Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, 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: 2340112
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 12
Found at i:1322399 original size:20 final size:20
Alignment explanation
Indices: 1322351--1322409 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1322341 AATAGTTTCT
** *
1322351 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
1322371 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
1322391 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
1322410 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:1322681 original size:22 final size:22
Alignment explanation
Indices: 1322654--1322697 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1322644 GATGGAGATA
1322654 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1322676 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1322698 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1322895 original size:21 final size:21
Alignment explanation
Indices: 1322865--1323000 Score: 90
Period size: 20 Copynumber: 6.7 Consensus size: 21
1322855 CGCTTTGAAA
1322865 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGATTATGTATT
* * *
1322886 ATCGCGTTGCGA--AAGTCAGT
1 ATCGCATTGCGATTATGT-ATT
* * *
1322906 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTATT
*
1322927 ATCGCATTGCGA-TA-GTAAGT
1 ATCGCATTGCGATTATGT-ATT
* *
1322947 ATCGTATTGCGA-TA-GTAAGT
1 ATCGCATTGCGATTATGT-ATT
*
1322967 ATCGCATTGCGA-TA-GTCAGT
1 ATCGCATTGCGATTATGT-ATT
1322987 ATCGCATTGCGATT
1 ATCGCATTGCGATT
1323001 TACTTATTCG
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
19 5 0.05
20 65 0.68
21 24 0.25
22 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (21 bp):
ATCGCATTGCGATTATGTATT
Found at i:1322955 original size:20 final size:20
Alignment explanation
Indices: 1322926--1322999 Score: 130
Period size: 20 Copynumber: 3.7 Consensus size: 20
1322916 GATTTTGTAT
1322926 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
1322946 TATCGTATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
1322966 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
1322986 TATCGCATTGCGAT
1 TATCGCATTGCGAT
1323000 TTACTTATTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:1323018 original size:40 final size:42
Alignment explanation
Indices: 1322865--1323002 Score: 169
Period size: 41 Copynumber: 3.4 Consensus size: 42
1322855 CGCTTTGAAA
* *
1322865 ATCGCATTGCGA-TTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTATGTATTATCGCATTGCGATAGTCAGT
* * *
1322906 ATCTCGTTGCGATTT-TGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTTATGTATTATCGCATTGCGATAGTCAGT
* *
1322947 ATCGTATTGCGA--TA-GTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTATGT-ATTATCGCATTGCGATAGTCAGT
1322987 ATCGCATTGCGATTTA
1 ATCGCATTGCGATTTA
1323003 CTTATTCGCG
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.04
40 32 0.40
41 42 0.52
42 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (42 bp):
ATCGCATTGCGATTTATGTATTATCGCATTGCGATAGTCAGT
Found at i:1323090 original size:12 final size:12
Alignment explanation
Indices: 1323073--1323106 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1323063 TCCAACTATC
1323073 GCAACGCGAAAT
1 GCAACGCGAAAT
1323085 GCAACGCGAAAT
1 GCAACGCGAAAT
1323097 GCAACGCGAA
1 GCAACGCGAA
1323107 TTTGTGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.26, G:0.26, T:0.06
Consensus pattern (12 bp):
GCAACGCGAAAT
Found at i:1323996 original size:59 final size:59
Alignment explanation
Indices: 1323846--1324022 Score: 202
Period size: 59 Copynumber: 3.0 Consensus size: 59
1323836 TAGGTCTCTG
*
1323846 AACTATG-AT-TCATTC-AAATTGTCCTTAAACTTTTAAATATTTCAATTTCATCCTTA
1 AACTATGAATCTCATTCTAAATTGTCCTTAAACTTTTAAATATTTCAATTTCATCCTCA
* * *
1323902 AACTATGACTCTCATTCTAAACTAGTCCTTAAACTTTTGAAA-ATTTTAATTTCATCC-CA
1 AACTATGAATCTCATTCTAAA-TTGTCCTTAAACTTTT-AAATATTTCAATTTCATCCTCA
* * * * * *
1323961 AATTATGAATCTCATTCTAAATTGGTCCCTAAACTTTTAGATCTTTCAATTTTATCCCCA
1 AACTATGAATCTCATTCTAAATT-GTCCTTAAACTTTTAAATATTTCAATTTCATCCTCA
1324021 AA
1 AA
1324023 TTCATCCAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
56 7 0.07
57 1 0.01
58 9 0.09
59 48 0.48
60 33 0.33
61 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.41
Consensus pattern (59 bp):
AACTATGAATCTCATTCTAAATTGTCCTTAAACTTTTAAATATTTCAATTTCATCCTCA
Found at i:1329539 original size:59 final size:59
Alignment explanation
Indices: 1329437--1329548 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 59
1329427 TATGCACTGA
* ** *
1329437 AGTGTTAATACACATAAGGTTGTGCCCACCATATGCACCAAGTGTCCTTTATACACTAT
1 AGTGGTAATACACATAAGGTCATGCCCACCATACGCACCAAGTGTCCTTTATACACTAT
* * **
1329496 AGTGGTAATACATATAAGGTCATGCCCATCATACGCATTAAGTGTCCTTTATA
1 AGTGGTAATACACATAAGGTCATGCCCACCATACGCACCAAGTGTCCTTTATA
1329549 TACACTGTAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 45 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (59 bp):
AGTGGTAATACACATAAGGTCATGCCCACCATACGCACCAAGTGTCCTTTATACACTAT
Found at i:1334597 original size:16 final size:17
Alignment explanation
Indices: 1334576--1334609 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1334566 ATAGATTGTC
1334576 ATTTC-ATAAGAGAAAA
1 ATTTCAATAAGAGAAAA
1334592 ATTTCAATAAGAGAAAA
1 ATTTCAATAAGAGAAAA
1334609 A
1 A
1334610 ATTAAGCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (17 bp):
ATTTCAATAAGAGAAAA
Found at i:1334863 original size:17 final size:17
Alignment explanation
Indices: 1334841--1334875 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1334831 TAGCTTTCTT
1334841 ATTGTACTATATAAACA
1 ATTGTACTATATAAACA
1334858 ATTGTACTATATAAACA
1 ATTGTACTATATAAACA
1334875 A
1 A
1334876 GTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (17 bp):
ATTGTACTATATAAACA
Found at i:1337642 original size:13 final size:13
Alignment explanation
Indices: 1337624--1337651 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1337614 CTTTTAACTG
1337624 TTGACCGTTGACT
1 TTGACCGTTGACT
1337637 TTGACCGTTGACT
1 TTGACCGTTGACT
1337650 TT
1 TT
1337652 TTCTGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:1338380 original size:56 final size:53
Alignment explanation
Indices: 1338319--1338442 Score: 133
Period size: 56 Copynumber: 2.3 Consensus size: 53
1338309 TGTGTTCCTA
*
1338319 ATCTATTCTGTATGGGATTTGTCCCCCGATCTATTCTATATAGGATTTGTTCCCCG
1 ATCTATTCTGTATGGGATTTGTCCCCCGATATATT-T-TAT-GGATTTGTTCCCCG
* * * * *
1338375 ATCTATT-TAGTATGGTATTTGTTCCTCGATATGTTTTGTGGATTTGTTCCCCG
1 ATCTATTCT-GTATGGGATTTGTCCCCCGATATATTTTATGGATTTGTTCCCCG
* *
1338428 GTCTGTTCTGTATGG
1 ATCTATTCTGTATGG
1338443 AATAATATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
53 25 0.43
54 3 0.05
55 2 0.03
56 28 0.48
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.45
Consensus pattern (53 bp):
ATCTATTCTGTATGGGATTTGTCCCCCGATATATTTTATGGATTTGTTCCCCG
Found at i:1338397 original size:28 final size:28
Alignment explanation
Indices: 1338319--1338443 Score: 111
Period size: 28 Copynumber: 4.6 Consensus size: 28
1338309 TGTGTTCCTA
*
1338319 ATCTATTCT-GTATGGGATTTGTCCCCCG
1 ATCTATTCTAGTAT-GGATTTGTTCCCCG
1338347 ATCTATTCTA-TATAGGATTTGTTCCCCG
1 ATCTATTCTAGTAT-GGATTTGTTCCCCG
*
1338375 ATCTATT-TAGTATGGTATTTGTTCCTCG
1 ATCTATTCTAGTATGG-ATTTGTTCCCCG
* * *
1338403 ATATGTT-T--TGTGGATTTGTTCCCCG
1 ATCTATTCTAGTATGGATTTGTTCCCCG
* *
1338428 GTCTGTTCT-GTATGGA
1 ATCTATTCTAGTATGGA
1338444 ATAATATACA
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
25 16 0.20
26 5 0.06
27 9 0.11
28 52 0.63
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (28 bp):
ATCTATTCTAGTATGGATTTGTTCCCCG
Found at i:1339741 original size:20 final size:20
Alignment explanation
Indices: 1339716--1339786 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
1339706 CAAAATGAGC
1339716 AGTATCGATACTCTATTTGT
1 AGTATCGATACTCTATTTGT
1339736 AGTATCGATACTCTATTTGT
1 AGTATCGATACTCTATTTGT
*
1339756 AGTATGGATACTCTATTTGT
1 AGTATCGATACTCTATTTGT
1339776 AGTATCGATAC
1 AGTATCGATAC
1339787 CCTACAGTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (20 bp):
AGTATCGATACTCTATTTGT
Found at i:1341467 original size:29 final size:30
Alignment explanation
Indices: 1341434--1341491 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
1341424 AATAGAATTT
*
1341434 ATTTTAATTAAAATT-AATGGTAAAATGAA
1 ATTTTAATTAAAATTGAATCGTAAAATGAA
* * *
1341463 ATTTTAGTTACAATTGAATCGTTAAATGA
1 ATTTTAATTAAAATTGAATCGTAAAATGA
1341492 GATATTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (30 bp):
ATTTTAATTAAAATTGAATCGTAAAATGAA
Found at i:1343679 original size:17 final size:17
Alignment explanation
Indices: 1343624--1343679 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
1343614 AAATACCAAG
* *
1343624 ATAAGAATTTATATAAA
1 ATAAAAATTTATATAAT
*
1343641 ATAAAAATTTATAAACAT
1 ATAAAAATTTATATA-AT
**
1343659 ATAAATGTTTATATAAT
1 ATAAAAATTTATATAAT
1343676 ATAA
1 ATAA
1343680 TTCAAACGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (17 bp):
ATAAAAATTTATATAAT
Found at i:1344048 original size:20 final size:20
Alignment explanation
Indices: 1344025--1344086 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 20
1344015 TCGACTAAAA
1344025 ATTATTTAAAAAAATATTTT
1 ATTATTTAAAAAAATATTTT
*
1344045 ATTAATTAAAATAAATTATTTT
1 ATTATTTAAAA-AAA-TATTTT
* *
1344067 CTCTTTTTATAAAAAATATT
1 AT-TATTTA-AAAAAATATT
1344087 AAATCAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 10 0.29
21 3 0.09
22 11 0.32
23 7 0.21
24 3 0.09
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATTTAAAAAAATATTTT
Found at i:1345267 original size:17 final size:17
Alignment explanation
Indices: 1345243--1345285 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1345233 CTCCCTGAAG
1345243 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
*
1345260 CTCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
1345277 CCCGTGACC
1 CCCGTGACC
1345286 TGCAAGCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.16, C:0.47, G:0.23, T:0.14
Consensus pattern (17 bp):
CCCGTGACCAGCTCGCA
Found at i:1354846 original size:8 final size:8
Alignment explanation
Indices: 1354833--1354858 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1354823 AGATTCTCCC
1354833 ATATGTAT
1 ATATGTAT
1354841 ATATGTAT
1 ATATGTAT
1354849 ATATGTAT
1 ATATGTAT
1354857 AT
1 AT
1354859 CTTCTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:1359697 original size:51 final size:50
Alignment explanation
Indices: 1359552--1359804 Score: 193
Period size: 51 Copynumber: 4.9 Consensus size: 50
1359542 AGACACGATT
* * * * * *
1359552 GTTGAAGATATTCGAGTTCTATTCTTCTTAAAGAAAGAA-GGAGCGAACCC
1 GTTGAAGATGTCCGAGTTCCATACTCCCTAAAGAAA-AAGGGAGCGAACCC
** * *
1359602 GTTTGAAGAGATGTCTAAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCC
1 G-TTG-A-AGATGTCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCC
* * *
1359655 GTGTGAAGATATCCGAGTCCCATACTCCGTAAAGAAAAAGGGAGCGAACCC
1 GT-TGAAGATGTCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCC
* * * * *
1359706 AGTTGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCC
1 -GTTGAAGATGTCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCC
* * * * * *
1359757 GTTTGCAGAAGATTTTCAAGTTCTATACTCCCTGAAGAAATAGGGAGC
1 G-TT---GAAGATGTCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGC
1359805 AGACGCGATT
Statistics
Matches: 164, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
50 2 0.01
51 83 0.51
52 6 0.04
53 36 0.22
54 37 0.23
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (50 bp):
GTTGAAGATGTCCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCC
Found at i:1359906 original size:55 final size:53
Alignment explanation
Indices: 1359780--1360008 Score: 305
Period size: 53 Copynumber: 4.2 Consensus size: 53
1359770 TTTCAAGTTC
* *
1359780 TATACTCCCTGAAGAAATAGGGAGCAGACGCGATTGATGAAAATTGTGGGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTGGGTCT
* * * *
1359833 TATACTCTCTGCAGAAATAGGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTG-T-GGGTCT
* * * *
1359888 TATACTCTCTGAAGAAATAGGGGGAAGACGTGATTGATGAGGATTGTGGGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTGGGTCT
* * *
1359941 TATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTAAAGATTGTTCGGGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTG-T-GGGTCT
1359996 TATACTCTCTGAA
1 TATACTCTCTGAA
1360009 AGACTATGGA
Statistics
Matches: 153, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
53 87 0.57
54 3 0.02
55 63 0.41
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (53 bp):
TATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTGGGTCT
Found at i:1359917 original size:108 final size:108
Alignment explanation
Indices: 1359780--1360008 Score: 359
Period size: 108 Copynumber: 2.1 Consensus size: 108
1359770 TTTCAAGTTC
* * *
1359780 TATACTCCCTGAAGAAATAGGGAGCAGACGCGATTGATGAAAATTGTGGGTCTTATACTCTCTGC
1 TATACTCTCTGAAGAAATAGGGAGAAGACGCGATTGATGAAAATTGTGGGTCTTATACTCTCTGA
* *
1359845 AGAAATAGGGAGCCGACACGATTGTTGAAGATTGTTCGGGTCT
66 AGAAATAGGGAGCAGACACGATTGTTAAAGATTGTTCGGGTCT
* * **
1359888 TATACTCTCTGAAGAAATAGGGGGAAGACGTGATTGATGAGGATTGTGGGTCTTATACTCTCTGA
1 TATACTCTCTGAAGAAATAGGGAGAAGACGCGATTGATGAAAATTGTGGGTCTTATACTCTCTGA
* *
1359953 AGAAATAGGGGGCAGACGCGATTGTTAAAGATTGTTCGGGTCT
66 AGAAATAGGGAGCAGACACGATTGTTAAAGATTGTTCGGGTCT
1359996 TATACTCTCTGAA
1 TATACTCTCTGAA
1360009 AGACTATGGA
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (108 bp):
TATACTCTCTGAAGAAATAGGGAGAAGACGCGATTGATGAAAATTGTGGGTCTTATACTCTCTGA
AGAAATAGGGAGCAGACACGATTGTTAAAGATTGTTCGGGTCT
Found at i:1360713 original size:17 final size:17
Alignment explanation
Indices: 1360689--1360731 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1360679 CTCCCTGAAG
1360689 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
*
1360706 CTCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
1360723 CCCGTGACC
1 CCCGTGACC
1360732 TGCAAGCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.16, C:0.47, G:0.23, T:0.14
