Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 194 of 290
Found at i:66591882 original size:29 final size:29
Alignment explanation
Indices: 66591825--66591884 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
66591815 ATAGGAAGGG
*
66591825 AGTAAAAGTTTGGAGGGAAAGTAAGAAAA
1 AGTAAAAGTTTGGAGGGAAAATAAGAAAA
* *
66591854 AGTAAAAGTTTTGAGGGAAAAATAAAAAAA
1 AGTAAAAGTTTGGAGGG-AAAATAAGAAAA
66591884 A
1 A
66591885 ATTGGGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (29 bp):
AGTAAAAGTTTGGAGGGAAAATAAGAAAA
Found at i:66597522 original size:25 final size:23
Alignment explanation
Indices: 66597493--66597556 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
66597483 AATAAAAAAC
*
66597493 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
66597518 TTTAAAACATAAAAATAAAT--A
1 TTTAAAACATAAAAATAAATACA
66597539 -TTAAAAC--AAAAATAAATA
1 TTTAAAACATAAAAATAAATA
66597557 AATAATGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
18 10 0.27
20 7 0.19
21 1 0.03
23 4 0.11
24 4 0.11
25 11 0.30
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:66597558 original size:22 final size:21
Alignment explanation
Indices: 66597506--66597560 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
66597496 AAAATATAAT
*
66597506 AAATCAAATACAT-TTAAAACA
1 AAAT-AAATAAATATTAAAACA
*
66597527 TAA-AAATAAATATTAAAACAA
1 AAATAAATAAATATTAAAAC-A
66597548 AAATAAATAAATA
1 AAATAAATAAATA
66597561 ATGAGACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 7 0.25
20 7 0.25
21 5 0.18
22 9 0.32
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAATAAATATTAAAACA
Found at i:66597612 original size:40 final size:41
Alignment explanation
Indices: 66597526--66597621 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 41
66597516 CATTTAAAAC
*
66597526 ATAAAAATAAATATTAAAACAAAAATAAATAAATAATGAGA
1 ATAAAAATAATTATTAAAACAAAAATAAATAAATAATGAGA
* * * *
66597567 CT-AAAATAATTATTAAAATAATACATAAATTAAA-AAT-ATA
1 ATAAAAATAATTATTAAAACAA-AAATAAA-TAAATAATGAGA
66597607 ATAAAAAGTAATTAT
1 ATAAAAA-TAATTAT
66597622 ATTAAAATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
40 20 0.44
41 14 0.31
42 11 0.24
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (41 bp):
ATAAAAATAATTATTAAAACAAAAATAAATAAATAATGAGA
Found at i:66607664 original size:21 final size:21
Alignment explanation
Indices: 66607638--66607682 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
66607628 GCAATGAAAT
66607638 CCATTTTCTTCAGTTTTCTCA
1 CCATTTTCTTCAGTTTTCTCA
*
66607659 CCATTTTCTTTAGTTTTCTCA
1 CCATTTTCTTCAGTTTTCTCA
66607680 CCA
1 CCA
66607683 ACTAAACAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.29, G:0.04, T:0.51
Consensus pattern (21 bp):
CCATTTTCTTCAGTTTTCTCA
Found at i:66607857 original size:26 final size:26
Alignment explanation
Indices: 66607824--66607877 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
66607814 TAGCATTGAG
66607824 AAAATTTGAGAAAGCATTGAGAAAAA
1 AAAATTTGAGAAAGCATTGAGAAAAA
*
66607850 AAAATTTGGGAAAGCATTGAGAAAAA
1 AAAATTTGAGAAAGCATTGAGAAAAA
66607876 AA
1 AA
66607878 TGTGAGCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.57, C:0.04, G:0.20, T:0.19
Consensus pattern (26 bp):
AAAATTTGAGAAAGCATTGAGAAAAA
Found at i:66609027 original size:19 final size:19
Alignment explanation
Indices: 66609004--66609054 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
66608994 ATTATTTTAA
*
66609004 AATTTTAATATTAAAATTT-
1 AATTTTAATAAT-AAATTTG
*
66609023 TATTTTAATAATAAATTTG
1 AATTTTAATAATAAATTTG
66609042 AATTTTAATAATA
1 AATTTTAATAATA
66609055 TTCTTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AATTTTAATAATAAATTTG
Found at i:66609101 original size:25 final size:25
Alignment explanation
Indices: 66609073--66609146 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
66609063 ATATTATTGA
66609073 AAAATATTTATATTAATATTTTTAT
1 AAAATATTTATATTAATATTTTTAT
* *
66609098 AAAAAATATATATTACA-A--TTTAT
1 AAAATATTTATATTA-ATATTTTTAT
* * *
66609121 AAAAT-TTAATAATAATTTTTTTAT
1 AAAATATTTATATTAATATTTTTAT
66609145 AA
1 AA
66609147 TATAAAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
21 1 0.03
22 6 0.16
23 9 0.24
24 7 0.18
25 14 0.37
26 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATATTTATATTAATATTTTTAT
Found at i:66611027 original size:3 final size:3
Alignment explanation
Indices: 66611019--66611063 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
66611009 CCATTTCCTC
* * *
66611019 TCT TCT TCT TCT TCT TTT TCT TTT TCT TCT TC- TCT GCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
66611064 TTAATGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:66611198 original size:31 final size:30
Alignment explanation
Indices: 66611163--66611230 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
66611153 TGTTAGAGGA
66611163 TGACTGATTTGTCACTTTTCGATAACGTT-AG
1 TGACTGATTTGTCACTTTTCGA-AA-GTTAAG
* * * *
66611194 TGACTAATTTGTTATTTTTTGAAAGTTAAG
1 TGACTGATTTGTCACTTTTCGAAAGTTAAG
66611224 TGACTGA
1 TGACTGA
66611231 GCTGAAAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 3 0.10
30 10 0.32
31 18 0.58
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.44
Consensus pattern (30 bp):
TGACTGATTTGTCACTTTTCGAAAGTTAAG
Found at i:66612772 original size:62 final size:58
Alignment explanation
Indices: 66612657--66612783 Score: 155
Period size: 62 Copynumber: 2.1 Consensus size: 58
66612647 ATCACTTTAA
* * * * * *
66612657 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATTT
1 TATTAAATTAACAGAATATTTATCAAGATAAACATTAAATTAAATTAAATATTAAA-TC
*
66612716 TATTAAATTAACAGAATATTTATCTACAAGATGAACATTAAATTAAATTAAATATTAAATC
1 TATTAAATTAACAGAATATTTA--T-CAAGATAAACATTAAATTAAATTAAATATTAAATC
66612777 TATTAAA
1 TATTAAA
66612784 ATAATATTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 20 0.34
61 9 0.16
62 29 0.50
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (58 bp):
TATTAAATTAACAGAATATTTATCAAGATAAACATTAAATTAAATTAAATATTAAATC
Found at i:66615727 original size:183 final size:185
Alignment explanation
Indices: 66615413--66615782 Score: 591
Period size: 183 Copynumber: 2.0 Consensus size: 185
66615403 TCCTTGAAAA
* * *
66615413 ACAAGCGAATGGACTTTGGAAACCTTTTAACGTTTCTCGTAATGGTTCGACTTTGACTCATTTAT
1 ACAAGCGAATCGACTTTGGAAACCTCTTAACGTTTCTCGTAATGGCTCGAC--TGACTCATTTAT
* * *
66615478 TCCATACTGACAATCTCACGTTATTTATGCATGTTTCTATTGATCAAGTTGATTTGGTTTGAGCT
64 TCCATACCGACAATCTCACGTTATTTATGCATGTGTCTATTGATCAAGTTGATTTGGTTCGAGCT
66615543 TGTCTTAAGGAGTTTGGGGATGCCTCTGGGATGGTTGCTAATTTAGACAAGTCAAAG
129 TGTCTTAAGGAGTTTGGGGATGCCTCTGGGATGGTTGCTAATTTAGACAAGTCAAAG
* *
66615600 ACAAGCGAATCGCCTTTGGAAACCTCTTAAGGTTTCTCGTAATGGCTCGAC-G-CTCATTTATTC
1 ACAAGCGAATCGACTTTGGAAACCTCTTAACGTTTCTCGTAATGGCTCGACTGACTCATTTATTC
** * *
66615663 TTTACCGACAATCTCATGTTATTTGTGCATGTGTCTATTGATCAAGTTGATTTGGTTCGAGCTTG
66 CATACCGACAATCTCACGTTATTTATGCATGTGTCTATTGATCAAGTTGATTTGGTTCGAGCTTG
*
66615728 TCTTAAGGAGTTTGGGGATGCCTCTGGGTTGGTTGCTAATTTAGACAAGTCAAAG
131 TCTTAAGGAGTTTGGGGATGCCTCTGGGATGGTTGCTAATTTAGACAAGTCAAAG
66615783 TTGTTTGTGT
Statistics
Matches: 170, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
183 123 0.72
184 1 0.01
187 46 0.27
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (185 bp):
ACAAGCGAATCGACTTTGGAAACCTCTTAACGTTTCTCGTAATGGCTCGACTGACTCATTTATTC
CATACCGACAATCTCACGTTATTTATGCATGTGTCTATTGATCAAGTTGATTTGGTTCGAGCTTG
TCTTAAGGAGTTTGGGGATGCCTCTGGGATGGTTGCTAATTTAGACAAGTCAAAG
Found at i:66620777 original size:119 final size:120
Alignment explanation
Indices: 66620528--66620785 Score: 337
Period size: 119 Copynumber: 2.2 Consensus size: 120
66620518 GCTACTCGTT
* * * *
66620528 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
66620592 GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
65 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
66620648 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * * *
66620712 A-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 ATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
66620768 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
66620786 GCCCGGACAT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
118 4 0.03
119 62 0.51
120 54 0.44
121 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:66620792 original size:40 final size:40
Alignment explanation
Indices: 66620509--66620792 Score: 353
Period size: 40 Copynumber: 7.1 Consensus size: 40
66620499 CGGAATTTAA
** * *
66620509 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
66620549 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
66620589 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66620629 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
66620669 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66620708 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
66620748 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66620788 CCGGA
1 CCGGA
66620793 CATCATTCGA
Statistics
Matches: 216, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.14
40 171 0.79
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66624175 original size:23 final size:23
Alignment explanation
Indices: 66624149--66624223 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
66624139 AGGCATTTTA
*
66624149 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACTTCG
*
66624172 TGTGCCGTA--TCAGGCACTTCG
1 TGTGTCGTATTTCAGGCACTTCG
**
66624193 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACTTCG
66624214 TGTGTCGTAT
1 TGTGTCGTAT
66624224 ACTGATCAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 34 0.77
22 2 0.05
23 8 0.18
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACTTCG
Found at i:66634100 original size:21 final size:22
Alignment explanation
Indices: 66634059--66634100 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
66634049 TTTTTTCTTT
*
66634059 TTTTGTGTTCCTTCCTTTTTGC
1 TTTTGTGTTCCTTCCTGTTTGC
*
66634081 TTTTGT-TTCCTTTCTGTTTG
1 TTTTGTGTTCCTTCCTGTTTG
66634101 ATTCCCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.00, C:0.19, G:0.14, T:0.67
Consensus pattern (22 bp):
TTTTGTGTTCCTTCCTGTTTGC
Found at i:66645356 original size:68 final size:63
Alignment explanation
Indices: 66645268--66645424 Score: 183
Period size: 63 Copynumber: 2.4 Consensus size: 63
66645258 TATGGTGCTG
* *
66645268 AGTGCACATCATGTGTACAAGAGAGCTACGAGACATTATAA-TGTAGCTAGGTCACATGGGTGAT
1 AGTGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-AACTG--GCTAGGTCACATGGGTGAT
66645332 ACTA
60 ACTA
** *
66645336 TTTGTACACCATGTAG-ACAAGAGAGCTACGAGATAAACTGGCTAGGTCACATGGGTGGTACTA
1 AGTGTACACCATGT-GTACAAGAGAGCTACGAGATAAACTGGCTAGGTCACATGGGTGATACTA
*
66645399 AGTGTTCACCATGTGTACAAGAGAGC
1 AGTGTACACCATGTGTACAAGAGAGC
66645425 CGAACTATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
62 1 0.01
63 43 0.55
64 2 0.03
