Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 81 of 172
Found at i:23157505 original size:50 final size:50
Alignment explanation
Indices: 23157360--23157508 Score: 210
Period size: 50 Copynumber: 3.0 Consensus size: 50
23157350 ATTGTGGGTA
* * * *
23157360 GTCCACAAAGTGTTATCAGTGGCAATTTATTTGCAAATTGGTGGTAGCTT
1 GTCCACAAAGTGTTATCAGTGGCAATTTATTTGTAAATCGATGGTGGCTT
* * *
23157410 GTCCACAAAGTGTTATCAGTGGTAGTTTATCTGTAAATC-AGTGGTGGCTT
1 GTCCACAAAGTGTTATCAGTGGCAATTTATTTGTAAATCGA-TGGTGGCTT
*
23157460 GTCCACAAAGTGTTTTCAGTGGCAATTTATTTGTAAATCGATGGTGGCT
1 GTCCACAAAGTGTTATCAGTGGCAATTTATTTGTAAATCGATGGTGGCT
23157509 AGTCAATTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 85 0.99
51 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (50 bp):
GTCCACAAAGTGTTATCAGTGGCAATTTATTTGTAAATCGATGGTGGCTT
Found at i:23157702 original size:16 final size:16
Alignment explanation
Indices: 23157677--23157708 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23157667 TATATTTTGG
23157677 TATGTATGTGAATATA
1 TATGTATGTGAATATA
*
23157693 TATGTTTGTGAATATA
1 TATGTATGTGAATATA
23157709 CTTGTATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (16 bp):
TATGTATGTGAATATA
Found at i:23158467 original size:16 final size:16
Alignment explanation
Indices: 23158419--23158455 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
23158409 TTTAGATTCG
23158419 AAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
23158435 AAACTATAGACTTTGA
1 AAACTATAGACTGTGA
23158451 AAACT
1 AAACT
23158456 CTATTCTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:23163736 original size:104 final size:104
Alignment explanation
Indices: 23163613--23163867 Score: 465
Period size: 104 Copynumber: 2.5 Consensus size: 104
23163603 GGGTTGTTGT
23163613 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
*
23163678 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGAGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
*
23163717 GTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
23163782 GGGAGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGAGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
** *
23163821 GTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
23163868 ATAACGGTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 145 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (104 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
GGGAGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:23163824 original size:27 final size:28
Alignment explanation
Indices: 23163781--23163833 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
23163771 GAAATGTGAA
*
23163781 AGGGAGTTGCTATGTGCTGATTCCCCCG
1 AGGGAGTTGCTAAGTGCTGATTCCCCCG
23163809 AGGG-GTTGCTAAGTGCTGATTCCCC
1 AGGGAGTTGCTAAGTGCTGATTCCCC
23163834 GATTCAGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.15, C:0.25, G:0.32, T:0.28
Consensus pattern (28 bp):
AGGGAGTTGCTAAGTGCTGATTCCCCCG
Found at i:23167293 original size:50 final size:50
Alignment explanation
Indices: 23167239--23167470 Score: 284
Period size: 50 Copynumber: 4.6 Consensus size: 50
23167229 TGTGTTAGTA
* * * *
23167239 TATCTGCATATCAGTGGTGGCTAGTCCACAAAGTGTTATTAGTGGCAGTT
1 TATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTT
* * * * *
23167289 TATCTGCAAACCGGTGGTGGCTTGTCCATAAAGTGTTGTCAGTGATAGTT
1 TATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTT
* * * * * *
23167339 TATTTGCAAATCAGTGGTAGCTTGTCCAAAAATTTTTATCAGTGATAGTT
1 TATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTT
* * * *
23167389 TATCTGTAAATCAGTGGTGGCTTATCCACAAAGTGTTATTAGTGGCAGTT
1 TATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTT
*
23167439 TATTTGCAAATCAGTGGTGGCTTGTCCACAAA
1 TATCTGCAAATCAGTGGTGGCTTGTCCACAAA
23167471 TGATGATTCG
Statistics
Matches: 152, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 152 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (50 bp):
TATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTATCAGTGACAGTT
Found at i:23167671 original size:16 final size:16
Alignment explanation
Indices: 23167650--23167681 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23167640 TATATTTTGG
23167650 TATGTATGTAAATATA
1 TATGTATGTAAATATA
*
23167666 TATGTATGTGAATATA
1 TATGTATGTAAATATA
23167682 CTTGTGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (16 bp):
TATGTATGTAAATATA
Found at i:23167838 original size:20 final size:20
Alignment explanation
Indices: 23167796--23167838 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23167786 CTCAAAAATG
*
23167796 TTTTTTTATGATTATGGATT
1 TTTTTTTATGATTATGGACT
*
23167816 TTTTTTTATG-TTTTGGGACT
1 TTTTTTTATGATTAT-GGACT
23167836 TTT
1 TTT
23167839 ATGGACTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.14, C:0.02, G:0.16, T:0.67
Consensus pattern (20 bp):
TTTTTTTATGATTATGGACT
Found at i:23170134 original size:18 final size:18
Alignment explanation
Indices: 23170099--23170152 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
23170089 CTTACTTCTA
*
23170099 AGGTTTGCA-AACATCAT
1 AGGTTTGCATAACAACAT
*
23170116 AGGTTTACATAACAACAT
1 AGGTTTGCATAACAACAT
*
23170134 AGGTTCGCATAACAACAT
1 AGGTTTGCATAACAACAT
23170152 A
1 A
23170153 TAAGGGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 8 0.25
18 24 0.75
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (18 bp):
AGGTTTGCATAACAACAT
Found at i:23170194 original size:18 final size:18
Alignment explanation
Indices: 23170171--23170205 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23170161 CTATTTACAA
* *
23170171 ATGGTTCGCATACATATC
1 ATGGTTAGCAAACATATC
23170189 ATGGTTAGCAAACATAT
1 ATGGTTAGCAAACATAT
23170206 AGAGGGTCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (18 bp):
ATGGTTAGCAAACATATC
Found at i:23171137 original size:15 final size:16
Alignment explanation
Indices: 23171110--23171140 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23171100 ATTTTATTTT
23171110 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
23171126 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
23171141 TAATTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:23171198 original size:15 final size:15
Alignment explanation
Indices: 23171178--23171234 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
23171168 ATTCAATATT
23171178 AATATTTTAATAATA
1 AATATTTTAATAATA
*
23171193 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
23171212 AATATATTAATAATA
1 AATATTTTAATAATA
*
23171227 AATGTTTT
1 AATATTTT
23171235 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:23171392 original size:11 final size:12
Alignment explanation
Indices: 23171368--23171394 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23171358 ATTGTTTACA
23171368 TTGTTAATTTTT
1 TTGTTAATTTTT
23171380 TTGTTAATTTTT
1 TTGTTAATTTTT
23171392 TTG
1 TTG
23171395 ATTTCATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (12 bp):
TTGTTAATTTTT
Found at i:23172327 original size:44 final size:44
Alignment explanation
Indices: 23172265--23172374 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
23172255 ATCGCTTGCT
* * *
23172265 AATATAAAGAGCTTGCAAAAAAAAATATTCATATAAAGCTCGCC
1 AATATGAAGACCTCGCAAAAAAAAATATTCATATAAAGCTCGCC
* * ** * * *
23172309 AATATGAGGACCTCGCAAAAACACTTGTTCATATAGAGCTCGCT
1 AATATGAAGACCTCGCAAAAAAAAATATTCATATAAAGCTCGCC
* *
23172353 AATATGAAGAGCTCACAAAAAA
1 AATATGAAGACCTCGCAAAAAA
23172375 CACTTGTTCA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (44 bp):
AATATGAAGACCTCGCAAAAAAAAATATTCATATAAAGCTCGCC
Found at i:23173691 original size:45 final size:44
Alignment explanation
Indices: 23173623--23173813 Score: 240
Period size: 45 Copynumber: 4.2 Consensus size: 44
23173613 AACACGCAGC
* ** *
23173623 ACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCACATAGCA
1 ACCACCTTTATAACCAATGGTA-TCGGTGAAATCAGCACATAGCA
* *
23173668 ACCACCTTTAT-ACTCAATGGTACTGGGTGAAATCAGCACATAGAA
1 ACCACCTTTATAAC-CAATGGTA-TCGGTGAAATCAGCACATAGCA
* *
23173713 ACCACCTATATAACCATTGGTATCTGGTGAAATCAGCACATAGCA
1 ACCACCTTTATAACCAATGGTATC-GGTGAAATCAGCACATAGCA
* *
23173758 ACCACCTATATAACCATTGGTATCCGGTGAAATCAGCACATAGCA
1 ACCACCTTTATAACCAATGGTAT-CGGTGAAATCAGCACATAGCA
23173803 ACCACCTTTAT
1 ACCACCTTTAT
23173814 TTTCATTAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
44 1 0.01
45 127 0.97
46 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (44 bp):
ACCACCTTTATAACCAATGGTATCGGTGAAATCAGCACATAGCA
Found at i:23173860 original size:45 final size:45
Alignment explanation
Indices: 23173648--23173858 Score: 264
Period size: 45 Copynumber: 4.7 Consensus size: 45
23173638 AATAGTACTC
* *
23173648 GGTGAAATCAGCACATAGCAACCACCTTTAT-ACTCAATGGTA-CTG
1 GGTGAAATCAGCACATAGCAACCACCTATATAAC-CATTGGTATC-G
* *
23173693 GGTGAAATCAGCACATAGAAACCACCTATATAACCATTGGTATCT
1 GGTGAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCG
*
23173738 GGTGAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCC
1 GGTGAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCG
* *** **
23173783 GGTGAAATCAGCACATAGCAACCACCTTTATTTTCATTAATATCG
1 GGTGAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCG
* * *
23173828 GGTGGAATTAGCACATAGCATCCACCTATAT
1 GGTGAAATCAGCACATAGCAACCACCTATAT
23173859 TTCCAACGAT
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 144 0.98
46 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.26
Consensus pattern (45 bp):
GGTGAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCG
Found at i:23177675 original size:15 final size:16
Alignment explanation
Indices: 23177654--23177699 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
23177644 ATATTTTTTT
23177654 AAAATATAAAAAATTC
1 AAAATATAAAAAATTC
23177670 -AAATATTATAAAAA-TC
1 AAAATA-TA-AAAAATTC
23177686 AAAATATAAAAAAT
1 AAAATATAAAAAAT
23177700 ATTTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 10 0.38
16 6 0.23
17 10 0.38
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATATAAAAAATTC
Found at i:23177687 original size:16 final size:15
Alignment explanation
Indices: 23177654--23177697 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 15
23177644 ATATTTTTTT
23177654 AAAATATAAAAAATTC
1 AAAATAT-AAAAATTC
23177670 AAATATTATAAAAA-TC
1 AAA-A-TATAAAAATTC
23177686 AAAATATAAAAA
1 AAAATATAAAAA
23177698 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.31
15 1 0.04
16 8 0.31
17 6 0.23
18 3 0.12
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATATAAAAATTC
Found at i:23177698 original size:16 final size:16
Alignment explanation
Indices: 23177654--23177698 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
23177644 ATATTTTTTT
*
23177654 AAAATATAAAAAATTC
1 AAAATATAAAAAAATC
*
23177670 -AAATATTATAAAAATC
1 AAAATA-TAAAAAAATC
23177686 AAAATATAAAAAA
1 AAAATATAAAAAA
23177699 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 5 0.21
16 14 0.58
17 5 0.21
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATATAAAAAAATC
Found at i:23177962 original size:18 final size:19
Alignment explanation
Indices: 23177937--23177982 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
