Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 141 of 427
Found at i:38079130 original size:21 final size:21
Alignment explanation
Indices: 38079079--38079132 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
38079069 TGTTTTGTTA
38079079 TATACATATATATTTTATATAT
1 TATACATAT-TATTTTATATAT
** *
38079101 TATGTATATTATTATT-TTTAT
1 TATACATATTATT-TTATATAT
38079122 TATACATATTA
1 TATACATATTA
38079133 CGTATATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TATACATATTATTTTATATAT
Found at i:38079493 original size:2 final size:2
Alignment explanation
Indices: 38079486--38079537 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
38079476 TATTACTATT
*
38079486 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
38079528 TA CA TA TA TA
1 TA TA TA TA TA
38079538 CTCTTAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38080688 original size:41 final size:41
Alignment explanation
Indices: 38080602--38080715 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 41
38080592 GAATTAGTGT
38080602 GGGCCTTAGCCC-ACTCAGATACAGAATCAGATATAAATTA
1 GGGCCTTAGCCCAACTCAGATACAGAATCAGATATAAATTA
* *
38080642 AGGCCTTAGCCCAACTCAGATACA-AAGTCAAGA-ATATATTA
1 GGGCCTTAGCCCAACTCAGATACAGAA-TC-AGATATAAATTA
* *
38080683 GGGCCTCAGCCTAA-TCAGATACAGAATACAGAT
1 GGGCCTTAGCCCAACTCAGATACAGAAT-CAGAT
38080716 CAGAATATCA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
40 26 0.41
41 34 0.54
42 3 0.05
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (41 bp):
GGGCCTTAGCCCAACTCAGATACAGAATCAGATATAAATTA
Found at i:38080727 original size:13 final size:14
Alignment explanation
Indices: 38080696--38080727 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
38080686 CCTCAGCCTA
38080696 ATCAGATACAGAAT
1 ATCAGATACAGAAT
38080710 A-CAGAT-CAGAAT
1 ATCAGATACAGAAT
38080722 ATCAGA
1 ATCAGA
38080728 ATCCTACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 9 0.53
14 1 0.06
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (14 bp):
ATCAGATACAGAAT
Found at i:38085026 original size:30 final size:30
Alignment explanation
Indices: 38084990--38085051 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
38084980 GGGAATGGAT
38084990 AACATAGGTGATGGATAGTAAATATTTTGG
1 AACATAGGTGATGGATAGTAAATATTTTGG
38085020 AACATAGGTGATGGATAGTAAATATTTTGG
1 AACATAGGTGATGGATAGTAAATATTTTGG
38085050 AA
1 AA
38085052 TGGATGAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (30 bp):
AACATAGGTGATGGATAGTAAATATTTTGG
Found at i:38086134 original size:2 final size:2
Alignment explanation
Indices: 38086070--38086121 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
38086060 AAACTTGTTC
38086070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38086112 AT AT AT AT AT
1 AT AT AT AT AT
38086122 GTATGACTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38091857 original size:48 final size:48
Alignment explanation
Indices: 38091760--38091894 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
38091750 ACCATGGTTA
* * * ** *
38091760 ATGATAGCCAGTGTAAGACCATGTTTGGGACATGGCACCAGTGTTGAT
1 ATGATAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCCTCGAT
* *
38091808 ATGATAGCCAGTGTTAGACCATATCTAGGACATGGCATCAGCCTCGAT
1 ATGATAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCCTCGAT
* * *
38091856 ATG-TGTGCTAGTGTAAGACCATATCTGGGATATGGCATC
1 ATGAT-AGCCAGTGTAAGACCATATCTGGGACATGGCATC
38091895 GGCAACGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 72 0.99
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
ATGATAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCCTCGAT
Found at i:38091907 original size:48 final size:49
Alignment explanation
Indices: 38091816--38091939 Score: 146
Period size: 48 Copynumber: 2.6 Consensus size: 49
38091806 ATATGATAGC
* * * **
38091816 CAGTGTTAGACCATATCTAGGACATGGCATCAGCCTCGATATGTG-TGCT
1 CAGTGTAAGACCATATCTGGGATATGGCATCAGCAACGATATGTGAT-CT
* * *
38091865 -AGTGTAAGACCATATCTGGGATATGGCATCGGCAACGGTATGTGATTT
1 CAGTGTAAGACCATATCTGGGATATGGCATCAGCAACGATATGTGATCT
38091913 CA-TGTAAGACCATATCTGGGATATGGC
1 CAGTGTAAGACCATATCTGGGATATGGC
38091940 GTTGATATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
48 63 0.97
49 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
CAGTGTAAGACCATATCTGGGATATGGCATCAGCAACGATATGTGATCT
Found at i:38091972 original size:41 final size:42
Alignment explanation
Indices: 38091915--38092024 Score: 141
Period size: 41 Copynumber: 2.6 Consensus size: 42
38091905 TGTGATTTCA
* * * * *
38091915 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGAT-TCG
1 TGTAAGACCATGTCTGGGACATGGCATTAATATGAGATCCCG
* *
38091956 TGTAAGACCATGTCTGGGACATGGCATTAATGTGAGGTCCCG
1 TGTAAGACCATGTCTGGGACATGGCATTAATATGAGATCCCG
*
38091998 TGTAAGACCATGTTTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
38092025 CGGCACCGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 32 0.53
42 28 0.47
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATTAATATGAGATCCCG
Found at i:38092068 original size:131 final size:132
Alignment explanation
Indices: 38091866--38092112 Score: 325
Period size: 131 Copynumber: 1.9 Consensus size: 132
38091856 ATGTGTGCTA
* * * * *
38091866 GTGTAAGACCATATCTGGGATATGGCATCGGCAACGGTATGTGATTTCATGTAAGACCATATCTG
1 GTGTAAGACCATATCTGGGACATGGCATCGGCAACGATATGAGATTTCATATAAGACCATACCTG
** * * ** * *
38091931 GGATATGGCGTTGATATG-AGATTCGTGTAAGACCATGTCTGGGACATGGCATTAATGTGAGGTC
66 CAATATGGCATCGATATGTAGACCCATGTAAGACCATGTCTGAGACATGGCATTAATGTGAGGTC
38091995 CC
131 CC
* * * * *
38091997 GTGTAAGACCATGTTTGGGACATGGCATCGGCACCGATGTGAGATTTCGTATAAGACCATACCTG
1 GTGTAAGACCATATCTGGGACATGGCATCGGCAACGATATGAGATTTCATATAAGACCATACCTG
38092062 CAATATGGCATCGATATGTAGACCCATGTAAGACCATGTCTGAGACATGGC
66 CAATATGGCATCGATATGTAGACCCATGTAAGACCATGTCTGAGACATGGC
38092113 TTTGGAATTC
Statistics
Matches: 97, Mismatches: 18, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
131 69 0.71
132 28 0.29
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (132 bp):
GTGTAAGACCATATCTGGGACATGGCATCGGCAACGATATGAGATTTCATATAAGACCATACCTG
CAATATGGCATCGATATGTAGACCCATGTAAGACCATGTCTGAGACATGGCATTAATGTGAGGTC
CC
Found at i:38093397 original size:19 final size:19
Alignment explanation
Indices: 38093373--38093419 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
38093363 TACACGGCCT
38093373 GGGGACACGAGCGTGTCAA
1 GGGGACACGAGCGTGTCAA
38093392 GGGGACACGAGCGTGTCAA
1 GGGGACACGAGCGTGTCAA
*
38093411 GGGAACACG
1 GGGGACACG
38093420 GGCATGTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.21, G:0.43, T:0.09
Consensus pattern (19 bp):
GGGGACACGAGCGTGTCAA
Found at i:38093427 original size:19 final size:19
Alignment explanation
Indices: 38093377--38093427 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
38093367 CGGCCTGGGG
* *
38093377 ACACGAGCGTGTCAAGGGG
1 ACACGAGCATGTCAAGGGA
*
38093396 ACACGAGCGTGTCAAGGGA
1 ACACGAGCATGTCAAGGGA
*
38093415 ACACGGGCATGTC
1 ACACGAGCATGTC
38093428 CTTATGTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.37, T:0.12
Consensus pattern (19 bp):
ACACGAGCATGTCAAGGGA
Found at i:38095320 original size:21 final size:21
Alignment explanation
Indices: 38095235--38095326 Score: 53
Period size: 22 Copynumber: 4.3 Consensus size: 21
38095225 CAAGTCTCGT
*
38095235 ACGCCCGTGTGGC-CTAAAGGAC
1 ACGCCCGTGTGACTCT--AGGAC
* * *
38095257 ATGCCCGTGTGACCCTAGCAC
1 ACGCCCGTGTGACTCTAGGAC
* * * *
38095278 ACACTCGTATG-GTCTAAGGGAC
1 ACGCCCGTGTGACTCT-A-GGAC
*
38095300 ATGCCCGTGTGACTCTAGGAC
1 ACGCCCGTGTGACTCTAGGAC
38095321 ACGCCC
1 ACGCCC
38095327 ATGCTACAAG
Statistics
Matches: 50, Mismatches: 16, Indels: 9
0.67 0.21 0.12
Matches are distributed among these distances:
20 2 0.04
21 21 0.42
22 22 0.44
23 5 0.10
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (21 bp):
ACGCCCGTGTGACTCTAGGAC
Found at i:38104829 original size:2 final size:2
Alignment explanation
Indices: 38104822--38104852 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38104812 AAGTGTCGAC
38104822 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38104853 GTTAAGCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38112794 original size:39 final size:40
Alignment explanation
Indices: 38112622--38112798 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
38112612 CCAAGGCCAA
* * * * * *
38112622 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
38112661 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
38112701 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
38112741 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
38112780 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
38112799 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:38120703 original size:40 final size:40
Alignment explanation
Indices: 38120635--38120812 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
38120625 ACCAAGGCCA
* * * *
38120635 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
38120674 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
38120714 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * *
38120754 CGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTT
*
38120794 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
38120813 CATTCAATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 9 0.08
40 99 0.87
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:38125940 original size:29 final size:29
Alignment explanation