65 4 0.05
66 1 0.01
68 26 0.33
69 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (63 bp):
AGTGTACACCATGTGTACAAGAGAGCTACGAGATAAACTGGCTAGGTCACATGGGTGATACTA
Found at i:66645780 original size:28 final size:30
Alignment explanation
Indices: 66645719--66645851 Score: 122
Period size: 28 Copynumber: 4.7 Consensus size: 30
66645709 CCAAACGAAC
*
66645719 GGCACTTAGTGTGCGAAG-TATT-GAGGAT
1 GGCACTTAGTGTGCGAAGACATTCGAGGAT
* *
66645747 GACACTTAGTGTGC-AAGACATTCGA-AAT
1 GGCACTTAGTGTGCGAAGACATTCGAGGAT
*
66645775 GGCACTTAGTGTGCGAAG-TA-TCGAGGAT
1 GGCACTTAGTGTGCGAAGACATTCGAGGAT
* * *
66645803 GACACTTAGTGTGCGAA-ACATCCG-GTAT
1 GGCACTTAGTGTGCGAAGACATTCGAGGAT
* *
66645831 AGCACTTAGCGTGC-AAGACAT
1 GGCACTTAGTGTGCGAAGACAT
66645852 CGATTGTGCA
Statistics
Matches: 85, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
27 9 0.11
28 69 0.81
29 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (30 bp):
GGCACTTAGTGTGCGAAGACATTCGAGGAT
Found at i:66645836 original size:56 final size:56
Alignment explanation
Indices: 66645720--66645844 Score: 180
Period size: 56 Copynumber: 2.2 Consensus size: 56
66645710 CAAACGAACG
* * *
66645720 GCACTTAGTGTGCGAAGTATTGAGGATGACACTTAGTGTGCAAGACATTCGAAATG
1 GCACTTAGTGTGCGAAGTATCGAGGATGACACTTAGTGTGCAAGACATCCGAAATA
**
66645776 GCACTTAGTGTGCGAAGTATCGAGGATGACACTTAGTGTGCGAA-ACATCCGGTATA
1 GCACTTAGTGTGCGAAGTATCGAGGATGACACTTAGTGTGC-AAGACATCCGAAATA
*
66645832 GCACTTAGCGTGC
1 GCACTTAGTGTGC
66645845 AAGACATCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
56 60 0.97
57 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (56 bp):
GCACTTAGTGTGCGAAGTATCGAGGATGACACTTAGTGTGCAAGACATCCGAAATA
Found at i:66648385 original size:31 final size:31
Alignment explanation
Indices: 66648350--66648423 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
66648340 AGGGAATCTG
* * * * *
66648350 GTGGGTGGTTAATTGTGGGATTTAGTGGGGT
1 GTGGGTGGTTAATTATGAGACTTAGTAGGAT
66648381 GTGGGTGGTTAATTATGAGACTTAGTAGGAT
1 GTGGGTGGTTAATTATGAGACTTAGTAGGAT
66648412 GTGGGTGGTTAA
1 GTGGGTGGTTAA
66648424 GAAATTATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.36
Consensus pattern (31 bp):
GTGGGTGGTTAATTATGAGACTTAGTAGGAT
Found at i:66654149 original size:16 final size:16
Alignment explanation
Indices: 66654128--66654160 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
66654118 GTTGTGCGGA
66654128 GGGTGCCGGTAGTTGT
1 GGGTGCCGGTAGTTGT
*
66654144 GGGTGCTGGTAGTTGT
1 GGGTGCCGGTAGTTGT
66654160 G
1 G
66654161 CTAGCACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.52, T:0.33
Consensus pattern (16 bp):
GGGTGCCGGTAGTTGT
Found at i:66657212 original size:25 final size:25
Alignment explanation
Indices: 66657184--66657231 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
66657174 CTATATTTAG
66657184 ATTAAGAAAAAAAAAGTT-TTAAACC
1 ATTAAGAAAAAAAAA-TTATTAAACC
* *
66657209 ATTAATAGAAAAAAATTATTAAA
1 ATTAAGAAAAAAAAATTATTAAA
66657232 TTTATTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
ATTAAGAAAAAAAAATTATTAAACC
Found at i:66664886 original size:61 final size:61
Alignment explanation
Indices: 66664755--66664956 Score: 196
Period size: 61 Copynumber: 3.3 Consensus size: 61
66664745 GAAAGGAAAA
* * * * * ** *
66664755 AGCCTTTGTGGC-GATCT-TGGTCAAAGGAAAGCCTTTGTGGCAAGTACTGAATGTAAATAAC
1 AGCCTTTGTGGCAAATCTCTGGAC-AA-GAAAACCTTTGTGGCGAGTATTGAATGTAAAGGAT
* * *
66664816 AGCCCTTGTGGCAAATCTCTGGACAAGAAAACCTTTGTAGCGAGTATTGAAAGTAAAGGAT
1 AGCCTTTGTGGCAAATCTCTGGACAAGAAAACCTTTGTGGCGAGTATTGAATGTAAAGGAT
* * * * *
66664877 AGCCTTTGTGGCACAA-CTCTGGACATGAAATCCTCTATGGCGAGTATTGGATGTAAAGGAT
1 AGCCTTTGTGGCA-AATCTCTGGACAAGAAAACCTTTGTGGCGAGTATTGAATGTAAAGGAT
*
66664938 -GCCTTTGTGGCAAAACTCT
1 AGCCTTTGTGGCAAATCTCT
66664957 AGAAATGTAA
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
59 2 0.02
60 16 0.14
61 88 0.75
62 8 0.07
63 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (61 bp):
AGCCTTTGTGGCAAATCTCTGGACAAGAAAACCTTTGTGGCGAGTATTGAATGTAAAGGAT
Found at i:66664977 original size:60 final size:61
Alignment explanation
Indices: 66664855--66664979 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 61
66664845 AACCTTTGTA
* * * *
66664855 GCGAGTATTGAAAGTAAAGGATAGCCTTTGTGGCACAACTCTGGACATGAAATCCTCTATG
1 GCGAGTATTGAAAGTAAAGGATAGCCTTTGTGGCAAAACTCTAGAAATGAAAGCCTCTATG
* * *
66664916 GCGAGTATTGGATGTAAAGGAT-GCCTTTGTGGCAAAACTCTAGAAATGTAAGCCT-TCATG
1 GCGAGTATTGAAAGTAAAGGATAGCCTTTGTGGCAAAACTCTAGAAATGAAAGCCTCT-ATG
66664976 GCGA
1 GCGA
66664980 ACTTCTTGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
59 1 0.02
60 35 0.62
61 20 0.36
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (61 bp):
GCGAGTATTGAAAGTAAAGGATAGCCTTTGTGGCAAAACTCTAGAAATGAAAGCCTCTATG
Found at i:66675935 original size:25 final size:23
Alignment explanation
Indices: 66675888--66675992 Score: 77
Period size: 25 Copynumber: 4.3 Consensus size: 23
66675878 GACATACCGC
*
66675888 AGCTCTTTATGAGCAT-CTCGATAT
1 AGCTCTTT-TGAGCTTCCT-GATAT
66675912 AGGCTCTTTATGAGCTTCCTGATAT
1 A-GCTCTTT-TGAGCTTCCTGATAT
** *
66675937 AGCTCGCTTGAACTTCCTGATAT
1 AGCTCTTTTGAGCTTCCTGATAT
* * *
66675960 ACGGCTATTTGGAGCTTCCTAATAAT
1 A--GCTCTTTTGAGCTTCCTGAT-AT
66675986 AGCTCTT
1 AGCTCTT
66675993 CGGAGTTACC
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
23 15 0.23
24 11 0.17
25 34 0.52
26 5 0.08
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (23 bp):
AGCTCTTTTGAGCTTCCTGATAT
Found at i:66684937 original size:40 final size:40
Alignment explanation
Indices: 66684883--66685048 Score: 287
Period size: 40 Copynumber: 4.2 Consensus size: 40
66684873 CCCGGATGTC
*
66684883 ATTCCAGCATGAAGCCTGCGGGTCTTTAAGCCCGAATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
66684923 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
* * *
66684963 ATTCCAACACGAAGCCTACGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
*
66685003 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
66685043 ATTCCA
1 ATTCCA
66685049 CATCAAATAA
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
Found at i:66692342 original size:40 final size:40
Alignment explanation
Indices: 66692298--66692383 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
66692288 CCCGGATGTC
66692298 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
*
66692338 ATTCCAGCACGAAGTCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
66692378 ATTCCA
1 ATTCCA
66692384 CATCAAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
Found at i:66700284 original size:10 final size:10
Alignment explanation
Indices: 66700265--66700298 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
66700255 TTTCAATCAT
*
66700265 AAATTTGTCA
1 AAATTCGTCA
66700275 AAATTCGTCA
1 AAATTCGTCA
66700285 AAATTCGTCA
1 AAATTCGTCA
66700295 AAAT
1 AAAT
66700299 GTCCTTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (10 bp):
AAATTCGTCA
Found at i:66702129 original size:18 final size:18
Alignment explanation
Indices: 66702106--66702141 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66702096 AACGACAAAG
66702106 ATGATGATGCAAGAGTGA
1 ATGATGATGCAAGAGTGA
66702124 ATGATGATGCAAGAGTGA
1 ATGATGATGCAAGAGTGA
66702142 TCTTCGGTCT
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:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGATGATGCAAGAGTGA
Found at i:66704557 original size:43 final size:43
Alignment explanation
Indices: 66704491--66704670 Score: 208
Period size: 43 Copynumber: 4.3 Consensus size: 43
66704481 TTATGAAAAG
* * * *
66704491 AAACACCGCTAAAAGTCATGACCTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCAC
66704534 AAACGCCGCTAAAGGTCATGACC--TAG-G-CGC-TTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCAC
* * * *
66704572 AAACTCCGCTAAATGTCATGACCTTTAGCGACGCTTTTTCCAT
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCAC
* * **
66704615 AAACGCCGCTAAAGGTCATGACTTTTAGCAACGCTTTTCTTAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCAC
*
66704658 AAACGCTGCTAAA
1 AAACGCCGCTAAA
66704671 AATTATGACC
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 28 0.24
39 3 0.03
40 4 0.03
41 4 0.03
42 3 0.03
43 74 0.64
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTTCCCAC
Found at i:66704708 original size:22 final size:22
Alignment explanation
Indices: 66704683--66704750 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 22
66704673 TTATGACCTT
66704683 TTAAAAAATTATTTTATTTTAA
1 TTAAAAAATTATTTTATTTTAA
* *
66704705 TTAAATAA-TA-TTTATTTTTA
1 TTAAAAAATTATTTTATTTTAA
* * *
66704725 TGTTAAATATTATATTATGTTTAA
1 T-TAAAAAATTATTTTAT-TTTAA
66704749 TT
1 TT
66704751 TTTGAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
20 10 0.29
21 6 0.17
22 9 0.26
23 5 0.14
24 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TTAAAAAATTATTTTATTTTAA
Found at i:66710514 original size:7 final size:7
Alignment explanation
Indices: 66710504--66710555 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
66710494 AACTTTTAAC
66710504 CCATAAA
1 CCATAAA
66710511 CCATAAA
1 CCATAAA
66710518 CCATAAA
1 CCATAAA
*
66710525 CCATAAT
1 CCATAAA
*
66710532 CCCTAAA
1 CCATAAA
66710539 TCCATAATA
1 -CCATAA-A
66710548 -CATAAA
1 CCATAAA
66710554 CC
1 CC
66710556 TTACAATAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 1 0.03
7 31 0.82
8 5 0.13
9 1 0.03
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
CCATAAA
Found at i:66710545 original size:15 final size:14
Alignment explanation
Indices: 66710504--66710555 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
66710494 AACTTTTAAC
*
66710504 CCATAAACCATAAA
1 CCATAAACCATAAT
66710518 CCATAAACCATAAT
1 CCATAAACCATAAT
*
66710532 CCCTAAATCCATAAT
1 CCATAAA-CCATAAT
*
66710547 ACATAAACC
1 CCATAAACC
66710556 TTACAATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:66710662 original size:49 final size:49
Alignment explanation
Indices: 66710605--66710703 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
66710595 TATCGTAAAC
66710605 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
1 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
66710654 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
1 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
66710703 C
1 C
66710704 ATTTACAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.40
Consensus pattern (49 bp):
CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
Found at i:66711823 original size:3 final size:3
Alignment explanation
Indices: 66711815--66711850 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
66711805 AGGGAAGACC
66711815 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66711851 ATCAGAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:66712609 original size:20 final size:22
Alignment explanation
Indices: 66712580--66712621 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
