Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 253 of 279
Found at i:82396491 original size:18 final size:19
Alignment explanation
Indices: 82396457--82396493 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
82396447 ACTAACGTGA
82396457 AGGAAAAAGTGGAGAAAGT
1 AGGAAAAAGTGGAGAAAGT
*
82396476 AGGAAAAA-TGGGGAAAGT
1 AGGAAAAAGTGGAGAAAGT
82396494 GAAAAGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.38, T:0.11
Consensus pattern (19 bp):
AGGAAAAAGTGGAGAAAGT
Found at i:82405497 original size:17 final size:17
Alignment explanation
Indices: 82405451--82405501 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
82405441 CTCTAAACCC
82405451 AAAATAAAAACCCTAAT
1 AAAATAAAAACCCTAAT
**
82405468 AAAA-ACTCTAACCCTAAT
1 AAAATA--AAAACCCTAAT
82405486 AAAATAAAAACCCTAA
1 AAAATAAAAACCCTAA
82405502 CCCTGGAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 1 0.04
17 12 0.44
18 13 0.48
19 1 0.04
ACGTcount: A:0.61, C:0.22, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAAACCCTAAT
Found at i:82409582 original size:70 final size:70
Alignment explanation
Indices: 82409498--82409638 Score: 255
Period size: 70 Copynumber: 2.0 Consensus size: 70
82409488 GAATGCTTAG
* *
82409498 TAAGCTTGTATAAACTTTAAAATGCAATAATTTATTTCAATAAGAACTTTATAAGTTGTAAATAA
1 TAAGCTCGTATAAACTTTAAAATGCAATAATCTATTTCAATAAGAACTTTATAAGTTGTAAATAA
82409563 CCATA
66 CCATA
*
82409568 TAAGCTCGTATAAACTTTAAAATGCAATAATCTATTTCAATAAGAACTTTATATGTTGTAAATAA
1 TAAGCTCGTATAAACTTTAAAATGCAATAATCTATTTCAATAAGAACTTTATAAGTTGTAAATAA
82409633 CCATA
66 CCATA
82409638 T
1 T
82409639 GTCAATGCCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (70 bp):
TAAGCTCGTATAAACTTTAAAATGCAATAATCTATTTCAATAAGAACTTTATAAGTTGTAAATAA
CCATA
Found at i:82409616 original size:32 final size:32
Alignment explanation
Indices: 82409510--82409618 Score: 78
Period size: 32 Copynumber: 3.2 Consensus size: 32
82409500 AGCTTGTATA
*
82409510 AACTTTAAAATGCAATAATTTATTTCAATAAG
1 AACTTTAAAATGCAATAATCTATTTCAATAAG
* * * * *
82409542 AACTTTATAAGTTGTAAATAACCATATAAGCTC-GTATA-
1 AACTTTA-AA-ATG-CAATAATC-TAT---TTCAATA-AG
82409580 AACTTTAAAATGCAATAATCTATTTCAATAAG
1 AACTTTAAAATGCAATAATCTATTTCAATAAG
82409612 AACTTTA
1 AACTTTA
82409619 TATGTTGTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 20
0.64 0.13 0.23
Matches are distributed among these distances:
31 3 0.05
32 16 0.29
33 2 0.04
34 5 0.09
35 11 0.20
36 5 0.09
37 2 0.04
38 9 0.16
39 3 0.05
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (32 bp):
AACTTTAAAATGCAATAATCTATTTCAATAAG
Found at i:82410505 original size:22 final size:23
Alignment explanation
Indices: 82410480--82410525 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
82410470 CAACCAAACC
82410480 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
82410502 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
82410525 A
1 A
82410526 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:82413623 original size:40 final size:40
Alignment explanation
Indices: 82413554--82413650 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
82413544 ATCAAAGTGC
* *
82413554 AACAGGGGCACAGATA-TGCATTCAGGGGTATCGAAGTACA
1 AACAGGGGCACATA-AGTGCATTCAAGGGTATCGAAGTACA
82413594 AACAGGGGCACATAAGTGCAATT-AAGGGTATCGAAGTACA
1 AACAGGGGCACATAAGTGC-ATTCAAGGGTATCGAAGTACA
* *
82413634 AATAGGGGCACGTAAGT
1 AACAGGGGCACATAAGT
82413651 ACAAACAGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 47 0.92
41 3 0.06
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.18
Consensus pattern (40 bp):
AACAGGGGCACATAAGTGCATTCAAGGGTATCGAAGTACA
Found at i:82413669 original size:20 final size:20
Alignment explanation
Indices: 82413587--82413670 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
82413577 AGGGGTATCG
82413587 AAGTACAAACAGGGGCACAT
1 AAGTACAAACAGGGGCACAT
* ** * * *
82413607 AAGTGCAATTAAGGGTATC-G
1 AAGTACAAACAGGGGCA-CAT
* *
82413627 AAGTACAAATAGGGGCACGT
1 AAGTACAAACAGGGGCACAT
82413647 AAGTACAAACAGGGGCACAT
1 AAGTACAAACAGGGGCACAT
82413667 AAGT
1 AAGT
82413671 GCAATAATTC
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (20 bp):
AAGTACAAACAGGGGCACAT
Found at i:82417505 original size:34 final size:35
Alignment explanation
Indices: 82417462--82417530 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
82417452 CATGACTGAC
** *
82417462 ACTGATACTGTGATGGGCTAAGGCCCAA-ACTGTT
1 ACTGATACTGAAAAGGGCTAAGGCCCAAGACTGTT
*
82417496 ACTGATACTGAAAAGGGCTTAGGCCCAAGACTGTT
1 ACTGATACTGAAAAGGGCTAAGGCCCAAGACTGTT
82417531 TTAACTATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 24 0.80
35 6 0.20
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (35 bp):
ACTGATACTGAAAAGGGCTAAGGCCCAAGACTGTT
Found at i:82439496 original size:14 final size:15
Alignment explanation
Indices: 82439468--82439496 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82439458 ACTATAACAG
82439468 AAAGAAAAGAAGAAA
1 AAAGAAAAGAAGAAA
82439483 AAAGAAAA-AAGAAA
1 AAAGAAAAGAAGAAA
82439497 TGGGAGAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAGAAA
Found at i:82439548 original size:6 final size:6
Alignment explanation
Indices: 82439539--82439563 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
82439529 GAAAGGAAGG
82439539 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
82439564 TTAAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:82439746 original size:28 final size:28
Alignment explanation
Indices: 82439714--82439771 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
82439704 ATAGATTTAC
82439714 ATAGAATTAACTTGAAGTCAATGGCTCA
1 ATAGAATTAACTTGAAGTCAATGGCTCA
82439742 ATAGAATTAACTTGAAGTCAATGGCTCA
1 ATAGAATTAACTTGAAGTCAATGGCTCA
82439770 AT
1 AT
82439772 TGCATAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (28 bp):
ATAGAATTAACTTGAAGTCAATGGCTCA
Found at i:82449360 original size:3 final size:3
Alignment explanation
Indices: 82449352--82449376 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
82449342 ACGATGGTGT
82449352 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
82449377 GAGGCTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:82451041 original size:9 final size:9
Alignment explanation
Indices: 82451027--82451051 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
82451017 ATTATTAATT
82451027 ATTAATTTA
1 ATTAATTTA
82451036 ATTAATTTA
1 ATTAATTTA
82451045 ATTAATT
1 ATTAATT
82451052 GAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTAATTTA
Found at i:82451934 original size:23 final size:24
Alignment explanation
Indices: 82451884--82451945 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
82451874 GCGTTGAATC
82451884 AAATATAACATGCAT-ATAGCATG
1 AAATATAACATGCATAATAGCATG
*
82451907 GAATATAACATGCATAAATAGC-T-
1 AAATATAACATGCAT-AATAGCATG
*
82451930 AAATATAACACGCATA
1 AAATATAACATGCATA
82451946 GAGCATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 1 0.03
23 27 0.79
24 1 0.03
25 5 0.15
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (24 bp):
AAATATAACATGCATAATAGCATG
Found at i:82455493 original size:27 final size:26
Alignment explanation
Indices: 82455416--82455497 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
82455406 ACAGTCCATA
* * *
82455416 CAGAATTCACCATAAAGGCTCTTCTTC
1 CAGAGTTCGCCATAAAGGCT-TTCTTT
* *
82455443 CAGAGTTCTCCAAAAAGGCTTTTCTTT
1 CAGAGTTCGCCATAAAGGC-TTTCTTT
*
82455470 TAGAGTTCGCCATAAAGGTCTTTCTTT
1 CAGAGTTCGCCATAAAGG-CTTTCTTT
82455497 C
1 C
82455498 TTGACGTGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (26 bp):
CAGAGTTCGCCATAAAGGCTTTCTTT
Found at i:82459225 original size:114 final size:113
Alignment explanation
Indices: 82459034--82459245 Score: 266
Period size: 114 Copynumber: 1.9 Consensus size: 113
82459024 CTTGGACAAA
* *
82459034 GCCAAGCACACACCCGTATGGCTCAAAACCCTCACAGGGCCTAGACACACACCCATGTCCCTGGC
1 GCCAAGCACACACCCGTATGGCTCAAAACCCTCACACGGCCTAGAAACACACCCATGTCCCTGGC
* *
82459099 TCATATGACCCTAAATCTAAAACGGTGAGTTACGTGGCCTAGAACACG
66 TCATATGACCCTAAATCCAAAACAGTGAGTTACGTGGCCTAGAACACG
* * * * * * * *
82459147 GCCAAGCACACATCCGTGTGGTTTAAACCCCCTCACACGGCCTAGAAACACGCCCCTGTCCTTGG
1 GCCAAGCACACACCCGTATGGCTCAAA-ACCCTCACACGGCCTAGAAACACACCCATGTCCCTGG
*
82459212 -TCCGA-ATGGCCCTAAATCCAAAACAGTGAGTTAC
65 CT-C-ATATGACCCTAAATCCAAAACAGTGAGTTAC
82459246 ACAACCTGGA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
113 24 0.29
114 58 0.70
115 1 0.01
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (113 bp):
GCCAAGCACACACCCGTATGGCTCAAAACCCTCACACGGCCTAGAAACACACCCATGTCCCTGGC
TCATATGACCCTAAATCCAAAACAGTGAGTTACGTGGCCTAGAACACG
Found at i:82464065 original size:47 final size:47
Alignment explanation
Indices: 82463941--82464065 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 47
82463931 GTGCGAATAA
* * * ** *
82463941 TACCTTGATTTGGCTACGAGCCATGATATAAGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCGAGAGAAGT
* * * *
82463988 TACCTTAATTTGGCTAAGGGCCATGGTATAGGTATTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCGAGAGAAGT
*
82464035 TTCCTTGATTTGGCTACGGGCCATGGTATAG
1 TACCTTGATTTGGCTACGGGCCATGGTATAG
82464066 ATACTTATCG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCGAGAGAAGT
Found at i:82467478 original size:19 final size:20
Alignment explanation
Indices: 82467451--82467488 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
82467441 TATTATCTAT
82467451 AATTACAAAATTTA-ACATC
1 AATTACAAAATTTATACATC
*
82467470 AATTTCAAAATTTATACAT
1 AATTACAAAATTTATACAT
82467489 TTTAGTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTACAAAATTTATACATC
Found at i:82468778 original size:20 final size:18
Alignment explanation
Indices: 82468732--82468840 Score: 59
Period size: 18 Copynumber: 5.9 Consensus size: 18
82468722 AGAATTTTAG
82468732 AATTTTTATATTTTTAAT
1 AATTTTTATATTTTTAAT
*
82468750 AATTATTATATATATTTAA-
1 AATT-TT-TATATTTTTAAT
*
82468769 ATATTTTTAT-TTTTCAA-
1 A-ATTTTTATATTTTTAAT
*
82468786 ACATTAGTTATA-TTTT-AT
1 A-ATT-TTTATATTTTTAAT
*
82468804 AATTGGTTTA-ATTATTAAT
1 AATT--TTTATATTTTTAAT
*
82468823 AAATTTTATAATTTTTAA
1 AATTTTTAT-ATTTTTAA
82468841 AAAAATTATT
Statistics
Matches: 69, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
17 18 0.26
18 21 0.30
19 17 0.25
20 13 0.19
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (18 bp):
AATTTTTATATTTTTAAT
Found at i:82469720 original size:33 final size:33
Alignment explanation
