Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 124 of 172
Found at i:41406931 original size:29 final size:30
Alignment explanation
Indices: 41406869--41406930 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
41406859 AATCTATATC
* *
41406869 TTTATAATTTTTAAAGGATTAAATTAAATT
1 TTTATAATTTTTAAAGGATCAAAGTAAATT
*
41406899 TTTATAA-TTTTAAAGGGTCAAAGTACAATT
1 TTTATAATTTTTAAAGGATCAAAGTA-AATT
41406929 TT
1 TT
41406931 ACCTTTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATCAAAGTAAATT
Found at i:41408298 original size:17 final size:17
Alignment explanation
Indices: 41408276--41408308 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41408266 ATTTAATATA
41408276 TTTTAT-ATATATATTAT
1 TTTTATAATAT-TATTAT
41408293 TTTTATAATATTATTA
1 TTTTATAATATTATTA
41408309 GTGTATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATAATATTATTAT
Found at i:41412082 original size:32 final size:31
Alignment explanation
Indices: 41412038--41412109 Score: 135
Period size: 32 Copynumber: 2.3 Consensus size: 31
41412028 AAACTAAGGT
41412038 ATGTATGCAGTGATAATTCAAAGGAATGATG
1 ATGTATGCAGTGATAATTCAAAGGAATGATG
41412069 ATGTTATGCAGTGATAATTCAAAGGAATGATG
1 ATG-TATGCAGTGATAATTCAAAGGAATGATG
41412101 ATGTATGCA
1 ATGTATGCA
41412110 ATAGATGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 9 0.22
32 31 0.77
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (31 bp):
ATGTATGCAGTGATAATTCAAAGGAATGATG
Found at i:41413102 original size:37 final size:37
Alignment explanation
Indices: 41413048--41413138 Score: 148
Period size: 36 Copynumber: 2.5 Consensus size: 37
41413038 TATCTTCTCC
41413048 TCTTTTTAAATTCTTTTTTCAACAACCCAAGATTATCT
1 TCTTTTTAAATT-TTTTTTCAACAACCCAAGATTATCT
* *
41413086 T-TTTTTAAAATTTTTTTCAACAACCCGAGATTATCT
1 TCTTTTTAAATTTTTTTTCAACAACCCAAGATTATCT
41413122 TCTTTTTAAATTTTTTT
1 TCTTTTTAAATTTTTTT
41413139 CTAGGATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 25 0.51
37 23 0.47
38 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.53
Consensus pattern (37 bp):
TCTTTTTAAATTTTTTTTCAACAACCCAAGATTATCT
Found at i:41417676 original size:50 final size:50
Alignment explanation
Indices: 41417617--41417770 Score: 130
Period size: 63 Copynumber: 2.8 Consensus size: 50
41417607 GTATTCTTTT
41417617 GAAACCTTACATTTACCACGATCAACCTTCGAAATTTGTTCGGTTATTTC
1 GAAACCTTACATTTACCACGATCAACCTTCGAAATTTGTTCGGTTATTTC
* * ** *
41417667 GAAACCTTACATTCTTTTGAAACCTTAC-TTTAAGTTATCCAAATATCATGTTTCGGTTATTTC
1 GAAACCTTACA----TTT---ACC--ACGATCAACCT-TCGAAAT-T--TGTT-CGGTTATTTC
41417730 GAAACCTTACATTTACCACGATCAACCTTCGAAATTTGTTC
1 GAAACCTTACATTTACCACGATCAACCTTCGAAATTTGTTC
41417771 ATTGGGGTCT
Statistics
Matches: 79, Mismatches: 10, Indels: 30
0.66 0.08 0.25
Matches are distributed among these distances:
50 12 0.15
51 4 0.05
53 1 0.01
54 11 0.14
55 4 0.05
56 3 0.04
57 3 0.04
58 4 0.05
59 11 0.14
60 1 0.01
62 4 0.05
63 21 0.27
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (50 bp):
GAAACCTTACATTTACCACGATCAACCTTCGAAATTTGTTCGGTTATTTC
Found at i:41427099 original size:20 final size:22
Alignment explanation
Indices: 41427049--41427104 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
41427039 TAGTCATATA
* * *
41427049 ATAAATTATTAATATAATAAAT
1 ATAATTTATTATTTTAATAAAT
41427071 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAATAAAT
41427093 -T-ATTTATTATTT
1 ATAATTTATTATTT
41427105 CAATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 11 0.35
21 1 0.03
22 19 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTATTATTTTAATAAAT
Found at i:41427143 original size:14 final size:14
Alignment explanation
Indices: 41427112--41427150 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
41427102 TTTCAATTTT
41427112 ATTTT-AATAATAA
1 ATTTTAAATAATAA
41427125 ATTTTAAAATAAT-A
1 ATTTT-AAATAATAA
41427139 ATTTTAAATAAT
1 ATTTTAAATAAT
41427151 GTTATTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:41427686 original size:14 final size:14
Alignment explanation
Indices: 41427667--41427704 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
41427657 CTAGAAAAGT
41427667 AAATCATTTTCCAG
1 AAATCATTTTCCAG
41427681 AAATCA-TTTCCAG
1 AAATCATTTTCCAG
*
41427694 AAGTCATTTTC
1 AAATCATTTTC
41427705 AATGAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:41429110 original size:27 final size:28
Alignment explanation
Indices: 41429078--41429319 Score: 277
Period size: 27 Copynumber: 8.9 Consensus size: 28
41429068 AAGTATTCCC
41429078 GATTTACAGAATTACCGTTTTACCCTCA
1 GATTTACAGAATTACCGTTTTACCCTCA
* * *
41429106 G-TTTATAGAATTACTGTTTTACCATC-
1 GATTTACAGAATTACCGTTTTACCCTCA
41429132 GATTTACAGAATTACCGTTTTACCCTCA
1 GATTTACAGAATTACCGTTTTACCCTCA
* *
41429160 G-TTTACAGAATTACTGCTTTACCCTC-
1 GATTTACAGAATTACCGTTTTACCCTCA
* *
41429186 GATTTATAAAATTACCGTTTTACCCTC-
1 GATTTACAGAATTACCGTTTTACCCTCA
** * * *
41429213 GATTTGTAAAATTACCATTTTACCCT-T
1 GATTTACAGAATTACCGTTTTACCCTCA
*
41429240 GATTTACAGAATTACTAG-TTTACCCTCA
1 GATTTACAGAATTAC-CGTTTTACCCTCA
* *
41429268 G-TTTACAAAATTATCGTTTTACCCTC-
1 GATTTACAGAATTACCGTTTTACCCTCA
41429294 GATTTACAGAATTACCGTTTTACCCT
1 GATTTACAGAATTACCGTTTTACCCT
41429320 TAATTGTGCA
Statistics
Matches: 181, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.02
27 174 0.96
28 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (28 bp):
GATTTACAGAATTACCGTTTTACCCTCA
Found at i:41429320 original size:81 final size:80
Alignment explanation
Indices: 41429078--41429320 Score: 321
Period size: 81 Copynumber: 3.0 Consensus size: 80
41429068 AAGTATTCCC
* * * *
41429078 GATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCATCGATTTACAGAA
1 GATTTACAGAATTACTGCTTTACCCTCAGTTTATAAAATTAC-GTTTTACCCTCGATTTACAGAA
41429143 TTACCGTTTTACCC-T
65 TTACCGTTTTACCCTT
* ** *
41429158 CAGTTTACAGAATTACTGCTTTACCCTC-GATTTATAAAATTACCGTTTTACCCTCGATTTGTAA
1 GA-TTTACAGAATTACTGCTTTACCCTCAG-TTTATAAAATTA-CGTTTTACCCTCGATTTACAG
*
41429222 AATTACCATTTTACCCTT
63 AATTACCGTTTTACCCTT
*
41429240 GATTTACAGAATTACTAG-TTTACCCTCAGTTTACAAAATTATCGTTTTACCCTCGATTTACAGA
1 GATTTACAGAATTACT-GCTTTACCCTCAGTTTATAAAATTA-CGTTTTACCCTCGATTTACAGA
41429304 ATTACCGTTTTACCCTT
64 ATTACCGTTTTACCCTT
41429321 AATTGTGCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
80 2 0.01
81 134 0.95
82 5 0.04
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (80 bp):
GATTTACAGAATTACTGCTTTACCCTCAGTTTATAAAATTACGTTTTACCCTCGATTTACAGAAT
TACCGTTTTACCCTT
Found at i:41429359 original size:27 final size:27
Alignment explanation
Indices: 41429329--41429524 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
41429319 TTAATTGTGC
*
41429329 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
41429356 AATTTCCGAAATACCCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * **
41429383 AATTACTAAAATACCCTTATAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41429410 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41429437 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41429464 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
41429491 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
41429518 AATTACC
1 AATTACC
41429525 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:41429761 original size:27 final size:26
Alignment explanation
Indices: 41429723--41429805 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
41429713 CGGAGGAAGC
41429723 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
41429750 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
41429776 GTATTTGGTGACTTTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
41429803 GTT
1 GTT
41429806 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:41429925 original size:22 final size:22
Alignment explanation
Indices: 41429893--41429951 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
41429883 CCCGTTATTA
*
41429893 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
41429915 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
41429937 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
41429952 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:41430138 original size:27 final size:27
Alignment explanation
Indices: 41430116--41430189 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
41430106 TAGGTGGGTT
*
41430116 TGCCACATTATCTG-ATTCTGGTGACTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
*
41430143 TGCCACAATATCTGTATCTGGTGACTT
1 TGCCACAATATCTGTATCTGGTGACTC
* *
41430170 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
41430190 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:41430316 original size:6 final size:6
Alignment explanation
Indices: 41430307--41430499 Score: 159
Period size: 6 Copynumber: 31.8 Consensus size: 6
41430297 TTGCATTCAC
* * *
41430307 ATTCTG ATTCTG ATTCTG -TCACATA ATTTTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
41430356 -TTACTA ATACTG ATTCTG ATTCTA ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
41430404 ATTCTG -TCACCTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
41430453 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCT
41430500 CATTTTGGTT
Statistics
Matches: 152, Mismatches: 18, Indels: 34
0.75 0.09 0.17
Matches are distributed among these distances:
5 12 0.08
6 127 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:41430372 original size:30 final size:30
Alignment explanation
Indices: 41430307--41430499 Score: 245
Period size: 30 Copynumber: 6.6 Consensus size: 30
41430297 TTGCATTCAC
* **
41430307 ATTCTGATTCTGATTCTGTCACATAATTTTG
1 ATTCTGATTCTGATTCTGTTAC-TAATACTG
41430338 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
41430368 ATTCTGATTCTAATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
41430392 ATTCTGATTCTGATTCTGTCACCTAATATTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
41430423 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
41430453 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