66712570 AATAAAATTG
*
66712580 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
66712600 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
66712622 TATGAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:66713923 original size:15 final size:14
Alignment explanation
Indices: 66713889--66713933 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
66713879 TACATTCTTN
*
66713889 CCATAAACCATAAA
1 CCATAATCCATAAA
*
66713903 CCATAATCCCTAAA
1 CCATAATCCATAAA
*
66713917 TCCATAATACATAAA
1 -CCATAATCCATAAA
66713932 CC
1 CC
66713934 TTACAATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
CCATAATCCATAAA
Found at i:66714040 original size:49 final size:49
Alignment explanation
Indices: 66713983--66714081 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
66713973 TATCGTAAAC
66713983 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
1 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
66714032 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
1 CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
66714081 C
1 C
66714082 ATTTACAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.40
Consensus pattern (49 bp):
CCTAAAATATAATGATAATTAATTCAATATTTTAAAATTAATACTATCT
Found at i:66714437 original size:116 final size:116
Alignment explanation
Indices: 66714285--66714533 Score: 498
Period size: 116 Copynumber: 2.1 Consensus size: 116
66714275 ACGTTTCTTA
66714285 AAAAAGCGCCGCTAAAGCCACTAAAATTTCAATACAAAACGATGGCGTTTTACAAAATTATTTTG
1 AAAAAGCGCCGCTAAAGCCACTAAAATTTCAATACAAAACGATGGCGTTTTACAAAATTATTTTG
66714350 CAGCGTTTTTTTTAAAATGCCACTAAAGATCAAGCATTAGCGGCGTTTTCT
66 CAGCGTTTTTTTTAAAATGCCACTAAAGATCAAGCATTAGCGGCGTTTTCT
66714401 AAAAAGCGCCGCTAAAGCCACTAAAATTTCAATACAAAACGATGGCGTTTTACAAAATTATTTTG
1 AAAAAGCGCCGCTAAAGCCACTAAAATTTCAATACAAAACGATGGCGTTTTACAAAATTATTTTG
66714466 CAGCGTTTTTTTTAAAATGCCACTAAAGATCAAGCATTAGCGGCGTTTTCT
66 CAGCGTTTTTTTTAAAATGCCACTAAAGATCAAGCATTAGCGGCGTTTTCT
66714517 AAAAAGCGCCGCTAAAG
1 AAAAAGCGCCGCTAAAG
66714534 GTGTACATAT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 133 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (116 bp):
AAAAAGCGCCGCTAAAGCCACTAAAATTTCAATACAAAACGATGGCGTTTTACAAAATTATTTTG
CAGCGTTTTTTTTAAAATGCCACTAAAGATCAAGCATTAGCGGCGTTTTCT
Found at i:66714532 original size:40 final size:38
Alignment explanation
Indices: 66714488--66714610 Score: 106
Period size: 38 Copynumber: 3.2 Consensus size: 38
66714478 TAAAATGCCA
66714488 CTAAAGATCAAGCATTAGCGGCGTTTTCTAAAAAGCGCCG
1 CTAAAGATCAA-CATTAGCGGCGTTTT-TAAAAAGCGCCG
* ** * *
66714528 CTAAAGGTGTACATATAGCGGCTTTTTTAAAAA-CGCCA
1 CTAAAGATCAACAT-TAGCGGCGTTTTTAAAAAGCGCCG
* * * *
66714566 CTAATA-CTCAATCTTTAGCGACGTTTTTAGAAAGCGCCG
1 CTAA-AGATCAA-CATTAGCGGCGTTTTTAAAAAGCGCCG
66714605 CTAAAG
1 CTAAAG
66714611 CCACCAAAGG
Statistics
Matches: 65, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
38 26 0.40
39 20 0.31
40 19 0.29
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (38 bp):
CTAAAGATCAACATTAGCGGCGTTTTTAAAAAGCGCCG
Found at i:66714712 original size:39 final size:39
Alignment explanation
Indices: 66714668--66714746 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
66714658 CGGCACTTTC
66714668 TGAAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTT
1 TGAAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTT
* ** *
66714707 TGAAAAGCGCCGCTAATGCTCGTTCTTTAGTGGCGTTTT
1 TGAAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTT
66714746 T
1 T
66714747 CTTTCAAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (39 bp):
TGAAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTT
Found at i:66714769 original size:12 final size:12
Alignment explanation
Indices: 66714752--66714779 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
66714742 TTTTTCTTTC
66714752 AAACGCCGCTAA
1 AAACGCCGCTAA
66714764 AAACGCCGCTAA
1 AAACGCCGCTAA
66714776 AAAC
1 AAAC
66714780 CTGTTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.07
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:66716995 original size:50 final size:49
Alignment explanation
Indices: 66716932--66717125 Score: 271
Period size: 50 Copynumber: 3.9 Consensus size: 49
66716922 CATCAAAGTC
* * * *
66716932 GATGCTATATCCCAGACATGGTCTTACACTAACTCTTATATATCGAGGCC
1 GATGC-ATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCT
* * * *
66716982 GATGTCATGTCCCAGACATGGTCTTACACTGGCTCTTATCTATCGATGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCT
*
66717032 GATGCAATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCT
1 GATGC-ATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCT
66717082 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC
66717126 CCTAGCATCA
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.01
50 126 0.98
51 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
GATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCT
Found at i:66717060 original size:100 final size:100
Alignment explanation
Indices: 66716932--66717117 Score: 300
Period size: 100 Copynumber: 1.9 Consensus size: 100
66716922 CATCAAAGTC
* * *
66716932 GATGCTATATCCCAGACATGGTCTTACACTAACTCTTATATATCGAGGCCGATGTCATGTCCCAG
1 GATGCAATATCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCAG
*
66716997 ACATGGTCTTACACTGGCTCTTATCTATCGATGCT
66 ACATGGTCTTACACTAGCTCTTATCTATCGATGCT
* * * *
66717032 GATGCAATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATGCCATGTCCCAG
1 GATGCAATATCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCAG
66717097 ACATGGTCTTACACTAGCTCT
66 ACATGGTCTTACACTAGCTCT
66717118 CATATATCCC
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (100 bp):
GATGCAATATCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTTATCTATCGATGCT
Found at i:66717656 original size:15 final size:16
Alignment explanation
Indices: 66717636--66717667 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
66717626 GCAAAATGAC
66717636 CATTTTG-CCCCTAGA
1 CATTTTGCCCCCTAGA
66717651 CATTTTGCCCCCTAGA
1 CATTTTGCCCCCTAGA
66717667 C
1 C
66717668 TTTCACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.19, C:0.38, G:0.12, T:0.31
Consensus pattern (16 bp):
CATTTTGCCCCCTAGA
Found at i:66723430 original size:50 final size:50
Alignment explanation
Indices: 66723310--66723481 Score: 188
Period size: 50 Copynumber: 3.5 Consensus size: 50
66723300 AAGTGACGAC
* * * * *
66723310 GCCATGTCCCAGACATGGTCTTACACTG--GCTCACACATCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGAATCTCATATATCGAGGTCGAT
* *
66723358 GCCATGTCCCAGACATGGTCTTACATTGAATCTCGTATATCGAGG-CTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGAATCTCATATATCGAGGTC-GAT
* ** * * *
66723408 GCCATGTTCCAGACATGGTCTTACACTGGCTCTCATCTATTGATGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGAATCTCATATATCGAGGTCGAT
*
66723458 GCCATGTCCCAAACATGGTCTTAC
1 GCCATGTCCCAGACATGGTCTTAC
66723482 TGTAACACCC
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
48 27 0.26
49 1 0.01
50 74 0.72
51 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGAATCTCATATATCGAGGTCGAT
Found at i:66734161 original size:50 final size:50
Alignment explanation
Indices: 66734106--66734248 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
66734096 TATCAGGTCT
* *
66734106 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCGTATATCGAG-GCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCG-GTACCG
* * *
66734156 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTACTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCGGTACCG
* * *
66734206 ATGTCATGCCCCAAATATGGTCTTACACT-AGCTCTCATATATC
1 ATGCCATGTCCCAAACATGGTCTTACACTGA-CTCTCATATATC
66734249 CCTAGCATCA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
49 1 0.01
50 80 0.99
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (50 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATATATCGGTACCG
Found at i:66738256 original size:13 final size:13
Alignment explanation
Indices: 66738238--66738264 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66738228 ATTTTAACTG
66738238 TTATATTATATTA
1 TTATATTATATTA
66738251 TTATATTATATTA
1 TTATATTATATTA
66738264 T
1 T
66738265 GTTTTAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:66742722 original size:19 final size:20
Alignment explanation
Indices: 66742678--66742722 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
66742668 AATAAAATCT
*
66742678 ATCAATACTTGACAAAAAGT
1 ATCAATACTTGACAAAAAGA
*
66742698 ACCAAT-CTTGACAAAAAGA
1 ATCAATACTTGACAAAAAGA
66742717 ATCAAT
1 ATCAAT
66742723 TCTGGATCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.51, C:0.18, G:0.09, T:0.22
Consensus pattern (20 bp):
ATCAATACTTGACAAAAAGA
Found at i:66747230 original size:42 final size:42
Alignment explanation
Indices: 66747183--66747286 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
66747173 TATCGGGATG
* * *
66747183 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
66747225 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
66747267 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
66747287 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:66747300 original size:42 final size:42
Alignment explanation
Indices: 66747183--66747308 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
66747173 TATCGGGATG
* * ** *
66747183 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
66747225 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
66747267 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
66747308 T
1 T
66747309 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:66748221 original size:21 final size:21
Alignment explanation
Indices: 66748195--66748251 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
66748185 ATGGTATAAG
66748195 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
66748216 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
66748240 GTGGCATGAATT
1 GTTG-ATGAATT
66748252 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:66754541 original size:29 final size:28
Alignment explanation
Indices: 66754505--66754582 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
66754495 TCATGAGATT
66754505 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
66754535 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
66754562 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
66754583 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:66754800 original size:174 final size:174
Alignment explanation
Indices: 66754535--66754862 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
66754525 AAATTGTACA
*
66754535 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
66754600 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
66754665 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
