTTA-CCTAAAGTCTGCCTGTCGGCTTT
* ** **
706263 GA-CCTGGAGACTACCTTA-CCTAA
188 GACCCTAGAGACTTTCTTACCCTTC
706286 AGTCTGCCTGTCGGCTTT
1 AGTCTGCCTGTCGGCTTT
706304 AACGCTAGAG
Statistics
Matches: 533, Mismatches: 100, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
211 15 0.03
212 401 0.75
213 81 0.15
214 36 0.07
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (212 bp):
AGTCTGCCTGTCGGCTTTGACCTTGAAGACTGCCTTACCCTAAGTCTACCTATCGGCTTTGACCC
TGGAGACTGCCTCACCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTTCAAT
CTGCCTGTCGGCTTTGACCCTAGAGATTGCCTTACCTAAAGTCTGCCTGTCGGCTTTGACCCTAG
AGACTTTCTTACCCTTC
Found at i:706840 original size:14 final size:13
Alignment explanation
Indices: 706806--706941 Score: 51
Period size: 12 Copynumber: 10.8 Consensus size: 13
706796 TTTAACATGA
706806 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
706819 AAATATAAAAAATAT
1 ATA-ATAAAAAA-AT
* *
706834 ATAATAACAACA-
1 ATAATAAAAAAAT
* **
706846 ATAATTAATTAAT
1 ATAATAAAAAAAT
*
706859 -T-TTAAAAAAAT
1 ATAATAAAAAAAT
*
706870 -TAATTAAAAAAT
1 ATAATAAAAAAAT
706882 -TAATAAACATAAA-
1 ATAATAAA-A-AAAT
706895 A-AAT-AAAAAAT
1 ATAATAAAAAAAT
706906 A-AATAAAAATAA-
1 ATAATAAAAA-AAT
*
706918 ATAA-AAATAAAAA
1 ATAATAAA-AAAAT
*
706931 AAAATAAAAAA
1 ATAATAAAAAA
706942 TAAAAATAGA
Statistics
Matches: 92, Mismatches: 17, Indels: 28
0.67 0.12 0.20
Matches are distributed among these distances:
10 3 0.03
11 12 0.13
12 34 0.37
13 19 0.21
14 20 0.22
15 4 0.04
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:706882 original size:23 final size:23
Alignment explanation
Indices: 706809--706888 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 23
706799 AACATGAATA
*
706809 ATAAAAAAATAAATATAAAAAATAT
1 ATAAAAAAATTAAT-TAAAAAAT-T
* **
706834 ATAATAACAACAATAATTAATTAATT
1 ATAA-AA-AA-ATTAATTAAAAAATT
*
706860 TTAAAAAAATTAATTAAAAAATT
1 ATAAAAAAATTAATTAAAAAATT
706883 AATAAA
1 -ATAAA
706889 CATAAAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
23 12 0.29
24 6 0.14
25 6 0.14
26 6 0.14
27 8 0.19
28 4 0.10
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAAAAAATTAATTAAAAAATT
Found at i:706915 original size:10 final size:10
Alignment explanation
Indices: 706895--706938 Score: 70
Period size: 10 Copynumber: 4.3 Consensus size: 10
706885 TAAACATAAA
706895 AAATAAAAAAT
1 AAAT-AAAAAT
706906 AAATAAAAAT
1 AAATAAAAAT
706916 AAATAAAAAT
1 AAATAAAAAT
*
706926 AAAAAAAAAT
1 AAATAAAAAT
706936 AAA
1 AAA
706939 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 28 0.88
11 4 0.12
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:706930 original size:27 final size:27
Alignment explanation
Indices: 706893--706945 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
706883 AATAAACATA
706893 AAAAATAAAAAATAAAT-AAAAATAAAT
1 AAAAATAAAAAA-AAATAAAAAATAAAT
706920 AAAAATAAAAAAAAATAAAAAATAAA
1 AAAAATAAAAAAAAATAAAAAATAAA
706946 AATAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (27 bp):
AAAAATAAAAAAAAATAAAAAATAAAT
Found at i:706940 original size:17 final size:17
Alignment explanation
Indices: 706874--706947 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
706864 AAAAATTAAT
* * *
706874 TAAAAAATTAATAAACA
1 TAAAAAATAAAAAAAAA
706891 TAAAAAATAAAAAATAAA
1 TAAAAAATAAAAAA-AAA
*
706909 T-AAAAATAAATAAAAA
1 TAAAAAATAAAAAAAAA
706925 TAAAAAA-AAATAAAAAA
1 TAAAAAATAAA-AAAAAA
706942 TAAAAA
1 TAAAAA
706948 TAGAAAAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
16 7 0.14
17 39 0.80
18 3 0.06
ACGTcount: A:0.81, C:0.01, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAAATAAAAAAAAA
Found at i:706954 original size:7 final size:6
Alignment explanation
Indices: 706883--706954 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
706873 TTAAAAAATT
* *
706883 AATAAA CATAAAA AATAAA AA-ATA AATAAA AAT--A AATAAA AAT-AA
1 AATAAA AAT-AAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
706928 AA-AAA AATAAAA AATAAA AATAGAA AA
1 AATAAA AAT-AAA AATAAA AATA-AA AA
706955 AGATTGAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
4 4 0.07
5 12 0.22
6 23 0.43
7 15 0.28
ACGTcount: A:0.82, C:0.01, G:0.01, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:706955 original size:16 final size:16
Alignment explanation
Indices: 706893--706955 Score: 81
Period size: 17 Copynumber: 3.8 Consensus size: 16
706883 AATAAACATA
706893 AAAAATAAAAAATAAAT
1 AAAAATAAAAAA-AAAT
*
706910 AAAAATAAATAAAAAT
1 AAAAATAAAAAAAAAT
*
706926 AAAAAAAAATAAAAAAT
1 AAAAATAAA-AAAAAAT
706943 AAAAATAGAAAAA
1 AAAAATA-AAAAA
706956 GATTGAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
16 12 0.30
17 26 0.65
18 2 0.05
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAAATAAAAAAAAAT
Found at i:707184 original size:17 final size:17
Alignment explanation
Indices: 707123--707188 Score: 87
Period size: 17 Copynumber: 3.8 Consensus size: 17
707113 TCCATACGTG
707123 TCATGGCATGCTTTTACTT
1 TCAT-GCATGCTTTTAC-T
* * *
707142 TCATGCATACCTTTATT
1 TCATGCATGCTTTTACT
707159 TCATGCATGCTTTTACT
1 TCATGCATGCTTTTACT
707176 TCATGCATGCTTT
1 TCATGCATGCTTT
707189 CATGCAAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 28 0.68
18 9 0.22
19 4 0.10
ACGTcount: A:0.18, C:0.23, G:0.12, T:0.47
Consensus pattern (17 bp):
TCATGCATGCTTTTACT
Found at i:707824 original size:15 final size:15
Alignment explanation
Indices: 707790--707822 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
707780 AAATAGATTC
707790 GAAACATCAAAAACA
1 GAAACATCAAAAACA
*
707805 GAAACA-CAAAAATA
1 GAAACATCAAAAACA
707819 GAAA
1 GAAA
707823 ACGAAGAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (15 bp):
GAAACATCAAAAACA
Found at i:709377 original size:25 final size:25
Alignment explanation
Indices: 709349--709399 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
709339 TTTAAGAAAT
709349 AGACACTTACTAGTAATTCTTCTAA
1 AGACACTTACTAGTAATTCTTCTAA
709374 AGACACTTACTAGTAATTCTTCTAA
1 AGACACTTACTAGTAATTCTTCTAA
709399 A
1 A
709400 TTACCTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (25 bp):
AGACACTTACTAGTAATTCTTCTAA
Found at i:715771 original size:85 final size:85
Alignment explanation
Indices: 715623--716672 Score: 703
Period size: 85 Copynumber: 12.4 Consensus size: 85
715613 CTTTCCTACT
* * * * * * * **
715623 TTCAGTCTGCTTGTTGGCTTTGACCATAGAGACTGCTTCATCTAAAGTCTTCCTGTCTACTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTAAAGTCTGCCTGTCGGCTTTGA
*
715688 CCTTGTAGACTTTCTTACCC
66 CCTTGGAGACTTTCTTACCC
* * * * * * *
715708 TTTAGTCTGCCTGTCAGCTTTGACCTTGGAGACTGACTCATCTAAAGTTTGCTTGTCGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTAAAGTCTGCCTGTCGGCTTTGA
* *
715773 TCTTAGAGACTTTCTTACCC
66 CCTTGGAGACTTTCTTACCC
* * *
715793 -TCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTCAAGTCTGCCTATCAGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTAAAGTCTGCCTGTCGGCTTTGA
* *
715857 CCCTGAAGACTTTCTTACCC
66 CCTTGGAGACTTTCTTACCC
* * * * * * *
715877 TTCAATCTACCTGTTGGCTTTGACCCTGGAGATTGCTTCACCTCAAGTCTGCCTATCGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTAAAGTCTGCCTGTCGGCTTTGA
* * *
715942 CCCTGGATACTTTTTTACCC
66 CCTTGGAGACTTTCTTACCC
* * * * * **
715962 TTCAGTCTGCCTGTCGGCTTTGACCTTGAAGACTGCCTTACCTAAAGTCTACCTATCGAATTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTAAAGTCTGCCTGTCGGCTTTGA
* *
716027 CCCTGGAGACTTT-TGTACTC
66 CCTTGGAGACTTTCT-TACCC
* * * * * *
716047 -TCAGTCTGCCTATCGGTTTTGACCCTGGAGATTGCCTTACCTTAAGTCTGCATGTCGGCTTTGA
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTAAAGTCTGCCTGTCGGCTTTGA
* * *
716111 CCCTAGAGACTTTTTTATCCC
66 CCTTGGAGACTTTCTTA-CCC
* * * * * *
716132 TT-AGTCTGTCTGTCATG-TTTGACCCTAGAGACTGCCTTACCTTAAGTCTGCCTGTCGGTTTTG
1 TTCAGTCTGCCTGTC-GGCTTTGACCCTGGAGACTGCCTCACCTAAAGTCTGCCTGTCGGCTTTG
716195 ACCTTGGAGACTTTCTTACCC
65 ACCTTGGAGACTTTCTTACCC
* * * * * * *
716216 TTCAGTCTGCCTGTCGGCTTTAACCATGGAGATTTTCCT-ACCCT-CAGTCTGCCTATCGACTTT
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGA-CTGCCTCA-CCTAAAGTCTGCCTGTCGGCTTT
* * *
716279 GACCCTGGAGACTGTCTCA-CC
64 GACCTTGGAGACTTTCTTACCC
* * * * ** * **
716300 TGT-AGTCTACCTGTCAGCTTTGACCTTAGAGACTTTCTTATCCTTCAGTCTGCCTGTCGGCTTT
