Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 179 of 352
Found at i:58726338 original size:82 final size:81
Alignment explanation
Indices: 58726167--58726347 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
58726157 GATTAAATTG
* *
58726167 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
58726232 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
58726248 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCAC
* **
58726311 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
58726330 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58726348 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58730273 original size:15 final size:16
Alignment explanation
Indices: 58730243--58730276 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
58730233 AGTCTAACTG
58730243 GTCCAATTAACAGACAA
1 GTCCAATT-ACAGACAA
58730260 GTCCAATT-CAGACAA
1 GTCCAATTACAGACAA
58730275 GT
1 GT
58730277 AGCCTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.21
Consensus pattern (16 bp):
GTCCAATTACAGACAA
Found at i:58737659 original size:16 final size:16
Alignment explanation
Indices: 58737640--58737670 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58737630 GAAGGCACTT
58737640 TTGAGTTATAAAAATG
1 TTGAGTTATAAAAATG
*
58737656 TTGAGTTATGAAAAT
1 TTGAGTTATAAAAAT
58737671 TAAAGACGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (16 bp):
TTGAGTTATAAAAATG
Found at i:58737714 original size:11 final size:11
Alignment explanation
Indices: 58737698--58737723 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58737688 AGTTAAAAAG
58737698 AAAAAAAGAAA
1 AAAAAAAGAAA
58737709 AAAAAAAGAAA
1 AAAAAAAGAAA
58737720 AAAA
1 AAAA
58737724 GAAAAGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:58737716 original size:19 final size:19
Alignment explanation
Indices: 58737692--58737728 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
58737682 CTAGGAAGTT
58737692 AAAAAGAAAAAAAGAAAAA
1 AAAAAGAAAAAAAGAAAAA
58737711 AAAAAGAAAAAAAGAAAA
1 AAAAAGAAAAAAAGAAAA
58737729 GACTTATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAAGAAAAA
Found at i:58738094 original size:23 final size:24
Alignment explanation
Indices: 58738062--58738109 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
58738052 TAAAGCTTTT
*
58738062 TAAGGGTTTTT-GTTTAGGATTTG
1 TAAGGATTTTTAGTTTAGGATTTG
58738085 TAAGGATTTTTAGAGTTTAGGATTT
1 TAAGGATTTTT--AGTTTAGGATTT
58738110 AGGTCTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
26 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (24 bp):
TAAGGATTTTTAGTTTAGGATTTG
Found at i:58738403 original size:12 final size:12
Alignment explanation
Indices: 58738386--58738411 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58738376 CGAAATTTTG
58738386 AAAAATAAAATA
1 AAAAATAAAATA
58738398 AAAAATAAAATA
1 AAAAATAAAATA
58738410 AA
1 AA
58738412 GAACACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:58745011 original size:13 final size:13
Alignment explanation
Indices: 58744995--58745027 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58744985 TGAGAGAATT
58744995 TAAATAAATAAAA
1 TAAATAAATAAAA
*
58745008 TAAATAAATAATA
1 TAAATAAATAAAA
58745021 -AAATAAA
1 TAAATAAA
58745028 CAAACGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:58745016 original size:8 final size:9
Alignment explanation
Indices: 58744996--58745027 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
58744986 GAGAGAATTT
58744996 AAATAAATA
1 AAATAAATA
58745005 AAATAAAT-
1 AAATAAATA
58745013 AAAT-AATA
1 AAATAAATA
58745021 AAATAAA
1 AAATAAA
58745028 CAAACGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 3 0.14
8 8 0.38
9 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAATA
Found at i:58746706 original size:18 final size:18
Alignment explanation
Indices: 58746683--58746720 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58746673 GACTTATGAC
58746683 TTAGTATGCATTCGCTGG
1 TTAGTATGCATTCGCTGG
*
58746701 TTAGTATGCATTTGCTGG
1 TTAGTATGCATTCGCTGG
58746719 TT
1 TT
58746721 TAAGTAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45
Consensus pattern (18 bp):
TTAGTATGCATTCGCTGG
Found at i:58757786 original size:30 final size:30
Alignment explanation
Indices: 58757741--58757800 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58757731 ATTTAATATG
*
58757741 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
58757771 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
58757801 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:58759261 original size:18 final size:18
Alignment explanation
Indices: 58759238--58759273 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58759228 AAGAAGATAG
58759238 TTACAAAAATTGATTATA
1 TTACAAAAATTGATTATA
58759256 TTACAAAAATTGATTATA
1 TTACAAAAATTGATTATA
58759274 GAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TTACAAAAATTGATTATA
Found at i:58759281 original size:18 final size:18
Alignment explanation
Indices: 58759240--58759281 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
58759230 GAAGATAGTT
**
58759240 ACAAAAATTGATTATATT
1 ACAAAAATTGATTATAGA
58759258 ACAAAAATTGATTATAGA
1 ACAAAAATTGATTATAGA
*
58759276 ATAAAA
1 ACAAAA
58759282 TTATACACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (18 bp):
ACAAAAATTGATTATAGA
Found at i:58763292 original size:11 final size:11
Alignment explanation
Indices: 58763230--58763300 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
58763220 ACGAACTAAA
* *
58763230 AGAATTAAGTG
1 AGAATTGAGAG
*
58763241 AGAATTAAGAG
1 AGAATTGAGAG
*
58763252 AGAATTGAAAG
1 AGAATTGAGAG
*
58763263 AGGATTGAGA-
1 AGAATTGAGAG
58763273 ATGAATTGAGAG
1 A-GAATTGAGAG
*
58763285 AGAGTTGAGAG
1 AGAATTGAGAG
*
58763296 TGAAT
1 AGAAT
58763301 AAAAAAAGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
10 1 0.02
11 47 0.96
12 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AGAATTGAGAG
Found at i:58766723 original size:12 final size:12
Alignment explanation
Indices: 58766703--58766749 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
58766693 CTTATTAAAA
58766703 ATTAGAAAAATT
1 ATTAGAAAAATT
*
58766715 ATTATAAAAATT
1 ATTAGAAAAATT
58766727 ATT----AAATT
1 ATTAGAAAAATT
58766735 -TTAGAAAAATT
1 ATTAGAAAAATT
58766746 ATTA
1 ATTA
58766750 AATTTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
7 2 0.07
8 5 0.17
11 5 0.17
12 17 0.59
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (12 bp):
ATTAGAAAAATT
Found at i:58766733 original size:20 final size:19
Alignment explanation
Indices: 58766710--58766764 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
58766700 AAAATTAGAA
58766710 AAATTATTATAAAAATTATT
1 AAATT-TTATAAAAATTATT
*
58766730 AAATTTTAGAAAAATTATT
1 AAATTTTATAAAAATTATT
58766749 AAATTTTAATAAAAAT
1 AAATTTT-ATAAAAAT
58766765 ATAAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATTTTATAAAAATTATT
Found at i:58766770 original size:27 final size:27
Alignment explanation
Indices: 58766739--58766799 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
58766729 TAAATTTTAG
*
58766739 AAAAATTATTAAATTTTAATAAAAAT-AT
1 AAAAATT-TAAAATTTT-ATAAAAATCAT
58766767 AAAAAATTTAAAATTTTATAAAAATCAT
1 -AAAAATTTAAAATTTTATAAAAATCAT
58766795 AAAAA
1 AAAAA
58766800 AATTAGTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 13 0.43
28 10 0.33
29 7 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAATTTAAAATTTTATAAAAATCAT
Found at i:58766770 original size:28 final size:28
Alignment explanation
Indices: 58766739--58766800 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
58766729 TAAATTTTAG
*
58766739 AAAAATTATTAAATTTTAATAAAAAT-ATA
1 AAAAATT-TAAAATTTT-ATAAAAATCATA
58766768 AAAAATTTAAAATTTTATAAAAATCATA
1 AAAAATTTAAAATTTTATAAAAATCATA
58766796 AAAAA
1 AAAAA
58766801 ATTAGTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 8 0.26
28 16 0.52
29 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAAATTTAAAATTTTATAAAAATCATA
Found at i:58767051 original size:9 final size:9
Alignment explanation
Indices: 58767010--58767098 Score: 101
Period size: 9 Copynumber: 9.7 Consensus size: 9
58767000 CTTCATAAAA
58767010 TTTTATAATT
1 TTTTATAA-T
*
58767020 TTTTTTATAT
1 TTTTATA-AT
*
58767030 TTCTAT-AT
1 TTTTATAAT
58767038 ATTTTATAATT
1 -TTTTATAA-T
58767049 TTTTATAAT
1 TTTTATAAT
58767058 TTTTATAAT
1 TTTTATAAT
58767067 TTTTATAAT
1 TTTTATAAT
58767076 TTTTATAAT
1 TTTTATAAT
58767085 TTTT-TAAT
1 TTTTATAAT
*
58767093 ATTTAT
1 TTTTAT
58767099 TTTTTAATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
8 9 0.13
9 38 0.55
10 20 0.29
11 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:58767088 original size:28 final size:28
Alignment explanation
Indices: 58767011--58767098 Score: 110
Period size: 29 Copynumber: 3.2 Consensus size: 28
58767001 TTCATAAAAT
* *
58767011 TTTATAATTTTTTTTATATTTCTAT-ATAT
1 TTTATAATTTTTTATA-ATTTTTATAAT-T
58767040 TTTATAATTTTTTATAATTTTTATAATT
1 TTTATAATTTTTTATAATTTTTATAATT
*
58767068 TTTATAA-TTTTTATAATTTTT-TAATA