23177927 TTCTAAATGT
*
23177937 GTATTTTTATTAATT-TTA
1 GTATTTTTATAAATTATTA
23177955 -TAATTTTTATAAATTATTA
1 GT-ATTTTTATAAATTATTA
23177974 GTATTTTTA
1 GTATTTTTA
23177983 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 12 0.50
19 10 0.42
20 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (19 bp):
GTATTTTTATAAATTATTA
Found at i:23182729 original size:2 final size:2
Alignment explanation
Indices: 23182724--23182748 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23182714 TTAAAAAAAC
23182724 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23182749 ATCATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23185991 original size:18 final size:18
Alignment explanation
Indices: 23185965--23186032 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
23185955 TCACTTATGT
23185965 ATAAGGGTTTGCATACATA
1 ATAA-GGTTTGCATACATA
*
23185984 ATAAGGTTTGCATTCATA
1 ATAAGGTTTGCATACATA
* * *
23186002 AT-AGGTATGTATTCATA
1 ATAAGGTTTGCATACATA
*
23186019 ATAAGGTTCGCATA
1 ATAAGGTTTGCATA
23186033 TATGTAAGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
17 15 0.37
18 22 0.54
19 4 0.10
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (18 bp):
ATAAGGTTTGCATACATA
Found at i:23186015 original size:17 final size:17
Alignment explanation
Indices: 23185974--23186021 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
23185964 TATAAGGGTT
* *
23185974 TGCATACATAATAAGGTT
1 TGCATTCATAAT-AGGTA
23185992 TGCATTCATAATAGGTA
1 TGCATTCATAATAGGTA
*
23186009 TGTATTCATAATA
1 TGCATTCATAATA
23186022 AGGTTCGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (17 bp):
TGCATTCATAATAGGTA
Found at i:23192337 original size:22 final size:24
Alignment explanation
Indices: 23192294--23192345 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
23192284 GCCATTCAAT
* *
23192294 TATATTCATACATGTACATTTTCA
1 TATATTCACACATATACATTTTCA
*
23192318 TATATTCACACATAT-CTTTTGTCA
1 TATATTCACACATATACATTT-TCA
23192342 TATA
1 TATA
23192346 CCATTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (24 bp):
TATATTCACACATATACATTTTCA
Found at i:23194600 original size:20 final size:24
Alignment explanation
Indices: 23194575--23194624 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 24
23194565 TTTTCCCTTT
23194575 TTTATTTA-CT-TA-TTATTTT-A
1 TTTATTTACCTATACTTATTTTCA
23194595 TTTATTTACCTATACTTATTTTCA
1 TTTATTTACCTATACTTATTTTCA
23194619 TTTATT
1 TTTATT
23194625 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 2 0.08
22 2 0.08
23 7 0.27
24 7 0.27
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATTTACCTATACTTATTTTCA
Found at i:23197306 original size:15 final size:15
Alignment explanation
Indices: 23197282--23197311 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23197272 ACAGGTTCAT
*
23197282 ATTTAGGGTTCGCAC
1 ATTTAAGGTTCGCAC
23197297 ATTTAAGGTTCGCAC
1 ATTTAAGGTTCGCAC
23197312 CTTGGGGCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
ATTTAAGGTTCGCAC
Found at i:23197414 original size:21 final size:21
Alignment explanation
Indices: 23197361--23197422 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
23197351 GCATGCTGAC
23197361 ATATATAGGGTTCACATAA-A
1 ATATATAGGGTTCACATAACA
* *
23197381 AT-TACATGGGTTCACATAACT
1 ATATATA-GGGTTCACATAACA
*
23197402 ATATATAGGGTTCGCATAACA
1 ATATATAGGGTTCACATAACA
23197423 TGGCTCGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 3 0.09
20 14 0.41
21 14 0.41
22 3 0.09
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (21 bp):
ATATATAGGGTTCACATAACA
Found at i:23201491 original size:55 final size:55
Alignment explanation
Indices: 23201418--23201521 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
23201408 CCATAGAAAA
* * *
23201418 TGAAGACCATATCGTGTAAAACCTAATCTGGGATTATGGCATCTTATGGTGCATG
1 TGAAGACCATATCATGTAAAACCTAATCTGGGACTATGGCATCATATGGTGCATG
* *
23201473 TGAAGACCATATCATGTAAGACCTAGTCTGGGACTATGGCATCATATGG
1 TGAAGACCATATCATGTAAAACCTAATCTGGGACTATGGCATCATATGG
23201522 AGTATTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (55 bp):
TGAAGACCATATCATGTAAAACCTAATCTGGGACTATGGCATCATATGGTGCATG
Found at i:23201546 original size:55 final size:55
Alignment explanation
Indices: 23201418--23201547 Score: 154
Period size: 55 Copynumber: 2.4 Consensus size: 55
23201408 CCATAGAAAA
* * * * *
23201418 TGAAGACCATATCGTGTAAAACCTAATCTGGGATTATGGCATCTTATGGTGCATG
1 TGAAGACCATATAGTGTAAGACCTAATCTGGGACTATGGCATCATATGGAGCATG
* * *
23201473 TGAAGACCATATCA-TGTAAGACCTAGTCTGGGACTATGGCATCATATGGAGTATT
1 TGAAGACCATAT-AGTGTAAGACCTAATCTGGGACTATGGCATCATATGGAGCATG
**
23201528 TGAATTCCATATAGTGTAAG
1 TGAAGACCATATAGTGTAAG
23201548 GCTTAGCCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 1 0.02
55 62 0.98
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (55 bp):
TGAAGACCATATAGTGTAAGACCTAATCTGGGACTATGGCATCATATGGAGCATG
Found at i:23201793 original size:29 final size:29
Alignment explanation
Indices: 23201728--23201801 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
23201718 GTAGTTGTTC
23201728 TGTGAGCCTTTGTGG-TTATTAGCTGATA
1 TGTGAGCCTTTGTGGCTTATTAGCTGATA
* *
23201756 TGTAAGCCTTTGTGGCTTAACTT-GGT-ATA
1 TGTGAGCCTTTGTGGCTT-A-TTAGCTGATA
*
23201785 TGTGAGCCTTGGTGGCT
1 TGTGAGCCTTTGTGGCT
23201802 GATCTATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 14 0.36
29 20 0.51
30 3 0.08
31 2 0.05
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.41
Consensus pattern (29 bp):
TGTGAGCCTTTGTGGCTTATTAGCTGATA
Found at i:23231126 original size:35 final size:35
Alignment explanation
Indices: 23231077--23231272 Score: 241
Period size: 35 Copynumber: 5.6 Consensus size: 35
23231067 GTATATTGTC
* *
23231077 AATCCAACCATAACACGCCGATGCTCATAAGAGCT
1 AATCCAACCGTAACACGCCAATGCTCATAAGAGCT
* *
23231112 AGTCCAACCGTAACACGCCAATGCTCATGAGAGCT
1 AATCCAACCGTAACACGCCAATGCTCATAAGAGCT
** *
23231147 AATCCAATTGTAACACGCCTATGCTCATAAGAGCT
1 AATCCAACCGTAACACGCCAATGCTCATAAGAGCT
* * * *
23231182 AATTCAACCGTAACACTCCAATGCTCATGAGAGAT
1 AATCCAACCGTAACACGCCAATGCTCATAAGAGCT
* *
23231217 AA-CCTAACCATAACACACCAATGCTCATAAGAGCT
1 AATCC-AACCGTAACACGCCAATGCTCATAAGAGCT
* *
23231252 AATCCAATCGTAACACACCAA
1 AATCCAACCGTAACACGCCAA
23231273 ACAGGGAATA
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 133 0.98
36 2 0.01
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (35 bp):
AATCCAACCGTAACACGCCAATGCTCATAAGAGCT
Found at i:23238079 original size:4 final size:4
Alignment explanation
Indices: 23238070--23238119 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
23238060 GATGGAGAAT
* *
23238070 AAAG AAAG AAAG AAAG AAAG AAAGG AGATG AAA- AAAG AGA- AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAA-G A-AAG AAAG AAAG AAAG AAAG AAAG
23238118 AA
1 AA
23238120 GAAGAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 5 0.13
4 28 0.74
5 4 0.11
6 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:23238122 original size:12 final size:13
Alignment explanation
Indices: 23238072--23238126 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
23238062 TGGAGAATAA
23238072 AGAAAGAAAGAA-
1 AGAAAGAAAGAAG
*
23238084 AGAAAGAAAGGAG
1 AGAAAGAAAGAAG
23238097 ATGAAA-AAAG-AG
1 A-GAAAGAAAGAAG
23238109 A-AAAGAAAGAAG
1 AGAAAGAAAGAAG
23238121 AAGAAA
1 -AGAAA
23238127 AATCTGTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
10 3 0.08
11 4 0.11
12 16 0.44
13 6 0.17
14 7 0.19
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (13 bp):
AGAAAGAAAGAAG
Found at i:23240060 original size:13 final size:13
Alignment explanation
Indices: 23240042--23240066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23240032 TGGGATTAAT
23240042 AATTAAAGAAAAA
1 AATTAAAGAAAAA
23240055 AATTAAAGAAAA
1 AATTAAAGAAAA
23240067 TTTTAAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AATTAAAGAAAAA
Found at i:23241718 original size:2 final size:2
Alignment explanation
Indices: 23241707--23241747 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
23241697 CATTACATTT
23241707 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23241747 T
1 T
23241748 TAGTATTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23243338 original size:22 final size:22
Alignment explanation
Indices: 23243295--23243338 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
23243285 TTTTTATAGC
*
23243295 TTATATATTTTTTCCTAATTTT
1 TTATATATTATTTCCTAATTTT
23243317 TTATATATCTATTT-CT-ATTTT
1 TTATATAT-TATTTCCTAATTTT
23243338 T
1 T
23243339 CTAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATATATTATTTCCTAATTTT
Found at i:23243421 original size:30 final size:30
Alignment explanation
Indices: 23243385--23243444 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
23243375 TATTGCTACG
23243385 TGAAGCTATGTGATTGCTTCTTTTTTTTTT
1 TGAAGCTATGTGATTGCTTCTTTTTTTTTT
23243415 TGAAGCTATGTGATTGCTTCTTTTTTTTTT
1 TGAAGCTATGTGATTGCTTCTTTTTTTTTT
23243445 CTTTTTGTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.10, G:0.17, T:0.60
Consensus pattern (30 bp):
TGAAGCTATGTGATTGCTTCTTTTTTTTTT
Found at i:23252129 original size:27 final size:27
Alignment explanation
Indices: 23252098--23252153 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
23252088 TGATTATTCG
* * * *
23252098 ATGTTAATTGTGAATATTATGGTCCTA
1 ATGTTAATCGTAAATATCATGCTCCTA
23252125 ATGTTAATCGTAAATATCATGCTCCTA
1 ATGTTAATCGTAAATATCATGCTCCTA
23252152 AT
1 AT
23252154 TCTTTACATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (27 bp):
ATGTTAATCGTAAATATCATGCTCCTA
Found at i:23257149 original size:21 final size:21
Alignment explanation
Indices: 23257124--23257200 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
23257114 CGACACATAA
23257124 GTGCCTGAAATAACACACGAG
1 GTGCCTGAAATAACACACGAG
* ** *
23257145 GTGCCTGATACGACACACGAA
1 GTGCCTGAAATAACACACGAG
23257166 GTGCCTGAAATACGACACACGAG
1 GTGCCTGAAATA--ACACACGAG
*
23257189 GTGCATGAAATA
1 GTGCCTGAAATA
23257201 CGACACATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 26 0.58
23 19 0.42
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (21 bp):
GTGCCTGAAATAACACACGAG
Found at i:23257178 original size:23 final size:23
Alignment explanation
Indices: 23257111--23257242 Score: 148
Period size: 23 Copynumber: 6.0 Consensus size: 23
23257101 CCTAATCAGT
*
23257111 ATACGACACA-TAAGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
*
23257133 ATA--ACACACGAGGTGCCTG--
1 ATACGACACACGAAGTGCCTGAA
23257152 ATACGACACACGAAGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
* *
23257175 ATACGACACACGAGGTGCATGAA
1 ATACGACACACGAAGTGCCTGAA
** *
23257198 ATACGACACATAAAGCGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
**
23257221 ATACGACACATAAAGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
23257243 TTGGCAAAGC
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.03
20 5 0.05
21 23 0.24
22 3 0.03
23 60 0.64
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (23 bp):
ATACGACACACGAAGTGCCTGAA
Found at i:23257218 original size:46 final size:43
Alignment explanation
Indices: 23257111--23257230 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 43