41430483 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
41430500 CATTTTGGTT
Statistics
Matches: 145, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
24 22 0.15
26 1 0.01
29 1 0.01
30 76 0.52
31 45 0.31
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:41430406 original size:85 final size:85
Alignment explanation
Indices: 41430307--41430494 Score: 340
Period size: 85 Copynumber: 2.2 Consensus size: 85
41430297 TTGCATTCAC
*
41430307 ATTCTGATTCTGATTCTGTCACATAATTTTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACATAATATTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
41430372 TGATTCTAATTCTGTTACTG
66 TGATTCTAATTCTGTTACTG
* *
41430392 ATTCTGATTCTGATTCTGTCACCTAATATTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACATAATATTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
41430457 TGATTCTGATTCTGTTACTG
66 TGATTCTAATTCTGTTACTG
41430477 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
41430495 ATTCTCATTT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 99 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACATAATATTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTAATTCTGTTACTG
Found at i:41433589 original size:11 final size:11
Alignment explanation
Indices: 41433575--41433603 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
41433565 TATAAAATAA
41433575 TTAAATTGTAC
1 TTAAATTGTAC
41433586 TTAAATTGTAC
1 TTAAATTGTAC
41433597 TTAAATT
1 TTAAATT
41433604 ATTAACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (11 bp):
TTAAATTGTAC
Found at i:41441032 original size:27 final size:27
Alignment explanation
Indices: 41440989--41441154 Score: 197
Period size: 27 Copynumber: 6.1 Consensus size: 27
41440979 GGTTGTTATT
41440989 TGACCGTAATACCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
** * *
41441016 TGATTGTAATGCCCCTGTAAGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * * *
41441043 TGACTGAAATGCCCATGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* **
41441070 TAACCGTAATACCCCTAAAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
41441097 TGACAGTAATGCCCCTATAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
*
41441124 TGACCGTAATACCCCTGTATGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
41441151 TGAC
1 TGAC
41441155 GATTATGCCC
Statistics
Matches: 116, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
TGACCGTAATACCCCTGTAGGGTAAAA
Found at i:41441126 original size:81 final size:81
Alignment explanation
Indices: 41440991--41441151 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
41440981 TTGTTATTTG
** ** * * *
41440991 ACCGTAATACCCCTGTAGGGTAAAATGATTGTAATGCCCCTGTAAGGTAAAATGACTGAAATGCC
1 ACCGTAATACCCCTAAAGGGTAAAATGACAGTAATGCCCCTATAAGGTAAAATGACCGAAATACC
41441056 CATGTAGGGTAAAATA
66 CATGTAGGGTAAAATA
* *
41441072 ACCGTAATACCCCTAAAGGGTAAAATGACAGTAATGCCCCTATAGGGTAAAATGACCGTAATACC
1 ACCGTAATACCCCTAAAGGGTAAAATGACAGTAATGCCCCTATAAGGTAAAATGACCGAAATACC
* *
41441137 CCTGTATGGTAAAAT
66 CATGTAGGGTAAAAT
41441152 GACGATTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
ACCGTAATACCCCTAAAGGGTAAAATGACAGTAATGCCCCTATAAGGTAAAATGACCGAAATACC
CATGTAGGGTAAAATA
Found at i:41441369 original size:26 final size:26
Alignment explanation
Indices: 41441339--41441391 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
41441329 GGCTTTGCCA
* *
41441339 CATTACTGTTTCTGGCAGCTATGCTG
1 CATTACTATTACTGGCAGCTATGCTG
* *
41441365 CATTATTATTACTGGCAGCTTTGCTG
1 CATTACTATTACTGGCAGCTATGCTG
41441391 C
1 C
41441392 GATTTCGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (26 bp):
CATTACTATTACTGGCAGCTATGCTG
Found at i:41450963 original size:32 final size:32
Alignment explanation
Indices: 41450927--41451011 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 32
41450917 CCCATTACAG
* * * *
41450927 TATCAATTGGGCGTAGCCCATCTCAGAATCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
* *
41450959 TATCAGTTAGGCCTAGCCTATATCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
41450991 TATCAGTTGGGCCTAGCCCAT
1 TATCAGTTGGGCCTAGCCCAT
41451012 TTCAATATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (32 bp):
TATCAGTTGGGCCTAGCCCATATCAGAACCAA
Found at i:41452100 original size:18 final size:18
Alignment explanation
Indices: 41452067--41452178 Score: 93
Period size: 18 Copynumber: 6.2 Consensus size: 18
41452057 AGTTTCATTT
41452067 AGTAAC-ATTCAATTATTC
1 AGTAACAATT-AATTATTC
* *
41452085 AGTAGCAATTAGTTATTC
1 AGTAACAATTAATTATTC
* * **
41452103 AGTAACAATCATTTGCTC
1 AGTAACAATTAATTATTC
*
41452121 AGTAGC-ATTCAATTATTC
1 AGTAACAATT-AATTATTC
*
41452139 AGTAACAATCAATTATTC
1 AGTAACAATTAATTATTC
* * *
41452157 AGTAACAGTTAGTCATTC
1 AGTAACAATTAATTATTC
41452175 AGTA
1 AGTA
41452179 CTTTTATTTA
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
17 2 0.03
18 66 0.90
19 5 0.07
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
AGTAACAATTAATTATTC
Found at i:41452123 original size:36 final size:36
Alignment explanation
Indices: 41452067--41452178 Score: 127
Period size: 36 Copynumber: 3.1 Consensus size: 36
41452057 AGTTTCATTT
* *
41452067 AGTAACATTCAATTATTCAGTAGCAATTAGTTATTC
1 AGTAACAATCAATTACTCAGTAGCAATTAGTTATTC
* * *
41452103 AGTAACAATCATTTGCTCAGTAGC-ATTCAATTATTC
1 AGTAACAATCAATTACTCAGTAGCAATT-AGTTATTC
* * * *
41452139 AGTAACAATCAATTATTCAGTAACAGTTAGTCATTC
1 AGTAACAATCAATTACTCAGTAGCAATTAGTTATTC
41452175 AGTA
1 AGTA
41452179 CTTTTATTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
35 3 0.05
36 57 0.92
37 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (36 bp):
AGTAACAATCAATTACTCAGTAGCAATTAGTTATTC
Found at i:41452177 original size:54 final size:54
Alignment explanation
Indices: 41452061--41452178 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
41452051 TTTATCAGTT
* * * * *
41452061 TCATTTAGTAACATTCAATTATTCAGTAGCAATTAGTTATTCAGTAACAATCAT
1 TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
*** * * *
41452115 TTGCTCAGTAGCATTCAATTATTCAGTAACAATCAATTATTCAGTAACAGTTAG
1 TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
41452169 TCATTCAGTA
1 TCATTCAGTA
41452179 CTTTTATTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (54 bp):
TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
Found at i:41452537 original size:17 final size:17
Alignment explanation
Indices: 41452505--41452537 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41452495 TTCCATATTA
41452505 CATTTCAATTTCAATTT
1 CATTTCAATTTCAATTT
41452522 CATTCTCAATTT-AATT
1 CATT-TCAATTTCAATT
41452538 ACAACTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (17 bp):
CATTTCAATTTCAATTT
Found at i:41452843 original size:135 final size:132
Alignment explanation
Indices: 41452602--41452870 Score: 314
Period size: 135 Copynumber: 2.0 Consensus size: 132
41452592 TACATATTCA
*
41452602 TCATTCAACTCAATTTTCATTCAATTCAACAATAACACTTAACTTATAATTTACTTACCATATAC
1 TCATTCAACTCAATTTTCATTCAATTCAACAATAACACTTAACTTATAATTTACTTACCATATAA
* * * *
41452667 ATAAATTAATTTAACATTTAATGAATAAATAAATAATTTGAATTATAGTAATACAAACACGT-AT
66 ATAAATAAATTTAAAATTTAATAAATAAATAAATAACTTGAATTATAGTAATACAAAC-CGTAAT
41452731 TTC
130 TTC
* * * * * *
41452734 TCATTCAATTCAATTTTCTAAATTCAATTCAATAA-AATTACTTACCTTA-ATATTTGCTTACTA
1 TCATTCAACTCAATTTTC---ATTCAATTCAACAATAA-CACTTAACTTATA-ATTTACTTACCA
* *
41452797 TA-AAATAAATAAATTTAAAATTAATACTAAAT-AATAAATAACTTGAATTATAGTAATATAAAC
61 TATAAATAAATAAATTTAAAATT--TAATAAATAAATAAATAACTTGAATTATAGTAATACAAAC
41452860 CGTAATTTC
124 CGTAATTTC
41452869 TC
1 TC
41452871 GAATTATTCT
Statistics
Matches: 116, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
132 17 0.15
134 23 0.20
135 70 0.60
136 6 0.05
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.39
Consensus pattern (132 bp):
TCATTCAACTCAATTTTCATTCAATTCAACAATAACACTTAACTTATAATTTACTTACCATATAA
ATAAATAAATTTAAAATTTAATAAATAAATAAATAACTTGAATTATAGTAATACAAACCGTAATT
TC
Found at i:41453111 original size:13 final size:15
Alignment explanation
Indices: 41453085--41453117 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
41453075 CATTTACTTT
41453085 ATATATATTATAATA
1 ATATATATTATAATA
41453100 ATATA-ATT-TAATA
1 ATATATATTATAATA
41453113 ATATA
1 ATATA
41453118 CTTATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATATTATAATA
Found at i:41453219 original size:4 final size:4
Alignment explanation
Indices: 41453210--41453248 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
41453200 TGTCAAACTT
*
41453210 TTAA TTAA TTAA TTAA TTAA TTTACA TTAT TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA -TTA-A TTAA TTAA TTAA T
41453249 ATAAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.77
5 6 0.19
6 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:41457799 original size:17 final size:17
Alignment explanation
Indices: 41457774--41457807 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
41457764 TTTAATTCAA
*
41457774 CATATATCAATCAAAAT
1 CATAAATCAATCAAAAT
*
41457791 CATAAATCAATTAAAAT
1 CATAAATCAATCAAAAT
41457808 TTATCCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (17 bp):
CATAAATCAATCAAAAT
Found at i:41465707 original size:24 final size:25
Alignment explanation
Indices: 41465665--41465712 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
41465655 ACACAAACGC
41465665 AGCTCTTCATGAGCGTCCTGATATA
1 AGCTCTTCATGAGCGTCCTGATATA
*
41465690 AGCTCTT-ATGAGCTTCCTGATAT
1 AGCTCTTCATGAGCGTCCTGATAT
41465713 GGCTCGCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTCTTCATGAGCGTCCTGATATA
Found at i:41470251 original size:38 final size:39
Alignment explanation
Indices: 41470200--41470276 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
41470190 CCATCTCCGT
* *
41470200 CTAGCCCAACACACC-GTGTGGGGATAAAATCGACCCAC
1 CTAGCCCAACACACCAGTATGGGGATAAAATCAACCCAC
* *
41470238 CTAGCCCTACACACCAAGTATTGGGATAAAATCAACCCA
1 CTAGCCCAACACACC-AGTATGGGGATAAAATCAACCCA