Indices: 38125892--38125970 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
38125882 CTTAATAATC
*
38125892 AACCACGCACAC-TAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38125921 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38125950 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
38125971 TCTCTCAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 10 0.23
29 34 0.77
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38128133 original size:40 final size:40
Alignment explanation
Indices: 38128088--38128254 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
38128078 CGGAATATAA
38128088 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
38128128 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
38128168 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
38128208 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
38128247 CCGGATAT
1 CCGGATAT
38128255 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38128238 original size:80 final size:79
Alignment explanation
Indices: 38128104--38128252 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
38128094 ATAATCACGT
* *
38128104 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
38128169 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
38128184 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
38128247 CCGGAT
64 CCGGAT
38128253 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:38136116 original size:40 final size:40
Alignment explanation
Indices: 38136071--38136238 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
38136061 CGGAATATAA
38136071 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
38136111 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
38136151 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
38136191 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
38136231 CCGGATAT
1 CCGGATAT
38136239 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38139089 original size:21 final size:21
Alignment explanation
Indices: 38139064--38139117 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
38139054 AATATATACG
38139064 TAATATGTATAATA-AAAATAA
1 TAATATGTATAATATAAAA-AA
** *
38139085 TAATATACATAATATATAAAA
1 TAATATGTATAATATAAAAAA
38139106 TATATATGTATA
1 TA-ATATGTATA
38139118 TAACAAAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
TAATATGTATAATATAAAAAA
Found at i:38139397 original size:3 final size:3
Alignment explanation
Indices: 38139389--38139413 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38139379 TAAACATTGG
38139389 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
38139414 GTTGAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:38139525 original size:3 final size:3
Alignment explanation
Indices: 38139517--38139581 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
38139507 ACAAAAGCAC
38139517 ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38139564 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
38139582 TGAAAATAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:38141281 original size:15 final size:15
Alignment explanation
Indices: 38141261--38141296 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
38141251 GAGCACACGA
*
38141261 GGTACTCGTAGATGG
1 GGTACTCGTAGACGG
38141276 GGTACTCGTAGACGG
1 GGTACTCGTAGACGG
38141291 GGTACT
1 GGTACT
38141297 AGAGGCCGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.39, T:0.25
Consensus pattern (15 bp):
GGTACTCGTAGACGG
Found at i:38144400 original size:40 final size:40
Alignment explanation
Indices: 38144347--38144457 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
38144337 TTTAGCACAC
* * *
38144347 CCTGCAGGT-TTTAAACCCGGATGTC-ATTCCAGCACGAAG
1 CCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGAAG
38144386 CCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAG
1 CCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAG
*
38144426 CCTGCGGGTCTTTAAGCCCGAATACAATTCCA
1 CCTGCGGGTCTTTAAGCCCGGATACAATTCCA
38144458 CATCAAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
39 9 0.14
40 57 0.86
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAG
Found at i:38150570 original size:29 final size:29
Alignment explanation
Indices: 38150537--38150609 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
38150527 GCTGGTTTTC
* *
38150537 GGCACTAAGTGTGCGGGCTTGAAA-TGCAT
1 GGCACTAAGTGTGCGAG-TTGAAAGTACAT
* *
38150566 GGCACTAAATGTGCGAGTTTAAAGTACAT
1 GGCACTAAGTGTGCGAGTTGAAAGTACAT
38150595 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
38150610 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGTTGAAAGTACAT
Found at i:38155790 original size:40 final size:40
Alignment explanation
Indices: 38155675--38155793 Score: 213
Period size: 40 Copynumber: 3.0 Consensus size: 40
38155665 TTTCAGCACA
38155675 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-CG
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA-CATCG
*
38155715 AAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCACATCG
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCACATCG
38155755 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCACATC
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCACATC
38155794 AAAGAACATG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
39 2 0.03
40 74 0.97
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCACATCG
Found at i:38160749 original size:21 final size:21
Alignment explanation
Indices: 38160706--38160758 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
38160696 TAATATATAC
* ** *
38160706 ATTTTACTTTATATATTATTT
1 ATTTTACTATATATAAAAATT
38160727 ATTTTACTATATATAAAAATT
1 ATTTTACTATATATAAAAATT
*
38160748 ATTATA-TATAT
1 ATTTTACTATAT
38160759 TTTTATCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTACTATATATAAAAATT
Found at i:38160846 original size:18 final size:18
Alignment explanation
Indices: 38160825--38160884 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
38160815 CCAATATATG
38160825 TTTTATTCAT-TATATTAT
1 TTTTATT-ATATATATTAT
38160843 TTTTATTATATATATTAT
1 TTTTATTATATATATTAT
* *
38160861 ATTGTATTATTTAT-TTAT
1 -TTTTATTATATATATTAT
*
38160879 TATTAT
1 TTTTAT
38160885 GTACATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.17
18 19 0.53
19 11 0.31
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTATATATATTAT
Found at i:38160852 original size:14 final size:14
Alignment explanation
Indices: 38160833--38160884 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
38160823 TGTTTTATTC
*
38160833 ATTATATTATTTTT
1 ATTATATTATTTAT
38160847 ATTATA-TATATTAT
1 ATTATATTAT-TTAT
*
38160861 ATTGTATTATTTAT
1 ATTATATTATTTAT
38160875 -TTATTATTAT
1 ATTA-TATTAT
38160885 GTACATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 5 0.16
14 24 0.75
15 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTATATTATTTAT
Found at i:38163248 original size:22 final size:24
Alignment explanation
Indices: 38163206--38163253 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
38163196 ATATTATAAG
38163206 AAATTAGATACAATATATATATGC
1 AAATTAGATACAATATATATATGC
*
38163230 AAATTGGATACAATATATATATGC
1 AAATTAGATACAATATATATATGC
38163254 TTTATCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.33
Consensus pattern (24 bp):
AAATTAGATACAATATATATATGC
Found at i:38164436 original size:289 final size:289
Alignment explanation
Indices: 38163908--38164563 Score: 1018
Period size: 289 Copynumber: 2.3 Consensus size: 289
38163898 TGTGAGGACT
38163908 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCT
1 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCT
* * **
38163973 TGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTACCATGTGTCTGCCCTCTGTCAGATAT
66 TGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTACCATATGTCTGCCCTCCATCAGATAT
* * *
38164038 GGAGACGCCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTT
131 AGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
* ** *
38164103 TAGTGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTT-TCAACTACAAGGAT
196 CAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAAC-ACAAGGAT
38164167 ACCAAATCATCTTGGATTTGTTTGAGAACA
260 ACCAAATCATCTTGGATTTGTTTGAGAACA
* *
38164197 TCTGAGAGTCAAATCTGCTATGTTCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATTATCT
1 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCT
* * * *
38164262 TGGATCTGCTTCA-TCATAAATATCTGAAGGTTAGATCTGCTATATGT-TCGCCCTCCATC-GAA
66 TGGATCTGCTTCAGT-ATAAACATCTAAAGGTTAGATCTACCATATGTCT-GCCCTCCATCAG-A
*
38164324 TATAGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGATATGCCAAATCATCTTAGACTTG
128 TATAGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTG
* *
38164389 CTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGGT-TTTGATTTGTTCCTTGTAAACACAAG
193 CTTCAACGTAAACACATGAAAGCCAAATCAGCTAT-GTCTTCGATTTGTTCCTTGTAAACACAAG
38164453 GATACCAAATCATCTTGGATTTGTTTGAGAACA
257 GATACCAAATCATCTTGGATTTGTTTGAGAACA
* * *
38164486 TCTGAGAGTCAAATCTGCTA-GTCCCCGATTTGTTTCTTGTAAACATAAGAATGCCAAATCATCT
1 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCT
38164550 TGGATCTGCTTCAG
66 TGGATCTGCTTCAG
38164564 CCAGATCTGT
Statistics
Matches: 336, Mismatches: 25, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
288 55 0.16
289 275 0.82
290 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (289 bp):
TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCT
TGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTACCATATGTCTGCCCTCCATCAGATAT
AGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTT
CAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATA
CCAAATCATCTTGGATTTGTTTGAGAACA
Found at i:38172414 original size:12 final size:12
Alignment explanation
Indices: 38172397--38172422 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38172387 GCATTTTTTC
38172397 CAATTGGTCTTG
1 CAATTGGTCTTG
38172409 CAATTGGTCTTG
1 CAATTGGTCTTG
38172421 CA
1 CA
38172423 TGTCCTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (12 bp):
CAATTGGTCTTG
Found at i:38176506 original size:34 final size:33
Alignment explanation
Indices: 38176455--38176548 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 33
38176445 GGTAATAAAG
*
38176455 AAATATAGTAA-AATATAATATAATTTACAAATAA
1 AAATAT-GTAATAATATAA-ATAATATACAAATAA
* * **
38176489 AAATATGTAATATTATAAATTATATAGTAATAA
1 AAATATGTAATAATATAAATAATATACAAATAA
*
38176522 AATATATGTAATAAAATAAATAATATA
1 AA-ATATGTAATAATATAAATAATATA
38176549 ATATAAGAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 17 0.34
34 33 0.66
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (33 bp):
AAATATGTAATAATATAAATAATATACAAATAA
Found at i:38176534 original size:14 final size:15
Alignment explanation
Indices: 38176503--38176539 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
38176493 ATGTAATATT
*
38176503 ATAAATTATATAGTA
1 ATAAAATATATAGTA
38176518 ATAAAATATAT-GTA
1 ATAAAATATATAGTA
38176532 ATAAAATA
1 ATAAAATA
38176540 AATAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (15 bp):
ATAAAATATATAGTA
Found at i:38176572 original size:23 final size:22
Alignment explanation
Indices: 38176517--38176574 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
38176507 ATTATATAGT
* *
38176517 AATAAAATATATGTAATAAAATA
1 AATAAAATA-ATATAAGAAAATA
*
38176540 AATAATATAATATAAGAAGAATA
1 AATAAAATAATATAAGAA-AATA
*
38176563 TATAAAATAATA
1 AATAAAATAATA
38176575 ATAATCTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (22 bp):
AATAAAATAATATAAGAAAATA
Found at i:38176687 original size:17 final size:15
Alignment explanation
Indices: 38176657--38176845 Score: 109
Period size: 15 Copynumber: 12.9 Consensus size: 15
38176647 TAACTTTATA
*
38176657 AATAAAATATATAAT
1 AATATAATATATAAT
38176672 AATATGAATAATATAAT
1 AATAT-AAT-ATATAAT
38176689 -ATATAATATATAA-
1 AATATAATATATAAT
* *
38176702 AA-ATAATATGTACT
1 AATATAATATATAAT
38176716 AA-A-AA-ATAT-AT
1 AATATAATATATAAT
38176727 AATATAGATATA-AAT
1 AATATA-ATATATAAT
*
38176742 AATAT-ATATA-AAA
1 AATATAATATATAAT
*
38176755 AATAT-ATA-ATAAA
1 AATATAATATATAAT
*
38176768 AATTAAAAATATATAAT
1 AA-T-ATAATATATAAT
*
38176785 AATATAATAGATAA-
1 AATATAATATATAAT
* *
38176799 AATATAGTAAAATAAAT
1 AATATAAT-ATAT-AAT
38176816 AATATATATATATAAT
1 AATATA-ATATATAAT
*
38176832 GAAAAT-ATATATAA
1 -AATATAATATATAA
38176846 CATATAGTAA
Statistics
Matches: 140, Mismatches: 15, Indels: 38
0.73 0.08 0.20
Matches are distributed among these distances:
11 3 0.02
12 5 0.04
13 32 0.23
14 19 0.14
15 38 0.27
16 16 0.11
17 26 0.19
18 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAATATATAAT
Found at i:38176745 original size:15 final size:14
Alignment explanation
Indices: 38176653--38176845 Score: 76
Period size: 13 Copynumber: 14.0 Consensus size: 14
38176643 TTACTAACTT
*
38176653 TATAAATAAAAT-A
1 TATAAATAATATAA
38176666 TAT-AATAATATGAA
1 TATAAATAATAT-AA
38176680 TAATATAAT-ATATAA
1 T-ATA-AATAATATAA
38176695 TATATAA-AA-ATAA
1 TATA-AATAATATAA
* *
38176708 TATGTACTAA-A-AA
1 TAT-AAATAATATAA
*
38176721 -ATATATAATATAGA
1 TATAAATAATATA-A
38176735 TATAAATAATAT-A
1 TATAAATAATATAA
*
38176748 TATAAAAAATAT-A
1 TATAAATAATATAA
*
38176761 TAATAAA-AATTAAAAA
1 T-ATAAATAA-T-ATAA
38176777 TATATAATAATATAA
1 TATA-AATAATATAA
* *
38176792 TAGATAA-AATATAG
1 TATA-AATAATATAA
38176806 TA-AAATAA-ATAA
1 TATAAATAATATAA
*
38176818 TATATAT-ATATAA
1 TATAAATAATATAA
38176831 TGA-AAATATATATAA
1 T-ATAAATA-ATATAA
38176846 CATATAGTAA
Statistics
Matches: 141, Mismatches: 15, Indels: 46
0.70 0.07 0.23
Matches are distributed among these distances:
11 3 0.02
12 18 0.13
13 44 0.31
14 28 0.20
15 34 0.24
16 9 0.06
17 5 0.04
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (14 bp):
TATAAATAATATAA
Found at i:38176780 original size:89 final size:91
Alignment explanation
Indices: 38176660--38176897 Score: 209
Period size: 93 Copynumber: 2.5 Consensus size: 91
38176650 CTTTATAAAT
*
38176660 AAAATATATAATAATATGAA-TAATATAATATATAATATATAAAAATAATATGTACT-AAA-AAA
1 AAAATATATAATAA-A--AATTAACA-AATATATAATATATAAAAATAATATGTACTAAAATAAA
*
38176722 TATATAATATAGATATAA-ATAATATATATAA
62 TA-AT-ATATAGATATAAGAAAATATATATAA
* * * *
38176753 AAAATATATAATAAAAATTAA-AAATATATAATAATATAATAGATAAAATATAGTAAAATAAATA
1 AAAATATATAATAAAAATTAACAAATATATAAT-ATATAA-AAATAATATGTACTAAAATAAATA
*
38176817 ATATATATATATAATGAAAATATATATAA
64 ATATATAGATATAA-GAAAATATATATAA
* * * * *
38176846 CATATAGTAAAATACAAATATAACAAA-ATAAAATATATATAAAATATATATG
1 AAAATA-TATAATAAAAAT-TAACAAATATATAATATATA-AAAATA-ATATG
38176898 ATAAACAAAT
Statistics
Matches: 119, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
89 10 0.08
90 9 0.08
91 24 0.20
92 6 0.05
93 35 0.29
94 19 0.16
95 13 0.11
96 3 0.03
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (91 bp):
AAAATATATAATAAAAATTAACAAATATATAATATATAAAAATAATATGTACTAAAATAAATAAT
ATATAGATATAAGAAAATATATATAA
Found at i:38176820 original size:61 final size:63
Alignment explanation
Indices: 38176752--38176887 Score: 149
Period size: 63 Copynumber: 2.2 Consensus size: 63
38176742 AATATATATA
* * **
38176752 AAAAATATATAATA-AAAATTAAAA-ATATATAATA-ATA-TAATAGATA-AAATATAGTAAAAT
1 AAAAATATATAATATAAAATGAAAATATATATAACATATAGTAA-A-ATACAAATATAACAAAAT
*
38176812 AAATAATATAT-ATATATAATGAAAATATATATAACATATAGTAAAATACAAATATAACAAAAT
1 AAA-AATATATAATATAAAATGAAAATATATATAACATATAGTAAAATACAAATATAACAAAAT
38176875 AAAATATATATAA
1 AAAA-ATATATAA
38176888 AATATATATG
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
60 6 0.10
61 15 0.24
62 13 0.21
63 25 0.40
64 4 0.06
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (63 bp):
AAAAATATATAATATAAAATGAAAATATATATAACATATAGTAAAATACAAATATAACAAAAT
Found at i:38176839 original size:13 final size:12
Alignment explanation
Indices: 38176653--38176895 Score: 132
Period size: 11 Copynumber: 21.5 Consensus size: 12
38176643 TTACTAACTT
38176653 TATA-AATAAAA
1 TATATAATAAAA
*
38176664 TATATAATAATA
1 TATATAATAAAA
*
38176676 TGA-ATAATATAA
1 T-ATATAATAAAA
*
38176688 TATATAAT-ATA
1 TATATAATAAAA
* *
38176699 TA-AAAATAATA
1 TATATAATAAAA
*
38176710 TGTACTAA-AAAA
1 TATA-TAATAAAA
*
38176722 TATATAATATAGA
1 TATATAATA-AAA
*
38176735 TATA-AATAATA
1 TATATAATAAAA
38176746 TATATAA-AAAA
1 TATATAATAAAA
38176757 TATATAATAAAA
1 TATATAATAAAA
38176769 -AT-T-A-AAAA
1 TATATAATAAAA
*
38176777 TATATAATAATA
1 TATATAATAAAA
38176789 TA-ATAGAT-AAA
1 TATATA-ATAAAA
*
38176800 -ATATAGTAAAA
1 TATATAATAAAA
* *
38176811 TAAATAATATATA
1 TATATAATA-AAA
38176824 TATATAATGAAAA
1 TATATAAT-AAAA
38176837 TATAT-AT--AA
1 TATATAATAAAA
* *
38176846 CATATAGTAAAA
1 TATATAATAAAA
* *
38176858 TACA-AATATAA
1 TATATAATAAAA
*
38176869 CA-A-AATAAAA
1 TATATAATAAAA
38176879 TATAT-ATAAAA
1 TATATAATAAAA
38176890 TATATA
1 TATATA
38176896 TGATAAACAA
Statistics
Matches: 176, Mismatches: 30, Indels: 51
0.68 0.12 0.20
Matches are distributed among these distances:
8 4 0.02
9 9 0.05
10 17 0.10
11 63 0.36
12 57 0.32
13 25 0.14
14 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.33
Consensus pattern (12 bp):
TATATAATAAAA
Found at i:38176857 original size:21 final size:22
Alignment explanation
Indices: 38176721--38176893 Score: 95
Period size: 23 Copynumber: 7.5 Consensus size: 22
38176711 GTACTAAAAA
*
38176721 ATATATAATATAGATATAAATAATAT
1 ATATAAAATATA-ATA-AAAT-A-AT
* *
38176747 ATATAAAAAATATATAATAAAAAT
1 ATATAAAATATA-ATAA-AATAAT
* *
38176771 -TAAAAATATATAATAATATAAT
1 ATATAAA-ATATAATAAAATAAT
* *
38176793 AGATAAAATATAGTAAAATAAAT
1 ATATAAAATATAATAAAAT-AAT
*
38176816 AATATATATATATAATGAAAAT-AT
1 -ATATA-AAATATAAT-AAAATAAT
* * *
38176840 ATATAACATATAGTAAAATACAA
1 ATATAAAATATAATAAAATA-AT
*
38176863 ATATAACA-A-AATAAAAT-AT
1 ATATAAAATATAATAAAATAAT
38176882 ATATAAAATATA
1 ATATAAAATATA
38176894 TATGATAAAC
Statistics
Matches: 115, Mismatches: 21, Indels: 27
0.71 0.13 0.17
Matches are distributed among these distances:
19 8 0.07
20 1 0.01
21 13 0.11
22 22 0.19
23 30 0.26
24 12 0.10
25 9 0.08
26 20 0.17
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (22 bp):
ATATAAAATATAATAAAATAAT
Found at i:38176893 original size:42 final size:43
Alignment explanation
Indices: 38176742--38176893 Score: 148
Period size: 47 Copynumber: 3.4 Consensus size: 43
38176732 AGATATAAAT
* *
38176742 AATATATATAAAAAATA-TATAATAAAAAT-TAAAAATATATAA
1 AATATATATAAAATATAGTAAAATAAAAATATAAAAATA-ATAA
*
38176784 TAATATAATAGATAAAATATAGTAAAATAAATAATATATATATATAATGAA
1 -AATAT-AT--ATAAAATATAGTAAAATAAA-AATATA-A-AAATAAT-AA
* * *
38176835 AATATATATAACATATAGTAAAATACAAATATAACAA-AATAA
1 AATATATATAAAATATAGTAAAATAAAAATATAAAAATAATAA
38176877 AATATATATAAAATATA
1 AATATATATAAAATATA
38176894 TATGATAAAC
Statistics
Matches: 92, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
42 18 0.20
43 8 0.09
44 3 0.03
45 1 0.01
46 15 0.16
47 26 0.28
48 3 0.03
49 4 0.04
50 8 0.09
51 6 0.07