23257101 CCTAATCAGT
*
23257111 ATACGACACATAAGTGCCTGAAATA--ACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAATACGACACACGAGGTGCATG
*
23257152 ATACGACACACGAAGTGCCTGAAATACGACACACGAGGTGCATG
1 ATACGACACA-TAAGTGCCTGAAATACGACACACGAGGTGCATG
*
23257196 AAATACGACACATAAAGCGCCTGAAATACGACACA
1 --ATACGACACAT-AAGTGCCTGAAATACGACACA
23257231 TAAAGTGCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
41 10 0.14
42 14 0.20
44 15 0.22
46 30 0.43
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.14
Consensus pattern (43 bp):
ATACGACACATAAGTGCCTGAAATACGACACACGAGGTGCATG
Found at i:23257358 original size:17 final size:19
Alignment explanation
Indices: 23257324--23257359 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
23257314 TAGTTAATAG
23257324 CTTTCAATTTCACAATTCA
1 CTTTCAATTTCACAATTCA
23257343 CTTTC-ATTTC-CAATTCA
1 CTTTCAATTTCACAATTCA
23257360 AGATCACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 5 0.29
19 5 0.29
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (19 bp):
CTTTCAATTTCACAATTCA
Found at i:23257531 original size:13 final size:13
Alignment explanation
Indices: 23257500--23257537 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
23257490 TATTCATAAA
23257500 TTAATTCACTTTAT
1 TTAATTCA-TTTAT
23257514 TTAATTCATATT-T
1 TTAATTCAT-TTAT
23257527 TTAATTCATTT
1 TTAATTCATTT
23257538 TCCAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 11 0.48
14 10 0.43
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAATTCATTTAT
Found at i:23258683 original size:5 final size:5
Alignment explanation
Indices: 23258675--23258745 Score: 87
Period size: 5 Copynumber: 14.6 Consensus size: 5
23258665 ATTTTACATA
*
23258675 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATATTTT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT ATAAT
23258727 A-AA- ATAAT AT-AT -TAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATA
23258746 TTTAAAACAT
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
3 2 0.03
4 8 0.14
5 44 0.76
7 4 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:23258761 original size:30 final size:30
Alignment explanation
Indices: 23258675--23258759 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
23258665 ATTTTACATA
* * *
23258675 ATAATATAATATA-ATATAATATAATATAAT
1 ATAATATAATATATTTA-AAAATAAAATAAT
* *
23258705 ATAATATAATATATTTTATAATAAAATAAT
1 ATAATATAATATATTTAAAAATAAAATAAT
23258735 AT-AT-TAATATATTTAAAACATAAAA
1 ATAATATAATATATTTAAAA-ATAAAA
23258760 ATCTAATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 12 0.26
29 8 0.17
30 25 0.54
31 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAATATAATATATTTAAAAATAAAATAAT
Found at i:23265040 original size:19 final size:20
Alignment explanation
Indices: 23264997--23265040 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
23264987 GATATCTCTA
*
23264997 AAGGTGTGTCGCGACATCATT
1 AAGGTGTGTCGCGACATCA-G
23265018 AAGGTGTGTCGCGACATC-G
1 AAGGTGTGTCGCGACATCAG
23265037 AAGG
1 AAGG
23265041 CAATCTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
21 18 0.82
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (20 bp):
AAGGTGTGTCGCGACATCAG
Found at i:23267784 original size:13 final size:12
Alignment explanation
Indices: 23267749--23267826 Score: 52
Period size: 12 Copynumber: 6.4 Consensus size: 12
23267739 GATGATGAGG
*
23267749 AAAAGAGAAAAA
1 AAAAGTGAAAAA
* *
23267761 GAAAGTTAAAAA
1 AAAAGTGAAAAA
23267773 AAAGAGTGAAAAA
1 AAA-AGTGAAAAA
*
23267786 TAAAA-TGAAAATG
1 -AAAAGTGAAAA-A
*
23267799 AGAA-TGAAAAA
1 AAAAGTGAAAAA
* *
23267810 GAATGTGAAAAA
1 AAAAGTGAAAAA
23267822 AAAAG
1 AAAAG
23267827 AAAAAAATCA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
11 1 0.02
12 36 0.73
13 9 0.18
14 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (12 bp):
AAAAGTGAAAAA
Found at i:23267796 original size:24 final size:24
Alignment explanation
Indices: 23267755--23267831 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
23267745 GAGGAAAAGA
* * *
23267755 GAAAAAGAAAGTTAAAAAAAAGAGT
1 GAAAAAGAAA-ATGAAAAAAAGAAT
* **
23267780 GAAAAATAAAATGAAAATGAGAAT
1 GAAAAAGAAAATGAAAAAAAGAAT
**
23267804 GAAAAAGAATGTGAAAAAAA-AA-
1 GAAAAAGAAAATGAAAAAAAGAAT
23267826 GAAAAA
1 GAAAAA
23267832 AATCAAATTT
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
22 6 0.15
23 2 0.05
24 24 0.59
25 9 0.22
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (24 bp):
GAAAAAGAAAATGAAAAAAAGAAT
Found at i:23267979 original size:100 final size:92
Alignment explanation
Indices: 23267801--23267993 Score: 278
Period size: 100 Copynumber: 2.0 Consensus size: 92
23267791 TGAAAATGAG
* *
23267801 AATGAAAAAGAATGTGAAAAAAAAAGAAAAAAATCAAATTTTTACTCAAAAGAAAGAGAAATTAA
1 AATGAAAAAGAATGTGAAAAAAAAAGAAAAAAATCAAATTTCTACTAAAAAGAAAGAGAAATTAA
*
23267866 GAGAGTTGTAACGATTGGGCAACCCAT
66 GAGAGTTGAAACGATTGGGCAACCCAT
23267893 AATGAAAAAGAATGTGAAAGAAAAAGGGAGAAAAGAAAATCAAATTTCTACTAAAAAGAGAAAGA
1 AATGAAAAAGAATGTGAAA-AAAAA---AG-AAA-AAAATCAAATTTCTACT-AAAA-AGAAAGA
*
23267958 GAAATTAGGAGAGTTGAAACGATTGGGCAACCCAT
58 GAAATTAAGAGAGTTGAAACGATTGGGCAACCCAT
23267993 A
1 A
23267994 CTTGTGCTTT
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
92 19 0.21
93 5 0.06
96 2 0.02
97 3 0.03
98 16 0.18
99 3 0.03
100 41 0.46
ACGTcount: A:0.54, C:0.08, G:0.20, T:0.18
Consensus pattern (92 bp):
AATGAAAAAGAATGTGAAAAAAAAAGAAAAAAATCAAATTTCTACTAAAAAGAAAGAGAAATTAA
GAGAGTTGAAACGATTGGGCAACCCAT
Found at i:23272576 original size:20 final size:20
Alignment explanation
Indices: 23272533--23272590 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
23272523 AATAAAGAGG
* *
23272533 AATAACACCAATAAGATCAT
1 AATAACAACAACAAGATCAT
*
23272553 AATAACAACAA-AAGATCTT
1 AATAACAACAACAAGATCAT
23272572 CAATATAGCAACAACAAGA
1 -AATA-A-CAACAACAAGA
23272591 AAATTCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 7 0.22
20 14 0.44
21 1 0.03
22 6 0.19
23 4 0.12
ACGTcount: A:0.57, C:0.19, G:0.07, T:0.17
Consensus pattern (20 bp):
AATAACAACAACAAGATCAT
Found at i:23275647 original size:20 final size:21
Alignment explanation
Indices: 23275617--23275672 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
23275607 CATAGAGTTT
* * *
23275617 AAATAAGATAATATAACATTA
1 AAATAAGATAAAATAAAATCA
23275638 AAATAA-ATAAAATAAAATCA
1 AAATAAGATAAAATAAAATCA
**
23275658 AAATAATTTAAAATA
1 AAATAAGATAAAATA
23275673 TCCTCCATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAAGATAAAATAAAATCA
Found at i:23276416 original size:85 final size:86
Alignment explanation
Indices: 23276223--23276487 Score: 336
Period size: 85 Copynumber: 3.1 Consensus size: 86
23276213 TCACATAAAT
* * * * *
23276223 GCCGCTAAAGAACATGACATTTAGTGACGCTTTTATCACAAACAATGCTAAAGAACATGACCTTT
1 GCCGCTAAAGAACATGACCTTTAGTGGCGATTTTATCACAAACGACGCTAAAGAACATGACCTTT
* *
23276288 AGCGGTGCTTTTATAACAAAC
66 AGCGGCGCTTTTATTACAAAC
** ** * *
23276309 GCCGCTAAAGGTCATGTTCTTTAGCGGCGATTTTATCACAAACGCCGCTAAAGAACATG-CCTTT
1 GCCGCTAAAGAACATGACCTTTAGTGGCGATTTTATCACAAACGACGCTAAAGAACATGACCTTT
*
23276373 AGCGGCGCTTTTGTTACAAAC
66 AGCGGCGCTTTTATTACAAAC
* * * *
23276394 GCCGCTAAAGAACATGACCTTTAGTGGCGTTTTTATTATAAACGTCGCTAAA-AACATGACCTTT
1 GCCGCTAAAGAACATGACCTTTAGTGGCGATTTTATCACAAACGACGCTAAAGAACATGACCTTT
* *
23276458 AGCGACGCTTTTTTTACAAAC
66 AGCGGCGCTTTTATTACAAAC
23276479 GCCGCTAAA
1 GCCGCTAAA
23276488 AGTACCGTTC
Statistics
Matches: 153, Mismatches: 25, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
84 6 0.04
85 99 0.65
86 48 0.31
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (86 bp):
GCCGCTAAAGAACATGACCTTTAGTGGCGATTTTATCACAAACGACGCTAAAGAACATGACCTTT
AGCGGCGCTTTTATTACAAAC
Found at i:23276488 original size:42 final size:43
Alignment explanation
Indices: 23276223--23276487 Score: 318
Period size: 43 Copynumber: 6.2 Consensus size: 43
23276213 TCACATAAAT
* * * *
23276223 GCCGCTAAAGAACATGACATTTAGTGACGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTACAAAC
*** * *
23276266 AATGCTAAAGAACATGACCTTTAGCGGTGCTTTTATAACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTACAAAC
** ** * *
23276309 GCCGCTAAAGGTCATGTTCTTTAGCGGCGATTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTACAAAC
*
23276352 GCCGCTAAAGAACATG-CCTTTAGCGGCGCTTTTGTTACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTACAAAC
* * *
23276394 GCCGCTAAAGAACATGACCTTTAGTGGCGTTTTTATTATAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTACAAAC
* * *
23276437 GTCGCTAAA-AACATGACCTTTAGCGACGCTTTTTTTACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTACAAAC
23276479 GCCGCTAAA
1 GCCGCTAAA
23276488 AGTACCGTTC
Statistics
Matches: 186, Mismatches: 35, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
42 74 0.40
43 112 0.60
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTACAAAC
Found at i:23282319 original size:9 final size:9
Alignment explanation
Indices: 23282305--23282713 Score: 236
Period size: 9 Copynumber: 45.1 Consensus size: 9
23282295 TAAGTATAAA
23282305 TAAGTTATG
1 TAAGTTATG
23282314 TAAGTTATG
1 TAAGTTATG
* * *
23282323 ATATGATATA
1 -TAAGTTATG
*
23282333 T-ATTTATG
1 TAAGTTATG
23282341 T-A-TTATG
1 TAAGTTATG
23282348 TAAGTTATG
1 TAAGTTATG
*
23282357 TGAGTTATG
1 TAAGTTATG
*
23282366 AAAGTTAT-
1 TAAGTTATG
* *
23282374 TATA-TGATA
1 TA-AGTTATG
*
23282383 TATATTTATG
1 TA-AGTTATG
23282393 T-A-TTATG
1 TAAGTTATG
23282400 TAAGTTATG
1 TAAGTTATG
23282409 TAAGTTATG
1 TAAGTTATG
*
23282418 TGAGTTATG
1 TAAGTTATG
*
23282427 AAAGTTATG
1 TAAGTTATG
* * *
23282436 ATATGATATA
1 -TAAGTTATG
*
23282446 T-ATTTATG
1 TAAGTTATG
23282454 T-A-TTATG
1 TAAGTTATG
23282461 TAAGTTATG
1 TAAGTTATG
23282470 TAAGTTATG
1 TAAGTTATG
*
23282479 TGAGTTATG
1 TAAGTTATG
*
23282488 AAAGTTATG
1 TAAGTTATG
* *
23282497 ATATGATATATA
1 -TAAG-T-TATG
23282509 TATATGTTAT-
1 TA-A-GTTATG
23282519 TAAGTTATG
1 TAAGTTATG
*
23282528 TAAGTTAAG
1 TAAGTTATG
* * *
23282537 ATATGATATA
1 -TAAGTTATG
*
23282547 TATATTTATG
1 TA-AGTTATG
23282557 TAAGTTATG
1 TAAGTTATG
*
23282566 TGAGTTATG
1 TAAGTTATG
23282575 TAAGTTATG
1 TAAGTTATG
* * *
23282584 ATATGATATA
1 -TAAGTTATG
*
23282594 TATA-TATATA
1 TA-AGT-TATG
23282604 TAAGTTAT-
1 TAAGTTATG
23282612 TAAGTTATG
1 TAAGTTATG
23282621 TAAGTTATG
1 TAAGTTATG
*
23282630 TGAGTTATG
1 TAAGTTATG
23282639 TAAGTTATG
1 TAAGTTATG
23282648 TAAGTTGA-G
1 TAAGTT-ATG
* *
23282657 TTATGATATATA
1 -TAAG-T-TATG
23282669 TAAGTTAT-
1 TAAGTTATG
23282677 TAAGTTATG
1 TAAGTTATG
*
23282686 TATGTTATG
1 TAAGTTATG
*
23282695 TGAGTTATG
1 TAAGTTATG
*
23282704 TATGTTATG
1 TAAGTTATG
23282713 T
1 T
23282714 GGAAATTAGT
Statistics
Matches: 311, Mismatches: 59, Indels: 60
0.72 0.14 0.14
Matches are distributed among these distances:
7 18 0.06
8 39 0.13
9 190 0.61
10 47 0.15
11 11 0.04
12 5 0.02
13 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:23282364 original size:52 final size:52
Alignment explanation
Indices: 23282305--23282638 Score: 346
Period size: 52 Copynumber: 6.3 Consensus size: 52
23282295 TAAGTATAAA
23282305 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
* * *