1 T-TCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CCTAAAGTCTGCCTGTCGGCTTT
* * *
716364 GACCCTGGAGA-TTGCCTTA-AC
64 GACCTTGGAGACTT-TCTTACCC
** * * * * ** * ** * *
716385 TAAAGTTTGCTTGTCAGCTTTGACCCTGAAGACTTTCTTACCCTTCAGTCTGCCTATCAGCTTTG
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CCTAAAGTCTGCCTGTCGGCTTTG
* ** * *
716450 ACCTTAGAGACTGCCTCA-TC
65 ACCTTGGAGACTTTCTTACCC
** * * * * * *
716470 TAAAGTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCTTACCCCT-CAGTCTGCCTATCGGCTTT
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TGCCT-CACCTAAAGTCTGCCTGTCGGCTTT
* ** * *
716534 -AACTCTGGAGACTGCCTCA-TC
64 GACCT-TGGAGACTTTCTTACCC
** * ** * ** *
716555 TAAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCTTGTCGGCTTT-
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CCTAAAGTCTGCCTGTCGGCTTTG
* **
716619 AACTTGGAGACTGCCTTA-CC
65 ACCTTGGAGACTTTCTTACCC
** ** * *
716639 TAGAGTCTGCCTGTTAGCTTTAACCCTAGAGACT
1 TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACT
716673 TTTTTACCCT
Statistics
Matches: 801, Mismatches: 143, Indels: 43
0.81 0.14 0.04
Matches are distributed among these distances:
83 4 0.00
84 229 0.29
85 552 0.69
86 16 0.02
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (85 bp):
TTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTAAAGTCTGCCTGTCGGCTTTGA
CCTTGGAGACTTTCTTACCC
Found at i:715896 original size:127 final size:127
Alignment explanation
Indices: 715668--716701 Score: 664
Period size: 127 Copynumber: 8.1 Consensus size: 127
715658 CTTCATCTAA
* ** * * ** * *
715668 AGTCTTCCTGTCTACTTTGACCTTGTAGACTTTCTTACCCTTTAGTCTGCCTGTCAGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTCAGTCTGCCTGTCGGCTTTGACC
* * ** * * * * * * * * *
715733 TTGGAGACTGACTCA-TCTAAAGTTTGCTTGTCGGCTTTGATCTTAGAGACTTTCTTACCCTC
66 CTGAAGACTTTCTTACCCTCAA-TCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTACCCTC
* * *
715795 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCA-CC-TCAAGTCTGCCTATCAGCTTTGAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTC-AGTCTGCCTGTCGGCTTTGAC
* * * *
715858 CCTGAAGACTTTCTTACCCTTCAATCTACCTGTTGGCTTTGACCCTGGAGA-TTGCTT-CACCTC
65 CCTGAAGACTTTCTTACCC-TCAATCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTAC-CCTC
* * ***
715921 AAGTCTGCCTATCGGCTTTGACCCTGGATACTTTTTTACCCTTCAGTCTGCCTGTCGGCTTTGAC
1 -AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTCAGTCTGCCTGTCGGCTTTGAC
* ** * * ** *
715986 CTTGAAGACTGCCTTA-CCTAAAGTCTACCTATCGAATTTGACCCTGGAGACTTT-TGTACTCTC
65 CCTGAAGACTTTCTTACCCTCAA-TCTGCCTATCGGCTTTGACCCTGGAGACTTTCT-TACCCTC
* * * * *
716049 AGTCTGCCTATCGGTTTTGACCCTGGAGATTGCCTTA-CCTTAAGTCTGCATGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTCAGTCTGCCTGTCGGCTTTGACC
* * * * * * * ** * *
716113 CT-AGAGACTTTTTTATCCCTTAGTCTGTCTGTCATG-TTTGACCCTAGAGACTGCCTTACCTTA
66 CTGA-AGACTTTCTTA-CCCTCAATCTGCCTATC-GGCTTTGACCCTGGAGACTTTCTTACCCTC
* * ** *
716176 AGTCTGCCTGTCGGTTTTGACCTTGGAGACTTTCTTACCCTTCAGTCTGCCTGTCGGCTTTAACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTCAGTCTGCCTGTCGGCTTTGACC
* * * * * * * * *
716241 ATGGAGATTTTCCTACCCTCAGTCTGCCTATCGACTTTGACCCTGGAGACTGTCTCA-CCTGT
66 CTGAAGACTTTCTTACCCTCAATCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTACCCT-C
* * * * ** *
716303 AGTCTACCTGTCAGCTTTGACCTTAGAGACTTTCTTATCCTTCAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTCAGTCTGCCTGTCGGCTTTGACC
* * * * * * * * *
716368 CTGGAGA-TTGCCTTA-ACTAAAGTTTGCTTGTCAGCTTTGACCCTGAAGACTTTCTTACCCTTC
66 CTGAAGACTT-TCTTACCCTCAA-TCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTACCC-TC
* * * * * * ** *
716431 AGTCTGCCTATCAGCTTTGACCTTAGAGACTGCCTCA-TCTAAAGTCTGCTTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTCAGTCTGCCTGTCGGCTTTGACC
* * * * ** * * *
716495 CTGGAGACTTTCTTACCCCTCAGTCTGCCTATCGGCTTTAACTCTGGAGACTGCCTCA-TCTAA
66 CTGAAGACTTTCTTA-CCCTCAATCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTACCCT-C
* ** * *
716558 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCTTGTCGGCTTT-AAC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTCAGTCTGCCTGTCGGCTTTGACC
* * ** * ** * * *
716622 TTGGAGACTGCCTTA-CCT-AGAGTCTGCCTGTTAGCTTTAACCCTAGAGACTTTTTTACCCTTC
66 CTGAAGACTTTCTTACCCTCA-A-TCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTACCC-TC
* *
716685 AGTCTACTTGTCGGCTT
1 AGTCTGCCTGTCGGCTT
716702 AGTTCTGAGT
Statistics
Matches: 710, Mismatches: 164, Indels: 66
0.76 0.17 0.07
Matches are distributed among these distances:
124 1 0.00
125 6 0.01
126 113 0.16
127 420 0.59
128 163 0.23
129 7 0.01
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (127 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTTACCCTTCAGTCTGCCTGTCGGCTTTGACC
CTGAAGACTTTCTTACCCTCAATCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTACCCTC
Found at i:716035 original size:212 final size:211
Alignment explanation
Indices: 715711--716650 Score: 748
Period size: 212 Copynumber: 4.4 Consensus size: 211
715701 CTTACCCTTT
* * * ** * * * * * *
715711 AGTCTGCCTGTCAGCTTTGACCTTGGAGACTGACTCATCTAAAGTTTGCTTGTCGGCTTTGATCT
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTTACCTTAAGTCTGCCTGTCGGCTTTGACCT
** * *
715776 T-AGAGACTTTCTTACCCT-CAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTCAAG
66 TGA-AGACTGCCTTACCCTACAGTCTGCCTATCGACTTTGACCCTGGAGACTGCCTCACCTC-AG
* * *
715839 TCTGCCTATCAGCTTTGACCCTGAAGACTTTCTTACCCTTCAATCTACCTGTTGGCTTTGACCCT
129 TCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTA-CCTT-AATCTACCTGTCGGCTTTGACCCT
*
715904 GGAGA-TTGCTTCA-CCTCA
192 AGAGACTTGCTTCATCCTCA
* * * ** *
715922 AGTCTGCCTATCGGCTTTGACCCTGGATACTTTTTTACCCTTCAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTTA-CCTTAAGTCTGCCTGTCGGCTTTGACC
* * * ** *
715987 TTGAAGACTGCCTTA-CCTAAAGTCTACCTATCGAATTTGACCCTGGAGACT-TTTGTACTCTCA
65 TTGAAGACTGCCTTACCCTACAGTCTGCCTATCGACTTTGACCCTGGAGACTGCCT-CAC-CTCA
* * * *
716050 GTCTGCCTATCGGTTTTGACCCTGGAGA-TTGCCTTACCTTAAGTCTGCATGTCGGCTTTGACCC
128 GTCTGCCTATCGGCTTTGACCCTGGAGACTT-TCTTACCTTAA-TCTACCTGTCGGCTTTGACCC
* * *
716114 TAGAGACTT-TTTTATCC-CTT
191 TAGAGACTTGCTTCATCCTC-A
* * * *
716134 AGTCTGTCTGTCATG-TTTGACCCTAGAGACTGCCTTACCTTAAGTCTGCCTGTCGGTTTTGACC
1 AGTCTGCCTGTC-GGCTTTGACCCTAGAGACTTCCTTACCTTAAGTCTGCCTGTCGGCTTTGACC
* ** * * * * * * *
716198 TTGGAGACTTTCTTACCCTTCAGTCTGCCTGTCGGCTTTAACCATGGAGATTTTCCT-ACCCTCA
65 TTGAAGACTGCCTTACCCTACAGTCTGCCTATCGACTTTGACCCTGGAGA-CTGCCTCA-CCTCA
* * * * * *
716262 GTCTGCCTATCGACTTTGACCCTGGAGACTGTCTCACCTGTAGTCTACCTGTCAGCTTTGACCTT
128 GTCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTACCT-TAATCTACCTGTCGGCTTTGACCCT
*
716327 AGAGACTTTCTT-ATCCTTC-
192 AGAGACTTGCTTCATCC-TCA
* * * * * *
716346 AGTCTGCCTGTCGGCTTTGACCCTGGAGA-TTGCCTTAACTAAAGTTTGCTTGTCAGCTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-CCTTACCTTAAGTCTGCCTGTCGGCTTTGACC
* ** * * * * *
716410 CTGAAGACTTTCTTACCCTTCAGTCTGCCTATC-AGCTTTGACCTTAGAGACTGCCTCATCTAAA
65 TTGAAGACTGCCTTACCCTACAGTCTGCCTATCGA-CTTTGACCCTGGAGACTGCCTCACCT-CA
* * * * * * * *
716474 GTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCTTACCCCTCAGTCTGCCTATCGGCTTTAACTC
128 GTCTGCCTATCGGCTTTGACCCTGGAGACTTTCTTA--CCTTAATCTACCTGTCGGCTTTGACCC
* * *
716539 TGGAGAC-TGCCTCAT-CTAA
191 TAGAGACTTGCTTCATCCTCA
* * * *
716558 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTGCTTGTCGGCTTT-AAC
1 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTTA-CCTTAAGTCTGCCTGTCGGCTTTGACC
* *
716622 TTGGAGACTGCCTTA-CCTAGAGTCTGCCT
65 TTGAAGACTGCCTTACCCTACAGTCTGCCT
716651 GTTAGCTTTA
Statistics
Matches: 577, Mismatches: 121, Indels: 62
0.76 0.16 0.08
Matches are distributed among these distances:
210 2 0.00
211 124 0.21
212 389 0.67
213 57 0.10
214 5 0.01
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (211 bp):
AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCCTTACCTTAAGTCTGCCTGTCGGCTTTGACCT
TGAAGACTGCCTTACCCTACAGTCTGCCTATCGACTTTGACCCTGGAGACTGCCTCACCTCAGTC
TGCCTATCGGCTTTGACCCTGGAGACTTTCTTACCTTAATCTACCTGTCGGCTTTGACCCTAGAG
ACTTGCTTCATCCTCA
Found at i:716096 original size:254 final size:254
Alignment explanation
Indices: 715634--716291 Score: 756
Period size: 254 Copynumber: 2.6 Consensus size: 254