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (43 bp):
AATATATATAAAATATAGTAAAATAAAAATATAAAAATAATAA
Found at i:38179220 original size:11 final size:11
Alignment explanation
Indices: 38179200--38179253 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 11
38179190 TTATATTGTC
38179200 TATTTATATAT
1 TATTTATATAT
38179211 TATTT-T-TA-
1 TATTTATATAT
38179219 TATTTATATA-
1 TATTTATATAT
*
38179229 TATATATATAT
1 TATTTATATAT
*
38179240 ATATATATATAT
1 -TATTTATATAT
38179252 TA
1 TA
38179254 AAGCCTTAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
8 5 0.13
9 3 0.08
10 12 0.32
11 7 0.18
12 11 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTATATAT
Found at i:38179224 original size:6 final size:6
Alignment explanation
Indices: 38179190--38179252 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
38179180 CCATCTATTA
* * * *
38179190 TTATAT TGTCTAT TTATAT ATTATTT TTATAT TTATAT ATATAT ATATAT
1 TTATAT T-TATAT TTATAT -TTATAT TTATAT TTATAT TTATAT TTATAT
* *
38179240 ATATAT ATATAT T
1 TTATAT TTATAT T
38179253 AAAGCCTTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
6 39 0.80
7 10 0.20
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (6 bp):
TTATAT
Found at i:38179228 original size:2 final size:2
Alignment explanation
Indices: 38179204--38179251 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
38179194 ATTGTCTATT
* * *
38179204 TA TA TA T- TA TT TT TA TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38179245 TA TA TA T
1 TA TA TA T
38179252 TAAAGCCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:38180286 original size:12 final size:12
Alignment explanation
Indices: 38180253--38180291 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
38180243 AAATTTAATC
*
38180253 TAATATTTA-TC
1 TAATATTTATTT
38180264 TAATA-TTATTT
1 TAATATTTATTT
38180275 TAATATTTATTT
1 TAATATTTATTT
38180287 TAATA
1 TAATA
38180292 ACTTTAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 3 0.12
11 11 0.44
12 11 0.44
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (12 bp):
TAATATTTATTT
Found at i:38181645 original size:2 final size:2
Alignment explanation
Indices: 38181640--38181673 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
38181630 TTGGTTTTAC
38181640 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38181674 TAAAATGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38183191 original size:19 final size:19
Alignment explanation
Indices: 38183167--38183228 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
38183157 AATCTTTAAG
*
38183167 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38183186 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38183205 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
38183226 GAT
1 GAT
38183229 CTTGTAATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 31 0.77
21 9 0.22
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38190342 original size:10 final size:9
Alignment explanation
Indices: 38190327--38190386 Score: 61
Period size: 10 Copynumber: 6.7 Consensus size: 9
38190317 ACTTCTATTT
38190327 AAAAAAAGCA
1 AAAAAAAG-A
38190337 AAAAAAAGA
1 AAAAAAAGA
*
38190346 AAAGAAA-A
1 AAAAAAAGA
*
38190354 AAAGAAA-A
1 AAAAAAAGA
*
38190362 AGAAAAAGA
1 AAAAAAAGA
38190371 AAAAAAGAGA
1 AAAAAA-AGA
38190381 AAAAAA
1 AAAAAA
38190387 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
8 14 0.32
9 13 0.30
10 17 0.39
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:38190348 original size:6 final size:6
Alignment explanation
Indices: 38190339--38190374 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
38190329 AAAAAGCAAA
*
38190339 AAAAAG AAAAGAA AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAA-AG AAAAAG AAAAAG AAAAAG AAAAA
38190375 AAGAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:38190353 original size:12 final size:12
Alignment explanation
Indices: 38190336--38190376 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
38190326 TAAAAAAAGC
38190336 AAAAAAAAGAAA
1 AAAAAAAAGAAA
38190348 AGAAAAAAAGAAA
1 A-AAAAAAAGAAA
*
38190361 AAGAAAAAGAAA
1 AAAAAAAAGAAA
38190373 AAAA
1 AAAA
38190377 GAGAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:38190355 original size:14 final size:14
Alignment explanation
Indices: 38190330--38190386 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
38190320 TCTATTTAAA
38190330 AAAAGCAAAAAAAAG
1 AAAAG-AAAAAAAAG
38190345 AAAAG-AAAAAAAG
1 AAAAGAAAAAAAAG
38190358 AAAAAGAAAAAGAAA-
1 -AAAAGAAAAA-AAAG
38190373 AAAAGAGAAAAAAA
1 AAAAGA-AAAAAAA
38190387 TGGAGAGGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.21
14 14 0.37
15 13 0.34
16 3 0.08
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:38190361 original size:20 final size:21
Alignment explanation
Indices: 38190327--38190384 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
38190317 ACTTCTATTT
*
38190327 AAAAAAAGCAAAAAAAAGAAAAG
1 AAAAAAAG-AAAAAAGA-AAAAG
38190350 AAAAAAAG-AAAAAGAAAAAG
1 AAAAAAAGAAAAAAGAAAAAG
38190370 AAAAAAAGAGAAAAA
1 AAAAAAAGA-AAAAA
38190385 AATGGAGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 13 0.41
21 6 0.19
22 5 0.16
23 8 0.25
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAAAGAAAAAG
Found at i:38190376 original size:8 final size:8
Alignment explanation
Indices: 38190327--38190385 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
38190317 ACTTCTATTT
38190327 AAAAAAAG
1 AAAAAAAG
*
38190335 CAAAAAA-
1 AAAAAAAG
*
38190342 AAGAAAAG
1 AAAAAAAG
38190350 AAAAAAAG
1 AAAAAAAG
38190358 --AAAAAG
1 AAAAAAAG
38190364 --AAAAAG
1 AAAAAAAG
38190370 AAAAAAAG
1 AAAAAAAG
38190378 AGAAAAAA
1 A-AAAAAA
38190386 ATGGAGAGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
6 12 0.28
7 5 0.12
8 20 0.47
9 6 0.14
ACGTcount: A:0.85, C:0.02, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:38191419 original size:44 final size:45
Alignment explanation
Indices: 38191278--38191816 Score: 328
Period size: 44 Copynumber: 12.3 Consensus size: 45
38191268 CAAAGAAACA
* *
38191278 AGATTTGGCATCCTTGTGTTTATATGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * ** **
38191322 AGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
*
38191367 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * *
38191410 AGATTTGGCATCCCTATGTTTATAGGGAA-GAGATCAAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * **
38191454 AGATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAGATCGAAGATAGC
* * *
38191499 AGCA--TGGCATCCCTGTATTTATAGGGAACAAG-TTGAAGTTAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * *
38191542 AGATTTGGCATCCCTGTGTTTATAGGGAA-TAGATCAAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * * **
38191586 AGATCTGACA-CTCCTATGCTTACAGTGAA-ACAGATCGAGGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
* * *
38191631 --ATCATGGCAT-CCTGTCTTTATAGGGAACAAG-TTGAAGATAGC
1 AGAT-TTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
*
38191673 AGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * * ** **
38191717 AAATCTGACA-CTTCTGTGCTTACAGCGAAGTAGATC-AAGGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAACAAGATCGAA-GATAGC
** * **
38191762 A-ACATGGCATCCCTGTGTTTATAGGAAACAAG-TTAAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
38191805 AGATTTGGCATC
1 AGATTTGGCATC
38191817 TTTGTATTGT
Statistics
Matches: 366, Mismatches: 102, Indels: 54
0.70 0.20 0.10
Matches are distributed among these distances:
42 9 0.02
43 56 0.15
44 251 0.69
45 48 0.13
46 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (45 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
Found at i:38191520 original size:132 final size:132
Alignment explanation
Indices: 38191278--38191816 Score: 823
Period size: 132 Copynumber: 4.1 Consensus size: 132
38191268 CAAAGAAACA
* * * *
38191278 AGATTTGGCATCCTTGTGTTTATATGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACATTCCTGTGCTT
*
38191343 ACAGTGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
38191408 GC
131 GC
* * *
38191410 AGATTTGGCATCCCTATGTTTATAGGGAAGAGATCAAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACATTCCTGTGCTT
* *
38191475 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTATTTATAGGGAACAAGTTGAAGTTA
66 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
38191540 GC
131 GC
* * *
38191542 AGATTTGGCATCCCTGTGTTTATAGGGAATAGATCAAAGATAACAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACATTCCTGTGCTT
* * * *
38191607 ACAGTGAAACAGATCGAGGATTTCATCATGGCAT-CCTGTCTTTATAGGGAACAAGTTGAAGATA
66 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
38191671 GC
131 GC
* *
38191673 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAAATCTGACACTT-CTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACA-TTCCTGTGCT
* * * * *
38191737 TACAGCGAAGTAGATC-AAGGATTTCAACATGGCATCCCTGTGTTTATAGGAAACAAGTTAAAGA
65 TACAGTGAAGCAGATCGAA-GATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
38191801 TAGC
129 TAGC
38191805 AGATTTGGCATC
1 AGATTTGGCATC
38191817 TTTGTATTGT
Statistics
Matches: 373, Mismatches: 31, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
130 1 0.00
131 115 0.31
132 257 0.69
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACATTCCTGTGCTT
ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:38191845 original size:44 final size:44
Alignment explanation
Indices: 38191797--38191903 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