23282357 TGAGTTATGAAAGTTATTATATGATATATATTTATGTATTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
23282409 TAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
1 TAAGTTA--T--G---T--AAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
* * * * * * *
23282470 TAAGTTATGTGAGTTATGA-AAGTTATGATA-TGATATA-TATATATGTTAT-
1 TAAGTTATGTAAGTTATGATATGATAT-ATATTTATGTATTATGTAAGTTATG
*
23282519 TAAGTTATGTAAGTTAAGATATGATATATA--TA--T-TTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
* *
23282566 TGAGTTATGTAAGTTATGATATGATATATATATATATATAAGTTAT-TAAGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATAT-T-TATGT-A-TTATGTAAGTTATG
*
23282621 TAAGTTATGTGAGTTATG
1 TAAGTTATGTAAGTTATG
23282639 TAAGTTATGT
Statistics
Matches: 236, Mismatches: 24, Indels: 41
0.78 0.08 0.14
Matches are distributed among these distances:
46 11 0.05
47 28 0.12
48 1 0.00
49 20 0.08
50 15 0.06
51 12 0.05
52 66 0.28
53 1 0.00
54 2 0.01
55 25 0.11
56 5 0.02
57 1 0.00
59 1 0.00
61 48 0.20
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (52 bp):
TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATG
Found at i:23282408 original size:61 final size:61
Alignment explanation
Indices: 23282336--23282534 Score: 345
Period size: 61 Copynumber: 3.3 Consensus size: 61
23282326 TGATATATAT
*
23282336 TTATGT-A-TTATGTAAGTTATGTGAGTTATGAAAGTTATTATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATTTATGTA
23282395 TTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATTTATGTA
*
23282456 TTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATATATG--
1 TTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATTTATGTA
23282515 TTAT-TAAGTTATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTA
23282535 AGATATGATA
Statistics
Matches: 136, Mismatches: 2, Indels: 5
0.95 0.01 0.03
Matches are distributed among these distances:
58 16 0.12
59 10 0.07
60 1 0.01
61 109 0.80
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (61 bp):
TTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATTTATGTA
Found at i:23282547 original size:101 final size:93
Alignment explanation
Indices: 23282409--23282627 Score: 285
Period size: 93 Copynumber: 2.3 Consensus size: 93
23282399 GTAAGTTATG
* * *
23282409 TAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAG
1 TAAGTTAT-TAAGTTATGTAAGTTAAGATATGATATATA--TA--T-TTATGTAAGTTATGTAAG
* *
23282474 TTATGTGAGTTATGAAAGTTATGATATGATATATATA
60 TTATGTAAGTTATGAAA-TGAT-ATAT-ATATATATA
* *
23282511 TATGTTATTAAGTTATGTAAGTTAAGATATGATATATATATTTATGTAAGTTATGTGAGTTATGT
1 TAAGTTATTAAGTTATGTAAGTTAAGATATGATATATATATTTATGTAAGTTATGTAAGTTATGT
*
23282576 AAGTTATGATATGATATATATATATATA
66 AAGTTATGAAATGATATATATATATATA
23282604 TAAGTTATTAAGTTATGTAAGTTA
1 TAAGTTATTAAGTTATGTAAGTTA
23282628 TGTGAGTTAT
Statistics
Matches: 108, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
93 32 0.30
94 4 0.04
95 3 0.03
96 32 0.30
97 1 0.01
99 2 0.02
101 27 0.25
102 7 0.06
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (93 bp):
TAAGTTATTAAGTTATGTAAGTTAAGATATGATATATATATTTATGTAAGTTATGTAAGTTATGT
AAGTTATGAAATGATATATATATATATA
Found at i:23282577 original size:47 final size:46
Alignment explanation
Indices: 23282404--23282629 Score: 245
Period size: 47 Copynumber: 4.7 Consensus size: 46
23282394 ATTATGTAAG
* *
23282404 TTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATATATATTTATGT
1 TTATGTAAGTTAT-TAAGTTATGTAAGTTATGATATGATATATA--TA--T
* * *
23282455 ATTATGTAAGTTATGTAAGTTATGTGAGTTATGAAAGTTATGATATGATAT
1 -TTATGTAAGTTAT-TAAGTTATGTAAGTTATGATA-TGAT-ATAT-ATAT
* * * *
23282506 ATATATATGTTATTAAGTTATGTAAGTTAAGATATGATATATATAT
1 TTATGTAAGTTATTAAGTTATGTAAGTTATGATATGATATATATAT
*
23282552 TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAT
1 TTATGTAAGTTAT-TAAGTTATGTAAGTTATGATATGATATATATAT
* *
23282599 ATATATAAGTTATTAAGTTATGTAAGTTATG
1 TTATGTAAGTTATTAAGTTATGTAAGTTATG
23282630 TGAGTTATGT
Statistics
Matches: 150, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
46 31 0.21
47 46 0.31
48 3 0.02
49 18 0.12
50 10 0.07
51 1 0.01
52 31 0.21
53 5 0.03
54 4 0.03
55 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (46 bp):
TTATGTAAGTTATTAAGTTATGTAAGTTATGATATGATATATATAT
Found at i:23282694 original size:65 final size:63
Alignment explanation
Indices: 23282552--23282713 Score: 245
Period size: 65 Copynumber: 2.5 Consensus size: 63
23282542 ATATATATAT
*
23282552 TTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATATATATATAAGTTATTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATG-TAAGATATATATATATATATAAGTTATTAAG
*
23282616 TTATGTAAGTTATGTGAGTTATGTAAGTTATGTAAGTTGAGT-TATGATATATATAAGTTATTAA
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATGTAAGAT-A-TATAT-ATATATATAAGTTATTAA
23282680 G
63 G
* *
23282681 TTATGTATGTTATGTGAGTTATGTATGTTATGT
1 TTATGTAAGTTATGTGAGTTATGTAAGTTATGT
23282714 GGAAATTAGT
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
63 4 0.04
64 36 0.40
65 51 0.56
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (63 bp):
TTATGTAAGTTATGTGAGTTATGTAAGTTATGTAAGATATATATATATATATAAGTTATTAAG
Found at i:23282888 original size:20 final size:22
Alignment explanation
Indices: 23282863--23282910 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
23282853 TATCCATACT
23282863 AATATAGGTGAT-ATA-TTAAA
1 AATATAGGTGATAATATTTAAA
**
23282883 AATATAGGTTTTAATATTTAAA
1 AATATAGGTGATAATATTTAAA
23282905 AATATA
1 AATATA
23282911 AAATAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 3 0.12
22 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (22 bp):
AATATAGGTGATAATATTTAAA
Found at i:23282905 original size:121 final size:121
Alignment explanation
Indices: 23282776--23283218 Score: 744
Period size: 121 Copynumber: 3.7 Consensus size: 121
23282766 AGTAATAAGT
* **
23282776 TATTTAAAAATATAACATTTATAATTATGTATAAAATTTAAAAAGTTATTAGTAATGAATTTGAA
1 TATTTAAAAATATAAAATAAATAATTATGTATAAAATTTAAAAAGTTATTAGTAATGAATTTGAA
*
23282841 ATATAGGTTACATATCCATACTAATATAGGTGATATATTAAAAATATAGGTTTTAA
66 ATATAGGTTATATATCCATACTAATATAGGTGATATATTAAAAATATAGGTTTTAA
*
23282897 TATTTAAAAATATAAAATAAATAATTATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAA
1 TATTTAAAAATATAAAATAAATAATTATGTATAAAATTTAAAAAGTTATTAGTAATGAATTTGAA
*
23282962 ATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTTTAA
66 ATATAGGTTATATATCCATACTAATATAGGTGATATATTAAAAATATAGGTTTTAA
* **
23283018 TATTT-AAAATATAATATTTATAATTATGTATAAAATTTAGAAAAGTTATTAGTAATGAATTTGA
1 TATTTAAAAATATAAAATAAATAATTATGTATAAAATTTA-AAAAGTTATTAGTAATGAATTTGA
* *
23283082 AATATAGGTAATATATTCATACTAATATAGGTGATATATTAAAAATATAGGTTTTAA
65 AATATAGGTTATATATCCATACTAATATAGGTGATATATTAAAAATATAGGTTTTAA
* * *
23283139 TATTTAAAATTGTAAAATAAATAATTATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAA
1 TATTTAAAAATATAAAATAAATAATTATGTATAAAATTTAAAAAGTTATTAGTAATGAATTTGAA
23283204 ATATAGGTTATATAT
66 ATATAGGTTATATAT
23283219 TAAAAATATA
Statistics
Matches: 300, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
120 30 0.10
121 242 0.81
122 28 0.09
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (121 bp):
TATTTAAAAATATAAAATAAATAATTATGTATAAAATTTAAAAAGTTATTAGTAATGAATTTGAA
ATATAGGTTATATATCCATACTAATATAGGTGATATATTAAAAATATAGGTTTTAA
Found at i:23283026 original size:21 final size:20
Alignment explanation
Indices: 23282960--23283030 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 20
23282950 AATGAATTTG
*
23282960 AAATATAGGTTATATATCCATAC
1 AAATATAGGTTATATAT---TAA
*
23282983 TAATATAGGTTATATATTAA
1 AAATATAGGTTATATATTAA
* *
23283003 AAATATAGGTTTTAATATTTA
1 AAATATAGGTTAT-ATATTAA
23283024 AAATATA
1 AAATATA
23283031 ATATTTATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 13 0.31
21 13 0.31
23 16 0.38
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.41
Consensus pattern (20 bp):
AAATATAGGTTATATATTAA
Found at i:23283227 original size:20 final size:21
Alignment explanation
Indices: 23283202--23283249 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
23283192 AATGAATTTG
23283202 AAATATAGGTTAT-ATATTAA
1 AAATATAGGTTATAATATTAA
* *
23283222 AAATATAGGTTTTAATATTTA
1 AAATATAGGTTATAATATTAA
23283243 AAATATA
1 AAATATA
23283250 ATATTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (21 bp):
AAATATAGGTTATAATATTAA
Found at i:23283245 original size:21 final size:20
Alignment explanation
Indices: 23283197--23283249 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
23283187 TTAGTAATGA
*
23283197 ATTTGAAATATAGGTTATAT
1 ATTTAAAATATAGGTTATAT
* *
23283217 ATTAAAAATATAGGTTTTAAT
1 ATTTAAAATATAGGTTAT-AT
23283238 ATTTAAAATATA
1 ATTTAAAATATA
23283250 ATATTTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.43
Consensus pattern (20 bp):
ATTTAAAATATAGGTTATAT
Found at i:23283253 original size:14 final size:15
Alignment explanation
Indices: 23283234--23283263 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
23283224 ATATAGGTTT
23283234 TAATATTTA-AAATA
1 TAATATTTATAAATA
23283248 TAATATTTATAAATA
1 TAATATTTATAAATA
23283263 T
1 T
23283264 TTTTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATTTATAAATA
Found at i:23283307 original size:97 final size:98
Alignment explanation
Indices: 23283105--23283311 Score: 344
Period size: 97 Copynumber: 2.1 Consensus size: 98
23283095 TATTCATACT
* * *
23283105 AATATAGGTGATATATTAAAAATATAGGTTTTAATATTTAAAATTGTAAAATAAATAATTATGTT
1 AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATTATAAAATAAATAAATATGTT
23283170 TAAAATTTAAAAAGTTATTAGTAATGAATTTGA
66 TAAAATTTAAAAAGTTATTAGTAATGAATTTGA
* ** *
23283203 AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAA-TATAATATTTATAAATATTTT
1 AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATTATAAAATAAATAAATATGTT
23283267 TAAAATTTAAAAAGTTATTAGTAATGAATTTGA
66 TAAAATTTAAAAAGTTATTAGTAATGAATTTGA
23283300 AATATAGGTTAT
1 AATATAGGTTAT
23283312 TTATCCATAC
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 60 0.59
98 42 0.41
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (98 bp):
AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATTATAAAATAAATAAATATGTT
TAAAATTTAAAAAGTTATTAGTAATGAATTTGA
Found at i:23283350 original size:20 final size:22
Alignment explanation
Indices: 23283325--23283366 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
23283315 TCCATACTAG
23283325 TATAGGTTAT-ATA-TTAAAAA
1 TATAGGTTATAATATTTAAAAA
*
23283345 TATAGGTTTTAATATTTAAAAA
1 TATAGGTTATAATATTTAAAAA
23283367 ATAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 3 0.16
22 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (22 bp):
TATAGGTTATAATATTTAAAAA
Found at i:23283363 original size:218 final size:218
Alignment explanation
Indices: 23282984--23283393 Score: 687
Period size: 218 Copynumber: 1.9 Consensus size: 218
23282974 TATCCATACT
*
23282984 AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATTTATAATTATGTAT
1 AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATTTATAAATATGTAT
*
23283049 AAAATTTAGAAAAGTTATTAGTAATGAATTTGAAATATAGGTAATATATTCATACTAATATAGGT
66 AAAATTTAGAAAAGTTATTAGTAATGAATTTGAAATATAGGTAATATATCCATACTAATATAGGT
