Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 60 of 195
Found at i:12199516 original size:20 final size:21
Alignment explanation
Indices: 12199472--12199565 Score: 120
Period size: 20 Copynumber: 4.5 Consensus size: 21
12199462 TAGTTTAGGA
**
12199472 TTGGTTTTGGTTTGATTTGGGT
1 TTGG-TTTGGTTTGGCTTGGGT
*
12199494 TTGTTTTGGTTTGGCTT-GGT
1 TTGGTTTGGTTTGGCTTGGGT
12199514 TTGGTTTGGTTTGGCTT-GGT
1 TTGGTTTGGTTTGGCTTGGGT
* *
12199534 TTGATTTGGTTTAGCTTGGGT
1 TTGGTTTGGTTTGGCTTGGGT
12199555 TTGGTTTGGTT
1 TTGGTTTGGTT
12199566 AGGATCTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
20 37 0.58
21 24 0.38
22 3 0.05
ACGTcount: A:0.03, C:0.03, G:0.36, T:0.57
Consensus pattern (21 bp):
TTGGTTTGGTTTGGCTTGGGT
Found at i:12199616 original size:6 final size:6
Alignment explanation
Indices: 12199591--12199674 Score: 80
Period size: 6 Copynumber: 13.3 Consensus size: 6
12199581 TAAAAGAGTT
* *
12199591 GGTTTA GGTATAA GGGTTTA GGTTTA GGTTTA GGTTTA GGTTTA GGATTTT
1 GGTTTA GGT-TTA -GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA GG-TTTA
* *
12199642 GGTTTA GGGTTTG GGCTTTA GGTTCA -GTTTA GG
1 GGTTTA -GGTTTA GG-TTTA GGTTTA GGTTTA GG
12199675 GTCTAGGTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 4 0.06
6 38 0.59
7 19 0.30
8 3 0.05
ACGTcount: A:0.17, C:0.02, G:0.36, T:0.45
Consensus pattern (6 bp):
GGTTTA
Found at i:12199942 original size:19 final size:19
Alignment explanation
Indices: 12199920--12200091 Score: 200
Period size: 19 Copynumber: 8.9 Consensus size: 19
12199910 GTATGGGATA
12199920 GGTTTAGGGTTTGCATGAG
1 GGTTTAGGGTTTGCATGAG
**
12199939 GGTTTAGGGTTTGTGTGAG
1 GGTTTAGGGTTTGCATGAG
*
12199958 GGTTTAGAGTTTGCATGAG
1 GGTTTAGGGTTTGCATGAG
** *
12199977 GGTTTAGGGGTTTATATAAG
1 GGTTTA-GGGTTTGCATGAG
*
12199997 GGTTTAGGGTTTGCCTGAG
1 GGTTTAGGGTTTGCATGAG
* * *
12200016 GATTTAGGCTTTGCATGAA
1 GGTTTAGGGTTTGCATGAG
* * *
12200035 GGTTTAAAGGCTTGCATGAT
1 GGTTT-AGGGTTTGCATGAG
*
12200055 GATTTAGGGTTTGCATGAG
1 GGTTTAGGGTTTGCATGAG
12200074 GGTTTAGGGTTTGCATGA
1 GGTTTAGGGTTTGCATGA
12200092 ATGGTGCACG
Statistics
Matches: 124, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
19 95 0.77
20 29 0.23
ACGTcount: A:0.19, C:0.06, G:0.37, T:0.38
Consensus pattern (19 bp):
GGTTTAGGGTTTGCATGAG
Found at i:12199943 original size:38 final size:39
Alignment explanation
Indices: 12199901--12199982 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 39
12199891 GTTTAGTTAA
*
12199901 GGTTTAAAGGTATG-G-GATAGGTTTAGGGTTTGCATGAG
1 GGTTTAAAGGTATGTGTGA-AGGTTTAGAGTTTGCATGAG
* * *
12199939 GGTTT-AGGGTTTGTGTGAGGGTTTAGAGTTTGCATGAG
1 GGTTTAAAGGTATGTGTGAAGGTTTAGAGTTTGCATGAG
12199977 GGTTTA
1 GGTTTA
12199983 GGGGTTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
37 6 0.16
38 29 0.78
39 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.40, T:0.38
Consensus pattern (39 bp):
GGTTTAAAGGTATGTGTGAAGGTTTAGAGTTTGCATGAG
Found at i:12200004 original size:58 final size:57
Alignment explanation
Indices: 12199941--12200092 Score: 160
Period size: 58 Copynumber: 2.6 Consensus size: 57
12199931 TGCATGAGGG
** * ** * * *
12199941 TTTAGGGTTTGTGTGAGGGTTTAGAGTTTGCATGAGGGTTTAGGGGTTTATATAAGGG
1 TTTAGGGTTTGCATGAGGGTTTAG-GTTTGCATGAAGGTTTAAAGGCTTACATAAGGA
* * * * *
12199999 TTTAGGGTTTGCCTGAGGATTTAGGCTTTGCATGAAGGTTTAAAGGCTTGCATGATGA
1 TTTAGGGTTTGCATGAGGGTTTAGG-TTTGCATGAAGGTTTAAAGGCTTACATAAGGA
12200057 TTTAGGGTTTGCATGAGGGTTTAGGGTTTGCATGAA
1 TTTAGGGTTTGCATGAGGGTTTA-GGTTTGCATGAA
12200093 TGGTGCACGT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
57 1 0.01
58 75 0.96
59 2 0.03
ACGTcount: A:0.20, C:0.06, G:0.36, T:0.38
Consensus pattern (57 bp):
TTTAGGGTTTGCATGAGGGTTTAGGTTTGCATGAAGGTTTAAAGGCTTACATAAGGA
Found at i:12201018 original size:22 final size:22
Alignment explanation
Indices: 12200993--12201041 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
12200983 TAAAATCACA
12200993 AAAATCAAAGAAAACTAACATG
1 AAAATCAAAGAAAACTAACATG
*** * *
12201015 AAAAAGTATGAAAATTAACATG
1 AAAATCAAAGAAAACTAACATG
12201037 AAAAT
1 AAAAT
12201042 GCATGAAATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.18
Consensus pattern (22 bp):
AAAATCAAAGAAAACTAACATG
Found at i:12201047 original size:22 final size:22
Alignment explanation
Indices: 12201002--12201049 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
12200992 AAAAATCAAA
*
12201002 GAAAACTAACATGAAAAAGTAT
1 GAAAACTAACATGAAAAAGCAT
* *
12201024 GAAAATTAACATGAAAATGCAT
1 GAAAACTAACATGAAAAAGCAT
12201046 GAAA
1 GAAA
12201050 TATGGGGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (22 bp):
GAAAACTAACATGAAAAAGCAT
Found at i:12202424 original size:18 final size:18
Alignment explanation
Indices: 12202397--12202442 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
12202387 TGCATAAATT
12202397 AAAC-AAATTAAGGAGGG
1 AAACTAAATTAAGGAGGG
12202414 AAACTAAATTAAGGAGGG
1 AAACTAAATTAAGGAGGG
12202432 AAACTAAATTA
1 AAACTAAATTA
12202443 TTTTACCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (18 bp):
AAACTAAATTAAGGAGGG
Found at i:12206949 original size:605 final size:607
Alignment explanation
Indices: 12205789--12206965 Score: 1963
Period size: 605 Copynumber: 1.9 Consensus size: 607
12205779 TTTTTCTCTT
*
12205789 TTTTTTTTTTTGTTTTATTGTTCTTTCCCTTTTTAACTTAAAACCTCTAAAACCATCTCTTGTTT
1 TTTTTTTTTTTGTTTTATTGTTCTTTCCCTTTTTAACTTAAAACCTCTAAAACCATCTCTTGCTT
*
12205854 CATCTTTTGAAAAGCCTTTGGATTCTAAATAGGAAGAAGATCACCCTTTCACCATTCTGGAGTTT
66 CATATTTTGAAAAGCCTTTGGATTCTAAATAGGAAGAAGATCACCCTTTCACCATTCTGGAGTTT
*
12205919 CAAGGTGCATGGACAGCCCACAAAAAAATAAAAATAAAAATGACATGAAACTCAAAACCAGTAGT
131 CAAGGTGCATGGACAGCCCAC--------AAAAATAAAAATGACATGAAACTCAAAACCAGTAGC
* *
12205984 CAACCCAATGTAGAATTATCAAGATTTTCCACAAGCAAATAATATGTAGGAAAAAAAAACTAAAA
188 CAACCCAAGGTAGAATGATCAAGATTTTCCACAAGCAAATAATATGTAGGAAAAAAAAACTAAAA
*
12206049 TCAATAAACAAGCTAAAGCTGTAAGTTGTTGATCAAGCAAAGAACGAAAATGGGAAGACTCTAAT
253 TCAATAAACAAGCTAAAGCTGTAAGTTGTTGATCAAGCAAAGAACAAAAATGGGAAGACTCTAAT
* ** *
12206114 CGTTCCTTTCCTCTATGCCTTATTATTTCTAGATTTTCTTTGCGAACGGGTTACTTCTCTTTTCT
318 CCTTCCTTTCCTCTATGCCCCACTATTTCTAGATTTTCTTTGCGAACGGGTTACTTCTCTTTTCT
* *
12206179 TCTTCTTTTTGTTTGTCTTGATTTGCATGGAAGCAAAGCCTAAAGCCTTTCCTTCAGTTATTTAT
383 TCTTCCTTTTGTTTGTCTTGATTTGCATGGAAGCAAAACCTAAAGCCTTTCCTTCAGTTATTTAT
12206244 AAATGATTTTTGCTGTTTTAAAAATTATCTTTTAATGTCCAAGCAAGCAAACACCACCATCACAA
448 AAATGATTTTTGCTGTTTTAAAAATTATCTTTTAATGTCCAAGCAAGCAAACACCACCATCACAA
*
12206309 CCAGAAAAGGAAAGAACTCATCCGAACATAAACATAAGGAAAATAAAACTGTAAATTTGCCTAAA
513 CCAGAAAAGGAAAGAACTCATCCAAACATAAACATAAGGAAAATAAAACTGTAAATTTGCCTAAA
12206374 ACAAACCTTCTTCATGAAGAATTGTTTTTC
578 ACAAACCTTCTTCATGAAGAATTGTTTTTC
*
12206404 TTTTTTTTTTT-TTTT-TTGTTCCTTT-CCTTTTTACCTTAAAACCTCTAAAACCATCTCTTGCT
1 TTTTTTTTTTTGTTTTATTGTT-CTTTCCCTTTTTAACTTAAAACCTCTAAAACCATCTCTTGCT
12206466 TCATATTTTGAAAAGCCTTTGGATTCTAAA-AGGGAAGAAGATCACCCTTTCACCATTCTGGAGT
65 TCATATTTTGAAAAGCCTTTGGATTCTAAATA-GGAAGAAGATCACCCTTTCACCATTCTGGAGT
* *
12206530 TTCAAGGTGCATGGACAGCCTAC-AAAATAAAAATGACATGAAACTGAAAACCAGTAGCCGAACC
129 TTCAAGGTGCATGGACAGCCCACAAAAATAAAAATGACATGAAACTCAAAACCAGTAGCC-AACC
*
12206594 CAAGGTAGAATGATCTAGATTTTCCACAAGCAAATAATATGTAGGAAAAAAAAACTAAAATCAAT
193 CAAGGTAGAATGATCAAGATTTTCCACAAGCAAATAATATGTAGGAAAAAAAAACTAAAATCAAT
* * *
12206659 GAACAAGCTAAAGCTGTGAGTTGTTGATCAAGTAAAGAACAAAAATGGGAAGACTCTAATCCTTC
258 AAACAAGCTAAAGCTGTAAGTTGTTGATCAAGCAAAGAACAAAAATGGGAAGACTCTAATCCTTC
* * *
12206724 TTTTCCTCTATGCCCCGCTATTTCTAGATTTTCTTTGTGAACGGGTTACTTCTCTTTTCTTCTTC
323 CTTTCCTCTATGCCCCACTATTTCTAGATTTTCTTTGCGAACGGGTTACTTCTCTTTTCTTCTTC
*
12206789 CTTTTGTTTGTCTTGATTTGTATGGAAGCAAAACCTAAAGCCTTTCCTTCAGTTATTTATAAATG
388 CTTTTGTTTGTCTTGATTTGCATGGAAGCAAAACCTAAAGCCTTTCCTTCAGTTATTTATAAATG
12206854 ATTTTTGCTGTTTTAAAAATTATCTTTTAATGTCCAAGCAAGCAAACACCACCATCACAACC-GA
453 ATTTTTGCTGTTTTAAAAATTATCTTTTAATGTCCAAGCAAGCAAACACCACCATCACAACCAG-
*
12206918 AAAAGGAAAGAACTTA-CGCAAACATAAACATAAGGAAAATAAAACTGT
517 AAAAGGAAAGAACTCATC-CAAACATAAACATAAGGAAAATAAAACTGT
12206966 GGGTTCGCTA
Statistics
Matches: 532, Mismatches: 25, Indels: 20
0.92 0.04 0.03
Matches are distributed among these distances:
604 36 0.07
605 353 0.66
612 1 0.00
613 123 0.23
614 8 0.02
615 11 0.02
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (607 bp):
TTTTTTTTTTTGTTTTATTGTTCTTTCCCTTTTTAACTTAAAACCTCTAAAACCATCTCTTGCTT
CATATTTTGAAAAGCCTTTGGATTCTAAATAGGAAGAAGATCACCCTTTCACCATTCTGGAGTTT
CAAGGTGCATGGACAGCCCACAAAAATAAAAATGACATGAAACTCAAAACCAGTAGCCAACCCAA
GGTAGAATGATCAAGATTTTCCACAAGCAAATAATATGTAGGAAAAAAAAACTAAAATCAATAAA
CAAGCTAAAGCTGTAAGTTGTTGATCAAGCAAAGAACAAAAATGGGAAGACTCTAATCCTTCCTT
TCCTCTATGCCCCACTATTTCTAGATTTTCTTTGCGAACGGGTTACTTCTCTTTTCTTCTTCCTT
TTGTTTGTCTTGATTTGCATGGAAGCAAAACCTAAAGCCTTTCCTTCAGTTATTTATAAATGATT
TTTGCTGTTTTAAAAATTATCTTTTAATGTCCAAGCAAGCAAACACCACCATCACAACCAGAAAA
GGAAAGAACTCATCCAAACATAAACATAAGGAAAATAAAACTGTAAATTTGCCTAAAACAAACCT
TCTTCATGAAGAATTGTTTTTC
Found at i:12210502 original size:86 final size:87
Alignment explanation
Indices: 12210344--12210520 Score: 266
Period size: 86 Copynumber: 2.0 Consensus size: 87
12210334 TCATCTAATA
* *
12210344 ATCTTTTTCTTCCCTAATTTATCCAACCTTTTTTTTTTGTTTTCATTTTTTTCAAGCACTTCTTC
1 ATCTTTTTCTTCCCTAATTTATCCAACC--TTTTTTATGTTTACATTTTTTTCAAGCACTTCTTC
*
12210409 CACTAGGGTTCAGTAGGGTTGTTC
64 CACTAGGGTTCAGTAGGGTTATTC
* *
12210433 ATCTTTTTCTTCCCTAATTTATCCAACC-TTTTTATGTTTACATTTTTTTCAAGCACTTTTTCTA
1 ATCTTTTTCTTCCCTAATTTATCCAACCTTTTTTATGTTTACATTTTTTTCAAGCACTTCTTCCA
* *
12210497 TTAGGGTTCGGTAGGGTTATTC
66 CTAGGGTTCAGTAGGGTTATTC
12210519 AT
1 AT
12210521 TATAACACCG
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
86 53 0.65
89 28 0.35
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (87 bp):
ATCTTTTTCTTCCCTAATTTATCCAACCTTTTTTATGTTTACATTTTTTTCAAGCACTTCTTCCA
CTAGGGTTCAGTAGGGTTATTC
Found at i:12218675 original size:30 final size:30
Alignment explanation
Indices: 12218638--12218702 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
12218628 CCCGAAATGA
* * *
12218638 ATAAAAATATTATTTTTTAAATATAAATAT
1 ATAAAAATATCATTATATAAATATAAATAT
* *
12218668 TTAAAAATATCATTATATAAATATATATAT
1 ATAAAAATATCATTATATAAATATAAATAT
12218698 ATAAA
1 ATAAA
12218703 TAAATAATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAAAATATCATTATATAAATATAAATAT
Found at i:12220349 original size:139 final size:138
Alignment explanation
Indices: 12220095--12220368 Score: 397
Period size: 139 Copynumber: 2.0 Consensus size: 138
12220085 AAATCTCAAG
* *
12220095 AATTAAATTTTGCGAATCAAACTAAAGAATCAAATTACAAAAAATAAGATTTCGATAAATAGTTT
1 AATTAAATTTTGCGAATCAAACTAAAGAATCAAATTACAAAAAACAAGATTTCGATAAATAATTT
* * *
12220160 AACCTTTCTCTAATCAAATACCCTTTAAGGGGGCATTTGGTTCATGTAATCATAGATTCTGGGAG
66 AACCTTTCTCTAATCAAATACCCTTTAAAGGGGCATTTAGTTCATGTAATCATAGATTCTGAGAG
12220225 AAAGTTAA
131 AAAGTTAA
* * * * *
12220233 AATTAAAATTTTGTGAATCAAACTAAAGAATCAAATTATAAAAAACAAGATTTTGGCT-AGTAAT
1 AATT-AAATTTTGCGAATCAAACTAAAGAATCAAATTACAAAAAACAAGA-TTTCGATAAATAAT
* * * *
12220297 TTAACTTTTCTCTAATCAAATACCCTTTAAATGGGCATTTAGTTTATGTAATCGTAGATTCTGAG
64 TTAACCTTTCTCTAATCAAATACCCTTTAAAGGGGCATTTAGTTCATGTAATCATAGATTCTGAG
12220362 AGAAAGT
129 AGAAAGT
12220369 GTAATCCTAA
Statistics
Matches: 120, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
138 4 0.03
139 111 0.93
140 5 0.04
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (138 bp):
AATTAAATTTTGCGAATCAAACTAAAGAATCAAATTACAAAAAACAAGATTTCGATAAATAATTT
AACCTTTCTCTAATCAAATACCCTTTAAAGGGGCATTTAGTTCATGTAATCATAGATTCTGAGAG
AAAGTTAA
Found at i:12222682 original size:25 final size:25
Alignment explanation
Indices: 12222645--12222698 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
12222635 TTTACATGAG
12222645 TTGAAGCCCAATTCAATTCAACTTT
1 TTGAAGCCCAATTCAATTCAACTTT
* *
12222670 TTGAAGCCTAATTCAATTCACCTTT
1 TTGAAGCCCAATTCAATTCAACTTT
12222695 TTGA
1 TTGA
12222699 GTCACATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (25 bp):
TTGAAGCCCAATTCAATTCAACTTT
Found at i:12222759 original size:20 final size:19
Alignment explanation
Indices: 12222734--12222782 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
12222724 AAAGTCCAAG
12222734 TCAATTTTAAAGCCCAAAGT
1 TCAATTTTAAAGCCCAAA-T
* *
12222754 TCAATTGT-AGGCCCAAAT
1 TCAATTTTAAAGCCCAAAT
*
12222772 TAAATTTTAAA
1 TCAATTTTAAA
12222783 ATTCAATTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 7 0.30
19 9 0.39
20 7 0.30
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (19 bp):
TCAATTTTAAAGCCCAAAT
Found at i:12224397 original size:12 final size:12
Alignment explanation
Indices: 12224376--12224410 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