Consensus pattern (17 bp):
CCCGTGACCAGCTCGCA
Found at i:1364525 original size:30 final size:29
Alignment explanation
Indices: 1364476--1364662 Score: 79
Period size: 30 Copynumber: 5.9 Consensus size: 29
1364466 AGTGAGGTGG
1364476 TGGTGGGGAGGAGACTTGTACTTGTAAAC
1 TGGTGGGGAGGAGACTTGTACTTGTAAAC
* * * **
1364505 TGGTGGGGGTGGAGATTTGTATTTGTATGCCTCC
1 TGGT-GGGGAGGAGACTTGTACTTGTA----AAC
* * *
1364539 TTAGGAGGTGGAGGAGACATGTACTTATAAAC
1 -T-GGTGG-GGAGGAGACTTGTACTTGTAAAC
* * *
1364571 TGGAGGAGGTGGAGACTTGTACTTGTATACCTCC
1 TGGTGG-GGAGGAGACTTGTACTTGTA-A---AC
* * *
1364605 TTCGGGGGAGGAGGGGACTTATACTTGT-AAC
1 -T-GGTGG-GGAGGAGACTTGTACTTGTAAAC
*
1364636 TGGTGGAGGTGGAGACTTGTACTTGTA
1 TGGTGG-GGAGGAGACTTGTACTTGTA
1364663 TGCCTCCTTG
Statistics
Matches: 116, Mismatches: 27, Indels: 29
0.67 0.16 0.17
Matches are distributed among these distances:
29 25 0.22
30 42 0.36
31 3 0.03
32 1 0.01
34 3 0.03
35 4 0.03
36 38 0.33
ACGTcount: A:0.22, C:0.12, G:0.36, T:0.30
Consensus pattern (29 bp):
TGGTGGGGAGGAGACTTGTACTTGTAAAC
Found at i:1364570 original size:66 final size:66
Alignment explanation
Indices: 1364482--1365550 Score: 630
Period size: 66 Copynumber: 16.3 Consensus size: 66
1364472 GTGGTGGTGG
* * * *
1364482 GGAGGAGACTTGTACTTGTAAACTGGTGGGGGTGGAGATTTGTATTTGTATGCCTCCTTAGGAGG
1 GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGG
*
1364547 T
66 A
* * * * *
1364548 GGAGGAGACATGTACTTATAAACTGGAGGAGGTGGAGACTTGTACTTGTATACCTCCTTCGGGGG
1 GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGG
1364613 A
66 A
* * *
1364614 GGAGGGGACTTATACTTGT-AACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGG
1 GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGG
1364678 A
66 A
** * * * *
1364679 GGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTA-----AC-T
1 GGAGGAGACTTGTACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT
*
1364738 -GGTGGA
60 AGGGGGA
* ** * *
1364744 GGTGGAGACTTGTACTTGTATTCCTCCTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTT
1 GGAGGAGACTTGTACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT
*
1364809 GGGGGGA
60 AGGGGGA
* *
1364816 GGAGGGGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTT-GGGAG
1 GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGG-G
1364880 GA
65 GA
** * * * **
1364882 GGAGGAGACTTGTACTTGTATGCCTCCATGGGGGGAGGAGGGGACTTGTACTTGTA----AAC-T
1 GGAGGAGACTTGTACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT
*
1364942 -GGTGGA
60 AGGGGGA
* ** * * *
1364948 GGTGGAGACTTGTACTTGTATTCCTCCTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTTCTT
1 GGAGGAGACTTGTACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT
*
1365013 GGGGGGA
60 AGGGGGA
* *
1365020 GGAGG-G----G-ACTTG------GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTT-GGAGG
1 GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGG-GG
1365072 GA
65 GA
* * *
1365074 GGAGGAGACTTATACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGGGG
1 GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGG
1365139 A
66 A
** * * * **
1365140 GGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTA----AAC-T
1 GGAGGAGACTTGTACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT
*
1365200 -GGTGGA
60 AGGGGGA
* ** ** * * *
1365206 GGTGGAGACTTGTACTTGTATTCCTCCTTGGGAGGAGGAGAATTGTACTTGTATGCCTCCTTGGG
1 GGAGGAGACTTGTACTTGTA-AACT-GGT-GGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGG
1365271 GGGA
63 GGGA
* *
1365275 GGAGGGGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTT---GGG
1 GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGG
1365337 A
66 A
** ** * * * * **
1365338 GGAGGAGGACTTGTAC-TGTATGCCTCCTTGGGGGGAGGGGACTTATACTTGTA----AAC-T-G
1 GGAGGA-GACTTGTACTTGTA-AACT-GGT-GGAGGTGGAGACTTGTACTTGTATGCCTCCTTAG
*
1365396 GTGGA
62 GGGGA
* ** ** * * *
1365401 GGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGACTTGTACTTGTATGCCTCCTTGG
1 GGAGGAGACTTGTACTTGTA-AACT-GGT-GGAGGTGGA-GACTTGTACTTGTATGCCTCCTTAG
1365466 GGGGA
62 GGGGA
* * *
1365471 GGAGGGGACTTGTACTTGTAAACTGGTGGAGGTGGGGACTTGTACTTGTATTCCTCCTT---GGG
1 GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGG
1365533 A
66 A
1365534 GGAGGAGACTTGTACTT
1 GGAGGAGACTTGTACTT
1365551 ATATGCCTCC
Statistics
Matches: 815, Mismatches: 120, Indels: 139
0.76 0.11 0.13
Matches are distributed among these distances:
53 2 0.00
54 43 0.05
55 1 0.00
60 5 0.01
61 1 0.00
62 11 0.01
63 87 0.11
64 24 0.03
65 121 0.15
66 334 0.41
67 17 0.02
68 8 0.01
69 26 0.03
70 28 0.03
71 6 0.01
72 101 0.12
ACGTcount: A:0.19, C:0.14, G:0.37, T:0.29
Consensus pattern (66 bp):
GGAGGAGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGG
A
Found at i:1364624 original size:36 final size:35
Alignment explanation
Indices: 1364575--1365721 Score: 679
Period size: 36 Copynumber: 33.5 Consensus size: 35
1364565 ATAAACTGGA
*
1364575 GGAGGTGGAGACTTGTACTTGTATACCTCCTTCGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
* * *
1364611 GGAGGAGGGGACTTATACTTGTA-A----C-TGGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1364640 GGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
*
1364676 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
* *
1364712 GGAGGAGGGGACTTGTACTTGTA-A----C-TGGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1364741 GGAGGTGGAGACTTGTACTTGTATTCCTCCTTGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
*
1364776 AGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
1 -GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
* * *
1364813 GGAGGAGGGGACTTGTACTTGTA-A---AC-TGGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1364843 GGAGGTGGAGACTTGTACTTGTATTCCTCCTTGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1364878 AGGAGGAGGAGACTTGTACTTGTATGCCTCCATGGGG
1 -GGAGGAGGAGACTTGTACTTGTATACCTCC-TTGGG
* * *
1364915 GGAGGAGGGGACTTGTACTTGTA-A---AC-TGGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1364945 GGAGGTGGAGACTTGTACTTGTATTCCTCCTTGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1364980 AGGAGGAGGAGACTTGTACTTGTATGCCTTCTTGGGG
1 -GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
* * *** * * * * *
1365017 GGAGGAGGGGACTTGGGAGGAGGAGGAGACTTGTACTTGTATGC
1 GGAGGAGGAGACTT----GTACTTGTATAC--CTCCTTG---GG
****** *** * **** ** *
1365061 CTCCTTGGAGGGAGGAGGAGACTTATA-CTTGTAAACTGGT
1 GGAGGAGGA--GACTTGTACTTGTATACCTCCT----TGGG
*
1365101 GGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
*
1365137 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
* * *
1365173 GGAGGAGGGGACTTGTACTTGTA-A---AC-TGGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1365203 GGAGGTGGAGACTTGTACTTGTATTCCTCCTT--G
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1365236 GGAGGAGGAGAATTGTACTTGTATGCCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
* * *
1365272 GGAGGAGGGGACTTGTACTTGTA-A---AC-TGGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1365302 GGAGGTGGAGACTTGTACTTGTATTCCTCCTT--G
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
*
1365335 GGAGGAGGAGGACTTGTAC-TGTATGCCTCCTT-GG
1 GGAGGAGGA-GACTTGTACTTGTATACCTCCTTGGG
* * * *
1365369 GG-GGAGGGGACTTATACTTGTA-A---AC-TGGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1365398 GGAGGTGGAGACTTGTACTTGTATGCCTCCTT-GG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
*
1365432 GG-GGAGGAGGACTTGTACTTGTATGCCTCCTTGGGG
1 GGAGGAGGA-GACTTGTACTTGTATACCTCCTT-GGG
* * *
1365468 GGAGGAGGGGACTTGTACTTGTA-A---AC-TGGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* * *
1365498 GGAGGTGGGGACTTGTACTTGTATTCCTCCTT--G
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* *
1365531 GGAGGAGGAGACTTGTACTTATATGCCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
* * *
1365567 GGAGGAGGGGACTTGTACTTGTA-A--ACC--GGT
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
* * * *
1365597 GGAGGTGGAGATTTATACTTGTATTCCTCCTTGGG
1 GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
** *
1365632 AGGAGGAGGAGACTTGTACTTGTATGTCTCCTTAGGA
1 -GGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGG
* *
1365669 GGAGGAGGAGACTTGTA-TT-TATAGGTCTCCTTAGGA
1 GGAGGAGGAGACTTGTACTTGTATA--CCTCCTT-GGG
*
1365705 GAAGGAGGAGACTTGTA
1 GGAGGAGGAGACTTGTA
1365722 AACAGGGGTT
Statistics
Matches: 861, Mismatches: 160, Indels: 180
0.72 0.13 0.15
Matches are distributed among these distances:
28 1 0.00
29 49 0.06
30 156 0.18
31 6 0.01
32 13 0.02
33 95 0.11
34 49 0.06
35 20 0.02
36 414 0.48
37 17 0.02
38 8 0.01
39 5 0.01
40 10 0.01
41 1 0.00
42 10 0.01
43 2 0.00
44 3 0.00
46 2 0.00
ACGTcount: A:0.19, C:0.14, G:0.37, T:0.29
Consensus pattern (35 bp):
GGAGGAGGAGACTTGTACTTGTATACCTCCTTGGG
Found at i:1364884 original size:102 final size:102
Alignment explanation
Indices: 1364572--1365589 Score: 847
Period size: 102 Copynumber: 10.3 Consensus size: 102
1364562 CTTATAAACT
* * * *
1364572 GGAGGAGGTGGAGACTTGTACTTGTATACCTCCTTCGGGGGAGGAGGGGACTTATACTTGT-AAC
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAAC
1364636 TGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
66 TGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
*
1364673 GGGGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGT-AAC
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAAC
*
1364737 TGGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
66 TGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
1364774 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAAC
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAAC
*
1364839 TGGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
66 TGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
*
1364876 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCATGGGGGGAGGAGGGGACTTGTACTTGTAAAC
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAAC
*
1364941 TGGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
66 TGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
*
1364978 GGAGGAGGAGGAGACTTGTACTTGTATGCCTTCTTGGGGGGAGGA-GGG----G-ACTTG-----
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAAC
* *
1365032 -GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTT-
66 TGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
* ** * * *
1365067 GGAGGGAGGAGGAGACTTATACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATA
1 GGA-GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTA-A
* * *
1365126 CCTCCTTGGGGGGAGGAGGAGACTTGTACTTGTATGCCTCCTTG
64 ---AC-T-GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
* * ** * * * **
1365170 GGGGGAGGAGGGGACTTGTACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATTC
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTA-AA
** * *
1365229 CTCCTTGGGAGGAGGAGAATTGTACTTGTATGCCTCCTTG
65 CT-GGT-GGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
* * ** * * * **
1365269 GGGGGAGGAGGGGACTTGTACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATTC
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTA-AA
** *
1365328 CTCCTTGGGAGGAGGAGGACTTGTAC-TGTATGCCTCCTT-
65 CT-GGT-GGAGGTGGA-GACTTGTACTTGTATGCCTCCTTG
* * ** * * * **
1365367 GG-GG-GGAGGGGACTTATACTTGTA----AAC-T-GGTGGAGGTGGAGACTTGTACTTGTATGC
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTA-AA
** * *
1365424 CTCCTTGGGGGGAGGAGGACTTGTACTTGTATGCCTCCTTG
65 CT-GGT-GGAGGTGGA-GACTTGTACTTGTATGCCTCCTTG
* * ** * * **
1365465 GGGGGAGGAGGGGACTTGTACTTGTA----AAC-T-GGTGGAGGTGGGGACTTGTACTTGTATTC
1 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTA-AA
** * *
1365524 CTCCTTGGGAGGAGGAGACTTGTACTTATATGCCTCCTTG
65 CT-GGT-GGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
* *
1365564 GGGGGAGGAGGGGACTTGTACTTGTA
1 GGAGGAGGAGGAGACTTGTACTTGTA
1365590 AACCGGTGGA
Statistics
Matches: 852, Mismatches: 38, Indels: 56
0.90 0.04 0.06
Matches are distributed among these distances:
84 7 0.01
85 3 0.00
86 1 0.00
89 4 0.00
90 59 0.07
96 81 0.10
97 16 0.02
98 5 0.01
99 173 0.20
100 73 0.09
101 158 0.19
102 270 0.32
103 2 0.00
ACGTcount: A:0.19, C:0.15, G:0.38, T:0.29
Consensus pattern (102 bp):
GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAAC
TGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
Found at i:1365031 original size:18 final size:18
Alignment explanation
Indices: 1365010--1365049 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1365000 TGTATGCCTT
* *
1365010 CTTGGGGGGAGGAGGGGA
1 CTTGGGAGGAGGAGGAGA
1365028 CTTGGGAGGAGGAGGAGA
1 CTTGGGAGGAGGAGGAGA
1365046 CTTG
1 CTTG
1365050 TACTTGTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.57, T:0.15
Consensus pattern (18 bp):
CTTGGGAGGAGGAGGAGA
Found at i:1365048 original size:156 final size:156
Alignment explanation
Indices: 1364872--1365187 Score: 569
Period size: 156 Copynumber: 2.0 Consensus size: 156
1364862 TGTATTCCTC
* * *
1364872 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCATGGGGGGAGGAGGGGACTTGTACTTGT
1 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCATGGAGGGAGGAGGAGACTTATACTTGT
*
1364937 AAACTGGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTGGGAGGAGGAGGAGACTTGTACTTG
66 AAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTACTTG
*
1365002 TATGCCTTCTTGGGGGGAGGAGGGGA
131 TATGCCTCCTTGGGGGGAGGAGGGGA
*
1365028 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGACTTATACTTGT
1 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCATGGAGGGAGGAGGAGACTTATACTTGT
*
1365093 AAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGGGGAGGAGGAGACTTGTACTTG
66 AAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTACTTG
1365158 TATGCCTCCTTGGGGGGAGGAGGGGA
131 TATGCCTCCTTGGGGGGAGGAGGGGA
1365184 CTTG
1 CTTG
1365188 TACTTGTAAA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 153 1.00
ACGTcount: A:0.20, C:0.14, G:0.40, T:0.27
Consensus pattern (156 bp):
CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCATGGAGGGAGGAGGAGACTTATACTTGT
AAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTACTTG
TATGCCTCCTTGGGGGGAGGAGGGGA