715624 TCAGTCTGCT
* * * ** *
715634 TGTTGGCTTTGACCATAGAGACTGCTTCATCTAAAGTCTTCCTGTCTACTTTGACCTTGTAGACT
1 TGTTGGCTTTGACCCTAGAGACTGCTTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACT
* * * * * * * *
715699 TTCTTACCCTTTAGTCTGCCTGTCAGCTTTGACCTTGGAGACTGACTCATCTAAAGTTTGCTTGT
66 TTCTTACCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTAT
* * * * *
715764 CGGCTTTGATCTTAGAGACTTTCTTACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCC
131 CGACTTTGACCCTGGAGACTTTCTTACCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTGCC
*
715829 TCACCTCAAGTCTGCCTATCAGCTTTGACCCT-GAAGACTTTCTTA-CCCTTCAATCTACC
196 TCACCTCAAGTCTGCATATCAGCTTTGACCCTAG-AGACTTTCTTATCCCTT-AATCTACC
* * * * * *
715888 TGTTGGCTTTGACCCTGGAGATTGCTTCACCTCAAGTCTGCCTATCGGCTTTGACCCTGGATACT
1 TGTTGGCTTTGACCCTAGAGACTGCTTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACT
* * *
715953 TTTTTACCCTTCAGTCTGCCTGTCGGCTTTGACCTTGAAGACTGCCTTACCTAAAGTCTACCTAT
66 TTCTTACCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTAT
* * * *
716018 CGAATTTGACCCTGGAGACTTT-TGTACTCTCAGTCTGCCTATCGGTTTTGACCCTGGAGATTGC
131 CGACTTTGACCCTGGAGACTTTCT-TACCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTGC
* * * * * * **
716082 CTTACCTTAAGTCTGCATGTCGGCTTTGACCCTAGAGACTTTTTTATCCCTTAGTCTGTC
195 CTCACCTCAAGTCTGCATATCAGCTTTGACCCTAGAGACTTTCTTATCCCTTAATCTACC
* *
716142 TGTCAT-G-TTTGACCCTAGAGACTGCCTT-ACCTTAAGTCTGCCTGTCGGTTTTGACCTTGGAG
1 TGT--TGGCTTTGACCCTAGAGACTG-CTTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * *
716204 ACTTTCTTACCCTTCAGTCTGCCTGTCGGCTTTAACCATGGAGATTTTCC-TACCCT-CAGTCTG
63 ACTTTCTTACCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGA-CTGCCTTA-CCTAAAGTCTG
716267 CCTATCGACTTTGACCCTGGAGACT
126 CCTATCGACTTTGACCCTGGAGACT
716292 GTCTCACCTG
Statistics
Matches: 339, Mismatches: 57, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
253 1 0.00
254 321 0.95
255 16 0.05
256 1 0.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (254 bp):
TGTTGGCTTTGACCCTAGAGACTGCTTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACT
TTCTTACCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTACCTAAAGTCTGCCTAT
CGACTTTGACCCTGGAGACTTTCTTACCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTGCC
TCACCTCAAGTCTGCATATCAGCTTTGACCCTAGAGACTTTCTTATCCCTTAATCTACC
Found at i:716659 original size:41 final size:41
Alignment explanation
Indices: 715711--716662 Score: 259
Period size: 42 Copynumber: 22.5 Consensus size: 41
715701 CTTACCCTTT
* * * * *
715711 AGTCTGCCTGTCAGCTTTGACCTTGGAGACTGACTCATCTAA
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTACCTAA
* * * * ** *
715753 AGTTTGCTTGTCGGCTTTGATCTTAGAGACTTTCTTACCCT-C
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA-CCTAA
* * * *
715795 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCACCTCA
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTACCTAA
* * * * * ** *
715837 AGTCTGCCTATCAGCTTTGACCCTGAAGACTTTCTTACCCTTCA
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA-CC-TAA
* * * * * *
715881 A-TCTACCTGTTGGCTTTGACCCTGGAGATTG-CTTCACCTCA
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTT-ACCTAA
* * * * *** **
715922 AGTCTGCCTATCGGCTTTGACCCTGGATACTTTTTTACCCTTC
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA-CCTAA
* *
715965 AGTCTGCCTGTCGGCTTTGACCTTGAAGACTGCCTTACCTAA
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTACCTAA
* * ** * * ** *
716007 AGTCTACCTATCGAATTTGACCCTGGAGACT-TTTGTACTCT-C
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCT-TAC-CTAA
* * * * * *
716049 AGTCTGCCTATCGGTTTTGACCCTGGAGATTGCCTTACCTTA
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTACCTAA
* * * * *** *
716091 AGTCTGCATGTCGGCTTTGACCCTAGAGACTTTTTTATCCCT-T
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA--CCTAA
* * * * * *
716134 AGTCTGTCTGTCATG-TTTGACCCTAGAGACTGCCTTACCTTA
1 AGTCTGCCTGTC-GGCTTT-AACTTGGAGACTGCCTTACCTAA
* * ** **
716176 AGTCTGCCTGTCGGTTTTGACCTTGGAGACTTTCTTACCCTTC
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA-CCTAA
* * * *
716219 AGTCTGCCTGTCGGCTTTAACCATGGAGATTTTCC-TACCCT-C
1 AGTCTGCCTGTCGGCTTTAA-CTTGGAGA-CTGCCTTA-CCTAA
* * * * * * **
716261 AGTCTGCCTATCGACTTTGACCCTGGAGACTGTCTCACCTGT
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTACCTAA
* * * * ** **
716303 AGTCTACCTGTCAGCTTTGACCTTAGAGACTTTCTTATCCTTC
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA-CCTAA
* * * *
716346 AGTCTGCCTGTCGGCTTTGACCCTGGAGATTGCCTTAACTAA
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTACCTAA
* * * * * * ** **
716388 AGTTTGCTTGTCAGCTTTGACCCTGAAGACTTTCTTACCCTTC
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA-CCTAA
* * * * * *
716431 AGTCTGCCTATCAGCTTTGACCTTAGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTACCTAA
* * * ** *
716473 AGTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCTTACCCCT-C
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA--CCTAA
* * *
716516 AGTCTGCCTATCGGCTTTAACTCTGGAGACTGCCTCATCTAA
1 AGTCTGCCTGTCGGCTTTAACT-TGGAGACTGCCTTACCTAA
* * * ** **
716558 AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTACCCTTC
1 AGTCTGCCTGTCGGCTTT-AACTTGGAGACTGCCTTA-CCTAA
* *
716601 AGTCTGCTTGTCGGCTTTAACTTGGAGACTGCCTTACCTAG
1 AGTCTGCCTGTCGGCTTTAACTTGGAGACTGCCTTACCTAA
**
716642 AGTCTGCCTGTTAGCTTTAAC
1 AGTCTGCCTGTCGGCTTTAAC
716663 CCTAGAGACT
Statistics
Matches: 694, Mismatches: 185, Indels: 63
0.74 0.20 0.07
Matches are distributed among these distances:
41 42 0.06
42 398 0.57
43 241 0.35
44 13 0.02
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (41 bp):
AGTCTGCCTGTCGGCTTTAACTTGGAGACTGCCTTACCTAA
Found at i:717232 original size:16 final size:17
Alignment explanation
Indices: 717204--717235 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
717194 AACAATAATT
717204 AATTAATTTAAAAAATA
1 AATTAATTTAAAAAATA
717221 AATTAA-TTAAAAAAT
1 AATTAATTTAAAAAAT
717236 TAATAAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTAATTTAAAAAATA
Found at i:717259 original size:7 final size:7
Alignment explanation
Indices: 717212--717293 Score: 69
Period size: 7 Copynumber: 11.0 Consensus size: 7
717202 TTAATTAATT
717212 TAAAAAA
1 TAAAAAA
*
717219 TAAATTAAT
1 TAAA--AAA
717228 TAAAAAA
1 TAAAAAA
717235 TTAATAAACA
1 -TAA-AAA-A
717245 TAAAAAAA
1 T-AAAAAA
717253 TAAAAAA
1 TAAAAAA
717260 -AAATAAA
1 TAAA-AAA
*
717267 T-AATAA
1 TAAAAAA
717273 TAAAAAA
1 TAAAAAA
717280 TAAAAAA
1 TAAAAAA
717287 TAAAAAA
1 TAAAAAA
717294 AGATCGAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
6 6 0.10
7 35 0.56
8 5 0.08
9 13 0.21
10 3 0.05
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAAAAA
Found at i:717268 original size:28 final size:27
Alignment explanation
Indices: 717229--717286 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
717219 TAAATTAATT
*
717229 AAAAAATTAATAA-ACATAAAAAAATAAA
1 AAAAAATAAATAATA-AT-AAAAAATAAA
717257 AAAAAATAAATAATAATAAAAAATAAA
1 AAAAAATAAATAATAATAAAAAATAAA
717284 AAA
1 AAA
717287 TAAAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.46
28 14 0.50
29 1 0.04
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (27 bp):
AAAAAATAAATAATAATAAAAAATAAA
Found at i:717276 original size:20 final size:20
Alignment explanation
Indices: 717251--717289 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
717241 AACATAAAAA
717251 AATAAAAAA-AAATAAATAAT
1 AATAAAAAATAAA-AAATAAT
717271 AATAAAAAATAAAAAATAA
1 AATAAAAAATAAAAAATAA
717290 AAAAAGATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (20 bp):
AATAAAAAATAAAAAATAAT
Found at i:717288 original size:17 final size:17
Alignment explanation
Indices: 717228--717294 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
717218 ATAAATTAAT
*
717228 TAAAAAATTAAT-AAACA
1 TAAAAAA-TAATAAAAAA
*
717245 TAAAAAAATAAAAAAAAA
1 T-AAAAAATAATAAAAAA
*
717263 TAAATAATAATAAAAAA
1 TAAAAAATAATAAAAAA
717280 TAAAAAATAA-AAAAA
1 TAAAAAATAATAAAAA
717295 GATCGAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
16 5 0.12
17 27 0.63
18 11 0.26
ACGTcount: A:0.81, C:0.01, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAAATAATAAAAAA
Found at i:717294 original size:10 final size:10
Alignment explanation