12224366 ATTACCCAGA
12224376 CCATTGACCAAG
1 CCATTGACCAAG
*
12224388 CCATTAACCAAG
1 CCATTGACCAAG
12224400 CCATTGACCAA
1 CCATTGACCAA
12224411 CCCTGTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.34, G:0.11, T:0.17
Consensus pattern (12 bp):
CCATTGACCAAG
Found at i:12224711 original size:25 final size:25
Alignment explanation
Indices: 12224657--12224711 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
12224647 ATCTTTACTC
*
12224657 AATGATGATATTCTAAGGAAATCCA
1 AATGATGATATCCTAAGGAAATCCA
*
12224682 CATGATGAT-TCCTAA-GAAATCTCTA
1 AATGATGATATCCTAAGGAAATC-C-A
12224707 AATGA
1 AATGA
12224712 GAAGATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 6 0.24
24 6 0.24
25 13 0.52
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (25 bp):
AATGATGATATCCTAAGGAAATCCA
Found at i:12225724 original size:3 final size:3
Alignment explanation
Indices: 12225716--12225768 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
12225706 TTCTAAACAA
* *
12225716 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12225764 AAT AA
1 AAT AA
12225769 AAGGAAAGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:12232482 original size:22 final size:22
Alignment explanation
Indices: 12232452--12232503 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
12232442 TCAAGATTTG
* *
12232452 TAAGACTTTCAGGCAAAA-TCT
1 TAAGTCTTTCAAGCAAAATTCT
*
12232473 CTAAGTCTTTCAAGCAAGATTCT
1 -TAAGTCTTTCAAGCAAAATTCT
12232496 TAAGTCTT
1 TAAGTCTT
12232504 CCTAGCTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (22 bp):
TAAGTCTTTCAAGCAAAATTCT
Found at i:12232728 original size:164 final size:163
Alignment explanation
Indices: 12232444--12233133 Score: 626
Period size: 164 Copynumber: 4.2 Consensus size: 163
12232434 TCATGACATC
* * * * * * * *
12232444 AAGATTTGTAAGACTTTCAGGCAAAATCTCTAAGTCTTTCAAGCAAGATTCTTAAGTCTTCCTAG
1 AAGATTTGTAAAACCTTCAGACATAATCTCTAAGTCCTTCAAACAAGATTCATAAGTCTTCCAAG
* * * * * *
12232509 CTG-ATCTGTTCTAATGTAATGATTCATAAATCCTTT-GAGTAGAATGTCTAAATTTTAAAGTTT
66 CTGAATCTATTCTAGTGTCATGATTCATAAGTCCTTTAG-GCAGAATGTTTAAATTTTAAAGTTT
* * *
12232572 CAATGCCT-TCTTTTAGAGGAGCATTCATAAATATT
130 CAA-GCCTCT-TTTTAGAAGAGCATTCATAGATGTT
* * *
12232607 AAAATTTGTAAAACCTTCAGACATAATTTCTAAGTCCTCCAAACAAGACTT-ATAAGTCTTCCAA
1 AAGATTTGTAAAACCTTCAGACATAATCTCTAAGTCCTTCAAACAAGA-TTCATAAGTCTTCCAA
* *
12232671 GTTGAATCTATTCTAGTGTCATGATTCATAAGTCCTCTAGGCAGAATGTTTAAATTTTAAAGTTT
65 GCTGAATCTATTCTAGTGTCATGATTCATAAGTCCTTTAGGCAGAATGTTTAAATTTTAAAGTTT
* * **
12232736 CAAGGCCTCTTTTTAGAAAAGTATTTGTAGATGTT
130 CAA-GCCTCTTTTTAGAAGAGCATTCATAGATGTT
* * * * ***
12232771 GAGATTTGTAAAACTGTTAAG-CATAATCTCTAAGTCCTTCAAGCAAGATTCATAAGTCTTTTGA
1 AAGATTTGTAAAAC-CTTCAGACATAATCTCTAAGTCCTTCAAACAAGATTCATAAGTCTTCCAA
* *
12232835 GTTGAATCTATTCTAGTGTCATGATTCATCAA-T-CTTTCAGGTAGAATGTTTAAATTTTAAAGT
65 GCTGAATCTATTCTAGTGTCATGATTCAT-AAGTCCTTT-AGGCAGAATGTTTAAATTTTAAAGT
* * * *
12232898 TTTAAGTCATCTTTTTAGAGGAGCATTCGA-ACATGTT
128 TTCAAG-CCTCTTTTTAGAAGAGCATTC-ATAGATGTT
* * * * * * * * * * **
12232935 GAGATTTGTAAGACCTCCTA-ATATAATCTCTAAATCCTTCGAACAAGAATCGTAAATTTTTTAA
1 AAGATTTGTAAAACCTTC-AGACATAATCTCTAAGTCCTTCAAACAAGATTCATAAGTCTTCCAA
** * * * * *
12232999 GCTGAATCTATTCTAGTGTCACAATTCGTAAGTCTTTTGGGCACAATGTTTAAATTTTAAAGTTG
65 GCTGAATCTATTCTAGTGTCATGATTCATAAGTCCTTTAGGCAGAATGTTTAAATTTTAAAGTTT
* **
12233064 CAAGACCTCTTTTTAGAAGAGTATTCATAGATGCC
130 CAAG-CCTCTTTTTAGAAGAGCATTCATAGATGTT
* *
12233099 AAGATTTGTAAAACCTT-TGCACACAATCTCTAAGT
1 AAGATTTGTAAAACCTTCAG-ACATAATCTCTAAGT
12233134 TATTTTGTTA
Statistics
Matches: 426, Mismatches: 84, Indels: 33
0.78 0.15 0.06
Matches are distributed among these distances:
163 63 0.15
164 352 0.83
165 11 0.03
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (163 bp):
AAGATTTGTAAAACCTTCAGACATAATCTCTAAGTCCTTCAAACAAGATTCATAAGTCTTCCAAG
CTGAATCTATTCTAGTGTCATGATTCATAAGTCCTTTAGGCAGAATGTTTAAATTTTAAAGTTTC
AAGCCTCTTTTTAGAAGAGCATTCATAGATGTT
Found at i:12233049 original size:328 final size:327
Alignment explanation
Indices: 12232443--12233133 Score: 786
Period size: 328 Copynumber: 2.1 Consensus size: 327
12232433 ATCATGACAT
* * * *
12232443 CAAGATTTGTAAGACTTTCAGGCAAAATCTCTAAGTCTTTCAAGCAAGATTCTTAAGTCTTCCTA
1 CAAGATTTGTAAAACTTTCAAGCAAAATCTCTAAGTCCTTCAAGCAAGATTCATAAGTCTTCCTA
* *
12232508 GCTGATCTGTTCTAATGTAATGATTCATAAATCCTTTGAGTAGAATGTCTAAATTTTAAAGTTTC
66 GCTGATCTATTCTAATGTAATGATTCATAAATCCTTTCAGTAGAATGTCTAAATTTTAAAGTTTC
* * *
12232573 AATGCCTTCTTTTAGAGGAGCATTCATAAATATTAAAATTTGTAAAACCTTCAGACATAATTTCT
131 AATGCCATCTTTTAGAGGAGCATTCATAAATATTAAAATTTGTAAAACCTCCAGACATAATCTCT
* * * * * **
12232638 AAGTCCTCCAAACAAGACTTATAAGTCTTCCAAGTTGAATCTATTCTAGTGTCATGATTCATAAG
196 AAATCCTCCAAACAAGAATCATAAATCTTCCAAGCTGAATCTATTCTAGTGTCACAATTCATAAG
* * * **
12232703 TCCTCTAGGCAGAATGTTTAAATTTTAAAGTTTCAAGGCCTCTTTTTAGAAAAGTATTTGTAGAT
261 TCCTCTAGGCACAATGTTTAAATTTTAAAGTTGCAAGACCTCTTTTTAGAAAAGTATTCATAGAT
*
12232768 GT
326 GC
** * *
12232770 TGAGATTTGTAAAACTGTT-AAGCATAATCTCTAAGTCCTTCAAGCAAGATTCATAAGTCTT-TT
1 CAAGATTTGTAAAACT-TTCAAGCAAAATCTCTAAGTCCTTCAAGCAAGATTCATAAGTCTTCCT
* * * * *
12232833 GAGTTGAATCTATTCTAGTGTCATGATTCATCAAT-CTTTCAGGTAGAATGTTTAAATTTTAAAG
65 -AGCTG-ATCTATTCTAATGTAATGATTCATAAATCCTTTCA-GTAGAATGTCTAAATTTTAAAG
* * * * * * * *
12232897 TTTTAA-GTCATCTTTTTAGAGGAGCATTCGA-ACATGTTGAGATTTGTAAGACCTCCTA-ATAT
127 TTTCAATGCCATC-TTTTAGAGGAGCATTC-ATAAATATTAAAATTTGTAAAACCTCC-AGACAT
* * * * **
12232959 AATCTCTAAATCCTTCGAACAAGAATCGTAAATTTTTTAAGCTGAATCTATTCTAGTGTCACAAT
189 AATCTCTAAATCCTCCAAACAAGAATCATAAATCTTCCAAGCTGAATCTATTCTAGTGTCACAAT
* * * * *
12233024 TCGTAAGTCTTTTGGGCACAATGTTTAAATTTTAAAGTTGCAAGACCTCTTTTTAGAAGAGTATT
254 TCATAAGTCCTCTAGGCACAATGTTTAAATTTTAAAGTTGCAAGACCTCTTTTTAGAAAAGTATT
12233089 CATAGATGC
319 CATAGATGC
*
12233098 CAAGATTTGTAAAACCTTTGC-A-CACAATCTCTAAGT
1 CAAGATTTGTAAAA-CTTT-CAAGCAAAATCTCTAAGT
12233134 TATTTTGTTA
Statistics
Matches: 301, Mismatches: 53, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
326 1 0.00
327 64 0.21
328 231 0.77
329 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (327 bp):
CAAGATTTGTAAAACTTTCAAGCAAAATCTCTAAGTCCTTCAAGCAAGATTCATAAGTCTTCCTA
GCTGATCTATTCTAATGTAATGATTCATAAATCCTTTCAGTAGAATGTCTAAATTTTAAAGTTTC
AATGCCATCTTTTAGAGGAGCATTCATAAATATTAAAATTTGTAAAACCTCCAGACATAATCTCT
AAATCCTCCAAACAAGAATCATAAATCTTCCAAGCTGAATCTATTCTAGTGTCACAATTCATAAG
TCCTCTAGGCACAATGTTTAAATTTTAAAGTTGCAAGACCTCTTTTTAGAAAAGTATTCATAGAT
GC
Found at i:12233239 original size:21 final size:18
Alignment explanation
Indices: 12233200--12233245 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 18
12233190 TTAAGAATTC
12233200 AAAAAATTAAAAATTAAA
1 AAAAAATTAAAAATTAAA
12233218 AAAAAATTCAAGAAAGTTAAA
1 AAAAAATT-AA-AAA-TTAAA
12233239 ACAAAAA
1 A-AAAAA
12233246 ATCCAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.33
19 2 0.08
20 3 0.12
21 6 0.25
22 5 0.21
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAAAATTAAAAATTAAA
Found at i:12235104 original size:10 final size:10
Alignment explanation
Indices: 12235091--12235166 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
12235081 AAAGCTAAAT
12235091 AAAATATATA
1 AAAATATATA
12235101 AAAATATA-A
1 AAAATATATA
* *
12235110 AAAAAAAATA
1 AAAATATATA
12235120 AATAATAGTAATA
1 AA-AATA-T-ATA
*
12235133 AAAATAAATA
1 AAAATATATA
*
12235143 ATTAATA-ATA
1 A-AAATATATA
*
12235153 AAAAAATA-A
1 AAAATATATA
12235162 AAAAT
1 AAAAT
12235167 CAAAGAAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
9 15 0.29
10 20 0.39
11 7 0.14
12 4 0.08
13 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (10 bp):
AAAATATATA
Found at i:12235113 original size:32 final size:34
Alignment explanation
Indices: 12235046--12235138 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 34
12235036 AAATTCAAAT
*
12235046 AAAAATAAA-AAATATATAAAAAAATCATTATAAAA
1 AAAAATAAATAAA-ATATATAAAAAT-ATTATAAAA
**
12235081 AAAGCTAAATAAAATATATAAAAATA-TA-AAAA
1 AAAAATAAATAAAATATATAAAAATATTATAAAA
*
12235113 AAAAATAAATAATAGTA-ATAAAAATA
1 AAAAATAAATAA-AATATATAAAAATA
12235139 AATAATTAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
32 23 0.46
33 5 0.10
34 1 0.02
35 18 0.36
36 3 0.06
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (34 bp):
AAAAATAAATAAAATATATAAAAATATTATAAAA
Found at i:12235117 original size:23 final size:23
Alignment explanation
Indices: 12235091--12235165 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 23
12235081 AAAGCTAAAT
12235091 AAAATATATAAAAATATAAAAAA
1 AAAATATATAAAAATATAAAAAA
* * *
12235114 AAAATAAATAATAGTAATAAAAATA
1 AAAATATATAAAAAT-ATAAAAA-A
*
12235139 AATAATTAATAATAAAAAAATAAAAAA
1 AA-AA-T-AT-ATAAAAATATAAAAAA
12235166 TCAAAGAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
23 12 0.31
24 7 0.18
25 3 0.08
26 2 0.05
27 2 0.05
28 8 0.21
29 5 0.13
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (23 bp):
AAAATATATAAAAATATAAAAAA
Found at i:12235858 original size:14 final size:15
Alignment explanation
Indices: 12235837--12235872 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
12235827 GGGCATGTAA
*
12235837 AAAAAAAATAATAAGG
1 AAAAAAAAGAA-AAGG
12235853 AAAAAAAAGAAAAGG
1 AAAAAAAAGAAAAGG
12235868 AAAAA
1 AAAAA
12235873 GAATAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (15 bp):
AAAAAAAAGAAAAGG
Found at i:12235858 original size:15 final size:15
Alignment explanation
Indices: 12235838--12235879 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
12235828 GGCATGTAAA
12235838 AAAAAAATAATAAGG
1 AAAAAAATAATAAGG
*
12235853 AAAAAAA-AGAAAAGG
1 AAAAAAATA-ATAAGG
12235868 AAAAAGAATAAT
1 AAAAA-AATAAT
12235880 GGTTATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.05
15 17 0.77
16 3 0.14
17 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (15 bp):
AAAAAAATAATAAGG
Found at i:12236437 original size:12 final size:12
Alignment explanation
Indices: 12236420--12236456 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
12236410 AAAGCAGAAC
12236420 AAAGGAAAAAAA
1 AAAGGAAAAAAA
12236432 AAAGGAAAAACAA
1 AAAGGAAAAA-AA
*
12236445 AAAAGAAAAAAA
1 AAAGGAAAAAAA
12236457 CCAAATGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAGGAAAAAAA
Found at i:12237349 original size:33 final size:33
Alignment explanation
Indices: 12237312--12237674 Score: 164
Period size: 33 Copynumber: 10.7 Consensus size: 33
12237302 ATTCTAAAAA
12237312 ATTTAAGCCCAGTTTAGTTAGCACCCAATGAAG
1 ATTTAAGCCCAGTTTAGTTAGCACCCAATGAAG
* * * * *
12237345 ATTTAAACCTAATTTAGCTAGCACTCAATGGAAATTAAG
1 ATTTAAGCCCAGTTTAGTTAGCACCCAAT-G-----AAG
* * *
12237384 CCTAGTTTAAGCCCAATTTA-TATAGCACCTAATGAAA
1 ---A-TTTAAGCCCAGTTTAGT-TAGCACCCAATGAAG
* * * *
12237421 ATTAAAGCCCAGTTTAGTTGGCAGCTAATGAAAG
1 ATTTAAGCCCAGTTTAGTTAGCACCCAATG-AAG
* *
12237455 ATTTAAGCCCAGTTTAGCTAGCACCCAAT-AAA
1 ATTTAAGCCCAGTTTAGTTAGCACCCAATGAAG
* ** * *
12237487 ATTTAAGCCTAACTTAGCTAGCACCTAATGAA-
1 ATTTAAGCCCAGTTTAGTTAGCACCCAATGAAG
* * *
12237519 ATTTTTAAACCCAGATTA-TCTAGCACTC-ATGAAAAG
1 A--TTTAAGCCCAGTTTAGT-TAGCACCCAATG--AAG
* * * * *
12237555 ATTTAAGCCCAATTTAGTTGGCA-TCAATAAAT
1 ATTTAAGCCCAGTTTAGTTAGCACCCAATGAAG
* * * *
12237587 ATTTAACCCCAGATTA-TCTAGCATCCAAAGAAG
1 ATTTAAGCCCAGTTTAGT-TAGCACCCAATGAAG
* * * * *
12237620 TTTTAAGCTCAGTTTAGCTAGCACTCAATGAAA
1 ATTTAAGCCCAGTTTAGTTAGCACCCAATGAAG
** *
12237653 ATTTAAGGTCAGTTTAGCTAGC
1 ATTTAAGCCCAGTTTAGTTAGC
12237675 TTTTATGGAA
Statistics
Matches: 247, Mismatches: 58, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
31 1 0.00
32 47 0.19
33 102 0.41
34 64 0.26
35 3 0.01
36 1 0.00
37 2 0.01
39 3 0.01
42 2 0.01
43 22 0.09
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (33 bp):
ATTTAAGCCCAGTTTAGTTAGCACCCAATGAAG
Found at i:12237402 original size:43 final size:44
Alignment explanation
Indices: 12237346--12237436 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 44
12237336 CCAATGAAGA
* * * *
12237346 TTTAAACCTAATTTAGCTAGCA-CTCAATGGAAATT-AAGCCTAG
1 TTTAAACCCAATTTAGATAGCACCT-AATGAAAATTAAAGCCCAG
* *
12237389 TTTAAGCCCAATTTATATAGCACCTAATGAAAATTAAAGCCCAG
1 TTTAAACCCAATTTAGATAGCACCTAATGAAAATTAAAGCCCAG
12237433 TTTA
1 TTTA
12237437 GTTGGCAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 27 0.68
44 13 0.32
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (44 bp):
TTTAAACCCAATTTAGATAGCACCTAATGAAAATTAAAGCCCAG
Found at i:12237467 original size:34 final size:33
Alignment explanation
Indices: 12237389--12237674 Score: 176
Period size: 33 Copynumber: 8.6 Consensus size: 33
12237379 TTAAGCCTAG
*
12237389 TTTAAGCCCAATTTA-TATAGCACCTAATGAAAA
1 TTTAAGCCCAGTTTAGT-TAGCACCTAATGAAAA
* * *