**
23283114 GATATATTAAAAATATAGGTTTTAATATTTAAAATTGTAAAATAAATAATTATGTTTAAAATTTA
131 GATATATTAAAAATATAGGTTTTAATATTTAAAA-AATAAAATAAATAATTATGTTTAAAATTTA
23283179 AAAAGTTATTAGTAATGAATTTGA
195 AAAAGTTATTAGTAATGAATTTGA
* *
23283203 AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATTTATAAATATTTTT
1 AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATTTATAAATATGTAT
* * *
23283268 AAAATTTA-AAAAGTTATTAGTAATGAATTTGAAATATAGGTTATTTATCCATACTAGTATAGGT
66 AAAATTTAGAAAAGTTATTAGTAATGAATTTGAAATATAGGTAATATATCCATACTAATATAGGT
* * * *
23283332 TATATATTAAAAATATAGGTTTTAATATTTAAAAAATAATATATATAATTATTTTTAAAATT
131 GATATATTAAAAATATAGGTTTTAATATTTAAAAAATAAAATAAATAATTATGTTTAAAATT
23283394 GCATAGGAAT
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 23 0.13
218 85 0.48
219 70 0.39
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (218 bp):
AATATAGGTTATATATTAAAAATATAGGTTTTAATATTTAAAATATAATATTTATAAATATGTAT
AAAATTTAGAAAAGTTATTAGTAATGAATTTGAAATATAGGTAATATATCCATACTAATATAGGT
GATATATTAAAAATATAGGTTTTAATATTTAAAAAATAAAATAAATAATTATGTTTAAAATTTAA
AAAGTTATTAGTAATGAATTTGA
Found at i:23285785 original size:22 final size:21
Alignment explanation
Indices: 23285760--23285904 Score: 96
Period size: 21 Copynumber: 6.8 Consensus size: 21
23285750 AAAGTAATTG
*
23285760 AACCCTAAAGCCCTAAAGCTTA
1 AACCCTAAA-CCCTAAAACTTA
*
23285782 AACCTTAAACCCTAAAACATTA
1 AACCCTAAACCCTAAAAC-TTA
* * * *
23285804 AACCTTAAACCTTAAATCATA
1 AACCCTAAACCCTAAAACTTA
* * * *
23285825 AACCCTAAACCATACACCATA
1 AACCCTAAACCCTAAAACTTA
* *
23285846 AACCCTAAACCATAAGCAC-TA
1 AACCCTAAACCCTAA-AACTTA
* *
23285867 TACCCTAAACCAT-AAACATTA
1 AACCCTAAACCCTAAAAC-TTA
*
23285888 AACCTTAAAACCCTAAA
1 AACCCT-AAACCCTAAA
23285905 CTTCTAGATC
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.02
20 1 0.01
21 61 0.61
22 34 0.34
23 2 0.02
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCCTAAACCCTAAAACTTA
Found at i:23285796 original size:21 final size:21
Alignment explanation
Indices: 23285780--23285905 Score: 101
Period size: 21 Copynumber: 5.9 Consensus size: 21
23285770 CCCTAAAGCT
* * *
23285780 TAAACCTTAAACCCTAAAACAT
1 TAAACCCTAAACCAT-AAACAA
* *
23285802 TAAACCTTAAACCTTAAATC-A
1 TAAACCCTAAACCATAAA-CAA
* *
23285823 TAAACCCTAAACCATACACCA
1 TAAACCCTAAACCATAAACAA
* *
23285844 TAAACCCTAAACCATAAGCAC
1 TAAACCCTAAACCATAAACAA
* *
23285865 TATACCCTAAACCATAAACAT
1 TAAACCCTAAACCATAAACAA
* *
23285886 TAAACCTTAAAACCCTAAAC
1 TAAACCCT-AAACCATAAAC
23285906 TTCTAGATCT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
20 1 0.01
21 60 0.70
22 25 0.29
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACAA
Found at i:23285797 original size:14 final size:14
Alignment explanation
Indices: 23285760--23285984 Score: 94
Period size: 14 Copynumber: 15.6 Consensus size: 14
23285750 AAAGTAATTG
*
23285760 AACCCTAAAGCCCTA
1 AACCTTAAA-CCCTA
* *
23285775 AAGCTTAAACCTTA
1 AACCTTAAACCCTA
* **
23285789 AACCCTAAAACATTA
1 AA-CCTTAAACCCTA
*
23285804 AACCTTAAACCTTA
1 AACCTTAAACCCTA
* *
23285818 AATCATAAACCCTA
1 AACCTTAAACCCTA
* * *
23285832 AACCATACACCATA
1 AACCTTAAACCCTA
* *
23285846 AACCCTAAACCATA
1 AACCTTAAACCCTA
* *
23285860 AGCAC-TATACCCTA
1 AAC-CTTAAACCCTA
* **
23285874 AACCATAAACATTA
1 AACCTTAAACCCTA
23285888 AACCTTAAAACCCTA
1 AACCTT-AAACCCTA
* * **
23285903 AACTTCTAGATCTTATA
1 AACCT-TA-AAC-CCTA
* *
23285920 AACCATAAACACT-
1 AACCTTAAACCCTA
* *
23285933 AACCTCTTAACACTA
1 AACCT-TAAACCCTA
* *
23285948 AATCATAAACCCTA
1 AACCTTAAACCCTA
*
23285962 AACTTTAAACCCTA
1 AACCTTAAACCCTA
23285976 AACCTTAAA
1 AACCTTAAA
23285985 AATATACCCT
Statistics
Matches: 156, Mismatches: 45, Indels: 19
0.71 0.20 0.09
Matches are distributed among these distances:
13 5 0.03
14 106 0.68
15 35 0.22
16 5 0.03
17 5 0.03
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (14 bp):
AACCTTAAACCCTA
Found at i:23285905 original size:7 final size:7
Alignment explanation
Indices: 23285760--23285905 Score: 85
Period size: 7 Copynumber: 20.4 Consensus size: 7
23285750 AAAGTAATTG
23285760 AACCCTA
1 AACCCTA
23285767 AAGCCCTA
1 AA-CCCTA
* *
23285775 AAGCTTA
1 AACCCTA
*
23285782 AACCTTA
1 AACCCTA
23285789 AACCCTAA
1 AACCCT-A
**
23285797 AACATTA
1 AACCCTA
*
23285804 AACCTTA
1 AACCCTA
*
23285811 AACCTTA
1 AACCCTA
* *
23285818 AATCATA
1 AACCCTA
23285825 AACCCTA
1 AACCCTA
*
23285832 AACCATA
1 AACCCTA
* *
23285839 CACCATA
1 AACCCTA
23285846 AACCCTA
1 AACCCTA
*
23285853 AACCATA
1 AACCCTA
* *
23285860 AGCACTA
1 AACCCTA
*
23285867 TACCCTA
1 AACCCTA
*
23285874 AACCATA
1 AACCCTA
**
23285881 AACATTA
1 AACCCTA
*
23285888 AACCTTAA
1 AACCCT-A
23285896 AACCCTA
1 AACCCTA
23285903 AAC
1 AAC
23285906 TTCTAGATCT
Statistics
Matches: 108, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
7 90 0.83
8 18 0.17
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (7 bp):
AACCCTA
Found at i:23286305 original size:7 final size:7
Alignment explanation
Indices: 23286295--23286418 Score: 72
Period size: 7 Copynumber: 17.6 Consensus size: 7
23286285 CCCTAAAGTT
23286295 TAAACCA
1 TAAACCA
*
23286302 TAAACCC
1 TAAACCA
**
23286309 TAAACTT
1 TAAACCA
*
23286316 TAAAACCT
1 T-AAACCA
* *
23286324 TAAATCT
1 TAAACCA
*
23286331 TAAACCT
1 TAAACCA
*
23286338 TAAACCC
1 TAAACCA
*
23286345 TAAACCT
1 TAAACCA
23286352 TAAACCA
1 TAAACCA
* *
23286359 TACACAA
1 TAAACCA
23286366 TAAACCA
1 TAAACCA
23286373 TAAACCA
1 TAAACCA
*
23286380 T-AAGCA
1 TAAACCA
* *
23286386 CTATACCT
1 -TAAACCA
23286394 TAAACCA
1 TAAACCA
23286401 TAAA-CA
1 TAAACCA
*
23286407 CTAAACCT
1 -TAAACCA
23286415 TAAA
1 TAAA
23286419 ACCCTAAAAT
Statistics
Matches: 92, Mismatches: 20, Indels: 10
0.75 0.16 0.08
Matches are distributed among these distances:
6 6 0.07
7 77 0.84
8 9 0.10
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:23286312 original size:14 final size:14
Alignment explanation
Indices: 23286294--23286418 Score: 92
Period size: 14 Copynumber: 8.9 Consensus size: 14
23286284 ACCCTAAAGT
23286294 TTAAACCATAAACC
1 TTAAACCATAAACC
* **
23286308 CTAAACTTTAAAACC
1 TTAAACCAT-AAACC
* *
23286323 TTAAATCTTAAACC
1 TTAAACCATAAACC
*
23286337 TTAAACCCTAAACC
1 TTAAACCATAAACC
* *
23286351 TTAAACCATACACA
1 TTAAACCATAAACC
*
23286365 ATAAACCATAAACC
1 TTAAACCATAAACC
* * *
23286379 AT-AAGCACTATACC
1 TTAAACCA-TAAACC
23286393 TTAAACCATAAACAC
1 TTAAACCATAAAC-C
*
23286408 -TAAACCTTAAA
1 TTAAACCATAAA
23286419 ACCCTAAAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
13 4 0.05
14 67 0.77
15 16 0.18
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (14 bp):
TTAAACCATAAACC
Found at i:23286334 original size:36 final size:36
Alignment explanation
Indices: 23286275--23286355 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
23286265 AAAGTAATTG
*
23286275 AACCATAAAACCCTAAAGTTTAAACCATAAACCCTA
1 AACCTTAAAACCCTAAAGTTTAAACCATAAACCCTA
* * *
23286311 AACTTTAAAACCTTAAA-TCTTAAACCTTAAACCCTA
1 AACCTTAAAACCCTAAAGT-TTAAACCATAAACCCTA
23286347 AACCTTAAA
1 AACCTTAAA
23286356 CCATACACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (36 bp):
AACCTTAAAACCCTAAAGTTTAAACCATAAACCCTA
Found at i:23286356 original size:21 final size:21
Alignment explanation
Indices: 23286324--23286418 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
23286314 TTTAAAACCT
* * *
23286324 TAAATCTTAAACCTTAAACCC
1 TAAACCTTAAACCATAAACAC
* *
23286345 TAAACCTTAAACCATACACAA
1 TAAACCTTAAACCATAAACAC
* *
23286366 TAAACCATAAACCATAAGCAC
1 TAAACCTTAAACCATAAACAC
*
23286387 TATACCTTAAACCATAAACAC
1 TAAACCTTAAACCATAAACAC
23286408 TAAACCTTAAA
1 TAAACCTTAAA
23286419 ACCCTAAAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.22
Consensus pattern (21 bp):
TAAACCTTAAACCATAAACAC
Found at i:23286568 original size:522 final size:516
Alignment explanation
Indices: 23285616--23286657 Score: 1649
Period size: 522 Copynumber: 2.0 Consensus size: 516
23285606 TTATAATTTT
* * * * * *
23285616 AAAATTATATTTTATTTTTAAGTGAAAAAACGAATGTAAATAATACATTTATCAAATGTCATCAT
1 AAAATTATACTTTATTTTTAAATGAAAAAACGAATGTAAATAACACAATAATCAAATGTAATCAT
23285681 AATATATATATTATAACATAATAAGAAGTAAAAGACAAAAATTAATATTTTTATGAATTTGGCAT
66 AATATATATATTATAACATAATAAGAAGTAAAAGACAAAAATTAATATTTTTATGAATTTGGCAT
* * *
23285746 CACAAAAGTAATTGAACCCTAAAGCCCTAAAGCTTAAACCTTAAACCCTAAAACATTAAACCTTA
131 CACAAAAGTAATTGAACCATAAAACCCTAAAGCTTAAACCATAAACCCTAAAACATTAAACCTTA
* * *
23285811 AACCTTAAATCATAAACCCTAAACCATACACCATAAACCCTAAACCATAAGCACTATACCCTAAA
196 AACCTTAAACCATAAACCCTAAACCATACACAATAAACCATAAACCATAAGCACTATACCCTAAA
* *
23285876 CCATAAACATTAAACCTTAAAACCCTAAACTTCTAGATCTTATAAACCATAAACACTAACCTCTT
261 CCATAAACACTAAACCTTAAAACCCTAAAATTCTAGATCTTATAAACCATAAACACTAACCTCTT
*
23285941 AACACTAAATCATAAACCCTAAACTTTAAACCCTAAACCTTAAAAATATACCCTAAACACTAAAC
326 AACACTAAATCATAAACCCTAAACTTTAAACCCTAAACCTTAAAAATACACCCTAAACACTAAAC
* * **
23286006 TCAAAAATCTAATCCCAGAATAATAAACATTATATCATGAACCCTAAAACCTTAAACCATATACA
391 TCAAAAATCTAATCCCAAAAGAATAAACATTATATCATGAACCCTAAAACAGTAAACCATATACA
* * * * *
23286071 ATAAACCTTAAATACTAATTCCTAAACCCTAAAATAAATTTATTTTTTATGGCATTTTTATC
456 ATAAACCGTAAATACTAATCCCTAAACCCTAAAATAAAATTA-TTTTTACGGCATTTTTATA
23286133 AAAATTATACTTTATTTTTAAATGAAAAAACGAATGTAAATAACACAATAATCAAATGTAATCAT
1 AAAATTATACTTTATTTTTAAATGAAAAAACGAATGTAAATAACACAATAATCAAATGTAATCAT
*
23286198 -A-ATATATATTATAACATAATAAGAAGTAAAAGACAAAAATTAATATTTTTATGAATTTGGTAT
66 AATATATATATTATAACATAATAAGAAGTAAAAGACAAAAATTAATATTTTTATGAATTTGGCAT
* *
23286261 CACAAAAGTAATTGAACCATAAAACCCTAAAGTTTAAACCATAAACCCTAAACTTTAAAACCTTA
131 CACAAAAGTAATTGAACCATAAAACCCTAAAGCTTAAACCATAAA-CC----C--TAAAACATTA
* * *
23286326 AATCTTAAACCTTAAACCCTAAACCTTAAACCATACACAATAAACCATAAACCATAAGCACTATA
189 AACCTTAAACCTTAAACCATAAACCCTAAACCATACACAATAAACCATAAACCATAAGCACTATA
* **
23286391 CCTTAAACCATAAACACTAAACCTTAAAACCCTAAAATTCTAGATCTTATAAGTCATAAACACTA
254 CCCTAAACCATAAACACTAAACCTTAAAACCCTAAAATTCTAGATCTTATAAACCATAAACACTA
*
23286456 ACCTCTTAACACTAAATCATAAACCCTAAACTTTAAA-CCTCAAACCTTAAAAATACACCTTAAA
319 ACCTCTTAACACTAAATCATAAACCCTAAACTTTAAACCCT-AAACCTTAAAAATACACCCTAAA
* *
23286520 CCCTAAACTCAAAACTCTAATCCCAAAAGAATAAACATTATATCATGAACCCTAAAACAGTAAAC
383 CACTAAACTCAAAAATCTAATCCCAAAAGAATAAACATTATATCATGAACCCTAAAACAGTAAAC
*
23286585 CATATACAATAAACCGTAAATACTAATCCCTAAACCCTAAAATAAAATTATTTTTACGGTATTTT
448 CATATACAATAAACCGTAAATACTAATCCCTAAACCCTAAAATAAAATTATTTTTACGGCATTTT
23286650 TATA
513 TATA
23286654 AAAA
1 AAAA
23286658 ATGTCGCTAA
Statistics
Matches: 480, Mismatches: 37, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
515 102 0.21
516 3 0.01
517 59 0.12
520 1 0.00
521 23 0.05
522 292 0.61
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (516 bp):
AAAATTATACTTTATTTTTAAATGAAAAAACGAATGTAAATAACACAATAATCAAATGTAATCAT
AATATATATATTATAACATAATAAGAAGTAAAAGACAAAAATTAATATTTTTATGAATTTGGCAT
CACAAAAGTAATTGAACCATAAAACCCTAAAGCTTAAACCATAAACCCTAAAACATTAAACCTTA
AACCTTAAACCATAAACCCTAAACCATACACAATAAACCATAAACCATAAGCACTATACCCTAAA
CCATAAACACTAAACCTTAAAACCCTAAAATTCTAGATCTTATAAACCATAAACACTAACCTCTT
AACACTAAATCATAAACCCTAAACTTTAAACCCTAAACCTTAAAAATACACCCTAAACACTAAAC
TCAAAAATCTAATCCCAAAAGAATAAACATTATATCATGAACCCTAAAACAGTAAACCATATACA