41470277 TCCAACTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 14 0.42
40 19 0.58
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.16
Consensus pattern (39 bp):
CTAGCCCAACACACCAGTATGGGGATAAAATCAACCCAC
Found at i:41470753 original size:17 final size:17
Alignment explanation
Indices: 41470731--41470763 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
41470721 GTGTGGTTCA
41470731 CCTGTGTGGCCCACACG
1 CCTGTGTGGCCCACACG
41470748 CCTGTGTGGCCCACAC
1 CCTGTGTGGCCCACAC
41470764 AGCCCAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.42, G:0.27, T:0.18
Consensus pattern (17 bp):
CCTGTGTGGCCCACACG
Found at i:41473618 original size:26 final size:26
Alignment explanation
Indices: 41473587--41473691 Score: 174
Period size: 26 Copynumber: 4.0 Consensus size: 26
41473577 TGAAATGCCC
*
41473587 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
41473613 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
41473639 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
41473665 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
41473691 A
1 A
41473692 CCAATTTGTA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:41475284 original size:22 final size:19
Alignment explanation
Indices: 41475259--41475300 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
41475249 TGATAATAAC
41475259 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
41475281 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
41475300 T
1 T
41475301 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:41475291 original size:16 final size:15
Alignment explanation
Indices: 41475259--41475297 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
41475249 TGATAATAAC
41475259 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
41475275 TTATTATAATATATAT
1 TAATTATAAT-TATAT
41475291 TAATTAT
1 TAATTAT
41475298 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:41475726 original size:15 final size:15
Alignment explanation
Indices: 41475706--41475737 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
41475696 CATTCGATCA
41475706 AATTGAATCGAATCG
1 AATTGAATCGAATCG
41475721 AATTGAATCGAATCG
1 AATTGAATCGAATCG
41475736 AA
1 AA
41475738 AATTTTCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (15 bp):
AATTGAATCGAATCG
Found at i:41476774 original size:9 final size:9
Alignment explanation
Indices: 41476760--41476796 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
41476750 TATAGTTTGA
41476760 TATTCGAAT
1 TATTCGAAT
41476769 TATTCGAAT
1 TATTCGAAT
*
41476778 TATTCGAGT
1 TATTCGAAT
*
41476787 TATTTGAAT
1 TATTCGAAT
41476796 T
1 T
41476797 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:41476863 original size:9 final size:9
Alignment explanation
Indices: 41476849--41476881 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
41476839 ATTCGAGTTG
41476849 ACTCGAATA
1 ACTCGAATA
*
41476858 ACTCGATTA
1 ACTCGAATA
41476867 ACTCGAATA
1 ACTCGAATA
41476876 ACTCGA
1 ACTCGA
41476882 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:41476872 original size:18 final size:18
Alignment explanation
Indices: 41476849--41476883 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
41476839 ATTCGAGTTG
41476849 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
41476867 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
41476884 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:41477187 original size:25 final size:26
Alignment explanation
Indices: 41477131--41477188 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
41477121 ATTTTTCTCC
* *
41477131 TAAA-TTTCAAATTTATTTAGTTAAT
1 TAAATTTTCAAATTTATTGAATTAAT
41477156 TAAATTTTC-AATTTATTGAATT-AT
1 TAAATTTTCAAATTTATTGAATTAAT
41477180 TAATATTTT
1 TAA-ATTTT
41477189 ATGCAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 20 0.69
26 4 0.14
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (26 bp):
TAAATTTTCAAATTTATTGAATTAAT
Found at i:41480914 original size:57 final size:56
Alignment explanation
Indices: 41480826--41480938 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 56
41480816 AGCAGAGAAG
*
41480826 GAAGAGCGTACCAAACTAGTCAGGCTTCGGAGAAACACTGGATTTGATTCTAGTTT
1 GAAGAGCGGACCAAACTAGTCAGGCTTCGGAGAAACACTGGATTTGATTCTAGTTT
41480882 NGAAGAGCGGACCAAACTAGTCAGGCTTCGGAGAAACACTGGATTTGATTCTAGTTT
1 -GAAGAGCGGACCAAACTAGTCAGGCTTCGGAGAAACACTGGATTTGATTCTAGTTT
41480939 CCTATCTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (56 bp):
GAAGAGCGGACCAAACTAGTCAGGCTTCGGAGAAACACTGGATTTGATTCTAGTTT
Found at i:41483893 original size:28 final size:28
Alignment explanation
Indices: 41483851--41483915 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
41483841 ATGATTCAAA
41483851 AAATT-CAACGATCATATTACAACAGTC
1 AAATTCCAACGATCATATTACAACAGTC
* * *
41483878 AGATTCCAACGGTCATATTATAACAGTC
1 AAATTCCAACGATCATATTACAACAGTC
41483906 AAATTCCAAC
1 AAATTCCAAC
41483916 AACTATATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (28 bp):
AAATTCCAACGATCATATTACAACAGTC
Found at i:41483923 original size:28 final size:28
Alignment explanation
Indices: 41483862--41483929 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
41483852 AATTCAACGA
* * **
41483862 TCATATTACAACAGTCAGATTCCAACGG
1 TCATATTATAACAGTCAAATTCCAACAC
41483890 TCATATTATAACAGTCAAATTCCAACAAC
1 TCATATTATAACAGTCAAATTCCAAC-AC
*
41483919 T-ATATTGTAAC
1 TCATATTATAAC
41483930 GAAACGATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (28 bp):
TCATATTATAACAGTCAAATTCCAACAC
Found at i:41490375 original size:41 final size:41
Alignment explanation
Indices: 41490246--41490530 Score: 258
Period size: 41 Copynumber: 7.0 Consensus size: 41
41490236 GTAAAACACA
* * * * * *
41490246 GAGCAATAGCGGCGTTTTTGTTAACA-TGCCACTAAAA-ACA
1 GAGCAATAGCGGCGCTTTTGATAAAACT-CCGCTAAAAGTCG
* * * * * * *
41490286 GAGCAATAGCGACGTTTTTTGTTAAAACACTGCTAAAA-ACA
1 GAGCAATAGCGGCG-CTTTTGATAAAACTCCGCTAAAAGTCG
* ** *
41490327 GATCAATAGCGGTACTTTTGGTAAAACTCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGATAAAACTCCGCTAAAAGTCG
*
41490368 GAGCAATAGCGGCGCTTTT-AGTAAAA-TGCCGCTAAAAGTCA
1 GAGCAATAGCGGCGCTTTTGA-TAAAACT-CCGCTAAAAGTCG
* *
41490409 GAGCAATAGCGGCGCTTCTGATAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGATAAAACTCCGCTAAAAGTCG
* * * *
41490450 GAGCAGTAGTGGCGCTTCTGATAAAACGT-TGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGATAAAAC-TCCGCTAAAAGTCG
*
41490491 GAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGATAAAACTCCGCTAAAAGTC
41490531 ATATAATCCC
Statistics
Matches: 204, Mismatches: 32, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
40 33 0.16
41 170 0.83
42 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (41 bp):
GAGCAATAGCGGCGCTTTTGATAAAACTCCGCTAAAAGTCG
Found at i:41490434 original size:82 final size:82
Alignment explanation
Indices: 41490244--41490530 Score: 292
Period size: 82 Copynumber: 3.5 Consensus size: 82
41490234 TTGTAAAACA
* * * * * * * * * * *
41490244 CAGAGCAATAGCGGCGTTTTTGTTAACATGCCACTAAAA-ACAGAGCAATAGCGACGTTTTTTGT
1 CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCG-CTTCTGA
* * *
41490308 TAAAACACTGCTAAAA-A
65 TAAAACGCCGCTAAAAGT
* ** * * *
41490325 CAGATCAATAGCGGTACTTTTGGTAAAACTCCGCTAAAAGTCGGAGCAATAGCGGCGCTT-TTAG
1 CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTCTGA-
*
41490389 TAAAATGCCGCTAAAAGT
65 TAAAACGCCGCTAAAAGT
* * *
41490407 CAGAGCAATAGCGGCGCTTCTGATAAAACGCCGCTAAAAGTCGGAGCAGTAGTGGCGCTTCTGAT
1 CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTCTGAT
**
41490472 AAAACGTTGCTAAAAGT
66 AAAACGCCGCTAAAAGT
*
41490489 CGGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGTC
1 CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGTC
41490531 ATATAATCCC
Statistics
Matches: 169, Mismatches: 33, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
80 1 0.01
81 45 0.27
82 121 0.72
83 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (82 bp):
CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGCTTCTGAT
AAAACGCCGCTAAAAGT
Found at i:41497572 original size:19 final size:19
Alignment explanation
Indices: 41497550--41497590 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
41497540 TTTATTGATA
41497550 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
41497568 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
41497587 TTTT
1 TTTT
41497591 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:41503200 original size:30 final size:30
Alignment explanation
Indices: 41503166--41503226 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
41503156 TTCCCGAGCC
41503166 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
41503196 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
41503226 T
1 T
41503227 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:41504009 original size:68 final size:67
Alignment explanation
Indices: 41503937--41504086 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
41503927 CATCATGTGT
* * * *
41503937 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
41503999 ATGTAG
62 ATGTAG
** * *
41504005 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
41504070 AG
66 AG
41504072 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
41504087 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:41504042 original size:64 final size:64
Alignment explanation
Indices: 41503961--41504144 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
41503951 AGACATTATG
* *
41503961 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
41504025 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
41504090 AA
63 AA
* * * *
41504092 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
41504145 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41506229 original size:50 final size:50
Alignment explanation
Indices: 41505998--41506232 Score: 269
Period size: 50 Copynumber: 4.7 Consensus size: 50
41505988 AGGTCACGTA
* *