Indices: 717246--717293 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
717236 TAATAAACAT
717246 AAAAAAATAA
1 AAAAAAATAA
717256 AAAAAAATAA
1 AAAAAAATAA
* *
717266 ATAATAATAA
1 AAAAAAATAA
717276 AAAATAAA-AA
1 AAAA-AAATAA
717286 ATAAAAAA
1 A-AAAAAA
717294 AGATCGAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 27 0.84
11 5 0.16
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:718169 original size:20 final size:20
Alignment explanation
Indices: 718117--718198 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 20
718107 AAAAAAAAAA
718117 ATTC-CAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
***
718136 ATTTGTAGAATGTATCGATAC
1 ATTCACA-AATGTATCGATAC
718157 ATTCACAAATGTATCGATAC
1 ATTCACAAATGTATCGATAC
718177 ATTCTACAAATGTATCGATAC
1 ATTC-ACAAATGTATCGATAC
718198 A
1 A
718199 GGGTCCCAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.05
20 18 0.33
21 34 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (20 bp):
ATTCACAAATGTATCGATAC
Found at i:718178 original size:41 final size:40
Alignment explanation
Indices: 718117--718198 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 40
718107 AAAAAAAAAA
* *
718117 ATTCCAAATGTATCGATACATTTGTA-GAATGTATCGATAC
1 ATTCCAAATGTATCGATACA-TTCTACAAATGTATCGATAC
718157 ATTCACAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTCTACAAATGTATCGATAC
718198 A
1 A
718199 GGGTCCCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
Found at i:718258 original size:19 final size:19
Alignment explanation
Indices: 718234--718301 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
718224 AATTCAACGA
718234 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
718253 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
718268 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
**
718285 AATGTATCGATACATAA
1 TTTGTATCGATACATAA
718302 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:718272 original size:32 final size:32
Alignment explanation
Indices: 718236--718298 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
718226 TTCAACGATT
**
718236 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTAATGTATCGATACAA
718268 TGTATCGATACATAAGTAATGTATCGATACA
1 TGTATCGATACATAAGTAATGTATCGATACA
718299 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTAATGTATCGATACAA
Found at i:718273 original size:13 final size:13
Alignment explanation
Indices: 718255--718279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
718245 ACATAAGTTT
718255 TGTATCGATACAA
1 TGTATCGATACAA
718268 TGTATCGATACA
1 TGTATCGATACA
718280 TAAGTAATGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:718359 original size:13 final size:13
Alignment explanation
Indices: 718341--718366 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
718331 CATTTTTCTG
718341 TGTATCGATACAT
1 TGTATCGATACAT
718354 TGTATCGATACAT
1 TGTATCGATACAT
718367 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:718363 original size:33 final size:33
Alignment explanation
Indices: 718321--718387 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
718311 GCCAAGGAAA
***
718321 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
718354 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
718387 T
1 T
718388 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:720908 original size:52 final size:49
Alignment explanation
Indices: 720843--720959 Score: 146
Period size: 52 Copynumber: 2.3 Consensus size: 49
720833 TATTTTCGAG
*
720843 GGGATACTCCAACTCCGGTTTTATCGTT-AAAACACCAATTTTTCCACAATC
1 GGGATACTCCAACTCCGATTTTAT--TTCAAAACACCAATTTTT-CACAATC
*
720894 AGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 -GGGATACTCCAACTCCGATTTTATTT-C-AAAACACCAATTTTTCACAATC
720946 GAGGATACTCCAAC
1 G-GGATACTCCAAC
720960 CTCGTTATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
50 2 0.03
51 1 0.02
52 42 0.71
53 14 0.24
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.30
Consensus pattern (49 bp):
GGGATACTCCAACTCCGATTTTATTTCAAAACACCAATTTTTCACAATC
Found at i:720979 original size:28 final size:28
Alignment explanation
Indices: 720943--721019 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
720933 ATTTTTCACA
* * *
720943 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
720971 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
720999 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
721020 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:721005 original size:160 final size:161
Alignment explanation
Indices: 720718--721026 Score: 444
Period size: 160 Copynumber: 1.9 Consensus size: 161
720708 TGCTCAATTC
*
720718 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTCCAAAAAAAAAAAACACCAATTTCTTCAC
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTCC------AAAAAACACCAATTTCTTCAC
* * *
720783 AATCGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
60 AATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGAT
* *
720848 ACTCCAACTCCGGTTTTATCGTTAAAACACCAATTTT
125 ACTCCAACCCCGGCTTTATCGTTAAAACACCAATTTT
*
720885 TCCACAATC-AGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCG
1 TCCACAATCGA-GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCG
* *
720947 AGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTC
65 AGGATACTCCAACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTC
721012 CAACCCCGGCTTTAT
129 CAACCCCGGCTTTAT
721027 TCCCAAAATA
Statistics
Matches: 131, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
159 28 0.21
160 67 0.51
166 1 0.01
167 35 0.27
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (161 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGA
GGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCA
ACCCCGGCTTTATCGTTAAAACACCAATTTT
Found at i:721093 original size:28 final size:28
Alignment explanation
Indices: 721053--721106 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
721043 TCTCATAATT
721053 AGGGATACTCCAACCCCG-TTATTTTCGA
1 AGGGATACTCCAACCCCGATT-TTTTCGA
*
721081 AGGGATACTCCAATCCCGATTTTTTC
1 AGGGATACTCCAACCCCGATTTTTTC
721107 TAATCATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (28 bp):
AGGGATACTCCAACCCCGATTTTTTCGA
Found at i:721152 original size:76 final size:78
Alignment explanation
Indices: 720973--721174 Score: 223
Period size: 76 Copynumber: 2.6 Consensus size: 78
720963 GTTATTTCAT
* * * *
720973 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
721038 TGATTTCTCATAAT
65 CGATTTCTCACAAC
** * * *
721052 TAGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTT-TT-TC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
721114 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* *
721128 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
721175 TTATTATCTC
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
75 8 0.08
76 50 0.48
77 2 0.02
78 4 0.04
79 40 0.38
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:722301 original size:15 final size:16
Alignment explanation
Indices: 722259--722290 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
722249 AAACCAGTTT
722259 TAAAACATGAATGCCA
1 TAAAACATGAATGCCA
722275 TAAAACATGAATGCCA
1 TAAAACATGAATGCCA
722291 CAAAGATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (16 bp):
TAAAACATGAATGCCA
Found at i:724818 original size:13 final size:13
Alignment explanation
Indices: 724800--724851 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
724790 AGCTTCGTAG
724800 CGATACATTGTAT
1 CGATACATTGTAT
724813 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
724832 CGATACATTGTAT
1 CGATACATTGTAT
724845 CGATACA
1 CGATACA
724852 ACACTTATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:724841 original size:32 final size:32
Alignment explanation
Indices: 724800--724872 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
724790 AGCTTCGTAG
*
724800 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
*
724832 CGATACATTGTATCGATACAACACTTATGCAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
*
724864 CAATACATT
1 CGATACATT
724873 TCCTGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGCAT
Found at i:724955 original size:21 final size:20