ATAAACCGTAAATACTAATCCCTAAACCCTAAAATAAAATTATTTTTACGGCATTTTTATA
Found at i:23287602 original size:14 final size:15
Alignment explanation
Indices: 23287549--23287600 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
23287539 TGTTTGATAA
23287549 ATTGAAAAAGTAAGT
1 ATTGAAAAAGTAAGT
23287564 ATTG-AAAAGTAAGT
1 ATTGAAAAAGTAAGT
* * *
23287578 GTTGAAAAATTAATT
1 ATTGAAAAAGTAAGT
23287593 ATTGAAAA
1 ATTGAAAA
23287601 TTGAAGTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
ATTGAAAAAGTAAGT
Found at i:23288031 original size:14 final size:14
Alignment explanation
Indices: 23288008--23288040 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23287998 TGATATGGGT
23288008 TTAT-GGGTTTTAG
1 TTATAGGGTTTTAG
*
23288021 TTATAGGGTTTTGG
1 TTATAGGGTTTTAG
23288035 TTATAG
1 TTATAG
23288041 ACAAATGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (14 bp):
TTATAGGGTTTTAG
Found at i:23298122 original size:16 final size:15
Alignment explanation
Indices: 23298085--23298137 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
23298075 TGTTTGATAA
*
23298085 ATTAAAAAAGTAAGT
1 ATTAAAAAAATAAGT
23298100 ATTAAAAAAATAAGT
1 ATTAAAAAAATAAGT
* * * *
23298115 TTTGAAAAATTAATT
1 ATTAAAAAAATAAGT
*
23298130 ATTGAAAA
1 ATTAAAAA
23298138 TTTAAGTACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
ATTAAAAAAATAAGT
Found at i:23299199 original size:16 final size:16
Alignment explanation
Indices: 23299178--23299209 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23299168 AATATTCTTC
23299178 ATTATTTTCCACACTT
1 ATTATTTTCCACACTT
23299194 ATTATTTTCCACACTT
1 ATTATTTTCCACACTT
23299210 TTTTTATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATTTTCCACACTT
Found at i:23299852 original size:3 final size:3
Alignment explanation
Indices: 23299844--23299873 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23299834 AATAGTTTAG
23299844 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23299874 TTATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23302989 original size:17 final size:16
Alignment explanation
Indices: 23302964--23302997 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23302954 ATCGGTGTGA
23302964 GCAGCTTTTTATTTTTG
1 GCAGCTTTTT-TTTTTG
*
23302981 GCAGTTTTTTTTTTTG
1 GCAGCTTTTTTTTTTG
23302997 G
1 G
23302998 TGAGAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.62
Consensus pattern (16 bp):
GCAGCTTTTTTTTTTG
Found at i:23302994 original size:16 final size:17
Alignment explanation
Indices: 23302964--23302997 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23302954 ATCGGTGTGA
23302964 GCAGCTTTTTATTTTTG
1 GCAGCTTTTTATTTTTG
*
23302981 GCAG-TTTTTTTTTTTG
1 GCAGCTTTTTATTTTTG
23302997 G
1 G
23302998 TGAGAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.62
Consensus pattern (17 bp):
GCAGCTTTTTATTTTTG
Found at i:23303459 original size:24 final size:25
Alignment explanation
Indices: 23303432--23303478 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
23303422 TGCATTTTAT
*
23303432 ATGTTATAAAT-ATTTTAATTTCGA
1 ATGTAATAAATCATTTTAATTTCGA
* *
23303456 ATGTAATAATTCATTTTACTTTC
1 ATGTAATAAATCATTTTAATTTC
23303479 ATATGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (25 bp):
ATGTAATAAATCATTTTAATTTCGA
Found at i:23305228 original size:16 final size:16
Alignment explanation
Indices: 23305207--23305237 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23305197 AGATAACTAC
23305207 ACTTTTGAGTATATAT
1 ACTTTTGAGTATATAT
*
23305223 ACTTTTGAGTTTATA
1 ACTTTTGAGTATATA
23305238 CGTTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (16 bp):
ACTTTTGAGTATATAT
Found at i:23305474 original size:15 final size:15
Alignment explanation
Indices: 23305456--23305487 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23305446 TGTTAAAATT
23305456 TTAAAAATTAATACA
1 TTAAAAATTAATACA
*
23305471 TTAAAAATTAATGCA
1 TTAAAAATTAATACA
23305486 TT
1 TT
23305488 TCATTAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
TTAAAAATTAATACA
Found at i:23307231 original size:11 final size:11
Alignment explanation
Indices: 23307215--23307240 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23307205 ACAATTTTAT
23307215 AATTACAAATA
1 AATTACAAATA
23307226 AATTACAAATA
1 AATTACAAATA
23307237 AATT
1 AATT
23307241 TCTAGGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTACAAATA
Found at i:23309488 original size:27 final size:27
Alignment explanation
Indices: 23309451--23309504 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
23309441 TGGGACAAGT
23309451 GTGGCAGTTGACGCAGTGAGAGATGTA
1 GTGGCAGTTGACGCAGTGAGAGATGTA
*
23309478 GTGGTAGTTGACGCAGTGAGAGATGTA
1 GTGGCAGTTGACGCAGTGAGAGATGTA
23309505 CATATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.09, G:0.41, T:0.24
Consensus pattern (27 bp):
GTGGCAGTTGACGCAGTGAGAGATGTA
Found at i:23315430 original size:27 final size:27
Alignment explanation
Indices: 23315400--23315466 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
23315390 TCCTAAGTAT
**
23315400 GCCACAAAGGCTAT-CCTTACAG-GGTTC
1 GCCACAAAGGCTATACCTT-C-GTGACTC
* *
23315427 GCCACAGAGACTATACCTTCGTGACTC
1 GCCACAAAGGCTATACCTTCGTGACTC
23315454 GCCACAAAGGCTA
1 GCCACAAAGGCTA
23315467 CTCTTTCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.84
28 4 0.12
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.19
Consensus pattern (27 bp):
GCCACAAAGGCTATACCTTCGTGACTC
Found at i:23328773 original size:519 final size:516
Alignment explanation
Indices: 23327411--23329151 Score: 2491
Period size: 521 Copynumber: 3.4 Consensus size: 516
23327401 CCCATCATCT
* * **
23327411 TCTCAGTCTTTCAACGACAACAACAATTTCCAACCCATCACTATTCTTCTGAGTAATTCATTTCG
1 TCTCAGTCTTTCAACGACAACAACAATTTCCAACCCATCACTATTCCTCTAAGTAATTTGTTTCG
* * * *
23327476 TCTAAAATTCTACCTTAGCCTTAAGTTCAGTCAACCAGTCCATATCAAGAATAACATCAAACCCG
66 TCTTAAATTCTACCTTAGCCTTATGTTCAGTCAACCAGTCCATACCAAGAATAACATCAAACCCA
* *
23327541 TAGAAAGACAATTCCATAAGATCAACAGGGAAAACATGCCCTTATATCATAAGGGCACCCCACGG
131 TAGAAAGGCAATTCCATAAGATCAACAGGGAAAACATGCCCTTGTATCATAAGGGCACCCCACGG
23327606 AGATACACT-AGGTCGAATGAACCCTCTGTCAAGCAACTCTTGCAACTAAATCTTTAACTCTTTG
196 AGATACACTCA-GTCGAATGAACCCTCTGTCAAGCAACTCTTGCAACTAAATCTTTAACTCTTTG
* * *
23327670 AGCTCTTTTGGTGCCATACGATAGGATGCTATAGACACTAGTGCAATACCAGGATAGAGCTCAAT
260 AGCTCTTTTGGTGCCATACGATAGGGTGCTATAGACACTGGTGCAGTACCAGGATAGAGCTCAAT
*
23327735 ACCAAAATCAACTTCACATTCTGGTGGCAAACCAGACAACTCTTCAGGAAACATGTTAGGAAAAT
325 ACCAAAATCCACTTCACATTCTGGTGGCAAACCAGACAACTCTTCAGGAAACATGTTAGGAAAAT
*
23327800 -TCTTAACAGTGCAAATATCCTGAACTCTCAGCTCCTTACTAACTGAATTCATCACAGAG-GCTA
390 CT-TTAA-AGAGCAAATATCCTGAACTCTCAGCTCCTTACTAACTGAATTCATCA-A-AGTGCTA
* * * *
23327863 AGTAAGCTTCACAAACTCTTACCATCATCTTCTCAGACTTCATAATGGAAACCACATTAGACATA
451 AGTAAGCTTCACAACCTCTT-CCATCATCTTCTCAGCCTTCATAGTCGAAACCACATTAGACATA
23327928 AA
515 AA
* * * * *
23327930 TCTCAGTCTTTAAACAATATCAACAATTTCCAACCCATCACTATTACCTCTAAGTAAATTAGTTT
1 TCTCAGTCTTTCAACGACAACAACAATTTCCAACCCATCACTATT-CCTCTAAGT-AATTTGTTT
*
23327995 CGTCTTAAATTCTACCTTAGCCTTATGTTCAGTCAACCAGTCCATATCAAGAATAACATCAAACC
64 CGTCTTAAATTCTACCTTAGCCTTATGTTCAGTCAACCAGTCCATACCAAGAATAACATCAAACC
*
23328060 CATAGAAAGGCAA-TCCAATAAGATCAACAGGGAAAACATGCCCTTGTATCTTAAGGGCACCCCA
129 CATAGAAAGGCAATTCC-ATAAGATCAACAGGGAAAACATGCCCTTGTATCATAAGGGCACCCCA
* * *
23328124 CGGAGATACACTC-GATCGAAT-AATCCATTTGTCAAGCAACTCTTACAACTAAATCTTTAACTC
193 CGGAGATACACTCAG-TCGAATGAA-CCCTCTGTCAAGCAACTCTTGCAACTAAATCTTTAACTC
* * *** * *
23328187 TTTGAGCTCTTTTGGTGCCATATGATAAGGCAATATAGACACTGGTGCAGTATCAGGATAAAGCT
256 TTTGAGCTCTTTTGGTGCCATACGATAGGGTGCTATAGACACTGGTGCAGTACCAGGATAGAGCT
* * *
23328252 CAATGCCAAAATCCACTTTACATTCTGGTGGCAAACTAGACAACTCTTCAGGAAACATGTTAGGA
321 CAATACCAAAATCCACTTCACATTCTGGTGGCAAACCAGACAACTCTTCAGGAAACATGTTAGGA
23328317 AAATCTTTAAGAGAGCAAATATCCTGAACTCTCAGCTCCTTACTAACTGAATTCATCAAAAGTGC
386 AAATCTTTAA-AGAGCAAATATCCTGAACTCTCAGCTCCTTACTAACTGAATTCATC-AAAGTGC
* *
23328382 TAAGTAAGCTTCACAACCTCTTCTCACCATCTTCTCAGCCTTCATAGTCAAAACCACATTAGACA
449 TAAGTAAGCTTCACAACCTCTTC-CATCATCTTCTCAGCCTTCATAGTCGAAACCACATTAGACA
23328447 TAAA
513 TAAA
*
23328451 TCTCTGTCTTTCAACGACAACAACAATTTCCAACCCATCACTATTCCTCTAAGTAATTTGTTTCG
1 TCTCAGTCTTTCAACGACAACAACAATTTCCAACCCATCACTATTCCTCTAAGTAATTTGTTTCG
*
23328516 TCTTAAATTCTACCTTAGCCTTATGTTCAGTCAACCAGTCCATGCCAAGAATAACATCAAACCCA
66 TCTTAAATTCTACCTTAGCCTTATGTTCAGTCAACCAGTCCATACCAAGAATAACATCAAACCCA
* * *
23328581 TAGAAAGGCAATTCCATAAGATCAAAAGGTAAAACATGCCCTTGTATCATAAGGGCACCCTACGG
131 TAGAAAGGCAATTCCATAAGATCAACAGGGAAAACATGCCCTTGTATCATAAGGGCACCCCACGG
* * *
23328646 AGATAAACTCAGTC-AGATGAACCCTCTGTCAAGCAACTCTTGCAACTAAATCTGTAATTCTTTG
196 AGATACACTCAGTCGA-ATGAACCCTCTGTCAAGCAACTCTTGCAACTAAATCTTTAACTCTTTG
* * *
23328710 AGTTCTTTTGGTGGCATACGATAGGGTGCTATAGACACTGGTGCAGTACCAAGATAGAGCTCAAT
260 AGCTCTTTTGGTGCCATACGATAGGGTGCTATAGACACTGGTGCAGTACCAGGATAGAGCTCAAT
* * * ** *
23328775 ACCAAAATCCACTTCACATTTTGGTGGCAAACCAGAAAACTCTTTAGGAAACACATTAGGAATAT
325 ACCAAAATCCACTTCACATTCTGGTGGCAAACCAGACAACTCTTCAGGAAACATGTTAGGAAAAT
* * * * *
23328840 CCTTAAAAATTG-GAATATCCTGAACTCTCAGCTCCTTACTAACTGAATTCATC--ACTG--AGG
390 CTTTAAAGA--GCAAATATCCTGAACTCTCAGCTCCTTACTAACTGAATTCATCAAAGTGCTAAG
* *
23328900 CTAAGCTTCACAACCTGTTCCCATCATCTTCTCAGCCTTCATAGTTGAAACCACATTAGACATAA
453 -TAAGCTTCACAACCTCTT-CCATCATCTTCTCAGCCTTCATAGTCGAAACCACATTAGACATAA
23328965 A
516 A
* * * * *
23328966 TCACAGTATTTGAACGACAACAACAATTTCCAACACATCACTATTCTTCTAAGTAATTCT-TTTC
1 TCTCAGTCTTTCAACGACAACAACAATTTCCAACCCATCACTATTCCTCTAAGTAATT-TGTTTC
* * *
23329030 GTCTTAAATTCTACCTTAGCCTTGTGTTTAGTCAACCGGTCCATACCAAGAATAACATCAAACCC
65 GTCTTAAATTCTACCTTAGCCTTATGTTCAGTCAACCAGTCCATACCAAGAATAACATCAAACCC
* * ** * *
23329095 GTAGAAAGGCAATTCTATAAGATCAATTGGGGACAACATGCCTTTGTATCATAAGGG
130 ATAGAAAGGCAATTCCATAAGATCAA-CAGGGAAAACATGCCCTTGTATCATAAGGG
23329152 GGTATCTACG
Statistics
Matches: 1100, Mismatches: 102, Indels: 43
0.88 0.08 0.03
Matches are distributed among these distances:
514 2 0.00
515 200 0.18
516 30 0.03
518 3 0.00
519 378 0.34
520 32 0.03
521 453 0.41
522 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (516 bp):
TCTCAGTCTTTCAACGACAACAACAATTTCCAACCCATCACTATTCCTCTAAGTAATTTGTTTCG
TCTTAAATTCTACCTTAGCCTTATGTTCAGTCAACCAGTCCATACCAAGAATAACATCAAACCCA
TAGAAAGGCAATTCCATAAGATCAACAGGGAAAACATGCCCTTGTATCATAAGGGCACCCCACGG
AGATACACTCAGTCGAATGAACCCTCTGTCAAGCAACTCTTGCAACTAAATCTTTAACTCTTTGA
GCTCTTTTGGTGCCATACGATAGGGTGCTATAGACACTGGTGCAGTACCAGGATAGAGCTCAATA
CCAAAATCCACTTCACATTCTGGTGGCAAACCAGACAACTCTTCAGGAAACATGTTAGGAAAATC
TTTAAAGAGCAAATATCCTGAACTCTCAGCTCCTTACTAACTGAATTCATCAAAGTGCTAAGTAA
GCTTCACAACCTCTTCCATCATCTTCTCAGCCTTCATAGTCGAAACCACATTAGACATAAA
Found at i:23330515 original size:4 final size:4
Alignment explanation
Indices: 23330506--23330531 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23330496 CTACTAGTCT
23330506 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
23330532 TAGAGGTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:23337112 original size:18 final size:18
Alignment explanation