Indices: 82469683--82469752 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
82469673 AAATAAAAAA
82469683 AAAACATATACAAAAATTATATATTTTCAAAGT
1 AAAACATATACAAAAATTATATATTTTCAAAGT
82469716 AAAACATATACAAAAATTATATATTTTCAAAGT
1 AAAACATATACAAAAATTATATATTTTCAAAGT
82469749 AAAA
1 AAAA
82469753 AAATAGGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (33 bp):
AAAACATATACAAAAATTATATATTTTCAAAGT
Found at i:82475596 original size:6 final size:6
Alignment explanation
Indices: 82475585--82475611 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
82475575 CTAAGCCCTT
82475585 TCAATA TCAATA TCAATA TCAATA TCA
1 TCAATA TCAATA TCAATA TCAATA TCA
82475612 CTTTGGCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (6 bp):
TCAATA
Found at i:82475683 original size:34 final size:34
Alignment explanation
Indices: 82475618--82475683 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
82475608 ATCACTTTGG
*
82475618 CCTTAGCCCATCTCAGTAATAGTAAGCAGTGGGT
1 CCTTAGCCCATCTCAGTAACAGTAAGCAGTGGGT
* *
82475652 CCTTAGCCCATCTCAGTAACAGTTAGTAGTGG
1 CCTTAGCCCATCTCAGTAACAGTAAGCAGTGG
82475684 CAAAAATCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (34 bp):
CCTTAGCCCATCTCAGTAACAGTAAGCAGTGGGT
Found at i:82483487 original size:16 final size:16
Alignment explanation
Indices: 82483466--82483498 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
82483456 GGTTTCTTTG
82483466 TATTTTT-TATTTATTT
1 TATTTTTATATTT-TTT
82483482 TATTTTTATATTTTTT
1 TATTTTTATATTTTTT
82483498 T
1 T
82483499 CATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TATTTTTATATTTTTT
Found at i:82484292 original size:22 final size:23
Alignment explanation
Indices: 82484267--82484311 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
82484257 AGTTATCAAT
* *
82484267 AATAAAT-TTAAAACTATAAAAA
1 AATAAATATAAAAAATATAAAAA
82484289 AATAAATATAAAAAATATAAAAA
1 AATAAATATAAAAAATATAAAAA
82484312 CTAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (23 bp):
AATAAATATAAAAAATATAAAAA
Found at i:82484298 original size:14 final size:15
Alignment explanation
Indices: 82484281--82484309 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
82484271 AATTTAAAAC
82484281 TATAAAAAA-ATAAA
1 TATAAAAAATATAAA
82484295 TATAAAAAATATAAA
1 TATAAAAAATATAAA
82484310 AACTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TATAAAAAATATAAA
Found at i:82484312 original size:32 final size:32
Alignment explanation
Indices: 82484276--82484337 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
82484266 TAATAAATTT
82484276 AAAACTATAAAAAAAT-AAATATAAAAAATATA
1 AAAACTA-AAAAAAATCAAATATAAAAAATATA
* * *
82484308 AAAACTAAAAATAATCAAATTTGAAAAATA
1 AAAACTAAAAAAAATCAAATATAAAAAATA
82484338 GCTGCAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (32 bp):
AAAACTAAAAAAAATCAAATATAAAAAATATA
Found at i:82484316 original size:22 final size:23
Alignment explanation
Indices: 82484276--82484321 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
82484266 TAATAAATTT
* *
82484276 AAAACTATAAAAAAATAAATATA
1 AAAAATATAAAAAAATAAAAATA
*
82484299 AAAAATAT-AAAAACTAAAAATA
1 AAAAATATAAAAAAATAAAAATA
82484321 A
1 A
82484322 TCAAATTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAAATATAAAAAAATAAAAATA
Found at i:82489828 original size:46 final size:46
Alignment explanation
Indices: 82489778--82489953 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
82489768 TGGTTGAGCA
82489778 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
82489824 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
82489869 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
82489917 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
82489954 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:82489934 original size:93 final size:93
Alignment explanation
Indices: 82489775--82489946 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
82489765 GGATGGTTGA
* *
82489775 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
82489840 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
82489868 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
82489933 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
82489947 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:82504525 original size:23 final size:24
Alignment explanation
Indices: 82504475--82504525 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
82504465 TCACCTCTAG
*
82504475 GGCATTACATAATACGCCACACAA
1 GGCATTACAGAATACGCCACACAA
*
82504499 -GCATTACAGAGTACGCCACA-AA
1 GGCATTACAGAATACGCCACACAA
82504521 GGCAT
1 GGCAT
82504526 CACATGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.16
Consensus pattern (24 bp):
GGCATTACAGAATACGCCACACAA
Found at i:82508196 original size:35 final size:37
Alignment explanation
Indices: 82508125--82508222 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
82508115 ATAATCTTCA
82508125 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
82508163 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
82508198 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
82508223 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:82508222 original size:17 final size:19
Alignment explanation
Indices: 82508125--82508215 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
82508115 ATAATCTTCA
82508125 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
82508144 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
82508163 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
82508180 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
82508198 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
82508216 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:82508241 original size:22 final size:22
Alignment explanation
Indices: 82508125--82508238 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
82508115 ATAATCTTCA
82508125 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
82508144 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
82508163 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
82508180 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
82508198 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
82508220 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
82508239 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:82508528 original size:16 final size:16
Alignment explanation
Indices: 82508505--82508538 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
82508495 TGTTTCTTGA
*
82508505 ATTTTTTTATATATTTT
1 ATTTTTTAATA-ATTTT
82508522 ATTTTTTAATAATTTT
1 ATTTTTTAATAATTTT
82508538 A
1 A
82508539 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTTAATAATTTT
Found at i:82509258 original size:13 final size:13
Alignment explanation
Indices: 82509240--82509264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82509230 CCTATTTTTA
82509240 CATATGTTTGTTG
1 CATATGTTTGTTG
82509253 CATATGTTTGTT
1 CATATGTTTGTT
82509265 ACCTTATTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (13 bp):
CATATGTTTGTTG
Found at i:82520149 original size:78 final size:78
Alignment explanation
Indices: 82520041--82520423 Score: 543
Period size: 78 Copynumber: 4.8 Consensus size: 78
82520031 CAAAGAAACA
* * * * *
82520041 GATTTGGCATCTAC-ATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTGACTTTCATTGA
1 GATTTGGCATCT-CTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
82520105 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
82520119 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
82520184 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
82520197 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
82520262 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
82520275 AATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA-----
82520340 TTACATCGAAGCAGATCCAAGAT
61 -T---T-GAAGCAGATCCAAGAT
82520363 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
82520424 GTGTTTACAT
Statistics
Matches: 275, Mismatches: 19, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
77 1 0.00
78 197 0.72
82 1 0.00
84 1 0.00
87 1 0.00
88 74 0.27
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:82520413 original size:88 final size:88
Alignment explanation
Indices: 82520259--82520494 Score: 391
Period size: 88 Copynumber: 2.6 Consensus size: 88
82520249 AACCTTCATT
* *
82520259 GAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
82520324 TCTGACCTTCATGTGTTTACATC
66 TCTGACCTTCATGTGTTTACATC
82520347 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
82520412 TCTGACCTTCATGTGTTTACATC
66 TCTGACCTTCATGTGTTTACATC
* * *
82520435 GAAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAACAGATTGAAGA
1 GAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA
82520495 AGCAGATTTG
Statistics
Matches: 139, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
88 101 0.73
92 38 0.27
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (88 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
TCTGACCTTCATGTGTTTACATC
Found at i:82520443 original size:47 final size:46
Alignment explanation
Indices: 82520302--82520449 Score: 123
Period size: 47 Copynumber: 3.3 Consensus size: 46
82520292 TTAGACGGGG
82520302 AGCAGATCGAAGACATAGTAGATCTGACCTTCATGTGTTTACATCGA
1 AGCAGATCGAAGACATAG-AGATCTGACCTTCATGTGTTTACATCGA
* * * * * * *
82520349 AGCAGATCCAAG--AT---GATTTGGCATCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCGAAGACATAGAGATCTGACCT-TCATGTGTTTACATC--GA
82520390 AGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGTTTACATCGA
1 AGCAGATCGAAGACATAG-AGATCTGACCTTCATGTGTTTACATCGA
*
82520437 AGCAGATCAAAGA
1 AGCAGATCGAAGA
82520450 TGACAGATTT
Statistics
Matches: 74, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
39 1 0.01
40 4 0.05
41 22 0.30
42 2 0.03
43 2 0.03
45 2 0.03
46 2 0.03
47 34 0.46
48 4 0.05
49 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (46 bp):
AGCAGATCGAAGACATAGAGATCTGACCTTCATGTGTTTACATCGA
Found at i:82520488 original size:45 final size:45
Alignment explanation
Indices: 82520439--82520581 Score: 184
Period size: 44 Copynumber: 3.2 Consensus size: 45
82520429 TACATCGAAG
*
82520439 CAGATCAAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAA
1 CAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAA
