Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 184 of 186
Found at i:60933724 original size:20 final size:22
Alignment explanation
Indices: 60933701--60933746 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
60933691 TTTAATAAAT
60933701 TAAAAAAA-TACAAAA-TATTA
1 TAAAAAAAGTACAAAATTATTA
*
60933721 TAAAAAAAGTATAAAATTATTA
1 TAAAAAAAGTACAAAATTATTA
60933743 -AAAA
1 TAAAA
60933747 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 10 0.43
22 5 0.22
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAAAAAAGTACAAAATTATTA
Found at i:60938259 original size:240 final size:240
Alignment explanation
Indices: 60937829--60938304 Score: 889
Period size: 240 Copynumber: 2.0 Consensus size: 240
60937819 AGCTCTAGTG
*
60937829 TGCAGTGAAAATTGGTTGGAATCTACAAAAGAAAGTAAGTCTAACTTTGACTTTGTTTAGACCCT
1 TGCAGTCAAAATTGGTTGGAATCTACAAAAGAAAGTAAGTCTAACTTTGACTTTGTTTAGACCCT
60937894 TTTGTTTAGCTAGAGTTTATCATTCTATTTTCCTACACTTCAATAGAGGATCTACTTGTTAGAGT
66 TTTGTTTAGCTAGAGTTTATCATTCTATTTTCCTACACTTCAATAGAGGATCTACTTGTTAGAGT
*
60937959 TACATCAAGTTTTCACTTATATGAATTCATTTTCTATCACAGATAATGGAGAATATCATGAACCC
131 TACATCAAGTTTTCACTTATATGAATTCATTTTCTATCACAGATAATGGAGAACATCATGAACCC
60938024 ATGCAAAATATGGTATTAATATCCATTGAATTCTTTTTCCTGGTA
196 ATGCAAAATATGGTATTAATATCCATTGAATTCTTTTTCCTGGTA
*
60938069 TGCAGTCAAAATTGGTTGGAATCTACAAAAGAAAGTAAGTCTGACTTTGACTTTGTTTAGACCCT
1 TGCAGTCAAAATTGGTTGGAATCTACAAAAGAAAGTAAGTCTAACTTTGACTTTGTTTAGACCCT
* *
60938134 TTTGTTTAGCTAGAGTTTATCATTCTATTTTCCTACACTTCAATAGAGGGTCTACTTTTTAGAGT
66 TTTGTTTAGCTAGAGTTTATCATTCTATTTTCCTACACTTCAATAGAGGATCTACTTGTTAGAGT
* *
60938199 TACATCAAGTTTTCACTTATATGGATTCATTTTCTATCACAGATGATGGAGAACATCATGAACCC
131 TACATCAAGTTTTCACTTATATGAATTCATTTTCTATCACAGATAATGGAGAACATCATGAACCC
60938264 ATGCAAAATATGGTATTAATATCCATTGAATTCTTTTTCCT
196 ATGCAAAATATGGTATTAATATCCATTGAATTCTTTTTCCT
60938305 ACAACATGTC
Statistics
Matches: 229, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
240 229 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (240 bp):
TGCAGTCAAAATTGGTTGGAATCTACAAAAGAAAGTAAGTCTAACTTTGACTTTGTTTAGACCCT
TTTGTTTAGCTAGAGTTTATCATTCTATTTTCCTACACTTCAATAGAGGATCTACTTGTTAGAGT
TACATCAAGTTTTCACTTATATGAATTCATTTTCTATCACAGATAATGGAGAACATCATGAACCC
ATGCAAAATATGGTATTAATATCCATTGAATTCTTTTTCCTGGTA
Found at i:60938819 original size:255 final size:255
Alignment explanation
Indices: 60938368--60938876 Score: 964
Period size: 255 Copynumber: 2.0 Consensus size: 255
60938358 CACAGGATAA
*
60938368 AAGGAAAAGAAAGATGGAAGAGAATGACACTTCTACTGTAAAAGTTTTCAAAAACCGGATTCATG
1 AAGGAAAAGAAAGATGGAAGAGAATGACACTTCTACTGTAAAAGTTTTCAAAAACCGGACTCATG
60938433 AAAAAGCTAGTAGTAATGGAGACATTGCTAGTGATTTCAACAAAAATGGTATCTGAACCATACTT
66 AAAAAGCTAGTAGTAATGGAGACATTGCTAGTGATTTCAACAAAAATGGTATCTGAACCATACTT
60938498 GCCATTATTATCTGTTATGCTACTTAAACTTGGTATCAATTGAACTGTTGAAATGCCAGATGGTA
131 GCCATTATTATCTGTTATGCTACTTAAACTTGGTATCAATTGAACTGTTGAAATGCCAGATGGTA
60938563 GTCTATATTTTGACAATTGGATGGAGCCACAATGTTCTTCTTCAGAGTCTGTTGGTGAAT
196 GTCTATATTTTGACAATTGGATGGAGCCACAATGTTCTTCTTCAGAGTCTGTTGGTGAAT
* *
60938623 AAGGAAAAGAAAGATGGAAGAGAATGACACTTCTACTGTAAAAGTTTTCAAACACCGGACTCGTG
1 AAGGAAAAGAAAGATGGAAGAGAATGACACTTCTACTGTAAAAGTTTTCAAAAACCGGACTCATG
*
60938688 AAAAAGCTAGTAGTAATGGAGACATTGCTAGTGATTTCAACAAAAATGGTATTTGAACCATACTT
66 AAAAAGCTAGTAGTAATGGAGACATTGCTAGTGATTTCAACAAAAATGGTATCTGAACCATACTT
*
60938753 GCCATTATTATCTGTTTTGCTACTTAAACTTGGTATCAATTGAACTGTTGAAATGCCAGATGGTA
131 GCCATTATTATCTGTTATGCTACTTAAACTTGGTATCAATTGAACTGTTGAAATGCCAGATGGTA
*
60938818 GTCTATCTTTTGACAATTGGATGGAGCCACAATGTTCTTCTTCAGAGTCTGTTGGTGAA
196 GTCTATATTTTGACAATTGGATGGAGCCACAATGTTCTTCTTCAGAGTCTGTTGGTGAA
60938877 AAAGCAGAGA
Statistics
Matches: 248, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 248 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (255 bp):
AAGGAAAAGAAAGATGGAAGAGAATGACACTTCTACTGTAAAAGTTTTCAAAAACCGGACTCATG
AAAAAGCTAGTAGTAATGGAGACATTGCTAGTGATTTCAACAAAAATGGTATCTGAACCATACTT
GCCATTATTATCTGTTATGCTACTTAAACTTGGTATCAATTGAACTGTTGAAATGCCAGATGGTA
GTCTATATTTTGACAATTGGATGGAGCCACAATGTTCTTCTTCAGAGTCTGTTGGTGAAT
Found at i:60939954 original size:21 final size:22
Alignment explanation
Indices: 60939912--60939962 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
60939902 TATCCTGCCA
* *
60939912 AAAATTATTGGTATTTTTATAT
1 AAAATTATTAGTATTATTATAT
*
60939934 GAAATTATTAGTA-TATTATAT
1 AAAATTATTAGTATTATTATAT
60939955 AAAATTAT
1 AAAATTAT
60939963 ATAAAGAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (22 bp):
AAAATTATTAGTATTATTATAT
Found at i:60943952 original size:25 final size:24
Alignment explanation
Indices: 60943913--60943965 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
60943903 CGCGAAGAAC
60943913 GAAATAGAAAACTAAAAATTACAACT
1 GAAATAGAAAACT--AAATTACAACT
* *
60943939 GAAA-AGAAATCTAAATTACAATT
1 GAAATAGAAAACTAAATTACAACT
60943962 GAAA
1 GAAA
60943966 GTACAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.56
25 7 0.28
26 4 0.16
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (24 bp):
GAAATAGAAAACTAAATTACAACT
Found at i:60949081 original size:18 final size:18
Alignment explanation
Indices: 60949058--60949102 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
60949048 GCCAATATGT
* * *
60949058 GGCCCAATACCATTCTTC
1 GGCCCAATACCACTATTA
*
60949076 GGCCCAACACCACTATTA
1 GGCCCAATACCACTATTA
60949094 GGCCCAATA
1 GGCCCAATA
60949103 GTACCATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (18 bp):
GGCCCAATACCACTATTA
Found at i:60949288 original size:18 final size:17
Alignment explanation
Indices: 60949265--60949310 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
60949255 AGCATACCAC
*
60949265 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
60949283 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
60949301 TTCTGACCAC
1 TTTTGACCAC
60949311 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:60949342 original size:21 final size:21
Alignment explanation
Indices: 60949293--60949352 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
60949283 TTTTGACCAG
* *
60949293 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
60949314 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
60949335 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
60949353 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:60951861 original size:16 final size:15
Alignment explanation
Indices: 60951840--60951869 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
60951830 CAAGGTATTT
60951840 TTTTCTTCTTTTTTTC
1 TTTTCTT-TTTTTTTC
60951856 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
60951870 AAATTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTCTTTTTTTTTC
Found at i:60952099 original size:24 final size:24
Alignment explanation
Indices: 60952055--60952102 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
60952045 GATACATCCA
* *
60952055 TACTAAAATAAATTATTTTAAAAT
1 TACTAAAATAAATGATGTTAAAAT
60952079 TACTAAAAATAAATGA-GTTAAAAT
1 TACT-AAAATAAATGATGTTAAAAT
60952103 AAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (24 bp):
TACTAAAATAAATGATGTTAAAAT
Found at i:60952432 original size:67 final size:67
Alignment explanation
Indices: 60952337--60952505 Score: 175
Period size: 67 Copynumber: 2.5 Consensus size: 67
60952327 AAAGTGCACA
*
60952337 AAAATTATAAAATTATTATAAA-TAAAAAATAAAAATAAT-TAAAAACT-TGCAAAAATA-TTAA
1 AAAATTA-AAAATTA-TATAAATTAAAAAA-AAAAATAATGTAAAAAATATG-AAAAATATTTAA
*
60952398 AATATT
62 AATAAT
* * *
60952404 AAAATTAAAAATTATATAAATTGCAAAAAGAAAATATTGTAAAAAATATGAAAAATATTTAAAAT
1 AAAATTAAAAATTATATAAATT-AAAAAAAAAAATAATGTAAAAAATATGAAAAATATTTAAAAT
60952469 AAT
65 AAT
* *
60952472 AGAAATTAATAAATTTTAATAAATTAATAAAAAA
1 A-AAATTAA-AAATTAT-ATAAATTAAAAAAAAA
60952506 TTAAAAAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
65 6 0.07
66 15 0.18
67 26 0.31
68 12 0.14
69 7 0.08
70 12 0.14
71 7 0.08
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (67 bp):
AAAATTAAAAATTATATAAATTAAAAAAAAAAATAATGTAAAAAATATGAAAAATATTTAAAATA
AT
Found at i:60952460 original size:21 final size:20
Alignment explanation
Indices: 60952434--60952476 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
60952424 TTGCAAAAAG
60952434 AAAATATTGTAAAA-AATATGA
1 AAAATATT-TAAAATAATA-GA
60952455 AAAATATTTAAAATAATAGA
1 AAAATATTTAAAATAATAGA
60952475 AA
1 AA
60952477 TTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAATATTTAAAATAATAGA
Found at i:60952720 original size:19 final size:19
Alignment explanation
Indices: 60952675--60952722 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
60952665 TATTTGTTGA
60952675 ATAATTTTTTTGTAATTTT
1 ATAATTTTTTTGTAATTTT
*
60952694 ATACATTTTTTTG-CATGTTT
1 ATA-ATTTTTTTGTAAT-TTT
60952714 ATAATTTTT
1 ATAATTTTT
60952723 ATAGTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (19 bp):
ATAATTTTTTTGTAATTTT
Found at i:60958392 original size:10 final size:11
Alignment explanation
Indices: 60958379--60958457 Score: 61
Period size: 12 Copynumber: 6.8 Consensus size: 11
60958369 TTTCTTTATC
60958379 TTATTTTA-GT
1 TTATTTTATGT
*
60958389 TTATTTTATTT
1 TTATTTTATGT
*
60958400 TTATTTTTATTT
1 TTA-TTTTATGT
*
60958412 TTATTTTTATTT
1 TTA-TTTTATGT
*
60958424 TTATTTTTATTT
1 TTA-TTTTATGT
*
60958436 TTATTTTTATTTT
1 TTA-TTTTA-TGT
60958449 TTATTTTAT
1 TTATTTTAT
60958458 TCTATTTATT
Statistics
Matches: 65, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
10 8 0.12
11 5 0.08
12 46 0.71
13 6 0.09
ACGTcount: A:0.18, C:0.00, G:0.01, T:0.81
Consensus pattern (11 bp):
TTATTTTATGT
Found at i:60958403 original size:6 final size:6
Alignment explanation
Indices: 60958388--60958455 Score: 120
Period size: 6 Copynumber: 11.3 Consensus size: 6
60958378 CTTATTTTAG
60958388 TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
60958435 TTTATT TTTATTT TTTATT TT
1 TTTATT TTTA-TT TTTATT TT
60958456 ATTCTATTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
5 4 0.07
6 51 0.84
7 6 0.10
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:60964282 original size:17 final size:18
Alignment explanation
Indices: 60964260--60964293 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60964250 CACATTGAAG
60964260 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
60964277 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
60964294 CTTTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:60965544 original size:28 final size:28
Alignment explanation
Indices: 60965512--60965591 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 28
60965502 CATACATGCT
*
60965512 TATGGCCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
* **
60965540 TATGGCCCATTATACCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
60965569 TATGGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
60965592 TTTTATAGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 20 0.47
29 22 0.51
30 1 0.02
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:60965598 original size:28 final size:28
Alignment explanation
Indices: 60965512--60965598 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 28
60965502 CATACATGCT
* *
60965512 TATGGCCCACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTTA
* ** *
60965540 TATGGCCCATTATACCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATTTA
*
60965569 TATGGCCCACTAGGCCCAATCACTTTTA