Found at i:1365056 original size:54 final size:54
Alignment explanation
Indices: 1364974--1365084 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
1364964 TGTATTCCTC
* * *
1364974 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTTCTTGGGGGGAGGAGGGGA
1 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGA
1365028 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGA
1 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGA
1365082 CTT
1 CTT
1365085 ATACTTGTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.20, C:0.13, G:0.43, T:0.24
Consensus pattern (54 bp):
CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGA
Found at i:1365097 original size:258 final size:255
Alignment explanation
Indices: 1364770--1365286 Score: 944
Period size: 258 Copynumber: 2.0 Consensus size: 255
1364760 TGTATTCCTC
* * *
1364770 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGT
1 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGACTTATACTTGT
*
1364835 AAACTGGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTGGGAGGAGGAGGAGACTTGTACTTG
66 AAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTACTTG
1364900 TATGCCTCCATGGGGGGAGGAGGGGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTT
131 TATGCCTCCATGGGGGGAGGAGGGGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTT
*
1364965 GTATTCCTCCTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTTCTTGGGGGGAGGAGGGGA
196 GTATTCCTCCTTGGGAGGAGGA-GA-A-TTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGA
1365028 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGACTTATACTTGT
1 CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGACTTATACTTGT
*
1365093 AAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGGGGAGGAGGAGACTTGTACTTG
66 AAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTACTTG
*
1365158 TATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTT
131 TATGCCTCCATGGGGGGAGGAGGGGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTT
1365223 GTATTCCTCCTTGGGAGGAGGAGAATTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGA
196 GTATTCCTCCTTGGGAGGAGGAGAATTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGA
1365283 CTTG
1 CTTG
1365287 TACTTGTAAA
Statistics
Matches: 252, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
255 38 0.15
256 1 0.00
257 2 0.01
258 211 0.84
ACGTcount: A:0.19, C:0.14, G:0.38, T:0.28
Consensus pattern (255 bp):
CTTGGGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGACTTATACTTGT
AAACTGGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTACTTG
TATGCCTCCATGGGGGGAGGAGGGGACTTGTACTTGTAAACTGGTGGAGGTGGAGACTTGTACTT
GTATTCCTCCTTGGGAGGAGGAGAATTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGA
Found at i:1365266 original size:99 final size:99
Alignment explanation
Indices: 1365035--1365685 Score: 1049
Period size: 99 Copynumber: 6.5 Consensus size: 99
1365025 GGACTTGGGA
* * *
1365035 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGAGGGAGGAGGAGACTTATACTTGTAAACTGG
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTGG
*
1365100 TGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGG
66 TGGAGGTGGAGACTTGTACTTGTATTCCTCCTT---G
1365137 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTGG
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTGG
1365202 TGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
66 TGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
*
1365236 GGAGGAGGAGAATTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTGG
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTGG
1365301 TGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
66 TGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
*
1365335 GGAGGAGGAGGACTTGTAC-TGTATGCCTCCTT--GGGG-GGAGGGGACTTATACTTGTAAACTG
1 GGAGGAGGA-GACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTG
*
1365396 GTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTG
65 GTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
*
1365431 GGGGGAGGAGGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTG
1 GGAGGAGGA-GACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTG
*
1365496 GTGGAGGTGGGGACTTGTACTTGTATTCCTCCTTG
65 GTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
* *
1365531 GGAGGAGGAGACTTGTACTTATATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACCGG
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTGG
* *
1365596 TGGAGGTGGAGATTTATACTTGTATTCCTCCTTGGG
66 TGGAGGTGGAGACTTGTACTTGTATTCCTCCTT--G
* * * *
1365632 AGGAGGAGGAGACTTGTACTTGTATGTCTCCTTAGGAGGAGGAGGAGACTTGTA
1 -GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTA
1365686 TTTATAGGTC
Statistics
Matches: 518, Mismatches: 23, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
96 76 0.15
97 17 0.03
99 209 0.40
100 73 0.14
101 1 0.00
102 142 0.27
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.29
Consensus pattern (99 bp):
GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTTGTAAACTGG
TGGAGGTGGAGACTTGTACTTGTATTCCTCCTTG
Found at i:1365683 original size:66 final size:66
Alignment explanation
Indices: 1364572--1365687 Score: 514
Period size: 66 Copynumber: 16.9 Consensus size: 66
1364562 CTTATAAACT
* * * * *
1364572 GGAGGAGGTGGAGACTTGTACTTGTATACCTCCTTCGGG-GGAGGAGGGGACTTATACTT-GTAA
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTT-GGGAGGAGGAGGAGACTTGTA-TTCCT-C
1364635 C-T-
63 CTTG
* * * *
1364637 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGACTTGTACTTGTATGC
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTA----T-T-C
1364702 CTCCTTG
60 CTCCTTG
* * ** *
1364709 GGGGGAGGAGGGGACTTGTACTTGTA-A-CT-GGT-GGAGGTGGA-GACTTGTACTTGTATTCCT
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGA---G-ACTTGTATTCCT
1364769 CCTTG
62 CCTTG
* * * * *
1364774 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTT-GTAAA
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTA-TTCCT--C
1364838 C-T-
63 CTTG
* * *
1364840 GGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTGGGAGGAGGAGGAGACTTGTACTTGTATGC
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTA----T-T-C
*
1364905 CTCCATG
60 CTCCTTG
* * * ** *
1364912 GGGGGAGGAGGGGACTTGTACTTGTA-AACT-GGT-GGAGGTGGA-GACTTGTACTTGTATTCCT
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGA---G-ACTTGTATTCCT
1364973 CCTTG
62 CCTTG
* * *
1364978 GGAGGAGGAGGAGACTTGTACTTGTATGCCTTCTTGGGGGGAGGAGG-G----G-A------CTT
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTATTCCTCCTT
1365031 G
66 G
* * *
1365032 GGAGGAGGAGGAGACTTGTACTTGTATGCCTCCTT-GGAGGGAGGAGGAGACTTATACTT-GTAA
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGA-GGAGGAGGAGACTTGTA-TTCCT--
*
1365095 AC-T-
62 CCTTG
* * *
1365098 GGTGGAGGTGGAGACTTGTACTTGTATACCTCCTTGGGGGGAGGAGGAGACTTGTACTTGTATGC
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTA----T-T-C
1365163 CTCCTTG
60 CTCCTTG
* * * ** *
1365170 GGGGGAGGAGGGGACTTGTACTTGTA-AACT-GGT-GGAGGTGGA-GACTTGTACTTGTATTCCT
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGA---G-ACTTGTATTCCT
1365231 CCTTG
62 CCTTG
* * * * *
1365236 GGAGGAGGA-GA-A-TTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTT-GTAAA
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTA-TTCCT--C
1365297 C-T-
63 CTTG
* * * *
1365299 GGTGGAGGTGGAGACTTGTACTTGTATTCCTCCTTGGGAGGAGGAGGACTTGTAC-TGTATGCCT
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGA---G-ACTTGTATTCCT
1365363 CCTT-
62 CCTTG
* * * ** * *
1365367 GG-GG-GGAGGGGACTTATACTTGTA-AACT-GGT-GGAGGTGGA-GACTTGTACTTGTATGCCT
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGA---G-ACTTGTATTCCT
1365426 CCTTG
62 CCTTG
* * * * * *
1365431 GGGGGAGGA-G-GACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGGGACTTGTACTT-GTAAA
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTA-TTCCT--C
1365493 C-T-
63 CTTG
* * * * * *
1365495 GGTGGAGGTGGGGACTTGTACTTGTATTCCTCCTTGGGAGGAGGA-GACTTGTACTTATATGCCT
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGA---G-ACTTGTATTCCT
1365559 CCTTG
62 CCTTG
* * * ** * * *
1365564 GGGGGAGGAGGGGACTTGTACTTGTA-AAC-CGGT-GGAGGTGGAGATTTATACTTGTATTCCTC
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAG---GAGACTTGTATTCCTC
1365626 CTTG
63 CTTG
** *
1365630 GGAGGAGGAGGAGACTTGTACTTGTATGTCTCCTTAGGAGGAGGAGGAGACTTGTATT
1 GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTATT
1365688 TATAGGTCTC
Statistics
Matches: 807, Mismatches: 136, Indels: 215
0.70 0.12 0.19
Matches are distributed among these distances:
53 2 0.00
54 46 0.06
55 1 0.00
60 2 0.00
61 1 0.00
62 9 0.01
63 47 0.06
64 43 0.05
65 96 0.12
66 303 0.38
67 31 0.04
68 29 0.04
69 79 0.10
70 15 0.02
71 18 0.02
72 85 0.11
ACGTcount: A:0.19, C:0.15, G:0.37, T:0.29
Consensus pattern (66 bp):
GGAGGAGGAGGAGACTTGTACTTGTATACCTCCTTGGGAGGAGGAGGAGACTTGTATTCCTCCTT
G
Found at i:1367423 original size:19 final size:19
Alignment explanation
Indices: 1367399--1367435 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1367389 TGAATAATTA
* *
1367399 TAAAATATAAAAACTAAAT
1 TAAAATAAAAAAAATAAAT
1367418 TAAAATAAAAAAAATAAA
1 TAAAATAAAAAAAATAAA
1367436 AGGAAATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAAATAAAAAAAATAAAT
Found at i:1368821 original size:26 final size:25
Alignment explanation
Indices: 1368757--1368822 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
1368747 AAAATATATC
1368757 TTTTAAAAACTTTTAATCAATTAGT
1 TTTTAAAAACTTTTAATCAATTAGT
1368782 TTTTAAAAACTTTTAATCAATTAGT
1 TTTTAAAAACTTTTAATCAATTAGT
*
1368807 TTTTAAATACATTTTA
1 TTTTAAAAAC-TTTTA
1368823 TAAAATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 34 0.87
26 5 0.13
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (25 bp):
TTTTAAAAACTTTTAATCAATTAGT
Found at i:1370319 original size:16 final size:16
Alignment explanation
Indices: 1370290--1370323 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1370280 AGGTAAACAT
*
1370290 TTATAAATATATAAAA
1 TTATAAATAAATAAAA
*
1370306 TTATACATAAATAAAA
1 TTATAAATAAATAAAA
1370322 TT
1 TT
1370324 TGAACTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TTATAAATAAATAAAA
Found at i:1370391 original size:2 final size:2
Alignment explanation
Indices: 1370386--1370443 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
1370376 TGAAGTTGCG
1370386 AT AT AT AT AT AT AT A- AT AT AT AT AT -T 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
1370426 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1370444 TTTGTAAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1371262 original size:6 final size:6
Alignment explanation
Indices: 1371256--1371289 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1371246 ATAAACTGGA
*
1371256 GGAGGA GGAGGT GGAGGT GGAGGT GGAGGT GGAG
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAG
1371290 ACTTGTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.68, T:0.12
Consensus pattern (6 bp):
GGAGGT
Found at i:1371326 original size:36 final size:34
Alignment explanation
Indices: 1371280--1371537 Score: 157
Period size: 36 Copynumber: 7.7 Consensus size: 34
1371270 AGGTGGAGGT
* * *
1371280 GGAGGTGGAGACTTGTACTTATATGGCTCCTTAGGA
1 GGAGGAGGAGACTTGTACTTGTA--ACTCCTTAGGA
*
1371316 GGAGGAGGAGACTTGTACTTGTAAACT--GTAGGA
1 GGAGGAGGAGACTTGTACTTGT-AACTCCTTAGGA
*
1371349 GGAGGAGGTGGAGACTTGTACTTGTACATCTCCTTGGGA
1 GGAGGA---GGAGACTTGTACTTGTA-A-CTCCTTAGGA
* * *
1371388 GGGGGAGGAGATTTGTACTTGTAA--AC-T-GGA
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGA
* * *
1371418 GGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGG
1 GGAGGAGGAGACTTGTACTTGTA--ACTCCTTAGGA
* * * *
1371454 GGAGGAGGAGATTTGTACTTATAA--AC-T-GGT
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGA
* *
1371484 GGAGGTGGAGACTTGTA--TGT--CTCCTTGGGA
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGA
* *
1371514 GGGGGAGGAGATTTGTACTTGTAA
1 GGAGGAGGAGACTTGTACTTGTAA
1371538 ACTGGTGGAG
Statistics
Matches: 171, Mismatches: 29, Indels: 46
0.70 0.12 0.19
Matches are distributed among these distances:
28 3 0.02
29 1 0.01
30 56 0.33
31 2 0.01
32 5 0.03
33 11 0.06
34 1 0.01
35 5 0.03
36 75 0.44
37 3 0.02
39 9 0.05
ACGTcount: A:0.23, C:0.11, G:0.37, T:0.29
Consensus pattern (34 bp):
GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGA
Found at i:1371341 original size:90 final size:89
Alignment explanation
Indices: 1371187--1371361 Score: 253
Period size: 90 Copynumber: 1.9 Consensus size: 89
1371177 CTTGTAAACG
* * * *
1371187 GGTGGGGTGGAGATTTGTACTTGTATGCCTCCTCCTTGGGGGGGAGGAGACTTGTACTTATAAAC
1 GGTGGGGTGGAGACTTGTACTTATATGCCTCCT-CTAGGGGAGGAGGAGACTTGTACTTATAAAC
1371252 TGGAGGAGGAGGAGGTGGAGGTGGA
65 TGGAGGAGGAGGAGGTGGAGGTGGA
* *
1371277 GGTGGAGGTGGAGACTTGTACTTATATGGCTCCT-TAGGAGGAGGAGGAGACTTGTACTTGTAAA
1 GGTGG-GGTGGAGACTTGTACTTATATGCCTCCTCTAGG-GGAGGAGGAGACTTGTACTTATAAA
*
1371341 CTGTAGGAGGAGGAGGTGGAG
64 CTGGAGGAGGAGGAGGTGGAG
1371362 ACTTGTACTT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 3 0.04
90 48 0.63
91 25 0.33
ACGTcount: A:0.22, C:0.10, G:0.42, T:0.25
Consensus pattern (89 bp):
GGTGGGGTGGAGACTTGTACTTATATGCCTCCTCTAGGGGAGGAGGAGACTTGTACTTATAAACT
GGAGGAGGAGGAGGTGGAGGTGGA
Found at i:1371350 original size:30 final size:31
Alignment explanation
Indices: 1371315--1371690 Score: 146
Period size: 30 Copynumber: 11.8 Consensus size: 31
1371305 GCTCCTTAGG
*
1371315 AGGAGGAGGAGACTTGTACTTGTAAACTGTAGG
1 AGGAGGAGGAGACTTGTACTTGTAAACTG--GT
* *
1371348 AGGAGGAGGTGGAGACTTGTACTTGTACATCTCCTTGGG
1 AGGAGGA---GGAGACTTGTACTTGTA-A---AC-TGGT
* *
1371387 AGGGGGAGGAGATTTGTACTTGTAAACTGG-
1 AGGAGGAGGAGACTTGTACTTGTAAACTGGT
* ** **
1371417 AGGAGGTGGAGACTTGTACTTGTATGCCTCCTT
1 AGGAGGAGGAGACTTGTACTTGTA-AACT-GGT
* *
1371450 AGGGGGAGGAGGAGATTTGTACTTATAAACTGGT
1 A---GGAGGAGGAGACTTGTACTTGTAAACTGGT
* *** *
1371484 -GGAGGTGGAGACTTGTA--TGTCTCCTTGGG
1 AGGAGGAGGAGACTTGTACTTGTAAAC-TGGT
* *
1371513 AGGGGGAGGAGATTTGTACTTGTAAACTGGT
1 AGGAGGAGGAGACTTGTACTTGTAAACTGGT
* * ** *