38191787 AAACAAGTTA
* * *
38191797 AAGATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGTAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCG
* *
38191841 AAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCG
*
38191885 AAGACATAGCTGATTTGGC
1 AAG--ATAGCAGATTTGGC
38191904 TTTCACGTGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 42 0.78
46 12 0.22
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (44 bp):
AAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCG
Found at i:38192546 original size:204 final size:205
Alignment explanation
Indices: 38191875--38192588 Score: 1225
Period size: 205 Copynumber: 3.5 Consensus size: 205
38191865 TATTGGCGGA
* * * *
38191875 GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAACCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAT
* *
38191940 TTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGTCTGGCATCTCCACTTCAACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
*
38192005 CACATAGCAGATCCAACCTTCAGATGTTTACACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
38192070 TGCTTACAAG
196 TGCTTACAAG
38192080 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAA-CAAATCTAAGATGA
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTT-AAAGCAAATCTAAGATGA
* *
38192144 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCACTTCGATGGAGGGCAG
65 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAG
*
38192209 ACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCAT
130 ACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTT
38192274 GTGCTTACAAG
195 GTGCTTACAAG
* * *
38192285 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGTTGAAGTAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAT
* ** *
38192350 TTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGACACAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
38192415 CACATAGCAGATCCAACCTTCA-ATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
38192479 TGCTTACAAG
196 TGCTTACAAG
*
38192489 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGTTAAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAT
* *
38192554 TTGGCATCTCTGTATTGTCAGGGAACAAATGGAAG
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
38192589 AAGCACATTT
Statistics
Matches: 481, Mismatches: 26, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
204 147 0.31
205 332 0.69
206 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:38192713 original size:44 final size:45
Alignment explanation
Indices: 38192662--38192760 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 45
38192652 GAGTTTGCAA
* *
38192662 GGAGCAGATTGAAGA-AGCAAATTTGGCGTCTCTATATTAGACGG
1 GGAGCAGATCGAAGATAACAAATTTGGCGTCTCTATATTAGACGG
*
38192706 GGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTAGACGG
1 GGAGCAGATCGAAGATAACAAATTTGGCGTCTCTATATTAGACGG
38192751 GGAGCAGATC
1 GGAGCAGATC
38192761 AACTACAGAG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.27
45 37 0.73
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.23
Consensus pattern (45 bp):
GGAGCAGATCGAAGATAACAAATTTGGCGTCTCTATATTAGACGG
Found at i:38193182 original size:19 final size:19
Alignment explanation
Indices: 38193160--38193264 Score: 124
Period size: 19 Copynumber: 5.5 Consensus size: 19
38193150 AGGGATATGT
38193160 AATCTTAGATATGATATAC
1 AATCTTAGATATGATATAC
38193179 AATCTTAGATATG--ATAC
1 AATCTTAGATATGATATAC
*
38193196 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAC
*
38193215 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAC
* * *
38193234 AATGTTGAAGATATGATCTTAT
1 AATCTT--AGATATGAT-ATAC
38193256 AATCTTAGA
1 AATCTTAGA
38193265 GATTTAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
17 17 0.23
19 40 0.53
20 3 0.04
21 9 0.12
22 6 0.08
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
AATCTTAGATATGATATAC
Found at i:38193183 original size:36 final size:36
Alignment explanation
Indices: 38193143--38193230 Score: 112
Period size: 36 Copynumber: 2.5 Consensus size: 36
38193133 ATGGAAATAT
38193143 AATCTTTAGGGATATG-T-AATCTTAGATATGATATAC
1 AATCTTTA--GATATGATAAATCTTAGATATGATATAC
*
38193179 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATGATA-AATCTTAGATATGATATAC
38193215 AATC-TTAGATATGATA
1 AATCTTTAGATATGATA
38193231 TGCAATGTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
33 6 0.12
34 1 0.02
35 3 0.06
36 38 0.79
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (36 bp):
AATCTTTAGATATGATAAATCTTAGATATGATATAC
Found at i:38195521 original size:39 final size:39
Alignment explanation
Indices: 38195461--38195560 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 39
38195451 CACGGTTTTT
* *
38195461 AGTATTGCGATATATGCTTAAACGTTATGTGATTATATG
1 AGTATTGCGATATATGCTTAAACATTATGTAATTATATG
* * *
38195500 AGTATTGCGTTATGTGTTTAAACATTATGTAATTATATG
1 AGTATTGCGATATATGCTTAAACATTATGTAATTATATG
* * *
38195539 TGTAATGTGATATATGCTTAAA
1 AGTATTGCGATATATGCTTAAA
38195561 AGTGAATACG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (39 bp):
AGTATTGCGATATATGCTTAAACATTATGTAATTATATG
Found at i:38207035 original size:24 final size:24
Alignment explanation
Indices: 38207008--38207059 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
38206998 TGGGGGTAGG
*
38207008 ATCTGTGACTGCATTTGTATTTGA
1 ATCTGTGACTGCATTTGTATCTGA
*
38207032 ATCTGTGTCTGCATTTGTATCTGA
1 ATCTGTGACTGCATTTGTATCTGA
38207056 ATCT
1 ATCT
38207060 AAATACGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (24 bp):
ATCTGTGACTGCATTTGTATCTGA
Found at i:38207356 original size:26 final size:26
Alignment explanation
Indices: 38207327--38207381 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
38207317 TTTTGGACTA
*
38207327 GGTTTTTGGATTTGGTT-TTATTTTTG
1 GGTTTTT-GATTTGGTTGTTAGTTTTG
*
38207353 GGTTTTTGATTTGTTTGTTAGTTTTG
1 GGTTTTTGATTTGGTTGTTAGTTTTG
38207379 GGT
1 GGT
38207382 GTTCTTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.07, C:0.00, G:0.29, T:0.64
Consensus pattern (26 bp):
GGTTTTTGATTTGGTTGTTAGTTTTG
Found at i:38207358 original size:25 final size:26
Alignment explanation
Indices: 38207330--38207381 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
38207320 TGGACTAGGT
*
38207330 TTTTGGATTTGGTT-TTATTTTTGGG
1 TTTTGGATTTGGTTGTTAGTTTTGGG
* *
38207355 TTTTTGATTTGTTTGTTAGTTTTGGG
1 TTTTGGATTTGGTTGTTAGTTTTGGG
38207381 T
1 T
38207382 GTTCTTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.08, C:0.00, G:0.27, T:0.65
Consensus pattern (26 bp):
TTTTGGATTTGGTTGTTAGTTTTGGG
Found at i:38212999 original size:20 final size:21
Alignment explanation
Indices: 38212953--38213001 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
38212943 TGCCACATTG
38212953 GTATTCTTATCCTGAATTTTAA
1 GTATT-TTATCCTGAATTTTAA
* *
38212975 G-ATTTTATCTTGAA-TTTCA
1 GTATTTTATCCTGAATTTTAA
38212994 GTATTTTA
1 GTATTTTA
38213002 ATTTGGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 15 0.62
21 3 0.12
22 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (21 bp):
GTATTTTATCCTGAATTTTAA
Found at i:38213158 original size:57 final size:57
Alignment explanation
Indices: 38213070--38213181 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 57
38213060 TGACATAAAA
* *
38213070 CTATTGGAAAGTGATACAAATGACGTGGCGTCACTGTTTCATACAATCCTTTCTCGT
1 CTATTGGAAAGGGATACAAATAACGTGGCGTCACTGTTTCATACAATCCTTTCTCGT
* *
38213127 CTATTGGAAAGGGATACAGATAACGTGGCGTCACTGTTTCATACAATTCTTTCTC
1 CTATTGGAAAGGGATACAAATAACGTGGCGTCACTGTTTCATACAATCCTTTCTC
38213182 TTGAATTGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (57 bp):
CTATTGGAAAGGGATACAAATAACGTGGCGTCACTGTTTCATACAATCCTTTCTCGT
Found at i:38214978 original size:43 final size:43
Alignment explanation
Indices: 38214917--38215000 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
38214907 ATATAGCATC
38214917 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAATG
1 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAATG
*
38214960 ATATAAGGTATAACATCTGTTAAAATAAAGTTGACACCTAA
1 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAA
38215001 ATGAAAGCGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (43 bp):
ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAATG
Found at i:38216923 original size:35 final size:34
Alignment explanation
Indices: 38216882--38216948 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 34
38216872 GAAATCTAAA
38216882 AACCTGCTAAACAAACATCAAAAGGCAATCAAATC
1 AACCTGCTAAACAAACATCAAAAGGCAA-CAAATC
38216917 AACCTGCTAAACAAACATCAAAAGGCAACAAA
1 AACCTGCTAAACAAACATCAAAAGGCAACAAA
38216949 AAAAATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 4 0.12
35 28 0.88
ACGTcount: A:0.54, C:0.25, G:0.09, T:0.12
Consensus pattern (34 bp):
AACCTGCTAAACAAACATCAAAAGGCAACAAATC
Found at i:38218310 original size:26 final size:26
Alignment explanation
Indices: 38218264--38218316 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
38218254 TCAAACTTGC
*
38218264 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
38218290 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
38218316 A
1 A
38218317 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:38219841 original size:26 final size:26
Alignment explanation
Indices: 38219801--38219910 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
38219791 CATGAAATTC
*
38219801 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
38219827 TTATCATGGACCATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