1 TATGGCCCACTAGGCCCAATCACATTTA
60965597 TA
1 TA
60965599 GTCATGCTCA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
28 25 0.53
29 22 0.47
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.28
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTTA
Found at i:60969750 original size:40 final size:39
Alignment explanation
Indices: 60969719--60969928 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
60969709 GGACTAAGAT
* *
60969719 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
60969759 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
60969799 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
60969839 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
60969879 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
60969918 CCGAAGGCATT
1 CCGAAGGCATT
60969929 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:60969882 original size:120 final size:120
Alignment explanation
Indices: 60969666--60969928 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
60969656 TTGAATGCTG
* *
60969666 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
60969730 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
60969786 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
60969849 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
60969905 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
60969929 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:60969948 original size:79 final size:80
Alignment explanation
Indices: 60969667--60969963 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
60969657 TGAATGCTGT
* ** * * * **
60969667 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
60969730 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
60969747 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
60969811 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
60969827 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
60969891 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
60969906 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
60969964 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:60977700 original size:40 final size:39
Alignment explanation
Indices: 60977669--60977878 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
60977659 GGACTAAGAT
* *
60977669 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
60977709 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
60977749 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
60977789 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
60977829 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
60977868 CCGAAGGCATT
1 CCGAAGGCATT
60977879 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:60977832 original size:120 final size:120
Alignment explanation
Indices: 60977616--60977878 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
60977606 TTGAATGCTG
* *
60977616 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
60977680 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
60977736 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
60977799 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
60977855 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
60977879 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:60977898 original size:79 final size:80
Alignment explanation
Indices: 60977617--60977913 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
60977607 TGAATGCTGT
* ** * * * **
60977617 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
60977680 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
60977697 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
60977761 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
60977777 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
60977841 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
60977856 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
60977914 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:60990462 original size:27 final size:27
Alignment explanation
Indices: 60990429--60990514 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
60990419 CAATTTACTG
* *
60990429 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTCAATTTGTAAAATTACCA
* * *
60990456 AAGTACCCCCAATTTATAAAATTACCA
1 AAATACCCTCAATTTGTAAAATTACCA
**
60990483 AAATATACTCAATTTGTAAAATTACCA
1 AAATACCCTCAATTTGTAAAATTACCA
60990510 AAATA
1 AAATA
60990515 AGATAGAATT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.28
Consensus pattern (27 bp):
AAATACCCTCAATTTGTAAAATTACCA
Found at i:60990548 original size:27 final size:27
Alignment explanation
Indices: 60990519--60990633 Score: 176
Period size: 27 Copynumber: 4.3 Consensus size: 27
60990509 AAAATAAGAT
**
60990519 AGAATTACCATTTTACCCTCGATTTGT
1 AGAATTACCATTTTACCCTCGATTTAC
*
60990546 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
60990573 AGATTTACCATTTTAACCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
60990600 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
60990627 AAAATTA
1 AGAATTA
60990634 TTGAAATACC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:60990643 original size:27 final size:27
Alignment explanation
Indices: 60990559--60990698 Score: 118
Period size: 27 Copynumber: 5.2 Consensus size: 27
60990549 ATTACCGTTT
* * ***
60990559 TACCCTCGATTTACAGATTTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
60990586 TAACCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
***
60990613 TACCCTCGATTTACAAAATTATTGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
60990640 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
** *
60990667 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
60990694 TACCC
1 TACCC
60990699 CTAGTTTGTG
Statistics
Matches: 93, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:60990740 original size:27 final size:27
Alignment explanation
Indices: 60990710--60990851 Score: 185
Period size: 27 Copynumber: 5.3 Consensus size: 27
60990700 TAGTTTGTGA
*
60990710 AATTACCGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
60990737 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
60990764 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
60990791 AATTATCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
60990818 AATTGCCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
60990845 AATTACC
1 AATTACC
60990852 ATTTTGCCCC
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:60990741 original size:54 final size:55
Alignment explanation
Indices: 60990680--60990851 Score: 181
Period size: 54 Copynumber: 3.2 Consensus size: 55
60990670 CCTCGATCAA
* **
60990680 TAAAATTACCAAAATACCCCTAGT-TTGT-GAAATTACCGAAATACCCCTGTAGAG
1 TAAAATTACCGAAATACCCCTAGTAGGGTAG-AATTACCGAAATACCCCTGTAGAG
* * * *
60990734 TAGAATTACCGAAATA-CCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGAG
* * * * * * *
60990788 TAAAATTATCGAAATACCCAT-GTAGGGTAGAATTGCCGAGATACCCTTGTGGGG
1 TAAAATTACCGAAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGAG
60990842 TAAAATTACC
1 TAAAATTACC
60990852 ATTTTGCCCC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 6 0.06
54 89 0.90
55 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (55 bp):
TAAAATTACCGAAATACCCCTAGTAGGGTAGAATTACCGAAATACCCCTGTAGAG
Found at i:60990768 original size:81 final size:81
Alignment explanation
Indices: 60990680--60990852 Score: 222
Period size: 81 Copynumber: 2.1 Consensus size: 81
60990670 CCTCGATCAA
** * *
60990680 TAAAATTACCAAAATACCCCTAGT-TTGTGAAATTACCGAAATACCCCTGTAGAGTAGAATTACC
1 TAAAATTACCAAAATACCCCT-GTAGGGTAAAATTACCGAAATACCCATGTAGAGTAGAATTACC
60990744 GAAATACCCTTGTAGGG
65 GAAATACCCTTGTAGGG
* ** * * *
60990761 TAGAATTACTGAAATACCCCTGTAGGGTAAAATTATCGAAATACCCATGTAGGGTAGAATTGCCG
1 TAAAATTACCAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCATGTAGAGTAGAATTACCG
* *
60990826 AGATACCCTTGTGGGG
66 AAATACCCTTGTAGGG
60990842 TAAAATTACCA
1 TAAAATTACCA
60990853 TTTTGCCCCT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 2 0.03
81 74 0.97
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCATGTAGAGTAGAATTACCG
AAATACCCTTGTAGGG
Found at i:60991280 original size:31 final size:31
Alignment explanation
Indices: 60991245--60991321 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
60991235 TTGCATTCAC
* *
60991245 ATTCTGATTTTGATTCTGTTACCTGA-TACTG
1 ATTCTGATTCTGATTCTGTCACCTGATTA-TG
*
60991276 ATTCTGATTCTAATTCTGTCACCTGATTATG
1 ATTCTGATTCTGATTCTGTCACCTGATTATG
*
60991307 ATTATGATTCTGATT
1 ATTCTGATTCTGATT
60991322 TTGATTCTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 38 0.95
32 2 0.05
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTATG
Found at i:60991284 original size:6 final size:6
Alignment explanation
Indices: 60991245--60991338 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
60991235 TTGCATTCAC
* * *
60991245 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
60991294 -TCACCTG ATTATG ATTATG ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
60991339 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:60993444 original size:27 final size:26
Alignment explanation
Indices: 60993385--60993559 Score: 127
Period size: 27 Copynumber: 6.5 Consensus size: 26
60993375 TTAGTTTACC
**
60993385 AAATTACTGAAATACCCCTAGTTGTA
1 AAATTACCAAAATACCCCTAGTTGTA
* *
60993411 AAATTACCAACATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAG-TTGTA
* * *
60993438 AAGTTACCAAAATACCTC-AGATTTGTG
1 AAATTACCAAAATACCCCTAG--TTGTA
* * *
60993465 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCC-CTAGTTGTA
* * * *
60993492 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATA-CCCCTAGTTGTA
* * *
60993519 AAATTACCCAAATATCCTCTATTTGTA
1 AAATTACCAAAATA-CCCCTAGTTGTA
*
60993546 AAATTACCGAAATA
1 AAATTACCAAAATA
60993560 AGATTGAATT
Statistics
Matches: 119, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
26 19 0.16
27 95 0.80
28 4 0.03
29 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTAGTTGTA
Found at i:60993482 original size:54 final size:54
Alignment explanation
Indices: 60993385--60993559 Score: 160
Period size: 54 Copynumber: 3.3 Consensus size: 54
60993375 TTAGTTTACC
** *
60993385 AAATTACTGAAATACCCCTAG--TTGTAAAATTACCAACATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCC-AGATTTGTAAAATTACCAAAATACCCTTAGTTTGTA
* * * * * *
60993438 AAGTTACCAAAATACCTCAGATTTGTGAAATTACTAAAATACCC-TCGACTTGTA
1 AAATTACCAAAATACCCCAGATTTGTAAAATTACCAAAATACCCTTAG-TTTGTA
* * * * *
60993492 AAATTACCAAAGTACCCCCGATTTATAAAATTACCCAAATATCCTCTA-TTTGTA
1 AAATTACCAAAATACCCCAGATTTGTAAAATTACCAAAATACCCT-TAGTTTGTA
*
60993546 AAATTACCGAAATA
1 AAATTACCAAAATA
60993560 AGATTGAATT
Statistics
Matches: 95, Mismatches: 22, Indels: 9
0.75 0.17 0.07
Matches are distributed among these distances:
52 2 0.02
53 16 0.17
54 76 0.80
56 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCAGATTTGTAAAATTACCAAAATACCCTTAGTTTGTA
Found at i:60993559 original size:81 final size:80
Alignment explanation
Indices: 60993385--60993559 Score: 194
Period size: 81 Copynumber: 2.2 Consensus size: 80
60993375 TTAGTTTACC
* * ** * *
60993385 AAATTACTGAAATACCCCTAGTTGTAAAATTACCAACATACCCTTAGTTTGTAAAGTTACCAAAA
1 AAATTACTGAAATACCCCGACTTGTAAAATTACCAACATACCCCGAGTTTATAAAATTACCAAAA
*
60993450 TACCTCAGATTTGTG