12237422 TTAAAGCCCAGTTTAGTTGGCAGCTAATGAAAGA
1 TTTAAGCCCAGTTTAGTTAGCACCTAATGAAA-A
* *
12237456 TTTAAGCCCAGTTTAGCTAGCACCCAAT-AAAA
1 TTTAAGCCCAGTTTAGTTAGCACCTAATGAAAA
* ** * *
12237488 TTTAAGCCTAACTTAGCTAGCACCTAATGAAATT
1 TTTAAGCCCAGTTTAGTTAGCACCTAATGAAA-A
* * *
12237522 TTTAAACCCAGATTA-TCTAGCA-CTCATGAAAAGA
1 TTTAAGCCCAGTTTAGT-TAGCACCTAATG-AAA-A
* * *
12237556 TTTAAGCCCAATTTAGTTGGCATC-AAT-AAATA
1 TTTAAGCCCAGTTTAGTTAGCACCTAATGAAA-A
* * * **
12237588 TTTAACCCCAGATTA-TCTAGCATCC-AAAGAAGT
1 TTTAAGCCCAGTTTAGT-TAGCA-CCTAATGAAAA
* *
12237621 TTTAAGCTCAGTTTAGCTAGCA-CTCAATGAAAA
1 TTTAAGCCCAGTTTAGTTAGCACCT-AATGAAAA
** *
12237654 TTTAAGGTCAGTTTAGCTAGC
1 TTTAAGCCCAGTTTAGTTAGC
12237675 TTTTATGGAA
Statistics
Matches: 195, Mismatches: 44, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
31 2 0.01
32 45 0.23
33 82 0.42
34 64 0.33
35 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
TTTAAGCCCAGTTTAGTTAGCACCTAATGAAAA
Found at i:12237516 original size:66 final size:67
Alignment explanation
Indices: 12237389--12237674 Score: 228
Period size: 66 Copynumber: 4.3 Consensus size: 67
12237379 TTAAGCCTAG
* * * * * * *
12237389 TTTAAGCCCAATTTATATAGCACCTAATGAAA-ATTAAAGCCCAGTTTAGTTGGCAGCTAATGAA
1 TTTAAGCCCAGTTTATCTAGCACCCAATGAAAGATTTAAGCCCAATTTAGCTAGCA-CTAATGAA
*
12237453 AGA
65 ATA
* * *
12237456 TTTAAGCCCAGTTTAGCTAGCACCCAAT-AAA-ATTTAAGCCTAACTTAGCTAGCACCTAATGAA
1 TTTAAGCCCAGTTTATCTAGCACCCAATGAAAGATTTAAGCCCAATTTAGCTAGCA-CTAATGAA
*
12237519 ATT
65 ATA
* * * * *
12237522 TTTAAACCCAGATTATCTAGCACTC-ATGAAAAGATTTAAGCCCAATTTAGTTGGCA-TCAAT-A
1 TTTAAGCCCAGTTTATCTAGCACCCAATG-AAAGATTTAAGCCCAATTTAGCTAGCACT-AATGA
12237584 AATA
64 AATA
* * * * * * *
12237588 TTTAACCCCAGATTATCTAGCATCCAAAG-AAGTTTTAAGCTCAGTTTAGCTAGCACTCAATGAA
1 TTTAAGCCCAGTTTATCTAGCACCCAATGAAAGATTTAAGCCCAATTTAGCTAGCACT-AATGAA
12237652 A-A
65 ATA
** *
12237654 TTTAAGGTCAGTTTAGCTAGC
1 TTTAAGCCCAGTTTATCTAGC
12237675 TTTTATGGAA
Statistics
Matches: 176, Mismatches: 36, Indels: 15
0.78 0.16 0.07
Matches are distributed among these distances:
65 23 0.13
66 99 0.56
67 35 0.20
68 19 0.11
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (67 bp):
TTTAAGCCCAGTTTATCTAGCACCCAATGAAAGATTTAAGCCCAATTTAGCTAGCACTAATGAAA
TA
Found at i:12237608 original size:100 final size:99
Alignment explanation
Indices: 12237389--12237674 Score: 246
Period size: 99 Copynumber: 2.9 Consensus size: 99
12237379 TTAAGCCTAG
* * * * * *
12237389 TTTAAGCCCAATTTATATAGCACCTAATGAAA-ATTAAAGCCCAGTTTAGT-TGGCAGCTAATG-
1 TTTAACCCCAACTTATCTAGCACCTAATGAAATTTTAAA-CCCAGTTTA-TCTAGCA-CTCATGA
*
12237451 AAAGATTTAAGCCCAGTTTAGCTAGCACCCAATAAAA
63 AAAGATTTAAGCCCAATTTAGCTAGCACCCAATAAAA
* * * *
12237488 TTTAAGCCTAACTTAGCTAGCACCTAATGAAATTTTTAAACCCAGATTATCTAGCACTCATGAAA
1 TTTAACCCCAACTTATCTAGCACCTAATGAAA-TTTTAAACCCAGTTTATCTAGCACTCATGAAA
* * *
12237553 AGATTTAAGCCCAATTTAGTTGGCA-TCAATAAATA
65 AGATTTAAGCCCAATTTAGCTAGCACCCAATAAA-A
* * * * *
12237588 TTTAACCCCAGA-TTATCTAGCATCC-AAAGAAGTTTTAAGCTCAGTTTAGCTAGCACTCAATG-
1 TTTAACCCCA-ACTTATCTAGCA-CCTAATGAAATTTTAAACCCAGTTTATCTAGCACTC-ATGA
** *
12237650 AAA-ATTTAAGGTCAGTTTAGCTAGC
63 AAAGATTTAAGCCCAATTTAGCTAGC
12237675 TTTTATGGAA
Statistics
Matches: 153, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
98 17 0.11
99 66 0.43
100 62 0.41
101 8 0.05
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (99 bp):
TTTAACCCCAACTTATCTAGCACCTAATGAAATTTTAAACCCAGTTTATCTAGCACTCATGAAAA
GATTTAAGCCCAATTTAGCTAGCACCCAATAAAA
Found at i:12237905 original size:35 final size:35
Alignment explanation
Indices: 12237860--12237985 Score: 101
Period size: 35 Copynumber: 3.6 Consensus size: 35
12237850 TCAATCTCGA
* ** *
12237860 TCATCCTTATTTCCAAACTTGTGGCTTTGTCTTAG
1 TCATCTTTATTTCCAAACTTGCAGCTTAGTCTTAG
* * * *
12237895 TTATCTTTATTTTCTAACTTGCAGCTTAGTCTTGG
1 TCATCTTTATTTCCAAACTTGCAGCTTAGTCTTAG
* * * **
12237930 TCATCTTTATTCTTC-GACTTGCGGCTTAGTCCCAG
1 TCATCTTTATT-TCCAAACTTGCAGCTTAGTCTTAG
* *
12237965 TCATCTTTATTTTCTAACTTG
1 TCATCTTTATTTCCAAACTTG
12237986 AAGTTTCATC
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
34 3 0.04
35 68 0.92
36 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (35 bp):
TCATCTTTATTTCCAAACTTGCAGCTTAGTCTTAG
Found at i:12238077 original size:16 final size:16
Alignment explanation
Indices: 12238058--12238097 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
12238048 TTGACTTGTG
*
12238058 GTTTCTTCCACTTCAT
1 GTTTATTCCACTTCAT
12238074 GTTTATTCCACTTCAT
1 GTTTATTCCACTTCAT
12238090 GTTTATTC
1 GTTTATTC
12238098 TTCAACTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.15, C:0.25, G:0.07, T:0.53
Consensus pattern (16 bp):
GTTTATTCCACTTCAT
Found at i:12238185 original size:35 final size:36
Alignment explanation
Indices: 12238121--12238352 Score: 129
Period size: 35 Copynumber: 6.6 Consensus size: 36
12238111 TTAATCCCGA
* ****
12238121 TCATCTTTATTTTTTGAATTGTGGTTTCA-TCCTAG
1 TCATCTTTATTTTTTGACTTGCAACTTCAGTCCTAG
* * * *
12238156 TTATATTTATTTTTTGACTTGCAACTTCATTCCGA-
1 TCATCTTTATTTTTTGACTTGCAACTTCAGTCCTAG
* * * *
12238191 TCATCTTTATTTTTTTAACTTGC-AGTTTAGT-CTCG
1 TCATCTTTA-TTTTTTGACTTGCAACTTCAGTCCTAG
* * **
12238226 ATTATCTTTATTTTTTGACTTACAGTTTCA-TCCCT-G
1 -TCATCTTTATTTTTTGACTTGCAACTTCAGT-CCTAG
* * *
12238262 TCATCTTTATTTTTTGACTTGCAGCTT-AGTCCCAA
1 TCATCTTTATTTTTTGACTTGCAACTTCAGTCCTAG
* * ** * * *
12238297 TCATCTTTATTTTCTAACTTGTGACTTTA-TCTTGG
1 TCATCTTTATTTTTTGACTTGCAACTTCAGTCCTAG
*
12238332 TCATCTTTATTTATTGACTTG
1 TCATCTTTATTTTTTGACTTG
12238353 TGAATCCATC
Statistics
Matches: 148, Mismatches: 39, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
34 4 0.03
35 113 0.76
36 29 0.20
37 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.53
Consensus pattern (36 bp):
TCATCTTTATTTTTTGACTTGCAACTTCAGTCCTAG
Found at i:12238271 original size:106 final size:105
Alignment explanation
Indices: 12238118--12238348 Score: 261
Period size: 106 Copynumber: 2.2 Consensus size: 105
12238108 GGCTTAATCC
*** *
12238118 CGATCATCTTTATTTTTTGAATTGTGGTTTCATCCTAGTTATATTTATTTTTTGACTTGCAACTT
1 CGATCATCTTTATTTTTTGAATTACAGTTTCATCCTAGTCATATTTATTTTTTGACTTGCAACTT
* * *
12238183 CA-TTCCGATCATCTTTATTTTTTTAACTTGCAGTTTAGTCT
66 -AGTCCCAATCATCTTTA-TTTTCTAACTTGCAGTTTAGTCT
* * * *
12238224 CGATTATCTTTATTTTTTGACTTACAGTTTCATCCCT-GTCATCTTTATTTTTTGACTTGCAGCT
1 CGATCATCTTTATTTTTTGAATTACAGTTTCAT-CCTAGTCATATTTATTTTTTGACTTGCAACT
* *
12238288 TAGTCCCAATCATCTTTATTTTCTAACTTGTGACTTTA-TCT
65 TAGTCCCAATCATCTTTATTTTCTAACTTG-CAGTTTAGTCT
* * *
12238329 TGGTCATCTTTATTTATTGA
1 CGATCATCTTTATTTTTTGA
12238349 CTTGTGAATC
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
105 31 0.30
106 71 0.68
107 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.52
Consensus pattern (105 bp):
CGATCATCTTTATTTTTTGAATTACAGTTTCATCCTAGTCATATTTATTTTTTGACTTGCAACTT
AGTCCCAATCATCTTTATTTTCTAACTTGCAGTTTAGTCT
Found at i:12238335 original size:70 final size:70
Alignment explanation
Indices: 12238191--12238352 Score: 175
Period size: 70 Copynumber: 2.3 Consensus size: 70
12238181 TTCATTCCGA
* * * * * * * *
12238191 TCATCTTTATTTTTTTAACTTGCAGTTTAGTCTCGATTATCTTTATTTTTTGACTTACAGTTTCA
1 TCATCTTTA-TTTTTTGACTTGCAGCTTAGTCCCAATCATCTTTATTTTCTAACTTACACTTTCA
12238256 TCCCTG
65 TCCCTG
**
12238262 TCATCTTTATTTTTTGACTTGCAGCTTAGTCCCAATCATCTTTATTTTCTAACTTGTGACTTT-A
1 TCATCTTTATTTTTTGACTTGCAGCTTAGTCCCAATCATCTTTATTTTCTAACTT-ACACTTTCA
*
12238326 T-CTTGG
65 TCCCT-G
*
12238332 TCATCTTTATTTATTGACTTG
1 TCATCTTTATTTTTTGACTTG
12238353 TGAATCCATC
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
69 2 0.03
70 62 0.81
71 13 0.17
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (70 bp):
TCATCTTTATTTTTTGACTTGCAGCTTAGTCCCAATCATCTTTATTTTCTAACTTACACTTTCAT
CCCTG
Found at i:12238431 original size:62 final size:62
Alignment explanation
Indices: 12238365--12238606 Score: 224
Period size: 62 Copynumber: 3.9 Consensus size: 62
12238355 AATCCATCCC
* * * **
12238365 AGTCACCTCATTTC-ACCTGTAATTTAATCTTGGTCACTTCATTTGACTTGTGGCTTAGTCCT
1 AGTCACCTCA-TTCGACTTGTAATTTAATCTCGATCACTTCATTCAACTTGTGGCTTAGTCCT
* * * * *
12238427 AGTCATCTCATTCGACTTGTAGTTTAATGTCGATCACTTCATTCAATTTGTGGCTTAGT-AT
1 AGTCACCTCATTCGACTTGTAATTTAATCTCGATCACTTCATTCAACTTGTGGCTTAGTCCT
* * * * * * *
12238488 CGTTCACCTTATTCGACTTGCAATTCAATCTTGATCACTTCATTCGACTTATGGCTTAGTCC-
1 AG-TCACCTCATTCGACTTGTAATTTAATCTCGATCACTTCATTCAACTTGTGGCTTAGTCCT
** *
12238550 AGGTCACCTCATTTAACTTGTAGTTTAATCTC-AGTCACCTT-ATTCAACTTGTGGCTT
1 A-GTCACCTCATTCGACTTGTAATTTAATCTCGA-TCA-CTTCATTCAACTTGTGGCTT
12238607 GTCTCGATCA
Statistics
Matches: 142, Mismatches: 32, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
61 6 0.04
62 132 0.93
63 4 0.03
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (62 bp):
AGTCACCTCATTCGACTTGTAATTTAATCTCGATCACTTCATTCAACTTGTGGCTTAGTCCT
Found at i:12238469 original size:31 final size:31
Alignment explanation
Indices: 12238434--12238537 Score: 84
Period size: 31 Copynumber: 3.4 Consensus size: 31
12238424 CCTAGTCATC
*
12238434 TCATTCGACTTGTAGTTTAATGTCGATCACT
1 TCATTCGACTTGTAGTTTAATATCGATCACT
* * * * * *
12238465 TCATTCAATTTGTGGCTTAGTATCGTTCACCT
1 TCATTCGACTTGTAGTTTAATATCGATCA-CT
* * * * *
12238497 T-ATTCGACTTGCAATTCAATCTTGATCACT
1 TCATTCGACTTGTAGTTTAATATCGATCACT
12238527 TCATTCGACTT
1 TCATTCGACTT
12238538 ATGGCTTAGT
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
30 3 0.06
31 47 0.89
32 3 0.06
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (31 bp):
TCATTCGACTTGTAGTTTAATATCGATCACT
Found at i:12238527 original size:124 final size:124
Alignment explanation
Indices: 12238385--12238623 Score: 315
Period size: 124 Copynumber: 1.9 Consensus size: 124
12238375 TTTCACCTGT
* * * * * *
12238385 AATTTAATCTTGGTCACTTCATTTGACTTGTGGCTTAGTCCTA-GTCATCTCATTCGACTTGTAG
1 AATTCAATCTTGATCACTTCATTCGACTTATGGCTTAGTCC-AGGTCACCTCATTCAACTTGTAG
* * *
12238449 TTTAATGTC-GATCA-CTTCATTCAATTTGTGGCTTAGTATCGTTCA-CCTTATTCGACTTGC
65 TTTAATCTCAG-TCACCTT-ATTCAACTTGTGGCTT-GTATCGATCATCCTTATTCGACTTGC
*
12238509 AATTCAATCTTGATCACTTCATTCGACTTATGGCTTAGTCCAGGTCACCTCATTTAACTTGTAGT
1 AATTCAATCTTGATCACTTCATTCGACTTATGGCTTAGTCCAGGTCACCTCATTCAACTTGTAGT
*
12238574 TTAATCTCAGTCACCTTATTCAACTTGTGGCTTGTCTCGATCATCCTTAT
66 TTAATCTCAGTCACCTTATTCAACTTGTGGCTTGTATCGATCATCCTTAT
12238624 CTTTCAACTC
Statistics
Matches: 100, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
123 9 0.09
124 87 0.87
125 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (124 bp):
AATTCAATCTTGATCACTTCATTCGACTTATGGCTTAGTCCAGGTCACCTCATTCAACTTGTAGT
TTAATCTCAGTCACCTTATTCAACTTGTGGCTTGTATCGATCATCCTTATTCGACTTGC
Found at i:12239290 original size:10 final size:10
Alignment explanation
Indices: 12239275--12239305 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12239265 AGATTTGATG
12239275 GCCCAAAATA
1 GCCCAAAATA
12239285 GCCCAAAATA
1 GCCCAAAATA
*
12239295 ACCCAAAATA
1 GCCCAAAATA
12239305 G
1 G
12239306 GAGCTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.29, G:0.10, T:0.10
Consensus pattern (10 bp):
GCCCAAAATA
Found at i:12240709 original size:204 final size:203
Alignment explanation
Indices: 12240355--12240745 Score: 658
Period size: 204 Copynumber: 1.9 Consensus size: 203
12240345 GTTGCTATAT
* * *
12240355 TATCGTTCTTTGCTCGCAAAAAGGAATTTTTTTCTCTGCAATAAAATTGGGAAGGAATACTTGAA
1 TATCATTCTTTGCTCGCAAAAAGGAATTTTTTTCTCTGCAATAAAAATGGGAAGGAAGACTTGAA
* *
12240420 AGTTATGTAGAATAATAATCAGAAAGGGTTCATAGAGGTTTTGTGATTATATTTTGTTAAAATGT
66 ACTTATGTAGAAGAATAATCAGAAAGGGTTCATAGAGGTTTTGTGATTATATTTTGTTAAAATGT
*
12240485 GTTTTCAAACCAGGTTTTGGTCTTTCTACCATCATAAGAGCTTGAGGTACTGCTTATGTTTATGG
131 GTATTCAAACCAGGTTTTGGTCTTTCTACCATCATAAGAGCTTGAGGTACTGCTTATGTTTATGG
12240550 TTGCAAAA
196 TTGCAAAA
* *
12240558 TATCATTCTTTGCTTGCAAAAAGGATTTTTTTTTCTCTGCAATAAAAATGGGAAGGAAGACTTGA
1 TATCATTCTTTGCTCGCAAAAAGGA-ATTTTTTTCTCTGCAATAAAAATGGGAAGGAAGACTTGA
* *
12240623 TACTTATGTAGAAGAGA-AATCAGAAAGGGTTCATGGAGGTTTTGTGATTATATTTTGTTAAAAT
65 AACTTATGTAGAAGA-ATAATCAGAAAGGGTTCATAGAGGTTTTGTGATTATATTTTGTTAAAAT
*
12240687 GTGTATTCAAACCAGGTTTTGGTCTTTCTACCGTCATAAGAGCTTGAGGTACTGCTTAT
129 GTGTATTCAAACCAGGTTTTGGTCTTTCTACCATCATAAGAGCTTGAGGTACTGCTTAT
12240746 ATTTTTTTTC
Statistics
Matches: 175, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
203 23 0.13
204 151 0.86
205 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (203 bp):
TATCATTCTTTGCTCGCAAAAAGGAATTTTTTTCTCTGCAATAAAAATGGGAAGGAAGACTTGAA
ACTTATGTAGAAGAATAATCAGAAAGGGTTCATAGAGGTTTTGTGATTATATTTTGTTAAAATGT
GTATTCAAACCAGGTTTTGGTCTTTCTACCATCATAAGAGCTTGAGGTACTGCTTATGTTTATGG
TTGCAAAA
Found at i:12241200 original size:18 final size:18