Alignment explanation
Indices: 724929--724967 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
724919 GTTGGGACCT
724929 TGTATCGATACATTCTGGAAA
1 TGTATCGATACATT-TGGAAA
724950 TGTATCGATACATTTGGA
1 TGTATCGATACATTTGGA
724968 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTGGAAA
Found at i:725789 original size:17 final size:17
Alignment explanation
Indices: 725728--725793 Score: 87
Period size: 17 Copynumber: 3.8 Consensus size: 17
725718 TCCATACGTG
725728 TCATGGCATGCTTTTACTT
1 TCAT-GCATGCTTTTAC-T
* * *
725747 TCATGCATACCTTTATT
1 TCATGCATGCTTTTACT
725764 TCATGCATGCTTTTACT
1 TCATGCATGCTTTTACT
725781 TCATGCATGCTTT
1 TCATGCATGCTTT
725794 CATGCAAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 28 0.68
18 9 0.22
19 4 0.10
ACGTcount: A:0.18, C:0.23, G:0.12, T:0.47
Consensus pattern (17 bp):
TCATGCATGCTTTTACT
Found at i:726429 original size:15 final size:15
Alignment explanation
Indices: 726395--726427 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
726385 AAATAGATTC
726395 GAAACATCAAAAACA
1 GAAACATCAAAAACA
*
726410 GAAACA-CAAAAATA
1 GAAACATCAAAAACA
726424 GAAA
1 GAAA
726428 ACGAAGAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (15 bp):
GAAACATCAAAAACA
Found at i:729150 original size:51 final size:52
Alignment explanation
Indices: 729018--729156 Score: 154
Period size: 51 Copynumber: 2.7 Consensus size: 52
729008 TCTAAAAAGA
* * * * * * *
729018 AAATATATCGATACATTTTTTATTCTATCGATACATTCTGGGTTTTTGACCT
1 AAATGTATCGATACATTATTCAATATATCGATACATTCTCGGTTTTTGACCC
** *
729070 AAATGTATCGATACATTATTCCTTATATCGACACATTCTCGG-TTTTGACCC
1 AAATGTATCGATACATTATTCAATATATCGATACATTCTCGGTTTTTGACCC
* * *
729121 AAATGTATGGATACATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATTATTCAATATATCGATACAT
729157 CCAGTTATAT
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 38 0.52
52 35 0.48
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (52 bp):
AAATGTATCGATACATTATTCAATATATCGATACATTCTCGGTTTTTGACCC
Found at i:729368 original size:42 final size:41
Alignment explanation
Indices: 729309--729392 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
729299 AAGTGTAAGG
*
729309 TCCAAACCAAGAAGTGAATTGTCACATTTCCATCATTGCATT
1 TCCAAACCAAGAAGTGAACTGTCACATTT-CATCATTGCATT
* *
729351 TCCAAATCAAGGAGTGAACTGTCACATTTCATCATTGCATT
1 TCCAAACCAAGAAGTGAACTGTCACATTTCATCATTGCATT
729392 T
1 T
729393 TCTTTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 13 0.33
42 26 0.67
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (41 bp):
TCCAAACCAAGAAGTGAACTGTCACATTTCATCATTGCATT
Found at i:730188 original size:20 final size:21
Alignment explanation
Indices: 730155--730201 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
730145 ACAATTTGTC
730155 TCGATACAATAAGTGAATGTA
1 TCGATACAATAAGTGAATGTA
730176 TCGATAC-ATAAGTGAATGTA
1 TCGATACAATAAGTGAATGTA
*
730196 TTGATA
1 TCGATA
730202 AATTTTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGATACAATAAGTGAATGTA
Found at i:730572 original size:20 final size:20
Alignment explanation
Indices: 730532--730586 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
730522 TTATACGATT
*
730532 TGTATCAATACAATTAGTGAA
1 TGTATCAATAC-ATAAGTGAA
*
730553 TGTATCTATACATAAGTGAA
1 TGTATCAATACATAAGTGAA
*
730573 TGTATCGATACATA
1 TGTATCAATACATA
730587 TCTCAAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCAATACATAAGTGAA
Found at i:739199 original size:28 final size:28
Alignment explanation
Indices: 739153--739230 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
739143 GCATGTCTTT
* * * *
739153 TAAAGTCTATGACTCAGTGGCACTTTTA
1 TAAAGTCCACGACTTAGTGGCACTATTA
* *
739181 TAAAGTCCACGATTTAGTGGCACTATTC
1 TAAAGTCCACGACTTAGTGGCACTATTA
* *
739209 TAAAGTCTACGACTTAATGGCA
1 TAAAGTCCACGACTTAGTGGCA
739231 TCCCTTTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (28 bp):
TAAAGTCCACGACTTAGTGGCACTATTA
Found at i:739468 original size:88 final size:90
Alignment explanation
Indices: 739301--739507 Score: 262
Period size: 88 Copynumber: 2.3 Consensus size: 90
739291 GCATCTTTCC
* * * *
739301 TCCAAGTCCATGACTCAGTGGCATCTTTTTTCAAAGTCCATGACTCCATGGCACCCTTTTAAGTT
1 TCCAAGTCCACGACTCAATGGCATCTTTTTTCAAAGTCCATAACTCCATGGCACCCTTTTAAGTC
*
739366 CACAACTTCGTGACACCTTTTTCTT
66 CACAACTCCGTGACACCTTTTTCTT
* * *
739391 TCCAAGTCTACGACTTAATGGCATCTTTTTT-AAAGTCCATAACT-CAGTGGCACTC-TTTAAGT
1 TCCAAGTCCACGACTCAATGGCATCTTTTTTCAAAGTCCATAACTCCA-TGGCACCCTTTTAAGT
739453 CCACAACTCCGTGACACCTTTTTCTT
65 CCACAACTCCGTGACACCTTTTTCTT
* ** *
739479 T-AAAGTCCATAACTCTATGGCA-CTTTTTT
1 TCCAAGTCCACGACTCAATGGCATCTTTTTT
739508 TTTTCCAAGT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
86 7 0.07
87 15 0.15
88 34 0.33
89 19 0.19
90 27 0.26
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (90 bp):
TCCAAGTCCACGACTCAATGGCATCTTTTTTCAAAGTCCATAACTCCATGGCACCCTTTTAAGTC
CACAACTCCGTGACACCTTTTTCTT
Found at i:739507 original size:32 final size:31
Alignment explanation
Indices: 739444--739507 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
739434 TCAGTGGCAC
*
739444 TCTTTAAGTCCACAACTCCGTGACACCTTTT
1 TCTTTAAGTCCACAACTCCATGACACCTTTT
* * * *
739475 TCTTTAAAGTCCATAACTCTATGGCACTTTTT
1 TCTTT-AAGTCCACAACTCCATGACACCTTTT
739507 T
1 T
739508 TTTTCCAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (31 bp):
TCTTTAAGTCCACAACTCCATGACACCTTTT
Found at i:739575 original size:28 final size:29
Alignment explanation
Indices: 739514--739687 Score: 122
Period size: 30 Copynumber: 5.9 Consensus size: 29
739504 TTTTTTTTCC
* *
739514 AAGTCTATGACTCAGTGGCATCTCTTTTA
1 AAGTCCATGACTCAGTGGCATCTCTTCTA
*
739543 AAGTCCATGATTCAGTGGCA-CTCTTCTA
1 AAGTCCATGACTCAGTGGCATCTCTTCTA
* * * *
739571 AAGTCCACGACTCAGTGGCATCCCTTTTTT
1 AAGTCCATGACTCAGTGGCATCTC-TTCTA
* * * *
739601 AAGTCTATGACTCCA-TGACACCTTTTTCTTTA
1 AAGTCCATGACT-CAGTGGCATC-TCTTC--TA
* *
739633 AAGTCCATAACTTAGTGGCATCTCTCCTCT-
1 AAGTCCATGACTCAGTGGCATCTCT--TCTA
* *
739663 AAGTCCACGACTCAATGGCAT-TCTT
1 AAGTCCATGACTCAGTGGCATCTCTT
739688 TTTAAGTCAT
Statistics
Matches: 110, Mismatches: 26, Indels: 20
0.71 0.17 0.13
Matches are distributed among these distances:
27 1 0.01
28 25 0.23
29 23 0.21
30 37 0.34
31 6 0.05
32 16 0.15
33 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.34
Consensus pattern (29 bp):
AAGTCCATGACTCAGTGGCATCTCTTCTA
Found at i:739605 original size:120 final size:118
Alignment explanation
Indices: 739148--739655 Score: 422
Period size: 120 Copynumber: 4.3 Consensus size: 118
739138 CAGTGGCATG
* * * * * *
739148 TCTTTTAAAGTCTATGACTCAGTGGCA-CTTTTATAAAGTCCACGATTTAGTGGCACTATTCTAA
1 TCTTTCAAAGTCTATGACTTAGTGGCATCTTTT-TAAAGTCCATGACTCAGTGGCACTCTTCTAA
* * * * * * *
739212 AGTCTACGACTTAATGGCATCCCTTTTTTTAAGTCCACGACTCTGTGTCACATTTT
65 AGTCCACGACTCAGTGGCA-CCC-TTTTTTAAGTCCACAACTCTATGACACCTTTT
* * * ** * *
739268 TC-TTCAAAGTCCATAACTTAATGGCATCTTTCCTCCAAGTCCATGACTCAGTGGCATCTTTTTT
1 TCTTTCAAAGTCTATGACTTAGTGGCATCTTT--TTAAAGTCCATGACTCAGTGGCA-CTCTTCT
* * *
739332 CAAAGTCCATGACTCCA-TGGCACCC--TTTTAAGTTCACAACT-TCGTGACACCTTTT
63 -AAAGTCCACGACT-CAGTGGCACCCTTTTTTAAGTCCACAACTCT-ATGACACCTTTT
* * * *
739387 TCTTTCCAAGTCTACGACTTAATGGCATCTTTTTTAAAGTCCATAACTCAGTGGCACTCTT-T-A
1 TCTTTCAAAGTCTATGACTTAGTGGCATC-TTTTTAAAGTCCATGACTCAGTGGCACTCTTCTAA
* * * * * * *
739450 AGTCCACAACTCCGTGACACCTTTTTCTTTAAAGTCCATAACTCTATGGCACTTTTT
65 AGTCCACGACTCAGTGGCACC-CTTT-TTT-AAGTCCACAACTCTATGACACCTTTT
* * * *
739507 TTTTTCCAAGTCTATGACTCAGTGGCATCTCTTTTAAAGTCCATGATTCAGTGGCACTCTTCTAA
1 TCTTTCAAAGTCTATGACTTAGTGGCATCT-TTTTAAAGTCCATGACTCAGTGGCACTCTTCTAA
* ** *
739572 AGTCCACGACTCAGTGGCATCCCTTTTTTAAGTCTATGACTCCATGACACCTTTT
65 AGTCCACGACTCAGTGGCA-CCCTTTTTTAAGTCCACAACTCTATGACACCTTTT
* *
739627 TCTTT-AAAGTCCATAACTTAGTGGCATCT
1 TCTTTCAAAGTCTATGACTTAGTGGCATCT
739656 CTCCTCTAAG
Statistics
Matches: 311, Mismatches: 57, Indels: 41
0.76 0.14 0.10
Matches are distributed among these distances:
114 1 0.00
115 16 0.05
117 1 0.00
118 6 0.02
119 89 0.29
120 125 0.40
121 25 0.08
122 29 0.09
123 18 0.06
124 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (118 bp):
TCTTTCAAAGTCTATGACTTAGTGGCATCTTTTTAAAGTCCATGACTCAGTGGCACTCTTCTAAA
GTCCACGACTCAGTGGCACCCTTTTTTAAGTCCACAACTCTATGACACCTTTT