1 TTTATAATTTTTTATAATTTTTATAATT
58767094 TTTAT
1 TTTAT
58767099 TTTTTAATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 9 0.16
27 14 0.25
28 15 0.27
29 17 0.31
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTATAATTTTTTATAATTTTTATAATT
Found at i:58767096 original size:19 final size:19
Alignment explanation
Indices: 58766936--58767090 Score: 106
Period size: 19 Copynumber: 8.1 Consensus size: 19
58766926 TTTTGGTACG
58766936 ATAATTTTTATAAAGTTTTTT
1 ATAATTTTTAT-AA-TTTTTT
*
58766957 ACTAA-ATTTAT-ATTTCTTT
1 A-TAATTTTTATAATTT-TTT
* *
58766976 A-CATTTTGTATAACTTTCTT
1 ATAATTTT-TATAA-TTTTTT
* * **
58766996 ATAA-CTTCATAAAATTTT
1 ATAATTTTTATAATTTTTT
* * *
58767014 ATAATTTTTTTTATATTTCT
1 ATAATTTTTATAAT-TTTTT
58767034 AT-ATATTTTATAATTTTTT
1 ATAAT-TTTTATAATTTTTT
58767053 ATAATTTTTATAA-TTTTT
1 ATAATTTTTATAATTTTTT
58767071 ATAATTTTTATAATTTTTT
1 ATAATTTTTATAATTTTTT
58767090 A
1 A
58767091 ATATTTATTT
Statistics
Matches: 102, Mismatches: 20, Indels: 26
0.69 0.14 0.18
Matches are distributed among these distances:
17 1 0.01
18 30 0.29
19 38 0.37
20 20 0.20
21 10 0.10
22 3 0.03
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (19 bp):
ATAATTTTTATAATTTTTT
Found at i:58767265 original size:92 final size:90
Alignment explanation
Indices: 58767164--58767395 Score: 290
Period size: 89 Copynumber: 2.5 Consensus size: 90
58767154 AATTTTTAAT
*
58767164 AAATGTAGGGGCTTAATTGCTTTTATTTTTGAAAAAGTTTGAGGATCTTTTTGATGTATTTTGAA
1 AAAT-TAGGGGCTTAATTGC--TT-TTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAA
* * * *
58767229 AGTTCAAGTACCCAATTGAATGC-GAAAA
62 AATTCAAATACCCAAATGAATGCAAAAAA
* * *
58767257 AAATTAGGGGCTTAATTGGTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTGAAAATT
1 AAATTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATT
*
58767322 CAAATACCCAAATGAGTGCAAAAAAAA
66 CAAATACCCAAATGAATGC--AAAAAA
*
58767349 AAGAGTAGGGGCTTAATTGCTTTTTTTG-AAAAGTTTGAGGA-CTTTTT
1 AA-ATTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTT
58767396 ACACCCTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
89 56 0.46
90 2 0.02
91 6 0.05
92 31 0.25
93 27 0.22
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (90 bp):
AAATTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATT
CAAATACCCAAATGAATGCAAAAAA
Found at i:58774163 original size:18 final size:17
Alignment explanation
Indices: 58774136--58774183 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
58774126 AGAAAAGAGG
*
58774136 TATTTCTATTTTCATATT
1 TATTTATATTTTCAT-TT
58774154 TATTTATATTTTCATTT
1 TATTTATATTTTCATTT
* *
58774171 CATTTATACTTTC
1 TATTTATATTTTC
58774184 CAACATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTATATTTTCATTT
Found at i:58774177 original size:17 final size:18
Alignment explanation
Indices: 58774137--58774183 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
58774127 GAAAAGAGGT
* *
58774137 ATTTCTATTTTCATATTT
1 ATTTATATTTTCATATTC
58774155 ATTTATATTTTCAT-TTC
1 ATTTATATTTTCATATTC
*
58774172 ATTTATACTTTC
1 ATTTATATTTTC
58774184 CAACATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATATTTTCATATTC
Found at i:58782905 original size:17 final size:17
Alignment explanation
Indices: 58782883--58782919 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
58782873 AGAACTAAAT
58782883 ATTATGTTGCTACGACG
1 ATTATGTTGCTACGACG
58782900 ATTATGTTGCTACGACG
1 ATTATGTTGCTACGACG
58782917 ATT
1 ATT
58782920 CTAACATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (17 bp):
ATTATGTTGCTACGACG
Found at i:58784751 original size:23 final size:23
Alignment explanation
Indices: 58784665--58784754 Score: 101
Period size: 23 Copynumber: 3.9 Consensus size: 23
58784655 GAGCTGATGG
*
58784665 ACAGTAAGTTC-TACTGAGCTGAA
1 ACAGTAAGCTCTTAC-GAGCTGAA
* * * *
58784688 ACGGTAAGCTCTGATGACCTGAA
1 ACAGTAAGCTCTTACGAGCTGAA
* *
58784711 TCAGTAAGCTCTTACGAGTTGAA
1 ACAGTAAGCTCTTACGAGCTGAA
58784734 ACAGTAAGCTCTTACGAGCTG
1 ACAGTAAGCTCTTACGAGCTG
58784755 TGGTGAGTCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 52 0.98
24 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (23 bp):
ACAGTAAGCTCTTACGAGCTGAA
Found at i:58785874 original size:27 final size:27
Alignment explanation
Indices: 58785829--58785961 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
58785819 GTCACTAGAT
58785829 ACAGATAT-TGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
*
58785855 ACAGATATATGCGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * * *
58785882 TCAGATA-ATTGTGGCATAGCCACCGGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
58785909 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
58785936 TCAGATA-ATTATGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
58785962 GACGCTTCCT
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
26 10 0.11
27 79 0.88
28 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:58785894 original size:54 final size:54
Alignment explanation
Indices: 58785825--58785961 Score: 213
Period size: 54 Copynumber: 2.5 Consensus size: 54
58785815 CGGAGTCACT
*
58785825 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGCGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGCGGCAGAGCCACC
* * *
58785879 AGATCAGATAATTGTGGCATAGCCACCGGGACAGATATATGTGGCAGAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGCGGCAGAGCCACC
*
58785933 AGATCAGATAATTATGGCATAGCCACCAG
1 AGATCAGATAATTGTGGCATAGCCACCAG
58785962 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
53 5 0.07
54 71 0.93
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.18
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGCGGCAGAGCCACC
Found at i:58787585 original size:26 final size:26
Alignment explanation
Indices: 58787530--58787623 Score: 142
Period size: 26 Copynumber: 3.8 Consensus size: 26
58787520 ATGAAATGCC
*
58787530 ATCATGGAACATCTACCT--A--ATT
1 ATCATGGAACATTTACCTAAACCATT
58787552 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
58787578 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
58787604 ATCATGGAACATTTACCTAA
1 ATCATGGAACATTTACCTAA
58787624 CCTTTTTATC
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
22 17 0.26
24 1 0.02
26 48 0.73
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:58792812 original size:27 final size:27
Alignment explanation
Indices: 58792765--58792922 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
58792755 CGAGGCTGCT
* *
58792765 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGATAC
58792792 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAC
58792818 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
* * **
58792845 AGATAATTGTGGTATAGCCACC-GGGAC
1 AGAT-ATTGTGGCAGAGCCACCAGATAC
*
58792872 AGATATATGTGGTAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
* *
58792899 AGATAATTATGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
58792923 GACCCTTCCT
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
26 11 0.10
27 94 0.85
28 6 0.05
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:58792854 original size:54 final size:54
Alignment explanation
Indices: 58792782--58792922 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
58792772 GTGACGAAGT
*
58792782 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
58792836 CACCAGATCAGATAATTGTGGTATAGCCACCGGGACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
58792890 CACCAGATCAGATAATTATGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
58792923 GACCCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:58794543 original size:26 final size:26
Alignment explanation
Indices: 58794512--58794619 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
58794502 TGAAATGCCC
*
58794512 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
58794538 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
58794564 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
58794590 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58794616 ATCA
1 ATCA
58794620 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58796301 original size:40 final size:42
Alignment explanation
Indices: 58796228--58796305 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
58796218 CCTGGAAAAT
* * *
58796228 AAATAATATAAAAAATGAGAAGATAATCTTGGGTTGTTCAAA
1 AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTTCAAA
*
58796270 AAATAAT-TTAAAAA-GAGAAGAAAAACATGGGTTGTT
1 AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTT
58796306 GGAGTTACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.59
41 6 0.19
42 7 0.22
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (42 bp):
AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTTCAAA
Found at i:58796837 original size:29 final size:29
Alignment explanation
Indices: 58796795--58796852 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
58796785 AAGGGTTTGA
58796795 TTGGTTAGATTAAAATTAAATGAAATGAG
1 TTGGTTAGATTAAAATTAAATGAAATGAG
58796824 TTGGTTAGATTAAAATTAAATGAAATGAG