Alignment explanation
Indices: 12241170--12241208 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12241160 GAGAAATTAT
12241170 TAAATATTAAAATAATAA
1 TAAATATTAAAATAATAA
*
12241188 TAAAT-TTATAAATTATAA
1 TAAATATTA-AAATAATAA
12241206 TAA
1 TAA
12241209 TAATAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATTAAAATAATAA
Found at i:12241524 original size:25 final size:26
Alignment explanation
Indices: 12241467--12241531 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
12241457 AATGTCAAAG
12241467 TCAAAACCCTAAATGAAACCATAAAA
1 TCAAAACCCTAAATGAAACCATAAAA
* *
12241493 TCAAAACCTTAAA-GAAACCCA-AAAC
1 TCAAAACCCTAAATGAAA-CCATAAAA
*
12241518 TCGAAACCCTAAAT
1 TCAAAACCCTAAAT
12241532 AGGCATTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.54, C:0.26, G:0.05, T:0.15
Consensus pattern (26 bp):
TCAAAACCCTAAATGAAACCATAAAA
Found at i:12241924 original size:24 final size:25
Alignment explanation
Indices: 12241892--12241939 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
12241882 TCATCAATAA
12241892 TTATCATTTACAAA-GAATGTTATT
1 TTATCATTTACAAAGGAATGTTATT
* **
12241916 TTATTATTTTTAAAGGAATGTTAT
1 TTATCATTTACAAAGGAATGTTAT
12241940 GATAGATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.50
Consensus pattern (25 bp):
TTATCATTTACAAAGGAATGTTATT
Found at i:12246222 original size:21 final size:21
Alignment explanation
Indices: 12246199--12246238 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12246189 AGATAAAAAT
12246199 TTTTTATCT-TTCATTTATTA
1 TTTTTATCTATTCATTTATTA
*
12246219 TTTTTATCTATTTATTTATT
1 TTTTTATCTATTCATTTATT
12246239 TTATTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATCTATTCATTTATTA
Found at i:12246233 original size:17 final size:16
Alignment explanation
Indices: 12246211--12246248 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
12246201 TTTATCTTTC
12246211 ATTTA-TTATTTTTATCT
1 ATTTATTTA-TTTTAT-T
12246228 ATTTATTTATTTTATT
1 ATTTATTTATTTTATT
12246244 ATTTA
1 ATTTA
12246249 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 11 0.55
18 3 0.15
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTATTTATTTTATT
Found at i:12246245 original size:20 final size:18
Alignment explanation
Indices: 12246197--12246245 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
12246187 TCAGATAAAA
12246197 ATTTTTTATCTTTCATTT
1 ATTTTTTATCTTTCATTT
*
12246215 ATTATTTTTATCTATTTATTT
1 A-T-TTTTTATCT-TTCATTT
12246236 ATTTTATTAT
1 ATTTT-TTAT
12246246 TTAATAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 4 0.15
20 14 0.54
21 7 0.27
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTATCTTTCATTT
Found at i:12248016 original size:58 final size:58
Alignment explanation
Indices: 12247941--12248095 Score: 152
Period size: 58 Copynumber: 2.7 Consensus size: 58
12247931 AGAAAACTCG
* * * * ** *
12247941 GATATTGCCATCGAGAAAGTACAAATGACTACAGATATTGCCACTAAA-GGAAAATAAA
1 GATATTGCCACCAAGAAAATACAAATGACTACAAATATCACCACCAAAGGGAAAAT-AA
* * * *
12247999 GATATTGCCACCAAGAAAATGCAAATGACTTCAAATATCACCACCAAAGGGAAACTTA
1 GATATTGCCACCAAGAAAATACAAATGACTACAAATATCACCACCAAAGGGAAAATAA
* **
12248057 GATATTGCCACCAA-AACAATGCAAATGACTTTAAATATC
1 GATATTGCCACCAAGAA-AATACAAATGACTACAAATATC
12248096 GCCATCGAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.02
58 75 0.90
59 6 0.07
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.21
Consensus pattern (58 bp):
GATATTGCCACCAAGAAAATACAAATGACTACAAATATCACCACCAAAGGGAAAATAA
Found at i:12248792 original size:64 final size:64
Alignment explanation
Indices: 12248702--12248941 Score: 250
Period size: 64 Copynumber: 3.7 Consensus size: 64
12248692 ATATCGTCAT
* * * * * *
12248702 CGAAGACTTTAAAAACAATTTAGATGTCACCACCAAAGATTTGAGAAAATTTAAAGATCT-CCAC
1 CGAAGACTTTGAAAATAGTTTGGATGTCACCACCAAAGATTTGAAAAAATTCAAAGAT-TGCCAC
*
12248766 TGAAGACTTTGAAAATAGTTTGGATGTCACCACCAAAGATTTGAAAAAATTCAAAGATTGCCAC
1 CGAAGACTTTGAAAATAGTTTGGATGTCACCACCAAAGATTTGAAAAAATTCAAAGATTGCCAC
* * ** * * **
12248830 CGAAAACTTTGAAAATAGTTTGGATATCACCATTAAAGATTTGCAAAAAAAATTCAGATATACCC
1 CGAAGACTTTGAAAATAGTTTGGATGTCACCACCAAAGATTTG---AAAAAATTCAAAGATTGCC
12248895 AC
63 AC
* * * *
12248897 CG-AGCATTTTAAAAATATTTTGGATGTCACCACCAAAAATTTGAA
1 CGAAG-ACTTTGAAAATAGTTTGGATGTCACCACCAAAGATTTGAA
12248942 TATCTTTTTT
Statistics
Matches: 147, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
63 1 0.01
64 95 0.65
66 1 0.01
67 50 0.34
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (64 bp):
CGAAGACTTTGAAAATAGTTTGGATGTCACCACCAAAGATTTGAAAAAATTCAAAGATTGCCAC
Found at i:12249755 original size:23 final size:24
Alignment explanation
Indices: 12249710--12249755 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
12249700 TTTATTTTTC
**
12249710 TCAAAATTGTTTATTTTTTTTCCA
1 TCAAAATTGTTTATTTTCCTTCCA
*
12249734 TCAAACTT-TTTATTTTCCTTCC
1 TCAAAATTGTTTATTTTCCTTCC
12249756 CCAAATCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.22, C:0.20, G:0.02, T:0.57
Consensus pattern (24 bp):
TCAAAATTGTTTATTTTCCTTCCA
Found at i:12252507 original size:12 final size:12
Alignment explanation
Indices: 12252490--12252533 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
12252480 TCACCTAAAT
12252490 TAAATGAAGATC
1 TAAATGAAGATC
12252502 TAAATGAAGAATC
1 TAAATGAAG-ATC
* *
12252515 -AATTAAAGATC
1 TAAATGAAGATC
12252526 TAAATGAA
1 TAAATGAA
12252534 CAAATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.25
Consensus pattern (12 bp):
TAAATGAAGATC
Found at i:12252542 original size:24 final size:24
Alignment explanation
Indices: 12252496--12252542 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12252486 AAATTAAATG
*
12252496 AAGATCTAAATGAAGAATCAATTA
1 AAGATCTAAATGAAAAATCAATTA
12252520 AAGATCTAAATGAACAAAT-AATT
1 AAGATCTAAATGAA-AAATCAATT
12252543 TTCAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.26
Consensus pattern (24 bp):
AAGATCTAAATGAAAAATCAATTA
Found at i:12255824 original size:43 final size:42
Alignment explanation
Indices: 12255755--12255877 Score: 106
Period size: 43 Copynumber: 2.9 Consensus size: 42
12255745 TGTGAAATCT
*
12255755 TAAAGTTTTGCAAATAAGAATCTTTGAAATTTTGGATGTGGTC
1 TAAAGTTTTGCAAATAAGAATATTTG-AATTTTGGATGTGGTC
* * * *
12255798 TAAAGTTTTTCGAATGAA-AATATTTGAATTTTGGGTGTGAACCTC
1 TAAAGTTTTGCAAAT-AAGAATATTTGAATTTTGGATGTG---GTC
* * * *
12255843 TAAAATTTT-CAAATATGAATATTTTAATTATGGAT
1 TAAAGTTTTGCAAATAAGAATATTTGAATTTTGGAT
12255878 ACGAGCCTTG
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
42 12 0.19
43 21 0.33
44 21 0.33
45 10 0.16
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (42 bp):
TAAAGTTTTGCAAATAAGAATATTTGAATTTTGGATGTGGTC
Found at i:12256081 original size:18 final size:18
Alignment explanation
Indices: 12256042--12256083 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
12256032 GAGTTCTTGT
*
12256042 GAATCCTTGAAATTTTAA
1 GAATCTTTGAAATTTTAA
*
12256060 GAATCTTTG-AATTCTTAC
1 GAATCTTTGAAATT-TTAA
12256078 GAATCT
1 GAATCT
12256084 GAAAAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (18 bp):
GAATCTTTGAAATTTTAA
Found at i:12256170 original size:44 final size:44
Alignment explanation
Indices: 12256116--12256201 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
12256106 TTCTTGTGAA
*
12256116 TTTGAAATCTTGCAAACCTTTGAATTTTTATGAATCTTAAAATTT
1 TTTGAAATCTTGCAAACCTTTGAATTCTTATGAATC-TAAAATTT
** *
12256161 TTTG-AATCTTTTAAATCTTTGAATTCTTATGAATCTAAAAT
1 TTTGAAATCTTGCAAACCTTTGAATTCTTATGAATCTAAAAT
12256202 CTAGCAAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 6 0.16
44 27 0.73
45 4 0.11
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (44 bp):
TTTGAAATCTTGCAAACCTTTGAATTCTTATGAATCTAAAATTT
Found at i:12256195 original size:18 final size:17
Alignment explanation
Indices: 12256146--12256196 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
12256136 TGAATTTTTA
*
12256146 TGAATCTTA-AAATTTTT
1 TGAATCTTATAAA-TCTT
*
12256163 TGAATCTTTTAAATCTT
1 TGAATCTTATAAATCTT
*
12256180 TGAATTCTTATGAATCT
1 TGAA-TCTTATAAATCT
12256197 AAAATCTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (17 bp):
TGAATCTTATAAATCTT
Found at i:12256229 original size:51 final size:52
Alignment explanation
Indices: 12256174--12256286 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 52
12256164 GAATCTTTTA
*
12256174 AATCTTTGAATTCTTATGAATCTAAA-ATCTAGCAAACCTTCAATTCTTACG
1 AATCTTTGAATTCTTATGAATATAAATATCTAGCAAACCTTCAATTCTTACG
* * * *
12256225 AATC-TTCAATTCTTATGAATATAAATATCTTGCAAACCTTTAATTTTTACG
1 AATCTTTGAATTCTTATGAATATAAATATCTAGCAAACCTTCAATTCTTACG
*
12256276 AACCTTTGAAT
1 AATCTTTGAAT
12256287 CATTGAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 19 0.36
51 29 0.55
52 5 0.09
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (52 bp):
AATCTTTGAATTCTTATGAATATAAATATCTAGCAAACCTTCAATTCTTACG
Found at i:12256233 original size:17 final size:17
Alignment explanation
Indices: 12256211--12256244 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12256201 TCTAGCAAAC
12256211 CTTCAATTCTTACGAAT
1 CTTCAATTCTTACGAAT
*
12256228 CTTCAATTCTTATGAAT
1 CTTCAATTCTTACGAAT
12256245 ATAAATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (17 bp):
CTTCAATTCTTACGAAT
Found at i:12256336 original size:22 final size:22
Alignment explanation
Indices: 12256284--12256336 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
12256274 CGAACCTTTG
*
12256284 AATCATTGAATTTCAAATTATA
1 AATCATTGAATTTCAAATTAGA
* * * *
12256306 AACCCTTGAATTTCAAGTTGGA
1 AATCATTGAATTTCAAATTAGA
*
12256328 AATCTTTGA
1 AATCATTGA
12256337 CTTTTATTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (22 bp):
AATCATTGAATTTCAAATTAGA
Found at i:12257619 original size:28 final size:24
Alignment explanation
Indices: 12257587--12257649 Score: 65
Period size: 28 Copynumber: 2.5 Consensus size: 24
12257577 ACGCAGATTC
12257587 AAGAAAAACAAATTGAAGTAAAAAATTA
1 AAGAAAAACAAATTG-A-TAAAAAA--A
* *
12257615 AAGAAGATCAAATTGATAAAAAAA
1 AAGAAAAACAAATTGATAAAAAAA
12257639 AA-AAAAACAAA
1 AAGAAAAACAAA
12257650 AGTTGAGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 7 0.23
24 3 0.10
26 7 0.23
27 1 0.03
28 13 0.42
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (24 bp):
AAGAAAAACAAATTGATAAAAAAA
Found at i:12260176 original size:2 final size:2
Alignment explanation
Indices: 12260171--12260220 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
12260161 AAAAAAAAAA
12260171 AT AT AT AT AT AT 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 AT AT AT AT AT AT
12260213 AT AT AT AT
1 AT AT AT AT
12260221 GGAGGGCTAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12264791 original size:42 final size:42
Alignment explanation
Indices: 12264728--12265027 Score: 293
Period size: 42 Copynumber: 7.1 Consensus size: 42
12264718 TTTGGGTTTT
* *
12264728 TATTTTTAAAGTTG-TGAGCCTCTGTTAAGAGGAGCCTTGTA
1 TATTTTTAAAGTTGTTAAGCCTCTGTTAAGAGGAGCCTTCTA
* * *
12264769 TATTTTTAAAGTTGTTAAGCCTCTATTTAGAGGAGCCTTTTA
1 TATTTTTAAAGTTGTTAAGCCTCTGTTAAGAGGAGCCTTCTA
* * *
12264811 TATTTTTTAAACTTGTTAAGCCTCTATTTAA-AGGAGACTTCTA
1 TA-TTTTTAAAGTTGTTAAGCCTCT-GTTAAGAGGAGCCTTCTA
* * * *
12264854 TATTTTTAAAGTTGTTGAGCTTCTGTTTAA-ATGAGCTTTCTGTA
1 TATTTTTAAAGTTGTTAAGCCTCTG-TTAAGAGGAGCCTTC--TA
* * * **
12264898 TTATTTTTAAAGTTGTTAAGCCTTTATTTAGAAAAGCCTTCTA
1 -TATTTTTAAAGTTGTTAAGCCTCTGTTAAGAGGAGCCTTCTA
* * *
12264941 TATTTTTAAAGTTGTTACGCCTCTGTTTAGAGAAGCCTTCTA
1 TATTTTTAAAGTTGTTAAGCCTCTGTTAAGAGGAGCCTTCTA
* * * *
12264983 TCTTTTTAAAGTTGTTGAGCCTCTATTTAA-AGGAGCCTTATA
1 TATTTTTAAAGTTGTTAAGCCTCT-GTTAAGAGGAGCCTTCTA
12265025 TAT
1 TAT
12265028 ATATTTTTAA
Statistics
Matches: 214, Mismatches: 36, Indels: 17
0.80 0.13 0.06
Matches are distributed among these distances:
41 14 0.07
42 126 0.59
43 38 0.18
44 8 0.04
45 28 0.13
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (42 bp):
TATTTTTAAAGTTGTTAAGCCTCTGTTAAGAGGAGCCTTCTA
Found at i:12264926 original size:87 final size:83
Alignment explanation
Indices: 12264728--12265027 Score: 340
Period size: 87 Copynumber: 3.5 Consensus size: 83
12264718 TTTGGGTTTT
* * *
12264728 TATTTTTAAAGTTG-TGAGCCTCT-GTTAAGAGGAGCCTTGTATATTTTTAAAGTTGTTAAGCCT
1 TATTTTTAAAGTTGTTAAGCCTCTATTTAA-AGGAGCCTTCTATATTTTTAAAGTTGTT-AGCCT
*
12264791 CTATTTAGAGGAGCCTT-TTA
64 CTGTTTAGA-GAGCCTTCTTA
* * *
12264811 TATTTTTTAAACTTGTTAAGCCTCTATTTAAAGGAGACTTCTATATTTTTAAAGTTGTTGAGCTT
1 TA-TTTTTAAAGTTGTTAAGCCTCTATTTAAAGGAGCCTTCTATATTTTTAAAGTTGTT-AGCCT
* *
12264876 CTGTTTAAATGAGCTTTCTGTA
64 CTGTTTAGA-GAGCCTTCT-TA
* *
12264898 TTATTTTTAAAGTTGTTAAGCCTTTATTTAGAA-AAGCCTTCTATATTTTTAAAGTTGTTACGCC
1 -TATTTTTAAAGTTGTTAAGCCTCTATTTA-AAGGAGCCTTCTATATTTTTAAAGTTGTTA-GCC