66 TACCTCAGATTTGTA
* *
60993465 AAATTACTAAAATACCCTCGACTTGTAAAATTACCAA-AGTACCCCCGA-TTTATAAAATTACCC
1 AAATTACTGAAATACCC-CGACTTGTAAAATTACCAACA-TA-CCCCGAGTTTATAAAATTACCA
*
60993528 AAATATCCTC-TATTTGTA
63 AAATA-CCTCAGATTTGTA
*
60993546 AAATTACCGAAATA
1 AAATTACTGAAATA
60993560 AGATTGAATT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
80 17 0.22
81 54 0.68
82 8 0.10
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
AAATTACTGAAATACCCCGACTTGTAAAATTACCAACATACCCCGAGTTTATAAAATTACCAAAA
TACCTCAGATTTGTA
Found at i:60993595 original size:27 final size:27
Alignment explanation
Indices: 60993565--60993678 Score: 183
Period size: 27 Copynumber: 4.2 Consensus size: 27
60993555 AAATAAGATT
60993565 GAATTACCATTTTACCCTCGATTTACA
1 GAATTACCATTTTACCCTCGATTTACA
* * *
60993592 GAATTATCGTTTTACCCTCGATTTATA
1 GAATTACCATTTTACCCTCGATTTACA
60993619 GAATTACCATTTTACCCTCGATTTACA
1 GAATTACCATTTTACCCTCGATTTACA
*
60993646 TAATTACCATTTTACCCTCGATTTACA
1 GAATTACCATTTTACCCTCGATTTACA
*
60993673 AAATTA
1 GAATTA
60993679 TTGAAATACC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
GAATTACCATTTTACCCTCGATTTACA
Found at i:60993688 original size:27 final size:27
Alignment explanation
Indices: 60993577--60993768 Score: 134
Period size: 27 Copynumber: 7.1 Consensus size: 27
60993567 ATTACCATTT
* * ****
60993577 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
60993604 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ***
60993631 TACCCTCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
***
60993658 TACCCTCGATTTACAAAATTATTGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
60993685 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
** *
60993712 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
60993739 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
60993766 TAC
1 TAC
60993769 ATCTGATTTG
Statistics
Matches: 138, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 2 0.01
27 136 0.99
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:60993689 original size:54 final size:54
Alignment explanation
Indices: 60993566--60993743 Score: 151
Period size: 54 Copynumber: 3.3 Consensus size: 54
60993556 AATAAGATTG
** * * * * *
60993566 AATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAG
1 AATTACCATAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAA
** *
60993620 AATTACCATTTTACCCTCGATTTACATAATTACCATTTTACCCTCGATTTACAA
1 AATTACCATAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAA
** * * *** ** *
60993674 AATTATTGA-AATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATAA
1 AATTA-CCATAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAA
*
60993728 AATTACCAAAATACCC
1 AATTACCATAATACCC
60993744 CTAGTTTGTA
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 100 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (54 bp):
AATTACCATAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAA
Found at i:60993716 original size:81 final size:81
Alignment explanation
Indices: 60993566--60993721 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
60993556 AATAAGATTG
* *** * * ***
60993566 AATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTT
1 AATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCGATTTACAAAATTACCAAAA
60993631 TACCCTCGATTTACAT
66 TACCCTCGATTTACAT
* * *
60993647 AATTACCATTTTACCCTCGATTTACAAAATTATTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 AATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCGATTTACAAAATTACCAAAA
60993712 TACCCTCGAT
66 TACCCTCGAT
60993722 CAATAAAATT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCGATTTACAAAATTACCAAAA
TACCCTCGATTTACAT
Found at i:60993800 original size:27 final size:28
Alignment explanation
Indices: 60993699--60993800 Score: 104
Period size: 27 Copynumber: 3.8 Consensus size: 28
60993689 CTTGGTTTAC
***
60993699 AAAATTACCAAAATACC-CTCGA-TCAAT
1 AAAATTACCAAAATACCTCT-GAGTTTGT
*
60993726 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCTCTGAGTTTGT
*
60993753 AAAATTACCAAAATACATCTGA-TTTGT
1 AAAATTACCAAAATACCTCTGAGTTTGT
* *
60993780 GAAATTACCGAAATACCTCTG
1 AAAATTACCAAAATACCTCTG
60993801 TAGGGTAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 60 0.94
28 3 0.05
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (28 bp):
AAAATTACCAAAATACCTCTGAGTTTGT
Found at i:60993812 original size:27 final size:27
Alignment explanation
Indices: 60993782--60993896 Score: 169
Period size: 27 Copynumber: 4.3 Consensus size: 27
60993772 TGATTTGTGA
60993782 AATTACCGAAATA-CCTCTGTAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAG
60993809 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
60993836 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
60993863 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
60993890 AATTACC
1 AATTACC
60993897 ATTTTGCCCC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 77 0.96
28 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:60994326 original size:31 final size:31
Alignment explanation
Indices: 60994291--60994369 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
60994281 TTGCATTCAC
* *
60994291 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* **
60994322 ATTCTGATTCTAATTCTGTCACCTGATTTTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
60994353 ATTATGATTCTGATTCT
1 ATTCTGATTCTGATTCT
60994370 AGTTTTGATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:60994330 original size:6 final size:6
Alignment explanation
Indices: 60994291--60994369 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
60994281 TTGCATTCAC
* * *
60994291 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
60994340 -TCACCTG ATTTTG ATTATG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
60994370 AGTTTTGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.05
6 45 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:60994387 original size:24 final size:24
Alignment explanation
Indices: 60994348--60994393 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
60994338 TGTCACCTGA
*
60994348 TTTTGATTATGATTCTGATTCTAG
1 TTTTGATAATGATTCTGATTCTAG
* *
60994372 TTTTGATAATGTTTCTTATTCT
1 TTTTGATAATGATTCTGATTCT
60994394 GTAATGGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.09, G:0.13, T:0.59
Consensus pattern (24 bp):
TTTTGATAATGATTCTGATTCTAG
Found at i:60995808 original size:76 final size:76
Alignment explanation
Indices: 60995665--60995838 Score: 172
Period size: 76 Copynumber: 2.3 Consensus size: 76
60995655 TACACCAGCG
* * * *
60995665 CGAAGCCTGCTAAGTACAGAGCCCGAATATCACTGAAACAGAGCCTACTAAGCACAGAATCTGAA
1 CGAAGCCTGCTAGGCACAGAGCCCGAATATCACCGAAACAGAGCCTACTAAGCACAGAATCTAAA
* **
60995730 TAACATTGGCA
66 TAACATCGAAA
* * * * * * **
60995741 CGAAGCCTGCTAGGCACAGAGCCCGGATATCACCGACACATAGCTTGCTAGGCACAG-GGCTCAA
1 CGAAGCCTGCTAGGCACAGAGCCCGAATATCACCGAAACAGAGCCTACTAAGCACAGAATCT-AA
60995805 ATAACATCGAAA
65 ATAACATCGAAA
*
60995817 C-AGAGCCTACTAGGCACAGAGC
1 CGA-AGCCTGCTAGGCACAGAGC
60995839 TTGAATAAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
75 3 0.04
76 77 0.96
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.15
Consensus pattern (76 bp):
CGAAGCCTGCTAGGCACAGAGCCCGAATATCACCGAAACAGAGCCTACTAAGCACAGAATCTAAA
TAACATCGAAA
Found at i:60995846 original size:38 final size:38
Alignment explanation
Indices: 60995680--60995846 Score: 115
Period size: 38 Copynumber: 4.4 Consensus size: 38
60995670 CCTGCTAAGT
* * *
60995680 ACAGAGCCCGAATATCA-CTGAAACAGAGCCTACTAAGC
1 ACAGAGCTCGAATAACATC-GAAACAGAGCCTACTAGGC
* * ** *
60995718 ACAGA-ATCTGAATAACATTGGCAC-GAAGCCTGCTAGGC
1 ACAGAGCTC-GAATAACATCGAAACAG-AGCCTACTAGGC
* * * * * * * *
60995756 ACAGAGCCCGGATATCACCGACACATAGCTTGCTAGGC
1 ACAGAGCTCGAATAACATCGAAACAGAGCCTACTAGGC
* *
60995794 ACAGGGCTCAAATAACATCGAAACAGAGCCTACTAGGC
1 ACAGAGCTCGAATAACATCGAAACAGAGCCTACTAGGC
*
60995832 ACAGAGCTTGAATAA
1 ACAGAGCTCGAATAA
60995847 AACTGGCATA
Statistics
Matches: 94, Mismatches: 30, Indels: 10
0.70 0.22 0.07
Matches are distributed among these distances:
37 2 0.02
38 91 0.97
39 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.16
Consensus pattern (38 bp):
ACAGAGCTCGAATAACATCGAAACAGAGCCTACTAGGC
Found at i:60995879 original size:16 final size:16
Alignment explanation
Indices: 60995860--60995893 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
60995850 TGGCATAAAT
60995860 CCTGCTAGGCACAGAG
1 CCTGCTAGGCACAGAG
*
60995876 CCTGCTGGGCACAGAG
1 CCTGCTAGGCACAGAG
60995892 CC
1 CC
60995894 CGAATATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.35, G:0.32, T:0.12
Consensus pattern (16 bp):
CCTGCTAGGCACAGAG
Found at i:60995899 original size:54 final size:54
Alignment explanation
Indices: 60995816--60995926 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 54
60995806 TAACATCGAA
** * * * *
60995816 ACAGAGCCTACTAGGCACAGAGCTTGAATAAAACTGGCATAAATCCTGCTAGGC
1 ACAGAGCCTACTAGGCACAGAGCCCGAATAAAACCGACACAAAGCCTGCTAGGC
* * **
60995870 ACAGAGCCTGCTGGGCACAGAGCCCGAATATCACCGACACAAAGCCTGCTAGGC
1 ACAGAGCCTACTAGGCACAGAGCCCGAATAAAACCGACACAAAGCCTGCTAGGC
60995924 ACA
1 ACA
60995927 AAGCTTGAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.14
Consensus pattern (54 bp):
ACAGAGCCTACTAGGCACAGAGCCCGAATAAAACCGACACAAAGCCTGCTAGGC
Found at i:60996203 original size:28 final size:28
Alignment explanation
Indices: 60996170--60996225 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
60996160 ATTTATAGAG
60996170 TAAAATTATTTATTTCATGCAATTTGGT
1 TAAAATTATTTATTTCATGCAATTTGGT
60996198 TAAAATTATTTATTTCATGCAATTTGGT
1 TAAAATTATTTATTTCATGCAATTTGGT
60996226 CATTTTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (28 bp):
TAAAATTATTTATTTCATGCAATTTGGT
Found at i:60996488 original size:21 final size:20
Alignment explanation
Indices: 60996464--60996503 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
60996454 ATACTTTTAA
60996464 TTATCAATCAACATTCAAAAT
1 TTATCAATCAACA-TCAAAAT
* *
60996485 TTATCATTTAACATCAAAA
1 TTATCAATCAACATCAAAA
60996504 ATCACAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.35
Consensus pattern (20 bp):
TTATCAATCAACATCAAAAT
Found at i:60998475 original size:17 final size:18
Alignment explanation
Indices: 60998443--60998476 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60998433 GTTGGACCGA
*
60998443 AATGGGCCTTGTGGGCCC
1 AATGGGCCTCGTGGGCCC
60998461 AATGGG-CTCGTGGGCC
1 AATGGGCCTCGTGGGCC
60998477 ACACACAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.26, G:0.41, T:0.21
Consensus pattern (18 bp):
AATGGGCCTCGTGGGCCC
Found at i:61004154 original size:38 final size:37
Alignment explanation
Indices: 61004104--61004376 Score: 260
Period size: 38 Copynumber: 7.2 Consensus size: 37
61004094 TAATATTGGA
* * ** *
61004104 ACAAAGCTTACTAGGCACAGAGCTCGAATGTCACCAGC
1 ACAAAGCCTGCTAGGCACAGAGC-CGAATAACACCGGC
* * * *
61004142 ATAGAGCCTACTAGGCACAGAGCCCGAATATCACCGGC
1 ACAAAGCCTGCTAGGCACAGAG-CCGAATAACACCGGC
* * *
61004180 ATAAAGCTTGCTAGGCACAAAGCCGGAATAACACCGGC
1 ACAAAGCCTGCTAGGCACAGAGCC-GAATAACACCGGC
*
61004218 ACAAAGCCTGCTAGGCACAGAGCTCGAATAACACCGGA
1 ACAAAGCCTGCTAGGCACAGAGC-CGAATAACACCGGC
* *
61004256 ACAAA-CCTACTAGACACAGAGCCAGAATAACACCGGC
1 ACAAAGCCTGCTAGGCACAGAGCC-GAATAACACCGGC
** * * * *
61004293 ATGAAGCCTGCTAGGCACGGAGCCTGAATATCTCCAGC
1 ACAAAGCCTGCTAGGCACAGAGCC-GAATAACACCGGC