1371544 -GGAGGTGGAGACTCGTAC-TGTATTCCTTCTTGGG
1 AGGAGGAGGAGACTTGTACTTGTA----AAC-TGGT
* * * * *
1371578 GGGAGGAGGAGATTTGTACTTATAGACCGGT
1 AGGAGGAGGAGACTTGTACTTGTAAACTGGT
* ** *
1371609 -GGAGGTGGAGACTTGTA--TGCT-TCCTTGGG
1 AGGAGGAGGAGACTTGTACTTG-TAAAC-TGGT
*
1371638 AGGAGGAGGAGA-TTTTACTTGTAAACTGGT
1 AGGAGGAGGAGACTTGTACTTGTAAACTGGT
*
1371668 -GGAGGTGGAGACTTGTACTTGTA
1 AGGAGGAGGAGACTTGTACTTGTA
1371691 TGCCTCCTTG
Statistics
Matches: 250, Mismatches: 61, Indels: 67
0.66 0.16 0.18
Matches are distributed among these distances:
28 5 0.02
29 24 0.10
30 103 0.41
31 13 0.05
32 6 0.02
33 9 0.04
34 4 0.02
35 18 0.07
36 56 0.22
37 1 0.00
39 8 0.03
40 1 0.00
41 2 0.01
ACGTcount: A:0.23, C:0.11, G:0.37, T:0.29
Consensus pattern (31 bp):
AGGAGGAGGAGACTTGTACTTGTAAACTGGT
Found at i:1371364 original size:72 final size:71
Alignment explanation
Indices: 1371272--1371851 Score: 401
Period size: 60 Copynumber: 8.9 Consensus size: 71
1371262 GGAGGTGGAG
* * * *
1371272 GTGGAGGTGGAGGTGGAGACTTGTACTTATATGGCTCCTTAGGAGGAGGAGGAGACTTGTACTTG
1 GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTTG
1371337 TAAACT
66 TAAACT
*** * *
1371343 GTAGGAGGAGGAGGTGGAGACTTGTACTTGTACATCTCCTTGGGAGGGGGAGGAGATTTGTACTT
1 GT-GGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTT
1371408 GTAAAC-
65 GTAAACT
* *
1371414 -T---GGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGGAGGAGGAGATTTGTACTTA
1 GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTTG
1371475 TAAAC-
66 TAAACT
* * *
1371480 -T---GGTGGAGGTGGAGACTTGTA--TG--T--CTCCTTGGGAGGGGGAGGAGATTTGTACTTG
1 GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTTG
1371535 TAAAC-
66 TAAACT
* * * * * * *
1371540 -T---GGTGGAGGTGGAGACTCGTAC-TGTATTCCTTCTTGGGGGGAGGAGGAGATTTGTACTTA
1 GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTTG
*
1371600 TAGAC-
66 TAAACT
* * * *
1371605 ----CGGTGGAGGT-G-GA---G-ACTTGTATGCTTCCTTGGGAGGAGGAGGAGATTT-TACTTG
1 GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTTG
1371659 TAAAC-
66 TAAACT
* * * * *
1371664 -T---GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTATTTA
1 GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTTG
1371725 TAAA--
66 TAAACT
*
1371729 -T---GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT-GG-GG-GGAGGAGGA---G-ACTT
1 GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGA-GATTTGTACTT
1371783 GTAAAC-
65 GTAAACT
* * * * * *
1371789 ----CGGTGGAGGTGGAGACTTGTACTTATATGCCTCCTTGGGGGGAGGAGGAGACTTGTACTTG
1 GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTTG
1371850 TA
66 TA
1371852 TGTCTCTTTG
Statistics
Matches: 444, Mismatches: 39, Indels: 57
0.82 0.07 0.11
Matches are distributed among these distances:
59 27 0.06
60 116 0.26
61 6 0.01
62 11 0.02
63 13 0.03
64 6 0.01
65 109 0.25
66 93 0.21
70 1 0.00
71 2 0.00
72 60 0.14
ACGTcount: A:0.22, C:0.12, G:0.38, T:0.29
Consensus pattern (71 bp):
GTGGAGGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGAGGAGGAGGAGATTTGTACTTG
TAAACT
Found at i:1371485 original size:60 final size:61
Alignment explanation
Indices: 1371355--1371851 Score: 422
Period size: 65 Copynumber: 7.9 Consensus size: 61
1371345 AGGAGGAGGA
***
1371355 GGTGGAGACTTGTACTTGTACATCTCCTTGGGAGGG-GGAGGAGATTTGTACTTGTAAACTGGAG
1 GGTGGAGACTTGTACTTGTATGCCTCCTTGGG-GGGAGGAGGAGATTTGTACTTGTAAACT----
1371419 G
61 G
* *
1371420 AGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGGAGGAGGAGATTTGTACTTATAAACT-
1 -GGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTGTAAACTG
* * * *
1371481 GGTGGAG-GTGGAGACTTGTATGTCTCCTTGGGAGGG-GGAGGAGATTTGTACTTGTAAACTGGT
1 GGTGGAGACTTG-TACTTGTATGCCTCCTTGGG-GGGAGGAGGAGATTTGTACTTGTAAAC---T
1371544 GG
61 -G
* * * * * *
1371546 AGGTGGAGACTCGTAC-TGTATTCCTTCTTGGGGGGAGGAGGAGATTTGTACTTATAGAC-C
1 -GGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTGTAAACTG
* * * * *
1371606 GGTGGAG-GTGGAGACTTGTATGCTTCCTTGGGAGGAGGAGGAGATTT-TACTTGTAAACTGGTG
1 GGTGGAGACTTG-TACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTGTAAAC---T-
1371669 G
61 G
* * *
1371670 AGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTATTTATAAATGGTGG
1 -GGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTGTAAA--CT-G
* ** **
1371735 AGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGACTTGTAAACCGGTGGA---
1 -GGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGT--ACTTGTAAACTG
* *
1371796 GGTGGAGACTTGTACTTATATGCCTCCTTGGGGGGAGGAGGAGACTTGTACTTGTA
1 GGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTGTA
1371852 TGTCTCTTTG
Statistics
Matches: 357, Mismatches: 49, Indels: 58
0.77 0.11 0.12
Matches are distributed among these distances:
58 6 0.02
59 20 0.06
60 121 0.34
61 3 0.01
63 1 0.00
64 3 0.01
65 128 0.36
66 70 0.20
67 5 0.01
ACGTcount: A:0.21, C:0.12, G:0.37, T:0.30
Consensus pattern (61 bp):
GGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTGTAAACTG
Found at i:1371634 original size:125 final size:126
Alignment explanation
Indices: 1371277--1371848 Score: 700
Period size: 125 Copynumber: 4.5 Consensus size: 126
1371267 TGGAGGTGGA
* * * * * *
1371277 GGTGGAGGTGGAGACTTGTACTTATATGGCTCCTTAGGAGGAGGAGGAGACTTGTACTTGTAAAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTAT-AAC
*
1371342 TGTAGGAGGAGGAGGTGGAGACTTGTACTTGTACATCTCCTTGGGAGGGGGAGGAGATTTGTACT
65 --T----GGTGGAGGTGGAGACTTGTAC-TG----TCTCCTTGGGAGGGGGAGGAGATTTGTACT
1371407 TGTAAACT
119 TGTAAACT
* *
1371415 GGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGGAGGAGGAGATTTGTACTTATAAAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTAT-AAC
1371480 TGGTGGAGGTGGAGACTTGTA-TGTCTCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAACT
65 TGGTGGAGGTGGAGACTTGTACTGTCTCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAACT
* * *
1371541 GGTGGAGGTGGAGACTCGTAC-TGTATTCCTTCTTGGGGGGAGGAGGAGATTTGTACTTATAGAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATA-AC
* *
1371605 CGGTGGAGGTGGAGACTTGTA-TG-CTTCCTTGGGAGGAGGAGGAGATTT-TACTTGTAAACT
65 TGGTGGAGGTGGAGACTTGTACTGTC-TCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAACT
* *
1371665 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTATTTATAAAT
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATAACT
1371730 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT--G-GGGGGAGGAGGA---G-ACTTGTAAA
66 GGTGGAGGTGGAGACTTGTAC-TG--T--CTCCTTGGGAGGGGGAGGA-GATTTGTACTTGTAAA
*
1371788 CC
125 CT
* *
1371790 GGTGGAGGTGGAGACTTGTACTTATATGCCTCCTTGGGGGGAGGAGGAGACTTGTACTT
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTT
1371849 GTATGTCTCT
Statistics
Matches: 397, Mismatches: 25, Indels: 37
0.86 0.05 0.08
Matches are distributed among these distances:
124 55 0.14
125 185 0.47
126 59 0.15
127 8 0.02
128 3 0.01
130 7 0.02
131 1 0.00
132 19 0.05
136 1 0.00
138 59 0.15
ACGTcount: A:0.22, C:0.12, G:0.37, T:0.29
Consensus pattern (126 bp):
GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATAACT
GGTGGAGGTGGAGACTTGTACTGTCTCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAACT
Found at i:1371720 original size:36 final size:36
Alignment explanation
Indices: 1371668--1371878 Score: 163
Period size: 36 Copynumber: 6.4 Consensus size: 36
1371658 GTAAACTGGT
*
1371668 GGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
* *** *
1371704 GGAGGAGGAGATTTGTA-TT-TA----TAAAT-GGT
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
*
1371733 GGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
* *
1371769 GGAGGAGGAGACTTGTA-----A----ACC---GGT
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
* *
1371793 GGAGGTGGAGACTTGTACTTATATGCCTCCTTGGGG
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
* * *
1371829 GGAGGAGGAGACTTGTACTTGTATGTCTCTTTGGGA
1 GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
1371865 GGAGGAGGAGACTT
1 GGAGGAGGAGACTT
1371879 ATAAACAGGG
Statistics
Matches: 133, Mismatches: 23, Indels: 38
0.69 0.12 0.20
Matches are distributed among these distances:
24 18 0.14
27 2 0.02
29 18 0.14
30 4 0.03
31 3 0.02
33 2 0.02
34 2 0.02
35 4 0.03
36 80 0.60
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.29
Consensus pattern (36 bp):
GGAGGAGGAGACTTGTACTTGTATGCCTCCTTGGGG
Found at i:1371785 original size:30 final size:30
Alignment explanation
Indices: 1371749--1371845 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
1371739 GGAGACTTGT
1371749 ACTTGTATGCCTCCTTGGGGGGAGGAGGAG
1 ACTTGTATGCCTCCTTGGGGGGAGGAGGAG
** ** ***
1371779 ACTTGTA-AAC-CGGTGGAGGTGGA-GACTTG
1 ACTTGTATGCCTCCTTGG-GG-GGAGGAGGAG
*
1371808 TACTTATATGCCTCCTTGGGGGGAGGAGGAG
1 -ACTTGTATGCCTCCTTGGGGGGAGGAGGAG
1371839 ACTTGTA
1 ACTTGTA
1371846 CTTGTATGTC
Statistics
Matches: 45, Mismatches: 16, Indels: 12
0.62 0.22 0.16
Matches are distributed among these distances:
28 4 0.09
29 6 0.13
30 25 0.56
31 6 0.13
32 4 0.09
ACGTcount: A:0.21, C:0.15, G:0.38, T:0.26
Consensus pattern (30 bp):
ACTTGTATGCCTCCTTGGGGGGAGGAGGAG
Found at i:1372775 original size:27 final size:27
Alignment explanation
Indices: 1372742--1372802 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
1372732 CTTTCTCAAA
* *
1372742 AAATAAAAAAAAATTGGTTATTAAAAT
1 AAATAAAAAAAAATTGATTATCAAAAT
*
1372769 AAATAAAAATAAATTGATTATCAAAAT
1 AAATAAAAAAAAATTGATTATCAAAAT
1372796 AAATAAA
1 AAATAAA
1372803 TAATATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (27 bp):
AAATAAAAAAAAATTGATTATCAAAAT
Found at i:1373332 original size:18 final size:18
Alignment explanation
Indices: 1373309--1373351 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
1373299 GATATGATCG
1373309 TTTGACAATAAATTTAAT
1 TTTGACAATAAATTTAAT
1373327 TTTGACAATAAATTTAAT
1 TTTGACAATAAATTTAAT
1373345 TTTGACA
1 TTTGACA
1373352 TATTAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (18 bp):
TTTGACAATAAATTTAAT
Found at i:1374773 original size:22 final size:22
Alignment explanation
Indices: 1374748--1374791 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1374738 CATTTTTGTT
1374748 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
1374770 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
1374792 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:1375412 original size:9 final size:8
Alignment explanation
Indices: 1375390--1375458 Score: 72
Period size: 9 Copynumber: 8.5 Consensus size: 8
1375380 TTTTTGTCCC
1375390 TTTTTC-T
1 TTTTTCTT
1375397 TTTTTCTT
1 TTTTTCTT
1375405 TTTGTTCTT
1 TTT-TTCTT
1375414 TTTTTGCTT
1 TTTTT-CTT
1375423 TTTTT-TT
1 TTTTTCTT
1375430 TTTGCTT-TT
1 TTT--TTCTT
1375439 TTTTTCTT
1 TTTTTCTT
*
1375447 TTTTCCTT
1 TTTTTCTT
1375455 TTTT
1 TTTT
1375459 ATTCTGATTA
Statistics
Matches: 55, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
7 13 0.24
8 19 0.35
9 23 0.42
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1375418 original size:25 final size:24
Alignment explanation
Indices: 1375390--1375457 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 24
1375380 TTTTTGTCCC
1375390 TTTTTCTTTTTTCTTTTTG-TTCTT
1 TTTTTCTTTTTTCTTTTTGCTT-TT
*
1375414 TTTTTGCTTTTTTTTTTTTGCTTTT
1 TTTTT-CTTTTTTCTTTTTGCTTTT
1375439 TTTTTCTTTTTTCCTTTTT
1 TTTTTCTTTTTT-CTTTTT
1375458 TATTCTGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.31
25 25 0.64
26 2 0.05
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (24 bp):
TTTTTCTTTTTTCTTTTTGCTTTT
Found at i:1375426 original size:32 final size:32
Alignment explanation
Indices: 1375388--1375458 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
1375378 GTTTTTTGTC
*
1375388 CCTTTTTCTTTTTT-CTTTTTGTTCT-TTTTTT
1 CCTTTTTTTTTTTTGCTTTTT-TTCTCTTTTTT
* *
1375419 GCTTTTTTTTTTTTGCTTTTTTTTTCTTTTTT
1 CCTTTTTTTTTTTTGCTTTTTTTCTCTTTTTT
1375451 CCTTTTTT
1 CCTTTTTT
1375459 ATTCTGATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 15 0.44
32 19 0.56
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (32 bp):
CCTTTTTTTTTTTTGCTTTTTTTCTCTTTTTT
Found at i:1375429 original size:14 final size:14
Alignment explanation
Indices: 1375412--1375443 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1375402 CTTTTTGTTC
1375412 TTTTTTTGCTTTTT
1 TTTTTTTGCTTTTT
1375426 TTTTTTTGCTTTTT
1 TTTTTTTGCTTTTT
1375440 TTTT
1 TTTT
1375444 CTTTTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTTTTGCTTTTT
Found at i:1375455 original size:18 final size:17
Alignment explanation
Indices: 1375390--1375463 Score: 73
Period size: 16 Copynumber: 4.4 Consensus size: 17
1375380 TTTTTGTCCC
1375390 TTTTTCTTTTTTC-TTT
1 TTTTTCTTTTTTCTTTT
* *
1375406 TTGTTCTTTTTT-TGCTT
1 TTTTTCTTTTTTCT-TTT
*
1375423 TTTTT-TTTTTGCTTTT
1 TTTTTCTTTTTTCTTTT
1375439 TTTTTCTTTTTTCCTTTT
1 TTTTTCTTTTTT-CTTTT
*
1375457 TTATTCT
1 TTTTTCT
1375464 GATTAAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
16 23 0.50
17 12 0.26
18 11 0.24
ACGTcount: A:0.01, C:0.12, G:0.04, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTTTTCTTTT
Found at i:1375458 original size:10 final size:9
Alignment explanation
Indices: 1375396--1375463 Score: 54
Period size: 8 Copynumber: 7.9 Consensus size: 9
1375386 TCCCTTTTTC
1375396 TTTTTTCTT
1 TTTTTTCTT
*
1375405 TTTGTTCTT
1 TTTTTTCTT
*
1375414 TTTTTGC-T
1 TTTTTTCTT
1375422 TTTTTT-TT
1 TTTTTTCTT
**
1375430 TTTGCT-TT
1 TTTTTTCTT
1375438 TTTTTTC-T
1 TTTTTTCTT
*
1375446 TTTTTCCTT
1 TTTTTTCTT
1375455 TTTTATTCT
1 TTTT-TTCT
1375464 GATTAAATAT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
8 24 0.53
9 18 0.40
10 3 0.07
ACGTcount: A:0.01, C:0.12, G:0.04, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:1375458 original size:33 final size:31
Alignment explanation
Indices: 1375379--1375457 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
1375369 TTTGCATGTG
1375379 TTTTTTGTCCCTTTTTCTTTTTTCTTTTTGTTC
1 TTTTTT-T-CCTTTTTCTTTTTTCTTTTTGTTC
* * *
1375412 TTTTTTTGCTTTTTTTTTTTTGCTTTTT-TTT
1 TTTTTTTCCTTTTTCTTTTTT-CTTTTTGTTC
1375443 TCTTTTTTCCTTTTT
1 T-TTTTTTCCTTTTT
1375458 TATTCTGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 15 0.38
32 19 0.47
33 6 0.15