12264962 TCTGTTTAGAGAAGCCTTC-TA
63 TCTGTTTAGAG-AGCCTTCTTA
* * *
12264983 TCTTTTTAAAGTTGTTGAGCCTCTATTTAAAGGAGCCTTATATAT
1 TATTTTTAAAGTTGTTAAGCCTCTATTTAAAGGAGCCTTCTATAT
12265028 ATATTTTTAA
Statistics
Matches: 184, Mismatches: 23, Indels: 19
0.81 0.10 0.08
Matches are distributed among these distances:
83 4 0.02
84 48 0.26
85 53 0.29
86 7 0.04
87 68 0.37
88 4 0.02
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (83 bp):
TATTTTTAAAGTTGTTAAGCCTCTATTTAAAGGAGCCTTCTATATTTTTAAAGTTGTTAGCCTCT
GTTTAGAGAGCCTTCTTA
Found at i:12264997 original size:129 final size:128
Alignment explanation
Indices: 12264728--12265038 Score: 396
Period size: 129 Copynumber: 2.4 Consensus size: 128
12264718 TTTGGGTTTT
*
12264728 TATTTTTAAAGTTG-TGAGCCTCTG-TTAAGAGGAGCCTTGTA-TATTTTTAAAGTTGTTAAGCC
1 TATTTTTAAAGTTGTTGAGCCTCTGTTTAA-AGGAGCTTTGTATTATTTTTAAAGTTGTTAAGCC
** * *
12264790 TCTATTTAGAGGAGCCTTTTATATTTTTTAAACTTGTTAAGCCTCTATTTAAAGGAGACTTCTA
65 TCTATTTAGAAAAGCCTTCTATATTTTTTAAACTTGTTAAGCCTCTATTTAAAGAAGACTTCTA
* *
12264854 TATTTTTAAAGTTGTTGAGCTTCTGTTTAAATGAGCTTTCTGTATTATTTTTAAAGTTGTTAAGC
1 TATTTTTAAAGTTGTTGAGCCTCTGTTTAAAGGAGC-TT-TGTATTATTTTTAAAGTTGTTAAGC
* * * * * *
12264919 CTTTATTTAGAAAAGCCTTCTATA-TTTTTAAAGTTGTTACGCCTCTGTTTAGAGAAGCCTTCTA
64 CTCTATTTAGAAAAGCCTTCTATATTTTTTAAACTTGTTAAGCCTCTATTTAAAGAAGACTTCTA
* * *
12264983 TCTTTTTAAAGTTGTTGAGCCTCTATTTAAAGGAGCCTTATATATATATTTTTAAA
1 TATTTTTAAAGTTGTTGAGCCTCTGTTTAAAGGAG-CTT-TGTAT-TATTTTTAAA
12265039 AAATATTGAG
Statistics
Matches: 159, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
126 14 0.09
127 14 0.09
128 5 0.03
129 75 0.47
130 51 0.32
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (128 bp):
TATTTTTAAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTGTATTATTTTTAAAGTTGTTAAGCCT
CTATTTAGAAAAGCCTTCTATATTTTTTAAACTTGTTAAGCCTCTATTTAAAGAAGACTTCTA
Found at i:12265434 original size:8 final size:7
Alignment explanation
Indices: 12265419--12265448 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
12265409 CATATAGCCC
12265419 TATATTT
1 TATATTT
12265426 TATATTT
1 TATATTT
12265433 T-TATTT
1 TATATTT
12265439 TATATTT
1 TATATTT
12265446 TAT
1 TAT
12265449 TAATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TATATTT
Found at i:12265439 original size:13 final size:13
Alignment explanation
Indices: 12265421--12265446 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12265411 TATAGCCCTA
12265421 TATTTTATATTTT
1 TATTTTATATTTT
12265434 TATTTTATATTTT
1 TATTTTATATTTT
12265447 ATTAATTTAA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTATATTTT
Found at i:12266513 original size:15 final size:15
Alignment explanation
Indices: 12266493--12266545 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
12266483 TCATCTATAT
12266493 TTTATTTATTTGTTA
1 TTTATTTATTTGTTA
* *
12266508 TTTATTTATTTATTG
1 TTTATTTATTTGTTA
* *
12266523 TTCATTTATTTGTAA
1 TTTATTTATTTGTTA
*
12266538 TTTTTTTA
1 TTTATTTA
12266546 AAAAAGAAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTATTTATTTGTTA
Found at i:12266530 original size:30 final size:29
Alignment explanation
Indices: 12266447--12266545 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 29
12266437 TATTTTCTAT
12266447 TTATTTATTTATTTAATTTATCTATTTATTTG
1 TTATTTATTTATTT-ATTT-TC-ATTTATTTG
*
12266479 TT-TTTCATCTA--TATTTT-ATTTATTTG
1 TTATTT-ATTTATTTATTTTCATTTATTTG
12266505 TTATTTATTTATTTATTGTTCATTTATTTG
1 TTATTTATTTATTTATT-TTCATTTATTTG
* *
12266535 TAATTTTTTTA
1 TTATTTATTTA
12266546 AAAAAGAAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
26 15 0.26
27 3 0.05
28 5 0.09
29 6 0.11
30 19 0.33
31 3 0.05
32 6 0.11
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (29 bp):
TTATTTATTTATTTATTTTCATTTATTTG
Found at i:12266533 original size:4 final size:4
Alignment explanation
Indices: 12266428--12266521 Score: 81
Period size: 4 Copynumber: 24.5 Consensus size: 4
12266418 TCCTGGTATT
* *
12266428 TTTA TTT- TTTA TTT- TCTA TTTA TTTA TTTA TTTAA TTTA TCTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA
* * * * *
12266475 TTTG TTT- TTCA TCTA TAT- TTTA TTTA TTT- GTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
12266520 TT
1 TT
12266522 GTTCATTTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
3 11 0.15
4 57 0.79
5 4 0.06
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:12270680 original size:17 final size:18
Alignment explanation
Indices: 12270660--12270704 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
12270650 TAATTTTCAG
12270660 TTTTT-GTAACA-TTTTA
1 TTTTTAGTAACATTTTTA
*
12270676 TTTTTAGTAATATTTTTA
1 TTTTTAGTAACATTTTTA
*
12270694 TTTTTACTAAC
1 TTTTTAGTAAC
12270705 TATCTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 5 0.21
17 5 0.21
18 14 0.58
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTAGTAACATTTTTA
Found at i:12271067 original size:28 final size:28
Alignment explanation
Indices: 12270976--12271300 Score: 226
Period size: 29 Copynumber: 11.3 Consensus size: 28
12270966 AAATTAGTTA
* * * *
12270976 AATATTAAATTATTATTATATTTATATT
1 AATATTAAAATATTATTAAAATAATATT
* * * *
12271004 AAAATAATAAAAAACTATTAAAATGATATGT
1 --AATATTAAAATATTATTAAAATAATAT-T
*
12271035 AATATTCAAATATTATTAAAAT-ATATT
1 AATATTAAAATATTATTAAAATAATATT
* *
12271062 CAATATTAAAATAATATTAAAGTAATATT
1 -AATATTAAAATATTATTAAAATAATATT
* **
12271091 AATATTAAAATATTACTAATTTAATATTT
1 AATATTAAAATATTATTAAAATAATA-TT
*
12271120 AGTA-TAAAATATTATTAAAATAATATT
1 AATATTAAAATATTATTAAAATAATATT
* *
12271147 AAATATTAAAATATGATTAAAATAAAATT
1 -AATATTAAAATATTATTAAAATAATATT
* * * *
12271176 AGGTATTCAAATATTATTCAAATAATATAA
1 A-ATATTAAAATATTATTAAAATAATAT-T
* * **
12271206 AATATTAAAAAATTATTTATTTAATATTT
1 AATATTAAAATATTATTAAAATAATA-TT
* **
12271235 AATATTAACATAAAATTAAAAATAATA-T
1 AATATTAAAATATTATT-AAAATAATATT
* * *
12271263 AAAATTAATTAAATAATATTAAAATATTATT
1 AATATT-A--AAATATTATTAAAATAATATT
12271294 AA-ATTAA
1 AATATTAA
12271301 TATTTAATAG
Statistics
Matches: 232, Mismatches: 49, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
27 4 0.02
28 73 0.31
29 104 0.45
30 39 0.17
31 12 0.05
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
AATATTAAAATATTATTAAAATAATATT
Found at i:12271077 original size:20 final size:21
Alignment explanation
Indices: 12271036--12271078 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
12271026 ATGATATGTA
*
12271036 ATATTCAAATATTATTAAAAT
1 ATATTCAAATATTATAAAAAT
12271057 ATATTC-AATATTA-AAATAAT
1 ATATTCAAATATTATAAA-AAT
12271077 AT
1 AT
12271079 TAAAGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATTCAAATATTATAAAAAT
Found at i:12271110 original size:17 final size:17
Alignment explanation
Indices: 12271073--12271114 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12271063 AATATTAAAA
* *
12271073 TAATATTAAAGTAATAT
1 TAATATTAAAATAATAC
*
12271090 TAATATTAAAATATTAC
1 TAATATTAAAATAATAC
12271107 TAAT-TTAA
1 TAATATTAA
12271115 TATTTAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TAATATTAAAATAATAC
Found at i:12271150 original size:21 final size:21
Alignment explanation
Indices: 12271126--12271596 Score: 94
Period size: 21 Copynumber: 22.4 Consensus size: 21
12271116 ATTTAGTATA
12271126 AAATATTATTAAAATAATATT
1 AAATATTATTAAAATAATATT
12271147 -AA-A-TATTAAAAT-ATGATT
1 AAATATTATTAAAATAAT-ATT
* *
12271165 AAA-A-TA--AAATTAGGTATT
1 AAATATTATTAAAATA-ATATT
* *
12271183 CAAATATTATTCAAATAATATA
1 -AAATATTATTAAAATAATATT
* *
12271205 AAATATTA-AAAAATTATTTATTT
1 AAATATTATTAAAA-TA-ATA-TT
* * *
12271228 AATATTTAATATTAACATAAAATT
1 AA-A--TATTATTAAAATAATATT
* * *
12271252 AAAAATAATATAAAATTA-ATT
1 AAATATTAT-TAAAATAATATT
* *
12271273 AAATAATATTAAAATATTATT
1 AAATATTATTAAAATAATATT
* * *
12271294 AAATTAATATTTAATAGTTAATATG
1 AAA-TATTA-TTAA-A-ATAATATT
*
12271319 AAATATTATTAAAAT-AT-TA
1 AAATATTATTAAAATAATATT
* *
12271338 AAATATTATTAATAATATTTTGCATA
1 AAATATTATTAA-AATA--AT--ATT
12271364 AAATATTATT--AA-AATATT
1 AAATATTATTAAAATAATATT
* * **
12271382 -AATATAATTTAACGAATATT
1 AAATATTATTAAAATAATATT
**
12271402 -AATATTGCTAAAATGAATATT
1 AAATATTATTAAAAT-AATATT
* * * * *
12271423 TAATATGAATAAATTATTATT
1 AAATATTATTAAAATAATATT
* * **
12271444 TAATATTGTT-CTATAATAGTT
1 AAATATTATTAAAATAATA-TT
*
12271465 -AATATTATT-AAAGAATAGTT
1 AAATATTATTAAAATAATA-TT
*
12271485 -AATATTATT-AACTAAGTATT
1 AAATATTATTAAAATAA-TATT
* ** *
12271505 TAATAAAATTAAATTAATA-T
1 AAATATTATTAAAATAATATT
*
12271525 AGAATATTATTAAATTAATA-T
1 A-AATATTATTAAAATAATATT
* *
12271546 AAAGTATTA-TGAATTAATATT
1 AAA-TATTATTAAAATAATATT
* *
12271567 TAATATGT-TTTAAATAATATT
1 AAATAT-TATTAAAATAATATT
* *
12271588 TAATTTTAT
1 AAATATTAT
12271597 GAAATTAGTT
Statistics
Matches: 335, Mismatches: 71, Indels: 88
0.68 0.14 0.18
Matches are distributed among these distances:
17 14 0.04
18 17 0.05
19 24 0.07
20 83 0.25
21 105 0.31
22 33 0.10
23 19 0.06
24 10 0.03
25 9 0.03
26 18 0.05
27 3 0.01
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
AAATATTATTAAAATAATATT
Found at i:12271287 original size:30 final size:32
Alignment explanation
Indices: 12271238--12271301 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
12271228 AATATTTAAT
12271238 ATTAACATAAAATTAAAAATAATATAAAATTA
1 ATTAACATAAAATTAAAAATAATATAAAATTA
* * *
12271270 ATTAA-ATAATATT-AAAATATTATTAAATTA
1 ATTAACATAAAATTAAAAATAATATAAAATTA
12271300 AT
1 AT
12271302 ATTTAATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 17 0.59
31 7 0.24
32 5 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
ATTAACATAAAATTAAAAATAATATAAAATTA
Found at i:12271292 original size:71 final size:73
Alignment explanation
Indices: 12271197--12271356 Score: 188
Period size: 71 Copynumber: 2.2 Consensus size: 73
12271187 TATTATTCAA
* *
12271197 ATAATATAA-AATATTAAAAAATTATTTATTTAATATTTAATA-TTAACAT-AAA-ATTA-AAAA
1 ATAAT-TAATAATATTAAAAAATTATTAAATTAATATTTAATAGTTAACATGAAATATTATAAAA
12271257 TAATATAAAAT
65 T-AT-TAAAAT
* *
12271268 -TAATTAAATAATATTAAAATATTATTAAATTAATATTTAATAGTTAATATGAAATATTATTAAA
1 ATAATT-AATAATATTAAAAAATTATTAAATTAATATTTAATAGTTAACATGAAATATTA-TAAA
12271332 ATATTAAAAT
64 ATATTAAAAT
*
12271342 ATTATTAATAATATT
1 ATAATTAATAATATT
12271357 TTGCATAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
69 1 0.01
70 6 0.08
71 30 0.39
72 6 0.08
73 3 0.04
74 19 0.25
75 6 0.08
76 5 0.07
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (73 bp):
ATAATTAATAATATTAAAAAATTATTAAATTAATATTTAATAGTTAACATGAAATATTATAAAAT
ATTAAAAT
Found at i:12271335 original size:11 final size:11
Alignment explanation
Indices: 12271124--12271382 Score: 83
Period size: 11 Copynumber: 22.9 Consensus size: 11
12271114 ATATTTAGTA
12271124 TAAAATATTAT
1 TAAAATATTAT
*
12271135 TAAAATAATAT
1 TAAAATATTAT
12271146 T-AAATATTA-
1 TAAAATATTAT
*
12271155 -AAATATGATTAAAA
1 TAAA-AT-ATT--AT
*
12271169 TAAAATTAGGTAT
1 TAAAA-TA-TTAT
*
12271182 TCAAATATTAT
1 TAAAATATTAT
* *
12271193 TCAAATAATA-
1 TAAAATATTAT
12271203 TAAAATATTA-
1 TAAAATATTAT
*
12271213 AAAAATTATTTATT
1 TAAAA-TA-TTA-T
* *
12271227 TAATATTTAATAT
1 TAA-A-ATATTAT
* **
12271240 TAACATAAAAT
1 TAAAATATTAT
*
12271251 TAAAA-ATAAT
1 TAAAATATTAT
*
12271261 ATAAAAT-TAAT
1 -TAAAATATTAT
*
12271272 T-AAATAATAT
1 TAAAATATTAT
12271282 TAAAATATTAT
1 TAAAATATTAT
* *
12271293 TAAATTAATAT
1 TAAAATATTAT
*
12271304 T-TAATAGTTAAT
1 TAAAATA-TT-AT
*
12271316 ATGAAATATTAT
1 -TAAAATATTAT
12271328 T-AAA-A-TAT
1 TAAAATATTAT
12271336 TAAAATATTAT
1 TAAAATATTAT
*
12271347 TAATAATATTTT
1 TAA-AATATTAT
12271359 GCATAAAATATTAT
1 ---TAAAATATTAT
12271373 TAAAATATTA
1 TAAAATATTA
12271383 ATATAATTTA
Statistics
Matches: 189, Mismatches: 29, Indels: 60
0.68 0.10 0.22
Matches are distributed among these distances:
8 4 0.02
9 10 0.05
10 36 0.19
11 82 0.43
12 16 0.08
13 13 0.07
14 17 0.09
15 11 0.06
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:12271385 original size:17 final size:19
Alignment explanation
Indices: 12271365--12271407 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
12271355 TTTTGCATAA
12271365 AATATTA-TTAA-AATATT
1 AATATTATTTAACAATATT
*
12271382 AATATAATTTAACGAATATT
1 AATATTATTTAAC-AATATT
12271402 AATATT
1 AATATT
12271408 GCTAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
20 11 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AATATTATTTAACAATATT
Found at i:12271468 original size:20 final size:20
Alignment explanation
Indices: 12271458--12271495 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12271448 ATTGTTCTAT
12271458 AATAGTTAATATTATTAAAG
1 AATAGTTAATATTATTAAAG
12271478 AATAGTTAATATTATTAA
1 AATAGTTAATATTATTAA
12271496 CTAAGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (20 bp):
AATAGTTAATATTATTAAAG