Indices: 23337089--23337123 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23337079 AGTAAAATAA
23337089 AATAATAAAAAGAACAAG
1 AATAATAAAAAGAACAAG
*
23337107 AATAATAACAAGAACAA
1 AATAATAAAAAGAACAA
23337124 AAACAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (18 bp):
AATAATAAAAAGAACAAG
Found at i:23337914 original size:42 final size:42
Alignment explanation
Indices: 23337845--23337925 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
23337835 TTGTGTGCCC
* * * *
23337845 CACACGGCTGAGGCACATGCCCGTGTCTTAGGCCGTGTACCT
1 CACACGACTGAGGCACACGCCCATGTCTCAGGCCGTGTACCT
23337887 CACACGACTGAGGCACACGCCCATGTCTCAGGCCGTGTA
1 CACACGACTGAGGCACACGCCCATGTCTCAGGCCGTGTA
23337926 ACCTTCGAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.20, C:0.35, G:0.27, T:0.19
Consensus pattern (42 bp):
CACACGACTGAGGCACACGCCCATGTCTCAGGCCGTGTACCT
Found at i:23339100 original size:71 final size:71
Alignment explanation
Indices: 23339023--23339185 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 71
23339013 TTGCGCCCAG
* * * *
23339023 CTAGTCGGATAACCGACGATAGTTGT-GCTCAGCATTAGTCAAATAAACTAATAGAAGATTTGCG
1 CTAGTCGGATAACCGACGACAGTTGTGGC-CAGCACTAGTCAAATAAACTAACAGAAGATTTGCA
***
23339087 TTTAGCA
65 CCAAGCA
* * *
23339094 CTAGTCGGATAACCGACGGCAGTTGTGGCCAGCACTAGTCAGATAAACTGACAGAAGATTTGCAC
1 CTAGTCGGATAACCGACGACAGTTGTGGCCAGCACTAGTCAAATAAACTAACAGAAGATTTGCAC
**
23339159 CAAGTG
66 CAAGCA
23339165 CTAGTCGGATAACCGACGACA
1 CTAGTCGGATAACCGACGACA
23339186 ATTACTCAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
71 76 0.97
72 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (71 bp):
CTAGTCGGATAACCGACGACAGTTGTGGCCAGCACTAGTCAAATAAACTAACAGAAGATTTGCAC
CAAGCA
Found at i:23344648 original size:179 final size:179
Alignment explanation
Indices: 23344348--23344705 Score: 698
Period size: 179 Copynumber: 2.0 Consensus size: 179
23344338 GCTTTTCATT
23344348 AGATTTGGTAGTTTTTCATAAAAACATTTTTCTTAATCCATGATTTCTTATAATATTGAAAAAAA
1 AGATTTGGTAGTTTTTCATAAAAACATTTTTCTTAATCCATGATTTCTTATAATATTGAAAAAAA
*
23344413 ACTGATTAGAATGCAGGAAAAATGTAAACATATTAGAAACATGTAACAAAATAATTTAAAGAGAA
66 ACTGATTAGAATGCAGGAAAAATGTAAACATATTAGAAACATCTAACAAAATAATTTAAAGAGAA
23344478 ATAAAACAAAATAAATCTTAAATTTAAGTTATAAAAAATTACATAAATA
131 ATAAAACAAAATAAATCTTAAATTTAAGTTATAAAAAATTACATAAATA
*
23344527 AGATTTGGTAGTTTTTCATAAAAACGTTTTTCTTAATCCATGATTTCTTATAATATTGAAAAAAA
1 AGATTTGGTAGTTTTTCATAAAAACATTTTTCTTAATCCATGATTTCTTATAATATTGAAAAAAA
23344592 ACTGATTAGAATGCAGGAAAAATGTAAACATATTAGAAACATCTAACAAAATAATTTAAAGAGAA
66 ACTGATTAGAATGCAGGAAAAATGTAAACATATTAGAAACATCTAACAAAATAATTTAAAGAGAA
23344657 ATAAAACAAAATAAATCTTAAATTTAAGTTATAAAAAATTACATAAATA
131 ATAAAACAAAATAAATCTTAAATTTAAGTTATAAAAAATTACATAAATA
23344706 TTTATATAGA
Statistics
Matches: 177, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.32
Consensus pattern (179 bp):
AGATTTGGTAGTTTTTCATAAAAACATTTTTCTTAATCCATGATTTCTTATAATATTGAAAAAAA
ACTGATTAGAATGCAGGAAAAATGTAAACATATTAGAAACATCTAACAAAATAATTTAAAGAGAA
ATAAAACAAAATAAATCTTAAATTTAAGTTATAAAAAATTACATAAATA
Found at i:23346054 original size:27 final size:24
Alignment explanation
Indices: 23346013--23346062 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
23346003 CATATTTAAT
*
23346013 TATTTTTTTCAATATATGTATATATG
1 TATTTTTTACAATAT-T-TATATATG
23346039 TATTTTTTACACATATTTATATAT
1 TATTTTTTACA-ATATTTATATAT
23346063 ACATATGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (24 bp):
TATTTTTTACAATATTTATATATG
Found at i:23346063 original size:27 final size:26
Alignment explanation
Indices: 23346013--23346063 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
23346003 CATATTTAAT
* *
23346013 TATTTTTTTCAATATATGTATATATG
1 TATTTTTTACAATATATATATATATG
*
23346039 TATTTTTTACACATATTTATATATA
1 TATTTTTTACA-ATATATATATATA
23346064 CATATGCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
TATTTTTTACAATATATATATATATG
Found at i:23346125 original size:30 final size:28
Alignment explanation
Indices: 23346074--23346134 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 28
23346064 CATATGCATA
23346074 TTTATTTTTTTAATATAATGTAATTATT
1 TTTATTTTTTTAATATAATGTAATTATT
* *
23346102 TTTATTTTATTTTATTTATATGTAATTATT
1 TTTATTTT-TTTAATATA-ATGTAATTATT
23346132 TTT
1 TTT
23346135 TATAATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 7 0.24
30 14 0.48
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (28 bp):
TTTATTTTTTTAATATAATGTAATTATT
Found at i:23352439 original size:27 final size:27
Alignment explanation
Indices: 23352408--23352585 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23352398 TAAATTGTAC
23352408 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23352435 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23352461 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23352489 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
23352517 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23352544 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23352571 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23352586 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23352522 original size:82 final size:81
Alignment explanation
Indices: 23352409--23352564 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23352399 AAATTGTACA
* *
23352409 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23352473 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23352490 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23352555 TGCGAGTTGA
65 TGCGAATTGA
23352565 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23352576 original size:82 final size:81
Alignment explanation
Indices: 23352405--23352585 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23352395 GATTAAATTG
* *
23352405 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23352470 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23352486 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23352550 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23352568 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23352586 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23360626 original size:27 final size:27
Alignment explanation
Indices: 23360595--23360772 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23360585 TAAATTGTAC
23360595 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23360622 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23360648 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23360676 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
23360704 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23360731 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23360758 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23360773 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23360709 original size:82 final size:81
Alignment explanation
Indices: 23360596--23360751 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23360586 AAATTGTACA
* *
23360596 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23360660 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23360677 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23360742 TGCGAGTTGA
65 TGCGAATTGA
23360752 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23360763 original size:82 final size:81
Alignment explanation
Indices: 23360592--23360772 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23360582 GATTAAATTG
* *
23360592 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23360657 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23360673 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23360737 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23360755 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23360773 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23363860 original size:173 final size:174
Alignment explanation
Indices: 23363449--23363862 Score: 535
Period size: 173 Copynumber: 2.4 Consensus size: 174
23363439 ATCAGTGAAG
* ** * * * * * *
23363449 ATAGCAGATCTTGCCTTCCTATACTAACAACGAAGCAGATCGAAGTCACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATAGATGACACCAGCCTTGTCTCCCTG
* *
23363514 GGTTACAGCGGAGAAGGTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGA
66 GGTTACAGCGCAG-AGCTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGA
*
23363579 AGACACCAACATTGCCTCCCTAGGTTGCAGCGGAGCAAGCTAAAA
130 AGAAACCAACATTGCCTCCCTAGGTTGCAGCGGAGCAAGCTAAAA
* * ** *
23363624 ATAGAAGATCTTGCCTTCCTGCACCGGTAGCGAAGCAGATCAAAT-ACACCAGCCTTGTCTCCCT
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGAT-AGATGACACCAGCCTTGTCTCCCT
* * *
23363688 GGGTTGCAGCGCAG-GCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGA
65 GGGTTACAGCGCAGAGCTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGA
* * * * *
23363752 AGAAACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAA
130 AGAAACCAACATTGCCTCCCTAGGTTGCAGCGGAGCAAGCTAAAA
* * * *
23363797 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATTGATGACCCCAGCCCTATCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATAGATGACACCAGCCTTGTCTCCCTG
23363862 G
66 G
23363863 TCAGTAGTGG
Statistics
Matches: 203, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
172 2 0.01
173 140 0.69
175 60 0.30
176 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (174 bp):
ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATAGATGACACCAGCCTTGTCTCCCTG
GGTTACAGCGCAGAGCTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAA
GAAACCAACATTGCCTCCCTAGGTTGCAGCGGAGCAAGCTAAAA
Found at i:23363862 original size:88 final size:88
Alignment explanation
Indices: 23363449--23363850 Score: 533
Period size: 88 Copynumber: 4.6 Consensus size: 88
23363439 ATCAGTGAAG
** ** * * *
23363449 ATAGCAGATCTTGCCTTCCTATACTAACAACGAAGCAGATCGAAGTCACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* *
23363514 GGTTACAGCGGAGAAGG-TAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * * *
23363536 ATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACATTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
23363601 GGTTGCAGCGGAGCAAGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* ** * * *
23363624 ATAGAAGATCTTGCCTTCCTGCACCGGTAGCGAAGCAGATCAAATACACCAGCCTTGTCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
23363689 GGTTGCAGC---GCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* *
23363709 ATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGAAACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
23363774 GGTTGCAGCGGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * * *
23363797 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATTGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
23363851 CTATCTCCCT
Statistics
Matches: 271, Mismatches: 40, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
85 76 0.28
87 68 0.25
88 127 0.47
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:23363920 original size:44 final size:44
Alignment explanation
Indices: 23363850--23364352 Score: 532
Period size: 44 Copynumber: 11.7 Consensus size: 44