* * *
61004331 ACAAAGCCTGCTAGGCACAAAGCTTGAATAACACAGGC
1 ACAAAGCCTGCTAGGCACAGAGC-CGAATAACACCGGC
61004369 ACAAAGCC
1 ACAAAGCC
61004377 GGCCAGGTGT
Statistics
Matches: 194, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
36 1 0.01
37 32 0.16
38 159 0.82
39 2 0.01
ACGTcount: A:0.36, C:0.29, G:0.22, T:0.13
Consensus pattern (37 bp):
ACAAAGCCTGCTAGGCACAGAGCCGAATAACACCGGC
Found at i:61004301 original size:151 final size:152
Alignment explanation
Indices: 61004101--61004376 Score: 378
Period size: 151 Copynumber: 1.8 Consensus size: 152
61004091 AAATAATATT
* * **
61004101 GGAACAAAGCTTACTAGGCACAGAGCTCGAATGTCACCAGCATAGAGCCTACTAGGCACAGAGCC
1 GGAACAAAGCCTACTAGACACAGAGCTCGAATAACACCAGCATAGAGCCTACTAGGCACAGAGCC
* * * *
61004166 CGAATATCACCGGCATAAAGCTTGCTAGGCACAAAGCCGGAATAACACCGGCACAAAGCCTGCTA
66 CGAATATCACCAGCACAAAGCCTGCTAGGCACAAAGCCGGAATAACACAGGCACAAAGCCTGCTA
61004231 GGCACAGAGCTCGAATAACACC
131 GGCACAGAGCTCGAATAACACC
* * *
61004253 GGAACAAA-CCTACTAGACACAGAGC-CAGAATAACACCGGCAT-GAAGCCTGCTAGGCACGGAG
1 GGAACAAAGCCTACTAGACACAGAGCTC-GAATAACACCAGCATAG-AGCCTACTAGGCACAGAG
* * **
61004315 CCTGAATATCTCCAGCACAAAGCCTGCTAGGCACAAAGCTTGAATAACACAGGCACAAAGCC
64 CCCGAATATCACCAGCACAAAGCCTGCTAGGCACAAAGCCGGAATAACACAGGCACAAAGCC
61004377 GGCCAGGTGT
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
150 2 0.02
151 97 0.91
152 8 0.07
ACGTcount: A:0.36, C:0.29, G:0.22, T:0.13
Consensus pattern (152 bp):
GGAACAAAGCCTACTAGACACAGAGCTCGAATAACACCAGCATAGAGCCTACTAGGCACAGAGCC
CGAATATCACCAGCACAAAGCCTGCTAGGCACAAAGCCGGAATAACACAGGCACAAAGCCTGCTA
GGCACAGAGCTCGAATAACACC
Found at i:61004308 original size:113 final size:113
Alignment explanation
Indices: 61004104--61004373 Score: 333
Period size: 113 Copynumber: 2.4 Consensus size: 113
61004094 TAATATTGGA
* * ** * * * * *
61004104 ACAAAGCTTACTAGGCACAGAGCTCGAATGTCACCAGCATAGAGCCTACTAGGCACAGAGCCCGA
1 ACAAAGCCTGCTAGGCACAGAGCTCGAATAACACCGGCACA-AACCTACTAGACACAGAGCCAGA
* * *
61004169 ATATCACCGGCATAAAGCTTGCTAGGCACAAAGCCGGAATAACACCGGC
65 ATAACACCGGCATAAAGCCTGCTAGGCACAAAGCCGGAATAACACCAGC
*
61004218 ACAAAGCCTGCTAGGCACAGAGCTCGAATAACACCGGAACAAACCTACTAGACACAGAGCCAGAA
1 ACAAAGCCTGCTAGGCACAGAGCTCGAATAACACCGGCACAAACCTACTAGACACAGAGCCAGAA
* ** * * *
61004283 TAACACCGGCATGAAGCCTGCTAGGCACGGAGCCTGAATATCTCCAGC
66 TAACACCGGCATAAAGCCTGCTAGGCACAAAGCCGGAATAACACCAGC
* * *
61004331 ACAAAGCCTGCTAGGCACAAAGCTTGAATAACACAGGCACAAA
1 ACAAAGCCTGCTAGGCACAGAGCTCGAATAACACCGGCACAAA
61004374 GCCGGCCAGG
Statistics
Matches: 133, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
113 99 0.74
114 34 0.26
ACGTcount: A:0.36, C:0.29, G:0.22, T:0.13
Consensus pattern (113 bp):
ACAAAGCCTGCTAGGCACAGAGCTCGAATAACACCGGCACAAACCTACTAGACACAGAGCCAGAA
TAACACCGGCATAAAGCCTGCTAGGCACAAAGCCGGAATAACACCAGC
Found at i:61020241 original size:46 final size:47
Alignment explanation
Indices: 61020173--61020296 Score: 164
Period size: 46 Copynumber: 2.7 Consensus size: 47
61020163 TTACTAGTGT
* *
61020173 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCGTAGA-GATGAGT-
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGCCCTAGACGATGA-TA
* * *
61020220 G-TAGTGTAAGACATGTTTGGGACATGCATCGCCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGCCCTAGACGATGATA
61020266 GCCAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
61020297 AGCACGTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
45 11 0.16
46 28 0.42
47 28 0.42
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGCCCTAGACGATGATA
Found at i:61020282 original size:47 final size:46
Alignment explanation
Indices: 61020171--61020296 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 46
61020161 GATTACTAGT
* *
61020171 GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCGTAGAGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACAT-GCATCGCCCTAGAGATGA
* * *
61020218 GTG-TAGTGTAAGACATGTTTGGGACATGCATCGCCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGCCCTAGA-GATGA
61020264 -TAGCCAGTGTAAGACATGTCTGGGACATGCATC
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATC
61020297 AGCACGTATA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 11 0.16
46 28 0.41
47 30 0.43
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGCCCTAGAGATGA
Found at i:61021195 original size:55 final size:55
Alignment explanation
Indices: 61021110--61021242 Score: 158
Period size: 55 Copynumber: 2.4 Consensus size: 55
61021100 GCACTTAAAA
* * * * * ** * * *
61021110 TTTTAAAGTCAGTGCTGTACATGGGTAGGCCACACGGGAGTGTGTCATGGTCGTG
1 TTTTAAAGTCAGTGTTGTACACGAGAAGGCCACACAGGAGTGTCACATAGCCATG
*
61021165 TTTTAAAGTCAGTGTTGTACACGAGAAGGCCACACAGGCGTGTCACATAGCCATG
1 TTTTAAAGTCAGTGTTGTACACGAGAAGGCCACACAGGAGTGTCACATAGCCATG
*
61021220 TTTTAAAGTCAGTGTTGCACACG
1 TTTTAAAGTCAGTGTTGTACACG
61021243 GGCTAAAGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (55 bp):
TTTTAAAGTCAGTGTTGTACACGAGAAGGCCACACAGGAGTGTCACATAGCCATG
Found at i:61023077 original size:25 final size:25
Alignment explanation
Indices: 61023049--61023099 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
61023039 GGGGCATAAA
61023049 ATTTGCTTTTAAAATTAATTTGTTT
1 ATTTGCTTTTAAAATTAATTTGTTT
*
61023074 ATTTGCTTTTAAAATTAATTTTTTT
1 ATTTGCTTTTAAAATTAATTTGTTT
61023099 A
1 A
61023100 CATCCATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (25 bp):
ATTTGCTTTTAAAATTAATTTGTTT
Found at i:61023882 original size:32 final size:33
Alignment explanation
Indices: 61023846--61023931 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 33
61023836 ATCGGGCCTA
*
61023846 AGCCC-ATTCAGATAACAGTGATACTGGGCCAG
1 AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
* * * **
61023878 AGCCCTTTTCAGATTACA-TTAAACTGGGCCTT
1 AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
61023910 AGCCCCTTATTCAGATAACAGT
1 AG-CCC-TATTCAGATAACAGT
61023932 ATGGCCCATA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
32 17 0.40
33 13 0.31
34 11 0.26
35 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (33 bp):
AGCCCTATTCAGATAACAGTGAAACTGGGCCAG
Found at i:61024292 original size:26 final size:26
Alignment explanation
Indices: 61024241--61024293 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
61024231 TTAAACATGC
*
61024241 ATTTTGGTCAATTTACTCATAGGGGT
1 ATTTTGGTCAATTTACTCATAAGGGT
* *
61024267 ATTTTGGT-ACTTTATCTCCTAAGGGT
1 ATTTTGGTCAATTTA-CTCATAAGGGT
61024293 A
1 A
61024294 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (26 bp):
ATTTTGGTCAATTTACTCATAAGGGT
Found at i:61025565 original size:24 final size:23
Alignment explanation
Indices: 61025537--61025635 Score: 126
Period size: 24 Copynumber: 4.1 Consensus size: 23
61025527 CCAAATCCAG
*
61025537 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTT-ATCAGCTCCTAAATCCT
*
61025561 CTCCTTTATTAGCTCCTAAATCCT
1 CTCC-TTATCAGCTCCTAAATCCT
*
61025585 CTCCCTTACCAGCTCCTAAATCCT
1 CT-CCTTATCAGCTCCTAAATCCT
*
61025609 CTCCCTTATCAGCTCCTAAATCTT
1 CT-CCTTATCAGCTCCTAAATCCT
61025633 CTC
1 CTC
61025636 TTGATAGCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.01
24 62 0.93
25 4 0.06
ACGTcount: A:0.20, C:0.38, G:0.05, T:0.36
Consensus pattern (23 bp):
CTCCTTATCAGCTCCTAAATCCT
Found at i:61032310 original size:19 final size:19
Alignment explanation
Indices: 61032286--61032322 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
61032276 AATCAGACAT
61032286 ACCCAAAACTGCCTTCAGG
1 ACCCAAAACTGCCTTCAGG
61032305 ACCCAAAACTGCCTTCAG
1 ACCCAAAACTGCCTTCAG
61032323 AACGAGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.38, G:0.14, T:0.16
Consensus pattern (19 bp):
ACCCAAAACTGCCTTCAGG
Found at i:61041337 original size:13 final size:13
Alignment explanation
Indices: 61041319--61041344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61041309 GGGATTTGCT
61041319 TTAACTAAACTAA
1 TTAACTAAACTAA
61041332 TTAACTAAACTAA
1 TTAACTAAACTAA
61041345 GAATGCATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:61041784 original size:14 final size:14
Alignment explanation
Indices: 61041765--61041791 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61041755 TATTAAAGCA
61041765 ATAATTAAGAACAC
1 ATAATTAAGAACAC
61041779 ATAATTAAGAACA
1 ATAATTAAGAACA
61041792 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:61061374 original size:49 final size:49
Alignment explanation
Indices: 61061302--61061676 Score: 489
Period size: 49 Copynumber: 7.5 Consensus size: 49
61061292 TGAGTTCACG
*
61061302 TGTGTAATACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * *
61061351 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCGCA
61061402 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * * *
61061451 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCGCA
61061502 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * * *
61061551 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCGCA
* *
61061602 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
61061651 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
61061677 TGCGTACCAG
Statistics
Matches: 277, Mismatches: 43, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
49 149 0.54
50 6 0.02
51 122 0.44
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:61061470 original size:100 final size:100
Alignment explanation
Indices: 61061297--61061684 Score: 731
Period size: 100 Copynumber: 3.9 Consensus size: 100
61061287 TATTGTGAGT
*
61061297 TCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
61061362 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGG
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
61061397 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
61061462 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
61061497 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
61061562 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* *
61061597 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
61061662 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
61061685 AGATAGCTTC
Statistics
Matches: 283, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 283 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:61064720 original size:34 final size:35
Alignment explanation
Indices: 61064647--61064733 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 35
61064637 AGGTAAGTAT
61064647 ATGT-AAGCTTATATTGAACTTGATTATTCGATCAC
1 ATGTGAAG-TTATATTGAACTTGATTATTCGATCAC
* ***
61064682 ATGTGAA-TTATATTGAACTT-ATATATTCGGTTTT
1 ATGTGAAGTTATATTGAACTTGAT-TATTCGATCAC
*
61064716 ATGTGAAGTTATTTTGAA
1 ATGTGAAGTTATATTGAA
61064734 TATGCATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 2 0.05
34 27 0.61
35 13 0.30
36 2 0.05
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (35 bp):
ATGTGAAGTTATATTGAACTTGATTATTCGATCAC
Found at i:61067161 original size:28 final size:28
Alignment explanation
Indices: 61067142--61067233 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
61067132 ATAATGTCAT
*
61067142 TTGGGCCGGATGGGCCATATAAATGAGA
1 TTGGGCCGGATGGGCCATATAAATGTGA
* * *
61067170 TTGGGCCTGATGGGCCATATGAACGTGAA
1 TTGGGCCGGATGGGCCATATAAATGTG-A
* *
61067199 TTGGGCTGGATGGGCCATATAAATGGGA
1 TTGGGCCGGATGGGCCATATAAATGTGA
61067227 TTGGGCC
1 TTGGGCC
61067234 TAGTGAGCCA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 30 0.57
29 23 0.43
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (28 bp):
