Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 94 of 444
Found at i:22657631 original size:24 final size:24
Alignment explanation
Indices: 22657600--22657655 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
22657590 CTCTCCCTCC
22657600 CACGTTCTCTCGTTGTTCCTAGTT
1 CACGTTCTCTCGTTGTTCCTAGTT
22657624 CACGTTCTCTCGTTGTTCCTAGTT
1 CACGTTCTCTCGTTGTTCCTAGTT
22657648 CACGTTCT
1 CACGTTCT
22657656 TTTTCCTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.09, C:0.30, G:0.16, T:0.45
Consensus pattern (24 bp):
CACGTTCTCTCGTTGTTCCTAGTT
Found at i:22660325 original size:19 final size:19
Alignment explanation
Indices: 22660279--22660325 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
22660269 GTTCGACATT
* *
22660279 ATAATTTATAAAGTAAATA
1 ATAATTCATAAAATAAATA
22660298 A-AATATCATAAAATAAATA
1 ATAAT-TCATAAAATAAATA
22660317 ATAATTCAT
1 ATAATTCAT
22660326 CACATAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAATTCATAAAATAAATA
Found at i:22661290 original size:15 final size:17
Alignment explanation
Indices: 22661265--22661296 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22661255 TGTCTGTGCA
22661265 CCATCGGTGGC-CGGTG
1 CCATCGGTGGCACGGTG
22661281 CCAT-GGTGGCACGGTG
1 CCATCGGTGGCACGGTG
22661297 GGCAGAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (17 bp):
CCATCGGTGGCACGGTG
Found at i:22662103 original size:2 final size:2
Alignment explanation
Indices: 22662096--22662126 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22662086 TCAAGCTATT
22662096 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
22662127 TCTAAATGTT
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:22662322 original size:18 final size:19
Alignment explanation
Indices: 22662290--22662330 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
22662280 TTTTCATGTA
*
22662290 TTATCTATTTAAAATTGTT
1 TTATCTATTTAAAATTATT
*
22662309 TTAT-TATTTTAAATTATT
1 TTATCTATTTAAAATTATT
22662327 TTAT
1 TTAT
22662331 ATACCTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATCTATTTAAAATTATT
Found at i:22673248 original size:42 final size:41
Alignment explanation
Indices: 22673189--22673297 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 41
22673179 AAAAAGAAAA
* *
22673189 AAAAGATCAAGACGAAAACCCAGAAAGGGAGTCTTGATAAAC
1 AAAAGATCAAGATGAAAACCC-GAAAGGGAGTCCTGATAAAC
*
22673231 AAAAGATCAAGATGAAAACCCGGAAAGGGTGTCCTGATAAAC
1 AAAAGATCAAGATGAAAACCC-GAAAGGGAGTCCTGATAAAC
* * *
22673273 AAAAGATTAGGATAAAAACCCGAAA
1 AAAAGATCAAGATGAAAACCCGAAA
22673298 AGGCATCTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
41 4 0.07
42 56 0.93
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.13
Consensus pattern (41 bp):
AAAAGATCAAGATGAAAACCCGAAAGGGAGTCCTGATAAAC
Found at i:22674197 original size:89 final size:88
Alignment explanation
Indices: 22674085--22674408 Score: 443
Period size: 89 Copynumber: 3.6 Consensus size: 88
22674075 TTTATTTCAA
* * * * * *
22674085 TTTTTCAATGTATGTTTCTAAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCTTTAGGTCAC
1 TTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTAAC
22674150 ACGCTGATGTATTTTCAATTTTTG
66 ACGCTGA-GTATTTTCAATTTTTG
* * * *
22674174 TTTTTCAATTAATGTCTCAAAAAAATCAACTAATATTACGAGAGGTGAGTTGAGCCTCAGGTAAC
1 TTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTAAC
22674239 ACGCTGAGATATTTTCAATTTTTG
66 ACGCTGAG-TATTTTCAATTTTTG
*
22674263 TTTTTCAATTTATGTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGT
1 TTTTTCAATTTATGTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
* *
22674328 AACACGCCGAAGTATTTTCAATTTCTG
63 AACACGCTG-AGTATTTTCAATTTTTG
* *
22674355 TTTTTTAATTTAT-TTTCCAAAAAAATCAACTCATATTGCGTGAGGTGAGTTGAG
1 TTTTTCAATTTATGTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
22674409 TATCAGGTCA
Statistics
Matches: 210, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
88 1 0.00
89 128 0.61
91 3 0.01
92 76 0.36