38219853 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
38219879 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
38219905 TTATCA
1 TTATCA
38219911 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:38220319 original size:14 final size:14
Alignment explanation
Indices: 38220300--38220356 Score: 96
Period size: 14 Copynumber: 4.1 Consensus size: 14
38220290 TCAAAGGGAT
38220300 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
*
38220314 GGAGATTTAAAGAA
1 GGAGATTTAGAGAA
*
38220328 GGAGATTTAGAGAT
1 GGAGATTTAGAGAA
38220342 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
38220356 G
1 G
38220357 CAAGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (14 bp):
GGAGATTTAGAGAA
Found at i:38220482 original size:13 final size:13
Alignment explanation
Indices: 38220466--38220502 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
38220456 TGGGGATACC
38220466 GATTTTAGAGGGA
1 GATTTTAGAGGGA
*
38220479 GATTTTAGGGGGA
1 GATTTTAGAGGGA
*
38220492 AATTTTAGAGG
1 GATTTTAGAGG
38220503 TTCCAATGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.38, T:0.32
Consensus pattern (13 bp):
GATTTTAGAGGGA
Found at i:38221491 original size:21 final size:23
Alignment explanation
Indices: 38221450--38221498 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
38221440 GATTTAGGCC
*
38221450 TAAACCCCTAACTCTTTGAACCA
1 TAAACCCCTAACTCCTTGAACCA
38221473 TAAACCCC-AAC-CCTTGAACCA
1 TAAACCCCTAACTCCTTGAACCA
38221494 TAAAC
1 TAAAC
38221499 TATAAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 14 0.56
22 3 0.12
23 8 0.32
ACGTcount: A:0.39, C:0.37, G:0.04, T:0.20
Consensus pattern (23 bp):
TAAACCCCTAACTCCTTGAACCA
Found at i:38221505 original size:7 final size:7
Alignment explanation
Indices: 38221489--38221540 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
38221479 CCAACCCTTG
38221489 AACCATA
1 AACCATA
*
38221496 AACTATA
1 AACCATA
38221503 AACCATA
1 AACCATA
* *
38221510 ACCCCTA
1 AACCATA
38221517 AACCCATA
1 AA-CCATA
*
38221525 ATCCATA
1 AACCATA
*
38221532 AACCTTA
1 AACCATA
38221539 AA
1 AA
38221541 ATAGTAACTC
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 30 0.86
8 5 0.14
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCATA
Found at i:38221742 original size:21 final size:21
Alignment explanation
Indices: 38221712--38221752 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38221702 CAAAAAATAA
38221712 ATATTCAATTAAACATAAATT
1 ATATTCAATTAAACATAAATT
* * *
38221733 ATATTTAATTTAATATAAAT
1 ATATTCAATTAAACATAAAT
38221753 AATGCTCTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTCAATTAAACATAAATT
Found at i:38221809 original size:41 final size:41
Alignment explanation
Indices: 38221752--38221883 Score: 201
Period size: 41 Copynumber: 3.2 Consensus size: 41
38221742 TTAATATAAA
* *
38221752 TAATGCTCTGGTTTTTAGCGGCGTTTCACAAAAAGCGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTTACAAGAAGCGCCGC
* *
38221793 TAATGCTCTGGTTTTTAGCGGTGTTTTACCAGAAGCGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTTACAAGAAGCGCCGC
* * *
38221834 TAATGCTATGGGTTTTAGCGGCGTTTTACTAGAAGCGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTTACAAGAAGCGCCGC
38221875 TAATGCTCT
1 TAATGCTCT
38221884 ATACCAAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
TAATGCTCTGGTTTTTAGCGGCGTTTTACAAGAAGCGCCGC
Found at i:38223272 original size:25 final size:25
Alignment explanation
Indices: 38223238--38223288 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
38223228 AGATAAATGG
38223238 TTCGCATTCATAAATGAATGCGTTT
1 TTCGCATTCATAAATGAATGCGTTT
38223263 TTCGCATTCATAAATGAATGCGTTT
1 TTCGCATTCATAAATGAATGCGTTT
38223288 T
1 T
38223289 CTTGCTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (25 bp):
TTCGCATTCATAAATGAATGCGTTT
Found at i:38227300 original size:11 final size:11
Alignment explanation
Indices: 38227284--38227315 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
38227274 ACCTAAACTA
38227284 AAAAAGAAAAG
1 AAAAAGAAAAG
38227295 AAAAAGAAAAG
1 AAAAAGAAAAG
*
38227306 AGAAAGAAAA
1 AAAAAGAAAA
38227316 CCTAATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:38238396 original size:32 final size:32
Alignment explanation
Indices: 38238355--38238420 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
38238345 CATGGAAGAG
*
38238355 ATACAAGGATCTCTTGAGTCGATGCCCTTACC
1 ATACAAGGATCTCTTGAGACGATGCCCTTACC
38238387 ATACAAGGATCTCTTGAGACGATGCCCTTACC
1 ATACAAGGATCTCTTGAGACGATGCCCTTACC
38238419 AT
1 AT
38238421 GGGTTACCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (32 bp):
ATACAAGGATCTCTTGAGACGATGCCCTTACC
Found at i:38266208 original size:44 final size:44
Alignment explanation
Indices: 38266112--38266615 Score: 301
Period size: 44 Copynumber: 11.7 Consensus size: 44
38266102 TCACCATGGA
* * * * ** *
38266112 AAATCTTGTCTCCCTAAAGTTGCAGTGGATCAGATTGAAG-CCAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAGATTAC
* **
38266156 AAACCTTATCTCCCTGAAGTTGCAGTCTAGCAGGTTAAGATTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGATTAC
* * *
38266200 AAGTCTTATCTTCCTGAAGTTGTAGT-G-G--GG---AG----C
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGATTAC
* *
38266233 AAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGA-TTAC
* * ** * *
38266277 AAGTCTTATCTTCCTGAAGTTAAAGTGGAGCAGACTGAAGA-TAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-GTTAAGATTA-C
* * * * **
38266322 AAATCTTATCTCCCAGAAGTTACAGTGGATCAGATTGAAG-CCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAGATTAC
* * * *
38266366 AAACCTTATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAA-ATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAGATTAC
* * * **
38266410 AAATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTAA-AGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGA-TTAC
* * * *
38266454 AAACCTTATCCCCCTGAAGTTGTAGTGGGGCAGGTTGAAG-TTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAGATTAC
* * * * **
38266498 AATTCTTATCTCTCTGAAGTTGCAGTGGGGCAGATTAA-AGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGA-TTAC
* * * *
38266542 AAACCTTATCCCCCTGAAGTTGCAGTGGGGCAAGTTGAAG-TTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAGATTAC
* * *
38266586 AATTCTTATCTCCCTAAAGTTGTAGTGGAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAG
38266616 TGGATCAAAG
Statistics
Matches: 353, Mismatches: 81, Indels: 52
0.73 0.17 0.11
Matches are distributed among these distances:
33 23 0.07
34 1 0.00
35 1 0.00
37 3 0.01
40 3 0.01
42 1 0.00
43 8 0.02
44 272 0.77
45 40 0.11
46 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGATTAC
Found at i:38266304 original size:77 final size:77
Alignment explanation
Indices: 38266162--38266304 Score: 225
Period size: 77 Copynumber: 1.9 Consensus size: 77
38266152 CCATAAACCT
* * **
38266162 TATCTCCCTGAAGTTGCAGTCTAGCAGGTTAAGATTACAAGTCTTATCTTCCTGAAGTTGTAGTG
1 TATCTCCCTGAAGTTGCAGTCGAGCAGATTAAGATTACAAGTCTTATCTTCCTGAAGTTAAAGTG
38266227 GGGAGCAAATCC
66 GGGAGCAAATCC
*
38266239 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGTTACAAGTCTTATCTTCCTGAAGTTAAAGT
1 TATCTCCCTGAAGTTGCAGTCGAGCAGATTAAGA-TTACAAGTCTTATCTTCCTGAAGTTAAAGT
38266303 GG
65 GG
38266305 AGCAGACTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
76 1 0.02
77 59 0.98
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (77 bp):
TATCTCCCTGAAGTTGCAGTCGAGCAGATTAAGATTACAAGTCTTATCTTCCTGAAGTTAAAGTG
GGGAGCAAATCC
Found at i:38266445 original size:88 final size:88
Alignment explanation
Indices: 38266232--38266657 Score: 449
Period size: 88 Copynumber: 4.8 Consensus size: 88
38266222 TAGTGGGGAG
* ** ** **
38266232 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTTCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCCCCCTGAAGT
** ** *
38266297 TAAAGTGGAGCAGACTGAAGATAG
66 TGCAGTGGAGCAGGTTGAA-ATAA
* * * * * * *
38266321 CAAATCTTATCTCCCAGAAGTTACAGTGGATCAGATTGAAGCCACAAACCTTATCTCCTTAAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCCCCCTGAAGT
38266386 TGCAGTGGAGCAGGTTGAAATAA
66 TGCAGTGGAGCAGGTTGAAATAA
* *
38266409 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGCCACAAACCTTATCCCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCCCCCTGAAGT
* * * *
38266474 TGTAGTGGGGCAGGTTGAAGTTA
66 TGCAGTGGAGCAGGTTGAAATAA
* * *
38266497 CAATTCTTATCTCTCTGAAGTTGCAGTGGGGCAGATTAAAGCCACAAACCTTATCCCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCCCCCTGAAGT
* * * *
38266562 TGCAGTGGGGCAAGTTGAAGTTA
66 TGCAGTGGAGCAGGTTGAAATAA
* * * ** * * * *
38266585 CAATTCTTATCTCCCTAAAGTTGTAGTGGAGTGGATCAAAGCAACAATTCC-TATACCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAA-ACCTTATCCCCCTGAAG
*
38266649 ATGCAGTGG
65 TTGCAGTGG
38266658 GATGGAATGA
Statistics
Matches: 288, Mismatches: 48, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
88 218 0.76
89 70 0.24
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (88 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCCCCCTGAAGT
TGCAGTGGAGCAGGTTGAAATAA
Found at i:38266523 original size:132 final size:131
Alignment explanation
Indices: 38266239--38266615 Score: 380
Period size: 132 Copynumber: 2.8 Consensus size: 131
38266229 GAGCAAATCC
* * * *
38266239 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTTCCTGAAGTTAAAGTG
1 TATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGTAACAAATCTTATCTCCCTGAAGTTGAAGTG
* * * ** *