1 TTGGTTAGATTAAAATTAAATGAAATGAG
58796853 CAAGTATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (29 bp):
TTGGTTAGATTAAAATTAAATGAAATGAG
Found at i:58799288 original size:43 final size:43
Alignment explanation
Indices: 58799149--58799318 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 43
58799139 ATAAAGCTCG
* * * *
58799149 TACAATGCC-ATATCCCAAATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACAA
* * ** **
58799190 TATCAATGCCACTGTCCCAGATAGGGTCTTACACAAAAT-TGAA
1 TA-CAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACAA
* ** *
58799233 TAACGACACCAATGTCCCAGACATGGTCTTACACGTAATCACAA
1 T-ACAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACAA
* * *
58799277 TACAATGCCAATGTCCTAGAAATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACA
58799319 TCTTGGTAAT
Statistics
Matches: 98, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 85 0.87
44 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGATATGGTCTTACACGTAATCACAA
Found at i:58800840 original size:56 final size:56
Alignment explanation
Indices: 58800754--58800886 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
58800744 ATGGTATCGA
* * * *
58800754 TATATCTGTGCAAGTAAGACCACGTTTAATACTTTGGCA-TCGATATGTGATTCCGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGG-AGTCGATATGTGACTCCGT
*
58800810 TATATGTGTGCGAGTAAGACCACGTTTAATAGATTGGAGTCGATATGTGACTCCGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGAGTCGATATGTGACTCCGT
*
58800866 CATATGTGTGCGAGTAAGACC
1 TATATGTGTGCGAGTAAGACC
58800887 CTGTCTGGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
55 1 0.01
56 69 0.99
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (56 bp):
TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGAGTCGATATGTGACTCCGT
Found at i:58802508 original size:38 final size:38
Alignment explanation
Indices: 58802457--58802533 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
58802447 TTCGGTTATG
58802457 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
1 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
58802495 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
1 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
58802533 T
1 T
58802534 TATTGATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (38 bp):
TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
Found at i:58802726 original size:15 final size:15
Alignment explanation
Indices: 58802706--58802734 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58802696 ATTTAGCCGA
58802706 ATATGTGATTATTGG
1 ATATGTGATTATTGG
58802721 ATATGTGATTATTG
1 ATATGTGATTATTG
58802735 AATTAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (15 bp):
ATATGTGATTATTGG
Found at i:58804550 original size:19 final size:19
Alignment explanation
Indices: 58804512--58804553 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
58804502 TGATTTGCTT
58804512 TCACTAGCCTCATCAATTTC
1 TCACTAGCCTCA-CAATTTC
58804532 TCACATAGCCTCA-AATTTC
1 TCAC-TAGCCTCACAATTTC
58804551 TCA
1 TCA
58804554 ACTTTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.29, C:0.33, G:0.05, T:0.33
Consensus pattern (19 bp):
TCACTAGCCTCACAATTTC
Found at i:58805377 original size:24 final size:24
Alignment explanation
Indices: 58805350--58805400 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
58805340 ATAAAATATG
*
58805350 TAGACTTATTTAAACAGCCAATAA
1 TAGACTTATTTAAACAGCCAAAAA
* *
58805374 TAGACTTTTTTAAACAGTCAAAAA
1 TAGACTTATTTAAACAGCCAAAAA
58805398 TAG
1 TAG
58805401 TTCAGGTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (24 bp):
TAGACTTATTTAAACAGCCAAAAA
Found at i:58816730 original size:29 final size:28
Alignment explanation
Indices: 58816680--58816767 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
58816670 TTGCATGACA
58816680 ATGAATGTGATTGGGCCTAATGGGCCAT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
58816708 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGA-TTGGGCCTAATGGGCCAT
* * *
58816737 ATGAAAGAGATTGGGCCTAGTGGGCCAT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
58816765 ATG
1 ATG
58816768 CATATATGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 30 0.54
29 26 0.46
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (28 bp):
ATGAATGTGATTGGGCCTAATGGGCCAT
Found at i:58816760 original size:28 final size:28
Alignment explanation
Indices: 58816688--58816767 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 28
58816678 CAATGAATGT
* *
58816688 GATTGGGCCTAATGGGCCATATGAATGT
1 GATTGGGCCTAATGGGCCATATGAAAGA
58816716 GATTTGGGCCTAATGGGCCATATGAAAGA
1 GA-TTGGGCCTAATGGGCCATATGAAAGA
*
58816745 GATTGGGCCTAGTGGGCCATATG
1 GATTGGGCCTAATGGGCCATATG
58816768 CATATATGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
28 22 0.46
29 26 0.54
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATGAAAGA
Found at i:58831721 original size:28 final size:28
Alignment explanation
Indices: 58831681--58831736 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
58831671 TGTAGGCATG
58831681 AAATTGGCCAAAAACAAGCCATTTCCAT
1 AAATTGGCCAAAAACAAGCCATTTCCAT
*
58831709 AAATTGGCCAAAATCAAGCCATTTCCAT
1 AAATTGGCCAAAAACAAGCCATTTCCAT
58831737 CACCCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (28 bp):
AAATTGGCCAAAAACAAGCCATTTCCAT
Found at i:58834086 original size:17 final size:17
Alignment explanation
Indices: 58834060--58834098 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
58834050 AAACAGTCTA
* *
58834060 CCAAACCTTAAAGTTTG
1 CCAAAACTTAAAGTTCG
*
58834077 CCAAAACTTAGAGTTCG
1 CCAAAACTTAAAGTTCG
58834094 CCAAA
1 CCAAA
58834099 TAGAGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (17 bp):
CCAAAACTTAAAGTTCG
Found at i:58835772 original size:24 final size:24
Alignment explanation
Indices: 58835744--58835794 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
58835734 TATCATTTGG
58835744 AAAGACATTT-TGGCTAATTCTCTA
1 AAAGA-ATTTGTGGCTAATTCTCTA
* *
58835768 AAAGATTTTGTGGTTAATTCTCTA
1 AAAGAATTTGTGGCTAATTCTCTA
58835792 AAA
1 AAA
58835795 AGTCTTTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (24 bp):
AAAGAATTTGTGGCTAATTCTCTA
Found at i:58835802 original size:25 final size:24
Alignment explanation
Indices: 58835758--58835814 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
58835748 ACATTTTGGC
58835758 TAATTCTCTAAAAGATTTTGTGGT
1 TAATTCTCTAAAAGATTTTGTGGT
58835782 TAATTCTCTAAAA-AGTCTTTGTGGT
1 TAATTCTCTAAAAGA-T-TTTGTGGT
*
58835807 AAATTCTC
1 TAATTCTC
58835815 CGAAAAGCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 1 0.03
24 14 0.47
25 15 0.50
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (24 bp):
TAATTCTCTAAAAGATTTTGTGGT
Found at i:58835820 original size:25 final size:25
Alignment explanation
Indices: 58835774--58835831 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
58835764 TCTAAAAGAT
* * *
58835774 TTTGTGGTTAATTCTCTAAAAAGTC
1 TTTGTGGTAAATTCTCCAAAAAGCC
*
58835799 TTTGTGGTAAATTCTCCGAAAAGCC
1 TTTGTGGTAAATTCTCCAAAAAGCC
*
58835824 ATTGTGGT
1 TTTGTGGT
58835832 GAGTTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (25 bp):
TTTGTGGTAAATTCTCCAAAAAGCC
Found at i:58836293 original size:14 final size:14
Alignment explanation
Indices: 58836274--58836300 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58836264 ACGCCATCCG
58836274 ATCAAATATAGAAA
1 ATCAAATATAGAAA
58836288 ATCAAATATAGAA
1 ATCAAATATAGAA
58836301 GGGTGAGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
ATCAAATATAGAAA
Found at i:58839981 original size:48 final size:48
Alignment explanation
Indices: 58839910--58840245 Score: 586
Period size: 48 Copynumber: 7.0 Consensus size: 48
58839900 CAAGATAAAT
* *
58839910 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
58839958 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
58840006 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
58840054 ATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
58840102 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
58840150 ATATG--TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
58840196 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
58840244 AT
1 AT
58840246 GTGTGTATAT
Statistics
Matches: 275, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 43 0.16
48 232 0.84
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:58840442 original size:37 final size:37
Alignment explanation
Indices: 58840390--58840488 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
58840380 ATATATTCCA
58840390 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
* *
58840427 GGTAAGACCCAATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
58840464 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
58840489 GGACTATTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:58844795 original size:84 final size:84
Alignment explanation
Indices: 58844654--58844828 Score: 341
Period size: 84 Copynumber: 2.1 Consensus size: 84
58844644 ACTAATTCAT
58844654 TAGTAATCCCTGTATTTATAATAACCATTCCAATCTTGCTAGAATCCTTAGTGCTTCTATTCAGT