** * * *
82520484 CAGATTGAAGAAG-CAGATTTGGTGTCTCTGTATTAGACGGGGAG
1 CAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAA
*
82520528 CAGATCGAAGAT-ACCAGATTTGGCGTCTCTGTATTAGAC-GGGAA
1 CAGATCAAAGATGA-CAGATTTGGCGTCTCTGTATTAGACGGGGAA
82520572 GCAGATCAAA
1 -CAGATCAAA
82520582 TATAGCAGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
44 42 0.50
45 42 0.50
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.24
Consensus pattern (45 bp):
CAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAA
Found at i:82520591 original size:45 final size:45
Alignment explanation
Indices: 82520363--82520591 Score: 209
Period size: 45 Copynumber: 5.1 Consensus size: 45
82520353 GATCCAAGAT
* *
82520363 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATC-AA-AGATAGCA
* * * * *
82520410 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCAAAGAT-GACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGAAGCAGATCAAAGATAG-CA
**
82520455 GATTTGGCATCTCTGTATTAGACGGGGAA-CAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGAC-GGGAAGCAGATCAAAGATAGCA
** * * *
82520499 GATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATACCA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGATAGCA
* *
82520544 GATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCAAATATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGATAGCA
82520589 GAT
1 GAT
82520592 ATCGCCTTTC
Statistics
Matches: 147, Mismatches: 24, Indels: 24
0.75 0.12 0.12
Matches are distributed among these distances:
43 5 0.03
44 38 0.26
45 71 0.48
46 9 0.06
47 19 0.13
48 4 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGATAGCA
Found at i:82520619 original size:89 final size:88
Alignment explanation
Indices: 82520276--82520626 Score: 258
Period size: 88 Copynumber: 3.9 Consensus size: 88
82520266 ATCCAAGATA
* * * *
82520276 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACC-TTCATGTGT
1 ATTTGGCATCTCTGTATTAGACGGGAAGCAGATC-AA-ACATAGCAGATATG-CCTTTC-TGAGT
* *
82520340 TTACATCGAAGCAGATCCAAGAT----G
62 TGACAT-GAAGCAGATCGAAGATGACAG
* * *
82520364 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACC-TTCATGTGT
1 ATTTGGCATCTCTGTATTAGACGGGAAGCAGATC-AA-ACATAGCAGATATG-CCTTTC-TGAGT
* *
82520428 TTACATCGAAGCAGATCAAAGATGACAG
62 TGACAT-GAAGCAGATCGAAGATGACAG
** * * *
82520456 ATTTGGCATCTCTGTATTAGACGGGGAA-CAGATTGAAGA-AGCAGATTTG-GTGTCTCTGTA-T
1 ATTTGGCATCTCTGTATTAGAC-GGGAAGCAGATCAAACATAGCAGATATGCCT-T-TCTG-AGT
** *
82520517 TAGACGGGGAGCAGATCGAAGAT-ACCAG
62 T-GACATGAAGCAGATCGAAGATGA-CAG
* *
82520545 ATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCAAATATAGCAGATATCGCCTTTCTGAGTTG-
1 ATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAACATAGCAGATAT-GCCTTTCTGAGTTGA
*
82520609 CAATGAAGCAGATTGAAG
65 C-ATGAAGCAGATCGAAG
82520627 CCGTCAAGAG
Statistics
Matches: 222, Mismatches: 24, Indels: 33
0.80 0.09 0.12
Matches are distributed among these distances:
88 92 0.41
89 74 0.33
90 20 0.09
91 3 0.01
92 29 0.13
93 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (88 bp):
ATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAACATAGCAGATATGCCTTTCTGAGTTGAC
ATGAAGCAGATCGAAGATGACAG
Found at i:82521013 original size:35 final size:37
Alignment explanation
Indices: 82520942--82521039 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
82520932 ATAATCTTCA
82520942 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
82520980 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
82521015 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
82521040 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:82521039 original size:17 final size:19
Alignment explanation
Indices: 82520942--82521032 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
82520932 ATAATCTTCA
82520942 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
82520961 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
82520980 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
82520997 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
82521015 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
82521033 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:82521058 original size:22 final size:22
Alignment explanation
Indices: 82520942--82521055 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
82520932 ATAATCTTCA
82520942 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
82520961 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
82520980 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
82520997 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
82521015 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
82521037 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
82521056 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:82523229 original size:18 final size:18
Alignment explanation
Indices: 82523208--82523250 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
82523198 GAAAATATTT
* *
82523208 TTAATTAAATAAATTTAA
1 TTAATTAAAAAAATTAAA
82523226 TTAATTAAAAAAATTAAA
1 TTAATTAAAAAAATTAAA
82523244 TTAATTA
1 TTAATTA
82523251 CACCTTGAAT
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:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATTAAAAAAATTAAA
Found at i:82523231 original size:9 final size:9
Alignment explanation
Indices: 82523208--82523250 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
82523198 GAAAATATTT
82523208 TTAATTAAA
1 TTAATTAAA
* *
82523217 TAAATTTAA
1 TTAATTAAA
82523226 TTAATTAAA
1 TTAATTAAA
**
82523235 AAAATTAAA
1 TTAATTAAA
82523244 TTAATTA
1 TTAATTA
82523251 CACCTTGAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TTAATTAAA
Found at i:82530577 original size:12 final size:12
Alignment explanation
Indices: 82530560--82530586 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
82530550 CCTTCTTCTC
82530560 CCCTTTCCCCTT
1 CCCTTTCCCCTT
82530572 CCCTTTCCCCTT
1 CCCTTTCCCCTT
82530584 CCC
1 CCC
82530587 CTTGGGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:82530708 original size:25 final size:27
Alignment explanation
Indices: 82530648--82530708 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
82530638 CCAGGTAAGG
*
82530648 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
82530676 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
82530699 CTTCTCTTCT
1 CTTCTCTTCT
82530709 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:82530882 original size:15 final size:12
Alignment explanation
Indices: 82530847--82530878 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
82530837 CGTTCTCACT
*
82530847 AAAATTGGTAAA
1 AAAATCGGTAAA
82530859 AAAATCGGTAAA
1 AAAATCGGTAAA
82530871 AAAATCGG
1 AAAATCGG
82530879 CGGTTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:82531224 original size:12 final size:13
Alignment explanation
Indices: 82531201--82531226 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82531191 TCAATGAACC
82531201 CTTAATTTTTTTG
1 CTTAATTTTTTTG
82531214 CTTAATTTTTTTG
1 CTTAATTTTTTTG
82531227 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:82534636 original size:21 final size:21
Alignment explanation
Indices: 82534610--82534665 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
82534600 CGCTGTTTCT
*
82534610 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
82534631 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
82534652 AATCTCACCGCTAC
1 AATCTCACCGCTAC
82534666 CACTGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.38, G:0.07, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:82536474 original size:23 final size:22
Alignment explanation
Indices: 82536423--82536480 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
82536413 AAAAAAACTG
*
82536423 TTTTAT-AACTTTTAAATATTA
1 TTTTATAAAATTTTAAATATTA
* *
82536444 TTTAATAAAATTTTAAAATATTT
1 TTTTATAAAATTTT-AAATATTA
82536467 TTTTATAAATATTT
1 TTTTATAAA-ATTT
82536481 ATTAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 5 0.17
22 6 0.20
23 15 0.50
24 4 0.13
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATAAAATTTTAAATATTA
Found at i:82536636 original size:16 final size:17
Alignment explanation
Indices: 82536609--82536642 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
82536599 TCATTGTAAC
*
82536609 AAATTAAAATTAATTAT
1 AAATTAAAATTAAATAT
82536626 AAATT-AAATTAAATAT
1 AAATTAAAATTAAATAT
82536642 A
1 A
82536643 GTAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAAAATTAAATAT
Found at i:82540451 original size:24 final size:25
Alignment explanation
Indices: 82540405--82540451 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
82540395 ATGCATGTTA
*
82540405 AATATTTAAATTTTAATTTAATTAT
1 AATATTTAAATTTTAATTGAATTAT
82540430 AATA-TTAAATTTTAGA-TGAATT
1 AATATTTAAATTTTA-ATTGAATT
82540452 TTTTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
AATATTTAAATTTTAATTGAATTAT
Found at i:82541024 original size:21 final size:21
Alignment explanation
Indices: 82541000--82541042 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
82540990 TTAATATCAT
82541000 AAATAAT-TAATTAAAGTATTA
1 AAATAATATAATT-AAGTATTA
*
82541021 AAATAATATAATTAGGTATTA
1 AAATAATATAATTAAGTATTA
82541042 A
1 A
82541043 TCTAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATAATATAATTAAGTATTA
Found at i:82543818 original size:3 final size:3
Alignment explanation
Indices: 82543810--82543844 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
82543800 TTGACATAGA
82543810 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
82543845 AGAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:82545316 original size:17 final size:16
Alignment explanation
Indices: 82545291--82545342 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
82545281 TTTACTTTGT
82545291 TTTATAATTTTATAATA
1 TTTA-AATTTTATAATA
82545308 TTTACAATTTT-TAATA
1 TTTA-AATTTTATAATA
* *
82545324 TATATATATTTATAATA
1 TTTAAAT-TTTATAATA
82545341 TT
1 TT
82545343 CTGAATCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.07
16 11 0.38
17 16 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAAATTTTATAATA
Found at i:82546014 original size:18 final size:18
Alignment explanation
Indices: 82545972--82546006 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
82545962 GAAAATTCAA
*
82545972 AAAAATTCCTAAAACCTC
1 AAAAATTCCAAAAACCTC
82545990 AAAAATTCCAAAAACCT