93 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTAAC
ACGCTGAGTATTTTCAATTTTTG
Found at i:22674269 original size:14 final size:14
Alignment explanation
Indices: 22674250--22674279 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22674240 CGCTGAGATA
*
22674250 TTTTCAATTTTTGT
1 TTTTCAATTTATGT
22674264 TTTTCAATTTATGT
1 TTTTCAATTTATGT
22674278 TT
1 TT
22674280 CAAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:22676239 original size:2 final size:2
Alignment explanation
Indices: 22676232--22676268 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22676222 ATTCTCAAGC
22676232 TA TA TA 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 TA TA TA T
22676269 TTTCTAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22676466 original size:18 final size:19
Alignment explanation
Indices: 22676434--22676474 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
22676424 TTTTCATGCA
22676434 TTATCTATTTAAAATTATT
1 TTATCTATTTAAAATTATT
*
22676453 TTAT-TATTTTAAATTATT
1 TTATCTATTTAAAATTATT
22676471 TTAT
1 TTAT
22676475 ATACCTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATCTATTTAAAATTATT
Found at i:22676603 original size:14 final size:13
Alignment explanation
Indices: 22676577--22676606 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
22676567 TATGTATATG
22676577 TATTTTAATATTA
1 TATTTTAATATTA
22676590 TATTTTATATATTA
1 TATTTTA-ATATTA
22676604 TAT
1 TAT
22676607 ATATAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTTAATATTA
Found at i:22678156 original size:20 final size:22
Alignment explanation
Indices: 22678114--22678158 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
22678104 ACTTATGTTA
*
22678114 TATATATATAGTTTATAGATTT
1 TATATATATAGTATATAGATTT
*
22678136 TATATATATA-TATA-AGGTTT
1 TATATATATAGTATATAGATTT
22678156 TAT
1 TAT
22678159 CCCCTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATATATATAGTATATAGATTT
Found at i:22678605 original size:21 final size:21
Alignment explanation
Indices: 22678581--22678621 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22678571 AAAGCTACCG
*
22678581 CCACCACCAACACCTCCTCCA
1 CCACCACCAACACCACCTCCA
* *
22678602 CCACCGCCAACTCCACCTCC
1 CCACCACCAACACCACCTCC
22678622 TATACCTCCG
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:0.24, C:0.63, G:0.02, T:0.10
Consensus pattern (21 bp):
CCACCACCAACACCACCTCCA
Found at i:22678653 original size:12 final size:12
Alignment explanation
Indices: 22678638--22678690 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
22678628 TCCGCCTTTT
*
22678638 CCACCGCCAAAA
1 CCACCGCCAACA
*
22678650 CCACCGCCAGCA
1 CCACCGCCAACA
*
22678662 CCACCTCCAACA
1 CCACCGCCAACA
* *
22678674 CCACCACCAGCA
1 CCACCGCCAACA
22678686 CCACC
1 CCACC
22678691 TCCAGCTCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.32, C:0.58, G:0.08, T:0.02
Consensus pattern (12 bp):
CCACCGCCAACA
Found at i:22678695 original size:12 final size:12
Alignment explanation
Indices: 22678649--22678705 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
22678639 CACCGCCAAA
*
22678649 ACCACCGCCAGC
1 ACCACCTCCAGC
*
22678661 ACCACCTCCAAC
1 ACCACCTCCAGC
*
22678673 ACCACCACCAGC
1 ACCACCTCCAGC
22678685 ACCACCTCCAGC
1 ACCACCTCCAGC
*
22678697 TCCACCTCC
1 ACCACCTCC
22678706 TATCCCTCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.26, C:0.60, G:0.07, T:0.07
Consensus pattern (12 bp):
ACCACCTCCAGC
Found at i:22678701 original size:84 final size:84
Alignment explanation
Indices: 22678599--22678789 Score: 274
Period size: 84 Copynumber: 2.3 Consensus size: 84
22678589 AACACCTCCT
* * *
22678599 CCACCACCGCCAACTCCACCTCCTATACCTCCGCCTTTTCCACCGCCAAAACCACCGCCAGCACC
1 CCACCACCTCCAACTCCACCTCCTATACCTCCACCTTTTCCACCGCCAAAACCACCACCAGCACC
22678664 ACCTCCAACACCACCACCA
66 ACCTCCAACACCACCACCA
* * * * *
22678683 GCACCACCTCCAGCTCCACCTCCTATCCCTCCACCTTTTCCACCTCCAAAGCCACCACCAGCACC