1 TAGTAATCCCTGTATTTATAATAACCATTCCAATCTTGCTAGAATCCTTAGTGCTTCTATTCAGT
58844719 TTGTTACAATTGCAATCTA
66 TTGTTACAATTGCAATCTA
58844738 TAGTAATCCCTGTATTTATAATAACCATTCCAATCTTGCTAGAATCCTTAGTGCTTCTATTCAGT
1 TAGTAATCCCTGTATTTATAATAACCATTCCAATCTTGCTAGAATCCTTAGTGCTTCTATTCAGT
58844803 TTGTTACAATTGCAATCTA
66 TTGTTACAATTGCAATCTA
*
58844822 TGGTAAT
1 TAGTAAT
58844829 ACATTTTATT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (84 bp):
TAGTAATCCCTGTATTTATAATAACCATTCCAATCTTGCTAGAATCCTTAGTGCTTCTATTCAGT
TTGTTACAATTGCAATCTA
Found at i:58846954 original size:28 final size:28
Alignment explanation
Indices: 58846914--58846968 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
58846904 ACAATATAGT
58846914 TTGGGCCTAAGCCCA-TATCAGTAACAGA
1 TTGGGCCTAAGCCCATTA-CAGTAACAGA
* *
58846942 TTGGGCCTGAGCCTATTACAGTAACAG
1 TTGGGCCTAAGCCCATTACAGTAACAG
58846969 TAATAGTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (28 bp):
TTGGGCCTAAGCCCATTACAGTAACAGA
Found at i:58854123 original size:20 final size:20
Alignment explanation
Indices: 58854092--58854209 Score: 123
Period size: 20 Copynumber: 5.9 Consensus size: 20
58854082 GTCAGTATAT
58854092 GGCACAAAGCCAT-AAGTAGC
1 GGCACAAAGCCATCAA-TAGC
* *
58854112 GGCTCGAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
* *
58854132 GGCACAAAGCCATCAATGGT
1 GGCACAAAGCCATCAATAGC
*
58854152 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAATAGC
* * *
58854172 GGCA-AAATTCCATGAATAGT
1 GGCACAAA-GCCATCAATAGC
*
58854192 GGCACAAAGCCATAAATA
1 GGCACAAAGCCATCAATA
58854210 TCGCAGTAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 76 0.90
21 5 0.06
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
GGCACAAAGCCATCAATAGC
Found at i:58858845 original size:6 final size:6
Alignment explanation
Indices: 58858834--58858863 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
58858824 TCATTTCTCG
*
58858834 TTTTGA TTTTGA TTTTGA TTTTCA TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
58858864 GAAAACTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.13, T:0.67
Consensus pattern (6 bp):
TTTTGA
Found at i:58862013 original size:51 final size:51
Alignment explanation
Indices: 58861935--58862038 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
58861925 TCATGTTAAT
*
58861935 TGTATGCTTAACATTAATAAATGTAATTAGTAAGTTTTAACTCCTATTATA
1 TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
*
58861986 TGTATGCTTAACATTAATAAATATAATTGGTAAGTTTTAACTCCTATTATA
1 TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
58862037 TG
1 TG
58862039 AACTTACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.43
Consensus pattern (51 bp):
TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
Found at i:58870361 original size:49 final size:50
Alignment explanation
Indices: 58870294--58870540 Score: 291
Period size: 49 Copynumber: 5.0 Consensus size: 50
58870284 AGCTATTGTG
** *
58870294 AGGTCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * * *
58870344 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * *
58870394 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
58870444 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
58870494 A-GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
58870541 CTTCGGCTAC
Statistics
Matches: 164, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 78 0.48
50 49 0.30
51 37 0.23
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:58870431 original size:28 final size:28
Alignment explanation
Indices: 58870399--58870482 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
58870389 AACTTCGATC
58870399 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
58870427 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
58870449 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
58870477 ACGTGT
1 ACGTGT
58870483 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:58877667 original size:13 final size:13
Alignment explanation
Indices: 58877649--58877674 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58877639 AGTATCATTG
58877649 TTATATAATATCT
1 TTATATAATATCT
58877662 TTATATAATATCT
1 TTATATAATATCT
58877675 GTGATTCTAT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATAATATCT
Found at i:58883997 original size:15 final size:16
Alignment explanation
Indices: 58883970--58883999 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58883960 AAAGTACGAG
58883970 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
58883986 ATATGA-AATGTATA
1 ATATGAGAATGTATA
58884000 ACCTTTACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:58887564 original size:38 final size:39
Alignment explanation
Indices: 58887512--58887720 Score: 181
Period size: 38 Copynumber: 5.0 Consensus size: 39
58887502 CGGAATGAAA
58887512 AACGTGGTGCTAAGTGGATATACCACGGTTATAA-ATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
* * *
58887550 AACGTGGTGGTAAGTGGATATACCACGATTACACATATTGATACATAT
1 AACGTGGTGCTAAGTGGATATACCACG-GT-----TA-T-A-ACATGT
* * *
58887598 AACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCGTT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATA-A--CA-T-G-T
58887645 AACGTGGTGCTAAGTGGATATACCACGGTTA-AACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
*
58887683 AACGTGGTGCTAAGTGGATATGCCACGGTTAT-ACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
58887721 TAATTTGAAA
Statistics
Matches: 140, Mismatches: 13, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
38 63 0.45
39 2 0.01
40 1 0.01
41 1 0.01
42 4 0.03
43 2 0.01
44 5 0.04
45 3 0.02
46 1 0.01
47 31 0.22
48 27 0.19
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (39 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
Found at i:58887671 original size:47 final size:48
Alignment explanation
Indices: 58887549--58887680 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
58887539 GTTATAAATG
* *
58887549 TAACGTGGTGGTAAGTGGATATACCACGATTACACATATTGATACATA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
* * * * *
58887597 TAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCGT-
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
*
58887644 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
58887681 GTAACGTGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 33 0.45
48 40 0.55
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (48 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
Found at i:58894196 original size:77 final size:76
Alignment explanation
Indices: 58894109--58894683 Score: 321
Period size: 77 Copynumber: 7.5 Consensus size: 76
58894099 AATAAAAGTT
* * * ** *
58894109 GTGATATTAAAT-AGAGCGAACCGTAGAAATGACAGACGCAATCTTAAACCAAGCAACCTGTTAG
1 GTGATCTTAAATCA-AGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAG
58894173 AATATCAAAGGTC
65 AATA-CAAAGGTC
** * * ** * ** *
58894186 GTGATCTTAAATTGAGCAAACCTTAAAAATAACAGTTGTGATATTAAACCGGGCAAATTGTTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
58894251 ATACTAAAGGTC
66 ATAC-AAAGGTC
*** * * * * * * ** *
58894263 ACAATCTTAAATCGAGAAAATCGTAAAAAGGACAGTTACAATCTTAAATCAATTAAACTATTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
*
58894328 ATAACGAAGGTC
66 AT-ACAAAGGTC
* ** ** * * *
58894340 GTGATCCTAAATCAAGCAAATAG-AAAAATGACAGTTGCAATCTTAAATAAATCGAACTATTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
58894404 ATATCAAAGGTC
66 ATA-CAAAGGTC
** * ** * *
58894416 -TCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCAATCTTAAATCGAA-TAAACTGTTA
1 GT-GATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAA-CCAAGCAAACTGTTA
58894479 GAATACAAAGGTC
64 GAATACAAAGGTC
** * ** * * * ** *
58894492 ACGATCTTCAATCAAGTGAACCGTAAAAATGACAG-T-CATGATATTAAATCGAGTGAACTATTA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCA--ATCTTAAACCAAGCAAACTGTTA
*
58894555 GAATACCAAAAGTC
64 GAATA-CAAAGGTC
* * * *
58894569 -TCGATCTTAAATCAAGCGAACCATAAAAAT-A-A-TAGCCATGATATTCAATA-C-AGCAAACT
1 GT-GATCTTAAATCAAGCAAACCGTAAAAATGACAGTTG-CA--ATCTT-AA-ACCAAGCAAACT
58894628 GTTAGAATACTAAAGGTC
60 GTTAGAATAC-AAAGGTC
** * *
58894646 ACGATCTTAAATTTAA-TAAACCGTAAAAATGACAGTTG
1 GTGATCTTAAA-TCAAGCAAACCGTAAAAATGACAGTTG
58894684 TGATTGATTG
Statistics
Matches: 386, Mismatches: 88, Indels: 45
0.74 0.17 0.09
Matches are distributed among these distances:
74 2 0.01
75 4 0.01
76 122 0.32
77 243 0.63
78 11 0.03
79 2 0.01
80 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (76 bp):
GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
ATACAAAGGTC
Found at i:58894387 original size:76 final size:77
Alignment explanation
Indices: 58894287--58894584 Score: 252
Period size: 76 Copynumber: 3.9 Consensus size: 77
58894277 AGAAAATCGT
* * *
58894287 AAAAAGGACAGTTACAATCTTAAATCAATTAAACTATTAGAATAACGAAGGTCGT-GATCCTAAA
1 AAAAATGACAGTTGCAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTC-TCGATCCTAAA
58894351 TCAAG-CAA-ATAG
65 TCAAGTCAACAT-G
* ** * *
58894363 AAAAATGACAGTTGCAATCTTAAATAAATCGAACTATTAGAATATCAAAGGTCTCGATCTTAAAT
1 AAAAATGACAGTTGCAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAAT
* * *
58894428 CAAGTGAACCTT
66 CAAGTCAACATG
** * * * *
58894440 AAAAATGACAGGCGCAATCTTAAATCGAA-TAAACTGTTAGAAT-ACAAAGGTCACGATCTTCAA
1 AAAAATGACAGTTGCAATCTTAAATC-AATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAA
* *
58894503 TCAAGTGAAC-CG
65 TCAAGTCAACATG
* * * * * * *
58894515 TAAAAATGACAG-T-CATGATATTAAATCGAGTGAACTATTAGAATACCAAAAGTCTCGATCTTA
1 -AAAAATGACAGTTGCA--ATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTA
58894578 AATCAAG
63 AATCAAG
58894585 CGAACCATAA
Statistics
Matches: 182, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
74 2 0.01
75 2 0.01
76 118 0.65
77 57 0.31
78 3 0.02
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (77 bp):
AAAAATGACAGTTGCAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAAT
CAAGTCAACATG
Found at i:58894443 original size:153 final size:151
Alignment explanation
Indices: 58894246--58894597 Score: 352
Period size: 153 Copynumber: 2.3 Consensus size: 151
58894236 GGGCAAATTG
* * * * * * **
58894246 TTAGAATACTAAAGGTCACAATCTTAAATCGAGAAAATCGTAAAAAGGACAGTTACAATCTTAAA
1 TTAGAATAC-AAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAA
* ** *
58894311 TC-AATTAAACTATTAGAATAACGAAGGTCGTGATCCTAAATCAAGCAAATAG-AAAAATGACAG
65 TCGAA-TAAACTATTAGAAT-ACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAG
*
58894374 TTGCA-ATCTTAAAT-AAATCGAACTA
128 -T-CAGATATTAAATCAAAT-GAACTA
* * * *
58894399 TTAGAATATCAAAGGTCTCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCAATCTTAAA
1 TTAGAATA-CAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAA
* * * ** *
58894464 TCGAATAAACTGTTAGAATACAAAGGTCACGATCTTCAATCAAGTGAACCGTAAAAATGACAGTC
65 TCGAATAAACTATTAGAATACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAGTC
* *
58894529 ATGATATTAAATCGAGTGAACTA
130 A-GATATTAAATCAAATGAACTA
* *
58894552 TTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAA
1 TTAGAATA-CAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAA
58894598 TAATAGCCAT
Statistics
Matches: 165, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
151 2 0.01
152 24 0.15
153 134 0.81
154 5 0.03
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (151 bp):
TTAGAATACAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAAT
CGAATAAACTATTAGAATACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAGTCA
GATATTAAATCAAATGAACTA
Found at i:58894598 original size:153 final size:153
Alignment explanation
Indices: 58894393--58894681 Score: 388
Period size: 153 Copynumber: 1.9 Consensus size: 153
58894383 TAAATAAATC
* * * * *
58894393 GAACTATTAGAATATCAAAGGTCTCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCA-A
1 GAACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACA-GC-CAGA
* * * *
58894457 TCTTAAAT-CGAATAAACTGTTAGAATAC-AAAGGTCACGATCTTCAA-TCAAGTGAACCGTAAA
64 TATTAAATAC-AACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAA-TAAACCGTAAA
58894519 AATGACAGTCATGATATTAAATCGAGT
127 AATGACAGTCATGATATTAAATCGAGT
*
58894546 GAACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAATAGCCATGAT
1 GAACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACAGCCA-GAT
* * *
58894611 ATTCAATACAGCAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTTAATAAACCGTAAAAAT
65 ATTAAATACAACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAATAAACCGTAAAAAT
58894676 GACAGT
130 GACAGT
58894682 TGTGATTGAT
Statistics
Matches: 118, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
151 2 0.02
152 2 0.02
153 74 0.63
154 37 0.31
155 3 0.03
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.25
Consensus pattern (153 bp):
GAACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACAGCCAGATA
TTAAATACAACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAATAAACCGTAAAAATG
ACAGTCATGATATTAAATCGAGT
Found at i:58902583 original size:40 final size:41
Alignment explanation
Indices: 58902528--58902619 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 41
58902518 TTTATTAGTG
*
58902528 ATCTTAAATCAAGTGAACTATTAGAATACCGAAGGTCAC-A
1 ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCACGA
* * * *
58902568 ATCTTAAATCGAGTGAACTGTTAGAATATAGAAGGTCTCGA
1 ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCACGA
58902609 A-CTTAAATCAA
1 ATCTTAAATCAA
58902620 AAGAACCTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 43 0.96
41 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (41 bp):
ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCACGA
Found at i:58902966 original size:25 final size:25
Alignment explanation
Indices: 58902938--58902986 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
58902928 ATATTTTTTA
* *
58902938 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
58902963 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
58902987 ATAGATTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:58934217 original size:20 final size:19
Alignment explanation
Indices: 58934191--58934249 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
58934181 AGCAATGAAT
*
58934191 CTGTTCACCAAGAGATATAA
1 CTGTTCA-CAAGAGATACAA
*
58934211 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
*
58934228 CTGTTCATCAAGAGATAGAA
1 CTGTTCA-CAAGAGATACAA
58934248 CT
1 CT
58934250 ATTGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 13 0.41
18 2 0.06
19 2 0.06
20 15 0.47
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:58934791 original size:52 final size:53
Alignment explanation
Indices: 58934713--58934821 Score: 193
Period size: 54 Copynumber: 2.1 Consensus size: 53
58934703 TAGGGACTTT
58934713 TGGTTGAGTCACTAATAATCAAGTG-TTTTTTTTTAAATAATAAAATGAACTA
1 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTTTAAATAATAAAATGAACTA
*
58934765 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTTTTAAATGATAAAATGAACTA
1 TGGTTGAGTCACTAATAATCAAGTG-TTTTTTTTTTAAATAATAAAATGAACTA
58934819 TGG
1 TGG
58934822 ATCTTATAGG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 25 0.46
54 29 0.54
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (53 bp):
TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTTTAAATAATAAAATGAACTA
Found at i:58935887 original size:27 final size:27
Alignment explanation
Indices: 58935847--58935912 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
58935837 TAAATGTGAG
* *
58935847 TCTTATTCAGATAT-ATTTCAATTATTAA
1 TCTTATTTATATATAATTT-AATT-TTAA
*
58935875 T-TTATTTATATATAATTTAATTTTTA
1 TCTTATTTATATATAATTTAATTTTAA
58935901 TCTTATTTATAT
1 TCTTATTTATAT
58935913 GAATGTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 4 0.12
27 24 0.73
28 5 0.15
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (27 bp):
TCTTATTTATATATAATTTAATTTTAA
Found at i:58938288 original size:20 final size:19
Alignment explanation
Indices: 58938255--58938293 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
58938245 TGATTCATGT
58938255 TTTTAAAATTTATTATTAA
1 TTTTAAAATTTATTATTAA
*
58938274 TTTTACAATTATATTATTAA
1 TTTTAAAATT-TATTATTAA
58938294 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAAAATTTATTATTAA
Found at i:58941041 original size:6 final size:6
Alignment explanation
Indices: 58941030--58941074 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
58941020 GGTTAAACTA
*
58941030 TTTATT TTTATT TTTATT ATTTCTTT ATTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT -TTT-ATT -TTTATT TTTATT TTTATT
58941075 ATTTCTTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 24 0.69
7 5 0.14
8 6 0.17
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:58941051 original size:15 final size:15
Alignment explanation
Indices: 58941031--58941078 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
58941021 GTTAAACTAT
58941031 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
* *
58941046 TTA--TTTCTTTAT-
1 TTATTTTTATTTTTA
58941058 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
58941073 TTATTT
1 TTATTT
58941079 CTTTCCCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 3 0.12
13 7 0.27
14 7 0.27
15 9 0.35
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTATTTTTA
Found at i:58941066 original size:27 final size:27
Alignment explanation
Indices: 58941028--58941082 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
58941018 AGGGTTAAAC
58941028 TATTTATTTTTATTTTTATTATTTCTT
1 TATTTATTTTTATTTTTATTATTTCTT
58941055 TATTTATTTTTATTTTTATTATTTCTT
1 TATTTATTTTTATTTTTATTATTTCTT
58941082 T
1 T
58941083 CCCTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (27 bp):
TATTTATTTTTATTTTTATTATTTCTT
Found at i:58941089 original size:27 final size:27
Alignment explanation
Indices: 58941032--58941098 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
58941022 TTAAACTATT
**
58941032 TATTTTTATTTTTATTATTTCTTTATT
1 TATTTTTATTTTTATTATTTCTTTACC
*
58941059 TATTTTTATTTTTATTATTTCTTTCCC
1 TATTTTTATTTTTATTATTTCTTTACC
*
58941086 TATTATTTCTTTT
1 TATT-TTTATTTT
58941099 CTTTTTCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 28 0.80