66754709 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
66754774 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
66754839 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
66754863 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:66784745 original size:20 final size:20
Alignment explanation
Indices: 66784720--66784773 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
66784710 AAAAATCATA
66784720 AAAATTTTATTTAAAATTAC
1 AAAATTTTATTTAAAATTAC
* **
66784740 AAAA-TTTA-CTAAAATTGT
1 AAAATTTTATTTAAAATTAC
*
66784758 AAAATATTATTTAAAA
1 AAAATTTTATTTAAAA
66784774 ATCTAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 11 0.41
19 7 0.26
20 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATTTTATTTAAAATTAC
Found at i:66789634 original size:43 final size:43
Alignment explanation
Indices: 66789585--66789670 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
66789575 TCATATCTCA
66789585 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
* *
66789628 TTTCTCATCTTATATTCATTTATCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
66789671 CAATCACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:66793899 original size:128 final size:128
Alignment explanation
Indices: 66793708--66793966 Score: 500
Period size: 128 Copynumber: 2.0 Consensus size: 128
66793698 CAATTTCCAT
66793708 TATTTTTGGTGAATTTTCAAATTTTGACTACAGCTACTATCCAAAACAGTTTTAGTACAAAAATG
1 TATTTTTGGTGAATTTTCAAATTTTGACTACAGCTACTATCCAAAACAGTTTTAGTACAAAAATG
66793773 ATGATAACTAAGTTCATCACACCTTCATTTCTTTTAAATTAGAAATCTATGCATTTATAAACA
66 ATGATAACTAAGTTCATCACACCTTCATTTCTTTTAAATTAGAAATCTATGCATTTATAAACA
*
66793836 TATTTTTGGTGAATTTTCAAATTTTGACTACAGCTACTATCCAAAACAGTTTTATTACAAAAATG
1 TATTTTTGGTGAATTTTCAAATTTTGACTACAGCTACTATCCAAAACAGTTTTAGTACAAAAATG
*
66793901 ATGATAACTAAGTTCATCACACCTTCATTTCTTTTAAATTAGAAATCTATGCATTTATACACA
66 ATGATAACTAAGTTCATCACACCTTCATTTCTTTTAAATTAGAAATCTATGCATTTATAAACA
66793964 TAT
1 TAT
66793967 ATCATAGTCC
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (128 bp):
TATTTTTGGTGAATTTTCAAATTTTGACTACAGCTACTATCCAAAACAGTTTTAGTACAAAAATG
ATGATAACTAAGTTCATCACACCTTCATTTCTTTTAAATTAGAAATCTATGCATTTATAAACA
Found at i:66794378 original size:72 final size:73
Alignment explanation
Indices: 66794262--66794461 Score: 237
Period size: 72 Copynumber: 2.8 Consensus size: 73
66794252 ACATATTTTG
* * * *
66794262 TAATGCCCG--CATTTGAGCTACTCACGGGTCTGTACACAAAGTCAGCACCTGGACCCCAAAGTA
1 TAATGCCCGCTCA-TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCA
*
66794325 TTATCAT-A
65 TTAACATGA
*
66794333 TAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCAT
1 TAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCAT
66794398 TAACATGA
66 TAACATGA
** ** * * * *
66794406 T-ATGCTTGCTCAGCGAGTTACTCACAGGTTTATACACAAAGTCAGTACCCGAACCC
1 TAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCC
66794462 ACGTTACATA
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
71 9 0.08
72 100 0.88
73 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (73 bp):
TAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCAT
TAACATGA
Found at i:66800732 original size:75 final size:75
Alignment explanation
Indices: 66800653--66800833 Score: 227
Period size: 75 Copynumber: 2.4 Consensus size: 75
66800643 CAGTATTAAA
* * * ** *
66800653 TGTGAGCTCAGCTCTAGTAGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTTTACTGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAATGCTAGTCGGGAATACCGA
66800718 CGACAGTAAT
66 CGACAGTAAT
* * * *
66800728 TGTGAGCCCAGCTCTAGTTGGATAAACCAATGATGTTTGCACCCAATTCTAGTTGGGAATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAATGCTAGTCGGGAATACCGA
* *
66800793 TGATAGTAAT
66 CGACAGTAAT
* * *
66800803 TGTGAGCCCAACTCTAATTGGATGAACCAAC
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAAC
66800834 AGTAATTACG
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (75 bp):
TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAATGCTAGTCGGGAATACCGA
CGACAGTAAT
Found at i:66807258 original size:75 final size:75
Alignment explanation
Indices: 66807168--66807448 Score: 355
Period size: 75 Copynumber: 3.7 Consensus size: 75
66807158 CAGTATTAAA
* * * *
66807168 TGTGAGCCTAGCTCTAGTTGGATAAACCAACAATATTTGCACCTAGTGCTAGTCGGGTATTCCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTATACCGA
*
66807233 TGATAGTAAT
66 CGATAGTAAT
* * *
66807243 TGTGAGCCCATCTCTAGTTGGATAAACCAACGATATTTGTACCCCGTGCTAGTCGGGTATACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTATACCGA
*
66807308 CAATAGTAAT
66 CGATAGTAAT
* * * * * *
66807318 TGTGAGCCCAGCTCTAGTTGGATAAACAAACGATGTTTGCACCCAATACTAGTCGAGTATACTGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTATACCGA
66807383 CGATAGTAAT
66 CGATAGTAAT
* * * * * * * *
66807393 TGTGAGCCCAGCTTTAGCTGGATGAACCAATGGTAATTGCGCCCAGCGCTAGTCGG
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGG
66807449 ATAAACCGGC
Statistics
Matches: 174, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 174 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (75 bp):
TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGGTATACCGA
CGATAGTAAT
Found at i:66811597 original size:48 final size:48
Alignment explanation
Indices: 66811500--66811619 Score: 143
Period size: 48 Copynumber: 2.5 Consensus size: 48
66811490 TGTACCTATG
* ****
66811500 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGACATGAAACCTAGTA
*
66811548 TAAGACCATGTCTGGGACATGGCATCGGC-ACTGACATGAAACCTTGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGA-TGACATGAAACCTAGTA
* * *
66811596 TAAGACCATATCCGGGATATGGCA
1 TAAGACCATGTCTGGGACATGGCA
66811620 ATGATATATA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.02
48 61 0.98
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGATGACATGAAACCTAGTA
Found at i:66828181 original size:46 final size:46
Alignment explanation
Indices: 66828117--66828239 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
66828107 TCTCGAGGCT
* *
66828117 GATGCATGCCCCAAACATGTCTTACACTAGCTCTCAT-CTCAATA-CC
1 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAAT--ATAGCC
* * * * *
66828163 GATGCATGTCCCAGACATGTATTACATTGGCTCTCATAATATAGTC
1 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATATAGCC
*
66828209 GATGCATGTCCCAAACATGTCTTGCACTAGC
1 GATGCATGTCCCAAACATGTCTTACACTAGC
66828240 ACACATATCA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 3 0.05
46 59 0.94
47 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATATAGCC
Found at i:66829798 original size:134 final size:134
Alignment explanation
Indices: 66829558--66829825 Score: 482
Period size: 134 Copynumber: 2.0 Consensus size: 134
66829548 CATTTCTATA
*
66829558 CCACAAAATTTTAACAATTGCTATACTCTTATTCCTCAATTGTTTAACCTCCTAAGCCAAAATAT
1 CCACAAAATTTTAACAAGTGCTATACTCTTATTCCTCAATTGTTTAACCTCCTAAGCCAAAATAT
* *
66829623 TTATTGGCTCTTCACCATAAGTCATATCTGACTGAATCTCAACCTCAGTTGGCGCGATTACATGC
66 TTACTGGCTCTTCACCATAAGTCATATCTGACTGAATCTCAACCTCAGTTGGCACGATTACATGC
66829688 GAAG
131 GAAG
* *
66829692 CCACAAAATTTTAACAAGTGTTATACTCTTATTCCTCAATTGTTTAACCTCCTGAGCCAAAATAT
1 CCACAAAATTTTAACAAGTGCTATACTCTTATTCCTCAATTGTTTAACCTCCTAAGCCAAAATAT
*
66829757 TTACTGGCTCTTCACCATAAGTCATTTCTGACTGAATCTCAACCTCAGTTGGCACGATTACATGC
66 TTACTGGCTCTTCACCATAAGTCATATCTGACTGAATCTCAACCTCAGTTGGCACGATTACATGC
66829822 GAAG
131 GAAG
66829826 GATCCGATTT
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 128 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (134 bp):
CCACAAAATTTTAACAAGTGCTATACTCTTATTCCTCAATTGTTTAACCTCCTAAGCCAAAATAT
TTACTGGCTCTTCACCATAAGTCATATCTGACTGAATCTCAACCTCAGTTGGCACGATTACATGC
GAAG
Found at i:66835986 original size:49 final size:49
Alignment explanation
Indices: 66835910--66836081 Score: 160
Period size: 49 Copynumber: 3.6 Consensus size: 49
66835900 ACATCAAAGT
* * *
66835910 CGATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * *
66835959 CGATG-CAGTGTCCTAGACAGGTTTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCA-TGTCCTAGACAGGTCTTACACTGACTCTCATATATCGGTGC
* * **
66836008 CGATGCCATGTCCTAGACAAGTCTTACACTGACACTC--A-A-C-AAGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGGTGC
* *
66836052 TGATGCCATGTCCTAGATAGGTCTTACACT
1 CGATGCCATGTCCTAGACAGGTCTTACACT
66836082 AGCTTGTATA
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
44 28 0.27
45 1 0.01
46 1 0.01
48 3 0.03
49 67 0.66
50 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:66837561 original size:33 final size:34
Alignment explanation
Indices: 66837524--66837588 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
66837514 TTGTATGTGA
*
66837524 ATAAAAAATTCTGATG-ATAATAGCTTTTTTAGT
1 ATAAAAAATTATGATGAATAATAGCTTTTTTAGT
66837557 ATAAAAAATTATGATGATATAATAGCTTTTTT
1 ATAAAAAATTATGATGA-ATAATAGCTTTTTT
66837589 TAGTCAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 15 0.52
35 14 0.48
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.43
Consensus pattern (34 bp):
ATAAAAAATTATGATGAATAATAGCTTTTTTAGT
Found at i:66841660 original size:28 final size:26
Alignment explanation
Indices: 66841595--66841660 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
66841585 TAATTAGACT
* *
66841595 TAAATTTTGAAAAACAAAAAATATGAT
1 TAAATTTT-AAAAACAAAAAAGATGAC
*
66841622 TAAATTCTTAAAAATAAAAATAGATGAAC
1 TAAATT-TTAAAAACAAAAA-AGATG-AC
66841651 TAAATTTTAA
1 TAAATTTTAA
66841661 GTGTTTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 16 0.48
28 10 0.30
29 7 0.21
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAATTTTAAAAACAAAAAAGATGAC
Found at i:66848893 original size:198 final size:197
Alignment explanation
Indices: 66848556--66848955 Score: 773
Period size: 198 Copynumber: 2.0 Consensus size: 197
66848546 TTGTTGTTTT
66848556 GTTTATAGATCTGTATATTTTTTATCAGTGGGTTTTTAAAAAAAAATGATTTGGGGCATAATGAA
1 GTTTATAGATCTGTATATTTTTTATCAGTGGGTTTTTAAAAAAAAATGATTTGGGGCATAATGAA
66848621 ATGTATGCATCACAAGCAGGAGCACAGAAGCTGCTTAGAGTTTAACAAATCTTCACCAATATATT
66 ATGTATGCATCACAAGCAGGAGCACAGAAGCTGCTTAGAGTTTAACAAATCTTCACCAATATATT
* *
66848686 TAATATTTAATTTAAAGAGATAAGTCTGTAAGTAGATGATTCATCCATAATGAGTATCTACAATG
131 TAATATTTAATTTAAACAGACAAGTCTGTAAGTAGATGATTCATCCATAATGAGTATCTACAATG
66848751 GA
196 GA
66848753 GTTTATAGATCTGTATATTTTTTATCAGTGGGTTTTTAAAAAAAAAATGATTTGGGGCATAATGA
1 GTTTATAGATCTGTATATTTTTTATCAGTGGGTTTTT-AAAAAAAAATGATTTGGGGCATAATGA
66848818 AATGTATGCATCACAAGCAGGAGCACAGAAGCTGCTTAGAGTTTAACAAATCTTCACCAATATAT
65 AATGTATGCATCACAAGCAGGAGCACAGAAGCTGCTTAGAGTTTAACAAATCTTCACCAATATAT
66848883 TTAATATTTAATTTAAACAGACAAGTCTGTAAGTAGATGATTCATCCATAATGAGTATCTACAAT
130 TTAATATTTAATTTAAACAGACAAGTCTGTAAGTAGATGATTCATCCATAATGAGTATCTACAAT
66848948 GGA
195 GGA
66848951 GTTTA
1 GTTTA
66848956 GCTTTGTTAG
Statistics
Matches: 200, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
197 37 0.19
198 163 0.81
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (197 bp):