1 AAAAATTCCAAAAACCT
82546007 AGAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATTCCAAAAACCTC
Found at i:82547680 original size:38 final size:38
Alignment explanation
Indices: 82547638--82547764 Score: 121
Period size: 38 Copynumber: 3.3 Consensus size: 38
82547628 TTATTGATTG
*
82547638 CATGTTCAA-CATGCCTACTGCTACTATTAAACTAATTA
1 CATGTT-AAGCATGCCTACTGCTACTATTAAACTAAATA
* * * *
82547676 CATGTTAAGCATGTCTATTGCTACTGTTGAACTAAATA
1 CATGTTAAGCATGCCTACTGCTACTATTAAACTAAATA
** * * * **
82547714 CATGTTAAGCATGTATATTTCTACTGTTGGACTAAATA
1 CATGTTAAGCATGCCTACTGCTACTATTAAACTAAATA
*
82547752 CATGTTAAACATG
1 CATGTTAAGCATG
82547765 TTCACTGTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
37 2 0.03
38 77 0.97
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (38 bp):
CATGTTAAGCATGCCTACTGCTACTATTAAACTAAATA
Found at i:82547765 original size:38 final size:38
Alignment explanation
Indices: 82547656--82547765 Score: 157
Period size: 38 Copynumber: 2.9 Consensus size: 38
82547646 ACATGCCTAC
* * * *
82547656 TGCTACTATTAAACTAATTACATGTTAAGCATGTCTAT
1 TGCTACTGTTGAACTAAATACATGTTAAGCATGTATAT
82547694 TGCTACTGTTGAACTAAATACATGTTAAGCATGTATAT
1 TGCTACTGTTGAACTAAATACATGTTAAGCATGTATAT
* * *
82547732 TTCTACTGTTGGACTAAATACATGTTAAACATGT
1 TGCTACTGTTGAACTAAATACATGTTAAGCATGT
82547766 TCACTGTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (38 bp):
TGCTACTGTTGAACTAAATACATGTTAAGCATGTATAT
Found at i:82549537 original size:22 final size:21
Alignment explanation
Indices: 82549495--82549536 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
82549485 GTTCGTTAAT
82549495 TTTTTTATGATTTTTATAAAAA
1 TTTTTTA-GATTTTTATAAAAA
82549517 TTTTTTA-ATTTTTATAAAAA
1 TTTTTTAGATTTTTATAAAAA
82549537 ATACTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.65
22 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTTAGATTTTTATAAAAA
Found at i:82549579 original size:37 final size:39
Alignment explanation
Indices: 82549538--82549624 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
82549528 TTATAAAAAA
82549538 TACTAATTTTTAATAA-ATTT-TAAATTT-TAAATTTTTT
1 TACTAATTTTTAATAATATTTCTAAATTTAT-AATTTTTT
** * *
82549575 TACTAAAATTTAATAATTTTTCTAAATTTATTATTTTTT
1 TACTAATTTTTAATAATATTTCTAAATTTATAATTTTTT
82549614 T-CTAATTTTTA
1 TACTAATTTTTA
82549625 GTAAGAGTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
37 14 0.34
38 11 0.27
39 15 0.37
40 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (39 bp):
TACTAATTTTTAATAATATTTCTAAATTTATAATTTTTT
Found at i:82549599 original size:19 final size:20
Alignment explanation
Indices: 82549558--82549618 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
82549548 TAATAAATTT
* *
82549558 TAAATTTTAA-ATTTTTTTAC
1 TAAAATTTAATATATTTTT-C
82549578 TAAAATTTAATA-ATTTTTC
1 TAAAATTTAATATATTTTTC
* *
82549597 T-AAATTTATTATTTTTTTC
1 TAAAATTTAATATATTTTTC
82549616 TAA
1 TAA
82549619 TTTTTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 9 0.26
19 9 0.26
20 15 0.44
21 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TAAAATTTAATATATTTTTC
Found at i:82549603 original size:18 final size:19
Alignment explanation
Indices: 82549558--82549618 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
82549548 TAATAAATTT
*
82549558 TAAATTTTAA-ATTTTTTTAC
1 TAAA-TTTAATATATTTTT-C
82549578 TAAAATTTAATA-ATTTTTC
1 T-AAATTTAATATATTTTTC
* *
82549597 TAAATTTATTATTTTTTTC
1 TAAATTTAATATATTTTTC
82549616 TAA
1 TAA
82549619 TTTTTAGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 9 0.26
19 11 0.31
20 11 0.31
21 4 0.11
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TAAATTTAATATATTTTTC
Found at i:82549763 original size:92 final size:91
Alignment explanation
Indices: 82549639--82549807 Score: 232
Period size: 92 Copynumber: 1.8 Consensus size: 91
82549629 GAGTAGGGGC
* *
82549639 TTAATTGCTTTTTTGAAAAGTTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAT
1 TTAATTGCTTTTTTGAAAAGTTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAT
82549704 CGAGTGAAAAAAGAAGAAGCAAGGGT
66 CGAGTGAAAAAAGAAGAAGCAAGGGT
* * * * * *
82549730 TTAATTGCTTTTTTTGATGAAG-TTTGATAGTCTTTTTTATGCATTTTTAAAATTCAAGTGCTCA
1 TTAATTGC-TTTTTTGA-AAAGTTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGTACCCA
*
82549794 ATTGAGTGAAAAAA
64 ATCGAGTGAAAAAA
82549808 AGAGGAGCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
91 8 0.12
92 56 0.84
93 3 0.04
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (91 bp):
TTAATTGCTTTTTTGAAAAGTTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAT
CGAGTGAAAAAAGAAGAAGCAAGGGT
Found at i:82551960 original size:92 final size:91
Alignment explanation
Indices: 82551820--82551992 Score: 233
Period size: 92 Copynumber: 1.9 Consensus size: 91
82551810 GGTGACATTA
** *
82551820 TATCGGTATAGCGGATTACCGCATTGCACTTTACTGCATGTACATTAGCTACGCTACGTACCATT
1 TATCGGTATAGCGGATTACCGCATTGCACCATAC-GCATGGACATTAGCTACGCTACGTACCATT
82551885 GA-CTGAACTGGCAGTTTTATTGCGACC
65 -ATCTGAACTGGCAGTTTTATTGCGACC
* * *
82551912 TATCGGTATAGCGGATTACCGCATTGCACCATAC-CATAGGGACGTTAGCTATGCTACGTACTAT
1 TATCGGTATAGCGGATTACCGCATTGCACCATACGCAT--GGACATTAGCTACGCTACGTACCAT
*
82551976 TATCTGATCTGGCAGTT
64 TATCTGAACTGGCAGTT
82551993 CATACTGCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
90 3 0.04
91 1 0.01
92 67 0.94
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (91 bp):
TATCGGTATAGCGGATTACCGCATTGCACCATACGCATGGACATTAGCTACGCTACGTACCATTA
TCTGAACTGGCAGTTTTATTGCGACC
Found at i:82553507 original size:48 final size:50
Alignment explanation
Indices: 82553447--82553548 Score: 190
Period size: 48 Copynumber: 2.1 Consensus size: 50
82553437 TTCATGAAGG
82553447 ATTTGACCTCTCTTCAACACTATTAATATAAATGAGAA-TTTTTTTTTAC
1 ATTTGACCTCTCTTCAACACTATTAATATAAATGAGAATTTTTTTTTTAC
82553496 ATTT-ACCTCTCTTCAACACTATTAATATAAATGAGAATTTTTTTTTTAC
1 ATTTGACCTCTCTTCAACACTATTAATATAAATGAGAATTTTTTTTTTAC
82553545 ATTT
1 ATTT
82553549 TTAAGAATAC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 33 0.63
49 19 0.37
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (50 bp):
ATTTGACCTCTCTTCAACACTATTAATATAAATGAGAATTTTTTTTTTAC
Found at i:82568584 original size:50 final size:50
Alignment explanation
Indices: 82568522--82568685 Score: 141
Period size: 50 Copynumber: 3.3 Consensus size: 50
82568512 ATGTGACATG
* **
82568522 CCCGTGTAGGCCCACTCGCTTGTGAAGCCCAAAAGCCCAACTTGGTTATA
1 CCCGTGTGGGCCCACTCGCTTGTGAAGCCCAAAAGCCCAACTTGGCCATA
* ** * * * * *
82568572 CCCGTGTGGGCCCACTCGCCTGTGTGGCCTATACGTCTAACTTGGCCATA
1 CCCGTGTGGGCCCACTCGCTTGTGAAGCCCAAAAGCCCAACTTGGCCATA
* * ** * * * *
82568622 CCCGTGTGGGCTCACTCGCTCGTGTGGCCCACACGCCTAACCTGGCCATA
1 CCCGTGTGGGCCCACTCGCTTGTGAAGCCCAAAAGCCCAACTTGGCCATA
*
82568672 CCTGTGT-GGCCCAC
1 CCCGTGTGGGCCCAC
82568686 ACGGCCATAC
Statistics
Matches: 94, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 6 0.06
50 88 0.94
ACGTcount: A:0.16, C:0.36, G:0.25, T:0.23
Consensus pattern (50 bp):
CCCGTGTGGGCCCACTCGCTTGTGAAGCCCAAAAGCCCAACTTGGCCATA
Found at i:82569940 original size:134 final size:130
Alignment explanation
Indices: 82569797--82570137 Score: 349
Period size: 131 Copynumber: 2.6 Consensus size: 130
82569787 TAAAAAAGTG
* * * * *
82569797 CAACCCAGCACGATAGGACACGATTCTCAAATTGCCAAACATTGAACATCACCTTCGTTTTAATG
1 CAACCCAGCACGATAGGGCACGATTC-CAAATTGTCAAACATTGAATATCGCCTTCGTTTTAAAG
* * *
82569862 TGTTTTCTTAAAAAAACATGAGTGAAAACCTAAAGGAATATTTGATTGTTTTGACCAAACGAGAA
65 -GATTT-TT-AAAAAACATGAGTGAAAACCTAAAGGAATATTTGATTATTTTGAACAAACGAGAA
82569927 ATCA
127 ATCA
* * * ** * *
82569931 CAACCCAGCACGATAGGGCATGATTCCCGAATCGTCAAACACCGAGTATTGCCTTCGTTTTAAAG
1 CAACCCAGCACGATAGGGCACGATT-CCAAATTGTCAAACATTGAATATCGCCTTCGTTTTAAAG
* * *** * ** * *
82569996 GATTTTTAGAAGACATGAGTGAAATTTTGAAGGGTTATTTGATTATTTTGAATAAACGAGAAATT
65 GATTTTTAAAAAACATGAGTGAAAACCTAAAGGAATATTTGATTATTTTGAACAAACGAGAAATC
*
82570061 G
130 A
* * *
82570062 CAACCCAACACGTTAGGGCACGATTCCACGAATTGTCAAATATTGAATATCGCCTTCGTTTTAAA
1 CAACCCAGCACGATAGGGCACGATTCCA--AATTGTCAAACATTGAATATCGCCTTCGTTTTAAA
*
82570127 GAATTTTTAAA
64 GGATTTTTAAA
82570138 TGAGTAATTA
Statistics
Matches: 166, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
130 2 0.01
131 68 0.41
132 40 0.24
133 4 0.02
134 51 0.31
135 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (130 bp):
CAACCCAGCACGATAGGGCACGATTCCAAATTGTCAAACATTGAATATCGCCTTCGTTTTAAAGG
ATTTTTAAAAAACATGAGTGAAAACCTAAAGGAATATTTGATTATTTTGAACAAACGAGAAATCA
Found at i:82570683 original size:16 final size:17
Alignment explanation
Indices: 82570648--82570691 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
82570638 AGAAGTTAAC
*
82570648 AAAATATATGATAATAA
1 AAAATATATGATAACAA
*
82570665 AAAATATATGAT-ACGA
1 AAAATATATGATAACAA
*
82570681 AAAATACATGA
1 AAAATATATGA
82570692 CAAAACATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (17 bp):
AAAATATATGATAACAA
Found at i:82570683 original size:17 final size:17
Alignment explanation
Indices: 82570648--82570684 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
82570638 AGAAGTTAAC
*
82570648 AAAATATATGATAATAA
1 AAAATATATGATAAGAA
*
82570665 AAAATATATGATACGAA
1 AAAATATATGATAAGAA
82570682 AAA
1 AAA
82570685 TACATGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (17 bp):
AAAATATATGATAAGAA
Found at i:82574001 original size:26 final size:27
Alignment explanation
Indices: 82573916--82574011 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 27
82573906 GTGTATCCCC
* ****
82573916 TATTTTTAGATTTTACAATTTTTTGTA
1 TATTTTTAAATTTTACAATTTTGCCCA
* * * *
82573943 T-TTTTTAAATTTTATAGTTTTTCCCT
1 TATTTTTAAATTTTACAATTTTGCCCA
82573969 TATTTTTAAATTTTACAATTTTGCCCA
1 TATTTTTAAATTTTACAATTTTGCCCA
*
82573996 TATTTTTCATATTTTA
1 TATTTTT-AAATTTTA
82574012 TAGTTTTGAC
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
26 19 0.35
27 29 0.53
28 7 0.13
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.61
Consensus pattern (27 bp):
TATTTTTAAATTTTACAATTTTGCCCA
Found at i:82574018 original size:28 final size:27
Alignment explanation
Indices: 82573944--82574019 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
82573934 TTTTTTGTAT
* *
82573944 TTTTTAAATTTTATAGTTTTTCCCTTA
1 TTTTTAAATTTTATAGTTTTGCCCATA
* *
82573971 TTTTTAAATTTTACAATTTTGCCCATA
1 TTTTTAAATTTTATAGTTTTGCCCATA
*
82573998 TTTTTCATATTTTATAGTTTTG
1 TTTTT-AAATTTTATAGTTTTG