TTGGGCCGGATGGGCCATATAAATGTGA
Found at i:61069559 original size:20 final size:21
Alignment explanation
Indices: 61069534--61069573 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61069524 AAAGAGAAAG
*
61069534 TGAAAGTA-CTTCACATTGTT
1 TGAAAGCAGCTTCACATTGTT
*
61069554 TGAAAGCAGCTTCAGATTGT
1 TGAAAGCAGCTTCACATTGT
61069574 CAAAAATCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (21 bp):
TGAAAGCAGCTTCACATTGTT
Found at i:61075443 original size:34 final size:34
Alignment explanation
Indices: 61075383--61075484 Score: 91
Period size: 34 Copynumber: 3.0 Consensus size: 34
61075373 CAATGTTGAA
* * *
61075383 CAGTCTGGGCCTAAGACCATATCAGTCGCAATAT
1 CAGTGTGGGCCTTAGACCATATCAGTCACAATAT
* *
61075417 CAGTGTGGGCCTTAGTCCA-ATACAGTCACAGTAT
1 CAGTGTGGGCCTTAGACCATAT-CAGTCACAATAT
* * * * *
61075451 CAATGTGGACCTTAGCCCATTTCAGT-ACAGTAT
1 CAGTGTGGGCCTTAGACCATATCAGTCACAATAT
61075484 C
1 C
61075485 CAAAATGTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
33 10 0.18
34 46 0.81
35 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGACCATATCAGTCACAATAT
Found at i:61085593 original size:42 final size:41
Alignment explanation
Indices: 61085533--61085857 Score: 220
Period size: 48 Copynumber: 7.3 Consensus size: 41
61085523 ATAGTCCAAC
*
61085533 TATGGTCTTACACAAAATCTCACATCGATGCCATGTCCTAGA
1 TATGGTCTTACAC-AAATCTCACATCGATGCCATATCCTAGA
* * * * **
61085575 CATGGTCTTATACGAAATCACATATCGATGCCGCATCCTAGA
1 TATGGTCTTACAC-AAATCTCACATCGATGCCATATCCTAGA
* ** * *
61085617 CACAGTCTTACACGAAATCTCATATCGAAGCCATAT-CTCAGA
1 TATGGTCTTACAC-AAATCTCACATCGATGCCATATCCT-AGA
* *
61085659 TATGGTCTTACACGCAATCTCATGTCGATGCTGATGTCATATCCTAGA
1 TATGGTCTTACAC-AAATCTCA---C-AT-C-GATGCCATATCCTAGA
*
61085707 TATGGTCTTACACAAGATCTCATATCGATGCTGATGCCATACCCTAGA
1 TATGGTCTTACACAA-ATCTC--A-C-AT-C-GATGCCATATCCTAGA
*
61085755 TATGGTCTTACACAAGATCTCATATCGATGCTGATGCCATATCCCAGA
1 TATGGTCTTACACAA-ATCTC--A-C-AT-C-GATGCCATATCCTAGA
* * * *
61085803 TATGGTCTTACACAGGATCTCATATCGATGCCATGTCCCAGA
1 TATGGTCTTACACA-AATCTCACATCGATGCCATATCCTAGA
*
61085845 CATGGTCTTACAC
1 TATGGTCTTACAC
61085858 GTATCACAAT
Statistics
Matches: 240, Mismatches: 31, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.01
42 111 0.46
43 1 0.00
44 2 0.01
46 3 0.01
47 2 0.01
48 116 0.48
49 2 0.01
50 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (41 bp):
TATGGTCTTACACAAATCTCACATCGATGCCATATCCTAGA
Found at i:61085719 original size:48 final size:48
Alignment explanation
Indices: 61085646--61085833 Score: 290
Period size: 48 Copynumber: 3.9 Consensus size: 48
61085636 TCATATCGAA
* *
61085646 GCCATAT-CTCAGATATGGTCTTACACGCA-ATCTCATGTCGATGCTGAT
1 GCCATATCCT-AGATATGGTCTTACAC-AAGATCTCATATCGATGCTGAT
*
61085694 GTCATATCCTAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
1 GCCATATCCTAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
*
61085742 GCCATACCCTAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
1 GCCATATCCTAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
* *
61085790 GCCATATCCCAGATATGGTCTTACACAGGATCTCATATCGATGC
1 GCCATATCCTAGATATGGTCTTACACAAGATCTCATATCGATGC
61085834 CATGTCCCAG
Statistics
Matches: 130, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
47 1 0.01
48 127 0.98
49 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (48 bp):
GCCATATCCTAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
Found at i:61085910 original size:37 final size:37
Alignment explanation
Indices: 61085787--61085969 Score: 205
Period size: 37 Copynumber: 4.8 Consensus size: 37
61085777 TATCGATGCT
* *
61085787 GATGCCATATCCCAGATATGGTCTTACACAGGATC-TCATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC--G-TCATC--A-C
61085829 GATGCCAT-GTCCCAGAC-ATGGTCTTACACGT-ATCAC
1 GATGCCATAG-CCCAG-CTATGGTCTTACACGTCATCAC
* *
61085865 AATGCCATAGCCCAGCTATGGTCTTACATGTCATCAC
1 GATGCCATAGCCCAGCTATGGTCTTACACGTCATCAC
*
61085902 GATGCCATAGCCCAGCTATGGTCTTACACG-CTATTAC
1 GATGCCATAGCCCAGCTATGGTCTTACACGTC-ATCAC
61085939 GATGCCATAGCCCAGCTATGGTCTTACACGT
1 GATGCCATAGCCCAGCTATGGTCTTACACGT
61085970 ACCACATGTA
Statistics
Matches: 126, Mismatches: 7, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
35 1 0.01
36 27 0.21
37 69 0.55
39 3 0.02
40 1 0.01
42 25 0.20
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGTCATCAC
Found at i:61088981 original size:112 final size:112
Alignment explanation
Indices: 61088844--61089065 Score: 417
Period size: 112 Copynumber: 2.0 Consensus size: 112
61088834 TACTATCGGC
*
61088844 CCATATTTTCAATTTATTTCACATTTTAACCACTCAATTTCCACATTATATAGTTTGGTCCAAAA
1 CCATATTTTCAATTTATTTCACATTTTAACCACTAAATTTCCACATTATATAGTTTGGTCCAAAA
*
61088909 TTGACATTTTTACTCAAAATCACTTTATAAAACTTGTTAATCTAAGA
66 TTGACATTTTTACTCAAAATCACTTTATAAAACTTGTTAACCTAAGA
*
61088956 CCATATTTTCAATTTATTTCACATTTTAACCACTAAATTTCCACCTTATATAGTTTGGTCCAAAA
1 CCATATTTTCAATTTATTTCACATTTTAACCACTAAATTTCCACATTATATAGTTTGGTCCAAAA
61089021 TTGACATTTTTACTCAAAATCACTTTATAAAACTTGTTAACCTAA
66 TTGACATTTTTACTCAAAATCACTTTATAAAACTTGTTAACCTAA
61089066 CAACAATGAT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (112 bp):
CCATATTTTCAATTTATTTCACATTTTAACCACTAAATTTCCACATTATATAGTTTGGTCCAAAA
TTGACATTTTTACTCAAAATCACTTTATAAAACTTGTTAACCTAAGA
Found at i:61100299 original size:136 final size:136
Alignment explanation
Indices: 61100055--61100329 Score: 541
Period size: 136 Copynumber: 2.0 Consensus size: 136
61100045 AATTTGACAT
61100055 ACAAGTCCCCCCTTTTTATTTCATGCACTAATAGGTCCTTATGCTTTGACCTATCACATTTCAAA
1 ACAAGTCCCCCCTTTTTATTTCATGCACTAATAGGTCCTTATGCTTTGACCTATCACATTTCAAA
*
61100120 ATTTTCTCACATAAGTCCTATTTACTAAAATTCACCTACAATTAAACAAAATTCAAACACGAAAT
66 ATTTTCACACATAAGTCCTATTTACTAAAATTCACCTACAATTAAACAAAATTCAAACACGAAAT
61100185 TTTCAC
131 TTTCAC
61100191 ACAAGTCCCCCCTTTTTATTTCATGCACTAATAGGTCCTTATGCTTTGACCTATCACATTTCAAA
1 ACAAGTCCCCCCTTTTTATTTCATGCACTAATAGGTCCTTATGCTTTGACCTATCACATTTCAAA
61100256 ATTTTCACACATAAGTCCTATTTACTAAAATTCACCTACAATTAAACAAAATTCAAACACGAAAT
66 ATTTTCACACATAAGTCCTATTTACTAAAATTCACCTACAATTAAACAAAATTCAAACACGAAAT
61100321 TTTCAC
131 TTTCAC
61100327 ACA
1 ACA
61100330 TGCACATGTA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 138 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (136 bp):
ACAAGTCCCCCCTTTTTATTTCATGCACTAATAGGTCCTTATGCTTTGACCTATCACATTTCAAA
ATTTTCACACATAAGTCCTATTTACTAAAATTCACCTACAATTAAACAAAATTCAAACACGAAAT
TTTCAC
Found at i:61106997 original size:34 final size:34
Alignment explanation
Indices: 61106951--61107040 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
61106941 TTGAACATTC
* ** * *
61106951 TGGGCCTAAGCCCATATCAGTCGCAATATCAGTG
1 TGGGCCTTAGCCCATATCAGTAACAATATCAATA
**
61106985 TGGGCCTTAGCCCA-ATACAGTAACTGTATCAATA
1 TGGGCCTTAGCCCATAT-CAGTAACAATATCAATA
*
61107019 TGGGCCTTAGCCCATTTCAGTA
1 TGGGCCTTAGCCCATATCAGTA
61107041 CAGTATCCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
33 2 0.04
34 43 0.93
35 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTAACAATATCAATA
Found at i:61115696 original size:21 final size:20
Alignment explanation
Indices: 61115664--61115702 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
61115654 CTTGACACAG
*
61115664 GGGCACATGCCCGAGTGAAA
1 GGGCACACGCCCGAGTGAAA
*
61115684 GGGCAACACGCCCGTGTGA
1 GGGC-ACACGCCCGAGTGA
61115703 CCATTTTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.28, G:0.36, T:0.10
Consensus pattern (20 bp):
GGGCACACGCCCGAGTGAAA
Found at i:61117019 original size:46 final size:45
Alignment explanation
Indices: 61116938--61117105 Score: 142
Period size: 46 Copynumber: 3.6 Consensus size: 45
61116928 TGTAGCCGAC
* * *
61116938 GCATGTCCCAGACATGTCTTGCACTGGCTTACGTCTCGAGGATGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCT-CGTCTCGAGGATGAT
* ** *
61116984 GCATGTCCCAGACATGTCTTACTCTAGCACTCGTCTC-AATACGGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CTCGTCTCGAGGA-TGAT
* ** * *
61117030 GCCATGTCCCAGACATGGTCTTACAC-AGGTTCTCGTAACGTGGCTGAT
1 G-CATGTCCCAGACAT-GTCTTACACTA-G-CCTCGTCTCGAGGATGAT
*
61117078 GCATGTCCCAAACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
61117106 TCACACAAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
45 2 0.02
46 45 0.47
47 30 0.31
48 19 0.20
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCGAGGATGAT
Found at i:61123361 original size:21 final size:21
Alignment explanation
Indices: 61123333--61123388 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
61123323 CTTGACACAG
*
61123333 GGGC-ACACGCCTGTGTGAAA
1 GGGCAACACGCCCGTGTGAAA
61123353 GGGCAACACGCCCGTGTGAAA
1 GGGCAACACGCCCGTGTGAAA
*
61123374 GGGCAACATGCCCGT
1 GGGCAACACGCCCGT
61123389 CTAACCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.25, C:0.29, G:0.34, T:0.12
Consensus pattern (21 bp):
GGGCAACACGCCCGTGTGAAA
Found at i:61127768 original size:33 final size:33
Alignment explanation
Indices: 61127726--61127794 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
61127716 ACTTGATTGA
*
61127726 AAACTATTGTTGTAAGTGAATTCAACCCAAGGT
1 AAACTATTGTTGTAAGTGAATTCAACCAAAGGT
61127759 AAACTATTGTTGTAAGTGAATTCAACCAAAGGT
1 AAACTATTGTTGTAAGTGAATTCAACCAAAGGT
61127792 AAA
1 AAA
61127795 TACCGTTCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
AAACTATTGTTGTAAGTGAATTCAACCAAAGGT
Found at i:61133319 original size:40 final size:40
Alignment explanation
Indices: 61133275--61133423 Score: 221
Period size: 40 Copynumber: 3.7 Consensus size: 40
61133265 GCTACTCGCT
61133275 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
*
61133315 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * * *
61133355 CAAATGCCTTCGGGGCTTAGCCTGG-AATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCA-CA
61133395 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
61133424 CATCCGAATA
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.02
40 95 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:61133374 original size:80 final size:80
Alignment explanation
Indices: 61133242--61133419 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 80
61133232 AAACCAAGTA
* * * * *
61133242 CCTTCGGGATTTAG-CTGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATA
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCACACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
61133305 GTAACTCA-CACAAATG
65 GTAACT-AGCACAAATG
* *
61133321 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATGCCTTCGGGGCTTAGCCTGGAATTA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCACACAAATGCCTTCGGGACTTAGCCCGGAATTA
*
61133385 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
61133401 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61133420 TTATCATCCG
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.17
80 71 0.82
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCACACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTAGCACAAATG
Found at i:61133868 original size:22 final size:22
Alignment explanation
Indices: 61133840--61133882 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
61133830 TTGCCAATAG
*
61133840 TCCCCTTTAGCCGTTTTTCTAT
1 TCCCCTTTAGCCATTTTTCTAT
61133862 TCCCCTTTAGCCATTTTTCTA
1 TCCCCTTTAGCCATTTTTCTA
61133883 AGTCAAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.33, G:0.07, T:0.49
Consensus pattern (22 bp):
TCCCCTTTAGCCATTTTTCTAT
Found at i:61135632 original size:46 final size:46
Alignment explanation