Found at i:12272168 original size:37 final size:37
Alignment explanation
Indices: 12272126--12272206 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
12272116 CGTTATTAAA
* * * *
12272126 ATTTTATATGTAATAATATTAAGTATATATATTTTAG
1 ATTTTATATGTAATAATATTAAATAAAGATATTTTAC
12272163 ATTTTATATGTAATAATATTAAATAAAGATATTTTAC
1 ATTTTATATGTAATAATATTAAATAAAGATATTTTAC
12272200 ATTTTAT
1 ATTTTAT
12272207 TTTTTTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (37 bp):
ATTTTATATGTAATAATATTAAATAAAGATATTTTAC
Found at i:12272625 original size:114 final size:112
Alignment explanation
Indices: 12272219--12272628 Score: 371
Period size: 112 Copynumber: 3.6 Consensus size: 112
12272209 TTTTATATTC
* * * * * *
12272219 TCAACAAAAATTATATTTTTTATCTTAGAAA-AGTCATCTTTTAAAAAAAAAACTATATTTCTAT
1 TCAACAAAAACTACA-TTTTTATCTTAGAAATA-TCATCTTTT-CAACAAAAACTATGTTTTTAT
* *
12272283 CTTAGAAACGT-ATTCTTTATTGAATTTTGAAAAATATACTTTTCATGTTT
63 CTTAGAAACGTCATT-TTTATTGAATTATGAAAAATATATTTTTCATGTTT
* * * * * * * * ** *
12272333 TTAAC-AATACTACATATTTATCTTGGAAATGTCATCATTTCCATAAAGGCTATGTTTTTATCTA
1 TCAACAAAAACTACATTTTTATCTTAGAAATATCATCTTTTCAACAAAAACTATGTTTTTATCTT
* *
12272397 AGAAATGTCATTTTTATTGAATTATGAAAAAATATATTTTTCATATTT
66 AGAAACGTCATTTTTATTGAATTATG-AAAAATATATTTTTCATGTTT
* ** * *
12272445 TCAACAAAAACCT-CATTTTTATCTTAGAAACATTGTCTTTTCAACAAAGACTATATTTTTTTAT
1 TCAACAAAAA-CTACATTTTTATCTTAGAAATATCATCTTTTCAACAAAAAC--TATGTTTTTAT
* ** * *
12272509 CTTATAAACGTCATTTTTATCAAATTCT-AAAAATTCTATTTTTCATGTTT
63 CTTAGAAACGTCATTTTTATTGAATTATGAAAAA-TATATTTTTCATGTTT
* * * *
12272559 TCAACAAAAACTATATTTTTATATCTTAGAAATAACATTTTTTCAACAAAAACTATGTTTTAATC
1 TCAACAAAAACTACA-TTTT-TATCTTAGAAATATCATCTTTTCAACAAAAACTATGTTTTTATC
12272624 TTAGA
64 TTAGA
12272629 TTCATCATGT
Statistics
Matches: 234, Mismatches: 51, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
111 36 0.15
112 47 0.20
113 44 0.19
114 45 0.19
115 36 0.15
116 26 0.11
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (112 bp):
TCAACAAAAACTACATTTTTATCTTAGAAATATCATCTTTTCAACAAAAACTATGTTTTTATCTT
AGAAACGTCATTTTTATTGAATTATGAAAAATATATTTTTCATGTTT
Found at i:12272642 original size:114 final size:113
Alignment explanation
Indices: 12272431--12272642 Score: 239
Period size: 114 Copynumber: 1.9 Consensus size: 113
12272421 TGAAAAAATA
*** *
12272431 TATTTTTCATATTTTCAACAAAAACCTCATTTTTATCTTAGAAACATTGTCTTTTCAACAAAGAC
1 TATTTTTCATATTTTCAACAAAAACCTCATTTTTATCTTAGAAACAACATCTTTTCAACAAAAAC
* * * * *
12272496 TATATTTTTTTATCTTATAAACGTCATTTTTATCAAATTCTAAAAATTC
66 -ATATGTTTTAATCTTAGAAACATCATGTTTATCAAATTCTAAAAATTC
* * * *
12272545 TATTTTTCATGTTTTCAACAAAAA-CTATATTTTTATATCTTAGAAATAACATTTTTTCAACAAA
1 TATTTTTCATATTTTCAACAAAAACCT-CA-TTTT-TATCTTAGAAACAACATCTTTTCAACAAA
**
12272609 AAC-TATGTTTTAATCTTAGATTCATCATGTTTAT
63 AACATATGTTTTAATCTTAGAAACATCATGTTTAT
12272643 TAAAATTTGA
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
113 2 0.03
114 48 0.60
115 4 0.05
116 26 0.32
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.46
Consensus pattern (113 bp):
TATTTTTCATATTTTCAACAAAAACCTCATTTTTATCTTAGAAACAACATCTTTTCAACAAAAAC
ATATGTTTTAATCTTAGAAACATCATGTTTATCAAATTCTAAAAATTC
Found at i:12274835 original size:23 final size:23
Alignment explanation
Indices: 12274805--12274850 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12274795 TTGAATCTTA
12274805 GAGAGAGAAAGAGAGAA-AAAGG
1 GAGAGAGAAAGAGAGAAGAAAGG
* *
12274827 GAGACGAGAGAGAGGGAAGAAAGG
1 GAGA-GAGAAAGAGAGAAGAAAGG
12274851 TAGGTCTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 11 0.55
24 5 0.25
ACGTcount: A:0.52, C:0.02, G:0.46, T:0.00
Consensus pattern (23 bp):
GAGAGAGAAAGAGAGAAGAAAGG
Found at i:12275964 original size:110 final size:110
Alignment explanation
Indices: 12275748--12275951 Score: 274
Period size: 110 Copynumber: 1.9 Consensus size: 110
12275738 TTTCTTTCCA
*
12275748 AAAAAATTAATAAAAAGAATTTCTAAATAGACCCAAATGGTGAAAATTTTAAAAATTTTGAAAAA
1 AAAAAATAAATAAAAAGAATTTCTAAATAGACCCAAATGGTGAAAATTTTAAAAATTTTGAAAAA
*
12275813 AGAAAATATTTTTAAATTGACCCAAATGGCCAAAAATTTAGAGAT
66 AGAAAATATTTCTAAATTGACCCAAATGGCCAAAAATTTAGAGAT
* *
12275858 AAAAAATAAATAAAAGGAATTTCTAAATA-AGCCCAAATGGTGGAAAA-TTTAGAAA-TTT-AAA
1 AAAAAATAAATAAAAAGAATTTCTAAATAGA-CCCAAATGGT-GAAAATTTTAAAAATTTTGAAA
* *
12275919 AAGGAAAGAATATTTCT-AATTTAGCCCAAATGG
64 AAAG-AA-AATATTTCTAAATTGA-CCCAAATGG
12275952 TGGAATAATT
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
108 6 0.07
109 11 0.13
110 61 0.73
111 5 0.06
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (110 bp):
AAAAAATAAATAAAAAGAATTTCTAAATAGACCCAAATGGTGAAAATTTTAAAAATTTTGAAAAA
AGAAAATATTTCTAAATTGACCCAAATGGCCAAAAATTTAGAGAT
Found at i:12287644 original size:87 final size:86
Alignment explanation
Indices: 12287456--12287761 Score: 450
Period size: 87 Copynumber: 3.5 Consensus size: 86
12287446 CGATGAGCCT
* * *
12287456 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTTTTTATTTTTCAAAAGCCATTGA
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAA-TCATTGA
*
12287521 GCCTCTATTTAGAAGAGCTTTG
65 GCCTCTATTTAGAGGAGCTTTG
* *
12287543 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTGTTTATTTTTCAAAATCATTGAG
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAATCATTGAG
* *
12287608 GCTCTATTTAGAGGAGCTTTA
66 CCTCTATTTAGAGGAGCTTTG
* * * *
12287629 TTTATTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGA
1 TTTATTTTTC-AAAGTCATTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAATCATTGA
* *
12287694 GCCTCTGTTTAGAGGAGCCTTG
65 GCCTCTATTTAGAGGAGCTTTG
*
12287716 TTTATTTTCCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTGTT
1 TTTATTTTTC-AAAGTCATTGAGCCTCTATTTAGAGGAGCTTTGTT
12287762 ATTCTCCAAA
Statistics
Matches: 199, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
86 35 0.18
87 164 0.82
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (86 bp):
TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAATCATTGAG
CCTCTATTTAGAGGAGCTTTG
Found at i:12287694 original size:130 final size:129
Alignment explanation
Indices: 12287456--12287801 Score: 514
Period size: 130 Copynumber: 2.7 Consensus size: 129
12287446 CGATGAGCCT
* * *
12287456 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTTTTTATTTTTCAAAAGCCATTGA
1 TTTATTTTTCAAAATCATTGAGCCTCTATTTAGAGGAGC-TTTTTTATTTTTCAAAAGTCATTGA
* *
12287521 GCCTCTATTTAGAAGAGCTTTGTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTG
65 GCCTTTGTTTAGAAGAGCTTTGTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTG
*
12287586 TTTATTTTTCAAAATCATTGAGGCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAAGTCATTGA
1 TTTATTTTTCAAAATCATTGAGCCTCTATTTAGAGGAGCTTT-TTTATTTTTCAAAAGTCATTGA
* *
12287651 GCCTTTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCCTTG
65 GCCTTTGTTTAGAAGAGCTTTGTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTG
* * * * * *
12287716 TTTATTTTCCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTGTTATTCTCCAAAAATTA-TGA
1 TTTATTTTTCAAAA-TCATTGAGCCTCTATTTAGAGGAGCTTTTTTATTTTTCAAAAGTCATTGA
* *
12287780 ACCTTTGTTTAGAAGAGTTTTG
65 GCCTTTGTTTAGAAGAGCTTTG
12287802 GGTCATTTAG
Statistics
Matches: 196, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
129 25 0.13
130 144 0.73
131 27 0.14
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (129 bp):
TTTATTTTTCAAAATCATTGAGCCTCTATTTAGAGGAGCTTTTTTATTTTTCAAAAGTCATTGAG
CCTTTGTTTAGAAGAGCTTTGTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTG
Found at i:12287764 original size:43 final size:44
Alignment explanation
Indices: 12287456--12287761 Score: 458
Period size: 43 Copynumber: 7.0 Consensus size: 44
12287446 CGATGAGCCT
* *
12287456 TTTATTTTTC-AAAGTCATTGAGCCTCTATTTAGAGAAGCTTTT
1 TTTATTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
* *
12287499 TTTATTTTTCAAAAGCCATTGAGCCTCTATTTAGAAGAGCTTTG
1 TTTATTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
* *
12287543 TTTATTTTTC-AAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTG
1 TTTATTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
* *
12287586 TTTATTTTTCAAAA-TCATTGAGGCTCTATTTAGAGGAGCTTTA
1 TTTATTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
* *
12287629 TTTATTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCTTTG
1 TTTATTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
* * *
12287673 TTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAGAGGAGCCTTG
1 TTTATTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
*
12287716 TTTATTTTCCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
1 TTTATTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
12287760 TT
1 TT
12287762 ATTCTCCAAA
Statistics
Matches: 236, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
43 127 0.54
44 109 0.46
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (44 bp):
TTTATTTTTCAAAAGTCATTGAGCCTCTATTTAGAGGAGCTTTG
Found at i:12288034 original size:13 final size:14
Alignment explanation
Indices: 12288016--12288044 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12288006 AATTAATTAA
12288016 TTATTTATT-TATT
1 TTATTTATTGTATT
12288029 TTATTTATTGTATT
1 TTATTTATTGTATT
12288043 TT
1 TT
12288045 TATCTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTATTTATTGTATT
Found at i:12288129 original size:11 final size:10
Alignment explanation
Indices: 12288097--12288131 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
12288087 GATAAAGATC
*
12288097 AAAATAATTA
1 AAAATAATGA
12288107 AAAATAATGA
1 AAAATAATGA
*
12288117 AAAATAATGG
1 AAAATAATGA
12288127 AAAAT
1 AAAAT
12288132 GAATCTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (10 bp):
AAAATAATGA
Found at i:12289704 original size:111 final size:108
Alignment explanation
Indices: 12289525--12289730 Score: 290
Period size: 111 Copynumber: 1.9 Consensus size: 108
12289515 TTTTCTTTCC
*
12289525 AAAAAAAAATAAAAAGAATTTCTAAATAGGCCTAAATGGTGAAAAATTTAGAAATTTTGAAAAAA
1 AAAAAAAAATAAAAAGAATTTCTAAATAGGCCTAAATGGTGAAAAATTTAGAAA-TTTCAAAAAA
* *
12289590 GAAAATATTTCTAGA-TTGACCCAACTGGTGAAAAGTTTAGAGAT
65 GAAAACATTTCTA-ATTTGACCCAAATGGTGAAAAGTTTAGAGAT
* *
12289634 AAAAAATAAATAAAAGGGAATTTCTAAATAGGCCTAAATGGTGGAAAATTTAGAAA-TTCAAAAA
1 AAAAAA-AAATAAAA-AGAATTTCTAAATAGGCCTAAATGGTGAAAAATTTAGAAATTTCAAAAA
*
12289698 GGAGAAAACATTTCTAATTTGGCCCAAATGGTG
64 --AGAAAACATTTCTAATTTGACCCAAATGGTG
12289731 GAATAATTAG
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
109 13 0.15
110 9 0.10
111 64 0.74
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (108 bp):
AAAAAAAAATAAAAAGAATTTCTAAATAGGCCTAAATGGTGAAAAATTTAGAAATTTCAAAAAAG
AAAACATTTCTAATTTGACCCAAATGGTGAAAAGTTTAGAGAT
Found at i:12290967 original size:20 final size:21
Alignment explanation
Indices: 12290932--12290973 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
12290922 AAAAACATAA
12290932 TTGAACTTAATTATATATATTT
1 TTGAACTT-ATTATATATATTT
12290954 TTGAACTT-TTATATATATTT
1 TTGAACTTATTATATATATTT
12290974 AAAATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTGAACTTATTATATATATTT
Found at i:12293844 original size:25 final size:25
Alignment explanation
Indices: 12293810--12293860 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
12293800 TTATGCTTAA
12293810 AGCATATGAGATATAGGCCTTGTAT
1 AGCATATGAGATATAGGCCTTGTAT
12293835 AGCATATGAGATATAGGCCTTGTAT
1 AGCATATGAGATATAGGCCTTGTAT
12293860 A
1 A
12293861 TAGCATTACA
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:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (25 bp):
AGCATATGAGATATAGGCCTTGTAT
Found at i:12298720 original size:6 final size:6
Alignment explanation
Indices: 12298711--12298769 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
12298701 AAAAAAGAAT
* * * * *
12298711 GAAAAA GAAAAG GAAAAA GAAAAA GACAAA GACAAA GGAAAA GGAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
* *
12298759 GGAAAA TAAAA
1 GAAAAA GAAAA
12298770 TACTAATACT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:12298726 original size:12 final size:12
Alignment explanation
Indices: 12298711--12298764 Score: 72
Period size: 12 Copynumber: 4.4 Consensus size: 12
12298701 AAAAAAGAAT
12298711 GAAAAAGAAAAG
1 GAAAAAGAAAAG
*
12298723 GAAAAAGAAAAA
1 GAAAAAGAAAAG
*
12298735 GACAAAGACAAAG
1 GAAAAAGA-AAAG
*
12298748 GAAAAGGAAAAG
1 GAAAAAGAAAAG
12298760 GAAAA
1 GAAAA
12298765 TAAAATACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
12 27 0.75
13 9 0.25
ACGTcount: A:0.72, C:0.04, G:0.24, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAAAG
Found at i:12298732 original size:18 final size:18
Alignment explanation
Indices: 12298711--12298764 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