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (31 bp):
TTTTTTTCCTTTTTCTTTTTTCTTTTTGTTC
Found at i:1376650 original size:15 final size:15
Alignment explanation
Indices: 1376630--1376667 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1376620 ATTGTAGATG
1376630 AAAATGCAAAAGGCA
1 AAAATGCAAAAGGCA
*
1376645 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
1376660 AGAATGCA
1 AAAATGCA
1376668 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:1378057 original size:5 final size:5
Alignment explanation
Indices: 1378047--1378074 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1378037 GCAAGTGATG
1378047 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1378075 GATGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1379780 original size:18 final size:17
Alignment explanation
Indices: 1379757--1379799 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1379747 ATATATACAT
*
1379757 ATAATAATAATAACTTGA
1 ATAATAATAATAA-ATGA
*
1379775 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
1379792 ATAA-AATA
1 ATAATAATA
1379800 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:1381642 original size:551 final size:544
Alignment explanation
Indices: 1380655--1381751 Score: 1855
Period size: 551 Copynumber: 2.0 Consensus size: 544
1380645 TTAAACCCTG
1380655 AATGATTAATTTATCTTTCTTCCAAAAGAAAGTAGGAAAGCAAGAAAGAGAACACAACTTCCAAT
1 AATGATTAATTTATCTTTCTTCCAAAAGAAAGTAGGAAAGCAAGAAAGAGAACACAACTTCCAAT
* * *
1380720 TGATTTTGTTTTATTACAATTCCTTAGTTGTCAATCTTAAATTTGAATAGCTGTGTTTGTATATG
66 TGATTATGTTTTATTACAATTCCTTAGTTGTCAATCTTAAATTCGAATAGCTGTGATTGTATATG
*
1380785 TTTTATCAATGACTAAAATATAGATAGTATTTTATAATCATTTCATAATATTAAAAAAATTGAAT
131 TTTTATCAATGACTAAAATATAGATAATATTTTATAATCATTTCATAATATTAAAAAAATTGAAT
1380850 AAAAATAATAGTATTTAACAAGAAAAGGCTATGGAAAAAAATAGAGAGAAAGGTAGTGAACTTAT
196 AAAAATAATAGTATTTAACAAGAAAAGGCTATGGAAAAAAATAGAGAGAAAGGTAGTGAACTTAT
1380915 GTCTTCCATTAATTTTTCTTGTTAAGAGATTTATTGATAAAATTAAAAAGGGAACAGAAATAAAG
261 GTCTTCCATTAATTTTTCTTGTTAAGAGATTTATTGATAAAATTAAAAAGGGAACAGAAATAAAG
*
1380980 AAGTGTTATGAATATTGGAAACCAAAATGGAAAAAACAAACTAAAATTGAACATTATGTTTTATC
326 AAGTGTTATGAATATTGGAAACCAAAAAGGAAAAAACAAACTAAAATTGAACATTATGTTTTATC
* *
1381045 GATATAAATTTGTGATTCAAATATGTAAAAGGTATTTTAATTTTTAAAAATTT-AAAATTTAG-A
391 AAAATAAATTTGTGATTCAAATATGTAAAAGGTATTTTAATTTTTAAAAATTTAAAAATTTAGTA
*
1381108 TTTATATTTTATTTATAGAAATTAAGTGCACACATTATTATTTTTTATTTGAAAGTCAATTTTAT
456 TTTATATTTTATTTATAGAAATTAAGTGCACACATTATTATTTTTTATTTGAAAATCAATTTTAT
* *
1381173 TACCATTTGTTGACATGAT-GCTA
521 TACCAATTGTTGACAGGATAGCTA
1381196 AATGATTAATTTATCTTTCTTCCAAAAGAAAGTAGGAAAGCAAGAAAGAGACAACACAACTTCCA
1 AATGATTAATTTATCTTTCTTCCAAAAGAAAGTAGGAAAGCAAGAAAGAG--AACACAACTTCCA
* * *
1381261 ATTGATTATGTTTTATTACAATTCCTTGGTTGTCAATCTTGAATTCGAATAGTTGTGATTGTATA
64 ATTGATTATGTTTTATTACAATTCCTTAGTTGTCAATCTTAAATTCGAATAGCTGTGATTGTATA
*
1381326 TGTTTTATCAGTGACTAAAAAATTCTAAATAGATAATATTTTATAATCACTTT-ATAATATTCAA
129 TGTTTTATCAATGACT--AAAA---T--ATAGATAATATTTTATAATCA-TTTCATAATATT--A
*
1381390 AAAAAATTGAATAAAAATAATAGTATTTAACAAGAAAATGCTATGG-AAAAAATAGAGAGAAAGG
184 AAAAAATTGAATAAAAATAATAGTATTTAACAAGAAAAGGCTATGGAAAAAAATAGAGAGAAAGG
1381454 TAGTGAACTTATGTCTTCCATTAATTTTTCTTGTTAAGAGATTTATTGATAAAATTAAAAAGGGA
249 TAGTGAACTTATGTCTTCCATTAATTTTTCTTGTTAAGAGATTTATTGATAAAATTAAAAAGGGA
1381519 ACAGAAATAAAGAAGTGTTATGAATATTGGAAACCAAAAAGG-AAAAACAAACTAAAATTGAACA
314 ACAGAAATAAAGAAGTGTTATGAATATTGGAAACCAAAAAGGAAAAAACAAACTAAAATTGAACA
* * * *
1381583 TTATGTTTTATCAAAATAATTTTGTGATTTAAATATGTAAAAGGTATTTTATTTTTTTAAAATTT
379 TTATGTTTTATCAAAATAAATTTGTGATTCAAATATGTAAAAGGTATTTTA-ATTTTTAAAAATT
*
1381648 TAAAAATTTAGTTTTTATATTTTATTTATAGAAATTAAGTGCACACATTATTATTTTTTATTTGA
443 TAAAAATTTAGTATTTATATTTTATTTATAGAAATTAAGTGCACACATTATTATTTTTTATTTGA
1381713 AAATCAATTTTATTACCAATTGTTGACAGGATAGCTA
508 AAATCAATTTTATTACCAATTGTTGACAGGATAGCTA
1381750 AA
1 AA
1381752 AAAGGTAACA
Statistics
Matches: 520, Mismatches: 20, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
541 50 0.10
543 87 0.17
545 4 0.01
548 1 0.00
550 97 0.19
551 139 0.27
552 55 0.11
553 81 0.16
554 6 0.01
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (544 bp):
AATGATTAATTTATCTTTCTTCCAAAAGAAAGTAGGAAAGCAAGAAAGAGAACACAACTTCCAAT
TGATTATGTTTTATTACAATTCCTTAGTTGTCAATCTTAAATTCGAATAGCTGTGATTGTATATG
TTTTATCAATGACTAAAATATAGATAATATTTTATAATCATTTCATAATATTAAAAAAATTGAAT
AAAAATAATAGTATTTAACAAGAAAAGGCTATGGAAAAAAATAGAGAGAAAGGTAGTGAACTTAT
GTCTTCCATTAATTTTTCTTGTTAAGAGATTTATTGATAAAATTAAAAAGGGAACAGAAATAAAG
AAGTGTTATGAATATTGGAAACCAAAAAGGAAAAAACAAACTAAAATTGAACATTATGTTTTATC
AAAATAAATTTGTGATTCAAATATGTAAAAGGTATTTTAATTTTTAAAAATTTAAAAATTTAGTA
TTTATATTTTATTTATAGAAATTAAGTGCACACATTATTATTTTTTATTTGAAAATCAATTTTAT
TACCAATTGTTGACAGGATAGCTA
Found at i:1382085 original size:14 final size:14
Alignment explanation
Indices: 1382068--1382098 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1382058 ATTCATTTAT
1382068 GTTCGTTTATATTC
1 GTTCGTTTATATTC
*
1382082 GTTCGTTTATGTTC
1 GTTCGTTTATATTC
1382096 GTT
1 GTT
1382099 TATTTGCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (14 bp):
GTTCGTTTATATTC
Found at i:1382095 original size:24 final size:24
Alignment explanation
Indices: 1382063--1382118 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
1382053 TGTTCATTCA
*
1382063 TTTATGTTCGTTTATATT-CGTTCG
1 TTTATGTTCGTTTAT-TTGCGTTAG
1382087 TTTATGTTCGTTTATTTGCGTTAG
1 TTTATGTTCGTTTATTTGCGTTAG
1382111 TTTATGTT
1 TTTATGTT
1382119 TAGCTCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (24 bp):
TTTATGTTCGTTTATTTGCGTTAG
Found at i:1382323 original size:23 final size:23
Alignment explanation
Indices: 1382293--1382373 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
1382283 TTTTCATTTA
*
1382293 TGTTCGTTTATGTTCATTTATTG
1 TGTTCGTTTACGTTCATTTATTG
*
1382316 TGTTCGTTTACGTTCGTTCGT-TTG
1 TGTTCGTTTACGTTCATT--TATTG
* *
1382340 TGTTCGTTAACGTTCTTTTATTG
1 TGTTCGTTTACGTTCATTTATTG
*
1382363 TGTTCATTTAC
1 TGTTCGTTTAC
1382374 ATCCGTTCGT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.02
23 28 0.57
24 19 0.39
25 1 0.02
ACGTcount: A:0.11, C:0.14, G:0.19, T:0.57
Consensus pattern (23 bp):
TGTTCGTTTACGTTCATTTATTG
Found at i:1382345 original size:24 final size:24
Alignment explanation
Indices: 1382313--1382396 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
1382303 TGTTCATTTA
1382313 TTGTGTTCGTTTACGTTCGTTCGT
1 TTGTGTTCGTTTACGTTCGTTCGT
* *
1382337 TTGTGTTCGTTAACGTTC-TT-TT
1 TTGTGTTCGTTTACGTTCGTTCGT
* * *
1382359 ATTGTGTTCATTTACATCCGTTCGT
1 -TTGTGTTCGTTTACGTTCGTTCGT
*
1382384 TTATGTTCGTTTA
1 TTGTGTTCGTTTA
1382397 TTTGTGTTCG
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.02
23 16 0.33
24 30 0.62
25 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.55
Consensus pattern (24 bp):
TTGTGTTCGTTTACGTTCGTTCGT
Found at i:1382362 original size:47 final size:47
Alignment explanation
Indices: 1382289--1382394 Score: 149
Period size: 47 Copynumber: 2.3 Consensus size: 47
1382279 AATATTTTCA
* * * * *
1382289 TTTATGTTCGTTTATGTTCATTTATTGTGTTCGTTTACGTTCGTTCG
1 TTTATGTTCGTTAACGTTCATTTATTGTGTTCATTTACATCCGTTCG
* *
1382336 TTTGTGTTCGTTAACGTTCTTTTATTGTGTTCATTTACATCCGTTCG
1 TTTATGTTCGTTAACGTTCATTTATTGTGTTCATTTACATCCGTTCG
1382383 TTTATGTTCGTT
1 TTTATGTTCGTT
1382395 TATTTGTGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.11, C:0.14, G:0.18, T:0.57
Consensus pattern (47 bp):
TTTATGTTCGTTAACGTTCATTTATTGTGTTCATTTACATCCGTTCG
Found at i:1383174 original size:23 final size:21
Alignment explanation
Indices: 1383145--1383188 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
1383135 TGTGACATGT
*
1383145 TCTCTGTCTTTATGGTACGCTTA
1 TCTCTGTATTT-TGGTA-GCTTA
1383168 TCTCTGTATTTTGGTAGCTTA
1 TCTCTGTATTTTGGTAGCTTA
1383189 CTTTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 5 0.25
23 10 0.50
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (21 bp):
TCTCTGTATTTTGGTAGCTTA
Found at i:1383706 original size:32 final size:32
Alignment explanation
Indices: 1383659--1383732 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
1383649 TATTTATAAT
*
1383659 CAAA-TTTAGGGTAAACTACACTAGATACCAC
1 CAAACTTTAGGATAAACTACACTAGATACCAC
1383690 CAAACTTTAGGATAAACTACACTAGATACCAC
1 CAAACTTTAGGATAAACTACACTAGATACCAC
*
1383722 TAAACTTTAGG
1 CAAACTTTAGG
1383733 CATTGTATCG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 4 0.10
32 36 0.90
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (32 bp):
CAAACTTTAGGATAAACTACACTAGATACCAC
Found at i:1383921 original size:29 final size:29
Alignment explanation
Indices: 1383888--1383946 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1383878 GTCATCAGCC
*
1383888 ACGTCATCGCCGTTAACGATTTAACGGTT
1 ACGTCATCGCCGTTAACAATTTAACGGTT
1383917 ACGTCATCGCCGTTAACAATTTAACGGTT
1 ACGTCATCGCCGTTAACAATTTAACGGTT
1383946 A
1 A
1383947 GTGGTCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (29 bp):
ACGTCATCGCCGTTAACAATTTAACGGTT
Found at i:1387486 original size:32 final size:32
Alignment explanation
Indices: 1387439--1387512 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
1387429 TATTTATAAT
*
1387439 CAAA-TTTAGGGTAAACTACACTAGATACCAC
1 CAAACTTTAGGATAAACTACACTAGATACCAC
*
1387470 CAAACTTTAGGATAAACTACACTAGATACCGC
1 CAAACTTTAGGATAAACTACACTAGATACCAC
*
1387502 TAAACTTTAGG
1 CAAACTTTAGG
1387513 CATTGTATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 4 0.10
32 35 0.90
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.24
Consensus pattern (32 bp):
CAAACTTTAGGATAAACTACACTAGATACCAC
Found at i:1387700 original size:29 final size:29
Alignment explanation
Indices: 1387667--1387725 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1387657 GTCATCAGCC
*
1387667 ACGTCATCGCCGTTAACGATTTAACGGTT
1 ACGTCATCGCCGTTAACAATTTAACGGTT
1387696 ACGTCATCGCCGTTAACAATTTAACGGTT
1 ACGTCATCGCCGTTAACAATTTAACGGTT
1387725 A
1 A
1387726 GTGGTCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (29 bp):
ACGTCATCGCCGTTAACAATTTAACGGTT
Found at i:1391257 original size:32 final size:32
Alignment explanation
Indices: 1391210--1391283 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
1391200 TATTTATAAT
*
1391210 CAAA-TTTAGGGTAAACTACACTAGATACCAC
1 CAAACTTTAGGATAAACTACACTAGATACCAC
*
1391241 CAAACTTTAGGATAAACTACACTAGATACCGC
1 CAAACTTTAGGATAAACTACACTAGATACCAC
*
1391273 TAAACTTTAGG
1 CAAACTTTAGG
1391284 CATTGTATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 4 0.10
32 35 0.90
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.24
Consensus pattern (32 bp):
CAAACTTTAGGATAAACTACACTAGATACCAC
Found at i:1391470 original size:29 final size:29
Alignment explanation
Indices: 1391437--1391495 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1391427 GTCATCAGCC
*
1391437 ACGTCATCGCCGTTAACGATTTAACGGTT
1 ACGTCATCGCCGTTAACAATTTAACGGTT
1391466 ACGTCATCGCCGTTAACAATTTAACGGTT
1 ACGTCATCGCCGTTAACAATTTAACGGTT
1391495 A
1 A
1391496 GTGGTCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (29 bp):
ACGTCATCGCCGTTAACAATTTAACGGTT
Found at i:1394539 original size:27 final size:27
Alignment explanation
Indices: 1394509--1394576 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
1394499 CACATATAAA
1394509 ATATATTTATATTTTTAATAAAAAAAT
1 ATATATTTATATTTTTAATAAAAAAAT
1394536 ATATATTTATATTTTTAATAAAAAAAT
1 ATATATTTATATTTTTAATAAAAAAAT
1394563 ATATATTTATATTT
1 ATATATTTATATTT
1394577 AAACCACCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATATTTATATTTTTAATAAAAAAAT
Found at i:1396734 original size:2 final size:2
Alignment explanation
Indices: 1396727--1396762 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1396717 TAGACAAAAC
1396727 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
1396763 CCAACCCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1397814 original size:16 final size:16
Alignment explanation
Indices: 1397785--1397818 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1397775 AGGTAAACAT
*
1397785 TTATAAATATATAAAA
1 TTATAAATAAATAAAA
*
1397801 TTATACATAAATAAAA
1 TTATAAATAAATAAAA
1397817 TT
1 TT
1397819 TGAACTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TTATAAATAAATAAAA
Found at i:1398767 original size:87 final size:86
Alignment explanation
Indices: 1398634--1398799 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 86
1398624 CTTGTAAACG
* * * *
1398634 GGTGGGGGTGGAGATTTGTACTTGTATGCCTCCTCCTTGGGGGGAGGAGGAGACTTGTACTTATA
1 GGTGGAGGTGGAGACTTGTACTTATATGCCTCCT-CTAGGGGGGAGGAGGAGACTTGTACTTATA
1398699 AACTGGAGAAGGAGAATGAGGA
65 AACTGGAGAAGGAGAATGAGGA
* *
1398721 GGTGGAGGTGGAGACTTGTACTTATATGGCTCCT-TAGGAGGAGGAGGAGGAGACTTGTACTTGT
1 GGTGGAGGTGGAGACTTGTACTTATATGCCTCCTCTAGG-GG-GGAGGAGGAGACTTGTACTTAT
* *
1398785 AAACTGTAGGAGGAG
64 AAACTGGAGAAGGAG
1398800 GAGGTGGAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 3 0.04
86 2 0.03
87 64 0.93
ACGTcount: A:0.25, C:0.11, G:0.39, T:0.25
Consensus pattern (86 bp):
GGTGGAGGTGGAGACTTGTACTTATATGCCTCCTCTAGGGGGGAGGAGGAGACTTGTACTTATAA
ACTGGAGAAGGAGAATGAGGA
Found at i:1398798 original size:30 final size:31
Alignment explanation
Indices: 1398762--1399139 Score: 164
Period size: 30 Copynumber: 11.8 Consensus size: 31
1398752 CCTTAGGAGG
*
1398762 AGGAGGAGGAGACTTGTACTTGTAAACTGTAGG
1 AGGAGGAGGAGACTTGTACTTGTAAACTG--GT
* *
1398795 AGGAGGAGGTGGAGACTTGTACTTGTACATCTCCTTGGG
1 AGGAGGA---GGAGACTTGTACTTGTA-A---AC-TGGT
* *
1398834 AGGGGGAGGAGATTTGTACTTGTAAACTGG-
1 AGGAGGAGGAGACTTGTACTTGTAAACTGGT
* ** **
1398864 AGGAGGTGGAGACTTGTACTTGTATGCCTCCTT
1 AGGAGGAGGAGACTTGTACTTGTA-AACT-GGT
* *
1398897 AGGGGGAGGAGGAGATTTGTACTTATAAACTGGT
1 A---GGAGGAGGAGACTTGTACTTGTAAACTGGT
* *** *
1398931 -GGAGGTGGAGACTTGTA--TGTCTCCTTGGG
1 AGGAGGAGGAGACTTGTACTTGTAAAC-TGGT
* *
1398960 AGGGGGAGGAGATTTGTACTTGTAAACTGGT
1 AGGAGGAGGAGACTTGTACTTGTAAACTGGT
* * ** *
1398991 -GGAGGTGGAGACTCGTACTTGTATTCCTCCTTGGG
1 AGGAGGAGGAGACTTGTACTTGTA----AAC-TGGT
* * * * *
1399026 GGGAGGAGGAGATTTGTACTTATAGACCGGT
1 AGGAGGAGGAGACTTGTACTTGTAAACTGGT