Indices: 61135549--61135661 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 46
61135539 AAATCGAAGC
61135549 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGATG
* * * *
61135596 CATGTCCCAGACATGTCTTACATTGGCT-TACGTCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCCGATG
*
61135642 CATGTCCCAAACATGTCTTA
1 CATGTCCCAGACATGTCTTA
61135662 ATCTAGCACT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
45 2 0.03
46 43 0.73
47 14 0.24
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGATG
Found at i:61152642 original size:2 final size:2
Alignment explanation
Indices: 61152637--61152666 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
61152627 CATATATATA
61152637 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
61152667 ACATTGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:61160555 original size:15 final size:14
Alignment explanation
Indices: 61160535--61160564 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
61160525 AAATGGCATC
61160535 TTTCCCTAATCAAT
1 TTTCCCTAATCAAT
61160549 NTTTCCCTAATCAAT
1 -TTTCCCTAATCAAT
61160564 T
1 T
61160565 GGGCATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 1 0.07
15 14 0.93
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTCCCTAATCAAT
Found at i:61168170 original size:28 final size:28
Alignment explanation
Indices: 61168138--61168234 Score: 142
Period size: 28 Copynumber: 3.4 Consensus size: 28
61168128 ATAGTAAGTC
*
61168138 CGCACACTTAGTTTTATATAATCAAACT
1 CGCACACTTAGTCTTATATAATCAAACT
*
61168166 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGT-CTTATATAATCAAACT
61168195 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGT-CTTATATAATCAAACT
*
61168223 TGCACACTTAGT
1 CGCACACTTAGT
61168235 GCTATGCAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 36 0.56
29 28 0.44
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTCTTATATAATCAAACT
Found at i:61168213 original size:57 final size:57
Alignment explanation
Indices: 61168137--61168265 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
61168127 TATAGTAAGT
**
61168137 CCGCACACTTAGTTTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
61168194 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
61168251 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
61168266 CAATCTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:61168235 original size:28 final size:28
Alignment explanation
Indices: 61168138--61168265 Score: 166
Period size: 29 Copynumber: 4.5 Consensus size: 28
61168128 ATAGTAAGTC
**
61168138 CGCACACTTAGTTTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
61168166 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
61168195 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
61168223 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61168252 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61168266 CAATCTCATG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 43 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61171234 original size:42 final size:42
Alignment explanation
Indices: 61171122--61171276 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
61171112 TATTACACCA
* * ** * *
61171122 ATGCCATATCCCAGATATGGTCATACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* *
61171164 ATGCCAATAACCTAGCA-ATGGTCTTACACGAAATCTCATATTG
1 ATGCC-ATATCCCAG-ATATGGTCTTACACGAAATCTCATATTG
*
61171207 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * * *
61171249 CTGTCATATCCCAGATATAGACTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
61171277 ATAGCCTCGG
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 61 0.64
43 32 0.34
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:61175956 original size:17 final size:18
Alignment explanation
Indices: 61175930--61175965 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
61175920 CAATTTGGGC
61175930 CGTGTAGGCC-ACACGGG
1 CGTGTAGGCCAACACGGG
*
61175947 CGTGTGGGCCAACACGGG
1 CGTGTAGGCCAACACGGG
61175965 C
1 C
61175966 AAGCCACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.31, G:0.42, T:0.11
Consensus pattern (18 bp):
CGTGTAGGCCAACACGGG
Found at i:61178407 original size:47 final size:47
Alignment explanation
Indices: 61178351--61178447 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
61178341 ATTGATAGCT
61178351 AAAGATGTTAAATAGCTAGAGAACCAAAATTGGGGGTCTTTAAAGAG
1 AAAGATGTTAAATAGCTAGAGAACCAAAATTGGGGGTCTTTAAAGAG
61178398 AAAGATGTTAAATAGCTAGAGAACCAAAATTGGGGGTCTTTAAAGAG
1 AAAGATGTTAAATAGCTAGAGAACCAAAATTGGGGGTCTTTAAAGAG
61178445 AAA
1 AAA
61178448 TTAGACCCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (47 bp):
AAAGATGTTAAATAGCTAGAGAACCAAAATTGGGGGTCTTTAAAGAG
Found at i:61179001 original size:47 final size:46
Alignment explanation
Indices: 61178927--61179057 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 46
61178917 ATTTGTTTGT
*
61178927 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGACGA
*
61178973 GTGCTAGTGTAAGACGATGTCTGGGACATGGCATCGG--CATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATT--GACGA
*
61179021 GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGCC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
61179058 TCGAGACGTA
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
45 4 0.05
46 20 0.27
47 26 0.35
48 24 0.32
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGACGA
Found at i:61179079 original size:46 final size:46
Alignment explanation
Indices: 61178927--61179142 Score: 208
Period size: 46 Copynumber: 4.6 Consensus size: 46
61178917 ATTTGTTTGT
* * * *
61178927 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGCCTCGA-GACGA
* * * *
61178973 GTGCTAGTGTAAGACGATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCAACGGCCTCGAGACGA
61179021 GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGCCTCGAGACG-A
* * * *
61179068 -AGCTAGGGTAAGACATG-CTTGGGACAAGTAACGG-CTACGAGATGA
1 GAGCTAGTGTAAGACATGTC-TGGGACATGCAACGGCCT-CGAGACGA
*
61179113 TAG-TCAGTGTAAGACCATGTCTGGGACATG
1 GAGCT-AGTGTAAGA-CATGTCTGGGACATG
61179143 GCATTGGCAC
Statistics
Matches: 144, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
45 5 0.03
46 73 0.51
47 39 0.27
48 26 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGCCTCGAGACGA
Found at i:61186181 original size:140 final size:139
Alignment explanation
Indices: 61185936--61186190 Score: 352
Period size: 140 Copynumber: 1.8 Consensus size: 139
61185926 GTGAGCCAAT
* * * * *
61185936 GTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACGATGTCTGGGAC
1 GTAAGACATGCCTGGGACATGCAACGGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* *
61186001 ATGGCATCAGTATTGAGATGAGAGCTAGTTTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
66 ATGGCATCAG-ATTGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
61186066 TTAAGCCAGG
130 TTAAGCCAGG
* * *
61186076 GTAAGACATGCCTGGGACATGCAACGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTGGGA
1 GTAAGACATGCCTGGGACATGCAACGGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTGGGA
**
61186140 CATGGCATCA-ACTTGAGATTTGAGCCAGTGTAAGACCATGTCTGGGACATG
65 CATGGCATCAGA-TTGAGATGAGAGCCAGTGTAAGA-CATGTCTGGGACATG
61186191 GCATTGGCAT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.19
140 79 0.79
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (139 bp):
GTAAGACATGCCTGGGACATGCAACGGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
ATGGCATCAGATTGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACT
TAAGCCAGG
Found at i:61186191 original size:47 final size:47
Alignment explanation
Indices: 61185927--61186194 Score: 196
Period size: 47 Copynumber: 5.7 Consensus size: 47
61185917 CATTTGTTTG
* ** *
61185927 TGAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-ATATT
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGATT
* * *
61185970 ATGAGAGCCAGTGTAAGACGATGTCTGGGACATGGCATCAGTA-TTGAGATG
1 -T--GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCA--ACTCGAGATT
* * * ** *
61186021 AGAGCTAGTTTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACT
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTCGAGATT
* * * * ** *
61186067 TAAGCCAGGGTAAGA-CATGCCTGGGACAT-GCAACGGCTACGAGATGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACT-CGAGAT-T
* *
61186114 T-AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGATT
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGATT
61186160 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
61186195 TGGCATCTTA
Statistics
Matches: 174, Mismatches: 35, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 67 0.39
47 77 0.44
48 23 0.13
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGATT
Found at i:61193464 original size:77 final size:75
Alignment explanation
Indices: 61193370--61193513 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 75
61193360 TACCTATACT
*
61193370 ATGGCCCGAAGCCAAATCAAGGT-AACTTATATCCGAAGTACTAATATCATGGCCCGAAGCCAAA
1 ATGGCCCGAAGCCAAATC--GGTAAACTTACATCCGAAGTACT-ATATCATGGCCCGAAGCCAAA
61193434 TCAACTGATATTC
63 TCAACTGATATTC
* * * * * *
61193447 ATGGCTCGAAGCCAAATCGGTACAACTTGCATCTGAAGTGCTATATCATGGCCTGAAGCCAACTC
1 ATGGCCCGAAGCCAAATCGGTA-AACTTACATCCGAAGTACTATATCATGGCCCGAAGCCAAATC
61193512 AA
65 AA
61193514 TGTATCCCCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
75 3 0.05
76 23 0.40
77 32 0.55
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (75 bp):
ATGGCCCGAAGCCAAATCGGTAAACTTACATCCGAAGTACTATATCATGGCCCGAAGCCAAATCA
ACTGATATTC
Found at i:61195116 original size:50 final size:50
Alignment explanation
Indices: 61195041--61195141 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
61195031 CTCGTAAGAG
*
61195041 TTAATTCGCCCGATAACACATCAGATGCTCATAAGAGCTAATCCATCCGA
1 TTAATTCACCCGATAACACATCAGATGCTCATAAGAGCTAATCCATCCGA
* *
61195091 TTAATTCACCCGATAACACGTCAGATGCTTATAAGAGCTAATCCATCCGA
1 TTAATTCACCCGATAACACATCAGATGCTCATAAGAGCTAATCCATCCGA
61195141 T
1 T
61195142 AACATGCCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (50 bp):
TTAATTCACCCGATAACACATCAGATGCTCATAAGAGCTAATCCATCCGA
Found at i:61195153 original size:37 final size:37
Alignment explanation
Indices: 61195100--61195220 Score: 154
Period size: 37 Copynumber: 3.3 Consensus size: 37
61195090 ATTAATTCAC
*
61195100 CCGATAACACGTCAGATGCTTATAAGAGCTAATCCAT
1 CCGATAACACGCCAGATGCTTATAAGAGCTAATCCAT
*
61195137 CCGATAACATGCCAGATGCTCT-TAAGAGCTAATCCAT
1 CCGATAACACGCCAGATGCT-TATAAGAGCTAATCCAT
* * * * *
61195174 TCGATAACACGCTAGATGCTCATAAGAGCTAGTCCAA
1 CCGATAACACGCCAGATGCTTATAAGAGCTAATCCAT
*
61195211 CCGAAAACAC
1 CCGATAACAC
61195221 ACCAAAACAG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
37 71 0.99
38 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (37 bp):
CCGATAACACGCCAGATGCTTATAAGAGCTAATCCAT
Found at i:61214940 original size:21 final size:21
Alignment explanation
Indices: 61214899--61214940 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61214889 TCCCCCACCT
*
61214899 CCCCCGATTCCTCAATCTGTA
1 CCCCCGATTCCTCAAGCTGTA
*
61214920 CCCCCGATGT-CTCAAGGTGTA
1 CCCCCGAT-TCCTCAAGCTGTA
61214941 GATCTGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.19, C:0.38, G:0.17, T:0.26
Consensus pattern (21 bp):
CCCCCGATTCCTCAAGCTGTA
Found at i:61220391 original size:43 final size:43
Alignment explanation
Indices: 61220343--61220429 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