41505998 TGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGTATG
1 TGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATTGTTAGGTCGTATG
* * ** * * *
41506048 TGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAACTTCGATC-AAGTG
1 TGTAGTACTAAGTGCAGGCTACTACGAGTACCAGAT-TGTTAGGTCGTA-TG
* * * * *
41506098 TGCAGTACTAAGTGCAGGCTACTAC-ATGTATCAGATGGTTAGGTCATGTG
1 TGTAGTACTAAGTGCAGGCTACTACGA-GTACCAGATTGTTAGGTCGTATG
* *
41506148 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATTGTTAGGTCGTATG
*
41506198 TGTAGTACTAAGTGCAGGCTACTATGAGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTACGAGTACCAGA
41506233 GAGCTTCGGT
Statistics
Matches: 152, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.03
50 145 0.95
51 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATTGTTAGGTCGTATG
Found at i:41525514 original size:25 final size:25
Alignment explanation
Indices: 41525483--41525536 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
41525473 TGGGTCGTAT
*
41525483 GAGCTTC-CCGTTATATGGCTCAAAA
1 GAGCTTCTCAGTTATAT-GCTCAAAA
* *
41525508 GAGCTTCTCATTTATATGCTCAAAT
1 GAGCTTCTCAGTTATATGCTCAAAA
41525533 GAGC
1 GAGC
41525537 AATCCCGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTCTCAGTTATATGCTCAAAA
Found at i:41529758 original size:25 final size:23
Alignment explanation
Indices: 41529721--41529766 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
41529711 TTTGTTTTAA
*
41529721 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
41529744 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
41529767 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:41536584 original size:39 final size:39
Alignment explanation
Indices: 41536536--41537400 Score: 1712
Period size: 39 Copynumber: 22.2 Consensus size: 39
41536526 CGAAGTTCGA
*
41536536 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536575 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536614 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536653 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536692 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536731 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536770 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536809 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536848 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536887 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536926 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41536965 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537004 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537043 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537082 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537121 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537160 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537199 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537238 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537277 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537316 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
*
41537355 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
41537394 ATATAAT
1 ATATAAT
41537401 CACCATATAT
Statistics
Matches: 824, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 824 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCTGG
Found at i:41557674 original size:54 final size:54
Alignment explanation
Indices: 41557614--41557716 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
41557604 ACGGACCAAT
*
41557614 ATGGGTAAGAGATGGGTAAAGTAGCCTGTTAGTTAGATGGTGGAACCAATTTGC
1 ATGGGTAAGAGATGGGCAAAGTAGCCTGTTAGTTAGATGGTGGAACCAATTTGC
41557668 ATGGGTAAGAGATGGGCAAAGTAGCCTGTTAGTTAGATGGTGGAACCAA
1 ATGGGTAAGAGATGGGCAAAGTAGCCTGTTAGTTAGATGGTGGAACCAA
41557717 ATTGTATAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.31, C:0.10, G:0.34, T:0.25
Consensus pattern (54 bp):
ATGGGTAAGAGATGGGCAAAGTAGCCTGTTAGTTAGATGGTGGAACCAATTTGC
Found at i:41569513 original size:24 final size:23
Alignment explanation
Indices: 41569463--41569567 Score: 95
Period size: 24 Copynumber: 4.5 Consensus size: 23
41569453 GAGACATGGC
* *
41569463 CAGTAAGCTTATAATGAGCTGATAA
1 CAGTAAGCTCA-ATTGAGCTGA-AA
*
41569488 CAGTAAGCTCGATTGAGCTGGAAA
1 CAGTAAGCTCAATTGAGCT-GAAA
* *
41569512 CAGGAAGCTCAATTGAG-TTAAA
1 CAGTAAGCTCAATTGAGCTGAAA
* ** *
41569534 CAATAAGCTCTTTTGAGCTGAAT
1 CAGTAAGCTCAATTGAGCTGAAA
41569557 CAGTAAGCTCA
1 CAGTAAGCTCA
41569568 TATGACTATG
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
22 16 0.25
23 13 0.20
24 24 0.38
25 11 0.17
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (23 bp):
CAGTAAGCTCAATTGAGCTGAAA
Found at i:41571851 original size:22 final size:23
Alignment explanation
Indices: 41571826--41571881 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
41571816 TGTTAAAGTG
41571826 TCTTGAGACATTAAAGTC-CATA
1 TCTTGAGACATTAAAGTCTCATA
* * *
41571848 TCTTAAGAC--TAAAGTCTTCTTG
1 TCTTGAGACATTAAAGTC-TCATA
41571870 TCTTGAGACATT
1 TCTTGAGACATT
41571882 CTTTTCCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 7 0.27
22 18 0.69
24 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (23 bp):
TCTTGAGACATTAAAGTCTCATA
Found at i:41589507 original size:17 final size:17
Alignment explanation
Indices: 41589481--41589517 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
41589471 TTTTTAGAGG
41589481 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
41589498 AAAACGAATGAATCTTA
1 AAAACAAATGAATCTTA
41589515 AAA
1 AAA
41589518 GCTTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:41589749 original size:27 final size:26
Alignment explanation
Indices: 41589716--41589771 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
41589706 GTTCGCTTGT
41589716 CCCACGGGCGTGTAGGTTTTCGCAAG
1 CCCACGGGCGTGTAGGTTTTCGCAAG
*
41589742 CCCNACGGTCGTGTAGGTTTTCGCAAG
1 CCC-ACGGGCGTGTAGGTTTTCGCAAG
41589769 CCC
1 CCC
41589772 GTGTCATTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.23
Consensus pattern (26 bp):
CCCACGGGCGTGTAGGTTTTCGCAAG
Found at i:41621717 original size:27 final size:27
Alignment explanation
Indices: 41621679--41621733 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
41621669 AGTTTATGAC
*
41621679 TAGAAGAAACCTATCAAGACCTCTACT
1 TAGAAGAAACCTAACAAGACCTCTACT
*
41621706 TAGAAGAAACCTAACATGACCTCTACT
1 TAGAAGAAACCTAACAAGACCTCTACT
41621733 T
1 T
41621734 TTTGATAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (27 bp):
TAGAAGAAACCTAACAAGACCTCTACT
Found at i:41626264 original size:6 final size:6
Alignment explanation
Indices: 41626249--41626341 Score: 105
Period size: 6 Copynumber: 15.3 Consensus size: 6
41626239 ATTGAGTCCA
* * *
41626249 TTTATC TTTATG TTTATT TTTATT TTTATT TTTATT TTTATT TTTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * *
41626297 TTGATC TTTAAT TTTATT TTTATG TTTATT TTGTATT TATATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TTTATT TT
41626342 GAACTCTATT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
6 69 0.93
7 5 0.07
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:41630020 original size:18 final size:18
Alignment explanation
Indices: 41629997--41630037 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
41629987 TTCTTATTTC
41629997 TTATTT-CTTATTAGTTTA
1 TTATTTACTTATT-GTTTA
*
41630015 TTATTTATTTATTGTTTA
1 TTATTTACTTATTGTTTA
41630033 TTATT
1 TTATT
41630038 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (18 bp):
TTATTTACTTATTGTTTA
Found at i:41633055 original size:6 final size:5
Alignment explanation
Indices: 41633030--41633090 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 5
41633020 AGTCCATTTC
41633030 TTTTA TTTTA TTTTA TTTTTA GTTTTA GTTTTA TTTCTA TTTTTA TATTTA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA TTT-TA -TTTTA T-TTTA
41633081 TTGTTA TTTT
1 TT-TTA TTTT
41633091 CTTAGACTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
5 17 0.34
6 30 0.60
7 3 0.06
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:41633088 original size:18 final size:16
Alignment explanation
Indices: 41633030--41633090 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 16
41633020 AGTCCATTTC
41633030 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
41633046 TTTTAGTTTTAGTTTTAT
1 TTTTA-TTTTA-TTTTAT
*
41633064 TTCTATTTTTATATTTAT
1 TTTTA-TTTTAT-TTTAT
*
41633082 TGTTATTTT
1 TTTTATTTT
41633091 CTTAGACTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
16 5 0.13
17 10 0.26
18 23 0.61
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:41638797 original size:6 final size:6
Alignment explanation
Indices: 41638757--41638799 Score: 50
Period size: 6 Copynumber: 6.5 Consensus size: 6
41638747 GAAAACCAAA
41638757 AAAAATT AAAAAT AAAATAT AATAAAAT AAAAAT AAAAAT AAA
1 AAAAA-T AAAAAT AAAA-AT -A-AAAAT AAAAAT AAAAAT AAA
41638800 TAATTATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 19 0.58
7 8 0.24
8 3 0.09
9 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:41638802 original size:21 final size:22
Alignment explanation
Indices: 41638758--41638798 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
41638748 AAAACCAAAA
41638758 AAAATTAAAAATAAAATATAAT
1 AAAATTAAAAATAAAATATAAT
41638780 AAAA-TAAAAATAAAA-ATAA
1 AAAATTAAAAATAAAATATAA
41638799 ATAATTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATTAAAAATAAAATATAAT
Found at i:41666480 original size:23 final size:23
Alignment explanation
Indices: 41666454--41666500 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
41666444 AAATTGTAAT
*
41666454 ATATATTTATTATTAATATATTA
1 ATATATTTATTAATAATATATTA
*
41666477 ATATATTTTTTAATAATATATTA
1 ATATATTTATTAATAATATATTA
41666500 A
1 A
41666501 GAATGTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATTTATTAATAATATATTA
Found at i:41672339 original size:23 final size:21
Alignment explanation
Indices: 41672300--41672346 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