Found at i:739650 original size:62 final size:59
Alignment explanation
Indices: 739585--740117 Score: 334
Period size: 62 Copynumber: 8.9 Consensus size: 59
739575 CCACGACTCA
* **
739585 GTGGCATCCCTTTTTTAAGTCTATGACTCCATGACACCTTTTTCTTTAAAGTCCATAACTT
1 GTGGCAT-CC-TTTTTAAGTCCACAACTCCATGACACCTTTTTCTTTAAAGTCCATAACTT
* * * * * * *
739646 AGTGGCATCTCTCCTCTAAGTCCACGACTCAATGGCA--TTCTT-TTT-AAGT-CATAATTTT
1 -GTGGCATC-CT-TTTTAAGTCCACAACTCCATGACACCTTTTTCTTTAAAGTCCATAA-CTT
*
739704 GTGGCATCC-TTTTAAGTCCACAACTCCAT-AGCACCATTTTTCTTTTTAAGTCCATAACTCT
1 GTGGCATCCTTTTTAAGTCCACAACTCCATGA-CACC-TTTTTC-TTTAAAGTCCATAACT-T
* * * *
739765 GTGGCA-CCTTTTCAAGTTCACAACTCCATGGCATCCTTTTTCTTTTTAAGTCCATAACTCT
1 GTGGCATCCTTTTTAAGTCCACAACTCCATGACA-CCTTTTTC-TTTAAAGTCCATAACT-T
* * *
739826 GTGGCATCCTTTTTAAGTCCACAACTGCATGGCACC--ATT-TTT-AAGTCCATAACTT
1 GTGGCATCCTTTTTAAGTCCACAACTCCATGACACCTTTTTCTTTAAAGTCCATAACTT
* * * *
739881 CGTGGCAT-CTTTTTAAGTCCACAACT-CGTGGCACCCTTTTCCTTTTTAAGTCCATAACTCT
1 -GTGGCATCCTTTTTAAGTCCACAACTCCATGACA-CCTTTTTC-TTTAAAGTCCATAACT-T
** * *
739942 GTGGCACCCTTTTCCTTTTTAAGTCCACAACTCTGTGGCACCCTTTTTCTTTTTAAGTCCATAAC
1 GTGGCA------TCCTTTTTAAGTCCACAACTCCATGACA-CCTTTTTC-TTTAAAGTCCATAAC
*
740007 TCC
58 T-T
* * * * *
740010 GTGGCACCCATTTTAAGTCCACAACTCCGTGGCATCC---TT-TTT-AAGTCCACAACTCT
1 GTGGCATCCTTTTTAAGTCCACAACTCCATGACA-CCTTTTTCTTTAAAGTCCATAACT-T
* ** *
740066 GTGGCAT-CTCTTTTAAGTCCATAACTCCATGAC-TTTTTTTCTTGAAAGTCCA
1 GTGGCATCCT-TTTTAAGTCCACAACTCCATGACACCTTTTTCTTTAAAGTCCA
740118 CACAAGTCGA
Statistics
Matches: 391, Mismatches: 42, Indels: 79
0.76 0.08 0.15
Matches are distributed among these distances:
54 24 0.06
55 22 0.06
56 58 0.15
57 26 0.07
58 8 0.02
59 20 0.05
60 29 0.07
61 68 0.17
62 79 0.20
66 1 0.00
67 18 0.05
68 38 0.10
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (59 bp):
GTGGCATCCTTTTTAAGTCCACAACTCCATGACACCTTTTTCTTTAAAGTCCATAACTT
Found at i:739667 original size:120 final size:120
Alignment explanation
Indices: 739181--739762 Score: 402
Period size: 120 Copynumber: 4.9 Consensus size: 120
739171 GGCACTTTTA
* * * * * * *
739181 TAAAGTCCACGATTTAGTGGCACTATTCTAAAGTCTACGACTTAATGGCATCCCTTTTTTTAAGT
1 TAAAGTCCATGACTCAGTGGCACTCTTCTAAAGTCCACGACTCAGTGGCA-CCC-TTTTTTAAGT
* ** * * *
739246 CCACGACTCTGTGTCACATTTTTC-TTCAAAGTCCATAACTTAATGGCATCTTTC-C
64 CCACAACTCCATGACACCTTTTTCTTTCAAAGTCCATAACTTAATGGCATCTCTCTC
* * * *
739301 TCCAAGTCCATGACTCAGTGGCATCTTTTTTCAAAGTCCATGACTCCA-TGGCACCC--TTTTAA
1 T-AAAGTCCATGACTCAGTGGCA-CTCTTCT-AAAGTCCACGACT-CAGTGGCACCCTTTTTTAA
* * * * * ** * *
739363 GTTCACAACTTCGTGACACCTTTTTCTTTCCAAGTCTACGACTTAATGGCATCT-TTTT
62 GTCCACAACTCCATGACACCTTTTTCTTTCAAAGTCCATAACTTAATGGCATCTCTCTC
* * * * *
739421 TAAAGTCCATAACTCAGTGGCACTCTT-T-AAGTCCACAACTCCGTGACACCTTTTTCTTTAAAG
1 TAAAGTCCATGACTCAGTGGCACTCTTCTAAAGTCCACGACTCAGTGGCACC-CTTT-TTT-AAG
* * * * * * * * * * *
739484 TCCATAACTCTATGGCACTTTTTTTTTTCCAAGTCTATGACTCAGTGGCATCTCT-TT
63 TCCACAACTCCATGACACCTTTTTCTTTCAAAGTCCATAACTTAATGGCATCTCTCTC
*
739541 TAAAGTCCATGATTCAGTGGCACTCTTCTAAAGTCCACGACTCAGTGGCATCCCTTTTTTAAGTC
1 TAAAGTCCATGACTCAGTGGCACTCTTCTAAAGTCCACGACTCAGTGGCA-CCCTTTTTTAAGTC
* ** *
739606 TATGACTCCATGACACCTTTTTCTTT-AAAGTCCATAACTTAGTGGCATCTCTCCTC
65 CACAACTCCATGACACCTTTTTCTTTCAAAGTCCATAACTTAATGGCATCTCT-CTC
* * * * * ** * ** *
739662 T-AAGTCCACGACTCAATGGCATTCTTTTTAAGT-CATAATTTTGTGGCATCC--TTTTAAGTCC
1 TAAAGTCCATGACTCAGTGGCACTCTTCTAAAGTCCACGACTCAGTGGCACCCTTTTTTAAGTCC
**
739723 ACAACTCCAT-AGCACCATTTTTCTTTTTAAGTCCATAACT
66 ACAACTCCATGA-CACC-TTTTTCTTTCAAAGTCCATAACT
739763 CTGTGGCACC
Statistics
Matches: 368, Mismatches: 73, Indels: 44
0.76 0.15 0.09
Matches are distributed among these distances:
114 1 0.00
115 17 0.05
116 21 0.06
117 10 0.03
118 19 0.05
119 81 0.22
120 148 0.40
121 24 0.07
122 28 0.08
123 18 0.05
124 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.37
Consensus pattern (120 bp):
TAAAGTCCATGACTCAGTGGCACTCTTCTAAAGTCCACGACTCAGTGGCACCCTTTTTTAAGTCC
ACAACTCCATGACACCTTTTTCTTTCAAAGTCCATAACTTAATGGCATCTCTCTC
Found at i:739754 original size:34 final size:34
Alignment explanation
Indices: 739713--740023 Score: 210
Period size: 34 Copynumber: 9.9 Consensus size: 34
739703 TGTGGCATCC
* *
739713 TTTTAAGTCCACAACTCCATAGCACCATTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
* *
739747 TTTTAAGTCCATAACTCTGTGGCACC--TTTTC-
1 TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
* *
739778 ----AAGTTCACAACTCCATGGCATCC-TTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCA-CCATTTTTCT
* * *
739808 TTTTAAGTCCATAACTCTGTGG---CA---TCCT
1 TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
* *
739836 TTTTAAGTCCACAACTGCATGGCACCA------T
1 TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
* *
739864 TTTTAAGTCCATAACTTCGTGG---CA----TCT
1 TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
* *
739891 TTTTAAGTCCACAACT-CGTGGCACCCTTTTCCT
1 TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
* * * *
739924 TTTTAAGTCCATAACTCTGTGGCACCCTTTTCCT
1 TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
* *
739958 TTTTAAGTCCACAACTCTGTGGCACCCTTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
*
739992 TTTTAAGTCCATAACTCCGTGGCACCCATTTT
1 TTTTAAGTCCACAACTCCGTGGCA-CCATTTT
740024 AAGTCCACAA
Statistics
Matches: 225, Mismatches: 30, Indels: 43
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.01
26 5 0.02
27 32 0.14
28 43 0.19
29 6 0.03
30 1 0.00
31 2 0.01
32 5 0.02
33 17 0.08
34 106 0.47
35 6 0.03
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCCGTGGCACCATTTTTCT
Found at i:739789 original size:61 final size:61
Alignment explanation
Indices: 739683--740096 Score: 403
Period size: 56 Copynumber: 6.9 Consensus size: 61
739673 CTCAATGGCA
* * * *
739683 TTCTTTTTAAGT-CATAATTTTGTGGCATCCTTTTAAGTCCACAACTCCATAGCACCATTT
1 TTCTTTTTAAGTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCATTT
*
739743 TTCTTTTTAAGTCCATAACTCTGTGGCA-CCTTTTCAAGTTCACAACTCCATGGCATCC-TTT
1 TTCTTTTTAAGTCCATAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCATGGCA-CCATTT
* *
739804 TTCTTTTTAAGTCCATAACTCTGTGGCATCCTTTTTAAGTCCACAACTGCATGGCACCA---
1 TTCTTTTTAAGTCCATAACTCTGTGGCA-CCCTTTTAAGTCCACAACTCCATGGCACCATTT
* * * *
739863 ---TTTTTAAGTCCATAACT-TCGTGGCATCTTTTTAAGTCCACAACT-CGTGGCACCCTTT
1 TTCTTTTTAAGTCCATAACTCT-GTGGCACCCTTTTAAGTCCACAACTCCATGGCACCATTT
* ** *
739920 TCCTTTTTAAGTCCATAACTCTGTGGCACCCTTTTCCTTTTTAAGTCCACAACTCTGTGGCACCC
1 TTCTTTTTAAGTCCATAACTCTGTGGCA--C----CC-TTTTAAGTCCACAACTCCATGGCACCA
739985 TTT
59 TTT
* *
739988 TTCTTTTTAAGTCCATAACTCCGTGGCACCCATTTTAAGTCCACAACTCCGTGG---CA---
1 TTCTTTTTAAGTCCATAACTCTGTGGCACCC-TTTTAAGTCCACAACTCCATGGCACCATTT
* * * *
740044 TCCTTTTTAAGTCCACAACTCTGTGGCATCTCTTTTAAGTCCATAACTCCATG
1 TTCTTTTTAAGTCCATAACTCTGTGGCA-CCCTTTTAAGTCCACAACTCCATG
740097 ACTTTTTTTC
Statistics
Matches: 307, Mismatches: 24, Indels: 50
0.81 0.06 0.13
Matches are distributed among these distances:
54 8 0.03
55 19 0.06
56 67 0.22
57 2 0.01
59 1 0.00
60 41 0.13
61 65 0.21
62 43 0.14
63 5 0.02
66 2 0.01
67 16 0.05
68 38 0.12
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (61 bp):
TTCTTTTTAAGTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCATTT
Found at i:739838 original size:28 final size:28
Alignment explanation
Indices: 739745--740092 Score: 251
Period size: 28 Copynumber: 11.7 Consensus size: 28
739735 CACCATTTTT
*
739745 CTTTTTAAGTCCATAACTCTGTGGCA-C
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* * **
739772 CTTTTCAAGTTCACAACTCCATGGCATCC
1 CTTTTTAAGTCCACAACTCTGTGGCAT-C
*
739801 TTTTTCTTTTTAAGTCCATAACTCTGTGGCATC
1 -----CTTTTTAAGTCCACAACTCTGTGGCATC
*
739834 CTTTTTAAGTCCACAACTGC-ATGGCA-C
1 CTTTTTAAGTCCACAACT-CTGTGGCATC
*
739861 CATTTTTAAGTCCATAACT-TCGTGGCAT-
1 C-TTTTTAAGTCCACAACTCT-GTGGCATC
739889 CTTTTTAAGTCCACAACTC-GTGGCACCCTTTTC
1 CTTTTTAAGTCCACAACTCTGTGGCA------TC
*
739922 CTTTTTAAGTCCATAACTCTGTGGCACCCTTTTC
1 CTTTTTAAGTCCACAACTCTGTGGCA------TC
*
739956 CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTT
1 CTTTTTAAGTCCACAACTCTGTGGCA------TC
* * *
739990 CTTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTTAAGTCCACAACTCTGTGGCATC