23363840 TGACCCCAGC
*
23363850 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
23363894 CCTATCTCCCTGGTCAGCAGTTGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * * *
23363938 TCTATCTCCCTGGGCGGAAGTGGAATAGATTAAAGA----G--C
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
23363976 CCTATCTCCCTGGTCAGCAGTGAAATAGGTCAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
23364020 CCTATCTCCCTAGACAACAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
23364064 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
23364108 TCTATTTCCTTGGGT-AGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
23364146 CCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
23364190 CCTATCTCCCTAGTCAGCAGTGGAATGGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * * *
23364234 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAT-ACGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * *
23364278 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
23364322 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGTT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTT
23364353 GAAAATAGCA
Statistics
Matches: 380, Mismatches: 62, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
37 2 0.01
38 55 0.14
39 2 0.01
40 2 0.01
42 2 0.01
43 3 0.01
44 310 0.82
45 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:23364011 original size:38 final size:38
Alignment explanation
Indices: 23363939--23364011 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
23363929 ATTGAGAATT
* * *
23363939 CTATCTCCCTGGGCGGAAGTGGAATAGATTAAAGAGCC
1 CTATCTCCCTGGGCAGAAGTGAAATAGATCAAAGAGCC
* * *
23363977 CTATCTCCCTGGTCAGCAGTGAAATAGGTCAAAGA
1 CTATCTCCCTGGGCAGAAGTGAAATAGATCAAAGA
23364012 TTGTGAATCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (38 bp):
CTATCTCCCTGGGCAGAAGTGAAATAGATCAAAGAGCC
Found at i:23364086 original size:126 final size:130
Alignment explanation
Indices: 23363849--23364355 Score: 554
Period size: 126 Copynumber: 3.9 Consensus size: 130
23363839 ATGACCCCAG
* * *
23363849 CCCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAG
1 CCCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTGGACAGCAG
* * * * * * * * *
23363914 TTGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCGGAAGTGGAATAGATT-AA-A-GAG-
66 TGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATGAGA
* * * * *
23363975 CCCTATCTCCCTGGTCAGCAGTGAAATAGGTCAAAGATTGTGAATCCTATCTCCCTAGACAACAG
1 CCCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTGGACAGCAG
23364040 TGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGAG
66 TGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGA-TGAG
23364105 AA
130 -A
** * * *
23364107 TTCTATTTCCTTGGGT-AGCAGTGGAATAGATT-AA-A----GAATCCTATCTCCCTGGACAGTA
1 CCCTATCTCCCT-GGTCAGCAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTGGACAGCA
*
23364165 GTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGTGGAATGGGTTGAAGATTGA
65 GTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGA-TGA
23364230 GAA
129 G-A
** * * * * *
23364233 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAT-ACGTCCTATCTCCCTGGTCAGCA
1 CCCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATTGTGA-ATCCTATCTCCCTGGACAGCA
* * * *
23364297 GTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAA
65 GTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCT-AGTCAGCAGTGGAATAGGTTGAA
23364356 AATAGCAGAT
Statistics
Matches: 328, Mismatches: 37, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
125 2 0.01
126 218 0.66
127 4 0.01
128 2 0.01
130 4 0.01
131 3 0.01
132 90 0.27
133 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (130 bp):
CCCTATCTCCCTGGTCAGCAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTGGACAGCAG
TGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATGAGA
Found at i:23364132 original size:170 final size:170
Alignment explanation
Indices: 23363850--23364305 Score: 644
Period size: 170 Copynumber: 2.7 Consensus size: 170
23363840 TGACCCCAGC
* *
23363850 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* * *
23363915 TGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCGGAAGTGGAATAGATTAAAGAGCCCTA
66 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGAAGTGGAATAGATTAAAGAACCCTA
*
23363980 TCTCCCTGGTCAGCAGTGAAATAGGTCAAAGATTGTGAAT
131 TCTCCCTGGACAGCAGTGAAATAGGTCAAAGATTGTGAAT
* * *
23364020 CCTATCTCCCTAGACAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
1 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* * * * *
23364085 GGAATAGGTTGAAGATTGAGAATTCTATTTCCTTGGGTAGCAGTGGAATAGATTAAAGAATCCTA
66 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGAAGTGGAATAGATTAAAGAACCCTA
* * *
23364150 TCTCCCTGGACAGTAGTGGAATAGGTTAAAGATTGTGAAT
131 TCTCCCTGGACAGCAGTGAAATAGGTCAAAGATTGTGAAT
* * * * *
23364190 CCTATCTCCCTAGTCAGCAGTGGAATGGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
1 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* * * * * *
23364255 GGAATAGATTGAAGATT-ATACGTCCTATCTCCCTGGTCAGCAGTGGAATAG
66 GGAATAGGTTGAAGATTGAGA-ATTCTATCTCCCTGGGCAGAAGTGGAATAG
23364306 GTTGAAGATC
Statistics
Matches: 252, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
169 2 0.01
170 250 0.99
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (170 bp):
CCTATCTCCCTAGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGAAGTGGAATAGATTAAAGAACCCTA
TCTCCCTGGACAGCAGTGAAATAGGTCAAAGATTGTGAAT
Found at i:23364751 original size:44 final size:44
Alignment explanation
Indices: 23364654--23364752 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
23364644 GCAGATGGCA
* * * *
23364654 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGTTTGAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAG
* * *
23364698 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAG
*
23364742 GATCTTATCTC
1 AATCTTATCTC
23364753 TCCAAAGGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAG
Found at i:23364848 original size:45 final size:45
Alignment explanation
Indices: 23364798--23364945 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 45
23364788 TATCTCCTTG
* * * **
23364798 AAGTTGCAGTGGAGTAGACCCAAGAAAGCGAGTCTTATTTCCCTA
1 AAGTTGCAGTGGAGCAAACCCAAGAAAGCAAGTCTTATCCCCCTA
* * *
23364843 AAGTTGTAGTGGAGCAAACTCAAGGAAGCAAGTCTTATCCCCCTA
1 AAGTTGCAGTGGAGCAAACCCAAGAAAGCAAGTCTTATCCCCCTA
* * * ** * * * *
23364888 AAATTGCAGTGGGGCAGACTAAATAAA-CAAATCCTATCTCCCTA
1 AAGTTGCAGTGGAGCAAACCCAAGAAAGCAAGTCTTATCCCCCTA
*
23364932 AAGTTGTAGTGGAG
1 AAGTTGCAGTGGAG
23364946 TGGATTAGAA
Statistics
Matches: 82, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
44 25 0.30
45 57 0.70
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAAACCCAAGAAAGCAAGTCTTATCCCCCTA
Found at i:23364943 original size:44 final size:45
Alignment explanation
Indices: 23364837--23364945 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 45
23364827 GAGTCTTATT
* * * *
23364837 TCCCTAAAGTTGTAGTGGAGCAAACTCAAGGAAGCAAGTCTTATC
1 TCCCTAAAGTTGTAGTGGAGCAAACTCAAAGAAACAAATCCTATC
* * * * * *
23364882 CCCCTAAAATTGCAGTGGGGCAGACT-AAATAAACAAATCCTATC
1 TCCCTAAAGTTGTAGTGGAGCAAACTCAAAGAAACAAATCCTATC
23364926 TCCCTAAAGTTGTAGTGGAG
1 TCCCTAAAGTTGTAGTGGAG
23364946 TGGATTAGAA
Statistics
Matches: 50, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
44 29 0.58
45 21 0.42
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (45 bp):
TCCCTAAAGTTGTAGTGGAGCAAACTCAAAGAAACAAATCCTATC
Found at i:23366670 original size:30 final size:28
Alignment explanation
Indices: 23366619--23366679 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
23366609 CATACGCATA
23366619 TTTATTTTTTTAATATAATGTAATTATT
1 TTTATTTTTTTAATATAATGTAATTATT
* * *
23366647 TTTATTTTATTTTATTTATATGTATTTATT
1 TTTATTTT-TTTAATATA-ATGTAATTATT
23366677 TTT
1 TTT
23366680 TATAATCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 8 0.29
29 7 0.25
30 13 0.46
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTATTTTTTTAATATAATGTAATTATT
Found at i:23366703 original size:30 final size:30
Alignment explanation
Indices: 23366669--23366728 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23366659 TATTTATATG
* *
23366669 TATTTAT-TTTTTATAATCTATATATGTATA
1 TATTTATCTTTGTAT-ATATATATATGTATA
*
23366699 TATTTATCTTTGTATATATATGTATGTATA
1 TATTTATCTTTGTATATATATATATGTATA
23366729 CATATTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (30 bp):
TATTTATCTTTGTATATATATATATGTATA
Found at i:23368607 original size:29 final size:32
Alignment explanation
Indices: 23368575--23368634 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
23368565 TCTTTGCTTC
23368575 TTTCTTCAATCTAG-CCC-AATTGT-TTCCTT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
* *
23368604 TTTCTTCTATTTAGCCCCAAATTGTATTCCT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCT
23368635 GCACAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 3 0.12
31 6 0.23
32 5 0.19
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (32 bp):
TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
Found at i:23374937 original size:43 final size:43
Alignment explanation
Indices: 23374885--23375111 Score: 280
Period size: 43 Copynumber: 5.3 Consensus size: 43
23374875 GCACCAAAAA
* *
23374885 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* *
23374928 AAACGCCGCTAAAGACCACGACCTTTAGCGGC-ATTCTTCTCAC
1 AAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTT-TTCCCAC
*
23374971 AAACGCCGCTAAAGACCACGA-CTTTCAGCGGCGCTTTTCCCAT
1 AAACGCCGCTAAAGACCACGACCTTT-AGCGGCGCTTTTCCCAC
* * *
23375014 AAACGTCGCTAAAGACTACGACCTTTAGCGGCGCTTTGCCCAC
1 AAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* * * * ** *
23375057 AAACGCCGCTAAAGAACA-AACCTTTAGTGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCAC
23375099 AAACGCCGCTAAA
1 AAACGCCGCTAAA
23375112 AACATAATAT
Statistics
Matches: 161, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
42 36 0.22
43 119 0.74
44 6 0.04
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCAC
Found at i:23375319 original size:13 final size:13
Alignment explanation
Indices: 23375301--23375332 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
23375291 AAAATTAATA
23375301 AATTTAGTTTTAG
1 AATTTAGTTTTAG
23375314 AATTTAGTTTTAG
1 AATTTAGTTTTAG
23375327 AATTTA
1 AATTTA
23375333 AAATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (13 bp):
AATTTAGTTTTAG
Found at i:23377181 original size:27 final size:28
Alignment explanation
Indices: 23377151--23377245 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 28
23377141 ACTTTCAAGT
23377151 TTTTTA-TTATTTTATAATTTTTATATA
1 TTTTTATTTATTTTATAATTTTTATATA
* ** *
23377178 -TTTTATTTCTTTTATAAAATTTATGTA
1 TTTTTATTTATTTTATAATTTTTATATA
*
23377205 TTTTTAATTTGTTTTA-AACTTTTT-TA-A
1 TTTTT-ATTTATTTTATAA-TTTTTATATA
*
23377232 GTTTTA-TTATTTTA
1 TTTTTATTTATTTTA
23377246 AATACAAGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
25 7 0.13
26 6 0.11
27 22 0.41
28 7 0.13
29 12 0.22
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTTATTTATTTTATAATTTTTATATA
Done.