28 7 0.20
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (27 bp):
TATTTTTATTTTTATTATTTCTTTACC
Found at i:58941113 original size:17 final size:17
Alignment explanation
Indices: 58941036--58941128 Score: 63
Period size: 17 Copynumber: 5.6 Consensus size: 17
58941026 ACTATTTATT
*
58941036 TTTATTTTTATTAT-TTC
1 TTTATTTTTCTT-TCTTC
*
58941053 TTTATTTATT-TTTATT-
1 TTTATTT-TTCTTTCTTC
*
58941069 TTTATTATTTCTTTC-CC
1 TTTATT-TTTCTTTCTTC
*
58941086 TATTATTTCT-TTTCTT-
1 T-TTATTTTTCTTTCTTC
*
58941102 TTTCTTTTTCTTTCTTC
1 TTTATTTTTCTTTCTTC
58941119 TTTATTTTTC
1 TTTATTTTTC
58941129 AGCAACCCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
15 6 0.10
16 20 0.33
17 27 0.45
18 7 0.12
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTTTCTTTCTTC
Found at i:58942175 original size:13 final size:14
Alignment explanation
Indices: 58942147--58942194 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
58942137 CATAAAAGAG
*
58942147 ATAAATATCATAAA
1 ATAAATAACATAAA
58942161 ATAAATAAC-TAAA
1 ATAAATAACATAAA
58942174 ATAAATAAACAATAAA
1 ATAAAT-AAC-ATAAA
58942190 ATAAA
1 ATAAA
58942195 CAAACAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 10 0.33
14 11 0.37
16 9 0.30
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAATAACATAAA
Found at i:58942191 original size:16 final size:16
Alignment explanation
Indices: 58942156--58942201 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
58942146 GATAAATATC
58942156 ATAAAATAAAT-AAC-
1 ATAAAATAAATAAACA
58942170 -TAAAATAAATAAACA
1 ATAAAATAAATAAACA
*
58942185 ATAAAATAAACAAACA
1 ATAAAATAAATAAACA
58942201 A
1 A
58942202 ACAACTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 10 0.36
14 3 0.11
16 15 0.54
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (16 bp):
ATAAAATAAATAAACA
Found at i:58942836 original size:16 final size:16
Alignment explanation
Indices: 58942815--58942845 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
58942805 TAAAAGACGA
58942815 CCTAGTTACATCAAAT
1 CCTAGTTACATCAAAT
58942831 CCTAGTTACATCAAA
1 CCTAGTTACATCAAA
58942846 CCCTTAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (16 bp):
CCTAGTTACATCAAAT
Found at i:58944838 original size:20 final size:20
Alignment explanation
Indices: 58944815--58944866 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
58944805 TTATAAAAAC
* *
58944815 AATTCAAATTGATTTTCAAA
1 AATTCAAAATAATTTTCAAA
58944835 AATTCAAAATAATTTTCAAAA
1 AATTCAAAATAATTTTC-AAA
*
58944856 AATTCTAAATA
1 AATTCAAAATA
58944867 TATATGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTCAAAATAATTTTCAAA
Found at i:58944856 original size:21 final size:21
Alignment explanation
Indices: 58944810--58944866 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
58944800 AAAAATTATA
* *
58944810 AAAACAATTCAAATTGATTTTC
1 AAAA-AATTCAAAATAATTTTC
58944832 -AAAAATTCAAAATAATTTTC
1 AAAAAATTCAAAATAATTTTC
*
58944852 AAAAAATTCTAAATA
1 AAAAAATTCAAAATA
58944867 TATATGAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTTC
Found at i:58948018 original size:90 final size:90
Alignment explanation
Indices: 58947916--58948098 Score: 314
Period size: 90 Copynumber: 2.0 Consensus size: 90
58947906 GTTAAATAAT
* *
58947916 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAATCATTTTTAACTTTAAAGTTTAAG
1 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
58947981 AACCAATTTAAAAT-AAGAATTACAG
66 AACCAATTTAAAATGAA-AATTACAG
*
58948006 TAAATCATTAATTATATAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
1 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
*
58948071 AATCAATTTAAAATGAAAATTACAG
66 AACCAATTTAAAATGAAAATTACAG
58948096 TAA
1 TAA
58948099 TTAACTTTAA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
90 86 0.98
91 2 0.02
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.33
Consensus pattern (90 bp):
TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
AACCAATTTAAAATGAAAATTACAG
Found at i:58951815 original size:21 final size:21
Alignment explanation
Indices: 58951791--58951830 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58951781 TAAAAACATC
* *
58951791 AAACCCGAAATTTGAAATTAG
1 AAACCCAAAATTTCAAATTAG
58951812 AAACCCAAAATTTCAAATT
1 AAACCCAAAATTTCAAATT
58951831 TAAACTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (21 bp):
AAACCCAAAATTTCAAATTAG
Found at i:58953586 original size:6 final size:6
Alignment explanation
Indices: 58953575--58953606 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
58953565 TAATTTTTTT
58953575 AACCTA AACCTA AACCTA AACCTA AACCTA AA
1 AACCTA AACCTA AACCTA AACCTA AACCTA AA
58953607 TCTTAACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (6 bp):
AACCTA
Found at i:58953614 original size:18 final size:18
Alignment explanation
Indices: 58953573--58953619 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
58953563 GATAATTTTT
58953573 TTAACCTAAACCTAAACC
1 TTAACCTAAACCTAAACC
* *
58953591 TAAACCTAAACCTAAATC
1 TTAACCTAAACCTAAACC
*
58953609 TTAACCCAAAC
1 TTAACCTAAAC
58953620 TCGAACCCCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (18 bp):
TTAACCTAAACCTAAACC
Found at i:58953735 original size:29 final size:29
Alignment explanation
Indices: 58953672--58953737 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
58953662 AAAGTTCAAG
*
58953672 TTAAAAAATTATTAAAATTATGATAATGA
1 TTAAAAAATTATTAAAATTATGATAATAA
*
58953701 TATAAAAAA-TATTAAAA-TATTATTAAATAA
1 T-TAAAAAATTATTAAAATTATGA-T-AATAA
58953731 TTAAAAA
1 TTAAAAA
58953738 GAGATGTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 12 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
TTAAAAAATTATTAAAATTATGATAATAA
Found at i:58954238 original size:20 final size:21
Alignment explanation
Indices: 58954203--58954251 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
58954193 CACATTAATA
* *
58954203 TAATATTTAC-TTTTTATGAT
1 TAATATTTACAATTTAATGAT
*
58954223 TAATATTTACAATTTAATTAT
1 TAATATTTACAATTTAATGAT
58954244 TAA-ATTTA
1 TAATATTTA
58954252 TTAATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TAATATTTACAATTTAATGAT
Found at i:58955600 original size:12 final size:11
Alignment explanation
Indices: 58955583--58955627 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
58955573 ATTAGAGAAA
58955583 AATAAAATGAAT
1 AATAAAAT-AAT
58955595 AATAAAATAAAT
1 AATAAAAT-AAT
*
58955607 AATAACAATAAC
1 AATAA-AATAAT
58955619 AATAAAATA
1 AATAAAATA
58955628 GGCATCAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 4 0.13
12 23 0.77
13 3 0.10
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:58957805 original size:44 final size:45
Alignment explanation
Indices: 58957733--58957843 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
58957723 ATTCCAACCT
* * *
58957733 ACTGCAACTTCAAGGTTATAGGAATTGTTG-TTTTAATATGCTCC
1 ACTGCAACTTCAAGGATATAAGAATTGTTGTTTTTAACATGCTCC
* * *
58957777 ACTGCATCTTCAAGGATATAAGACTTGTTGTTTTTAACCTGCTCC
1 ACTGCAACTTCAAGGATATAAGAATTGTTGTTTTTAACATGCTCC
* *
58957822 ATTGCAACTTCAAGGAGATAAG
1 ACTGCAACTTCAAGGATATAAG
58957844 GTTTGGCTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
44 26 0.46
45 31 0.54
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (45 bp):
ACTGCAACTTCAAGGATATAAGAATTGTTGTTTTTAACATGCTCC
Found at i:58958087 original size:96 final size:96
Alignment explanation
Indices: 58957874--58958088 Score: 324
Period size: 96 Copynumber: 2.2 Consensus size: 96
58957864 ATCTGACATA
** * * **
58957874 TTGCAACTTCAAAGAGATAAGATCCGTAACTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGG
1 TTGCAACTTCAGGGAGATAAGGTCCATAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
*
58957939 AAATGAAATTCATTATCTTCAGTCTGCTTTG
66 AAATGAAATTCACTATCTTCAGTCTGCTTTG
*
58957970 CTGCAACTTCAGGGAGATAAGGTCCATAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
1 TTGCAACTTCAGGGAGATAAGGTCCATAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
* *
58958035 AAATGAGATTCGCTATCTTCAGTCTGCTCTT-
66 AAATGAAATTCACTATCTTCAGTCTGCT-TTG
58958066 TTGCAACTTCAGGGAGATAAGGT
1 TTGCAACTTCAGGGAGATAAGGT
58958089 TAGTGGTTTC
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 105 0.98
97 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (96 bp):
TTGCAACTTCAGGGAGATAAGGTCCATAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
AAATGAAATTCACTATCTTCAGTCTGCTTTG
Found at i:58958117 original size:44 final size:45
Alignment explanation
Indices: 58958006--58958133 Score: 116
Period size: 45 Copynumber: 2.9 Consensus size: 45
58957996 TAACTTGTAG
* * * *
58958006 CTTCAATCTGCTCCACTACAACTTTAGGGAAATGAGATTCGCTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGCTAT
* *** * * *
58958051 CTTCAGTCTGCTCTTTTGCAACTTCAGGGAGATAAGGTTAG-TGGT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGCT-AT
* *
58958096 -TTCAATCTGCTCCACTACAACTTCAAGAAGATAAGATT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
58958134 TGCCATAATT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
44 31 0.49
45 32 0.51