41672290 GATGTTAATA
*
41672300 ATTTATGTTATTAAATATGTAT
1 ATTTATGATATTAAATAT-TAT
*
41672322 ATTTAATGATATTGAATATTAT
1 ATTT-ATGATATTAAATATTAT
41672344 ATT
1 ATT
41672347 AATTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
ATTTATGATATTAAATATTAT
Found at i:41674745 original size:20 final size:20
Alignment explanation
Indices: 41674682--41674745 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
41674672 TGTTTATCTA
* * *
41674682 ATTTTTATTTATCTATTTAC
1 ATTTCTATTTATATATTTAT
* *
41674702 ATTTCTGTTTATTATATTTCT
1 ATTTCTATTTA-TATATTTAT
*
41674723 ATTTCTATTTATATATTAAT
1 ATTTCTATTTATATATTTAT
41674743 ATT
1 ATT
41674746 ATTTTCATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTCTATTTATATATTTAT
Found at i:41674758 original size:3 final size:3
Alignment explanation
Indices: 41674731--41674772 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
41674721 CTATTTCTAT
*
41674731 TTA TATA TTA ATA TTA TT- TTCA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT
41674773 TTCACTCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 27 0.79
4 5 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:41674787 original size:24 final size:24
Alignment explanation
Indices: 41674736--41674789 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
41674726 TCTATTTATA
* * *
41674736 TATTAATATTATTTTCATTATTAT
1 TATTATTATTATTTTCACTATTAC
* *
41674760 TATTATTATTATTTTCACTCTTGC
1 TATTATTATTATTTTCACTATTAC
41674784 TATTAT
1 TATTAT
41674790 CATTTTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (24 bp):
TATTATTATTATTTTCACTATTAC
Found at i:41683511 original size:15 final size:15
Alignment explanation
Indices: 41683478--41683517 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
41683468 TTATATCAAC
*
41683478 TAAATA-TTAAATTA
1 TAAATATTTTAATTA
*
41683492 CAAATATTTTAATTA
1 TAAATATTTTAATTA
41683507 TAAATATTTTA
1 TAAATATTTTA
41683518 TCATTTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATATTTTAATTA
Found at i:41685508 original size:24 final size:24
Alignment explanation
Indices: 41685463--41685510 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
41685453 TCTAGTTAAA
* * *
41685463 AAAATATCGAATTATATCAAAATT
1 AAAATATCAAATCAAATCAAAATT
*
41685487 AAAATATCAAATCAAATTAAAATT
1 AAAATATCAAATCAAATCAAAATT
41685511 TAACGTAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAATATCAAATCAAATCAAAATT
Found at i:41687725 original size:28 final size:28
Alignment explanation
Indices: 41687691--41687746 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
41687681 ATCAAAATCA
41687691 TTATAATTGTATTTCCTTTCCTAAATTG
1 TTATAATTGTATTTCCTTTCCTAAATTG
*
41687719 TTATAATTGTATTTCCTTTCCTTAATTG
1 TTATAATTGTATTTCCTTTCCTAAATTG
41687747 ATGAATATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (28 bp):
TTATAATTGTATTTCCTTTCCTAAATTG
Found at i:41688141 original size:18 final size:18
Alignment explanation
Indices: 41688118--41688160 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
41688108 GAATAGGTTT
* *
41688118 TTAATTAAACAAATTTAA
1 TTAATTAAAAAAATTAAA
41688136 TTAATTAAAAAAATTAAA
1 TTAATTAAAAAAATTAAA
41688154 TTAATTA
1 TTAATTA
41688161 CACCTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTAAAAAAATTAAA
Found at i:41693900 original size:7 final size:7
Alignment explanation
Indices: 41693890--41693952 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
41693880 GTTTTTTTGG
41693890 TTAATTT
1 TTAATTT
41693897 TTAA-TT
1 TTAATTT
**
41693903 AAAATTT
1 TTAATTT
41693910 TTAATTTT
1 TTAA-TTT
41693918 TTAATTT
1 TTAATTT
*
41693925 TTTATTT
1 TTAATTT
*
41693932 TTAAATT
1 TTAATTT
*
41693939 ATAATTT
1 TTAATTT
*
41693946 TTTATTT
1 TTAATTT
41693953 ATATAAATAA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
6 4 0.09
7 32 0.74
8 7 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:41693925 original size:15 final size:15
Alignment explanation
Indices: 41693905--41693949 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
41693895 TTTTAATTAA
41693905 AATTTTTAATTTTTT
1 AATTTTTAATTTTTT
*
41693920 AATTTTTTA-TTTTT
1 AATTTTTAATTTTTT
* *
41693934 AAATTATAATTTTTT
1 AATTTTTAATTTTTT
41693949 A
1 A
41693950 TTTATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
AATTTTTAATTTTTT
Found at i:41694765 original size:12 final size:12
Alignment explanation
Indices: 41694732--41694764 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
41694722 AAATATTTGA
41694732 CATAT-AAAAAT
1 CATATAAAAAAT
41694743 CATATAAAAAAT
1 CATATAAAAAAT
41694755 -ATATAAAAAA
1 CATATAAAAAA
41694765 AGTTGATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
CATATAAAAAAT
Found at i:41696093 original size:6 final size:6
Alignment explanation
Indices: 41696084--41696146 Score: 74
Period size: 6 Copynumber: 10.3 Consensus size: 6
41696074 TAATTTAGTC
* *
41696084 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTAAT ATTTCT ATTTCT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT--T ATTTTT ATTTTT ATTTTT
*
41696134 A-TTTA ATTTTT AT
1 ATTTTT ATTTTT AT
41696147 ATTCTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.08
6 41 0.82
8 5 0.10
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:41696118 original size:26 final size:25
Alignment explanation
Indices: 41696089--41696158 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
41696079 TAGTCATTTT
41696089 TATTTTTATTTTTATTTTTATTTTAA
1 TATTTTTATTTTTATTTTTA-TTTAA
* *
41696115 TATTTCTATTTCTATTTTTATTTAA
1 TATTTTTATTTTTATTTTTATTTAA
* *
41696140 T-TTTTATATTCTAATTTTT
1 TATTTT-TATTTTTATTTTT
41696159 TTCGTTTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 3 0.08
25 16 0.43
26 18 0.49
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (25 bp):
TATTTTTATTTTTATTTTTATTTAA
Found at i:41696145 original size:32 final size:31
Alignment explanation
Indices: 41696084--41696149 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
41696074 TAATTTAGTC
* * *
41696084 ATTTTTATTTTTATTTTTATTTTTATTTTAAT
1 ATTTCTATTTCTATTTTTATTTATATTTT-AT
41696116 ATTTCTATTTCTATTTTTATTTA-ATTTTTAT
1 ATTTCTATTTCTATTTTTATTTATA-TTTTAT
41696147 ATT
1 ATT
41696150 CTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 6 0.20
32 24 0.80
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (31 bp):
ATTTCTATTTCTATTTTTATTTATATTTTAT
Found at i:41697772 original size:34 final size:34
Alignment explanation
Indices: 41697733--41697799 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
41697723 CTGAGTTCAG
* *
41697733 AATCAGATATCTCACACAACAGTTGTAACGCCCC
1 AATCAGATATCACACACAACAATTGTAACGCCCC
*
41697767 AATCAGATATCACACACAACAATTGTAATGCCC
1 AATCAGATATCACACACAACAATTGTAACGCCC
41697800 TAAATTTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.30, G:0.10, T:0.21
Consensus pattern (34 bp):
AATCAGATATCACACACAACAATTGTAACGCCCC
Found at i:41709047 original size:7 final size:7
Alignment explanation
Indices: 41709035--41709080 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
41709025 ACTCGAATTA
41709035 TGAACCT
1 TGAACCT
41709042 TGAACCT
1 TGAACCT
*
41709049 TGAGCCT
1 TGAACCT
41709056 TGAACCT
1 TGAACCT
*
41709063 TAAACCT
1 TGAACCT
*
41709070 TGAGCCT
1 TGAACCT
41709077 TGAA
1 TGAA
41709081 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (7 bp):
TGAACCT
Found at i:41709061 original size:21 final size:21
Alignment explanation
Indices: 41709035--41709080 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
41709025 ACTCGAATTA
*
41709035 TGAACCTTGAACCTTGAGCCT
1 TGAACCTTAAACCTTGAGCCT
41709056 TGAACCTTAAACCTTGAGCCT
1 TGAACCTTAAACCTTGAGCCT
41709077 TGAA
1 TGAA
41709081 ATTTAAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (21 bp):
TGAACCTTAAACCTTGAGCCT
Found at i:41709086 original size:21 final size:21
Alignment explanation
Indices: 41709035--41709086 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
41709025 ACTCGAATTA
* *
41709035 TGAACCTTGAACCTTGAGCCT
1 TGAAACTTAAACCTTGAGCCT
*
41709056 TGAACCTTAAACCTTGAGCCT
1 TGAAACTTAAACCTTGAGCCT
*
41709077 TGAAATTTAA
1 TGAAACTTAA
41709087 GGTTTGGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (21 bp):
TGAAACTTAAACCTTGAGCCT
Found at i:41709179 original size:34 final size:34
Alignment explanation
Indices: 41709120--41709207 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
41709110 TTAGGGTTTA
**
41709120 AGGTTTAA-GTTTTGAGTTTGGGGTTTGCGATTAT
1 AGGTTTAAGGTTTTGA-TTTAAGGTTTGCGATTAT
* * * *
41709154 GGGTTTATGGTTTTGATTTAAGGTTTGTGGTTAT
1 AGGTTTAAGGTTTTGATTTAAGGTTTGCGATTAT
41709188 AGGTTTAAGGTTTTGATTTA
1 AGGTTTAAGGTTTTGATTTA
41709208 GGATTCAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
34 38 0.84
35 7 0.16
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (34 bp):
AGGTTTAAGGTTTTGATTTAAGGTTTGCGATTAT
Found at i:41709515 original size:25 final size:25
Alignment explanation
Indices: 41709486--41709553 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
41709476 GCCGTGTGGT
* *
41709486 TGGCCATGTGCGAGACACAGCCGTG
1 TGGCCATGCGCAAGACACAGCCGTG
*
41709511 TGGCCGTGCGCAAGACACAGCCGTG
1 TGGCCATGCGCAAGACACAGCCGTG
*
41709536 TGGCCGTGCGCAAGACAC
1 TGGCCATGCGCAAGACAC
41709554 GACTGTGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.21, C:0.31, G:0.35, T:0.13
Consensus pattern (25 bp):
TGGCCATGCGCAAGACACAGCCGTG
Found at i:41709564 original size:25 final size:25
Alignment explanation
Indices: 41709498--41709553 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
41709488 GCCATGTGCG
41709498 AGACACAGCCGTGTGGCCGTGCGCA
1 AGACACAGCCGTGTGGCCGTGCGCA
41709523 AGACACAGCCGTGTGGCCGTGCGCA
1 AGACACAGCCGTGTGGCCGTGCGCA
41709548 AGACAC
1 AGACAC
41709554 GACTGTGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.32, G:0.34, T:0.11
Consensus pattern (25 bp):
AGACACAGCCGTGTGGCCGTGCGCA
Found at i:41710865 original size:20 final size:19
Alignment explanation
Indices: 41710798--41710871 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