* ** *
1399057 -GGAGGTGGAGACTTGTA--TGCT-TCCTTGGG
1 AGGAGGAGGAGACTTGTACTTG-TAAAC-TGGT
*
1399086 AGGAGGAGGAGATTTGTACTTGTAAACTGGT
1 AGGAGGAGGAGACTTGTACTTGTAAACTGGT
*
1399117 -GGAGGTGGAGACTTGTACTTGTA
1 AGGAGGAGGAGACTTGTACTTGTA
1399140 TGCCTCCTTG
Statistics
Matches: 254, Mismatches: 61, Indels: 63
0.67 0.16 0.17
Matches are distributed among these distances:
28 5 0.02
29 6 0.02
30 120 0.47
31 14 0.06
32 9 0.04
33 8 0.03
34 2 0.01
35 6 0.02
36 72 0.28
37 1 0.00
39 8 0.03
40 1 0.00
41 2 0.01
ACGTcount: A:0.22, C:0.11, G:0.37, T:0.29
Consensus pattern (31 bp):
AGGAGGAGGAGACTTGTACTTGTAAACTGGT
Found at i:1398872 original size:66 final size:65
Alignment explanation
Indices: 1398721--1399301 Score: 667
Period size: 66 Copynumber: 8.9 Consensus size: 65
1398711 AGAATGAGGA
* * *
1398721 GGTGGAGGTGGAGACTTGTACTTATATGGCTCCTTAGGAGGAGGAGGAGGAGACTTGTACTTGTA
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT-GG-GG-GG-GGAGGAGATTTGTACTTGTA
1398786 AACTGT
62 AAC--T
* ***
1398792 AGGAGGAGGAGGTGGAGACTTGTACTTGTACATCTCCTTGGGAGGGGGAGGAGATTTGTACTTGT
1 ----GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGG-GGGGGAGGAGATTTGTACTTGT
1398857 AAACT
61 AAACT
* * *
1398862 GGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGGAGGAGGAGATTTGTACTTATAAAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT-GGGGGGGGAGGAGATTTGTACTTGTAAAC
1398927 T
65 T
1398928 GGTGGAGGTGGAGACTTGTA--TG--T--CTCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGG-GGGGGAGGAGATTTGTACTTGTAAAC
1398987 T
65 T
* * * *
1398988 GGTGGAGGTGGAGACTCGTACTTGTATTCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATAGAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGG-GGAGGAGATTTGTACTTGTAAAC
*
1399053 C
65 T
* *
1399054 GGTGGAGGT-G-GA---G-ACTTGTATGCTTCCTTGGGAGGAGGAGGAGATTTGTACTTGTAAAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGG-GGGGGAGGAGATTTGTACTTGTAAAC
1399113 T
65 T
* * *
1399114 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTATTTATAAAT
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGG-GGAGGAGATTTGTACTTGTAAAC
1399179 T
65 T
1399180 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT--GGGGGGAGGAGGA---G-ACTTGTAAAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGGGAGGA-GATTTGTACTTGTAAAC
*
1399239 C
65 T
* *
1399240 GGTGGAGGTGGAGACTTGTACTTATATGCCTCCTTGGGGGGAGGAGGAGACTTGTACTTGTA
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGG-GGAGGAGATTTGTACTTGTA
1399302 TGTCTCTTTG
Statistics
Matches: 446, Mismatches: 34, Indels: 61
0.82 0.06 0.11
Matches are distributed among these distances:
59 3 0.01
60 138 0.31
61 5 0.01
62 11 0.02
63 12 0.03
64 11 0.02
65 8 0.02
66 196 0.44
67 3 0.01
70 1 0.00
72 22 0.05
73 3 0.01
74 3 0.01
75 30 0.07
ACGTcount: A:0.22, C:0.12, G:0.38, T:0.29
Consensus pattern (65 bp):
GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGGGAGGAGATTTGTACTTGTAAACT
Found at i:1398905 original size:36 final size:35
Alignment explanation
Indices: 1398724--1399328 Score: 144
Period size: 36 Copynumber: 18.4 Consensus size: 35
1398714 ATGAGGAGGT
* * *
1398724 GGAGGTGGAGACTTGTACTTATATGGCTCCTTAGGAGGA
1 GGAGGAGGAGACTTGTACTTGTA--ACTCCTTA-G-GGA
*
1398763 GGAGGAGGAGACTTGTACTTGTAAACT--GTAGGAGGA
1 GGAGGAGGAGACTTGTACTTGT-AACTCCTTA-G-GGA
*
1398799 GGAGGTGGAGACTTGTACTTGTACATCTCCTT-GGGA
1 GGAGGAGGAGACTTGTACTTGTA-A-CTCCTTAGGGA
* * *
1398835 GGGGGAGGAGATTTGTACTTGTAA--AC-T--GGA
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGGA
* *
1398865 GGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGG-
1 GGAGGAGGAGACTTGTACTTGTA--ACTCCTTAGGGA
* * * *
1398901 GGAGGAGGAGATTTGTACTTATAA--AC-T--GGT
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGGA
*
1398931 GGAGGTGGAGACTTGTA--TGT--CTCCTT-GGGA
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGGA
* * * *
1398961 GGGGGAGGAGATTTGTACTTGTAA--AC-T--GGT
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGGA
* * * *
1398991 GGAGGTGGAGACTCGTACTTGTATTCCTCCTT-GGGG
1 GGAGGAGGAGACTTGTACTTGTA--ACTCCTTAGGGA
* * *
1399027 GGAGGAGGAGATTTGTACTTATAGA--CC----GGT
1 GGAGGAGGAGACTTGTACTTGTA-ACTCCTTAGGGA
*
1399057 GGAGGTGGAGACTTGTA--TG---CTTCCTT-GGGA
1 GGAGGAGGAGACTTGTACTTGTAAC-TCCTTAGGGA
* * *
1399087 GGAGGAGGAGATTTGTACTTGTAA--AC-T--GGT
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGGA
* * *
1399117 GGAGGTGGAGACTTGTACTTGTATGCCTCCTT-GGGG
1 GGAGGAGGAGACTTGTACTTGTA--ACTCCTTAGGGA
* * * * *
1399153 GGAGGAGGAGATTTGTATTTATAA---ATT--GGT
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGGA
* * *
1399183 GGAGGTGGAGACTTGTACTTGTATGCCTCCTT-GGGG
1 GGAGGAGGAGACTTGTACTTGTA--ACTCCTTAGGGA
*
1399219 GGAGGAGGAGACTTGTA-----AA--CC----GGT
1 GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGGA
* * * *
1399243 GGAGGTGGAGACTTGTACTTATATGCCTCCTT-GGGG
1 GGAGGAGGAGACTTGTACTTGTA--ACTCCTTAGGGA
** *
1399279 GGAGGAGGAGACTTGTACTTGTATGTCTCTTTGGGA
1 GGAGGAGGAGACTTGTACTTGTAACTC-CTTAGGGA
1399315 GGAGGAGGAGACTT
1 GGAGGAGGAGACTT
1399329 ATAAACAGGG
Statistics
Matches: 420, Mismatches: 82, Indels: 131
0.66 0.13 0.21
Matches are distributed among these distances:
24 18 0.04
27 4 0.01
28 4 0.01
29 4 0.01
30 153 0.36
31 7 0.02
32 9 0.02
33 4 0.01
34 5 0.01
35 10 0.02
36 173 0.41
37 5 0.01
38 2 0.00
39 21 0.05
40 1 0.00
ACGTcount: A:0.22, C:0.12, G:0.38, T:0.29
Consensus pattern (35 bp):
GGAGGAGGAGACTTGTACTTGTAACTCCTTAGGGA
Found at i:1398974 original size:126 final size:128
Alignment explanation
Indices: 1398721--1399298 Score: 755
Period size: 126 Copynumber: 4.5 Consensus size: 128
1398711 AGAATGAGGA
* * * *
1398721 GGTGGAGGTGGAGACTTGTACTTATATGGCTCCTTAGGAGGAGGAGGAGGAGACTTGTACTTGTA
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT-GG-GG-GGAGGAGGAGATTTGTACTTATA
*
1398786 AACTGTAGGAGGAGGAGGTGGAGACTTGTACTTGTACATCTCCTTGGGAGGGGGAGGAGATTTGT
63 AAC--T----GGTGGAGGTGGAGACTTGTAC-TG---ATCTCCTTGGGAGGGGGAGGAGATTTGT
1398851 ACTTGTAAACT
118 ACTTGTAAACT
* *
1398862 GGAGGAGGTGGAGACTTGTACTTGTATGCCTCCTTAGGGGGAGGAGGAGATTTGTACTTATAAAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATAAAC
1398927 TGGTGGAGGTGGAGACTTGTA-TG-TCTCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAACT
66 TGGTGGAGGTGGAGACTTGTACTGATCTCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAACT
* * *
1398988 GGTGGAGGTGGAGACTCGTACTTGTATTCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATAGAC
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATAAAC
* * *
1399053 CGGTGGAGGTGGAGACTTGTA-TGCT-TCCTTGGGAGGAGGAGGAGATTTGTACTTGTAAACT
66 TGGTGGAGGTGGAGACTTGTACTGATCTCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAACT
* *
1399114 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTATTTATAAAT
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATAAAC
1399179 TGGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTT--G-GGGGGAGGAGGA---G-ACTTGTAA
66 TGGTGGAGGTGGAGACTTGTAC-TG-AT--CTCCTTGGGAGGGGGAGGA-GATTTGTACTTGTAA
*
1399237 ACC
126 ACT
* *
1399240 GGTGGAGGTGGAGACTTGTACTTATATGCCTCCTTGGGGGGAGGAGGAGACTTGTACTT
1 GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTT
1399299 GTATGTCTCT
Statistics
Matches: 403, Mismatches: 26, Indels: 31
0.88 0.06 0.07
Matches are distributed among these distances:
126 301 0.75
127 2 0.00
128 2 0.00
129 9 0.02
130 5 0.01
132 24 0.06
136 1 0.00
138 24 0.06
139 2 0.00
140 1 0.00
141 32 0.08
ACGTcount: A:0.22, C:0.12, G:0.38, T:0.29
Consensus pattern (128 bp):
GGTGGAGGTGGAGACTTGTACTTGTATGCCTCCTTGGGGGGAGGAGGAGATTTGTACTTATAAAC
TGGTGGAGGTGGAGACTTGTACTGATCTCCTTGGGAGGGGGAGGAGATTTGTACTTGTAAACT
Found at i:1399235 original size:30 final size:30
Alignment explanation
Indices: 1399199--1399295 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
1399189 GGAGACTTGT
1399199 ACTTGTATGCCTCCTTGGGGGGAGGAGGAG
1 ACTTGTATGCCTCCTTGGGGGGAGGAGGAG
** ** ***
1399229 ACTTGTA-AAC-CGGTGGAGGTGGA-GACTTG
1 ACTTGTATGCCTCCTTGG-GG-GGAGGAGGAG
*
1399258 TACTTATATGCCTCCTTGGGGGGAGGAGGAG
1 -ACTTGTATGCCTCCTTGGGGGGAGGAGGAG
1399289 ACTTGTA
1 ACTTGTA
1399296 CTTGTATGTC
Statistics
Matches: 45, Mismatches: 16, Indels: 12
0.62 0.22 0.16
Matches are distributed among these distances:
28 4 0.09
29 6 0.13
30 25 0.56
31 6 0.13
32 4 0.09
ACGTcount: A:0.21, C:0.15, G:0.38, T:0.26
Consensus pattern (30 bp):
ACTTGTATGCCTCCTTGGGGGGAGGAGGAG
Found at i:1400225 original size:13 final size:14
Alignment explanation
Indices: 1400210--1400251 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1400200 ATTGGTTATT
1400210 AAAATAAATAAATA
1 AAAATAAATAAATA
** *
1400224 AAAATTGAT-AATC
1 AAAATAAATAAATA
1400237 AAAATAAATAAATA
1 AAAATAAATAAATA
1400251 A
1 A
1400252 TATAAATGAG
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (14 bp):
AAAATAAATAAATA
Found at i:1400240 original size:27 final size:28
Alignment explanation
Indices: 1400187--1400253 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
1400177 TCTTTCTCAA
* * * *
1400187 AAATAAAAAATAAATTGGTTATTAAAAT
1 AAATAAATAATAAATTGATAATCAAAAT
1400215 AAATAAATAA-AAATTGATAATCAAAAT
1 AAATAAATAATAAATTGATAATCAAAAT
1400242 AAATAAATAATA
1 AAATAAATAATA
1400254 TAAATGAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (28 bp):
AAATAAATAATAAATTGATAATCAAAAT
Found at i:1400950 original size:27 final size:27
Alignment explanation
Indices: 1400887--1400950 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
1400877 TTCAGCTAAT
*
1400887 TCGACCTGAAAAATATAAATTCTTCAC
1 TCGACTTGAAAAATATAAATTCTTCAC
*
1400914 CCGA-TCTGAAAAATATAAATTCTTCAC
1 TCGACT-TGAAAAATATAAATTCTTCAC
1400941 TCGACTTGAA
1 TCGACTTGAA
1400951 TCAACCCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
TCGACTTGAAAAATATAAATTCTTCAC
Found at i:1403065 original size:23 final size:23
Alignment explanation
Indices: 1403039--1403096 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
1403029 TGTGACATGT
*
1403039 TCTCTGCTTTTATGATACATTTA
1 TCTCTGCTTTTATGACACATTTA
* * * *
1403062 TCTCTACCTTTATGACACGTTTT
1 TCTCTGCTTTTATGACACATTTA
1403085 TCTCTGCCTTTT
1 TCTCTG-CTTTT
1403097 GGTAGCTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.16, C:0.24, G:0.09, T:0.52
Consensus pattern (23 bp):
TCTCTGCTTTTATGACACATTTA
Found at i:1406111 original size:27 final size:27
Alignment explanation
Indices: 1406076--1406147 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
1406066 TGTAAATAAC
1406076 AAAGCATGTTTGGGTAGAACTATTATA
1 AAAGCATGTTTGGGTAGAACTATTATA
1406103 AAAGCATGTTTGGGTAGAACTATTATA
1 AAAGCATGTTTGGGTAGAACTATTATA
**
1406130 AAAGCATGTCAGGGTAGA
1 AAAGCATGTTTGGGTAGA
1406148 TACCATGTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AAAGCATGTTTGGGTAGAACTATTATA
Found at i:1411919 original size:20 final size:20
Alignment explanation
Indices: 1411894--1411950 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1411884 TCAAGACTGG
* *
1411894 CTGGTCTCTATACCGAAGGA
1 CTGGTCTCCATACCGAAGAA
*
1411914 CTGGTCTCCATACTGAAGAA
1 CTGGTCTCCATACCGAAGAA
*
1411934 CTGGTCCCCATACCGAA
1 CTGGTCTCCATACCGAA
1411951 AGATTGGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (20 bp):
CTGGTCTCCATACCGAAGAA
Found at i:1411958 original size:20 final size:20
Alignment explanation
Indices: 1411903--1411958 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1411893 GCTGGTCTCT
* *
1411903 ATACCGAAGGACTGGTCTCC
1 ATACCGAAAGACTGGTCCCC
*
1411923 ATACTG-AAGAACTGGTCCCC
1 ATACCGAAAG-ACTGGTCCCC
*
1411943 ATACCGAAAGATTGGT
1 ATACCGAAAGACTGGT
1411959 ATCCAAACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.21
Consensus pattern (20 bp):
ATACCGAAAGACTGGTCCCC
Found at i:1414904 original size:23 final size:23
Alignment explanation
Indices: 1414845--1414908 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1414835 CTGAATGATT
1414845 CAGTGCTGATTGATTCAGTAAAA
1 CAGTGCTGATTGATTCAGTAAAA
**
1414868 CAGTATTGATTGATTCAGTAAAA
1 CAGTGCTGATTGATTCAGTAAAA
* *
1414891 CAGTGCTAAATGATTCAG
1 CAGTGCTGATTGATTCAG
1414909 CACAGAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (23 bp):
CAGTGCTGATTGATTCAGTAAAA
Found at i:1415897 original size:19 final size:19
Alignment explanation
Indices: 1415873--1415909 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1415863 ATGACCAACA
1415873 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
1415892 AAATCGCAACGCGGTCTC
1 AAATCGCAACGCGATCTC
1415910 CAGTACCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:1418086 original size:14 final size:14
Alignment explanation
Indices: 1418067--1418103 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1418057 TCCAATGGCA
1418067 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
1418081 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
1418095 TTCTTCTTC
1 TT-TTCTTC
1418104 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:1418332 original size:24 final size:24
Alignment explanation
Indices: 1418305--1418351 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1418295 CAAAATCCGA
1418305 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
1418329 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
1418352 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:1418360 original size:24 final size:24
Alignment explanation
Indices: 1418309--1418360 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1418299 ATCCGAGTAT
** *
1418309 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
1418333 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
1418357 TGAC
1 TGAC
1418361 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:1419189 original size:20 final size:20
Alignment explanation
Indices: 1419164--1419232 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
1419154 GAAATTCAGT
* *
1419164 GTTGCGACAGTCAGAATCGA
1 GTTGCGATAGTCAGAATCGC
**
1419184 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
1419205 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
1419225 GTTGCGAT
1 GTTGCGAT
1419233 TTACATATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 23 0.57
21 13 0.32
22 2 0.05