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTAGCTAT
Found at i:58958282 original size:143 final size:141
Alignment explanation
Indices: 58957970--58958275 Score: 361
Period size: 143 Copynumber: 2.2 Consensus size: 141
58957960 GTCTGCTTTG
* * *
58957970 CTGCAACTTCAGGGAGATAAGGT-CCATAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGG
1 CTGCAACTTCAGGAAGATAAGATGCCATAACTTGTAGCTTCAATCTGCTCCACTACAACGTTAGG
* **** * *
58958034 GAAATGAGATTCGCTATCTTCAGTCTGCTCTTTTGCAACTTCAGGGAGATAAGGTTAGTGGTTTC
66 GAAATAAGATTCGCTATCTTCAGTCTGCTCCGCAGCAACTTCAGGAAGATAAGGTTAGTGGCTTC
58958099 AATCTGCTCCA
131 AATCTGCTCCA
* * * *
58958110 CTACAACTTCAAGAAGATAAGATTTGCCATAATTTGTAGC-TCTAATCTG-TCCCACTGCAACGT
1 CTGCAACTTCAGGAAGATAAGA--TGCCATAACTTGTAGCTTC-AATCTGCT-CCACTACAACGT
* * * *
58958173 TAGGGAAATAAGATTTGCTGTCTTCAG-CTTGCTCCGCAGTAACTTCAGGAAGATAAGGCTT-TT
62 TAGGGAAATAAGATTCGCTATCTTCAGTC-TGCTCCGCAGCAACTTCAGGAAGATAAGG-TTAGT
58958236 GGCTTCAATCTGCTCCA
125 GGCTTCAATCTGCTCCA
58958253 CTGCAACTTCAGGAAGATAAGAT
1 CTGCAACTTCAGGAAGATAAGAT
58958276 CCGCCATCTT
Statistics
Matches: 139, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
140 18 0.13
141 1 0.01
142 5 0.04
143 113 0.81
144 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (141 bp):
CTGCAACTTCAGGAAGATAAGATGCCATAACTTGTAGCTTCAATCTGCTCCACTACAACGTTAGG
GAAATAAGATTCGCTATCTTCAGTCTGCTCCGCAGCAACTTCAGGAAGATAAGGTTAGTGGCTTC
AATCTGCTCCA
Found at i:58958359 original size:44 final size:45
Alignment explanation
Indices: 58958238--58958359 Score: 117
Period size: 45 Copynumber: 2.7 Consensus size: 45
58958228 AGGCTTTTGG
* * *
58958238 CTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGATCCGCCAT
1 CTTCAATCTGCTCCACTGCTACTTCAGAG-AGATAAGATCCGACAA
* * * *
58958283 CTTCGATCTACTCCACTG-TAACTTTA-AGGAGATAAGAT-CTACAA
1 CTTCAATCTGCTCCACTGCT-ACTTCAGA-GAGATAAGATCCGACAA
*
58958327 CTTCAATTTGCTCCACTGCTACTTCAGAGAGAT
1 CTTCAATCTGCTCCACTGCTACTTCAGAGAGAT
58958360 GGGATTTGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
44 28 0.46
45 32 0.52
46 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCTACTTCAGAGAGATAAGATCCGACAA
Found at i:58959424 original size:6 final size:6
Alignment explanation
Indices: 58959415--58959477 Score: 65
Period size: 6 Copynumber: 9.8 Consensus size: 6
58959405 TGGCCTCTCA
*
58959415 TTTTTC TTTTTTC TTTTTT TCTTTTC TTTTTC -TTTTC TTTTTC TTTTTTTCC
1 TTTTTC -TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC --TTTTT-C
58959467 TTTTTC TTTTT
1 TTTTTC TTTTT
58959478 TTTGAAGTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
5 5 0.10
6 22 0.45
7 16 0.33
8 5 0.10
9 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:58959435 original size:15 final size:15
Alignment explanation
Indices: 58959415--58959479 Score: 89
Period size: 15 Copynumber: 4.3 Consensus size: 15
58959405 TGGCCTCTCA
58959415 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
58959430 TTTTTCTTTTCTT-TT
1 TTTTTCTTTT-TTCTT
58959445 TCTTTTC-TTTTTCTT
1 T-TTTTCTTTTTTCTT
*
58959460 TTTTTCCTTTTTCTT
1 TTTTTCTTTTTTCTT
58959475 TTTTT
1 TTTTT
58959480 TGAAGTGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.15
15 32 0.70
16 7 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:58959446 original size:11 final size:11
Alignment explanation
Indices: 58959416--58959461 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
58959406 GGCCTCTCAT
58959416 TTTTCTTTTT-
1 TTTTCTTTTTC
*
58959426 TCTT-TTTTTC
1 TTTTCTTTTTC
58959436 TTTTCTTTTTC
1 TTTTCTTTTTC
58959447 TTTTCTTTTTC
1 TTTTCTTTTTC
58959458 TTTT
1 TTTT
58959462 TTTCCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
9 5 0.16
10 6 0.19
11 21 0.66
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:58964495 original size:16 final size:15
Alignment explanation
Indices: 58964474--58964503 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58964464 CAATTAGAGA
58964474 AAAATAAATGAATAAT
1 AAAATAAAT-AATAAT
58964490 AAAATAAATAATAA
1 AAAATAAATAATAA
58964504 CAATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAATAAATAATAAT
Found at i:58964821 original size:3 final size:3
Alignment explanation
Indices: 58964815--58964841 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58964805 AAAAGAAAGT
58964815 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
58964842 GAATCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:58965008 original size:25 final size:23
Alignment explanation
Indices: 58964953--58965008 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
58964943 AAACAATATG
* *
58964953 AACAATAAACGAATAAATAACAT
1 AACAATAAATGAATAAATAACAA
58964976 AA-AA-AAATGAATAAATAACTAA
1 AACAATAAATGAATAAATAAC-AA
58964998 AACAAGTAAAT
1 AACAA-TAAAT
58965009 AACATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 14 0.52
22 5 0.19
23 4 0.15
25 4 0.15
ACGTcount: A:0.68, C:0.09, G:0.05, T:0.18
Consensus pattern (23 bp):
AACAATAAATGAATAAATAACAA
Found at i:58967593 original size:46 final size:45
Alignment explanation
Indices: 58967543--58967711 Score: 204
Period size: 46 Copynumber: 3.8 Consensus size: 45
58967533 TGGTTGAGCA
58967543 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
58967589 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
58967635 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
* *
58967679 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58967712 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 11 0.10
44 23 0.22
45 4 0.04
46 62 0.58
47 1 0.01
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:58967972 original size:19 final size:20
Alignment explanation
Indices: 58967935--58967972 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58967925 ATAAGGTGGT
58967935 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58967955 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58967973 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58975161 original size:46 final size:46
Alignment explanation
Indices: 58975111--58975283 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
58975101 TGGTTGAGCA
*
58975111 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
58975157 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
58975202 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
58975250 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58975284 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 60 0.56
47 29 0.27
48 4 0.04
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:58975267 original size:93 final size:93
Alignment explanation
Indices: 58975108--58975278 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58975098 GGATGGTTGA
* *
58975108 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
58975173 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
58975201 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
*
58975266 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
58975279 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58975545 original size:19 final size:20
Alignment explanation
Indices: 58975508--58975545 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58975498 ATAAGGTGGT
58975508 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58975528 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58975546 TGGTGATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58978005 original size:15 final size:14
Alignment explanation
Indices: 58977981--58978011 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
58977971 ATTGATCACG
58977981 TAAGTAACATAATA
1 TAAGTAACATAATA
58977995 TAAGATAACATAATA
1 TAAG-TAACATAATA
58978010 TA
1 TA
58978012 CTACAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
TAAGTAACATAATA
Found at i:58983292 original size:47 final size:47
Alignment explanation
Indices: 58983222--58983443 Score: 161
Period size: 47 Copynumber: 4.7 Consensus size: 47
58983212 TATTTGTGAG
* * *
58983222 AGCTAGTGTAAAACCATGTCTGGGACATGGCATTGACATTGAGACG-A
1 AGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGACATCGAGACGTA
* * *
58983269 GTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGGCATCGACATCGAGACGTA
* * * * * *
58983316 AGCCAGTGTAAGACATATCTGGGACAT-GCGTTGGCCA-CGAGATG-A
1 AGCTAGTGTAAGACATGTCTGGGACATGGC-ATCGACATCGAGACGTA
* * **
58983361 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCTTCGAC-TTGAGATATA
1 -AGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGACATCGAGACGTA
** *
58983409 AGCCCGTGTAAGACTATGTCTGGGTCATGGCATCG
1 AGCTAGTGTAAGAC-ATGTCTGGGACATGGCATCG
58983444 GTACCGTACC
Statistics
Matches: 140, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 57 0.41
47 68 0.49
48 14 0.10
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGCTAGTGTAAGACATGTCTGGGACATGGCATCGACATCGAGACGTA
Found at i:58983328 original size:46 final size:47
Alignment explanation
Indices: 58983274--58983444 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 47
58983264 GACGAGTGCT
*
58983274 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