41710788 TCTGTGGTTA
*
41710798 TGGGTTTAGGGTTTTTATT
1 TGGGTTTAGGGTTTTGATT
* *
41710817 TAGAGTTT-GGGGTTTGTAGTT
1 T-GGGTTTAGGGTTTTG-A-TT
41710838 ATGGGTTTAGGGTTTTGATT
1 -TGGGTTTAGGGTTTTGATT
41710858 TGGGGTTTAGGGTT
1 T-GGGTTTAGGGTT
41710872 ATAAGTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
19 8 0.18
20 20 0.45
21 8 0.18
22 8 0.18
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (19 bp):
TGGGTTTAGGGTTTTGATT
Found at i:41710871 original size:41 final size:41
Alignment explanation
Indices: 41710774--41710871 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
41710764 AATATTTAAG
* * * * *
41710774 TTTAGATTTTAAGGTCTGTGGTTATGGGTTTAGGGTTTTTA
1 TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
*
41710815 TTTAGAGTTTGGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
1 TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
* *
41710856 TTTGGGGTTTAGGGTT
1 TTTAGAGTTTAGGGTT
41710872 ATAAGTTTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.14, C:0.01, G:0.35, T:0.50
Consensus pattern (41 bp):
TTTAGAGTTTAGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
Found at i:41710873 original size:34 final size:34
Alignment explanation
Indices: 41710822--41710887 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
41710812 TTATTTAGAG
** *
41710822 TTTGGGGTTTGTAGTTATGGGTTTAGGGTTTTGA
1 TTTGGGGTTTGTAGTTATAAGTTTAAGGTTTTGA
*
41710856 TTTGGGGTTTAG-GGTTATAAGTTTAAGGTTTT
1 TTTGGGGTTT-GTAGTTATAAGTTTAAGGTTTT
41710888 AGTTTAGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (34 bp):
TTTGGGGTTTGTAGTTATAAGTTTAAGGTTTTGA
Found at i:41710982 original size:44 final size:43
Alignment explanation
Indices: 41710860--41710960 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 43
41710850 TTTTGATTTG
* * * * *
41710860 GGGTTTAGGGTTATAAGTT-TAAGGTTTTAG-TTTAGGATTCAA
1 GGGTTCAGGGTTATGAGTTATGA-GTTTAAGATTTAAGATTCAA
*
41710902 GGGTTCAGGGTTATGAGTTATGAGTTTAAGGTTTAAGATTCAA
1 GGGTTCAGGGTTATGAGTTATGAGTTTAAGATTTAAGATTCAA
41710945 GGGTTCAAGGGTTATG
1 GGGTTC-AGGGTTATG
41710961 GGTTCGATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 23 0.45
43 19 0.37
44 9 0.18
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.39
Consensus pattern (43 bp):
GGGTTCAGGGTTATGAGTTATGAGTTTAAGATTTAAGATTCAA
Found at i:41710993 original size:21 final size:21
Alignment explanation
Indices: 41710969--41711010 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41710959 TGGGTTCGAT
41710969 ATTTTAAATTTAAGGTTCAGG
1 ATTTTAAATTTAAGGTTCAGG
* **
41710990 ATTTTAAGTTTGGGGTTCAGG
1 ATTTTAAATTTAAGGTTCAGG
41711011 GTAAAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.43
Consensus pattern (21 bp):
ATTTTAAATTTAAGGTTCAGG
Found at i:41711601 original size:7 final size:7
Alignment explanation
Indices: 41711589--41711616 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
41711579 AGTTAGAAAG
41711589 TTAAAAC
1 TTAAAAC
41711596 TTAAAAC
1 TTAAAAC
41711603 TTAAAAC
1 TTAAAAC
41711610 TTAAAAC
1 TTAAAAC
41711617 ACCTAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAC
Found at i:41717234 original size:39 final size:40
Alignment explanation
Indices: 41717189--41717356 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
41717179 CGGGGTTTAG
* * *
41717189 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
41717228 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
41717268 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
41717308 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
41717349 CCGGATAT
1 CCGGATAT
41717357 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:41717339 original size:41 final size:40
Alignment explanation
Indices: 41717212--41717356 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
41717202 CTCGCACAAG
* * * * *
41717212 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
41717252 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
41717292 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
41717333 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
41717357 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:41720000 original size:3 final size:3
Alignment explanation
Indices: 41719992--41720035 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
41719982 CACGATCCAA
41719992 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
41720036 ATAGAAACGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:41721223 original size:7 final size:7
Alignment explanation
Indices: 41721213--41721237 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41721203 TTTTTTGCCA
41721213 AAAAAAT
1 AAAAAAT
41721220 AAAAAAT
1 AAAAAAT
41721227 AAAAAAT
1 AAAAAAT
41721234 AAAA
1 AAAA
41721238 GATCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:41729005 original size:15 final size:15
Alignment explanation
Indices: 41728985--41729014 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41728975 GAATTTCAAA
*
41728985 TTATTTTTATTATTT
1 TTATTTTTATAATTT
41729000 TTATTTTTATAATTT
1 TTATTTTTATAATTT
41729015 CAAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTTTATAATTT
Found at i:41730908 original size:26 final size:26
Alignment explanation
Indices: 41730879--41730986 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
41730869 TGGTACAAAT
41730879 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
41730905 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
41730931 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
41730957 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
41730983 TGAT
1 TGAT
41730987 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:41731995 original size:27 final size:27
Alignment explanation
Indices: 41731955--41732066 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
41731945 AAGAAGCGTC
*
41731955 CTGGTGGCTTTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
41731982 CCGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
41732009 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
41732037 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
41732063 CTGG
1 CTGG
41732067 CAGCCCTNNN
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 52 0.72
28 15 0.21
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:41732059 original size:54 final size:54
Alignment explanation
Indices: 41731955--41732066 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
41731945 AAGAAGCGTC
* *
41731955 CTGGTGGCTTTGCCACAAATATCTGATCCGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGATCCGGTGACTCTGCCACATATATCTGTT
* * * *
41732009 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTG-ATCCGGTGACTCTGCCACATATATCTGTT
41732063 CTGG
1 CTGG
41732067 CAGCCCTNNN
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACAAATATCTGATCCGGTGACTCTGCCACATATATCTGTT
Found at i:41732865 original size:10 final size:10
Alignment explanation
Indices: 41732846--41732905 Score: 95
Period size: 10 Copynumber: 6.0 Consensus size: 10
41732836 TGAAATTCTA
41732846 AAAGATAAAT
1 AAAGATAAAT
41732856 ACAA-ATAAAT
1 A-AAGATAAAT
*
41732866 AAAGATAATT
1 AAAGATAAAT
41732876 AAAGATAAAT
1 AAAGATAAAT
41732886 AAAGATAAAT
1 AAAGATAAAT
41732896 AAAGATAAAT
1 AAAGATAAAT
41732906 GAAAATGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.04
10 42 0.91
11 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:41733394 original size:38 final size:38
Alignment explanation
Indices: 41733352--41733448 Score: 149
Period size: 40 Copynumber: 2.5 Consensus size: 38
41733342 GATTCACGGG
* * *
41733352 CTAGTGCTGGGCACACATACATTTTTCGGATTCACCAA
1 CTAGTGCAGGGCACACATACATTTGTCGAATTCACCAA
41733390 CTAGTGCAGGGCACACACATACATTTGTCGAATTCACCAA
1 CTAGTGCAGGG--CACACATACATTTGTCGAATTCACCAA
41733430 CTAGTGCAGGGCACACATA
1 CTAGTGCAGGGCACACATA
41733449 TATTCATTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
38 18 0.33
40 36 0.67
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CTAGTGCAGGGCACACATACATTTGTCGAATTCACCAA
Found at i:41733425 original size:40 final size:40
Alignment explanation
Indices: 41733363--41733446 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
41733353 TAGTGCTGGG
* *
41733363 CACACATACATTTTTCGGATTCACCAACTAGTGCAGGGCA
1 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
41733403 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
1 CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
41733443 CACA
1 CACA
41733447 TATATTCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (40 bp):
CACACATACATTTGTCGAATTCACCAACTAGTGCAGGGCA
Found at i:41738066 original size:26 final size:25
Alignment explanation
Indices: 41738032--41738080 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
41738022 CTAATTTATA
*
41738032 TATTATTATTCTATGTGATTTATTGT
1 TATTATTATTCT-TATGATTTATTGT
*
41738058 TATTGTTATTCTTATGATTTATT
1 TATTATTATTCTTATGATTTATT
41738081 TCAAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.63
Consensus pattern (25 bp):
TATTATTATTCTTATGATTTATTGT
Found at i:41738142 original size:27 final size:28
Alignment explanation
Indices: 41738070--41738147 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 28
41738060 TTGTTATTCT
* * *
41738070 TATG-ATTTAT-TTCAAATTTTTATATG
1 TATGAATTTATCTTTAAATGTTTATATA
41738096 TATGAA-TTA-CTTTAAA-GTTTATATA
1 TATGAATTTATCTTTAAATGTTTATATA
41738121 TAT-AATTTATCTTTAAATGTTT-TATA
1 TATGAATTTATCTTTAAATGTTTATATA
41738147 T
1 T
41738148 CTTATCAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
24 2 0.05
25 13 0.30
26 24 0.55
27 5 0.11
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (28 bp):
TATGAATTTATCTTTAAATGTTTATATA
Found at i:41750943 original size:16 final size:16
Alignment explanation
Indices: 41750924--41750954 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41750914 TATCATGTAA
41750924 TTTACATAATTAAAAT
1 TTTACATAATTAAAAT
*
41750940 TTTACATTATTAAAA
1 TTTACATAATTAAAA