* *
740018 CATTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTTAAGTCCACAACTCTGTGGCATC
740046 CTTTTTAAGTCCACAACTCTGTGGCAT-
1 CTTTTTAAGTCCACAACTCTGTGGCATC
*
740073 CTCTTTTAAGTCCATAACTC
1 CT-TTTTAAGTCCACAACTC
740093 CATGACTTTT
Statistics
Matches: 271, Mismatches: 28, Indels: 43
0.79 0.08 0.13
Matches are distributed among these distances:
26 6 0.02
27 41 0.15
28 110 0.41
29 2 0.01
32 1 0.00
33 19 0.07
34 92 0.34
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.37
Consensus pattern (28 bp):
CTTTTTAAGTCCACAACTCTGTGGCATC
Found at i:739931 original size:33 final size:34
Alignment explanation
Indices: 739889--740071 Score: 221
Period size: 34 Copynumber: 5.8 Consensus size: 34
739879 TTCGTGGCAT
739889 CTTTTTAAGTCCACAACTC-GTGGCACCCTTTTC
1 CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTC
*
739922 CTTTTTAAGTCCATAACTCTGTGGCACCCTTTTC
1 CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTC
*
739956 CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTT
1 CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTC
* *
739990 CTTTTTAAGTCCATAACTCCGTGGCA--C----C
1 CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTC
* *
740018 CATTTTAAGTCCACAACTCCGTGGCA------TC
1 CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTC
740046 CTTTTTAAGTCCACAACTCTGTGGCA
1 CTTTTTAAGTCCACAACTCTGTGGCA
740072 TCTCTTTTAA
Statistics
Matches: 138, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
28 49 0.36
32 1 0.01
33 18 0.13
34 70 0.51
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (34 bp):
CTTTTTAAGTCCACAACTCTGTGGCACCCTTTTC
Found at i:740026 original size:184 final size:177
Alignment explanation
Indices: 739610--740092 Score: 555
Period size: 184 Copynumber: 2.7 Consensus size: 177
739600 TAAGTCTATG
* * ** * * *
739610 ACTCCATGACA-CCTTTTTC-TTTAAAGTCCATAACTTAGTGGCATCTCTC-CTCTAAGTCCACG
1 ACTCCATGGCACCCTTTTTCTTTTTAAGTCCATAACTCCGTGGCA-C-C-CATTTTAAGTCCACA
* * * * *
739672 ACTCAATGGCATTCTTTTTAAGT-CATAATTTTGTGGCATCCTTTTAAGTCCACAACTCCATAGC
63 ACTCCATGGCATCCTTTTTAAGTCCATAACTTCGTGGCATCTTTTTAAGTCCACAACT-CATAGC
* *
739736 ACCATTTTTCTTTTTAAGTCCATAACTCTGTGGCACCTTTTCAAGTTCACA
127 ACCATTTTCCTTTTTAAGTCCATAACTCTGTGGCACCTTTTCAAGTCCACA
* * * *
739787 ACTCCATGGCATCCTTTTTCTTTTTAAGTCCATAACTCTGTGGCATCCTTTTTAAGTCCACAACT
1 ACTCCATGGCACCCTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCCATTTTAAGTCCACAACT
* * *
739852 GCATGGCA-CCATTTTTAAGTCCATAACTTCGTGGCATCTTTTTAAGTCCACAACTCGTGGCACC
66 CCATGGCATCC-TTTTTAAGTCCATAACTTCGTGGCATCTTTTTAAGTCCACAACTCATAGCACC
*
739916 CTTTTCCTTTTTAAGTCCATAACTCTGTGGCACCCTTTTCCTTTTTAAGTCCACA
130 ATTTTCCTTTTTAAGTCCATAACTCTGTGGCA-CCTTTT-C-----AAGTCCACA
**
739971 ACTCTGTGGCACCCTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCCATTTTAAGTCCACAACT
1 ACTCCATGGCACCCTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCCATTTTAAGTCCACAACT
* * *
740036 CCGTGGCATCCTTTTTAAGTCCACAAC-TCTGTGGCATCTCTTTTAAGTCCATAACTC
66 CCATGGCATCCTTTTTAAGTCCATAACTTC-GTGGCATCT-TTTTAAGTCCACAACTC
740093 CATGACTTTT
Statistics
Matches: 262, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
176 2 0.01
177 76 0.29
178 45 0.17
179 22 0.08
183 2 0.01
184 97 0.37
185 18 0.07
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (177 bp):
ACTCCATGGCACCCTTTTTCTTTTTAAGTCCATAACTCCGTGGCACCCATTTTAAGTCCACAACT
CCATGGCATCCTTTTTAAGTCCATAACTTCGTGGCATCTTTTTAAGTCCACAACTCATAGCACCA
TTTTCCTTTTTAAGTCCATAACTCTGTGGCACCTTTTCAAGTCCACA
Found at i:740145 original size:31 final size:31
Alignment explanation
Indices: 740110--740348 Score: 221
Period size: 32 Copynumber: 7.5 Consensus size: 31
740100 TTTTTTCTTG
* ** *
740110 AAAGTCCACACAAGTCGATGGTGACCCTTGT
1 AAAGTCCACACAAGTCGGTGGCAACCCTTCT
* *
740141 AAAGTCTATACAAGTCGGTGGCAACCCTTCT
1 AAAGTCCACACAAGTCGGTGGCAACCCTTCT
740172 AAAGTCCACACAAGTCGGTGGCAACCCCTTCT
1 AAAGTCCACACAAGTCGGTGGCAA-CCCTTCT
* ** * *
740204 AAAGCCCACACAAGTTAGTGACAACCTCTTTCG
1 AAAGTCCACACAAGTCGGTGGCAACC-C-TTCT
740237 AAAG-CCACACAAGTCGGTGGCAACCCCTTTCT
1 AAAGTCCACACAAGTCGGTGGCAA-CCC-TTCT
* * *
740269 AAAGGCCACACAAGTCAGTGGCAATCCCGTTCC
1 AAAGTCCACACAAGTCGGTGGCAA-CCC-TTCT
* * *
740302 AAAG-CTCACACAAATCAGTGGCAACCCTCTCA
1 AAAGTC-CACACAAGTCGGTGGCAACCCT-TCT
*
740334 AAAGCCCACACAAGT
1 AAAGTCCACACAAGT
740349 AGGTTGCTTC
Statistics
Matches: 176, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
31 50 0.28
32 71 0.40
33 55 0.31
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (31 bp):
AAAGTCCACACAAGTCGGTGGCAACCCTTCT
Found at i:740306 original size:65 final size:63
Alignment explanation
Indices: 740150--740348 Score: 240
Period size: 65 Copynumber: 3.1 Consensus size: 63
740140 TAAAGTCTAT
* *
740150 ACAAGTCGGTGGCAACCCTTCTAAAGTCCACACAAGTCGGTGGCAACCCC-TTCTAAAGCCCAC
1 ACAAGTCAGTGGCAACCCTTCCAAAG-CCACACAAGTCGGTGGCAACCCCTTTCTAAAGCCCAC
* * * *
740213 ACAAGTTAGTGACAACCTCTTTCGAAAGCCACACAAGTCGGTGGCAACCCCTTTCTAAAGGCCAC
1 ACAAGTCAGTGGCAACC-C-TTCCAAAGCCACACAAGTCGGTGGCAACCCCTTTCTAAAGCCCAC
* * * *
740278 ACAAGTCAGTGGCAATCCCGTTCCAAAGCTCACACAAATCAGTGGCAA-CCCTCTCAAAAGCCCA
1 ACAAGTCAGTGGCAA-CCC-TTCCAAAGC-CACACAAGTCGGTGGCAACCCCTTTCTAAAGCCCA
740342 C
63 C
740343 ACAAGT
1 ACAAGT
740349 AGGTTGCTTC
Statistics
Matches: 117, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
63 14 0.12
64 24 0.21
65 61 0.52
66 18 0.15
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.18
Consensus pattern (63 bp):
ACAAGTCAGTGGCAACCCTTCCAAAGCCACACAAGTCGGTGGCAACCCCTTTCTAAAGCCCAC
Found at i:742681 original size:49 final size:48
Alignment explanation
Indices: 742609--742791 Score: 205
Period size: 43 Copynumber: 3.8 Consensus size: 48
742599 ACATTGGCAC
* *
742609 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTC-T
* *
742658 CTTTAAGTCCAATGTAGCTGGCCTTGAATCGGCACATTGGC-A---C-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCT
* * *
742701 CATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAAC--TT-C-T
* *
742753 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
742792 ACATCCTTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 37 0.33
45 1 0.01
48 1 0.01
49 37 0.33
50 1 0.01
52 35 0.31
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (48 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAACTTCT
Found at i:742771 original size:52 final size:52
Alignment explanation
Indices: 742703--742854 Score: 178
Period size: 55 Copynumber: 2.9 Consensus size: 52
742693 ATTGGCACCA
742703 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCT
* * * * *
742755 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTTTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC--TTTTCCATCT
* * * * * *
742810 TTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
742855 ATCACTTTTC
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
52 39 0.48
53 2 0.02
54 1 0.01
55 40 0.49
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (52 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCT
Found at i:742836 original size:55 final size:52
Alignment explanation
Indices: 742703--742838 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 52
742693 ATTGGCACCA
* *
742703 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCT
* * *
742755 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTTTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC--TTTTCCATCT
* * * *
742810 TTAAGCCCAATATCGTTGGCCGTGAATCA
1 TTAAGTCCAATATAGCTGGCCTTGAATCA
742839 ACATATTGGC
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 36 0.51
53 2 0.03
55 32 0.46
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCT
Found at i:742941 original size:49 final size:49
Alignment explanation
Indices: 742869--742991 Score: 228
Period size: 49 Copynumber: 2.5 Consensus size: 49
742859 CTTTTCTCAT
742869 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
742918 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* *
742967 CTTTATCTTTAAGTCCAATATCGCT
1 CTTCATCTTTAAGTCCAATGTCGCT
742992 AGCCGCATAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:742963 original size:116 final size:118
Alignment explanation
Indices: 742750--742973 Score: 308