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:1419272 original size:21 final size:21
Alignment explanation
Indices: 1419248--1419294 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1419238 TATTCGCATT
*
1419248 GCGATTTTCTAAAATCGCAAC
1 GCGATTTTCGAAAATCGCAAC
* * *
1419269 GCGAATTTGGAAAATCGCAAT
1 GCGATTTTCGAAAATCGCAAC
1419290 GCGAT
1 GCGAT
1419295 AATCAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GCGATTTTCGAAAATCGCAAC
Found at i:1419314 original size:41 final size:41
Alignment explanation
Indices: 1419207--1419322 Score: 99
Period size: 41 Copynumber: 2.8 Consensus size: 41
1419197 ATTATCGCGT
* * ** * * *
1419207 TGCGATAGTCAGAATCGCGTTGCG-ATTTACATATTCGCAT
1 TGCGATAATCAAAATCGCGTTGCGAATTTGGAAAATCGCAA
** ***
1419247 TGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCGCAA
1 TGCGATAATC-AAAATCGCGTTGCGAATTTGGAAAATCGCAA
*
1419289 TGCGATAATCAAAATCGCGTTGCGAATCTGGAAA
1 TGCGATAATCAAAATCGCGTTGCGAATTTGGAAA
1419323 CTGGTTTGCG
Statistics
Matches: 57, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
40 8 0.14
41 30 0.53
42 19 0.33
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
TGCGATAATCAAAATCGCGTTGCGAATTTGGAAAATCGCAA
Found at i:1420271 original size:23 final size:22
Alignment explanation
Indices: 1420245--1420288 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1420235 GAATCAACTA
1420245 TAATTATAAATTAGTTGAAAATT
1 TAATTATAAATTA-TTGAAAATT
* *
1420268 TAATTGTAAATTATTTAAAAT
1 TAATTATAAATTATTGAAAAT
1420289 AAAAGGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TAATTATAAATTATTGAAAATT
Found at i:1422199 original size:13 final size:12
Alignment explanation
Indices: 1422181--1422231 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
1422171 GAATAAATGA
1422181 AAAAATGAAGAAT
1 AAAAAT-AAGAAT
1422194 AAAAATAAGTAA-
1 AAAAATAAG-AAT
1422206 AAAAATAA-AAT
1 AAAAATAAGAAT
* *
1422217 AAAAAGAAAAAT
1 AAAAATAAGAAT
1422229 AAA
1 AAA
1422232 TAAATAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 2 0.06
11 7 0.21
12 17 0.50
13 8 0.24
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (12 bp):
AAAAATAAGAAT
Found at i:1422200 original size:25 final size:23
Alignment explanation
Indices: 1422172--1422239 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 23
1422162 GGGAAAAATG
*
1422172 AATAAATGAAAAAATGAAGAATAAA
1 AATAAATAAAAAAAT-AA-AATAAA
*
1422197 AATAAGTAAAAAAATAAAATAAAA
1 AATAAATAAAAAAATAAAAT-AAA
* *
1422221 AGAAAAATAAATAAATAAA
1 A-ATAAATAAAAAAATAAA
1422240 TGATTAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 3 0.08
24 6 0.17
25 27 0.75
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.16
Consensus pattern (23 bp):
AATAAATAAAAAAATAAAATAAA
Found at i:1422253 original size:2 final size:2
Alignment explanation
Indices: 1422246--1422298 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
1422236 TAAATGATTA
1422246 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1422285 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1422299 GAGTATTGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1422552 original size:2 final size:2
Alignment explanation
Indices: 1422547--1422586 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1422537 TTAAAAAAAG
*
1422547 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1422587 GTATTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1424163 original size:106 final size:106
Alignment explanation
Indices: 1423865--1424917 Score: 1331
Period size: 106 Copynumber: 10.1 Consensus size: 106
1423855 TGTTCTGAGT
* * * ** * *
1423865 CCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTTTGGAACCGGGAAATTATTTGTTGACAACCA
1 CCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
* * * * *
1423929 GCCGTCCCTTCATTGTGAAGTTGAACTTGTGTT-TCTCGAGT-
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG-GTG
* * **
1423970 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAATTAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* * * *
1424029 TC-GCCCCTTCATCGTGAAGTTGAGCTTGTGTTGTCTTGGTG
66 -CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGTG
* * * *
1424070 CCAAGATCCTTCACTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
1424135 CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGT-
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG-GTG
* * *
1424176 CCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* *
1424241 TGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGTG
* * * * *
1424281 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTAAAATTGAGAAGTTGTATGTTGACAACCA
1 -CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
1424346 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAG
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGTG
*
1424387 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTGACAACCA
1 -CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
1424452 GCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTTGAGT-
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG-GTG
1424494 CCAATATCCTTCGCTGTGAAGTTGAAATTGG----G--A-----AA-TTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
*
1424547 CGGGTCCCTTCGTCGTGATA-TTGAACTTGCGTTGTC-TGGAG
66 C-GGTCCCTTCGTCGTGA-AGTTGAACTTGCGTTGTCTTGGTG
* *
1424588 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
1 -CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
1424653 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAG
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGTG
* *
1424694 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCA
1 -CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
1424759 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGT-
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG-GTG
* * *
1424801 CCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
* *
1424866 CGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTC-TGGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGTG
1424906 TCCAATATCCTT
1 -CCAATATCCTT
1424918 TGGCTCTGAA
Statistics
Matches: 849, Mismatches: 62, Indels: 73
0.86 0.06 0.07
Matches are distributed among these distances:
93 1 0.00
94 20 0.02
95 63 0.07
96 1 0.00
99 43 0.05
100 39 0.05
101 6 0.01
102 2 0.00
104 7 0.01
105 38 0.04
106 602 0.71
107 25 0.03
108 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGTG
Found at i:1424307 original size:212 final size:212
Alignment explanation
Indices: 1423861--1426044 Score: 3104
Period size: 212 Copynumber: 10.5 Consensus size: 212
1423851 GTATTGTTCT
* * * ** * *
1423861 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTTTGGAACCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * * *
1423925 ACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTT-TCTCGAGTCCAATATCCTTCGCTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
* * ** * *
1423989 AGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAATTAGTC-GCCCCTTCATCGTGAA
130 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAG-CGGTCCCTTCGTCGTGAA
* * *
1424047 GTTGAGCTTGTGTTGTCTT
194 GTTGAACTTGCGTTGTCTG
* * * *
1424066 G-GTGCCAAGATCCTTCACTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 GAGT-CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
1424130 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTACGCTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
*
1424195 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGTGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
1424260 TTGAACTTGCGTTGTCTG
195 TTGAACTTGCGTTGTCTG
* * * * *
1424278 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTAAAATTGAGAAGTTGTATGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1424343 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * *
1424408 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTTGACAACCAGCGGTCCCTTCATCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
1424473 TGAACTTGCGTTGTCTT
196 TGAACTTGCGTTGTCTG
1424490 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG----G--A-----AA-TTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1424543 CCAGCGGGTCCCTTCGTCGTGATA-TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG
66 CCAGC-GGTCCCTTCGTCGTGA-AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
* * *
1424607 AAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
129 AAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
1424672 GTTGAACTTGCGTTGTCTG
194 GTTGAACTTGCGTTGTCTG
* *
1424691 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1424756 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
1424821 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
1424886 TGAACTTGCATTGTCTG
196 TGAACTTGCGTTGTCTG
* *
1424903 GAGTCCAATA----TC-C--------T----TTGGCTCTGAAATTCGGAAGTTGTTTTTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1424951 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGC--T---
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
*
1425011 G-TG-AA---G-T-TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGGTCCCTTCGTCGTGAAG
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGC-GGTCCCTTCGTCGTGAAG
1425069 TTGAACTTGCGTTGTCTG
195 TTGAACTTGCGTTGTCTG
* * *
1425087 GAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1425152 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* *
1425217 GTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
1425282 TGAACTTGCGTTGTCTT
196 TGAACTTGCGTTGTCTG
* * *
1425299 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
1425364 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTCTTTGTCTGGAGTCTAATATCCTTCGTTGTAAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
** * *
1425429 GTTGAAATTGGCTCTGAAATTGATAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
1425494 TGAACATGCGTTGTCTA
196 TGAACTTGCGTTGTCTG
* * *
1425511 GAGTCCAATATCATTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1425576 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
1425641 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
1425706 TGAACTTGCATTGTTTG
196 TGAACTTGCGTTGTCTG
* * * * *
1425723 GAGTCCAATATCATTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTCGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
1425788 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* *
1425853 GTTGAAATTGGCTCTAAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
1425918 TGAACTTGCGTTGTCTG
196 TGAACTTGCGTTGTCTG
* * *
1425935 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
1426000 CCAGCGGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTTGAGT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
1426045 GGCACGATAT
Statistics
Matches: 1791, Mismatches: 132, Indels: 105
0.88 0.07 0.05
Matches are distributed among these distances:
183 31 0.02
184 46 0.03
185 1 0.00
188 4 0.00
189 2 0.00
190 1 0.00
193 1 0.00
195 88 0.05
199 1 0.00
200 18 0.01
201 260 0.15
202 1 0.00
203 1 0.00
204 2 0.00
205 83 0.05
206 44 0.02
207 6 0.00
208 5 0.00
210 4 0.00
211 3 0.00
212 1141 0.64
213 48 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (212 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTG
Found at i:1424448 original size:318 final size:318
Alignment explanation
Indices: 1423860--1426044 Score: 3137
Period size: 318 Copynumber: 7.0 Consensus size: 318
1423850 AGTATTGTTC
* * * ** *
1423860 TGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTTTGGAACCGGGAAATTATTTGTTGAC
1 TGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* * * * *
1423924 AACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTT-TCTCGAGTCCAATATCCTTCGCTGTG
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
* * ** * *
1423988 AAGTTGAAATTGACTCTG-AA-TGA-AA--T-TTTGTTGACAATTAGTC-GCCCCTTCATCGTGA
130 AAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAG-CGGTCCCTTCGTCGTGA
* * * * *
1424046 AGTTGAGCTTGTGTTGTCTTG-GTGCCAAGATCCTTCACTGAGAAGTTGAAATTGGCTCTGAAAT
194 AGTTGAACTTGCGTTGTCTTGAGT-CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
*
1424110 TGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
258 TGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
1424171 TGAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
1424236 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
* * * *
1424301 AGTTGAAATTGGCTTTAAAATTGAGAAGTTGTATGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
131 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
1424366 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
196 TTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
1424431 GAAGTTGTTTTTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
261 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1424489 TGAGTCCAATATCCTTCGC--T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
1424542 ACCAGCGGGTCCCTTCGTCGTGATA-TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
66 ACCAGC-GGTCCCTTCGTCGTGA-AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
*
1424606 GAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
129 GAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
*
1424671 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
194 AGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
*
1424736 GGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
259 GGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
1424796 TGAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
1424861 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATA----TC-C-----
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
* *
1424916 ---T----TTGGCTCTGAAATTCG-GAAGTTGTTTTTTGACAACCAGCGGTCCCTTCATCGTGAA
131 AGTTGAAATTGGCTCTGAAATT-GAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
1424973 GTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG----G--A---
195 GTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
*
1425029 --AA-TTGTTTGTTGACAACCAGCGGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