82574020 ACAGAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 28 0.68
28 13 0.32
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.61
Consensus pattern (27 bp):
TTTTTAAATTTTATAGTTTTGCCCATA
Found at i:82574512 original size:45 final size:45
Alignment explanation
Indices: 82574421--82574561 Score: 126
Period size: 45 Copynumber: 3.1 Consensus size: 45
82574411 TGTTAGTAGC
* *
82574421 TTATCTGCACCATTTATTGGTTTATCCACACCGTATTAACAACTT
1 TTATCTGCACCATTTAGTGGTTTATCCACACCATATTAACAACTT
* * * *
82574466 TTATTTGCACCATTTAGTGGTTTATCCATATCATATTAGA-AGCTT
1 TTATCTGCACCATTTAGTGGTTTATCCACACCATATTA-ACAACTT
* * * * *
82574511 TTATCTTCACTGA-CTAGTGGTTTA-CACGCACCGTATTAACAACTT
1 TTATCTGCAC-CATTTAGTGGTTTATC-CACACCATATTAACAACTT
*
82574556 TAATCT
1 TTATCT
82574562 ACAAATATAT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
44 2 0.03
45 72 0.95
46 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (45 bp):
TTATCTGCACCATTTAGTGGTTTATCCACACCATATTAACAACTT
Found at i:82577649 original size:26 final size:25
Alignment explanation
Indices: 82577611--82577662 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
82577601 TATATTTAAA
* * *
82577611 AAAATGAAAAAAAATTAAAATATAT
1 AAAATAAAAAAAAAATAAAAAATAT
82577636 AAAATAAAATAAAAAATAAAAAATAT
1 AAAATAAAA-AAAAAATAAAAAATAT
82577662 A
1 A
82577663 TATCTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAAAAAATAAAAAATAT
Found at i:82577658 original size:19 final size:19
Alignment explanation
Indices: 82577609--82577660 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
82577599 ATTATATTTA
* *
82577609 AAAAAATGAAAAA-AAATT
1 AAAAAATAAAAAATAAAAT
* *
82577627 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
82577646 AAAAAATAAAAAATA
1 AAAAAATAAAAAATA
82577661 TATATCTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAAATAAAAAATAAAAT
Found at i:82581874 original size:30 final size:31
Alignment explanation
Indices: 82581814--82581880 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
82581804 TTACAAAATG
*
82581814 GTCAATGAACTATTCAAAAGTTTTCATTTAA
1 GTCATTGAACTATTCAAAAGTTTTCATTTAA
*
82581845 GTCATTGAATTATTCACAAA-TTTT-ATTTAA
1 GTCATTGAACTATTCA-AAAGTTTTCATTTAA
82581875 GTCATT
1 GTCATT
82581881 AAGTTGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 12 0.36
31 18 0.55
32 3 0.09
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (31 bp):
GTCATTGAACTATTCAAAAGTTTTCATTTAA
Found at i:82584778 original size:18 final size:18
Alignment explanation
Indices: 82584734--82584789 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
82584724 TATATACTTG
82584734 TAAATTTATAAATTTTTA
1 TAAATTTATAAATTTTTA
*** *
82584752 GTTCTTTTATATATTTTTA
1 -TAAATTTATAAATTTTTA
82584771 TAAATTTATAAATTTTTA
1 TAAATTTATAAATTTTTA
82584789 T
1 T
82584790 TTATATATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
TAAATTTATAAATTTTTA
Found at i:82584891 original size:57 final size:58
Alignment explanation
Indices: 82584783--82584891 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 58
82584773 AATTTATAAA
* *
82584783 TTTTTATTTATATATTATATATGGTAAATTTTTATATATTTTTCAAAATATTGTAGGC
1 TTTTTATTTATATATTATATATGGTAAATTTTTATAAATTTATCAAAATATTGTAGGC
* * *
82584841 TTTTT-TTTATATATTTTA-ATTGTATATATTTTATAAATTTAT-AAATATATT
1 TTTTTATTTATATATTATATATGGTAAAT-TTTTATAAATTTATCAAA-ATATT
82584892 TTTAAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 10 0.23
57 29 0.66
58 5 0.11
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.59
Consensus pattern (58 bp):
TTTTTATTTATATATTATATATGGTAAATTTTTATAAATTTATCAAAATATTGTAGGC
Found at i:82584906 original size:19 final size:21
Alignment explanation
Indices: 82584864--82584904 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
82584854 TTTTAATTGT
* *
82584864 ATATATTTTATAAATTTATAA
1 ATATATTTTATAAAATAATAA
82584885 ATATATTTT-TAAAATAATAA
1 ATATATTTTATAAAATAATAA
82584905 TAACTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATATTTTATAAAATAATAA
Found at i:82590705 original size:21 final size:21
Alignment explanation
Indices: 82590679--82590719 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
82590669 ATCTGCTCAA
* *
82590679 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
82590700 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
82590720 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:82594746 original size:3 final size:3
Alignment explanation
Indices: 82594740--82594777 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
82594730 TGTAGTAGTC
82594740 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
82594778 GGAGAAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:82595444 original size:45 final size:46
Alignment explanation
Indices: 82595365--82595457 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 46
82595355 AATATGTCTA
* * *
82595365 TAGTGATTGTATTTTTCGAAAATTTTATAGTAGGAATTTAA-TCTG
1 TAGTGATTGTATTTTTCGAAAACTTCAAAGTAGGAATTTAATTCTG
* * *
82595410 TAGTGTTTGTATTTTTCTAAAACTTCAAATTAGGAATTTAATTCTG
1 TAGTGATTGTATTTTTCGAAAACTTCAAAGTAGGAATTTAATTCTG
82595456 TA
1 TA
82595458 AAGTCAGGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
45 35 0.85
46 6 0.15
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.47
Consensus pattern (46 bp):
TAGTGATTGTATTTTTCGAAAACTTCAAAGTAGGAATTTAATTCTG
Found at i:82596622 original size:23 final size:24
Alignment explanation
Indices: 82596578--82596622 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
82596568 TAAGTCCTAC
*
82596578 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
82596602 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
82596623 GTGGGGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:82606122 original size:18 final size:18
Alignment explanation
Indices: 82606099--82606137 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
82606089 TTTCACGTTA
82606099 ATCGAGAAAGAGAATTAC
1 ATCGAGAAAGAGAATTAC
*
82606117 ATCGAGAAAGATAATTAC
1 ATCGAGAAAGAGAATTAC
82606135 ATC
1 ATC
82606138 CCGTAAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (18 bp):
ATCGAGAAAGAGAATTAC
Found at i:82606682 original size:3 final size:3
Alignment explanation
Indices: 82606674--82606728 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
82606664 ACAATTTAAA
* * * *
82606674 AAT AAT AAT ATT AAT AAT AAT GAT AAT AAT ATT AAT AAT GAT AAT ACA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
82606722 AAT AAT A
1 AAT AAT A
82606729 GAATACCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:82606701 original size:18 final size:18
Alignment explanation
Indices: 82606678--82606728 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
82606668 TTTAAAAATA
*
82606678 ATAATATTAATAATAATG
1 ATAATAATAATAATAATG
*
82606696 ATAATAATATTAATAATG
1 ATAATAATAATAATAATG
82606714 ATAATACA-AATAATA
1 ATAATA-ATAATAATA
82606729 GAATACCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
ATAATAATAATAATAATG
Found at i:82608645 original size:89 final size:89
Alignment explanation
Indices: 82608421--82609036 Score: 250
Period size: 89 Copynumber: 6.9 Consensus size: 89
82608411 TTGATAGCTT
* * * * * * *
82608421 TAATCTGTTCCACTACAACCTCAGGGAAATAAGATTTGCTGTCTTCTACCTGCTCCCCTACAACT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAACCTGCTCCACTACAACT
*
82608486 TCAGGGAGATAAGGTTAGCCATCTT
65 TCAGGGAGATAAGGTTAGCCATCTG
* * * * * **
82608511 TAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTT-CTAACTTCAACCTGCTCCATTGTAACT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAACCTGCTCCACTACAACT
* ***
82608575 TTAGGGAGATAAGGTTAGTGGT-TG
65 TCAGGGAGATAAGGTTAGCCATCTG
* * ** *
82608599 TAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCTCTACTACAACT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAACCTGCTCCACTACAACT
* * * * *
82608664 TCAAGGACATAAGATTTGCCATGATAG
65 TCAGGGAGATAAGGTTAGCCAT-CT-G
* * * * * * *
82608691 ATTTAATCTAAC-CCACTGCAACTTCAAGGG-TATAGGACTTGTTA-CTTCAATCTACTCCACTG
1 ---TAATCT-GCTCCACTGCAACTTC-AGGGAGATAAGA-TTGCTATCTTCAACCTGCTCCACTA
* * * * *
82608753 CAACTTCAAGGAGATAAGACTT-G-TAGCTT
60 CAACTTCAGGGAGATAAG-GTTAGCCATCTG
* ** * ** * * * * * *
82608782 TAATCTGCTCTACTAAAACTTCAGGGAGATAAGGTTTATAACTTTAATCTGCTCTAGTGCAACTT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAACCTGCTCCACTACAACTT
* * ** *
82608847 CAGAGAGATAAGATTTTCTATCT-
66 CAGGGAGATAAGGTTAGCCATCTG
* * ** * ** * ** * * *
82608870 TCAGTCTGCTCTACTATAAATTCAGGGAGATAAGACTTG-TGGCTTTAATTTGTTCCTCTACAAA
1 T-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAACCTGCTCCACTACAAC
* * **
82608934 TTTAGGGAAATATGATTTATAG-CA--T-
64 TTCAGGGAGATA--AGGT-TAGCCATCTG
* * * * **
82608959 TAATCTGCTCTACTGCAACTTCAGAGAGATAATATTTGCTATATTCAGTCTGCTCCACTACAACT
1 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAACCTGCTCCACTACAACT
82609024 TCAGGGAGATAAG
65 TCAGGGAGATAAG
82609037 ACTTGTAATT
Statistics
Matches: 388, Mismatches: 115, Indels: 49
0.70 0.21 0.09
Matches are distributed among these distances:
87 14 0.04
88 112 0.29
89 157 0.40
90 31 0.08
91 4 0.01
92 3 0.01
93 1 0.00
94 32 0.08
95 27 0.07
96 7 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (89 bp):
TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAACCTGCTCCACTACAACTT
CAGGGAGATAAGGTTAGCCATCTG
Found at i:82608787 original size:44 final size:44
Alignment explanation
Indices: 82608410--82609266 Score: 443
Period size: 44 Copynumber: 19.1 Consensus size: 44
82608400 AGATTTATAC
* * * *
82608410 TTTGATAGCTTTAATCTGTTCCACTACAACCTCAGGGAAATAAGA
1 TTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
82608455 TTTGCT-GTCTTCT-ACCTGCTCCCCTACAACTTCAGGGAGATAAGG
1 TTTG-TAG-CTT-TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * *
82608500 TTAGCCATCTTTAGTCTGCTCCACTGTAACTTTAGGGAGATAAGA
1 TTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * * * * *
82608545 CTTCTAACTTCAACCTGCTCCATTGTAACTTTAGGGAGATAAGG
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
82608589 TTAGT-GGTTGTAATCTGCTCTACTGCAACTTCAGGGAGATAAGA
1 TTTGTAGCTT-TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * * * * *
82608633 TTCGCCATCTTCAGTCTGCTCTACTACAACTTCAAGGACATAAGA
1 TTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
82608678 TTTGCCATGATAGATTTAATCTAAC-CCACTGCAACTTCAAGGG-TATAGGA
1 -TT----TG-TAGCTTTAATCT-GCTCCACTGCAACTTC-AGGGAGATAAGA
* * * *
82608728 CTTGTTA-CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGA
1 TTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * ** *
82608772 CTTGTAGCTTTAATCTGCTCTACTAAAACTTCAGGGAGATAAGG
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * *
82608816 TTTATAACTTTAATCTGCTCTAGTGCAACTTCAGAGAGATAAGA
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * ** *
82608860 TTTTCTATCTTCAGTCTGCTCTACTATAAATTCAGGGAGATAAGA
1 -TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * * * * * *
82608905 CTTGTGGCTTTAATTTGTTCCTCTACAAATTTAGGGAAATATGA
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * *
82608949 TTTATAGCATTAATCTGCTCTACTGCAACTTCAGAGAGATAATA
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
** * * *
82608993 TTTGCTATATTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGA
1 TTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * *
82609038 CTTGTA-ATTTCAACCTACTCCACTGTAACTTCAGGGAGATAAGG
1 TTTGTAGCTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
82609082 TTTGTGGCTTTAATCTACTCCATTGCAACTTCGGGGAGATAAGA
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * ** *
82609126 TTCGTAACCCATCTTCAATCTACTCCACTATAACATCAGGGAGA-AAGA
1 TTTGT-A-GC-T-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
** * * * * * * *
82609174 TTTGTTTATTTTTAACCTACTTCACTGTAATTTCAGGGAAATAAGG
1 TTTG--TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
82609220 TTTGTGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAAA
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
82609264 TTT
1 TTT
82609267 TCCATGATAA
Statistics
Matches: 606, Mismatches: 177, Indels: 59
0.72 0.21 0.07
Matches are distributed among these distances:
43 12 0.02
44 320 0.53
45 194 0.32
46 15 0.02
47 2 0.00
48 9 0.01
49 25 0.04
50 25 0.04
51 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
Found at i:82609074 original size:133 final size:132
Alignment explanation
Indices: 82608735--82609266 Score: 463
Period size: 133 Copynumber: 4.0 Consensus size: 132
82608725 GGACTTGTTA
* * * * * *
82608735 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTTAATCTGCTCTACTAAAA
1 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTA-CTTTAACCTACTCCACTATAA
* * * * *
82608800 CTTCAGGGAGATAAGGTTTATAACTTTAATCTGCTCTAGTGCAACTTCAGAGAGATAAGATTTTC
65 CTTCAGGGAAATAAGGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTCC
82608865 TAT
130 TAT
* * * * * * ** ** * *
82608868 CTTCAGTCTGCTCTACTATAAATTCAGGGAGATAAGACTTGTGGCTTTAATTTGTTCCTCTACAA
1 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTTGT-ACTTTAACCTACTCCACTATAA
* * * * * * * *
82608933 ATTTAGGGAAATATGATTTATAGCATTAATCTGCTCTACTGCAACTTCAGAGAGATAATATTTGC
65 CTTCAGGGAAATAAGGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTCC
82608998 TAT
130 TAT
* * * * *
82609001 ATTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAATTTCAACCTACTCCACTGTAA
1 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTACTTT-AACCTACTCCACTATAA
* * * * * * *
82609066 CTTCAGGGAGATAAGGTTTGTGGCTTTAATCTACTCCATTGCAACTTCGGGGAGATAAGATTCGT
65 CTTCAGGGAAATAAGGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT--T
*
82609131 AACCCAT
128 --CCTAT
* * * * * *
82609138 CTTCAATCTACTCCACTATAACATCAGGGAGA-AAGATTTGTTTATTTTTAACCTACTTCACTGT
1 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTTG--TA-CTTTAACCTACTCCACTAT
* * * * * *
82609202 AATTTCAGGGAAATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTT
63 AACTTCAGGGAAATAAGGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
82609267 TCCATGATAA
Statistics
Matches: 323, Mismatches: 67, Indels: 15
0.80 0.17 0.04
Matches are distributed among these distances:
132 3 0.01
133 205 0.63
135 1 0.00
136 8 0.02
137 30 0.09
138 73 0.23
139 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (132 bp):
CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTACTTTAACCTACTCCACTATAAC
TTCAGGGAAATAAGGTTTATAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTCCT
AT
Found at i:82625163 original size:21 final size:19
Alignment explanation
Indices: 82625139--82625194 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
82625129 ATGAGTTTTC
82625139 AAAAGAAATAAAATTAAAAAT
1 AAAAGAAATAAAA-T-AAAAT
*
82625160 AAAATAAATAAAATAAAAT
1 AAAAGAAATAAAATAAAAT
*
82625179 AAAA-TAA-AAAATAAAA
1 AAAAGAAATAAAATAAAA
82625195 AAGATAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.27
18 2 0.06
19 9 0.27
20 1 0.03
21 12 0.36
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAAGAAATAAAATAAAAT
Found at i:82625168 original size:9 final size:9
Alignment explanation
Indices: 82625156--82625186 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
82625146 ATAAAATTAA
82625156 AAATAAAAT
1 AAATAAAAT
82625165 AAATAAAAT
1 AAATAAAAT
82625174 AAAATAAAAT
1 -AAATAAAAT
82625184 AAA
1 AAA
82625187 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:82625173 original size:26 final size:25
Alignment explanation
Indices: 82625145--82625201 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
82625135 TTTCAAAAGA
*
82625145 AATAAAATTAAAA-ATAAAATAAATAA
1 AATAAAA-TAAAATAAAAAATAAA-AA
82625171 AATAAAATAAAATAAAAAATAAAAA
1 AATAAAATAAAATAAAAAATAAAAA
82625196 AGATAA
1 A-ATAA
82625202 TCTAATTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (25 bp):
AATAAAATAAAATAAAAAATAAAAA
Found at i:82625174 original size:14 final size:15
Alignment explanation
Indices: 82625144--82625187 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
82625134 TTTTCAAAAG
82625144 AAATAAAATTAAAAATA
1 AAATAAAA-T-AAAATA
82625161 AAAT-AAATAAAATA
1 AAATAAAATAAAATA
82625175 AAATAAAATAAAA
1 AAATAAAATAAAA
82625188 AATAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.38
15 9 0.35
16 3 0.12
17 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAAAATAAAATA
Found at i:82625194 original size:5 final size:5
Alignment explanation
Indices: 82625144--82625187 Score: 63
Period size: 5 Copynumber: 8.6 Consensus size: 5
82625134 TTTTCAAAAG
82625144 AAATA AAATTAA AAATA AAAT- AAATA AAATA AAATA AAATA AAA
1 AAATA AAA-T-A AAATA AAATA AAATA AAATA AAATA AAATA AAA
82625188 AATAAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.11
5 26 0.72
6 2 0.06
7 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:82625196 original size:19 final size:19
Alignment explanation
Indices: 82625148--82625196 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
82625138 CAAAAGAAAT
*
82625148 AAAATTAAAAATAAAATAA
1 AAAATAAAAAATAAAATAA
*
82625167 ATAAA-ATAAAATAAAATAA
1 A-AAATAAAAAATAAAATAA
82625186 AAAATAAAAAA
1 AAAATAAAAAA
82625197 GATAATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATAAAAAATAAAATAA
Found at i:82625201 original size:16 final size:17
Alignment explanation
Indices: 82625144--82625194 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
82625134 TTTTCAAAAG
*
82625144 AAATAAAATTAAAAATA
1 AAATAAAATAAAAAATA
82625161 AAAT-AAAT--AAAATA
1 AAATAAAATAAAAAATA
82625175 AAATAAAATAAAAAATA
1 AAATAAAATAAAAAATA
82625192 AAA
1 AAA
82625195 AAGATAATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.32
15 4 0.13
16 4 0.13
17 13 0.42
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAAATAAAAAATA
Found at i:82629622 original size:13 final size:13
Alignment explanation
Indices: 82629604--82629643 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
82629594 GCTCAGCAGG
*
82629604 GACACGTCCGTGT
1 GACACGCCCGTGT
82629617 GACACGCCCGTGT
1 GACACGCCCGTGT
82629630 GACACGCCCGTGT
1 GACACGCCCGTGT
82629643 G
1 G
82629644 CGATATCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.35, G:0.33, T:0.17
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:82630655 original size:3 final size:3
Alignment explanation
Indices: 82630647--82630689 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
82630637 ACGGTTTAAA
*
82630647 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
82630690 CAAAGAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:82631646 original size:21 final size:22
Alignment explanation
Indices: 82631622--82631663 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
82631612 TTTCTTTCCT
*
82631622 TTTTTG-ATTCGATTCTCTGTA
1 TTTTTGTATTCAATTCTCTGTA
*
82631643 TTTTTGTATTCAATTGTCTGT
1 TTTTTGTATTCAATTCTCTGT
82631664 GTTTGCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (22 bp):
TTTTTGTATTCAATTCTCTGTA
Found at i:82632217 original size:31 final size:31
Alignment explanation
Indices: 82632182--82632248 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
82632172 ATTCCTCTCT
*
82632182 ATATTAATCCTATTTGTTTATCAAAATAATA
1 ATATTAATCCTATTTATTTATCAAAATAATA
82632213 ATATTAATCCTATTTATTTATCAAAATAATA
1 ATATTAATCCTATTTATTTATCAAAATAATA
*
82632244 GTATT
1 ATATT
82632249 TGAGATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (31 bp):
ATATTAATCCTATTTATTTATCAAAATAATA
Found at i:82633345 original size:19 final size:20
Alignment explanation
Indices: 82633306--82633345 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
82633296 TACATTCATA
*
82633306 TATAAATTAAAATTTATCAT
1 TATAAATTAAAATTTAACAT
*
82633326 TATAAA-TAATATTTAACAT
1 TATAAATTAAAATTTAACAT
82633345 T
1 T
82633346 GGCTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAAATTAAAATTTAACAT
Found at i:82640576 original size:26 final size:26
Alignment explanation
Indices: 82640540--82640591 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
82640530 TAGTAGAAAA
*
82640540 GATACTAATCAAATTAAGGTTCAATC
1 GATACTAATCAAATTAAGGCTCAATC
82640566 GATACTAATCAAATTAAGGCTCAATC
1 GATACTAATCAAATTAAGGCTCAATC
82640592 TTATATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (26 bp):
GATACTAATCAAATTAAGGCTCAATC
Found at i:82643169 original size:10 final size:10
Alignment explanation
Indices: 82643154--82643178 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
82643144 TATACACGAG
82643154 ATATACATAT
1 ATATACATAT
82643164 ATATACATAT
1 ATATACATAT
82643174 ATATA
1 ATATA
82643179 TAATTATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:82645362 original size:14 final size:14
Alignment explanation
Indices: 82645343--82645373 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
82645333 TTGATTTTTG
82645343 AAAACAGAAATTGA
1 AAAACAGAAATTGA
82645357 AAAACAGAAATTGA
1 AAAACAGAAATTGA
82645371 AAA
1 AAA
82645374 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAACAGAAATTGA
Found at i:82645490 original size:73 final size:73
Alignment explanation