* * * * *
58983320 AGTGTAAGACATATCTGGGACAT-GCGTTGGCCACGAGATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTA-AGCC
* * * *
58983366 AGTGTAAGACCATGTCTGGGACATGGCTTC-GACTTGAGATATAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
* *
58983413 CGTGTAAGACTATGTCTGGGTCATGGCATCGG
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGG
58983445 TACCGTACCC
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 48 0.47
47 48 0.47
48 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
Found at i:58994344 original size:76 final size:76
Alignment explanation
Indices: 58994172--58994346 Score: 255
Period size: 76 Copynumber: 2.3 Consensus size: 76
58994162 GAAGGACTAT
* *
58994172 TATCATGGCTCGAAGCCAAACCATTCGATATGCATGCCCGAAGCCAAATTGGTATAGTACGCACC
1 TATCATGGCCCGAAGCCAAATCATTCGATATGCATGCCCGAAGCCAAATTGGTATAGTACGCACC
58994237 CGAAGTGCCAA
66 CGAAGTGCCAA
* * *
58994248 TATCATGGACCGAAGCCAAATCA-TCTGATATGCATGGCCTGAAGCCAAATTGGTATA-TACTCA
1 TATCATGGCCCGAAGCCAAATCATTC-GATATGCAT-GCCCGAAGCCAAATTGGTATAGTACGCA
* *
58994311 TCCGAAGTGCTAA
64 CCCGAAGTGCCAA
58994324 TATCATGGCCCGAAGCCAAATCA
1 TATCATGGCCCGAAGCCAAATCA
58994347 ACGTATCACC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
75 2 0.02
76 67 0.75
77 20 0.22
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (76 bp):
TATCATGGCCCGAAGCCAAATCATTCGATATGCATGCCCGAAGCCAAATTGGTATAGTACGCACC
CGAAGTGCCAA
Found at i:58997301 original size:46 final size:45
Alignment explanation
Indices: 58997240--58997366 Score: 168
Period size: 46 Copynumber: 2.8 Consensus size: 45
58997230 TATATCCTAA
* *
58997240 GGCCGATGCATGTCCCAGACATGTCTTACATTAGCTCTCGTATCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTATC--AT-AAGT
*
58997287 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATAA-GT
*
58997332 GGCCGATTCATGTCCCAGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
58997367 ACACATATCA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.03
44 2 0.03
45 1 0.01
46 67 0.93
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATAAGT
Found at i:59012717 original size:33 final size:37
Alignment explanation
Indices: 59012665--59012735 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 37
59012655 CTATGATTCT
*
59012665 ATAGTTAGGGTAATACTG-AAACTGTAGAA-ACTGAG
1 ATAGTTAGGGGAATACTGAAAACTGTAGAAGACTGAG
*
59012700 ATAG-TAGGGGAA-ACTGAAAACTTTAGAAGACTGAG
1 ATAGTTAGGGGAATACTGAAAACTGTAGAAGACTGAG
59012735 A
1 A
59012736 CTGTAGCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 4 0.12
34 17 0.53
35 11 0.34
ACGTcount: A:0.42, C:0.08, G:0.27, T:0.23
Consensus pattern (37 bp):
ATAGTTAGGGGAATACTGAAAACTGTAGAAGACTGAG
Found at i:59015876 original size:47 final size:47
Alignment explanation
Indices: 59015807--59015955 Score: 271
Period size: 47 Copynumber: 3.2 Consensus size: 47
59015797 GATGAAGTGA
*
59015807 TGTTAAATTTGTTCTTACTATTTCCGGATAAGTTCCTTAGTTAAGCT
1 TGTTAAATTTGTTCTTACTATTTCCGGATAAGTTACTTAGTTAAGCT
*
59015854 TGTTAAATTTGTTCTTAATATTTCCGGATAAGTTACTTAGTTAAGCT
1 TGTTAAATTTGTTCTTACTATTTCCGGATAAGTTACTTAGTTAAGCT
*
59015901 TGTTAAATTTGTTCTTACTATTTTCGGATAAGTTACTTAGTTAAGCT
1 TGTTAAATTTGTTCTTACTATTTCCGGATAAGTTACTTAGTTAAGCT
59015948 TGTTAAAT
1 TGTTAAAT
59015956 ATGATAAGCC
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (47 bp):
TGTTAAATTTGTTCTTACTATTTCCGGATAAGTTACTTAGTTAAGCT
Found at i:59016548 original size:45 final size:45
Alignment explanation
Indices: 59016488--59016691 Score: 299
Period size: 45 Copynumber: 4.6 Consensus size: 45
59016478 TTGGGTCTTT
* *
59016488 GAGCCTAGCAGGCTATAGTGCCGGTGATATACTATTCGGGCCTTT
1 GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
59016533 GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
* *
59016578 GAGCCTAGCAGGCTATAATGCCGGTGATATTCTATTCAGGCCTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
* * *
59016623 GAGCTTAGCAGGCTATAATGCTGGTGAAATGA-TA-TCGGG-CTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGATAT-ACTATTCGGGCCTTC
*
59016666 GAGCCTAGCAGGCGA-AATGCCGGTGA
1 GAGCCTAGCAGGCTATAATGCCGGTGA
59016692 ATGAATTCAG
Statistics
Matches: 146, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
42 10 0.07
43 17 0.12
44 4 0.03
45 115 0.79
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
Found at i:59025423 original size:14 final size:15
Alignment explanation
Indices: 59025393--59025427 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
59025383 TTGATTATTA
*
59025393 TGATGAGATATTGTG
1 TGATGAGACATTGTG
59025408 TGATGAGACA-TGTG
1 TGATGAGACATTGTG
59025422 TGATGA
1 TGATGA
59025428 TTATTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (15 bp):
TGATGAGACATTGTG
Found at i:59026087 original size:18 final size:19
Alignment explanation
Indices: 59026060--59026097 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
59026050 ATAATTAAAC
* *
59026060 ATAAATAAATGAAAT-GAA
1 ATAAAGAAATAAAATAGAA
59026078 ATAAAGAAATAAAATAGAA
1 ATAAAGAAATAAAATAGAA
59026097 A
1 A
59026098 AAGAATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (19 bp):
ATAAAGAAATAAAATAGAA
Found at i:59026128 original size:7 final size:7
Alignment explanation
Indices: 59026118--59026142 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59026108 AAGAAACGAA
59026118 AAAGGGG
1 AAAGGGG
59026125 AAAGGGG
1 AAAGGGG
59026132 AAAGGGG
1 AAAGGGG
59026139 AAAG
1 AAAG
59026143 AAATAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (7 bp):
AAAGGGG
Found at i:59028736 original size:30 final size:30
Alignment explanation
Indices: 59028695--59028752 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
59028685 AAATTCACAT
* *
59028695 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
59028725 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
59028753 TGCTCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:59031444 original size:48 final size:48
Alignment explanation
Indices: 59031374--59031711 Score: 577
Period size: 48 Copynumber: 7.0 Consensus size: 48
59031364 CAAGATAAAT
* * *
59031374 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
59031422 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
59031470 ATATGTATATATGGTCAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
59031518 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
59031566 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
59031614 ATATGTATATGTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
59031662 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
59031710 AT
1 AT
59031712 GTGTGTATAT
Statistics
Matches: 276, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 276 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:59031902 original size:37 final size:37
Alignment explanation
Indices: 59031852--59031954 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
59031842 GGAAATATAT
59031852 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59031889 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59031926 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
59031955 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:59033299 original size:40 final size:40
Alignment explanation
Indices: 59033240--59033691 Score: 805
Period size: 40 Copynumber: 11.3 Consensus size: 40
59033230 GAGTTATATA
*
59033240 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
59033280 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
59033320 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
59033360 TATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
59033400 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
59033440 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
59033480 TATCCGGGCTAAGCTCCGAAAAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
59033520 TATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
59033560 TATCCGGGGTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
59033600 TATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
59033640 TATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
59033680 TATCCGGGCTAA
1 TATCCGGGCTAA
59033692 ACCTCGAAGG
Statistics
Matches: 397, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 397 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:59033763 original size:28 final size:27
Alignment explanation
Indices: 59033723--59033879 Score: 143
Period size: 28 Copynumber: 5.6 Consensus size: 27
59033713 GAGTTATGAG
* * *
59033723 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
59033751 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
59033779 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
** *
59033808 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
59033836 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
*
59033865 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
59033880 AATCAGTCAG
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
28 57 0.55
29 47 0.45
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Done.