38266304 GAGCAGACTGAAGATAGCAAATCTTATCTCCCAGAAGTTACAGTGGATCAGATTGAAGCCACAAA
65 GAGAAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACAAA
38266369 CCT
129 CCT
* * *
38266372 TATCTCCTTAAAGTTGCAGTGGAGCAGGTTGAAA-TAACAAATCTTATCTCCCTGAAGTTGTAGT
1 TATCTCC-TGAAGTTGCAGTGGAGCAGATT-AAAGTAACAAATCTTATCTCCCTGAAGTTGAAGT
* ** * * * * ** *
38266436 GGAGAAGATTAAAGCCACAAACCTTATCCCCCTGAAGTTGTAGTGGGGCAGGTTGAAGTTACAAT
64 GGAGAAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACAAA
*
38266501 TCT
129 CCT
* ** * * *
38266504 TATCTCTCTGAAGTTGCAGTGGGGCAGATTAAAGCCACAAACCTTATCCCCCTGAAGTTGCAGTG
1 TATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGTAACAAATCTTATCTCCCTGAAGTTGAAGTG
* * * *
38266569 GGGCAAG-TTGAAGTTACAATTCTTATCTCCCTAAAGTTGTAGTGGAG
65 GAG-AAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGTAGTGGAG
38266616 TGGATCAAAG
Statistics
Matches: 198, Mismatches: 41, Indels: 11
0.79 0.16 0.04
Matches are distributed among these distances:
131 3 0.02
132 126 0.64
133 66 0.33
134 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
TATCTCCTGAAGTTGCAGTGGAGCAGATTAAAGTAACAAATCTTATCTCCCTGAAGTTGAAGTGG
AGAAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACAAACC
T
Found at i:38268211 original size:27 final size:24
Alignment explanation
Indices: 38268175--38268241 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
38268165 CATTATTTAT
*
38268175 TTTAATTTGTTTTAATATATTGATTA
1 TTTAAATTGTTTT-AT-TATTGATTA
* *
38268201 TTTAAAATTGTATTATTATTTATT-
1 TTT-AAATTGTTTTATTATTGATTA
38268225 TTTAAATTGTTTT-TTAT
1 TTTAAATTGTTTTATTAT
38268242 ATATACATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 4 0.11
23 9 0.25
24 3 0.08
25 7 0.19
26 5 0.14
27 8 0.22
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
TTTAAATTGTTTTATTATTGATTA
Found at i:38268241 original size:22 final size:22
Alignment explanation
Indices: 38268167--38268241 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 22
38268157 TTTATGTACA
*
38268167 TTATTTA-TTTTAATTTGTTTT
1 TTATTTATTTTTAAATTGTTTT
* *
38268188 AATATATTGATTATTTAAAATTGTATTA
1 --T-TATTTATT-TTT-AAATTGT-TTT
38268216 TTATTTATTTTTAAATTGTTTT
1 TTATTTATTTTTAAATTGTTTT
38268238 TTAT
1 TTAT
38268242 ATATACATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
22 6 0.14
23 8 0.19
24 8 0.19
25 8 0.19
26 4 0.10
27 6 0.14
28 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
TTATTTATTTTTAAATTGTTTT
Found at i:38273167 original size:28 final size:28
Alignment explanation
Indices: 38273124--38273196 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
38273114 TTCAATTATT
* *
38273124 AAATTCAAATAGTAAAAAAATTAAAAATTG
1 AAATT-AAAT-GTAAAAAAACTAAAAATAG
*
38273154 AAATTAAATGTAAAAAAACTAAAACTAG
1 AAATTAAATGTAAAAAAACTAAAAATAG
*
38273182 AAATAAAAT-TAAAAA
1 AAATTAAATGTAAAAA
38273197 TAAAAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 6 0.15
28 24 0.62
29 4 0.10
30 5 0.13
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.23
Consensus pattern (28 bp):
AAATTAAATGTAAAAAAACTAAAAATAG
Found at i:38273208 original size:6 final size:6
Alignment explanation
Indices: 38273167--38273209 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
38273157 TTAAATGTAA
* * *
38273167 AAAAACT AAAACT AGAAAT AAAATT AAAAAT AAAAAT AAAAAT
1 AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
38273210 TTAATTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:38273934 original size:24 final size:22
Alignment explanation
Indices: 38273884--38273941 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
38273874 AAAGATGGAG
*
38273884 ATAAAAACTAAAACCCAAAAAC
1 ATAAAAACAAAAACCCAAAAAC
* *
38273906 TTAAAAACAAAGAACCCTCAAAAC
1 ATAAAAACAAA-AACCC-AAAAAC
*
38273930 ATAAACACAAAA
1 ATAAAAACAAAA
38273942 TTCTCTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 9 0.31
23 6 0.21
24 14 0.48
ACGTcount: A:0.66, C:0.22, G:0.02, T:0.10
Consensus pattern (22 bp):
ATAAAAACAAAAACCCAAAAAC
Found at i:38274833 original size:30 final size:30
Alignment explanation
Indices: 38274777--38274834 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
38274767 TACGAGCCTT
*
38274777 GGGGCAAAAGTGTAAATATGTGAAAGTTTA
1 GGGGCAAAAGTGTAAATATGTCAAAGTTTA
* *
38274807 GGGGCAAAA-TGATAATTTTGTCAAAGTT
1 GGGGCAAAAGTG-TAAATATGTCAAAGTT
38274835 CGTACTAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGTCAAAGTTTA
Found at i:38280398 original size:27 final size:28
Alignment explanation
Indices: 38280341--38280410 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38280331 AAATTTGTAC
**
38280341 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
38280369 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38280396 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38280411 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38288365 original size:27 final size:28
Alignment explanation
Indices: 38288308--38288377 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
38288298 AAATTTGTAC
**
38288308 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
38288336 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
38288363 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38288378 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:38291668 original size:16 final size:16
Alignment explanation
Indices: 38291647--38291683 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
38291637 GTAGATCAGT
38291647 AAAAGTCGAAATGCCG
1 AAAAGTCGAAATGCCG
*
38291663 AAAAGTCGATATGCCG
1 AAAAGTCGAAATGCCG
38291679 AAAAG
1 AAAAG
38291684 CCTAAAGTTT
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:0.16, G:0.24, T:0.14
Consensus pattern (16 bp):
AAAAGTCGAAATGCCG
Found at i:38291955 original size:29 final size:28
Alignment explanation
Indices: 38291904--38292018 Score: 140
Period size: 28 Copynumber: 4.1 Consensus size: 28
38291894 AGCATGACTG
*
38291904 TAAAAGTGATTGGGCCTAGTGGGCCATA
1 TAAAAGTGATTGGGCCTAATGGGCCATA
*
38291932 TAAAAGTGATTTGGGCCTAATGGGCCACA
1 TAAAAGTGA-TTGGGCCTAATGGGCCATA
* *
38291961 TAAATGTGATTGGGCCAAATGGGCCATA
1 TAAAAGTGATTGGGCCTAATGGGCCATA
* * * * *
38291989 TGAAAGAGATTGAGCTTAGTGGGCCATA
1 TAAAAGTGATTGGGCCTAATGGGCCATA
38292017 TA
1 TA
38292019 CGAGTATGTG
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 48 0.66
29 25 0.34
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (28 bp):
TAAAAGTGATTGGGCCTAATGGGCCATA
Found at i:38299095 original size:18 final size:19
Alignment explanation
Indices: 38299072--38299112 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38299062 ATTTGCTCCC
38299072 TAAGTGTT-AAAACTTTGG
1 TAAGTGTTCAAAACTTTGG
**
38299090 TAAGTGTTCATCACTTTGG
1 TAAGTGTTCAAAACTTTGG
38299109 TAAG
1 TAAG
38299113 GGTTGGCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (19 bp):
TAAGTGTTCAAAACTTTGG
Found at i:38299723 original size:29 final size:28
Alignment explanation
Indices: 38299672--38299786 Score: 149
Period size: 28 Copynumber: 4.1 Consensus size: 28
38299662 AGCATGATTG
*
38299672 TAAAAGTGATTGGGCCTAGTGGGCCATA
1 TAAAAGTGATTGGGCCTAATGGGCCATA
*
38299700 TAAAAGTGATTTGGGCCTAATGGGCCACA
1 TAAAAGTGA-TTGGGCCTAATGGGCCATA
* *
38299729 TAAATGTGATTGGGCCAAATGGGCCATA
1 TAAAAGTGATTGGGCCTAATGGGCCATA
* * * *
38299757 TGAAAGAGATTGAGCCTAGTGGGCCATA
1 TAAAAGTGATTGGGCCTAATGGGCCATA
38299785 TA
1 TA
38299787 CGAGTATGTG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 49 0.66
29 25 0.34
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (28 bp):
TAAAAGTGATTGGGCCTAATGGGCCATA
Found at i:38301640 original size:79 final size:80
Alignment explanation
Indices: 38301497--38301704 Score: 181
Period size: 79 Copynumber: 2.6 Consensus size: 80
38301487 ACCTTCGGAG
* * ** * * * *
38301497 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
38301561 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
38301576 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * * *
38301638 CACGAATGTCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
38301655 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
38301705 TTATAATTTC
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
78 2 0.02
79 64 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:38301691 original size:40 final size:40
Alignment explanation
Indices: 38301558--38301710 Score: 137
Period size: 40 Copynumber: 3.9 Consensus size: 40
38301548 ATGGTAACCC
* * * * * * *
38301558 GCACCAAGGCCTACGGGACTTAACCCGGATATCACGA-TT
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * ** *
38301597 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
38301637 GCACGAATGTCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
38301677 GCACCATTGCCTTCGGGTCTTAACCCGGTTATAA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAA
38301711 TTTCCAGCAT
Statistics
Matches: 91, Mismatches: 22, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 29 0.32
40 62 0.68
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:38303926 original size:30 final size:30
Alignment explanation
Indices: 38303871--38304001 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
38303861 ATAGTGAATC
*
38303871 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
38303900 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
38303930 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
38303958 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
38303988 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38304002 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:38303981 original size:58 final size:58