12298701 AAAAAAGAAT
12298711 GAAAAAGAAAAGGAAAAA
1 GAAAAAGAAAAGGAAAAA
*
12298729 GAAAAAGACAAA-GACAAAG
1 GAAAAAGA-AAAGGA-AAAA
*
12298748 GAAAAGGAAAAGGAAAA
1 GAAAAAGAAAAGGAAAA
12298765 TAAAATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 16 0.52
19 15 0.48
ACGTcount: A:0.72, C:0.04, G:0.24, T:0.00
Consensus pattern (18 bp):
GAAAAAGAAAAGGAAAAA
Found at i:12300651 original size:28 final size:29
Alignment explanation
Indices: 12300603--12300662 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
12300593 TAAAATAATA
*
12300603 AAAAAACTATTACAATGATATGTAATAGT
1 AAAAAACTATTAAAATGATATGTAATAGT
* * *
12300632 AAAAAATTATTAAAAT-ATATTTAATATT
1 AAAAAACTATTAAAATGATATGTAATAGT
12300660 AAA
1 AAA
12300663 GTAATATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAAAACTATTAAAATGATATGTAATAGT
Found at i:12300661 original size:17 final size:18
Alignment explanation
Indices: 12300639--12300740 Score: 70
Period size: 17 Copynumber: 5.6 Consensus size: 18
12300629 AGTAAAAAAT
12300639 TATTAAAATATAT-TTAA
1 TATTAAAATATATATTAA
*
12300656 TATTAAAGTA-ATATTAA
1 TATTAAAATATATATTAA
*
12300673 TATTAAAATAT-TACTAA
1 TATTAAAATATATATTAA
* * *
12300690 T-TTAACATTTAGTATAAAA
1 TATTAAAATATA-TAT-TAA
12300709 TATTATTAAA-ATAATATTAAA
1 TATTA--AAATAT-ATATT-AA
12300730 TATTAAAATAT
1 TATTAAAATAT
12300741 GATTAAAATA
Statistics
Matches: 64, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
16 9 0.14
17 28 0.44
18 2 0.03
19 6 0.09
20 5 0.08
21 11 0.17
22 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
TATTAAAATATATATTAA
Found at i:12300684 original size:14 final size:14
Alignment explanation
Indices: 12300665--12300740 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
12300655 ATATTAAAGT
12300665 AATATTAATATTAA
1 AATATTAATATTAA
*
12300679 AATATTACTAATTTAA
1 AATATTAAT-A-TTAA
* *
12300695 CAT-TTAGTA-TAA
1 AATATTAATATTAA
* *
12300707 AATATTATTA-AAA
1 AATATTAATATTAA
12300720 TAATATTAAATATTAA
1 -AATATT-AATATTAA
12300736 AATAT
1 AATAT
12300741 GATTAAAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
12 5 0.10
13 7 0.15
14 15 0.31
15 13 0.27
16 8 0.17
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (14 bp):
AATATTAATATTAA
Found at i:12300745 original size:29 final size:29
Alignment explanation
Indices: 12300656--12300825 Score: 166
Period size: 29 Copynumber: 6.0 Consensus size: 29
12300646 ATATATTTAA
*
12300656 TATTAAAGTAATA-TTAATATTAAAATAT
1 TATTAAAATAATATTTAATATTAAAATAT
* ** * *
12300684 TACTAATTTAACATTTAGTA-TAAAATAT
1 TATTAAAATAATATTTAATATTAAAATAT
*
12300712 TATTAAAATAATATTAAATATTAAAATAT
1 TATTAAAATAATATTTAATATTAAAATAT
* * * *
12300741 GATTAAAATAAAATTTAGTATTAAAATAC
1 TATTAAAATAATATTTAATATTAAAATAT
* ** *
12300770 TATTCAAATAATATAAAATAATAAAA-AT
1 TATTAAAATAATATTTAATATTAAAATAT
**
12300798 TATTAATTTAATATTTAATATTAAAATA
1 TATTAAAATAATATTTAATATTAAAATA
12300826 AATTTAAAAA
Statistics
Matches: 109, Mismatches: 30, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
28 52 0.48
29 57 0.52
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (29 bp):
TATTAAAATAATATTTAATATTAAAATAT
Found at i:12300757 original size:57 final size:58
Alignment explanation
Indices: 12300656--12300825 Score: 193
Period size: 57 Copynumber: 3.0 Consensus size: 58
12300646 ATATATTTAA
* * ** * *
12300656 TATTAAAGTAATATT-AATATTAAAATATTACTAATTTAACATTTAGTA-TAAAATAT
1 TATTAAAATAATATTAAATATTAAAATATTATTAAAATAAAATTTAGTATTAAAATAC
*
12300712 TATTAAAATAATATTAAATATTAAAATATGATTAAAATAAAATTTAGTATTAAAATAC
1 TATTAAAATAATATTAAATATTAAAATATTATTAAAATAAAATTTAGTATTAAAATAC
* * * ** * *
12300770 TATTCAAATAATATAAAATAATAAAA-ATTATTAATTTAATATTTAATATTAAAATA
1 TATTAAAATAATATTAAATATTAAAATATTATTAAAATAAAATTTAGTATTAAAATA
12300826 AATTTAAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
56 14 0.14
57 53 0.55
58 30 0.31
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (58 bp):
TATTAAAATAATATTAAATATTAAAATATTATTAAAATAAAATTTAGTATTAAAATAC
Found at i:12300839 original size:14 final size:14
Alignment explanation
Indices: 12300820--12300862 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
12300810 ATTTAATATT
*
12300820 AAAATAAATTTAAA
1 AAAATAAAATTAAA
*
12300834 AAAATAAAATTAAT
1 AAAATAAAATTAAA
* *
12300848 TAAATAATATTAAA
1 AAAATAAAATTAAA
12300862 A
1 A
12300863 TACTATTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATAAAATTAAA
Found at i:12300845 original size:46 final size:46
Alignment explanation
Indices: 12300770--12300858 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
12300760 ATTAAAATAC
* * *
12300770 TATTCAAATAATATAAAATAATAAAAATT-ATTAATTTAATATTTAA
1 TATTAAAATAATATAAAAAAATAAAAATTAATTAA-ATAATATTTAA
*
12300816 TATTAAAATAAATTTAAAAAAAT-AAAATTAATTAAATAATATT
1 TATTAAAAT-AATATAAAAAAATAAAAATTAATTAAATAATATT
12300859 AAAATACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 21 0.57
47 16 0.43
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (46 bp):
TATTAAAATAATATAAAAAAATAAAAATTAATTAAATAATATTTAA
Found at i:12300859 original size:57 final size:57
Alignment explanation
Indices: 12300671--12300860 Score: 145
Period size: 57 Copynumber: 3.3 Consensus size: 57
12300661 AAGTAATATT
* * * * ** * * *
12300671 AATATTAAAATATTACTAATTTAACATTTAGTA-TAAAATATTATTAAAATAATATTA
1 AATAATAAAA-ATTATTAATTTAATATTTAATATTAAAATACAATTCAAATAAAATAA
* * ** * * * *
12300728 AATATTAAAATATGATTAAAATAAAATTTAGTATTAAAATACTATTCAAATAATATAA
1 AATAATAAAA-ATTATTAATTTAATATTTAATATTAAAATACAATTCAAATAAAATAA
*
12300786 AATAATAAAAATTATTAATTTAATATTTAATATTAAAATA-AATTTAAA-AAAATAA
1 AATAATAAAAATTATTAATTTAATATTTAATATTAAAATACAATTCAAATAAAATAA
12300841 AATTAATTAAATAA-TATTAA
1 AA-TAA-TAAA-AATTATTAA
12300861 AATACTATTA
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
55 8 0.07
56 9 0.08
57 63 0.56
58 32 0.29
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (57 bp):
AATAATAAAAATTATTAATTTAATATTTAATATTAAAATACAATTCAAATAAAATAA
Found at i:12300869 original size:11 final size:11
Alignment explanation
Indices: 12300704--12300943 Score: 72
Period size: 11 Copynumber: 24.1 Consensus size: 11
12300694 ACATTTAGTA
*
12300704 TAAAATATTAT
1 TAAAATAATAT
12300715 TAAAATAATAT
1 TAAAATAATAT
12300726 T---A-AATAT
1 TAAAATAATAT
12300733 TAAAAT-ATGAT
1 TAAAATAAT-AT
*
12300744 TAAAATAAAAT
1 TAAAATAATAT
*
12300755 T----TAGTAT
1 TAAAATAATAT
*
12300762 TAAAATACTAT
1 TAAAATAATAT
*
12300773 TCAAATAATA-
1 TAAAATAATAT
12300783 TAAAATAATA-
1 TAAAATAATAT
12300793 -AAAAT--TAT
1 TAAAATAATAT
**
12300801 TAATTTAATAT
1 TAAAATAATAT
12300812 T----TAATAT
1 TAAAATAATAT
12300819 TAAAATAA-ATT
1 TAAAATAATA-T
12300830 TAAAA-AA-A-
1 TAAAATAATAT
*
12300838 TAAAATTA-AT
1 TAAAATAATAT
12300848 T-AAATAATAT
1 TAAAATAATAT
*
12300858 TAAAATACTAT
1 TAAAATAATAT
* *
12300869 TAAATTAGTATT
1 TAAAATAATA-T
**
12300881 TGATAGTTAATAT
1 T-A-AAATAATAT
* *
12300894 T-CAATATTAT
1 TAAAATAATAT
12300904 TAAAATAATA-
1 TAAAATAATAT
*
12300914 T--GA-AATAT
1 TAAAATAATAT
*
12300922 TATAATAATAT
1 TAAAATAATAT
12300933 T-AAATAATAT
1 TAAAATAATAT
12300943 T
1 T
12300944 TTGCATAAAA
Statistics
Matches: 172, Mismatches: 26, Indels: 63
0.66 0.10 0.24
Matches are distributed among these distances:
7 24 0.14
8 8 0.05
9 15 0.09
10 37 0.22
11 76 0.44
12 3 0.02
13 3 0.02
14 6 0.03
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:12300941 original size:21 final size:21
Alignment explanation
Indices: 12300813--12300943 Score: 78
Period size: 18 Copynumber: 6.3 Consensus size: 21
12300803 ATTTAATATT
12300813 TAATATTAAAATAA-ATTTAAA
1 TAATATTAAAATAATA-TTAAA
* *
12300834 -AA-AATAAAATTA-ATTAAA
1 TAATATTAAAATAATATTAAA
*
12300852 TAATATTAAAATACTATTAAA
1 TAATATTAAAATAATATTAAA
* ** *
12300873 TTAGTATTTGATAGTTAATATTCAA
1 -TAATA-TT-A-AAATAATATTAAA
* *
12300898 TATTATTAAAATAATA-T-GA
1 TAATATTAAAATAATATTAAA
*
12300917 -AATATTATAATAATATTAAA
1 TAATATTAAAATAATATTAAA
12300937 TAATATT
1 TAATATT
12300944 TTGCATAAAA
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
18 18 0.22
19 13 0.16
20 11 0.13
21 18 0.22
22 5 0.06
23 4 0.05
24 5 0.06
25 9 0.11
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (21 bp):
TAATATTAAAATAATATTAAA
Found at i:12300993 original size:21 final size:21
Alignment explanation
Indices: 12300967--12301268 Score: 127
Period size: 22 Copynumber: 14.2 Consensus size: 21
12300957 TATTAAAACG
12300967 TTAATATAATATAATTAATAT
1 TTAATATAATATAATTAATAT
* * **
12300988 TTAATATTATTAAAACGAATAT
1 TTAATA-TAATATAATTAATAT
*
12301010 TTAATAATAATACTAAATAATATT
1 TTAAT-ATAATA-TAATTAATA-T
* * * *
12301034 TTGCATAAAAT-TTATTAAAAT
1 TT-AATATAATATAATTAATAT
*
12301055 GTTAATATAATTTAATTAATAT
1 -TTAATATAATATAATTAATAT
* * *
12301077 TTAATATTATTAAAATTAAAAT
1 TTAATA-TAATATAATTAATAT
*
12301099 TTAATATAA-ATAACTTATTAT
1 TTAATATAATATAA-TTAATAT
** * *
12301120 TTAATATTGTTTTA-TAATAT
1 TTAATATAATATAATTAATAT
* * **
12301140 CTAATATAAT-TAAATAATGG
1 TTAATATAATATAATTAATAT
* *
12301160 TTAATATTAT-TAAATAAGTAT
1 TTAATATAATATAATTAA-TAT
*
12301181 TTAATAATATTA-AATTAATAT
1 TTAAT-ATAATATAATTAATAT
** *
12301202 AGAATATTAT-TAAGTTAATA-
1 TTAATATAATATAA-TTAATAT
* * *
12301222 -CAAAATATTATGAATTAATAT
1 TTAATATAATAT-AATTAATAT
* * *
12301243 TTAATATGATTTAAATAATAT
1 TTAATATAATATAATTAATAT
12301264 TTAAT
1 TTAAT
12301269 TTTATGAAAT
Statistics
Matches: 204, Mismatches: 57, Indels: 40
0.68 0.19 0.13
Matches are distributed among these distances:
19 7 0.03
20 46 0.23
21 66 0.32
22 69 0.34
23 7 0.03
24 7 0.03
25 2 0.01
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
TTAATATAATATAATTAATAT
Found at i:12300994 original size:38 final size:38
Alignment explanation
Indices: 12300952--12301091 Score: 127
Period size: 38 Copynumber: 3.3 Consensus size: 38
12300942 TTTTGCATAA
12300952 AATATTATTAAAACGTTAATATAATATAATTAATATTT
1 AATATTATTAAAACGTTAATATAATATAATTAATATTT
*
12300990 AATATTATTAAAACGAATATTTAATAATAATACTAAATAATATTTTGCAT
1 AATATTATTAAAACG-----TTAAT-ATAATA-TAATTAATA--TT---T
* * *
12301040 AAAATTTATTAAAATGTTAATATAATTTAATTAATATTT
1 AATA-TTATTAAAACGTTAATATAATATAATTAATATTT
12301079 AATATTATTAAAA
1 AATATTATTAAAA
12301092 TTAAAATTTA
Statistics
Matches: 83, Mismatches: 6, Indels: 26
0.72 0.05 0.23
Matches are distributed among these distances:
38 24 0.29
39 4 0.05
42 2 0.02
43 5 0.06
44 14 0.17
45 13 0.16
46 5 0.06
47 2 0.02
50 4 0.05
51 10 0.12
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (38 bp):
AATATTATTAAAACGTTAATATAATATAATTAATATTT
Found at i:12301101 original size:89 final size:90
Alignment explanation
Indices: 12300887--12301104 Score: 314
Period size: 89 Copynumber: 2.4 Consensus size: 90
12300877 TATTTGATAG
* *
12300887 TTAATATTCAATATTATTAAAATAATATGAAATATT-ATAATAATATTAAATAATATTTTGCATA
1 TTAATATTTAATATTATTAAAAT--TA--AAAT-TTAATAATAATACTAAATAATATTTTGCATA
12300951 AAATATTATTAAAACGTTAATATAATATAA
61 AAATATTATTAAAACGTTAATATAATATAA
** *
12300981 TTAATATTTAATATTATTAAAACGAATATTTAATAATAATACTAAATAATATTTTGCATAAAAT-
1 TTAATATTTAATATTATTAAAATTAAAATTTAATAATAATACTAAATAATATTTTGCATAAAATA
* *
12301045 TTATTAAAATGTTAATATAATTTAA
66 TTATTAAAACGTTAATATAATATAA
12301070 TTAATATTTAATATTATTAAAATTAAAATTTAATA
1 TTAATATTTAATATTATTAAAATTAAAATTTAATA
12301105 TAAATAACTT
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
89 57 0.50
90 34 0.30
92 1 0.01
94 21 0.19
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (90 bp):
TTAATATTTAATATTATTAAAATTAAAATTTAATAATAATACTAAATAATATTTTGCATAAAATA
TTATTAAAACGTTAATATAATATAA
Found at i:12301181 original size:11 final size:10
Alignment explanation
Indices: 12301148--12301264 Score: 51
Period size: 10 Copynumber: 11.3 Consensus size: 10
12301138 ATCTAATATA
12301148 ATTAAATAAT
1 ATTAAATAAT
* *
12301158 GGTT-AATATT
1 -ATTAAATAAT
12301168 ATTAAATAAGT
1 ATTAAATAA-T
*
12301179 ATTTAATAAT
1 ATTAAATAAT
12301189 ATTAAATTAAT
1 ATTAAA-TAAT
*
12301200 A-TAGAATATT
1 ATTA-AATAAT
*
12301210 ATTAAGTTAAT
1 ATTAA-ATAAT
** *
12301221 ACAAAATATT
1 ATTAAATAAT
* *
12301231 ATGAATTAAT
1 ATTAAATAAT
*
12301241 ATTTAAT-AT
1 ATTAAATAAT
12301250 GATTTAAATAAT
1 -A-TTAAATAAT
12301262 ATT
1 ATT
12301265 TAATTTTATG
Statistics
Matches: 76, Mismatches: 21, Indels: 19
0.66 0.18 0.16
Matches are distributed among these distances:
9 4 0.05
10 38 0.50
11 32 0.42
12 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.44
Consensus pattern (10 bp):
ATTAAATAAT
Found at i:12301882 original size:37 final size:37
Alignment explanation
Indices: 12301803--12301875 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
12301793 CATTATTAAA
* * *
12301803 ATTTTACGTGTAATAATATTAAGTATATGTATTTTAG
1 ATTTTACATGTAATAATATTAAATATAAGTATTTTAG
12301840 ATTTTACATGTAATAATATTAAATA-AAGATATTTTA