61220333 TGCTAATATT
61220343 TTGTATCGAGGTAAGTTCATGTGTAAATGTAGTAACATAATTA
1 TTGTATCGAGGTAAGTTCATGTGTAAATGTAGTAACATAATTA
*
61220386 TTGTATCGAGGTAAGTTCATGTGTAAGTGTAGTAACATAATTA
1 TTGTATCGAGGTAAGTTCATGTGTAAATGTAGTAACATAATTA
61220429 T
1 T
61220430 CATTTTAAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (43 bp):
TTGTATCGAGGTAAGTTCATGTGTAAATGTAGTAACATAATTA
Found at i:61230656 original size:6 final size:6
Alignment explanation
Indices: 61230629--61230707 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
61230619 TATCAGAGCT
* * * *
61230629 AGAATC AAAATA AGAATT AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
61230678 AGTATC AGGTAA-C TGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
61230708 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.82
7 5 0.09
8 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:61230675 original size:25 final size:25
Alignment explanation
Indices: 61230641--61230707 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
61230631 AATCAAAATA
* *
61230641 AGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
61230666 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
61230691 TGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
61230708 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:61230879 original size:27 final size:26
Alignment explanation
Indices: 61230825--61230904 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
61230815 AGCATGGCTG
* * **
61230825 CCAGAACAAATATTGTGACAGATTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
61230851 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* * *
61230878 CCAAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGGCAGAGCCA
61230904 C
1 C
61230905 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 25 0.54
27 21 0.46
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:61231091 original size:22 final size:22
Alignment explanation
Indices: 61231063--61231128 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
61231053 GCAAATACGT
*
61231063 TTGGCACACAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
* * *
61231085 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGA
*
61231107 TTGGCGCAAAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
61231129 AGGCTTTAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGA
Found at i:61231585 original size:27 final size:27
Alignment explanation
Indices: 61231555--61232076 Score: 486
Period size: 27 Copynumber: 19.3 Consensus size: 27
61231545 GGGGCAAAAT
* *
61231555 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
61231582 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
61231609 GGTATTTTTACTCTACAAAGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
61231636 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
61231663 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
61231690 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
61231717 GGT-ATTTCTATCCTAC-AGGGATATTTC
1 GGTAATTT-TACCCTACAAGGG-TATTTC
* *
61231744 AGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
61231771 GGTATTTTTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
61231798 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
61231825 AGTAATTCTACCCTAC-AGAGGTATATC
1 GGTAATTTTACCCTACAAG-GGTATTTC
*
61231852 GGT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* **
61231879 GGT-ATTTCTACCCTTCAAGGGTATTAA
1 GGTAATTT-TACCCTACAAGGGTATTTC
* **
61231906 GGTAATTCTACCCTACCGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
61231933 AGCAATTCTACTCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
61231960 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
61231987 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
61232014 GGTATTTTTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
61232041 AGTAATTCTACCCTACAAAGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
61232068 AATAATTTT
1 GGTAATTTT
61232077 GTAAATTGAG
Statistics
Matches: 412, Mismatches: 72, Indels: 22
0.81 0.14 0.04
Matches are distributed among these distances:
26 15 0.04
27 383 0.93
28 14 0.03
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:61231618 original size:54 final size:54
Alignment explanation
Indices: 61231559--61232067 Score: 583
Period size: 54 Copynumber: 9.4 Consensus size: 54
61231549 CAAAATGGTA
* * * *
61231559 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* * * * * * * *
61231612 ATTTTTACTCTACAAAGGTATTTCGATAATTCTATCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* * *
61231666 AATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* * *
61231720 ATTTCTATCCTAC-AGGGATATTTCAGTATTTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGG-TATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* * * * *
61231774 ATTTTTACCCTACAAGGGTATTTTGGTAATTCTACCCTATAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* * *
61231828 AATTCTACCCTAC-AGAGGTATATCGGTATTTCTACCCTATAAGGGTATTTCGGT
1 ATTTCTACCCTACAAG-GGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* ** * ** * *
61231882 ATTTCTACCCTTCAAGGGTATTAAGGTAATTCTACCCTACCGGGGTATTTCAGC
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* * * * *
61231936 AATTCTACTCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGC
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* **
61231990 ATTTCTACCCTACAAGGGTATTTCGGTATTTTTACCCTACAAGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
* *
61232044 AATTCTACCCTACAAAGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
61232068 AATAATTTTG
Statistics
Matches: 381, Mismatches: 70, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
53 9 0.02
54 366 0.96
55 6 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
Found at i:61231692 original size:81 final size:81
Alignment explanation
Indices: 61231557--61232074 Score: 612
Period size: 81 Copynumber: 6.4 Consensus size: 81
61231547 GGCAAAATGG
* * * * * *
61231557 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTTTACTC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
*
61231622 TACAAAGGTATTTCGA
66 TACAAGGGTATTTCGA
* *
61231638 TAATTCTATCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
* *
61231703 TACAAGGGTATTTTGG
66 TACAAGGGTATTTCGA
* * * *
61231719 TATTTCTATCCTAC-AGGGATATTTCAGTATTTCTACCCTACAGGGGTATTTCGGTATTTTTACC
1 TAATTCTACCCTACAAGGG-TATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
* *
61231783 CTACAAGGGTATTTTGG
65 CTACAAGGGTATTTCGA
* * *
61231800 TAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGAGGTATATCGGTATTTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
* *
61231865 TATAAGGGTATTTCGG
66 TACAAGGGTATTTCGA
* * * * * * * *
61231881 TATTTCTACCCTTCAAGGGTA-TTAAGGTAATTCTACCCTACCGGGGTATTTCAGCAATTCTACT
1 TAATTCTACCCTACAAGGGTATTTCA-GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
*
61231945 CTACAGGGGTATTTC-A
65 CTACAAGGGTATTTCGA
* * * * * *
61231961 GTATTTCTACCCTACAAGGGTATTTCGGCATTTCTACCCTACAAGGGTATTTCGGTATTTTTACC
1 -TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
*
61232026 CTACAAGGGTATTT-TA
65 CTACAAGGGTATTTCGA
* *
61232042 GTAATTCTACCCTACAAAGGTATTTCAATAATT
1 -TAATTCTACCCTACAAGGGTATTTCAGTAATT
61232075 TTGTAAATTG
Statistics
Matches: 374, Mismatches: 57, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
80 6 0.02
81 362 0.97
82 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
TACAAGGGTATTTCGA
Found at i:61232143 original size:27 final size:27
Alignment explanation
Indices: 61232106--61232396 Score: 333
Period size: 27 Copynumber: 10.9 Consensus size: 27
61232096 GTAATTCTGT
* *
61232106 AAATCGGGGGTACTTTGA-TAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTAC
* *
61232133 AAGTTGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
* *
61232160 AAATTGAGGGTATTTCAGTAATTTTGC
1 AAATCGAGGGTATTTCAGTAATTTTAC
*
61232187 AAA-CTAAGGGTATTTCAGTAATTTTAC
1 AAATC-GAGGGTATTTCAGTAATTTTAC
* *
61232214 AAATTGAGGGTATTTCAATAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
*
61232241 -AATCGAGGGTATTTCGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
61232267 AAATCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
*
61232294 -AATCGACGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
* ** *
61232320 AAATCGAGGATATTTGGGTAATTTTAT
1 AAATCGAGGGTATTTCAGTAATTTTAC
* * *
61232347 AAACCGGGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTAC
* *
61232374 AACT-GGGGGTATTTCAGTAATTT
1 AAATCGAGGGTATTTCAGTAATTT
61232397 GGTAAAGTAA
Statistics
Matches: 228, Mismatches: 29, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
25 3 0.01
26 66 0.29
27 156 0.68
28 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AAATCGAGGGTATTTCAGTAATTTTAC
Found at i:61232276 original size:53 final size:53
Alignment explanation
Indices: 61232106--61232396 Score: 336
Period size: 53 Copynumber: 5.5 Consensus size: 53
61232096 GTAATTCTGT
* * *
61232106 AAATCGGGGGTACTTTGA-TAATTTTACAAGTTGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-TCGAGGGTATTTCAGTAATTTTAC
* * * *
61232160 AAATTGAGGGTATTTCAGTAATTTTGCAAACTAAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTACAATC-GAGGGTATTTCAGTAATTTTAC
* * *
61232214 AAATTGAGGGTATTTCAATAATTTTACAATCGAGGGTATTTCGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTAC
*
61232267 AAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTAC
* ** * * * *
61232320 AAATCGAGGATATTTGGGTAATTTTATAAACCGGGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTA-CAATCGAGGGTA-TTTCAGTAATTTTAC
* *
61232374 AACT-GGGGGTATTTCAGTAATTT
1 AAATCGAGGGTATTTCAGTAATTT
61232397 GGTAAAGTAA
Statistics
Matches: 204, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
53 111 0.54
54 90 0.44
55 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTAC
Found at i:61232289 original size:80 final size:81
Alignment explanation
Indices: 61232106--61232396 Score: 360
Period size: 80 Copynumber: 3.6 Consensus size: 81
61232096 GTAATTCTGT
* * *
61232106 AAATCGGGGGTACTTTGA-TAATTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTGAGGG
1 AAATCGAGGGTACTTTCAGTAATTTTACAA-TTGAGGGTATTTCAGTAATTTTACAAATCGAGGG
* *
61232170 TATTTCAGTAATTTTGC
65 TATTTCGGTAATTTTAC
* *
61232187 AAA-CTAAGGGTA-TTTCAGTAATTTTACAAATTGAGGGTATTTCAATAATTTTAC-AATCGAGG
1 AAATC-GAGGGTACTTTCAGTAATTTTAC-AATTGAGGGTATTTCAGTAATTTTACAAATCGAGG
61232249 GTATTTCGGTAATTTTAC
64 GTATTTCGGTAATTTTAC
* * *
61232267 AAATCGAGGGTA-TTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTACAAATCGAGGAT
1 AAATCGAGGGTACTTTCAGTAATTTTACAATTGAGGGTATTTCAGTAATTTTACAAATCGAGGGT
* *
61232331 ATTTGGGTAATTTTAT
66 ATTTCGGTAATTTTAC
* * * * *
61232347 AAACCGGGGGTACTTT-GGTAATTTTACAACTGGGGGTATTTCAGTAATTT
1 AAATCGAGGGTACTTTCAGTAATTTTACAATTGAGGGTATTTCAGTAATTT
61232397 GGTAAAGTAA
Statistics
Matches: 183, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
79 23 0.13
80 114 0.62
81 44 0.24
82 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (81 bp):
AAATCGAGGGTACTTTCAGTAATTTTACAATTGAGGGTATTTCAGTAATTTTACAAATCGAGGGT
ATTTCGGTAATTTTAC
Found at i:61234390 original size:25 final size:25
Alignment explanation
Indices: 61234361--61234427 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
61234351 AATCAAAATG
* * *
61234361 AGAATTAGAATCAGAATTAGGTGAT
1 AGAATCAGAATCAGAATCAGGTGAC
*
61234386 AGAATCAGAATCAGTATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
61234411 AAAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
61234428 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:61234582 original size:27 final size:26
Alignment explanation
Indices: 61234545--61234624 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
61234535 AGCATGGCTG
* *
61234545 CCAGAACAGATATTGTGACAAAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
*
61234571 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAAAGCCA
* *
61234598 CCAAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGGCAAAGCCA
61234624 C
1 C
61234625 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 25 0.53
27 22 0.47
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:61235352 original size:27 final size:27
Alignment explanation
Indices: 61235279--61235731 Score: 488
Period size: 27 Copynumber: 16.9 Consensus size: 27
61235269 AAAAATGGTA
* * * *
61235279 ATTT-TACCCCACAAAGGTATCTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* *
61235305 AATTCTACCCTAC-TGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* *
61235331 ATTTCTACCTTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* * * *
61235358 AATTCTATCCTATAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* *
61235385 AATTCTACCCTACAGGGGTATTTC-GAT
1 ATTTCTACCCTACAAGGGTATTTCAG-T
*
61235412 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* * *
61235439 ATTTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* * *
61235466 AATCCTACCCTAC-AGGAGTATTTCGGT
1 ATTTCTACCCTACAAGG-GTATTTCAGT
*
61235493 ATTTCTACCCTACAACGGTATTTC-GTT
1 ATTTCTACCCTACAAGGGTATTTCAG-T
* *
61235520 AATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* * *
61235547 AATTCTACCCTAC-AGAGATATTTCGGT
1 ATTTCTACCCTACAAG-GGTATTTCAGT
61235574 ATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* * *
61235601 AATTCTACCCTACAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* *
61235628 AATTCTACCCTACAGGGGTATTTC-GAT
1 ATTTCTACCCTACAAGGGTATTTCAG-T
**
61235655 ATTTCTACCCTACAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
*
61235682 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
*
61235709 ATTTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
61235732 TAATAATTTT
Statistics
Matches: 364, Mismatches: 51, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
26 29 0.08
27 328 0.90
28 7 0.02
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCAGT
Found at i:61235429 original size:81 final size:81
Alignment explanation
Indices: 61235275--61235731 Score: 639
Period size: 81 Copynumber: 5.7 Consensus size: 81
61235265 GGGGAAAAAT
* * ** * * *
61235275 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTAC-TGGGTATTTC-AGTATTTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA-TATTTCTA
*
61235338 CCTTACAAGGGTATTTC
65 CCCTACAAGGGTATTTC
* *
61235355 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
61235420 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * * * * *
61235436 GGTATTTCTATCCTACAGGGGTATTTCAATAATCCTACCCTACAGGAGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
*
61235501 CCTACAACGGTATTTC
66 CCTACAAGGGTATTTC
* * * *
61235517 GTTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGAGATATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
61235582 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* *
61235598 AGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
*
61235663 CCTACAAGGGTATTTT
66 CCTACAAGGGTATTTC
* * * *
61235679 GGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
61235732 TAATAATTTT
Statistics
Matches: 336, Mismatches: 39, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
80 35 0.10
81 300 0.89
82 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
CCTACAAGGGTATTTC
Found at i:61235732 original size:54 final size:54
Alignment explanation
Indices: 61235294--61235731 Score: 549
Period size: 54 Copynumber: 8.1 Consensus size: 54
61235284 ACCCCACAAA
* * * *
61235294 GGTATCTCGGTAATTCTACCCTAC-TGGGTATTTCAGTATTTCTACCTTACAAG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAGG
* * * *
61235347 GGTATTTCGGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAGG
* * * *
61235401 GGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGTATTTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAGG
** * * **
61235455 GGTATTTCAATAATCCTACCCTAC-AGGAGTATTTCGGTATTTCTACCCTACAAC
1 GGTATTTCGGTAATTCTACCCTACAAGG-GTATTTCAGTATTTCTACCCTACAGG
* * * *
61235509 GGTATTTCGTTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGA
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAGG
* * *
61235563 GATATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAGG
** * *
61235617 GGTATTTTAGTAATTCTACCCTACAGGGGTATTTC-GATATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAG-TATTTCTACCCTACAGG
* * *
61235671 GGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAGG
61235725 GGTATTT
1 GGTATTT
61235732 TAATAATTTT
Statistics
Matches: 335, Mismatches: 45, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
53 25 0.07
54 307 0.92
55 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAGG
Found at i:61235891 original size:26 final size:27
Alignment explanation
Indices: 61235789--61236168 Score: 373
Period size: 27 Copynumber: 14.2 Consensus size: 27
61235779 GGTACTTTGA
* **
61235789 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCGG
*
61235816 TAATTTTGCAAA-CTGAGGGTATTTCGG
1 TAATTTTACAAATC-GAGGGTATTTCGG
*
61235843 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
* ***
61235870 TAATTTTAC-AATCAATAATATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
61235896 TAATTTTACAAATTGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
*
61235923 TAATTTTAC-AATCGACGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * *
61235949 TAATTTTACAAATCAAGGATATTTGGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * *
61235976 TAGTTTTATAAA-CTGGGGGTACTTT-GG
1 TAATTTTACAAATC-GAGGGTA-TTTCGG
*
61236003 TAATTTTACAAGTCGAGGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCGG
*
61236030 TAATTTTACAAATCGAGGGGATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* * *
61236057 GAATTTTACACATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
* **
61236084 TAATTTTAC-AATCGACGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
61236110 TAATTTTATAAACCG-GCGGTACTTT-GG
1 TAATTTTACAAATCGAG-GGTA-TTTCGG
* * *
61236137 TAATTTTAC-AATTGGGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
61236163 TAATTT
1 TAATTT
61236169 GGTAAACTAA
Statistics
Matches: 288, Mismatches: 52, Indels: 27
0.78 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 85 0.30
27 192 0.67
28 8 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCGG
Found at i:61235908 original size:53 final size:53
Alignment explanation
Indices: 61235789--61236168 Score: 397
Period size: 53 Copynumber: 7.1 Consensus size: 53
61235779 GGTACTTTGA
* * * *
61235789 TAATTTTACAAGTCGAGGGTATTTCAATAATTTTGCAAACTGAGGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATC-GAGGGTATTTCGG
* ***
61235843 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCAATAATATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGG
* *
61235896 TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGG
* * ** * * * *
61235949 TAATTTTACAAATCAAGGATATTTGGGTAGTTTTATAAACTGGGGGTACTTT-GG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATC-GAGGGTA-TTTCGG
* * *
61236003 TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGGATTTCGG
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCGG
* * * **
61236057 GAATTTTACACATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGG
* * * * * *
61236110 TAATTTTATAAACCG-GCGGTACTTT-GGTAATTTTACAATTGGGGGTATTTCAG
1 TAATTTTACAAATCGAG-GGTA-TTTCAGTAATTTTACAATCGAGGGTATTTCGG
61236163 TAATTT
1 TAATTT
61236169 GGTAAACTAA
Statistics
Matches: 271, Mismatches: 49, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.00
53 149 0.55
54 115 0.42
55 6 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (53 bp):
TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGG
Found at i:61235916 original size:80 final size:80
Alignment explanation
Indices: 61235789--61236168 Score: 385
Period size: 80 Copynumber: 4.8 Consensus size: 80
61235779 GGTACTTTGA
* * * ** * *
61235789 TAATTTTACAAGTCGAGGGTATTTCAATAATTTTGCAAACTGAGGGTATTTCGGTAATTTTACAA
1 TAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTAC-A
*
61235854 ATCGAGGGTATTTCAG
65 ATCGACGGTATTTCAG
** *
61235870 TAATTTTAC-AATCAATAATATTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAA
1 TAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAA
*
61235934 TCGACGGTATTTCGG
66 TCGACGGTATTTCAG
* * * * *
61235949 TAATTTTACAAATCAAGGATATTTGGGTAGTTTTATAAACTGGGGGTACTTT-GGTAATTTTACA
1 TAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAACTGAGGGTA-TTTCAGTAATTTTACA
* *
61236013 AGTCGAGGGTATTTCGG
65 A-TCGACGGTATTTCAG
* ** * *
61236030 TAATTTTACAAATCGAGGGGATTTCGGGAATTTTACACA-TCGAGGGTATTTCAGTAATTTTACA
1 TAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTTACA
*
61236094 ATCGACGGTATTTCAA
65 ATCGACGGTATTTCAG
* ** * * *
61236110 TAATTTTATAAA-CCGGCGGTACTTT-GGTAATTTTAC-AATTGGGGGTATTTCAGTAATTT
1 TAATTTTACAAATCAAG-GATA-TTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTT
61236169 GGTAAACTAA
Statistics
Matches: 250, Mismatches: 41, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
79 45 0.18
80 127 0.51
81 78 0.31
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (80 bp):
TAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAA
TCGACGGTATTTCAG
Found at i:61236142 original size:214 final size:214
Alignment explanation
Indices: 61235770--61236168 Score: 552
Period size: 214 Copynumber: 1.9 Consensus size: 214
61235760 GATAATTCTG
* *
61235770 TAAATTGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAATAATTTTGCAAACTGAGGG
1 TAAACTGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAACTGAGGG
* * * **
61235835 TATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCAATAATATTTCGGTAAT
66 GATTTCGGGAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCAACAATATTTCAATAAT
** *
61235900 TTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTACAAATCAA
131 TTTACAAACCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTACAAATCAA
61235965 GGATATTTGGGTAGTTTTA
196 GGATATTTGGGTAGTTTTA
* **
61235984 TAAACTGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAA-TCGAGG
1 TAAACTGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAACT-GAGG
* * **
61236048 GGATTTCGGGAATTTTACACATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAATAA
65 GGATTTCGGGAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCAACAATATTTCAATAA
* * * **
61236113 TTTTATAAACCG-GCGGTACTTT-GGTAATTTTACAATTGGGGGTATTTCAGTAATTT
130 TTTTACAAACCGAG-GGTA-TTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTT
61236169 GGTAAACTAA
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
213 2 0.01
214 155 0.97
215 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (214 bp):
TAAACTGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAACTGAGGG
GATTTCGGGAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCAACAATATTTCAATAAT
TTTACAAACCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTACAAATCAA
GGATATTTGGGTAGTTTTA
Done.