GTTTATAGATCTGTATATTTTTTATCAGTGGGTTTTTAAAAAAAAATGATTTGGGGCATAATGAA
ATGTATGCATCACAAGCAGGAGCACAGAAGCTGCTTAGAGTTTAACAAATCTTCACCAATATATT
TAATATTTAATTTAAACAGACAAGTCTGTAAGTAGATGATTCATCCATAATGAGTATCTACAATG
GA
Found at i:66852935 original size:6 final size:7
Alignment explanation
Indices: 66852918--66852944 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
66852908 AGCCCTTCTT
66852918 TTTTTTC
1 TTTTTTC
66852925 TTTTTTC
1 TTTTTTC
66852932 TTTTTTC
1 TTTTTTC
66852939 TTTTTT
1 TTTTTT
66852945 TGCACTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:66853159 original size:30 final size:27
Alignment explanation
Indices: 66853125--66853179 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 27
66853115 TTATTAAAAA
66853125 TTAGAAAATAAATTATAAAAATAATAAATT
1 TTAG-AAA-AAATTA-AAAAATAATAAATT
*
66853155 TTAGAAAAAATTAAAAATTAATAAA
1 TTAGAAAAAATTAAAAAATAATAAA
66853180 AATATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 11 0.46
28 6 0.25
29 3 0.12
30 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (27 bp):
TTAGAAAAAATTAAAAAATAATAAATT
Found at i:66853189 original size:27 final size:27
Alignment explanation
Indices: 66853119--66853210 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 27
66853109 CAGCTTTTAT
* *
66853119 TAAAAATTAGAAAATAAATTATAAAAATAA
1 TAAAAA-TATAAAA-AAATTA-AAAATTAA
* *
66853149 T-AAATTTTAGAAAAAATTAAAAATTAA
1 TAAAAATATA-AAAAAATTAAAAATTAA
* * * *
66853176 TAAAAATATAAAAAATTTTAAATTTAC
1 TAAAAATATAAAAAAATTAAAAATTAA
66853203 TAAAAATA
1 TAAAAATA
66853211 GAATTTTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
27 29 0.58
28 14 0.28
29 6 0.12
30 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (27 bp):
TAAAAATATAAAAAAATTAAAAATTAA
Found at i:66853197 original size:18 final size:17
Alignment explanation
Indices: 66853141--66853197 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
66853131 AATAAATTAT
*
66853141 AAAAATAATAAATTTTAGA
1 AAAAATAAAAAATTTT--A
* *
66853160 AAAAATTAAAAATTAATA
1 AAAAATAAAAAATT-TTA
66853178 AAAATATAAAAAATTTTA
1 AAAA-ATAAAAAATTTTA
66853196 AA
1 AA
66853198 TTTACTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.29
19 21 0.68
20 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATAAAAAATTTTA
Found at i:66853420 original size:9 final size:9
Alignment explanation
Indices: 66853406--66853588 Score: 63
Period size: 9 Copynumber: 19.1 Consensus size: 9
66853396 TTTTGGTAAG
66853406 ATAATTTTT
1 ATAATTTTT
66853415 ATAATTTTTTT
1 ATAA--TTTTT
*
66853426 ATGAA-ATTT
1 AT-AATTTTT
*
66853435 ATATTTTTT
1 ATAATTTTT
*
66853444 TTACATTTTGT
1 ATA-ATTTT-T
66853455 ATAATTTTCT
1 ATAATTTT-T
*
66853465 -TACGA-GTTT
1 ATA--ATTTTT
*
66853474 ATAAAATTTT
1 AT-AATTTTT
66853484 ATAATTATTT
1 ATAATT-TTT
*
66853494 AT-ATTTCT
1 ATAATTTTT
66853502 AT-ATATTTT
1 ATAAT-TTTT
*
66853511 ATATTTTTT
1 ATAATTTTT
*
66853520 ATAAAATTTT
1 AT-AATTTTT
*
66853530 ACAATTTTT
1 ATAATTTTT
66853539 -TATATTTTGT
1 ATA-ATTTT-T
**
66853549 ACGATTTTT
1 ATAATTTTT
66853558 ATAAATTTTTT
1 AT-AA-TTTTT
66853569 ATAATTTTTT
1 ATAA-TTTTT
*
66853579 CTAATTTTT
1 ATAATTTTT
66853588 A
1 A
66853589 ATAAAATTAG
Statistics
Matches: 130, Mismatches: 24, Indels: 40
0.67 0.12 0.21
Matches are distributed among these distances:
8 8 0.06
9 53 0.41
10 48 0.37
11 19 0.15
12 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:66853556 original size:46 final size:48
Alignment explanation
Indices: 66853471--66853572 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 48
66853461 TTCTTACGAG
* *
66853471 TTTATAAAATTTTATAATTATTTATATTTCTATATA-TTTTAT-ATTT
1 TTTATAAAATTTTACAATTATTTATATTTCTATAGATTTTTATAATTT
* *
66853517 TTTATAAAATTTTACAATTTTTTATATTT-TGTACGATTTTTATAAATTT
1 TTTATAAAATTTTACAATTATTTATATTTCTATA-GATTTTTAT-AATTT
66853566 TTTATAA
1 TTTATAA
66853573 TTTTTTCTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.06
46 28 0.58
47 6 0.12
49 11 0.23
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (48 bp):
TTTATAAAATTTTACAATTATTTATATTTCTATAGATTTTTATAATTT
Found at i:66853565 original size:20 final size:19
Alignment explanation
Indices: 66853515--66853577 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
66853505 TATTTTATAT
*
66853515 TTTTTATAAAATTTTACAA
1 TTTTTATAAATTTTTACAA
* *
66853534 TTTTT-TATATTTTGTACGA
1 TTTTTATAAATTTT-TACAA
*
66853553 TTTTTATAAATTTTTTATAA
1 TTTTTATAAA-TTTTTACAA
66853573 TTTTT
1 TTTTT
66853578 TCTAATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.17
19 14 0.40
20 11 0.31
21 4 0.11
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTTATAAATTTTTACAA
Found at i:66853567 original size:11 final size:10
Alignment explanation
Indices: 66853553--66853592 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
66853543 TTTTGTACGA
66853553 TTTTTATAAAT
1 TTTTTAT-AAT
66853564 TTTTTATAAT
1 TTTTTATAAT
*
66853574 TTTTTCTAAT
1 TTTTTATAAT
*
66853584 TTTTAATAA
1 TTTTTATAA
66853593 AATTAGGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.73
11 7 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:66853745 original size:89 final size:88
Alignment explanation
Indices: 66853591--66853772 Score: 231
Period size: 89 Copynumber: 2.1 Consensus size: 88
66853581 AATTTTTAAT
* ** * **
66853591 AAAATTAGGGGCTTAATTTTTTTTTGAAAATTTTTGAGGGTTTTTTTGATGCATTTTGAAAGTTC
1 AAAAATAGGGGCTTAATTTTTTTTTGAAAAGATTTGAAGGCCTTTTTGATGCATTTTGAAAGTTC
* * * *
66853656 AAGTAATCAATTGAGTGCAAAAG
66 AAGTAACCAAATAAGTGCAAAAA
*
66853679 AAAAATAGGGGCTTAATTTCCTTTTTTGAAAAGATTTGAAGGCCTTTTTGAT-CATTTTGAAGGT
1 AAAAATAGGGGCTTAATTT--TTTTTTGAAAAGATTTGAAGGCCTTTTTGATGCATTTTGAAAGT
*
66853743 TCAAGTACCCAAATAAGTGCAAAAA
64 TCAAGTAACCAAATAAGTGCAAAAA
66853768 AAAAA
1 AAAAA
66853773 GAAACATAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
88 18 0.22
89 36 0.45
90 26 0.32
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.37
Consensus pattern (88 bp):
AAAAATAGGGGCTTAATTTTTTTTTGAAAAGATTTGAAGGCCTTTTTGATGCATTTTGAAAGTTC
AAGTAACCAAATAAGTGCAAAAA
Found at i:66853793 original size:89 final size:90
Alignment explanation
Indices: 66853607--66853794 Score: 193
Period size: 89 Copynumber: 2.1 Consensus size: 90
66853597 AGGGGCTTAA
** * ** * * *
66853607 TTTTTTTTTGAAAATTTTTGAGGGTTTTTTTGATGCATTTTGAAAGTTCAAGTAATCAATTGAGT
1 TTTTTTTTTGAAAAGATTTGAAGGCCTTTTTGATGCATTTTGAAAGTTCAAGTAACCAAATAAGT
*** *
66853672 GCAAAAGAAAAATAGGGGCTTAATT
66 GCAAAAGAAAAATAGAAACATAATT
** * *
66853697 TCCTTTTTTGAAAAGATTTGAAGGCCTTTTTGAT-CATTTTGAAGGTTCAAGTACCCAAATAAGT
1 TTTTTTTTTGAAAAGATTTGAAGGCCTTTTTGATGCATTTTGAAAGTTCAAGTAACCAAATAAGT
66853761 GCAAAA-AAAAA-AGAAACATAATT
66 GCAAAAGAAAAATAGAAACATAATT
66853784 ACTTTTTTTTT
1 --TTTTTTTTT
66853795 TAAGTTTGAG
Statistics
Matches: 78, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
87 8 0.10
88 5 0.06
89 38 0.49
90 27 0.35
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (90 bp):
TTTTTTTTTGAAAAGATTTGAAGGCCTTTTTGATGCATTTTGAAAGTTCAAGTAACCAAATAAGT
GCAAAAGAAAAATAGAAACATAATT
Found at i:66857397 original size:68 final size:67
Alignment explanation
Indices: 66857325--66857474 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
66857315 CATCATGTGT
* * * *
66857325 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
66857387 ATGTAG
62 ATGTAG
** * *
66857393 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
66857458 AG
66 AG
66857460 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
66857475 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:66857430 original size:64 final size:64
Alignment explanation
Indices: 66857349--66857532 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
66857339 AGACATTATG
* *
66857349 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
66857413 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
66857478 AA
63 AA
* * * *
66857480 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
66857533 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:66861834 original size:68 final size:66
Alignment explanation
Indices: 66861762--66861911 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
66861752 CATCATGTGT
* * * *
66861762 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
66861825 TGTAG
62 TGTAG
** * *
66861830 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
66861895 AG
65 AG
66861897 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
66861912 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:66861867 original size:64 final size:64
Alignment explanation
Indices: 66861786--66861969 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
66861776 AGACATTATG
* * *
66861786 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
66861850 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
66861915 AA
63 AA
* * *
66861917 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
66861970 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:66866712 original size:130 final size:130
Alignment explanation
Indices: 66866474--66866732 Score: 482
Period size: 130 Copynumber: 2.0 Consensus size: 130
66866464 TGGAAAATAC
*
66866474 TTTCATTGCAGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAACTGTTGTTTTTGAAAACGT
1 TTTCATTGCAGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAACTGTTGTTTTTGAAAACGC
*
66866539 GCCCTAAAGCTATCCAATTTCAACAGTTAAAATAAGTATTACCTATCTTAGTAATACATATTAAT
66 GCCCTAAAGCTATCCAATTTCAACAGTTAAAATAAGTAATACCTATCTTAGTAATACATATTAAT
*
66866604 TTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAACTGTTGTTTTTGAAAACGC
1 TTTCATTGCAGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAACTGTTGTTTTTGAAAACGC
*
66866669 GCCCTAAAGCTATCCAATTTCAATAGTTAAAATAAGTAATACCTATCTTAGTAATACATATTAA
66 GCCCTAAAGCTATCCAATTTCAACAGTTAAAATAAGTAATACCTATCTTAGTAATACATATTAA
66866733 AACCATTAAA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
130 125 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (130 bp):
TTTCATTGCAGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAACTGTTGTTTTTGAAAACGC
GCCCTAAAGCTATCCAATTTCAACAGTTAAAATAAGTAATACCTATCTTAGTAATACATATTAAT
Found at i:66868951 original size:26 final size:26
Alignment explanation
Indices: 66868920--66868975 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
66868910 TGAAATGCCC
66868920 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
66868946 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
66868972 ATCA
1 ATCA
66868976 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:66869241 original size:26 final size:26
Alignment explanation
Indices: 66869210--66869265 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
66869200 TGAAATGCCC
66869210 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
66869236 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
66869262 ATCA
1 ATCA