1 ATTTTACATGTAATAATATTAAATATAAG-TATTTTA
12301876 TGTTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.47
Consensus pattern (37 bp):
ATTTTACATGTAATAATATTAAATATAAGTATTTTAG
Found at i:12302051 original size:112 final size:111
Alignment explanation
Indices: 12301886--12302243 Score: 307
Period size: 112 Copynumber: 3.2 Consensus size: 111
12301876 TGTTTTATTT
**
12301886 TTTTCATATTTT-AGACAAAATTA-TA-TTTTTTATCTTAGAAAAGTCATCTTTTCAATAAAAGG
1 TTTTCATATTTTCA-ACAAAA--ACTACTTTTTTATCTTA-AAAAGTTGTCTTTTCAATAAAAGG
* *
12301948 TACATTTTTATCTTAGAGACGT-ATTCATTATTGAATTCTT-AAAAATATAC
62 T-TATTTTTATCTTAGAAACGTCA-TCATTATTGAATTCTTAAAAAATATAC
* * *
12301998 TTTTCATGTTTTCAACAAAAACTACTTTTTTATCTTAAAAATGTTGTCATTTCAGT-AAAGGCTT
1 TTTTCATATTTTCAACAAAAACTACTTTTTTATCTTAAAAA-GTTGTCTTTTCAATAAAAGG--T
* ** * * *
12302062 TATTTTTATCTAAGAAATTTCATCTTTATTGAATTTTTAAAAAATATAT
63 TATTTTTATCTTAGAAACGTCATCATTATTGAATTCTTAAAAAATATAC
* * * *
12302111 TTTTCATATTTTCAACAAAAACTGCGTTTTTATCTTAAAAACGTTGATCTTTTCAACAAAATGTT
1 TTTTCATATTTTCAACAAAAACTACTTTTTTATCTTAAAAA-GTTG-TCTTTTCAATAAAAGGTT
* * * * ** ** * *
12302176 TTTTTTATCTTAGTAATGCCATTTTTATCAAATTC-TAAAAATTATAT
64 ATTTTTATCTTAGAAACGTCATCATTATTGAATTCTTAAAAAATATAC
* *
12302223 TTTTCATGTTCTCAACAAAAA
1 TTTTCATATTTTCAACAAAAA
12302244 TTGTATTTTT
Statistics
Matches: 203, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
110 1 0.00
111 11 0.05
112 98 0.48
113 82 0.40
114 7 0.03
115 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (111 bp):
TTTTCATATTTTCAACAAAAACTACTTTTTTATCTTAAAAAGTTGTCTTTTCAATAAAAGGTTAT
TTTTATCTTAGAAACGTCATCATTATTGAATTCTTAAAAAATATAC
Found at i:12302146 original size:113 final size:113
Alignment explanation
Indices: 12301975--12302243 Score: 312
Period size: 113 Copynumber: 2.4 Consensus size: 113
12301965 GACGTATTCA
* * *
12301975 TTATTGAATTCTT-AAAAATATACTTTTCATGTTTTCAACAAAAACTACTTTTTTATCTTAAAAA
1 TTATTGAATTTTTAAAAAATATATTTTTCATGTTTTCAACAAAAACTACGTTTTTATCTTAAAAA
* ** **
12302039 TGTTG-TCATTTC-AGTAAAGGCTTTATTTTTATCTAAGAAATTTCATCT
66 CGTTGATCATTTCAACAAAAGG-TTT-TTTTTATCTAAGAAATGCCATCT
* *
12302087 TTATTGAATTTTTAAAAAATATATTTTTCATATTTTCAACAAAAACTGCGTTTTTATCTTAAAAA
1 TTATTGAATTTTTAAAAAATATATTTTTCATGTTTTCAACAAAAACTACGTTTTTATCTTAAAAA
* * * * *
12302152 CGTTGATCTTTTCAACAAAATGTTTTTTTTATCTTAGTAATGCCATTT
66 CGTTGATCATTTCAACAAAAGGTTTTTTTTATCTAAGAAATGCCATCT
* * * * *
12302200 TTA-TCAAATTCTAAAAATTATATTTTTCATGTTCTCAACAAAAA
1 TTATTGAATTTTTAAAAAATATATTTTTCATGTTTTCAACAAAAA
12302244 TTGTATTTTT
Statistics
Matches: 133, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
112 47 0.35
113 72 0.54
114 9 0.07
115 5 0.04
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (113 bp):
TTATTGAATTTTTAAAAAATATATTTTTCATGTTTTCAACAAAAACTACGTTTTTATCTTAAAAA
CGTTGATCATTTCAACAAAAGGTTTTTTTTATCTAAGAAATGCCATCT
Found at i:12302253 original size:112 final size:113
Alignment explanation
Indices: 12301981--12302284 Score: 296
Period size: 113 Copynumber: 2.7 Consensus size: 113
12301971 TTCATTATTG
* **
12301981 AATTCTTAAAAATATACTTTTCATGTTTTCAACAAAAACTACTTTTTTATCTTAAAAATGTTG-T
1 AATTC-TAAAAATATATTTTTCATGTTTTCAACAAAAA-TTGTTTTTTATCTTAAAAATGTTGAT
* ** ** *
12302045 CATTTC-AGTAAAGGCTTTATTTTTATCTAAGAAATTTCATCTTTATTGA
64 CTTTTCAACAAAAGGCTTTATTTTTATCTAAGAAATGCCATCTTTATTCA
* * * * * *
12302094 ATTTTTAAAAAATATATTTTTCATATTTTCAACAAAAACTGCGTTTTTATCTTAAAAACGTTGAT
1 AATTCT-AAAAATATATTTTTCATGTTTTCAACAAAAATTG-TTTTTTATCTTAAAAATGTTGAT
* * * *
12302159 CTTTTCAACAAAATG-TTT-TTTTTATCTTAGTAATGCCATTTTTA-TCA
64 CTTTTCAACAAAAGGCTTTATTTTTATCTAAGAAATGCCATCTTTATTCA
* *
12302206 AATTCTAAAAATTATATTTTTCATGTTCTCAACAAAAATTGTATTTTTATATCTTAGAAATGTT-
1 AATTCTAAAAA-TATATTTTTCATGTTTTCAACAAAAATTG--TTTTT-TATCTTAAAAATGTTG
*
12302270 ATATTTTCAACAAAA
62 ATCTTTTCAACAAAA
12302285 ATTACATTTT
Statistics
Matches: 155, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
111 5 0.03
112 33 0.21
113 90 0.58
114 22 0.14
115 5 0.03
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (113 bp):
AATTCTAAAAATATATTTTTCATGTTTTCAACAAAAATTGTTTTTTATCTTAAAAATGTTGATCT
TTTCAACAAAAGGCTTTATTTTTATCTAAGAAATGCCATCTTTATTCA
Found at i:12305482 original size:16 final size:15
Alignment explanation
Indices: 12305463--12305498 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
12305453 AAAAAAACTA
*
12305463 AAAATAAAAACTTAAG
1 AAAATAAAAA-TAAAG
12305479 AAAATAAAAATAAAG
1 AAAATAAAAATAAAG
12305494 AAAAT
1 AAAAT
12305499 GAAATCGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAATAAAAATAAAG
Found at i:12307164 original size:119 final size:118
Alignment explanation
Indices: 12306751--12307729 Score: 818
Period size: 119 Copynumber: 8.2 Consensus size: 118
12306741 GTCAATGATA
* * * *
12306751 AAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGACTGATCGAGATGAAACCATGA
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGAT-GGGGTGAAACCATGA
* ** * * * * **
12306816 GTCAAAAAGAAAGCAACTAAGATTGAATTGAGGTAAAAAATAAATGA-TTGAGATG
65 GTCAAAATG-AAGTGACCAAGATTGAGTCGAGGTTAAAAATAAATGACCAG-GATG
* * * * ** **
12306871 AAACCATGAGTCATAAGAAATGATTTAGACTAAGCCAAGATCGAGTGACTGGGGCAAAACCACAA
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGA-TGGGGTGAAACCATGA
* * ** *
12306936 GTCAAGATGAAGTGGCCAAGATCAAGTCGAGGTTAAAAATAAATGACCTA--AAG
65 GTCAAAATGAAGTGACCAAGATTGAGTCGAGGTTAAAAATAAATGACC-AGGATG
* * * *
12306989 AAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAAATTGAGTGATTGGGG-CAAAGCCATG
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGA-TGGGGTGAAA-CCATG
* * *
12307053 AGTCAAAAATGAAGTGACCAAGATTGAGTCAAGGTTGAAAATAAATAACCAGGATG
64 AGTC-AAAATGAAGTGACCAAGATTGAGTCGAGGTTAAAAATAAATGACCAGGATG
* * ** **
12307109 AAATCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGGGTGATTAGGCAAAACCACT-A
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGATGGGGTGAAACCA-TGA
* * * * *
12307173 GTCAAAAATTAAGTGACCAAGACTGAGTGGAGGTAAAAAATAAATGATC-GAGATG
65 GTC-AAAATGAAGTGACCAAGATTGAGTCGAGGTTAAAAATAAATGACCAG-GATG
* * *
12307228 AAACCACAAGTCATAAGAAATGATTTGGATTGAGCCAAGATCG-GATGATCGGGGTGAAACCATG
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAG-TGAT-GGGGTGAAACCATG
* * ** * * * *
12307292 AGTCAAAATGAAATGACCAGGATCAAGTCGAGGTCAAAAATAAATGACTAAGATA
64 AGTCAAAATGAAGTGACCAAGATTGAGTCGAGGTTAAAAATAAATGACCAGGATG
* * * * * * ** *
12307347 AAACTATGAGTCATAAGAAATTATTTAGACTGAGTCAAGATC-AG-GTACCAGGGTGAAACCATA
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTG-A-TGGGGTGAAACCATG
** * *
12307410 AGTCAAAAATGAAACGACCAAGATTGAGTCGAGGTTGAAAATAAATGACCAAGATG
64 AGTC-AAAATGAAGTGACCAAGATTGAGTCGAGGTTAAAAATAAATGACCAGGATG
* * * * * * *
12307466 AAACCATGAGCCATAAGAAATGATCTGGACTGGGCCAAGATTGGGTGACTGGGGTGAAACTACGA
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGA-TGGGGTGAAACCATGA
* * * ** * *
12307531 ATCAAAAT-AAG-GCAATCAGGATTGAGTTAAGG-TCAAAATAAATGATCAGGATG
65 GTCAAAATGAAGTG--ACCAAGATTGAGTCGAGGTTAAAAATAAATGACCAGGATG
* ** * * * * *
12307584 AAACTATAAGTCATAAGAAATGATCTGAACTAAGCTAAGATCGAGTGATGGGGGTGAAACTACGA
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGAT-GGGGTGAAACCATGA
* ** *
12307649 GTCAAAATGAAGTGACCAAGACTGAGTC-AGGGTCGAAAATAAATGACTAGGATG
65 GTCAAAATGAAGTGACCAAGATTGAGTCGA-GGTTAAAAATAAATGACCAGGATG
12307703 AAACCACGAGTCA-AA-AAATGATCTGGA
1 AAACCACGAGTCATAAGAAATGATCTGGA
12307730 TAGAATCGAG
Statistics
Matches: 688, Mismatches: 144, Indels: 57
0.77 0.16 0.06
Matches are distributed among these distances:
117 18 0.03
118 170 0.25
119 362 0.53
120 136 0.20
121 2 0.00
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (118 bp):
AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGAGTGATGGGGTGAAACCATGAG
TCAAAATGAAGTGACCAAGATTGAGTCGAGGTTAAAAATAAATGACCAGGATG
Found at i:12307416 original size:357 final size:356
Alignment explanation
Indices: 12306751--12307726 Score: 1066
Period size: 357 Copynumber: 2.7 Consensus size: 356
12306741 GTCAATGATA
* ** *
12306751 AAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGACTGATCGAGATGAAACCA-TG
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGGGTGAT-GAGGTGAAACCACT-
* * * * * *
12306815 AGTCAAAAAGAAAGCAACTAAGATTGAATTGAGGTAAAAAATAAATGATTGAGATGAAACCATGA
64 AGTCAAAAA-TAAG-GACCAAGATTGAGTTGAGGTAAAAAATAAATGATCGAGATGAAACCATAA
* ** * *
12306880 GTCATAAGAAATGATTTAGACTAAGCCAAGATCGAGTGA-CTGGGGCAAAACCACAAGTCAAGAT
127 GTCATAAGAAATGATTTGGACTAAGCCAAGATCGAGTGATC-GGGGTGAAACCACGAGTCAAAAT
* * *
12306944 GAAGTGGCCAAGATCAAGTCGAGGTTAAAAATAAATGACCTAA-A-GAAACCACAAGTCATAAGA
191 GAAGTGACCAAGATCAAGTCGAGGTCAAAAATAAATGA-CTAAGATGAAACCACGAGTCATAAGA
* * ** * **
12307007 AATGATCTGGACTGAGCCAAAATTGAGTGATTGGGGCAAAGCCATGAGTCAAAAATGAAGTGACC
255 AATGATCTAGACTGAGCCAAAATAGAGTGACAGGGGCAAAGCCATAAGTCAAAAATGAAACGACC
*
12307072 AAGATTGAGTCAAGGTTGAAAATAAATAACCAGGATG
320 AAGATTGAGTCAAGGTTGAAAATAAATAACCAAGATG
* * **
12307109 AAATCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGGGTGATTAGGCAAAACCACTAG
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGGGTGATGAGGTGAAACCACTAG
* * *
12307174 TCAAAAATTAAGTGACCAAGACTGAGTGGAGGTAAAAAATAAATGATCGAGATGAAACCACAAGT
66 TCAAAAA-TAAG-GACCAAGATTGAGTTGAGGTAAAAAATAAATGATCGAGATGAAACCATAAGT
* * *
12307239 CATAAGAAATGATTTGGATTGAGCCAAGATCG-GATGATCGGGGTGAAACCATGAGTCAAAATGA
129 CATAAGAAATGATTTGGACTAAGCCAAGATCGAG-TGATCGGGGTGAAACCACGAGTCAAAATGA
* * * * *
12307303 AATGACCAGGATCAAGTCGAGGTCAAAAATAAATGACTAAGATAAAACTATGAGTCATAAGAAAT
193 AGTGACCAAGATCAAGTCGAGGTCAAAAATAAATGACTAAGATGAAACCACGAGTCATAAGAAAT
* * * *
12307368 TATTTAGACTGAGTCAAGATCAG-GT-ACCAGGGTG-AAA-CCATAAGTCAAAAATGAAACGACC
258 GATCTAGACTGAGCCAAAAT-AGAGTGA-CAGGG-GCAAAGCCATAAGTCAAAAATGAAACGACC
* *
12307429 AAGATTGAGTCGAGGTTGAAAATAAATGACCAAGATG
320 AAGATTGAGTCAAGGTTGAAAATAAATAACCAAGATG
* * * * * * *
12307466 AAACCATGAGCCATAAGAAATGATCTGGACTGGGCCAAGATTGGGTGACTGGGGTGAAACTACGA
1 AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGGGTGA-TGAGGTGAAACCACTA
* * * * * *
12307531 ATC-AAAATAAGGCAATCAGGATTGAGTTAAGGT-CAAAATAAATGATC-AGGATGAAACTATAA
65 GTCAAAAATAAGG--ACCAAGATTGAGTTGAGGTAAAAAATAAATGATCGA-GATGAAACCATAA
* * * * *
12307593 GTCATAAGAAATGATCTGAACTAAGCTAAGATCGAGTGATGGGGGTGAAACTACGAGTCAAAATG
127 GTCATAAGAAATGATTTGGACTAAGCCAAGATCGAGTGATCGGGGTGAAACCACGAGTCAAAATG
* * *
12307658 AAGTGACCAAGA-CTGAGTC-AGGGTCGAAAATAAATGACTAGGATGAAACCACGAGTCA-AA-A
192 AAGTGACCAAGATC-AAGTCGA-GGTCAAAAATAAATGACTAAGATGAAACCACGAGTCATAAGA
12307719 AATGATCT
255 AATGATCT
12307727 GGATAGAATC
Statistics
Matches: 516, Mismatches: 87, Indels: 34
0.81 0.14 0.05
Matches are distributed among these distances:
354 7 0.01
355 6 0.01
356 134 0.26
357 267 0.52
358 100 0.19
359 2 0.00
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (356 bp):
AAACCACGAGTCATAAGAAATGATCTGGACTGAGCCAAGATCGGGTGATGAGGTGAAACCACTAG
TCAAAAATAAGGACCAAGATTGAGTTGAGGTAAAAAATAAATGATCGAGATGAAACCATAAGTCA
TAAGAAATGATTTGGACTAAGCCAAGATCGAGTGATCGGGGTGAAACCACGAGTCAAAATGAAGT
GACCAAGATCAAGTCGAGGTCAAAAATAAATGACTAAGATGAAACCACGAGTCATAAGAAATGAT
CTAGACTGAGCCAAAATAGAGTGACAGGGGCAAAGCCATAAGTCAAAAATGAAACGACCAAGATT
GAGTCAAGGTTGAAAATAAATAACCAAGATG
Found at i:12308843 original size:20 final size:19
Alignment explanation
Indices: 12308794--12308844 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
12308784 ACCCCATCGA
12308794 TTTTTCTTT-CTTTTTTTT
1 TTTTTCTTTGCTTTTTTTT
12308812 TTTTTGCTTTTGCTTTTTTTT
1 TTTTT-C-TTTGCTTTTTTTT
12308833 TTTTTCATTTGC
1 TTTTTC-TTTGC
12308845 CAAAACACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.17
19 1 0.03
20 9 0.31
21 14 0.48
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.80
Consensus pattern (19 bp):
TTTTTCTTTGCTTTTTTTT
Found at i:12311696 original size:43 final size:43
Alignment explanation
Indices: 12311640--12311729 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
12311630 GTAATAAAGA
* * *
12311640 AAAAAAATGAATAATTAAGAAAGTATAAACAATGAAAACGAAT
1 AAAAAAATAAATAATAAAGAAAGTATAAACAATGAAAAAGAAT
* *
12311683 AAAAAAATAAATAATAAAGCAAGTATAAGCAATGAAAAAGAAT
1 AAAAAAATAAATAATAAAGAAAGTATAAACAATGAAAAAGAAT
12311726 AAAA
1 AAAA
12311730 TAATTTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.68, C:0.04, G:0.11, T:0.17
Consensus pattern (43 bp):
AAAAAAATAAATAATAAAGAAAGTATAAACAATGAAAAAGAAT
Found at i:12312591 original size:13 final size:14
Alignment explanation
Indices: 12312573--12312606 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
12312563 TTGAAAAAGA
12312573 TTTTTTTATT-CTT
1 TTTTTTTATTGCTT
12312586 TTTTTTT-TTGCTT
1 TTTTTTTATTGCTT
12312599 TTTTTTTA
1 TTTTTTTA
12312607 AAACTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 17 0.89
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTTTTATTGCTT
Done.