Indices: 82645353--82645498 Score: 202
Period size: 73 Copynumber: 2.0 Consensus size: 73
82645343 AAAACAGAAA
* * * * * *
82645353 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCTCCTCTCACAGTATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGCCCCGAGGCTCAACTCGCCTCCCACAATATGA
82645418 GTTGATTT
66 GTTGATTT
* * * *
82645426 TTGACAAACAGCAATTGAAAATACCTCAGCGCGCCCCGAGGCTCAACTCGCCTCCCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGCCCCGAGGCTCAACTCGCCTCCCACAATATGA
82645491 GTTGATTT
66 GTTGATTT
82645499 AAAAAAACAG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCACGCCCCGAGGCTCAACTCGCCTCCCACAATATGA
GTTGATTT
Found at i:82645612 original size:14 final size:14
Alignment explanation
Indices: 82645593--82645620 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
82645583 TTTTTTTAGG
82645593 ACAGAAATTGAAAA
1 ACAGAAATTGAAAA
82645607 ACAGAAATTGAAAA
1 ACAGAAATTGAAAA
82645621 TACCTCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
ACAGAAATTGAAAA
Found at i:82645650 original size:88 final size:88
Alignment explanation
Indices: 82645426--82645939 Score: 569
Period size: 88 Copynumber: 5.9 Consensus size: 88
82645416 GAGTTGATTT
* * * * * * *
82645426 TTGACAAACAGCAATTGAAAATACCTCAGCGCGCCCCGAGGCTCAACTCGCCTCCCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
82645491 GTTGA--TTTAAAAAAACAGACA
66 GTTGATTTTTTAAAAGACAGAAA
* * * * *
82645512 -T-AAAAATAGAAATTGAAAGTGA-CTCAACACGTGAGCC-AAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTGAAAAT-ACCTC-A-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
** *
82645573 ATGAGTTGATTTTTTTTAGGACAGAAA
62 ATGAGTTGATTTTTTAAAAGACAGAAA
82645600 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
** *
82645665 GTTGATTTTTTTTAGGACAGAAA
66 GTTGATTTTTTAAAAGACAGAAA
* *
82645688 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
82645753 GTTAATTTTTGAAAAG-CATAAA
66 GTTGATTTTTTAAAAGACAGAAA
** * *
82645775 TTGAAAAAACATTAATTGAAAATACCTCAGCGT-TCCCCGAGGCTCAACTCACCTCTCGTAATAT
1 TTG-AAAAACAGAAATTGAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
82645839 GAGTTAATTTTTGAAAAG-CATAAA
64 GAGTTGATTTTTTAAAAGACAGAAA
** * *
82645863 TTGAAAAAACATTAATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACATCTCGCAATATG
1 TTG-AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
82645928 AGTTGATTTTTT
65 AGTTGATTTTTT
82645940 TTTGAAGGAC
Statistics
Matches: 376, Mismatches: 39, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
84 18 0.05
85 3 0.01
86 33 0.09
87 13 0.03
88 285 0.76
89 4 0.01
90 20 0.05
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (88 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTAAAAGACAGAAA
Found at i:82645700 original size:14 final size:14
Alignment explanation
Indices: 82645681--82645708 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
82645671 TTTTTTTAGG
82645681 ACAGAAATTGAAAA
1 ACAGAAATTGAAAA
82645695 ACAGAAATTGAAAA
1 ACAGAAATTGAAAA
82645709 TACCTCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
ACAGAAATTGAAAA
Found at i:82646061 original size:76 final size:76
Alignment explanation
Indices: 82645876--82646405 Score: 517
Period size: 75 Copynumber: 6.9 Consensus size: 76
82645866 AAAAAACATT
* * * **
82645876 AATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*** * *
82645941 TTGA-AGGACAGA
66 AACATA-TA-AAA
* *
82645953 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
82646018 AACATATAAAA
66 AACATATAAAA
* *
82646029 AATTGACAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCG-AATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
82646093 AACATATAAAA
66 AACATATAAAA
* * * *
82646104 AATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGACTTGA-TTGTG-
1 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
****
82646167 -ACA-AGCTGA
66 AACATATAAAA
* *
82646176 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
*
82646241 GAAAACAGAATTTGCAAAA
64 G-AAAC---ATAT--AAAA
** * * *
82646260 TAGATTTTGAAAATACCTTGGCATGTGACCCGAGGCGCAACTCACCTCTCGTAATATGAGTTGAT
1 -A-A--TTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
82646325 TTTTGAAAAGCAT-T----
60 TTTTG-AAA-CATATAAAA
* *
82646339 AATTGAAAATACCTCAGCGT-TCCCCGAGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
82646403 AAA
65 AAA
82646406 AGCGTAAATT
Statistics
Matches: 386, Mismatches: 45, Indels: 49
0.80 0.09 0.10
Matches are distributed among these distances:
72 58 0.15
73 45 0.12
75 95 0.25
76 54 0.14
77 63 0.16
78 4 0.01
81 1 0.00
84 1 0.00
85 2 0.01
86 3 0.01
88 23 0.06
89 1 0.00
90 36 0.09
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (76 bp):
AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AACATATAAAA
Found at i:82646395 original size:163 final size:162
Alignment explanation
Indices: 82646104--82646646 Score: 581
Period size: 163 Copynumber: 3.4 Consensus size: 162
82646094 ACATATAAAA
* * * * *
82646104 AATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGACTTGA-TTGTGA
1 AATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* *
82646168 CAAGC-TGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
66 AAAGCAT-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
82646232 GATTTTTTTGAAAA-CAG-AATTTGCAAAATAGAT
130 GATTTTTTTGAAAAGC-GTAAATTG-AAAAAACAT
* ** * *
82646265 -TTTGAAAATACCTTGGCATGTGACCCGAGGCGCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
82646329 GAAAAGCATTAATTGAAAATACCTCAGCGT-TCCCCGAGGCTCAACTCACCTCTTGTAATATGAG
64 GAAAAGCATAAATTGAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
82646393 TTGA--TTTTTGAAAAGCGTAAATTGAAAAAACAT
128 TTGATTTTTTTGAAAAGCGTAAATTGAAAAAACAT
*
82646426 CAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 -AATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TT
* * *
82646491 TTTG-AAGGACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
61 TTTGAAAAG-CATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
82646555 GAGTTGA--TTTTTG-AAA-C----A-T--ACAAA-A-
125 GAGTTGATTTTTTTGAAAAGCGTAAATTGAAAAAACAT
* * *
82646580 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTGA
1 AATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
82646645 AA
66 AA
82646647 TAAAAACATC
Statistics
Matches: 329, Mismatches: 37, Indels: 43
0.80 0.09 0.11
Matches are distributed among these distances:
149 5 0.02
150 2 0.01
153 55 0.17
155 1 0.00
156 4 0.01
158 1 0.00
159 1 0.00
160 16 0.05
161 51 0.16
162 39 0.12
163 80 0.24
164 7 0.02
165 66 0.20
166 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (162 bp):
AATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AAAGCATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGAAAAGCGTAAATTGAAAAAACAT
Found at i:82646554 original size:77 final size:79
Alignment explanation
Indices: 82645876--82646642 Score: 426
Period size: 76 Copynumber: 9.8 Consensus size: 79
82645866 AAAAAACATT
** *
82645876 AATTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
* *
82645941 TTG-AA-GGAC-AGA
65 TTGAAACAGACAAAA
* *
82645953 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGA---TTTT
1 AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
82646015 TGAAACATATAAAA
66 TGAAACAGACAAAA
* * **
82646029 AATTGACAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCG-AATATGAGTTGA---TTTT
1 AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
82646090 TGAAACATATAAAA
66 TGAAACAGACAAAA
* * * * * *
82646104 AATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGACTTGA----TTG
1 AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* **
82646165 TGACA-AG-C-TGA
66 TGAAACAGACAAAA
* *
82646176 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
1 AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
82646240 TGAAAACAGAATTTGCAAAA
66 TG-AAACAG-A----CAAAA
** * * *
82646260 TAGATTTTGAAAATACCTTGGCATGTGACCCGAGGCGCAACTCACCTCTCGTAATATGAGTTGA-
1 -A-A--TTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
**
82646324 --TTTTTGAAA-AG-C-ATT
60 TTTTTTTGAAACAGACAAAA
* * * *
82646339 AATTGAAAATACCTCAGCGT-TCCCCGAGGCTCAACTCACCTCTTGTAATATGAGTTGA---TTT
1 AATTGAAAATACCTCAGCATGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
**
82646400 TTGAAA-AG-C-GTA
65 TTGAAACAGACAAAA
* * * ** * * * * * *
82646412 AATTGAAAAAACATCAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCAC-C--TCTCGCA
1 AATTGAAAATACCTC-A--GCATGT-CCT--G-A-G-GCTCA-ACTCACCTCTCGCAATAT-G-A
* * * *
82646474 ATATGAGTTGATTTTTTTTTG-AA-GGAC-AGA
54 GT-TGA-TT-TTTTT----TGAAACAGACAAAA
82646504 AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT
1 AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
82646566 TGAAACATACAAAA
66 TGAAACAGACAAAA
* * * *
82646580 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTT
1 AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
82646643 GAAATAAAAA
Statistics
Matches: 553, Mismatches: 83, Indels: 106
0.75 0.11 0.14
Matches are distributed among these distances:
72 54 0.10
73 68 0.12
74 7 0.01
75 101 0.18
76 114 0.21
77 65 0.12
78 1 0.00
79 4 0.01
80 4 0.01
81 2 0.00
82 16 0.03
83 17 0.03
84 3 0.01
85 4 0.01
86 4 0.01
87 3 0.01
88 29 0.05
89 3 0.01
90 33 0.06
91 4 0.01
92 17 0.03
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (79 bp):
AATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
TGAAACAGACAAAA
Found at i:82646593 original size:476 final size:465
Alignment explanation
Indices: 82645698--82646637 Score: 1169
Period size: 476 Copynumber: 2.0 Consensus size: 465
82645688 TTGAAAAACA
*
82645698 GAAATTGAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGTAATATGAGTTAATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTT
* ** *
82645763 GAAAAGCATAAATTGAAAAAACATTAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACC
66 GAAAAGCAGAAATTGAAAAAACATT-ATTGAAAATACCTCAGCGTGACCCGAGGCGCAACTCACC
82645828 TCTCGTAATATGAGTTAATTTTTGAAAAGCATAAATTGAAAAAACATTAATTGAAAATACCTCAG
130 TCTCGTAATATGAGTTAATTTTT----AGCATAAA-TG-----ACATTAATTGAAAATACCTCAG
* * **
82645893 CGCGTCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTTTGAAGGACAGAAATTG
185 CGCGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTATTGAAAAACAGAAATTG
*
82645958 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAACAT
250 AAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAACAT
* * *
82646023 ATAAAAAATTGACAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGAATATGAGTTGATT
315 AGAAAAAATTGAAAATACCTCAGCATGTCCCAAGGCTCAACTCACCTCTCGAATATGAGTTGATT
* *
82646088 TTTGAAACATATAAAAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAAT
380 TTTGAAACATACAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAAT
*
82646153 ATGACTTGATTGTGACAAGCT
445 ATGAATTGATTGTGACAAGCT
* * *
82646174 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTT-A-ATTT
* * * **
82646239 TTGAAAA-CAGAATTTGCAAAATAGATT-TTGAAAATACCTTGGCATGTGACCCGAGGCGCAACT
64 TTGAAAAGCAGAAATTG-AAAAAACATTATTGAAAATACCTCAGC--GTGACCCGAGGCGCAACT
* *
82646302 CACCTCTCGTAATATGAGTTGATTTTT-G-A-AAA-G-CATTAATTGAAAATACCTCAGCG-TTC
126 CACCTCTCGTAATATGAGTTAATTTTTAGCATAAATGACATTAATTGAAAATACCTCAGCGCGT-
* * * *
82646361 CCCGAGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTTGAAAAGCGTAAATTGAAAAAACAT
190 CCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTT--------T--ATTG-AAAAACAG
* * *
82646426 CAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
244 AAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTG
**** * **
82646491 TTTGA-AGGACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
309 AAACATA-GA-AAAAATTGAAAATACCTCAGCATGTCCCAAGGCTCAACTCACCTCTCG-AATAT
82646555 GAGTTGATTTTTGAAACATACAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACC
371 GAGTTGATTTTTGAAACATACAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACC
*
82646620 TCTCGCAATATGAATTGA
436 TCTCACAATATGAATTGA
82646638 ATTTTGAAAT
Statistics
Matches: 403, Mismatches: 41, Indels: 40
0.83 0.08 0.08
Matches are distributed among these distances:
462 1 0.00
463 60 0.15
469 1 0.00
471 4 0.01
472 1 0.00
473 5 0.01
474 68 0.17
475 43 0.11
476 153 0.38
477 8 0.02
478 59 0.15
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (465 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTT
GAAAAGCAGAAATTGAAAAAACATTATTGAAAATACCTCAGCGTGACCCGAGGCGCAACTCACCT
CTCGTAATATGAGTTAATTTTTAGCATAAATGACATTAATTGAAAATACCTCAGCGCGTCCCGAG
GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTATTGAAAAACAGAAATTGAAAATACCTCA
GCATGTCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAACATAGAAAAAATTG
AAAATACCTCAGCATGTCCCAAGGCTCAACTCACCTCTCGAATATGAGTTGATTTTTGAAACATA
CAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAATTGATT
GTGACAAGCT
Found at i:82650592 original size:94 final size:94
Alignment explanation
Indices: 82650431--82650622 Score: 366
Period size: 94 Copynumber: 2.0 Consensus size: 94
82650421 GAAGTCCCAA
82650431 TCTTCACTTCTTGCTTCCTTTTTTCAGTTCCCAGATTTATTGTTTCAACAGACTCTTGATGAGGC
1 TCTTCACTTCTTGCTTCCTTTTTTCAGTTCCCAGATTTATTGTTTCAACAGACTCTTGATGAGGC
82650496 AAAATCTGTTTATCCTCTCGTTCCACCAT
66 AAAATCTGTTTATCCTCTCGTTCCACCAT
82650525 TCTTCACTTCTTGCTTCCTTTTTTCAGTTCCCAGATTTATTGTTTCAACAGACTCTTGATGAGGC
1 TCTTCACTTCTTGCTTCCTTTTTTCAGTTCCCAGATTTATTGTTTCAACAGACTCTTGATGAGGC
* *
82650590 AAAATCTGTTTATTCTCTCGTTCCATCAT
66 AAAATCTGTTTATCCTCTCGTTCCACCAT
82650619 TCTT
1 TCTT
82650623 AGCAAGTCAG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (94 bp):
TCTTCACTTCTTGCTTCCTTTTTTCAGTTCCCAGATTTATTGTTTCAACAGACTCTTGATGAGGC
AAAATCTGTTTATCCTCTCGTTCCACCAT
Found at i:82659092 original size:10 final size:10
Alignment explanation
Indices: 82659077--82659101 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
82659067 TATACACGAG
82659077 ATATACATAT
1 ATATACATAT
82659087 ATATACATAT
1 ATATACATAT
82659097 ATATA
1 ATATA
82659102 TAATTATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:82659926 original size:10 final size:10
Alignment explanation
Indices: 82659911--82659935 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
82659901 TATACACGAG
82659911 ATATACATAT
1 ATATACATAT
82659921 ATATACATAT
1 ATATACATAT
82659931 ATATA
1 ATATA
82659936 TAATTATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:82660168 original size:834 final size:834
Alignment explanation
Indices: 82658560--82660228 Score: 3320
Period size: 834 Copynumber: 2.0 Consensus size: 834
82658550 ACGATATACT
82658560 TAATAGTAACAAATATAAATAAAACTATATACATAATGGTATTAAAAGGATAGATATATAATATA
1 TAATAGTAACAAATATAAATAAAACTATATACATAATGGTATTAAAAGGATAGATATATAATATA
82658625 ATATGAAGAATGTATATACATAATATGATCAAAATACGTAGATGGAATAGTTTAAGAAATATATA
66 ATATGAAGAATGTATATACATAATATGATCAAAATACGTAGATGGAATAGTTTAAGAAATATATA
82658690 TGCATGAGAACATAAAAAATAAGTGCATAATAAAATATATACAATATGTACCTGTACTAGAATGA
131 TGCATGAGAACATAAAAAATAAGTGCATAATAAAATATATACAATATGTACCTGTACTAGAATGA
82658755 TAATAGTATATATATAAAAAACTGTACACATGCTACATAAATACGTATATATATATAAAATAAAA
196 TAATAGTATATATATAAAAAACTGTACACATGCTACATAAATACGTATATATATATAAAATAAAA
82658820 GCGGTGTTAGGAATATGTACATAAGATGGTATTAAGAGCATAAAAAATATAATATTGAGAGCATA
261 GCGGTGTTAGGAATATGTACATAAGATGGTATTAAGAGCATAAAAAATATAATATTGAGAGCATA
82658885 TATACATAATATATAATACACAGATGATATATACATATACATTAGCAAAGATAACGATATAAAAT
326 TATACATAATATATAATACACAGATGATATATACATATACATTAGCAAAGATAACGATATAAAAT
82658950 GAACTCATTAATACGCTTCGTAGATATATACGTATATGGATATAAATAATAAGGATAAAGAAATA
391 GAACTCATTAATACGCTTCGTAGATATATACGTATATGGATATAAATAATAAGGATAAAGAAATA
82659015 CTTAATATAATACTTGAAGTATATACATAATATGAATTATAATATTAAAATATATACACGAGATA
456 CTTAATATAATACTTGAAGTATATACATAATATGAATTATAATATTAAAATATATACACGAGATA
82659080 TACATATATATACATATATATATAATTATGCAATGAGATATATCAATAGTGATGATAGTAATATT
521 TACATATATATACATATATATATAATTATGCAATGAGATATATCAATAGTGATGATAGTAATATT
82659145 GAAATAAAAAGCAAATATAATAAAGATATTAAAATAAAATAATAAGGTAACACCATCAATATATA
586 GAAATAAAAAGCAAATATAATAAAGATATTAAAATAAAATAATAAGGTAACACCATCAATATATA
*
82659210 TACACATACGTATATGATAAATATACACTACTATATGTAATAGATAAATATAATAAATATATATA
651 TACACATACGTATATGATAAATATACACTACTACATGTAATAGATAAATATAATAAATATATATA
82659275 GAGATTATAAATAATAAATAAAAAGAATGACAAAATTAATTATTAAAATATCAAAATGATGAAGA
716 GAGATTATAAATAATAAATAAAAAGAATGACAAAATTAATTATTAAAATATCAAAATGATGAAGA
82659340 GGGGTTAAGATGTAAACAAAACAGAAAGCGCGGGATAAATTTTAAAATAAAAAA
781 GGGGTTAAGATGTAAACAAAACAGAAAGCGCGGGATAAATTTTAAAATAAAAAA
82659394 TAATAGTAACAAATATAAATAAAACTATATACATAATGGTATTAAAAGGATAGATATATAATATA
1 TAATAGTAACAAATATAAATAAAACTATATACATAATGGTATTAAAAGGATAGATATATAATATA
82659459 ATATGAAGAATGTATATACATAATATGATCAAAATACGTAGATGGAATAGTTTAAGAAATATATA
66 ATATGAAGAATGTATATACATAATATGATCAAAATACGTAGATGGAATAGTTTAAGAAATATATA
82659524 TGCATGAGAACATAAAAAATAAGTGCATAATAAAATATATACAATATGTACCTGTACTAGAATGA
131 TGCATGAGAACATAAAAAATAAGTGCATAATAAAATATATACAATATGTACCTGTACTAGAATGA
82659589 TAATAGTATATATATAAAAAACTGTACACATGCTACATAAATACGTATATATATATAAAATAAAA
196 TAATAGTATATATATAAAAAACTGTACACATGCTACATAAATACGTATATATATATAAAATAAAA
82659654 GCGGTGTTAGGAATATGTACATAAGATGGTATTAAGAGCATAAAAAATATAATATTGAGAGCATA
261 GCGGTGTTAGGAATATGTACATAAGATGGTATTAAGAGCATAAAAAATATAATATTGAGAGCATA
82659719 TATACATAATATATAATACACAGATGATATATACATATACATTAGCAAAGATAACGATATAAAAT
326 TATACATAATATATAATACACAGATGATATATACATATACATTAGCAAAGATAACGATATAAAAT
82659784 GAACTCATTAATACGCTTCGTAGATATATACGTATATGGATATAAATAATAAGGATAAAGAAATA
391 GAACTCATTAATACGCTTCGTAGATATATACGTATATGGATATAAATAATAAGGATAAAGAAATA
82659849 CTTAATATAATACTTGAAGTATATACATAATATGAATTATAATATTAAAATATATACACGAGATA
456 CTTAATATAATACTTGAAGTATATACATAATATGAATTATAATATTAAAATATATACACGAGATA
82659914 TACATATATATACATATATATATAATTATGCAATGAGATATATCAATAGTGATGATAGTAATATT
521 TACATATATATACATATATATATAATTATGCAATGAGATATATCAATAGTGATGATAGTAATATT
82659979 GAAATAAAAAGCAAATATAATAAAGATATTAAAATAAAATAATAAGGTAACACCATCAATATATA
586 GAAATAAAAAGCAAATATAATAAAGATATTAAAATAAAATAATAAGGTAACACCATCAATATATA
82660044 TACACATACGTATATGATAAATATACACTACTACATGTAATAGATAAATATAATAAATATATATA
651 TACACATACGTATATGATAAATATACACTACTACATGTAATAGATAAATATAATAAATATATATA
82660109 GAGATTATAAATAATAAATAAAAAGAATGACAAAATTAATTATTAAAATATCAAAATGATGAAGA
716 GAGATTATAAATAATAAATAAAAAGAATGACAAAATTAATTATTAAAATATCAAAATGATGAAGA
*
82660174 GGGGTTAAGATGTAAACAAAATAGAAAGCGCGGGATAAATTTTAAAATAAAAAA
781 GGGGTTAAGATGTAAACAAAACAGAAAGCGCGGGATAAATTTTAAAATAAAAAA
82660228 T
1 T
82660229 CAAAGGAGAA
Statistics
Matches: 833, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
834 833 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (834 bp):
TAATAGTAACAAATATAAATAAAACTATATACATAATGGTATTAAAAGGATAGATATATAATATA
ATATGAAGAATGTATATACATAATATGATCAAAATACGTAGATGGAATAGTTTAAGAAATATATA
TGCATGAGAACATAAAAAATAAGTGCATAATAAAATATATACAATATGTACCTGTACTAGAATGA
TAATAGTATATATATAAAAAACTGTACACATGCTACATAAATACGTATATATATATAAAATAAAA
GCGGTGTTAGGAATATGTACATAAGATGGTATTAAGAGCATAAAAAATATAATATTGAGAGCATA
TATACATAATATATAATACACAGATGATATATACATATACATTAGCAAAGATAACGATATAAAAT
GAACTCATTAATACGCTTCGTAGATATATACGTATATGGATATAAATAATAAGGATAAAGAAATA
CTTAATATAATACTTGAAGTATATACATAATATGAATTATAATATTAAAATATATACACGAGATA
TACATATATATACATATATATATAATTATGCAATGAGATATATCAATAGTGATGATAGTAATATT
GAAATAAAAAGCAAATATAATAAAGATATTAAAATAAAATAATAAGGTAACACCATCAATATATA
TACACATACGTATATGATAAATATACACTACTACATGTAATAGATAAATATAATAAATATATATA
GAGATTATAAATAATAAATAAAAAGAATGACAAAATTAATTATTAAAATATCAAAATGATGAAGA
GGGGTTAAGATGTAAACAAAACAGAAAGCGCGGGATAAATTTTAAAATAAAAAA
Found at i:82664074 original size:17 final size:18
Alignment explanation
Indices: 82664048--82664088 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
82664038 TTTGTTCCGT
82664048 TTTTTAGTAAGTTTTATG
1 TTTTTAGTAAGTTTTATG
*
82664066 TTTTT-GTAATTTTTATG
1 TTTTTAGTAAGTTTTATG
82664083 TTTTTA
1 TTTTTA
82664089 TAATTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTTAGTAAGTTTTATG
Found at i:82664092 original size:17 final size:17
Alignment explanation
Indices: 82664048--82664093 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
82664038 TTTGTTCCGT
*
82664048 TTTTTAGTAAGTTTTATG
1 TTTTTA-TAATTTTTATG
*
82664066 TTTTTGTAATTTTTATG
1 TTTTTATAATTTTTATG
82664083 TTTTTATAATT
1 TTTTTATAATT
82664094 GTTTTAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTTTATAATTTTTATG
Found at i:82669027 original size:42 final size:43
Alignment explanation
Indices: 82668968--82669055 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 43
82668958 ACGGTTTGGG
** * *
82668968 ACACGGCTTGCAACATGGTTGTGTGA-CCTTATTTCGATTTGT
1 ACACGGCTTGCAACATGGCCGTGTGACCCTCATTTCGAATTGT
* * *
82669010 ACACGGGTTGCGACATGGCCGTGTGACCCTCATTTTGAATTGT
1 ACACGGCTTGCAACATGGCCGTGTGACCCTCATTTCGAATTGT
82669053 ACA
1 ACA
82669056 TAGTTTGGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 22 0.58
43 16 0.42
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (43 bp):
ACACGGCTTGCAACATGGCCGTGTGACCCTCATTTCGAATTGT
Done.