41750955 AATTTAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTACATAATTAAAAT
Found at i:41750964 original size:16 final size:16
Alignment explanation
Indices: 41750922--41750964 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
41750912 TGTATCATGT
*
41750922 AATTTACATAATTAAA
1 AATTTACATTATTAAA
*
41750938 ATTTTACATTATTAAAA
1 AATTTACATTATT-AAA
41750955 AATTTA-ATTA
1 AATTTACATTA
41750965 ATTTATTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTACATTATTAAA
Found at i:41751148 original size:29 final size:30
Alignment explanation
Indices: 41751109--41751167 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
41751099 TTTAGTTTAA
*
41751109 TGTGCAATTTTATATATG-AACTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
* *
41751138 TGTGCATTTTTATACATGAAATTTTGATTT
1 TGTGCAATTTTATACATGAAACTTTGATTT
41751168 GATCCAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGCAATTTTATACATGAAACTTTGATTT
Found at i:41752242 original size:12 final size:12
Alignment explanation
Indices: 41752225--41752249 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41752215 GTTGAGGATT
41752225 AAATTTATTAAA
1 AAATTTATTAAA
41752237 AAATTTATTAAA
1 AAATTTATTAAA
41752249 A
1 A
41752250 TGTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTATTAAA
Found at i:41753830 original size:49 final size:50
Alignment explanation
Indices: 41753763--41753863 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
41753753 TTTAGTTATT
* * * * *
41753763 TTAGTTTAATTAATTAAGTTG-TTTTAATAGTCTTTAGTTATTTAAATAA
1 TTAGTTGAACTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
* * *
41753812 TTAGTTGAACTAACTAAGTTGTTTTTAGTTCTCTTTAGTTGCTTAAATAA
1 TTAGTTGAACTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
41753862 TT
1 TT
41753864 TCGGCAATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 18 0.42
50 25 0.58
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (50 bp):
TTAGTTGAACTAACTAAGTTGTTTTTAATACTCTTTAGTTACTTAAATAA
Found at i:41753936 original size:16 final size:17
Alignment explanation
Indices: 41753906--41753937 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41753896 TTGCTACAGC
41753906 CATTTAACTTGTTTAAA
1 CATTTAACTTGTTTAAA
41753923 CATTTAAC-TGTTTAA
1 CATTTAACTTGTTTAA
41753938 TTGTGCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CATTTAACTTGTTTAAA
Found at i:41756066 original size:6 final size:6
Alignment explanation
Indices: 41756046--41756107 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
41756036 ATAGAGCTTG
* ***
41756046 AAAG-A AAAGAG AAAGAA AAAGAA AAAGAA TGTGAA AAAG-A AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
41756092 AATTGAA AAAGAA AAA
1 AA-AGAA AAAGAA AAA
41756108 AAGATTGAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
5 9 0.20
6 30 0.68
7 5 0.11
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:41756071 original size:18 final size:16
Alignment explanation
Indices: 41756046--41756129 Score: 62
Period size: 18 Copynumber: 4.8 Consensus size: 16
41756036 ATAGAGCTTG
41756046 AAAGAAAAGAGAAAGAA
1 AAAGAAAAGA-AAAGAA
**
41756063 AAAGAAAAAGAATGTGAA
1 AAAG-AAAAGAA-AAGAA
41756081 AAAGAAAAGAAAATTGAA
1 AAAGAAAAGAAAA--GAA
41756099 AAAGAAAA-AAAGATTGAA
1 AAAGAAAAGAAA-A--GAA
41756117 GAAAGAAAAGAAA
1 -AAAGAAAAGAAA
41756130 GAGTACGAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
17 15 0.27
18 30 0.54
19 8 0.14
20 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (16 bp):
AAAGAAAAGAAAAGAA
Found at i:41756119 original size:33 final size:34
Alignment explanation
Indices: 41755981--41756125 Score: 101
Period size: 36 Copynumber: 4.3 Consensus size: 34
41755971 GGAAGCGAGA
* * *
41755981 AAAAG-AAATTGATAGAAGAAAAAAAGAAATGATTAG
1 AAAAGAAAATTGA-AAAAGAAAAAAAG-ATTGA-AAG
*
41756017 AAAAG-AAATTG--AAAGAAAAATAGAGCTTGAAAG
1 AAAAGAAAATTGAAAAAGAAAAA-A-AGATTGAAAG
*
41756050 AAAAGAGAAA--GAAAAAGAAAAAGA-ATGTGAAAAAG
1 AAAAGA-AAATTGAAAAAGAAAAAAAGAT-TG--AAAG
41756085 AAAAGAAAATTGAAAAAGAAAAAAAGATTG-AAG
1 AAAAGAAAATTGAAAAAGAAAAAAAGATTGAAAG
41756118 -AAAGAAAA
1 AAAAGAAAA
41756126 GAAAGAGTAC
Statistics
Matches: 90, Mismatches: 7, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
32 9 0.10
33 22 0.24
34 7 0.08
35 24 0.27
36 26 0.29
37 2 0.02
ACGTcount: A:0.68, C:0.01, G:0.20, T:0.12
Consensus pattern (34 bp):
AAAAGAAAATTGAAAAAGAAAAAAAGATTGAAAG
Found at i:41757862 original size:48 final size:49
Alignment explanation
Indices: 41757809--41757902 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
41757799 TTTAGTTATT
* * *
41757809 TTAGTTTAATTAATTAAGTTG-TTTTAATTGTCTTTAGTTGTTTAAGTA
1 TTAGTTTAATTAATCAAGTTGTTTTTAATTCTCTTTAGTTGCTTAAGTA
41757857 TTAGTTTAATTAATCAAGTTGTTTTTAATTCTCTTTAGTTGCTTAA
1 TTAGTTTAATTAATCAAGTTGTTTTTAATTCTCTTTAGTTGCTTAA
41757903 ATAATTTCGG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 20 0.48
49 22 0.52
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (49 bp):
TTAGTTTAATTAATCAAGTTGTTTTTAATTCTCTTTAGTTGCTTAAGTA
Found at i:41758083 original size:30 final size:30
Alignment explanation
Indices: 41758047--41758104 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
41758037 AAAGGGAGAA
41758047 ATGAATTAAA-GACCAACAGCTGTTATGAAG
1 ATGAATTAAATG-CCAACAGCTGTTATGAAG
**
41758077 ATGAATTAAATGCCAGTAGCTGTTATGA
1 ATGAATTAAATGCCAACAGCTGTTATGA
41758105 GCTTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (30 bp):
ATGAATTAAATGCCAACAGCTGTTATGAAG
Found at i:41759816 original size:640 final size:647
Alignment explanation
Indices: 41758629--41761261 Score: 3301
Period size: 640 Copynumber: 4.0 Consensus size: 647
41758619 ATTGAAATCT
41758629 CTTTCTAATTAAAACCCTTATTGTCGCATTA-ATTCGATCTATGGACCCCCTTATTAGATTTGAC
1 CTTTCTAATTAAAACCCTTATTGTCGCATTACATTCGATCTATGGACCCCCTTATTAGATTTGAC
41758693 TCTAATCTAGTAGATTTATGTCGTCCTATCTCTAGGATTGCATGCAACTCCACTTAATTATGGAA
66 TCTAATCTAGTAGATTTATGTCGT-CTATCTCTAGGATTGCATGCAACTCCACTTAATTATGGAA
41758758 GATCTACTCTTAAACAGGGACTTTTACTCCACTGAATAAGCATATTAGACTTGAATTAATATCCT
130 GATCTACTCTTAAACAGGGACTTTTACTCCACTGAATAAGCATATTAGACTTGAATTAATATCCT
41758823 GAAATATTAAAGTAAAAATTAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATT
195 GAAATATTAAAGTAAAAATTAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATT
41758888 CAAATAGTAACAAGATCTATCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAA
260 CAAATAGTAACAAGATCTATCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAA
41758953 TGATAGGGGAAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTA
325 TGATAGGGGAAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTA
41759018 AGGAAATTGAATGGAGATCTTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTA
390 AGGAAATTGAATGGAGATCTTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTA
41759083 CCTTCGAGTATTTCCTACTTTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATAT
455 CCTTCGAGTATTTCCTACTTTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATAT
41759148 AGACTTTAGAATGCTTCAAAACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCG
520 AGACTTTAGAATGCTTCAAAACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCG
*
41759213 ACAGGGACACGACCATGTGCCAT-AACAACTG-A-CT-CT-AAG-TTGAT-TAA-T-TGAAATCT
585 ACAGGGACACGACCATGTGCCATGAACAACTGAAGCTGCTCAAGCGTG-TGTAATTCTG-AAT-T
41759269 -
647 G
41759269 CTTTCTAATTAAAACCCTTATTGTCGCATTA-ATTCGATCTATGGACCCCCTTATTAGATTTGAC
1 CTTTCTAATTAAAACCCTTATTGTCGCATTACATTCGATCTATGGACCCCCTTATTAGATTTGAC
41759333 TCTAATCTAGTAGATTTATGTCGTCCTATCTCTAGGATTGCATGCAACTCCACTTAATTATGGAA
66 TCTAATCTAGTAGATTTATGTCGT-CTATCTCTAGGATTGCATGCAACTCCACTTAATTATGGAA
41759398 GATCTACTCTTAAACAGGGACTTTTACTCCACTGAATAAGCATATTAGACTTGAATTAATATCCT
130 GATCTACTCTTAAACAGGGACTTTTACTCCACTGAATAAGCATATTAGACTTGAATTAATATCCT
41759463 GAAATATTAAAGTAAAAATTAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATT
195 GAAATATTAAAGTAAAAATTAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATT
41759528 CAAATAGTAACAAGATCTATCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAA
260 CAAATAGTAACAAGATCTATCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAA
41759593 TGATAGGGGAAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTA
325 TGATAGGGGAAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTA
41759658 AGGAAATTGAATGGAGATCTTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTA
390 AGGAAATTGAATGGAGATCTTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTA
41759723 CCTTCGAGTATTTCCTACTTTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATAT
455 CCTTCGAGTATTTCCTACTTTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATAT
41759788 AGACTTTAGAATGCTTCAAAACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCG
520 AGACTTTAGAATGCTTCAAAACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCG
** *** * *
41759853 ACAGGGACACGACCATGTGCCATGCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTG
585 ACAGGGACACGACCATGTGCCATGAACAACTGAAGCTGCTCAAG-CGTGTGTAATTCTGAATTG
* * * * * * * ** ** *
41759917 GTTTTTAGTTGACACGATCATTACACGGGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTG
1 CTTTCTAATT-A-A-AACCCTT--A----T-TGTCG-C-A------T-T-ACATTCGATC-TATG
* * * * ** * * **** * ** *
41759982 GATTACCCGTGTGGAACT-GCCTAGGACATGTGAAATACTGAATTAGGCCCACT-TTGTCCGTTT
45 GA--CCCCCT-T---ATTAG-ATTTGAC-TCT--AAT-CT--AGTAGATTTA-TGTCGTCTATCT
* *
41760045 TTGGCAGATTGCATGCAACTCCACTTAATTATGGAAGATCTACTCTTAAACAGGGACTTTTACTC
96 CTAG--GATTGCATGCAACTCCACTTAATTATGGAAGATCTACTCTTAAACAGGGACTTTTACTC
41760110 CACTGAATAAGCATATTAGACTTGAATTAATATCCTGAAATATTAAAGTAAAAATTAAGAACACA
159 CACTGAATAAGCATATTAGACTTGAATTAATATCCTGAAATATTAAAGTAAAAATTAAGAACACA
41760175 TAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGGTTT
224 TAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGGTTT
41760240 CATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTGGGA
289 CATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTGGGA
41760305 AAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATCTTG
354 AAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATCTTG
41760370 AAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACTCTA
419 AAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACTCTA
41760435 CGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTAAAA
484 CGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTAAAA
** **
41760500 ATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGCCCGT
549 ATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGAACAA
* * *
41760565 GTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTG
614 CTGAAGCTGCTCAAG-CGTGTGTAATTCTGAATTG
* * * * * * * * * * * * * ***
41760600 GTTTTTAGTT--GACAC-GA---T--CATTACA--CGGGTGTGTGGTCTACCCGT-GT-G-TCAC
1 CTTTCTAATTAAAACCCTTATTGTCGCATTACATTC-GATCTATGGAC-CCCCTTATTAGATTTG
* *** * * ** * * * *
41760652 ACAC-GGGCGT-GTGGA-TTACCCGT-GTGGAACTGCCTAGGACATGTGAAATACTGAATTAGGC
64 ACTCTAATC-TAGTAGATTTA--TGTCGTCTATCT--CTAGG--AT-TG-CATGC--AACT----
** * * * * *** ** * *
41760713 CCACTTTGTCCGTTTTTGGCACGTTTCTTGCTCTT--TTTGCTA-TCCTAAGCTCTC-CTGAGTA
114 CCAC--T-T--AATTATGG-AAG-ATC-TACTCTTAAACAGGGACT-TTTA-CTC-CACTGA--A
* * * * * * **
41760774 TAAAACATGAAATTAAAGGA-TTAGGAGCATCAA-ATTCATTAAATCTT-ATGCT-AAACCTAAG
166 T-AAGCAT---ATT--A-GACTT--GA--ATTAATA-TCCTGAAATATTAAAG-TAAAAATTAAG
41760835 AACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTT
218 AACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTT
41760900 AGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAA
283 AGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAA
41760965 TTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCA
348 TTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCA
41761030 ATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCT
413 ATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCT
41761095 ACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACC
478 ACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACC
41761160 CTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCAT
543 CTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCAT
** *** *
41761225 GCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGA
608 GAACAACTGAAGCTGCTCAAG-CGTGTGTAATTCTGA
41761262 GTTGGTTTTT
Statistics
Matches: 1806, Mismatches: 95, Indels: 158
0.88 0.05 0.08
Matches are distributed among these distances:
637 1 0.00
638 7 0.00
639 1 0.00
640 612 0.34
641 6 0.00
642 4 0.00
643 1 0.00
644 5 0.00
645 6 0.00
646 1 0.00
647 8 0.00
648 14 0.01
649 3 0.00
650 2 0.00
651 6 0.00
652 2 0.00
653 13 0.01
654 8 0.00
655 12 0.01
656 8 0.00
657 4 0.00
658 9 0.00
659 1 0.00
660 1 0.00
661 3 0.00
663 4 0.00
664 3 0.00
665 2 0.00
666 438 0.24
667 16 0.01
668 1 0.00
669 4 0.00
670 5 0.00
672 4 0.00
673 1 0.00
675 2 0.00
676 6 0.00
677 2 0.00
678 2 0.00
679 3 0.00
680 2 0.00
681 5 0.00
682 8 0.00
683 560 0.31
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (647 bp):
CTTTCTAATTAAAACCCTTATTGTCGCATTACATTCGATCTATGGACCCCCTTATTAGATTTGAC
TCTAATCTAGTAGATTTATGTCGTCTATCTCTAGGATTGCATGCAACTCCACTTAATTATGGAAG
ATCTACTCTTAAACAGGGACTTTTACTCCACTGAATAAGCATATTAGACTTGAATTAATATCCTG
AAATATTAAAGTAAAAATTAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTC
AAATAGTAACAAGATCTATCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAAT
GATAGGGGAAAACATCTCAAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAA
GGAAATTGAATGGAGATCTTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTAC
CTTCGAGTATTTCCTACTTTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATA
GACTTTAGAATGCTTCAAAACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGA
CAGGGACACGACCATGTGCCATGAACAACTGAAGCTGCTCAAGCGTGTGTAATTCTGAATTG
Found at i:41760673 original size:683 final size:684
Alignment explanation
Indices: 41759368--41761401 Score: 3611
Period size: 683 Copynumber: 3.0 Consensus size: 684
41759358 CTATCTCTAG
41759368 GATTGCATGCAACTCCACTTAATTATGGAAGATCTACTCTTAAACAGGGACTTTTACTCCACTGA
1 GATTGCATGCAACTCCACTTAATTATGGAAGATCTACTCTTAAACAGGGACTTTTACTCCACTGA
41759433 ATAAGCATATTAGACTTGAATTAATATCCTGAAATATTAAAGTAAAAATTAAGAACACATAATTA
66 ATAAGCATATTAGACTTGAATTAATATCCTGAAATATTAAAGTAAAAATTAAGAACACATAATTA
41759498 AGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGGTTTCATCTC
131 AGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGGTTTCATCTC
41759563 CCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTGGGAAAACAA
196 CCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTGGGAAAACAA
41759628 CAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATCTTGAAGTAG
261 CAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATCTTGAAGTAG
41759693 ATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACTCTACGTGTC
326 ATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACTCTACGTGTC
41759758 CCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTAAAAATTAGC
391 CCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTAAAAATTAGC
41759823 CTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGCCCGTGTGAAG
456 CTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGCCCGTGTGAAG
41759888 GTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCATTACACGGGTGTGTGG
521 GTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCATTACACGGGTGTGTGG
41759953 TCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGCCTAGGACATGTGAAAT
586 TCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGCCTAGGACATGTGAAAT
41760018 ACTGAATTAGGCCCACTTTGTCCGTTTTTGGCA-
651 ACTGAATTAGGCCCACTTTGTCCGTTTTTGGCAC
41760051 GATTGCATGCAACTCCACTTAATTATGGAAGATCTACTCTTAAACAGGGACTTTTACTCCACTGA
1 GATTGCATGCAACTCCACTTAATTATGGAAGATCTACTCTTAAACAGGGACTTTTACTCCACTGA
41760116 ATAAGCATATTAGACTTGAATTAATATCCTGAAATATTAAAGTAAAAATTAAGAACACATAATTA
66 ATAAGCATATTAGACTTGAATTAATATCCTGAAATATTAAAGTAAAAATTAAGAACACATAATTA
41760181 AGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGGTTTCATCTC
131 AGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGGTTTCATCTC
41760246 CCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTGGGAAAACAA
196 CCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTGGGAAAACAA
41760311 CAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATCTTGAAGTAG
261 CAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATCTTGAAGTAG
41760376 ATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACTCTACGTGTC
326 ATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACTCTACGTGTC
41760441 CCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTAAAAATTAGC
391 CCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTAAAAATTAGC
41760506 CTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGCCCGTGTGAAG
456 CTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGCCCGTGTGAAG
41760571 GTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCATTACACGGGTGTGTGG
521 GTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCATTACACGGGTGTGTGG
41760636 TCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGCCTAGGACATGTGAAAT
586 TCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGCCTAGGACATGTGAAAT
41760701 ACTGAATTAGGCCCACTTTGTCCGTTTTTGGCAC
651 ACTGAATTAGGCCCACTTTGTCCGTTTTTGGCAC
* * ** ** * * ***
41760735 G-TTTCTTG---CT---CTT--TT-T-G-CTATCCTAAGCTC-T---C-CTGA-GTATAAAACA-
1 GATTGCATGCAACTCCACTTAATTATGGAAGAT-CT-A-CTCTTAAACAGGGACTTTTACTCCAC
* * * * * * * **
41760781 TGAAATTAA--AGGATTAGGA---GCATCAA-ATTCATTAAATCTT-ATGCT-AAACCTAAGAAC
63 TG-AA-TAAGCA-TATTA-GACTTGAATTAATA-TCCTGAAATATTAAAG-TAAAAATTAAGAAC
41760838 ACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGG
122 ACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGG
41760903 TTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTG
187 TTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTG
41760968 GGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATC
252 GGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATC
41761033 TTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACT
317 TTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACT
41761098 CTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTA
382 CTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTA
41761163 AAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGCC
447 AAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGCC
41761228 CGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCATTACACG
512 CGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCATTACACG
41761293 GGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGCCTAGGAC
577 GGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGCCTAGGAC
41761358 ATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCAC
642 ATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCAC
41761401 G
1 G
41761402 TTTCTTGCTC
Statistics
Matches: 1321, Mismatches: 20, Indels: 37
0.96 0.01 0.03
Matches are distributed among these distances:
666 577 0.44
667 15 0.01
668 3 0.00
669 11 0.01
670 7 0.01
671 1 0.00
672 2 0.00
673 3 0.00
674 3 0.00
675 5 0.00
677 3 0.00
680 2 0.00
683 688 0.52
684 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (684 bp):
GATTGCATGCAACTCCACTTAATTATGGAAGATCTACTCTTAAACAGGGACTTTTACTCCACTGA
ATAAGCATATTAGACTTGAATTAATATCCTGAAATATTAAAGTAAAAATTAAGAACACATAATTA
AGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTATCTTAGGTTTCATCTC
CCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTCAAAATTGGGAAAACAA
CAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATCTTCAATCTTGAAGTAG
ATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACTTTCTACTCTACGTGTC
CCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAAAACCCTAAAAATTAGC
CTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTGCCATGCCCGTGTGAAG
GTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCATTACACGGGTGTGTGG
TCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGCCTAGGACATGTGAAAT
ACTGAATTAGGCCCACTTTGTCCGTTTTTGGCAC
Done.