66869266 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:66869293 original size:290 final size:290
Alignment explanation
Indices: 66868773--66869353 Score: 1144
Period size: 290 Copynumber: 2.0 Consensus size: 290
66868763 GAACATTCAA
*
66868773 GTGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTTAGGCTATGATGAACAAAGATGGACAAAACTT
1 GTGCTTTCTCCTCTCCTTTATCTTCTCTAACTTTAGGCTATGATGAACAAAGATGGACAAAACTT
66868838 TGTTCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATTCATTTAATTCTTTAATACA
66 TGTTCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATTCATTTAATTCTTTAATACA
66868903 AAAGACATGAAATGCCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACC
131 AAAGACATGAAATGCCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACC
66868968 CATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCTCACATTGTCTACAAC
196 CATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCTCACATTGTCTACAAC
66869033 AACATGATGGCTGGCCACTTCATGTAAAAT
261 AACATGATGGCTGGCCACTTCATGTAAAAT
66869063 GTGCTTTCTCCTCTCCTTTATCTTCTCTAACTTTAGGCTATGATGAACAAAGATGGACAAAACTT
1 GTGCTTTCTCCTCTCCTTTATCTTCTCTAACTTTAGGCTATGATGAACAAAGATGGACAAAACTT
66869128 TGTTCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATTCATTTAATTCTTTAATACA
66 TGTTCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATTCATTTAATTCTTTAATACA
66869193 AAAGACATGAAATGCCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACC
131 AAAGACATGAAATGCCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACC
66869258 CATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCTCACATTGTCTACAAC
196 CATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCTCACATTGTCTACAAC
*
66869323 AACATGATGGTTGGCCACTTCATGTAAAAT
261 AACATGATGGCTGGCCACTTCATGTAAAAT
66869353 G
1 G
66869354 GGAGGTTTGT
Statistics
Matches: 289, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 289 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.37
Consensus pattern (290 bp):
GTGCTTTCTCCTCTCCTTTATCTTCTCTAACTTTAGGCTATGATGAACAAAGATGGACAAAACTT
TGTTCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATTCATTTAATTCTTTAATACA
AAAGACATGAAATGCCCATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACC
CATTATCAATTTGTATCAATTTGTACCATAAATTATGGATATCAAGTGCTCACATTGTCTACAAC
AACATGATGGCTGGCCACTTCATGTAAAAT
Found at i:66876191 original size:54 final size:54
Alignment explanation
Indices: 66876037--66876198 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 54
66876027 AGTGCTATAC
* * *
66876037 CGGATGTTTCGCACACTAAGCGCCATCCTCGATACTTCGCACATTAAGTGCCATTT
1 CGGATGTTT-GCACACTAAGTGCCATCCTCAATACTTCGCACACT-AGTGCCATTT
* * * * ** *
66876093 CAGATGTTT-CACACATTAAGTGTCATCATCAATACCTCATACACT-GTGTCATTT
1 CGGATGTTTGCACAC--TAAGTGCCATCCTCAATACTTCGCACACTAGTGCCATTT
*
66876147 CGGATGTCTTGCACACTAAGTACCATCCTCAATACTTCGCACACTAAGTGCC
1 CGGATGT-TTGCACACTAAGTGCCATCCTCAATACTTCGCACACT-AGTGCC
66876199 GTTCGTTTGG
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
54 42 0.51
55 2 0.02
56 38 0.46
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (54 bp):
CGGATGTTTGCACACTAAGTGCCATCCTCAATACTTCGCACACTAGTGCCATTT
Found at i:66878806 original size:26 final size:26
Alignment explanation
Indices: 66878777--66878829 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
66878767 TCAAACATGC
66878777 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
66878803 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
66878829 A
1 A
66878830 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:66879698 original size:50 final size:50
Alignment explanation
Indices: 66879640--66879739 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
66879630 AATATGTTCT
*
66879640 CGTTTATTCCATTTGAAACTAGACTCATTAAGATTTAATTACATGATTTA
1 CGTTTATTCCATTTGAAACTAGACTCATTAAGATTTAATTACATAATTTA
66879690 CGTTTATTCCATTTGAAACTAGACTCATTAAGATTTAATTACATAATTTA
1 CGTTTATTCCATTTGAAACTAGACTCATTAAGATTTAATTACATAATTTA
66879740 TGCAGCTTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (50 bp):
CGTTTATTCCATTTGAAACTAGACTCATTAAGATTTAATTACATAATTTA
Found at i:66880397 original size:26 final size:26
Alignment explanation
Indices: 66880366--66880837 Score: 890
Period size: 26 Copynumber: 18.2 Consensus size: 26
66880356 TGAAATGCCC
* *
66880366 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAATATTTACCTAATCCATT
* *
66880392 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880418 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880444 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880470 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880496 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880522 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880548 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880574 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880600 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880626 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880652 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880678 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880704 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880730 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
*
66880756 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880782 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAATCCATT
*
66880808 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATT
66880834 ATCA
1 ATCA
66880838 ATTTGTATCA
Statistics
Matches: 440, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 440 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (26 bp):
ATCATGGAATATTTACCTAATCCATT
Found at i:66889268 original size:37 final size:37
Alignment explanation
Indices: 66889226--66889327 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
66889216 CTAATATTTT
66889226 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
66889263 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
66889306 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
66889328 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:66895463 original size:17 final size:16
Alignment explanation
Indices: 66895439--66895470 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
66895429 AGGGCACCTT
66895439 AAAAAAAAGAGAAAAG
1 AAAAAAAAGAGAAAAG
66895455 AAAAGAAAAGAGAAAA
1 AAAA-AAAAGAGAAAA
66895471 AGAGAGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAGAAAAG
Found at i:66896541 original size:73 final size:74
Alignment explanation
Indices: 66896420--66896576 Score: 235
Period size: 73 Copynumber: 2.1 Consensus size: 74
66896410 TTTCCTTTTT
*
66896420 TTTCAATTTATGCTTTTCAAAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTATGCTTTTC-AAAAAATCAACCCATATTGCGAGAGGTGAGCTGAGCCTCAGGACAC
*
66896485 GCTGAGGTAA
65 GCCGAGGTAA
* * *
66896495 TTTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACG
1 TTTCAATTTATGCTTTTCAAAAAATCAACCCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACG
*
66896559 CCGAGGTAT
66 CCGAGGTAA
*
66896568 TTTTAATTT
1 TTTCAATTT
66896577 CTTTTTTTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
73 57 0.76
75 18 0.24
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (74 bp):
TTTCAATTTATGCTTTTCAAAAAATCAACCCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACG
CCGAGGTAA
Found at i:66896678 original size:102 final size:101
Alignment explanation
Indices: 66896495--66896879 Score: 433
Period size: 102 Copynumber: 3.9 Consensus size: 101
66896485 GCTGAGGTAA
* * * *
66896495 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGC
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
66896560 CGAGGTATTTTTAATTTCTTTTTTTTTCAATTTCTGC
66 TGAGGTATTTTCAATTTC-TTTTTTTTCAATTTATGC
* * *
66896597 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGC
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
66896662 TGAGGTATTTTCAATTTC-TGTTTTTCAATTTTTGCC
66 TGAGGTATTTTCAATTTCTTTTTTTTCAATTTATG-C
* *
66896698 TTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
66896761 TGAGGTATTCTCAATTTTCGTTTTTTT-AATTTATG-
66 TGAGGTATTTTCAA-TTTCTTTTTTTTCAATTTATGC
* *
66896796 TTTCAA-----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC
1 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
66896850 TGAGATATTTTCAAATTCTATTTTTATCAA
66 TGAGGTATTTTCAATTTCT-TTTTTTTCAA
66896880 AAAAATCAAC
Statistics
Matches: 249, Mismatches: 27, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
88 3 0.01
89 62 0.25
90 2 0.01
98 5 0.02
99 57 0.23
100 25 0.10
101 21 0.08
102 74 0.30
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (101 bp):
TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTCTTTTTTTTCAATTTATGC
Found at i:66896906 original size:77 final size:76
Alignment explanation
Indices: 66896801--66897029 Score: 316
Period size: 77 Copynumber: 3.0 Consensus size: 76
66896791 TTATGTTTCA
* *
66896801 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAAAT
66896866 TCTATTTTTATC
66 TCT-TTTTTATC
** *
66896878 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAAAT
**
66896943 TCTGCTTT-TC
66 TCTTTTTTATC
* * **
66896953 AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACACGTCGAGGTCCTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACAC-T-GAGGTATTTTCAA
66897018 ATTCTGTTTTTA
64 ATTCT-TTTTTA
66897030 ATTTTTTTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
75 47 0.36
76 4 0.03
77 78 0.59
78 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTCAAAT
TCTTTTTTATC
Found at i:66897304 original size:334 final size:336
Alignment explanation
Indices: 66896597--66897361 Score: 911
Period size: 334 Copynumber: 2.3 Consensus size: 336
66896587 CAATTTCTGC
* *
66896597 TTTT-AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
66896659 CGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTCTGCTTTTCAAATCAAC
66 CGCTGAGGTACTTTCAAATTCTGTTTTTCAATTTTT--CTTACAAATTATGCTTTTCAAATCAAC
* * *
66896724 TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTCTCAATTTTCGTTTTTTTA
129 TCATATTGCGAGAGGTGAGTTGAACCTCA-GACACGCTGAGGTATTCTCAATTTTCGTATTTTCA
66896789 ATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAG
193 ATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAG
* * * *
66896854 ATATTTTCAAATTCTATTTTTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
258 ATAATTTCAAATTCTATTTTTATC-AAAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTCA
* *
66896919 GGACATGCTGAGGTA
322 AGACACGCTGAGGTA
* *
66896934 TTTTCAATTTCTG-CTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCC
1 TTTTCAATTTCTGTC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* * *
66896998 ACACG-TCGAGGTCCTTTCAAATTCTGTTTTT-AATTTTT-TT-TAATTTATG-TGTTTCAAAAA
63 ACACGCT-GAGGTACTTTCAAATTCTGTTTTTCAATTTTTCTTACAAATTATGCT-TTTC----A
* * * * *
66897058 AATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGACGCTGAGGTGTTTTCCA-TTTC-TA