Alignment explanation
Indices: 38303870--38304001 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
38303860 TATAGTGAAT
* * * * *
38303870 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
38303929 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
38303987 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38304002 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:38310495 original size:30 final size:30
Alignment explanation
Indices: 38310440--38310570 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
38310430 ATAGTGAATC
*
38310440 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
38310469 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
38310499 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
38310527 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
38310557 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38310571 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:38310550 original size:58 final size:58
Alignment explanation
Indices: 38310439--38310570 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
38310429 TATAGTGAAT
* * * * *
38310439 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
38310498 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
38310556 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38310571 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:38319480 original size:79 final size:80
Alignment explanation
Indices: 38319337--38319544 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
38319327 ACCTTCGGAG
* * ** * * * *
38319337 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
38319401 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
38319416 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
38319478 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
38319495 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
38319545 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:38319489 original size:40 final size:40
Alignment explanation
Indices: 38319437--38319544 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
38319427 TATCACGATT
** *
38319437 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
38319477 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
38319517 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
38319545 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:38331624 original size:21 final size:22
Alignment explanation
Indices: 38331600--38331643 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38331590 CGTTGTATTT
*
38331600 AACAAATT-AAAAGTAAAATTA
1 AACAAATTCAAAACTAAAATTA
*
38331621 AACAAATTCATAACTAAAATTA
1 AACAAATTCAAAACTAAAATTA
38331643 A
1 A
38331644 TTTCTTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (22 bp):
AACAAATTCAAAACTAAAATTA
Found at i:38339507 original size:44 final size:44
Alignment explanation
Indices: 38339457--38339543 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
38339447 GTAACAATAG
*
38339457 CAGTACGACACACATGGTGCCTCATCGACTCAAAGTCGAAGTAA
1 CAGTACGACACACATAGTGCCTCATCGACTCAAAGTCGAAGTAA
** * *
38339501 CAGTACGACACTTATAGTGCCTCATCGACTTAAGGTCGAAGTA
1 CAGTACGACACACATAGTGCCTCATCGACTCAAAGTCGAAGTA
38339544 TCCCTGAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (44 bp):
CAGTACGACACACATAGTGCCTCATCGACTCAAAGTCGAAGTAA
Found at i:38347849 original size:16 final size:15
Alignment explanation
Indices: 38347823--38347872 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
38347813 AACCCTAATT
38347823 TTTCCTTTTTCTTTC
1 TTTCCTTTTTCTTTC
38347838 TTTCCTTTTTTCTTTC
1 TTTCC-TTTTTCTTTC
*
38347854 TCT-CTTTTTCGTTTC
1 TTTCCTTTTTC-TTTC
38347869 TTTC
1 TTTC
38347873 TCTGTTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 6 0.20
15 12 0.40
16 12 0.40
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTCCTTTTTCTTTC
Found at i:38347852 original size:22 final size:24
Alignment explanation
Indices: 38347827--38347901 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 24
38347817 CTAATTTTTC
38347827 CTTTTTCT-TTCTTTCCTTT-TTT
1 CTTTTTCTATTCTTTCCTTTATTT
* * * *
38347849 CTTTCTCTCTT-TTTCGTTTCTTT
1 CTTTTTCTATTCTTTCCTTTATTT
* *
38347872 CTCTGTTCTAATTCTTTACTTTATTT
1 CT-TTTTCT-ATTCTTTCCTTTATTT
38347898 CTTT
1 CTTT
38347902 AATTCTTTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
22 14 0.36
23 7 0.18
24 4 0.10
25 3 0.08
26 11 0.28
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (24 bp):
CTTTTTCTATTCTTTCCTTTATTT
Found at i:38349558 original size:14 final size:15
Alignment explanation
Indices: 38349539--38349568 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38349529 ACTTATTTTG
38349539 GAAATTA-AAAATTT
1 GAAATTATAAAATTT
38349553 GAAATTATAAAATTT
1 GAAATTATAAAATTT
38349568 G
1 G
38349569 CTTTATACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
GAAATTATAAAATTT
Found at i:38349800 original size:30 final size:28
Alignment explanation
Indices: 38349745--38349807 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
38349735 TGTTTAACAT
*
38349745 AAAAATCAATTTTTTTAAAAAAATTAAC
1 AAAAATCAATTTATTTAAAAAAATTAAC
* *
38349773 AAAAATCATATTTCATTTATAATAATTAAC
1 AAAAATCA-ATTT-ATTTAAAAAAATTAAC
*
38349803 TAAAA
1 AAAAA
38349808 CTTAATAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.28
29 4 0.14
30 17 0.59
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAAATCAATTTATTTAAAAAAATTAAC
Found at i:38350094 original size:52 final size:52
Alignment explanation
Indices: 38350036--38350139 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
38350026 TAGAAACATG
*
38350036 TTTAAATGCATATATCAGCGTGAGCATGGTATAATCAAATAGAATAATCCTA
1 TTTAAATGCATATATCAACGTGAGCATGGTATAATCAAATAGAATAATCCTA
38350088 TTTAAATGCATATATCAACGTGAGCATGGTATAATCAAATAGAATAATCCTA
1 TTTAAATGCATATATCAACGTGAGCATGGTATAATCAAATAGAATAATCCTA
38350140 CCCCCATTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (52 bp):
TTTAAATGCATATATCAACGTGAGCATGGTATAATCAAATAGAATAATCCTA
Found at i:38350782 original size:22 final size:22
Alignment explanation
Indices: 38350757--38350800 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38350747 TAGTCATATA
38350757 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
38350779 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
38350801 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:38357693 original size:44 final size:44
Alignment explanation
Indices: 38357621--38357708 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
38357611 AATAGATAGC
*
38357621 TTGAAAATGCTTGTCTCTTCGCCATCCCAAAACTGCACCTACTG
1 TTGAAAATGCTTATCTCTTCGCCATCCCAAAACTGCACCTACTG
* *
38357665 TTGAAAATGCTTATCTCTTTGCCGTCCCAAAACTGCACCTACTG
1 TTGAAAATGCTTATCTCTTCGCCATCCCAAAACTGCACCTACTG
38357709 CAAAATCACT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (44 bp):
TTGAAAATGCTTATCTCTTCGCCATCCCAAAACTGCACCTACTG
Found at i:38358842 original size:29 final size:29
Alignment explanation
Indices: 38358810--38358882 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
38358800 TGAAAAGTAT
* * *
38358810 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
38358839 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
38358868 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
38358883 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:38365988 original size:29 final size:29
Alignment explanation
Indices: 38365956--38366028 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
38365946 TGAAAAGTAT
* * *
38365956 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
38365985 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
38366014 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
38366029 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:38378720 original size:15 final size:13
Alignment explanation
Indices: 38378691--38378717 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38378681 GCTCAGCAGA
38378691 GACACGCCCGTGT
1 GACACGCCCGTGT
38378704 GACACGCCCGTGT
1 GACACGCCCGTGT
38378717 G
1 G
38378718 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:38380603 original size:3 final size:3
Alignment explanation
Indices: 38380585--38380618 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
38380575 AGATAAAAAT
* *
38380585 ATA ACA ATA GTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
38380619 AATGTGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:38380856 original size:8 final size:7
Alignment explanation
Indices: 38380843--38380896 Score: 57
Period size: 6 Copynumber: 8.4 Consensus size: 7
38380833 AAGAGTAATA
38380843 AATAGATT
1 AATAGA-T
38380851 AATAGAT
1 AATAGAT
38380858 AATA-AT
1 AATAGAT
38380864 AATA-AT
1 AATAGAT
38380870 AATA-AT
1 AATAGAT
38380876 AATA-AT
1 AATAGAT
38380882 AATA-AT
1 AATAGAT
38380888 AAT-GAT
1 AATAGAT
38380894 AAT
1 AAT
38380897 GGCACAAACA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 34 0.76
7 5 0.11
8 6 0.13
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (7 bp):
AATAGAT
Found at i:38380864 original size:3 final size:3
Alignment explanation
Indices: 38380850--38380896 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
38380840 ATAAATAGAT
*
38380850 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38380896 T
1 T
38380897 GGCACAAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Done.