Period size: 116 Copynumber: 1.9 Consensus size: 118
742740 GCACCTTTTC
*
742750 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTTTCATCTTTAAG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCC----TTTCATCTTTAAG
* * *
742815 CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
62 CCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTTTATCACTTTTCTCATCTT
* * *
742872 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CC-TTCATCTTTAAGTCCA
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTCATCTTTAAGCCCA
* * *
742935 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
66 ATATCGCTGGCCGTGAATCAACACATTGGCACCTTTATC
742974 TTTAAGTCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
116 48 0.52
121 2 0.02
122 42 0.46
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (118 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTCATCTTTAAGCCCA
ATATCGCTGGCCGTGAATCAACACATTGGCACCTTTATCACTTTTCTCATCTT
Found at i:743761 original size:32 final size:32
Alignment explanation
Indices: 743706--743806 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
743696 TTCAACGATT
*
743706 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCAATACAT-AAGTGTTGTATCGATACAA
743739 TGTATCAATACATAAGTGTTGTATCGATACAA
1 TGTATCAATACATAAGTGTTGTATCGATACAA
* *
743771 TGTATCTATACATAAGTTTTGTATCGATACAA
1 TGTATCAATACATAAGTGTTGTATCGATACAA
743803 TGTA
1 TGTA
743807 AGCTACTACC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 53 0.82
33 12 0.18
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCAATACATAAGTGTTGTATCGATACAA
Found at i:743841 original size:13 final size:13
Alignment explanation
Indices: 743823--743847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
743813 TACCAAAAAA
743823 TGTATCGATACAT
1 TGTATCGATACAT
743836 TGTATCGATACA
1 TGTATCGATACA
743848 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:747927 original size:51 final size:50
Alignment explanation
Indices: 747839--747955 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 50
747829 TATGGAAAGA
* *
747839 AAATGTATCGATACATTTTCATTATATCGATACATTCTGGGTTTTGATCC
1 AAATGTATCGATACATTTTCATTATATCGATACATTCTAGGTTTTGACCC
* *
747889 AAATGTATCGATACATTCTTCATTGTATCGATATATTCTAGGTTTTGACCC
1 AAATGTATCGATACATT-TTCATTATATCGATACATTCTAGGTTTTGACCC
*
747940 AAATGTATTGATACAT
1 AAATGTATCGATACAT
747956 CCAGTTAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
50 17 0.28
51 44 0.72
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (50 bp):
AAATGTATCGATACATTTTCATTATATCGATACATTCTAGGTTTTGACCC
Found at i:748632 original size:160 final size:160
Alignment explanation
Indices: 748368--748697 Score: 590
Period size: 160 Copynumber: 2.1 Consensus size: 160
748358 GACTTTTGTT
748368 TTATGCTACATTTTCTAGCCACATTTCCATCAATATCTCAGCCAAAAACACAACACAAAACACTC
1 TTATGCTACATTTTCTAGCCACATTTCCATCAATATCTCAGCCAAAAACACAACACAAAACACTC
* *
748433 TACAAAAATCCATTCCCGTAGCTCTTCATCCTCTTCCAAAGAAACACTCCCAAACACATTCTCCT
66 TACAAAAATCCATTCCCATAGCTCTTCATCCTCTTCCAAAGAAACACCCCCAAACACATTCTCCT
*
748498 TAGCCAATGCACACTCTAAACCATTTTCCC
131 TAGCCAATACACACTCTAAACCATTTTCCC
748528 TTATGCTACATTTTCTAGCCACATTTCCATTC-ATATCTCAGCCAAAAACACAACACAAAACACT
1 TTATGCTACATTTTCTAGCCACATTTCCA-TCAATATCTCAGCCAAAAACACAACACAAAACACT
*
748592 CTACAAAAATCCATTCCCATAGCTCTTTATCCTCTTCCAAAGAAACACCCCCAAACACATTCTCC
65 CTACAAAAATCCATTCCCATAGCTCTTCATCCTCTTCCAAAGAAACACCCCCAAACACATTCTCC
748657 TTAGCCAATACACACTCTAAACCATTTTCCC
130 TTAGCCAATACACACTCTAAACCATTTTCCC
* *
748688 TCATACTACA
1 TTATGCTACA
748698 ACCTAAATAG
Statistics
Matches: 163, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
160 161 0.99
161 2 0.01
ACGTcount: A:0.35, C:0.34, G:0.04, T:0.27
Consensus pattern (160 bp):
TTATGCTACATTTTCTAGCCACATTTCCATCAATATCTCAGCCAAAAACACAACACAAAACACTC
TACAAAAATCCATTCCCATAGCTCTTCATCCTCTTCCAAAGAAACACCCCCAAACACATTCTCCT
TAGCCAATACACACTCTAAACCATTTTCCC
Found at i:751532 original size:289 final size:287
Alignment explanation
Indices: 751015--751587 Score: 1002
Period size: 289 Copynumber: 2.0 Consensus size: 287
751005 GGGAGCATAT
* *
751015 GAGATTAAATTTTTTGTCAATACCTGGATTTATTTTTATATAAAATTCACGCGATCTAGGGGATT
1 GAGATTAAATTTTTTATCAATACCTGGATTTATTTTTATATAAAATTCACGCGATCAAGGGGATT
751080 ATACCAAAATAATGATAAACTGAAACCGAAGAAACCAATATTGAGTCAAAATATTGCTAATAAGG
66 ATACCAAAATAATGATAAACTGAAACCGAAGAAACCAATATTGAGTCAAAATATTGCTAATAAGG
* *
751145 TATCGATTTCGGGCGTCGCGAAGAGGTTCGTACCTCTTTGCACGTAACCAACTCTCGAACTCAAC
131 TATCGATTTCGGGCGTCGCGAAGAGGTTCGTACCTCTTTGCACGTAACCAACTCCCAAACTCAAC
*
751210 CAACGAATCTCTAACTTACGTAAACCACGGGATCGATGTTTTGAGTTTTGTAACTCAAAACATAG
196 CAACGAATCTCTAACTTACGTAAACCACGGGATCAATGTTTTGAGTTTTGTAACTCAAAACATAG
751275 GTTTCAATAGGCATCCAATCATGCTTA
261 GTTTCAATAGGCATCCAATCATGCTTA
* * *
751302 GAGATTAAATTTTTTATCAATACTTGGATTTATTTTTTTATGTAAAATTCATGCGATCAAGGGGA
1 GAGATTAAATTTTTTATCAATACCTGGATTTA--TTTTTATATAAAATTCACGCGATCAAGGGGA
*
751367 TTATACCAAAATAATGATAAACTGAAACCGAAGAAACCAATATTGAGTCAAAATATTGCTAGTAA
64 TTATACCAAAATAATGATAAACTGAAACCGAAGAAACCAATATTGAGTCAAAATATTGCTAATAA
* *
751432 GGTATCGATTTCGGGCGTTGCGAAGAGGTTCGTACCTCTTTGCATGTAACCAACTCCCAAACTCA
129 GGTATCGATTTCGGGCGTCGCGAAGAGGTTCGTACCTCTTTGCACGTAACCAACTCCCAAACTCA
*
751497 ACCAATGAATCTCTAACTTACGTAAACCACGGGATCAATGTTTTGAGTTTTGTAACTCAAAACAT
194 ACCAACGAATCTCTAACTTACGTAAACCACGGGATCAATGTTTTGAGTTTTGTAACTCAAAACAT
* *
751562 AGGTTTCCATAGGCATCCGATCATGC
259 AGGTTTCAATAGGCATCCAATCATGC
751588 CTAGCCCAAA
Statistics
Matches: 270, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
287 30 0.11
289 240 0.89
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (287 bp):
GAGATTAAATTTTTTATCAATACCTGGATTTATTTTTATATAAAATTCACGCGATCAAGGGGATT
ATACCAAAATAATGATAAACTGAAACCGAAGAAACCAATATTGAGTCAAAATATTGCTAATAAGG
TATCGATTTCGGGCGTCGCGAAGAGGTTCGTACCTCTTTGCACGTAACCAACTCCCAAACTCAAC
CAACGAATCTCTAACTTACGTAAACCACGGGATCAATGTTTTGAGTTTTGTAACTCAAAACATAG
GTTTCAATAGGCATCCAATCATGCTTA
Found at i:753098 original size:26 final size:26
Alignment explanation
Indices: 753069--753126 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
753059 TTGAAGATTG
* *
753069 TAATAAAATAATTTAAAATATAATCA
1 TAATAAAATAATATAAAATATAATAA
*** *
753095 TAATCTTATAATATATAATATAATAA
1 TAATAAAATAATATAAAATATAATAA
753121 TAATAA
1 TAATAA
753127 TAACATATTA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
TAATAAAATAATATAAAATATAATAA
Found at i:754159 original size:15 final size:15
Alignment explanation
Indices: 754139--754168 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
754129 TTTATACACA
*
754139 TATATATATATATAT
1 TATATACATATATAT
754154 TATATACATATATAT
1 TATATACATATATAT
754169 AGTTATAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATACATATATAT
Found at i:754397 original size:19 final size:17
Alignment explanation
Indices: 754368--754402 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
754358 TATAAATTAG
754368 AAAAATATTATTAATGAT
1 AAAAATATTA-TAATGAT
754386 AAAAATATTTATAATGA
1 AAAAATA-TTATAATGA
754403 CAATTTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
AAAAATATTATAATGAT
Found at i:754715 original size:20 final size:20
Alignment explanation
Indices: 754692--754729 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
754682 ATCTTAAATA
754692 AATTAATAA-AATATTATATC
1 AATT-ATAATAATATTATATC
*
754712 AATTATAATAATCTTATA
1 AATTATAATAATATTATA
754730 ATAAGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTATAATAATATTATATC
Found at i:755780 original size:13 final size:13
Alignment explanation
Indices: 755762--755787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
755752 CAATTTTTTG
755762 TGTATCGATACAT
1 TGTATCGATACAT
755775 TGTATCGATACAT
1 TGTATCGATACAT
755788 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:755852 original size:21 final size:21
Alignment explanation
Indices: 755826--755901 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
755816 CTGCCAAGAA
755826 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
755847 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
755867 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
755888 ATGTATCGATACAT
1 ATGTATCGATACAT
755902 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Done.