122 AATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGACACGCTGAGGTATTCTCAATTTTCGTA
* *
66897120 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGAC
187 TTTTCAATTTATG--TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * *
66897184 ACGCTGAGGTAATTTC-AATT-T-TTGTTTGTC-AAAAATCAACTCATATTGCGAGAAGTGAGTC
250 ACACTGAGATAATTTCAAATTCTATT-TTTATCAAAAAATCAACTCATATTGCGAGAAGTGAGTC
* *
66897245 GAGCCTTAAGACACGTTGAGGTA
314 GAGCCTCAAGACACGCTGAGGTA
* * *
66897268 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * *
66897331 CGCTGAGGTAATTTCAATTTTTGTTTGTCAA
66 CGCTGAGGTACTTTCAAATTCTGTTTTTCAA
66897362 AAATCAACTC
Statistics
Matches: 369, Mismatches: 41, Indels: 42
0.82 0.09 0.09
Matches are distributed among these distances:
330 23 0.06
331 3 0.01
334 101 0.27
335 3 0.01
336 7 0.02
337 30 0.08
338 75 0.20
339 20 0.05
340 39 0.11
341 43 0.12
342 25 0.07
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (336 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTACTTTCAAATTCTGTTTTTCAATTTTTCTTACAAATTATGCTTTTCAAATCAACTC
ATATTGCGAGAGGTGAGTTGAACCTCAGACACGCTGAGGTATTCTCAATTTTCGTATTTTCAATT
TATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGATA
ATTTCAAATTCTATTTTTATCAAAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTCAAGAC
ACGCTGAGGTA
Found at i:66897331 original size:75 final size:74
Alignment explanation
Indices: 66897118--66897507 Score: 499
Period size: 73 Copynumber: 5.3 Consensus size: 74
66897108 TTTCCATTTC
* *
66897118 TATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGA
1 TATTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
66897183 CACGCTGAGG
65 CACGCTGAGG
* * * * *
66897193 TAATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTTAAGA
1 TATTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
66897256 CACGTTGAGG
65 CACGCTGAGG
* *
66897266 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-
1 TATTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
66897330 -ACGCTGAGG
65 CACGCTGAGG
* * * * *
66897339 TAATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTTAAGA
1 TATTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
66897402 CACGTTGAGG
65 CACGCTGAGG
*
66897412 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TATTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
66897477 CA--CTGAGG
65 CACGCTGAGG
* *
66897485 TGTTTTCTATTTCTGTTCTTCAA
1 TATTTTCAATTTCTGTT-TTCAA
66897508 TTTCTGTGTT
Statistics
Matches: 271, Mismatches: 33, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
71 36 0.13
72 3 0.01
73 134 0.49
74 7 0.03
75 91 0.34
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (74 bp):
TATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
ACGCTGAGG
Found at i:66897384 original size:146 final size:146
Alignment explanation
Indices: 66897118--66897485 Score: 664
Period size: 146 Copynumber: 2.5 Consensus size: 146
66897108 TTTCCATTTC
* * *
66897118 TATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA--A
*
66897183 CACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTCGAG
64 GACGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTCGAG
66897248 CCTTAAGACACGTTGAGG
129 CCTTAAGACACGTTGAGG
*
66897266 TATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
66897331 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCC
66897396 TTAAGACACGTTGAGG
131 TTAAGACACGTTGAGG
66897412 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
*
66897477 CACTGAGGT
66 CGCTGAGGT
66897486 GTTTTCTATT
Statistics
Matches: 213, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
146 155 0.73
148 58 0.27
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (146 bp):
TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTCGAGCC
TTAAGACACGTTGAGG
Found at i:66897614 original size:15 final size:14
Alignment explanation
Indices: 66897578--66897610 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
66897568 CGCTGAGGTA
66897578 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
66897592 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
66897606 TTTTC
1 TTTTC
66897611 CAAAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:66897641 original size:92 final size:90
Alignment explanation
Indices: 66897414--66898195 Score: 1017
Period size: 92 Copynumber: 8.6 Consensus size: 90
66897404 CGTTGAGGTA
* * * * *
66897414 TTTTCAATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGAC
* * *
66897478 A--CTGAGGTGTTTTCTATTTC-TGT
65 ACGCTGAGGTATTTTCAATTTCTTTT
* * * * * * * **
66897501 TCTTCAATTTCTGTGTT-TCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTC
1 TTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAG-CATCA-GG
* *
66897565 ACACGCTGAGGTATTTTCAAATTC-TGT
63 ACACGCTGAGGTATTTTCAATTTCTTTT
*
66897592 TTTTCAAATTT-TGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGA
1 TTTTC-AATTTATGTTTGT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGA
*
66897656 CACGTTGAGGTATTTTCAATTTCTTTTTT
64 CACGCTGAGGTATTTTCAATTTC--TTTT
66897685 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
1 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
*
66897750 CGTTGAGGTATTTTCAATTTCTTTTTT
66 CGCTGAGGTATTTTCAATTTC--TTTT
66897777 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
1 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
*
66897842 CGTTGAGGTATTTTCAATTTCTTTTTT
66 CGCTGAGGTATTTTCAATTTC--TTTT
66897869 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
1 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
*
66897934 CGTTGAGGTATTTTCAATTTCTTTTTT
66 CGCTGAGGTATTTTCAATTTC--TTTT
66897961 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
1 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
*
66898026 CGTTGAGGTATTTTCAATTTCTTTTTT
66 CGCTGAGGTATTTTCAATTTC--TTTT
* *
66898053 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGG--A
* **
66898118 CACGCCGAGGTATTTTCAATTGATTTT
64 CACGCTGAGGTATTTTCAATTTCTTTT
* * *
66898145 TTTTAAAATTTATACTTTG-C--AAAAATCAACTCATATTACGAGAGGTGAGTT
1 TTTT-CAATTTAT-GTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
66898196 GAGCCTCGGG
Statistics
Matches: 647, Mismatches: 33, Indels: 26
0.92 0.05 0.04
Matches are distributed among these distances:
87 50 0.08
88 3 0.00
89 3 0.00
90 24 0.04
91 60 0.09
92 462 0.71
93 21 0.03
94 24 0.04
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (90 bp):
TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGGACA
CGCTGAGGTATTTTCAATTTCTTTT
Found at i:66898338 original size:87 final size:84
Alignment explanation
Indices: 66897435--66898392 Score: 393
Period size: 92 Copynumber: 10.6 Consensus size: 84
66897425 TGTCTTTCAA
* * * * * *
66897435 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACA--CTGAGGTGTTTTCTATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGTCACATGCCGAGGTATTTTCAATT
* *
66897496 TCTGTTCTTCAATTTCTGTGTTT
65 TCTGTT-TTTAATTT-AGT-TTT
* ** * * * *
66897519 CAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAG-GTCACATGCCGAGGTATTTTCA
* *
66897584 AATTCTGTTTTTCAAATTTTGTTTTT
62 ATTTCTGTTTTT--AATTTAG-TTTT
* * * * **
66897610 CCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGG--ACACGTTGAGGTATTTTC
1 ----AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGTCACATGCCGAGGTATTTTC
*
66897673 AATTTCTTTTTTTTTTCAATTTATGTTTGT
61 AATTTC---TGTTTTT-AATTTA-GTTT-T
* * * * **
66897703 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGG--ACACGTTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGTCACATGCCGAGGTATTTTCA
*
66897766 ATTTCTTTTTTTTTTCAATTTATGTTTGT
62 ATTTC---TGTTTTT-AATTTA-GTTT-T
* * * * **
66897795 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGG--ACACGTTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGTCACATGCCGAGGTATTTTCA
*
66897858 ATTTCTTTTTTTTTTCAATTTATGTTTGT
62 ATTTC---TGTTTTT-AATTTA-GTTT-T
* * * * **
66897887 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGG--ACACGTTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGTCACATGCCGAGGTATTTTCA
*
66897950 ATTTCTTTTTTTTTTCAATTTATGTTTGT
62 ATTTC---TGTTTTT-AATTTA-GTTT-T
* * * * **
66897979 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCATCAGG--ACACGTTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGTCACATGCCGAGGTATTTTCA
*
66898042 ATTTCTTTTTTTTTTCAATTTATGTTTGT
62 ATTTC---TGTTTTT-AATTTA-GTTT-T
* *
66898071 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGTCACATGCCGAGGTATTTTCA
*
66898136 ATTGAT-TTTTTTTAAAATTTA-TACTTT
62 ATT--TCTGTTTTT--AATTTAGT--TTT
* * * * *
66898163 GCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTTACATACCGAGGTATTTTCAA
1 --AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGTCACATGCCGAGGTATTTTCAA
** * *
66898228 AATCTGTTTTACAAATTTTGTTTT
63 TTTCTGTTTT--TAATTTAGTTTT
* * * * *
66898252 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGG-TCACATGCCGAGGTATTTTCAATT
66898317 TCTGTTTTTAATGTCTAGTTTT
65 TCTGTTTTTAAT-T-TAGTTTT
* * * *
66898339 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGG-TCACATGCCGAG
66898393 TAAATAATAA
Statistics
Matches: 780, Mismatches: 60, Indels: 61
0.87 0.07 0.07
Matches are distributed among these distances:
85 3 0.00
86 3 0.00
87 104 0.13
88 38 0.05
89 7 0.01
90 34 0.04
91 85 0.11
92 468 0.60
93 17 0.02
94 20 0.03
96 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (84 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGGTCACATGCCGAGGTATTTTCAATTT
CTGTTTTTAATTTAGTTTT
Found at i:66898465 original size:21 final size:21
Alignment explanation
Indices: 66898439--66898478 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66898429 TTTTATATCC
66898439 TTGAAGTTACAGTGAAGCTAA
1 TTGAAGTTACAGTGAAGCTAA
* *
66898460 TTGAAGTTGCAGTGGAGCT
1 TTGAAGTTACAGTGAAGCT
66898479 GATCGAGGAT
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:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (21 bp):
TTGAAGTTACAGTGAAGCTAA
Found at i:66899041 original size:30 final size:30
Alignment explanation
Indices: 66899005--66899103 Score: 164
Period size: 30 Copynumber: 3.3 Consensus size: 30
66898995 TTAGCCTTTG
66899005 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
66899035 CCACCA-CAACCTCCACTAGCCACACTTGCT
1 CCACCACCAA-CTCCACTAGCCACACTTGCT
* *
66899065 CCACTACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
66899095 CCACCACCA
1 CCACCACCA
66899104 CTTGTACCTA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
29 3 0.05
30 58 0.92
31 2 0.03
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:66909922 original size:71 final size:69
Alignment explanation
Indices: 66909824--66909998 Score: 217
Period size: 71 Copynumber: 2.5 Consensus size: 69
66909814 TTTTCAAGGG
* *
66909824 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
66909888 GTTTT
65 GTTTT
* ** * *
66909893 CAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