260 GGAAGTTGTTTATTGACAACCAGC-GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
1425086 GGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1425151 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
* *
1425216 AGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
131 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
1425281 TTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
196 TTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
1425346 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTCTTTGTCT
261 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * ** *
1425404 GGAGTCTAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGATAAGTTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * *
1425469 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTAGAGTCCAATATCATTCGCTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
* *
1425534 AGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
131 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
1425599 TTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
196 TTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
1425664 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT-T
261 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * *
1425721 TGGAGTCCAATATCATTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTCGTTTGTTGAC
1 T-GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* *
1425786 AACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTG
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
* *
1425851 AAGTTGAAATTGGCTCTAAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
130 AAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
* *
1425916 GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
195 GTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
* * * * * *
1425981 AGAAGTTGTTTGTTGAAAACCAGCGGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
260 GGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1426040 TGAGT
1 TGAGT
1426045 GGCACGATAT
Statistics
Matches: 1713, Mismatches: 102, Indels: 111
0.89 0.05 0.06
Matches are distributed among these distances:
289 17 0.01
290 146 0.09
294 2 0.00
295 2 0.00
297 1 0.00
301 105 0.06
302 1 0.00
303 1 0.00
305 1 0.00
306 31 0.02
307 362 0.21
308 2 0.00
309 1 0.00
311 91 0.05
312 43 0.03
313 6 0.00
314 7 0.00
315 2 0.00
316 1 0.00
317 5 0.00
318 833 0.49
319 53 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (318 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
TTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:1424979 original size:89 final size:89
Alignment explanation
Indices: 1424828--1425207 Score: 431
Period size: 89 Copynumber: 4.0 Consensus size: 89
1424818 GAAGTTGAAA
1424828 TTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
1 TTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
*
1424893 GCATTGTCTGGAGTCCAATATCCT
66 GCGTTGTCTGGAGTCCAATATCCT
* * * *
1424917 TTGGCTCTGAAATTCGGAAGTTGTTTTTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTT
1 TTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
*
1424982 GCGTTGTCTTGAGTCCAATATCCT
66 GCGTTGTCTGGAGTCCAATATCCT
* *
1425006 TCGCTGTGAAGT-TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGGTCCCTTCGTCGTGAAGT
1 T---TG-G--CTCTGAAATTGGGAAATTGTTTATTGACAACCAGC-GGTCCCTTCGTCGTGAAGT
1425070 TGAACTTGCGTTGTCTGGAGTCCAATATCCTT
59 TGAACTTGCGTTGTCTGGAGTCCAATATCC-T
* *
1425102 CGTTGTGAAGTC-GAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTC
1 --TTG-G--CTCTGAAATTGG----GAAATT--------GTTTATTGACAACCAGCGGTCCCTTC
1425166 GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
49 GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
1425207 T
1 T
1425208 CGCTGTGAAG
Statistics
Matches: 256, Mismatches: 12, Indels: 32
0.85 0.04 0.11
Matches are distributed among these distances:
89 84 0.33
92 2 0.01
93 1 0.00
94 29 0.11
95 64 0.25
96 1 0.00
98 1 0.00
99 6 0.02
103 1 0.00
105 1 0.00
106 49 0.19
107 17 0.07
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (89 bp):
TTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGGAGTCCAATATCCT
Found at i:1425204 original size:106 final size:106
Alignment explanation
Indices: 1425018--1426044 Score: 1640
Period size: 106 Copynumber: 9.7 Consensus size: 106
1425008 GCTGTGAAGT
* * *
1425018 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGC-GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
1425083 TCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
1425125 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1425190 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
1425231 TGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
1425296 CTTGAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * *
1425337 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTCTTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
1425402 CTGGAGTCTAATATCCTTCGTTGTAAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
1425443 TGAAATTGATAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
1425508 CTAGAGTCCAATATCATTCGCTGTGAAGTTAAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
1425549 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1425614 CTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
1425655 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * *
1425720 TTGGAGTCCAATATCATTCGTTGTGAAGTTAAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * *
1425761 TGAAATTGAGAAGTCGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCATTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1425826 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
1425867 TAAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1425932 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * * *
1425973 TGAAATTGAGAAGTTGTTTGTTGAAAACCAGCGGTCCCTTCATTGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1426038 CTTGAGT
66 CTGGAGT
1426045 GGCACGATAT
Statistics
Matches: 851, Mismatches: 69, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
106 821 0.96
107 30 0.04
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
Found at i:1426876 original size:22 final size:22
Alignment explanation
Indices: 1426850--1426948 Score: 171
Period size: 22 Copynumber: 4.5 Consensus size: 22
1426840 TTATGTTTGG
1426850 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1426872 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1426894 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1426916 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1426938 TCAACGGTTTG
1 TCAAAGGTTTG
1426949 ATGGGGTAGC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1427635 original size:172 final size:173
Alignment explanation
Indices: 1427343--1427681 Score: 549
Period size: 172 Copynumber: 2.0 Consensus size: 173
1427333 TAAATAGGCC
* *
1427343 CAAACAAGTGTTTCAGGGTGTTGAACCAAAGATCAATTCATTCTGATGCCTTCAATCATGTCCTG
1 CAAACAAGTGTTTCAGGGTATTGAACCAAAGATCAATTCATTATGATGCCTTCAA-CA-GTCCTG
* *
1427408 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
64 CTCAAAATGTCTCTCTCTTAATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATG
*
1427473 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
* * *
1427518 CAAACAAGTGTTTCAGGTTATTGAACCAATGATCAATTCATTATGATGTCTTC-A-A-TCCTGCT
1 CAAACAAGTGTTTCAGGGTATTGAACCAAAGATCAATTCATTATGATGCCTTCAACAGTCCTGCT
1427580 CAAAATGTTTCTCTCTCTTAATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATG
66 CAAAATG--TCTCTCTCTTAATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATG
1427645 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATG
129 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATG
1427682 CACTATTTGT
Statistics
Matches: 154, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
170 14 0.09
172 91 0.59
174 1 0.01
175 48 0.31
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (173 bp):
CAAACAAGTGTTTCAGGGTATTGAACCAAAGATCAATTCATTATGATGCCTTCAACAGTCCTGCT
CAAAATGTCTCTCTCTTAATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATGAT
TATGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:1427735 original size:7 final size:7
Alignment explanation
Indices: 1427723--1427798 Score: 55
Period size: 7 Copynumber: 10.0 Consensus size: 7
1427713 GTTTTTTGTC
1427723 CTTTTTT
1 CTTTTTT
1427730 CTTTTTT
1 CTTTTTT
*
1427737 ATTTTTGTT
1 -CTTTT-TT
1427746 CTTGTTTCT
1 CTT-TTT-T
*
1427755 CTTTTTC
1 CTTTTTT
1427762 CTTTGTTT
1 CTTT-TTT
*
1427770 -TTTTTA
1 CTTTTTT
1427776 CTTTTTT
1 CTTTTTT
1427783 GCTTCTTTT
1 -CTT-TTTT
1427792 CTTTTTT
1 CTTTTTT
1427799 GTTCTTGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.04
7 23 0.42
8 18 0.33
9 12 0.22
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (7 bp):
CTTTTTT
Found at i:1427741 original size:23 final size:24
Alignment explanation
Indices: 1427715--1427760 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1427705 TTGCATGTGT
*
1427715 TTTTTGTCCTTTTTTCT-TTTTTA
1 TTTTTGTCCTTGTTTCTCTTTTTA
*
1427738 TTTTTGTTCTTGTTTCTCTTTTT
1 TTTTTGTCCTTGTTTCTCTTTTT
1427761 CCTTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTTGTCCTTGTTTCTCTTTTTA
Found at i:1427764 original size:39 final size:37
Alignment explanation
Indices: 1427716--1427797 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 37
1427706 TGCATGTGTT
* * *
1427716 TTTTGTCCTTTTTTCTTTTTTA-TTTTTGTTCTTGTTTCTC
1 TTTT-TCCTTTGTT-TTTTTTACTTTTT-TGCTTCTTT-TC
1427756 TTTTTCCTTTGTTTTTTTTACTTTTTTGCTTCTTTTC
1 TTTTTCCTTTGTTTTTTTTACTTTTTTGCTTCTTTTC
1427793 TTTTT
1 TTTTT
1427798 TGTTCTTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
37 7 0.18
38 14 0.37
39 13 0.34
40 4 0.11
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (37 bp):
TTTTTCCTTTGTTTTTTTTACTTTTTTGCTTCTTTTC
Found at i:1427803 original size:15 final size:17
Alignment explanation
Indices: 1427771--1427804 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1427761 CCTTTGTTTT
1427771 TTTTACTTTTTTGCTTC
1 TTTTACTTTTTTGCTTC
1427788 TTTT-CTTTTTTG-TTC
1 TTTTACTTTTTTGCTTC
1427803 TT
1 TT
1427805 GATTGGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTACTTTTTTGCTTC
Found at i:1431164 original size:19 final size:19
Alignment explanation
Indices: 1431131--1431167 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1431121 TGCAGATGAT
1431131 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
1431150 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
1431168 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:1432278 original size:4 final size:4
Alignment explanation
Indices: 1432262--1432316 Score: 67
Period size: 4 Copynumber: 13.2 Consensus size: 4
1432252 TGAAGAATAA
*
1432262 AAAT AAGT AAAT AAAT AAAAT AAAAT AAA- AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1432311 GAAAT A
1 -AAAT A
1432317 TTAAAATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 3 0.07
4 30 0.65
5 13 0.28
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1432322 original size:29 final size:29
Alignment explanation
Indices: 1432230--1432324 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 29
1432220 TGTTAGAGGG
* *
1432230 AAAAATGAATAAATGAAAAAAATGAAGA-AT
1 AAAAATAAATAAAT-AAATAAATGAA-ATAT
* *
1432260 AAAAATAAGTAAATAAATAAAATAAAATA-
1 AAAAATAAATAAATAAAT-AAATGAAATAT
1432289 AAAAATAAATAAATAAATAAATGAAATAT
1 AAAAATAAATAAATAAATAAATGAAATAT
*
1432318 TAAAATA
1 AAAAATA
1432325 TATATATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
28 9 0.16
29 27 0.49
30 19 0.35
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (29 bp):
AAAAATAAATAAATAAATAAATGAAATAT
Found at i:1432329 original size:2 final size:2
Alignment explanation
Indices: 1432322--1432350 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1432312 AAATATTAAA
1432322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1432351 AATGAGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1432622 original size:2 final size:2
Alignment explanation
Indices: 1432617--1432662 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
1432607 TTAAAAAAAG
1432617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1432657 AA TA TA
1 TA TA TA
1432663 GTATTAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1432713 original size:23 final size:23
Alignment explanation
Indices: 1432682--1432728 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1432672 AAACCAATGA
1432682 ATATAAATAAAAATATATA-TGT
1 ATATAAATAAAAATATATAGTGT
*
1432704 ATATATAATAATAATATATAGTGT
1 ATATA-AATAAAAATATATAGTGT
1432728 A
1 A
1432729 AAAAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
ATATAAATAAAAATATATAGTGT
Found at i:1432755 original size:62 final size:60
Alignment explanation
Indices: 1432634--1432772 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
1432624 ATATATATAT
* * *
1432634 ATATATATATATATATAATAATAAATATAGTATTAAAAAAACCAATGAATATAAATAAAA
1 ATATATATGTATATATAATAATAAATATAGTAGTAAAAAAACCAATGAAAATAAATAAAA
* **
1432694 ATATATATGTATATATAATAATAATATATAGT-GTAAAAAAATCAATTGAAAATCATTTAAAA
1 ATATATATGTATATATAATAATAA-ATATAGTAGTAAAAAAACCAA-TGAAAAT-AAATAAAA
* *
1432756 AAATATACGTATATATA
1 ATATATATGTATATATA
1432773 TTTATATAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 34 0.50
61 13 0.19
62 21 0.31
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.34
Consensus pattern (60 bp):
ATATATATGTATATATAATAATAAATATAGTAGTAAAAAAACCAATGAAAATAAATAAAA
Found at i:1433275 original size:37 final size:37
Alignment explanation
Indices: 1433193--1433294 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
1433183 GTGCTTGTGG
* * * *
1433193 ATCTTATCTTTAGGAGTTTAAATCATAATAAAACTCT
1 ATCTTATTTTTAGGAGTTTAAATCCTAACAAAACTAT
* * * *
1433230 ATCCTATTTTTATGAGTTTAAATCCTAGCAAAATTAT
1 ATCTTATTTTTAGGAGTTTAAATCCTAACAAAACTAT
1433267 ATCTTATTTTTAGGAGTTTAAATCCTAA
1 ATCTTATTTTTAGGAGTTTAAATCCTAA
1433295 TTTTAAATCC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (37 bp):
ATCTTATTTTTAGGAGTTTAAATCCTAACAAAACTAT
Done.