66909958 TGTTTT
64 TGTTTT
** * *
66909964 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
66909999 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 30 0.33
71 59 0.65
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Found at i:66910714 original size:49 final size:49
Alignment explanation
Indices: 66910657--66910752 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
66910647 ATATTGTGAG
* *
66910657 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
66910706 AAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
66910753 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:66910979 original size:152 final size:152
Alignment explanation
Indices: 66910706--66911439 Score: 1316
Period size: 152 Copynumber: 4.8 Consensus size: 152
66910696 TTTCTGTTCA
* * * * *
66910706 AAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
66910768 ATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66 ATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66910833 AAAAATCAACTCATATTGCAAG
131 AAAAATCAACTCATATTGCAAG
66910855 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
66910920 ATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66 ATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66910985 AAAAATCAACTCATATTGCAAG
131 AAAAATCAACTCATATTGCAAG
66911007 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
66911072 ATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66 ATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66911137 AAAAATCAACTCATATTGCAAG
131 AAAAATCAACTCATATTGCAAG
* *
66911159 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGCTGTTTTC--AAAATTCAAC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTG-T-CTTTCAAAAAAATCAAC
66911222 TCATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAA
64 TCATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAA
66911287 AAAAAAATCAACTCATATTGCAAG
129 AAAAAAATCAACTCATATTGCAAG
66911311 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
* * * *
66911376 ATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAA
66 ATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
66911440 TTCAACTTAT
Statistics
Matches: 565, Mismatches: 13, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
149 42 0.07
150 8 0.01
151 1 0.00
152 509 0.90
153 1 0.00
154 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (152 bp):
AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
ATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
AAAAATCAACTCATATTGCAAG
Found at i:66911939 original size:46 final size:46
Alignment explanation
Indices: 66911883--66912061 Score: 211
Period size: 46 Copynumber: 3.9 Consensus size: 46
66911873 GGATATTTGG
66911883 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
66911929 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
* *
66911975 GGCATCCGAGCTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
66912022 ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66912062 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 69 0.62
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:66912041 original size:93 final size:93
Alignment explanation
Indices: 66911882--66912054 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
66911872 GGGATATTTG
* * **
66911882 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
66911947 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
66911975 GGCATCCGAGCTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
66912040 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
66912055 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:66917200 original size:6 final size:6
Alignment explanation
Indices: 66917189--66917228 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
66917179 ATGTTTCATA
* * *
66917189 TATTTT TATTTT TGTTTT TATTTG TACTTT TATTTT TATT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATT
66917229 GTTTTTATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:66917883 original size:5 final size:5
Alignment explanation
Indices: 66917873--66917915 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
66917863 ATCAATCTGG
66917873 AAAAT AAAAT AAAAT AAAA- AACAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAA
66917916 CTTAAAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 6 0.17
5 27 0.77
6 2 0.06
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:66919408 original size:23 final size:23
Alignment explanation
Indices: 66919382--66919429 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
66919372 ATCTAGCATG
66919382 CATATGACCAAAAAAACCAGCAC
1 CATATGACCAAAAAAACCAGCAC
66919405 CATATGACCAAAAAAACCAGCAC
1 CATATGACCAAAAAAACCAGCAC
66919428 CA
1 CA
66919430 ATCAATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.31, G:0.08, T:0.08
Consensus pattern (23 bp):
CATATGACCAAAAAAACCAGCAC
Found at i:66921265 original size:11 final size:11
Alignment explanation
Indices: 66921249--66921279 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
66921239 TGCGCATATG
66921249 TTATTTCATGC
1 TTATTTCATGC
66921260 TTATTTCATGC
1 TTATTTCATGC
66921271 TTATTTCAT
1 TTATTTCAT
66921280 TATTCTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (11 bp):
TTATTTCATGC
Found at i:66925253 original size:46 final size:43
Alignment explanation
Indices: 66925159--66925326 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 43
66925149 ATATCTATGT
* *
66925159 CGATGCCATGTCCCAGACATGGTCTTACACTGACACGTCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCATGTCTCG-AGC
*
66925205 CGATGCGTGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC--ATGTCTCGA-GC
* * *
66925251 CGATGCATATCCCAGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCA-T-GTCTCGA-GC
66925297 CGATGCTATGTCCCAGACATGTCTTACACT
1 CGATGC-ATGTCCCAGACATGTCTTACACT
66925327 AGCTCACAAT
Statistics
Matches: 107, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 13 0.12
45 15 0.14
46 57 0.53
47 22 0.21
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (43 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCATGTCTCGAGC
Found at i:66925324 original size:93 final size:92
Alignment explanation
Indices: 66925159--66925326 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 92
66925149 ATATCTATGT
* * *
66925159 CGATGCCATGTCCCAGACATGGTCTTACACTGACACGTCTCGTAGCCGATGCGTGTCCCAGACAT
1 CGATGCCATATCCCAGACATGGTCTTACACTGACACGTCTCATAGCCGATGCATGTCCCAGACAT
66925224 GTCTTACACTGGCTTATGTCTCGAGGC
66 GTCTTACACTGGCTTATGTCTCGAGGC
*
66925251 CGATG-CATATCCCAGACAT-GTCTTACACTAGCACTCGTCTCA-ATGCCGATGCTATGTCCCAG
1 CGATGCCATATCCCAGACATGGTCTTACACT-G-ACACGTCTCATA-GCCGATGC-ATGTCCCAG
66925313 ACATGTCTTACACT
62 ACATGTCTTACACT
66925327 AGCTCACAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
90 10 0.15
91 15 0.22
92 21 0.31
93 22 0.32
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (92 bp):
CGATGCCATATCCCAGACATGGTCTTACACTGACACGTCTCATAGCCGATGCATGTCCCAGACAT
GTCTTACACTGGCTTATGTCTCGAGGC
Found at i:66927137 original size:52 final size:52
Alignment explanation
Indices: 66927072--66927175 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
66927062 AGACAGACAA
*
66927072 AACATTTCAGATCAATAAGGAATTAGC-GATATCACATAATATTAATACATAG
1 AACATTTCAGATCAATAAGGAATCA-CAGATATCACATAATATTAATACATAG
66927124 AACATTTCAGATCAATAAGGAATCACAGATATCACATAATATTAATACATAG
1 AACATTTCAGATCAATAAGGAATCACAGATATCACATAATATTAATACATAG
66927176 GTAATCATTG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 1 0.02
52 49 0.98
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (52 bp):
AACATTTCAGATCAATAAGGAATCACAGATATCACATAATATTAATACATAG
Found at i:66932765 original size:48 final size:48
Alignment explanation
Indices: 66932713--66932807 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
66932703 TCAGATCAGT
*
66932713 AGGAAAAAAAATATCTCGAATCAATAACGGGCAATTCTTGCAGACTTC
1 AGGAAAAAAAATATCTCAAATCAATAACGGGCAATTCTTGCAGACTTC
* *
66932761 AGGAAAACAGATATCTCAAATCAATAACGGGCAATTCTTGCAGACTT
1 AGGAAAAAAAATATCTCAAATCAATAACGGGCAATTCTTGCAGACTT
66932808 TATCAACCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (48 bp):
AGGAAAAAAAATATCTCAAATCAATAACGGGCAATTCTTGCAGACTTC
Found at i:66946943 original size:56 final size:58
Alignment explanation
Indices: 66946858--66946972 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 58
66946848 GTCATTTTTT
*
66946858 ATTTTCATTTTGGAGAAAATCACACTCA-TTCCAAATGTCTT-CATTTCTCCATTTTCA
1 ATTTTCATTTTGGAGAAAACCACACTCATTTCCAAATGT-TTCCATTTCTCCATTTTCA
** *
66946915 ATTTT-ATTTTGGAGAAAACCACTTTCATTTCCAAATGTTTCCCATTTCTCTATTTTCA
1 ATTTTCATTTTGGAGAAAACCACACTCATTTCCAAATGTTT-CCATTTCTCCATTTTCA
66946973 CCATTTCTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 21 0.41
57 15 0.29
58 15 0.29
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACCACACTCATTTCCAAATGTTTCCATTTCTCCATTTTCA
Found at i:66948404 original size:17 final size:18
Alignment explanation
Indices: 66948382--66948416 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
66948372 TGAATTGGGT
*
66948382 CGTGTGGG-CCAGACGGG
1 CGTGTGGGTCCACACGGG
66948399 CGTGTGGGTCCACACGGG
1 CGTGTGGGTCCACACGGG
66948417 TAGTCCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.26, G:0.49, T:0.14
Consensus pattern (18 bp):
CGTGTGGGTCCACACGGG
Found at i:66948466 original size:31 final size:31
Alignment explanation
Indices: 66948394--66948466 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
66948384 TGTGGGCCAG
* **
66948394 ACGGGCGTGTGGGTCCACACGGGTAGTCCAC
1 ACGGGCGTGTGGGTCAACACGAATAGTCCAC
* * *
66948425 ATGGGTGTGTGGGTCAACACGAATAGTCCAT
1 ACGGGCGTGTGGGTCAACACGAATAGTCCAC
66948456 ACGGGCGTGTG
1 ACGGGCGTGTG
66948467 AGATTCTGGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.21
Consensus pattern (31 bp):
ACGGGCGTGTGGGTCAACACGAATAGTCCAC
Found at i:66950469 original size:47 final size:48
Alignment explanation
Indices: 66950415--66950514 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
66950405 GGTAGAAATG
*
66950415 ATGGTAATAGGAAACCTCATAATG-GAAAGTGAAGTACTTCTTATGTT
1 ATGGTAATAGGAAACCACATAATGAGAAAGTGAAGTACTTCTTATGTT
* ** **
66950462 ATGGTAATGGGAAACCACATAATGAGTTAGTGAAGTGTTTCTTATGTT
1 ATGGTAATAGGAAACCACATAATGAGAAAGTGAAGTACTTCTTATGTT
*
66950510 GTGGT
1 ATGGT
66950515 CAGCATAGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 22 0.49
48 23 0.51
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (48 bp):
ATGGTAATAGGAAACCACATAATGAGAAAGTGAAGTACTTCTTATGTT
Found at i:66956419 original size:12 final size:13
Alignment explanation
Indices: 66956395--66956421 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66956385 CAAGAATCCC
66956395 AAAAACATAAAAA
1 AAAAACATAAAAA
66956408 AAAAACATAAAAA
1 AAAAACATAAAAA
66956421 A
1 A
66956422 CAGGGCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAACATAAAAA
Done.