1 CCACCACCTCCAACTCCACCTCCTATACCTCCACCTTTTCCACCGCCAAAACCACCACCAGCACC
* *
22678748 CCCTCCAACGCCACCACCA
66 ACCTCCAACACCACCACCA
* *
22678767 CCACCAACTCCACCTCCACCTCC
1 CCACCACCTCCAACTCCACCTCC
22678790 AACACCACCT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 94 1.00
ACGTcount: A:0.24, C:0.58, G:0.05, T:0.13
Consensus pattern (84 bp):
CCACCACCTCCAACTCCACCTCCTATACCTCCACCTTTTCCACCGCCAAAACCACCACCAGCACC
ACCTCCAACACCACCACCA
Found at i:22678702 original size:24 final size:24
Alignment explanation
Indices: 22678638--22678694 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
22678628 TCCGCCTTTT
* * *
22678638 CCACCGCCAAAACCACCGCCAGCA
1 CCACCTCCAACACCACCACCAGCA
22678662 CCACCTCCAACACCACCACCAGCA
1 CCACCTCCAACACCACCACCAGCA
22678686 CCACCTCCA
1 CCACCTCCA
22678695 GCTCCACCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.58, G:0.07, T:0.04
Consensus pattern (24 bp):
CCACCTCCAACACCACCACCAGCA
Found at i:22678773 original size:18 final size:18
Alignment explanation
Indices: 22678738--22678798 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
22678728 CCAAAGCCAC
* * *
22678738 CACCAGCACCCCCTCCAA
1 CACCACCACCACCACCAA
*
22678756 CGCCACCACCACCACCAA
1 CACCACCACCACCACCAA
* * *
22678774 CTCCACCTCCACCTCCAA
1 CACCACCACCACCACCAA
22678792 CACCACC
1 CACCACC
22678799 TCCTATCCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.28, C:0.62, G:0.03, T:0.07
Consensus pattern (18 bp):
CACCACCACCACCACCAA
Found at i:22678777 original size:24 final size:24
Alignment explanation
Indices: 22678722--22678801 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
22678712 TCCACCTTTT
* *
22678722 CCACCTCCAAAGCCACCACCAGCA
1 CCACCTCCAACGCCACCACCAACA
* *
22678746 CCCCCTCCAACGCCACCACCACCA
1 CCACCTCCAACGCCACCACCAACA
* * * *
22678770 CCAACTCCACCTCCACCTCCAACA
1 CCACCTCCAACGCCACCACCAACA
22678794 CCACCTCC
1 CCACCTCC
22678802 TATCCCTCCA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.28, C:0.61, G:0.04, T:0.07
Consensus pattern (24 bp):
CCACCTCCAACGCCACCACCAACA
Found at i:22678799 original size:18 final size:18
Alignment explanation
Indices: 22678749--22678801 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
22678739 ACCAGCACCC
* *
22678749 CCTCCAACGCCACCACCA
1 CCTCCAACACCACCTCCA
* *
22678767 CCACCAACTCCACCTCCA
1 CCTCCAACACCACCTCCA
22678785 CCTCCAACACCACCTCC
1 CCTCCAACACCACCTCC
22678802 TATCCCTCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.26, C:0.62, G:0.02, T:0.09
Consensus pattern (18 bp):
CCTCCAACACCACCTCCA
Found at i:22678821 original size:36 final size:36
Alignment explanation
Indices: 22678781--22679127 Score: 194
Period size: 36 Copynumber: 9.3 Consensus size: 36
22678771 CAACTCCACC
*
22678781 TCCACCTCCAACACCACCTCCTATCCCTCCACCTTT
1 TCCACCACCAACACCACCTCCTATCCCTCCACCTTT
* * * * * *
22678817 TCCACCTCCAAAACCACCACCAGCACTGCCTCCA-GTTCT
1 TCCACCACCAACACCACCTCC--TA-TCCCTCCACCTT-T
* * ** *
22678856 ACCACCGGCACCACCACCTGCTCCTATGCCTCCACCTTT
1 TCCA-C--CACCAACACCACCTCCTATCCCTCCACCTTT
* *
22678895 TCCACCACCAGCTCCACCTCCTATCCCTCCACCTTT
1 TCCACCACCAACACCACCTCCTATCCCTCCACCTTT
* * * * * * * ***
22678931 TCCACCTCCAAAACCAACACC-AGCACCGCCTCCAGC
1 TCCACCACCAACACCACCTCCTATC-CCTCCACCTTT
* * *
22678967 GCCACCACCGGCACCACCACCTGCTCCTATGCCTCCACCTTT
1 TCCACCA-C--CAACACCA-C--CTCCTATCCCTCCACCTTT
* * * ***
22679009 TCCACCACCAGCTCCACCTCCTATACCTCCACCAGC
1 TCCACCACCAACACCACCTCCTATCCCTCCACCTTT
* * * *
22679045 ACCACCACCAGCTCCACCTCCTATGCCTCCACCTTT
1 TCCACCACCAACACCACCTCCTATCCCTCCACCTTT
* *
22679081 TCCACCACCAGCTCCACCTCCTATCCCTCCACCTTT
1 TCCACCACCAACACCACCTCCTATCCCTCCACCTTT
*
22679117 TCCACCTCCAA
1 TCCACCACCAA
22679128 GACCGCCACC
Statistics
Matches: 234, Mismatches: 61, Indels: 32
0.72 0.19 0.10
Matches are distributed among these distances:
35 2 0.01
36 160 0.68
37 1 0.00
38 5 0.02
39 35 0.15
40 4 0.02
41 1 0.00
42 25 0.11
43 1 0.00
ACGTcount: A:0.21, C:0.53, G:0.06, T:0.20
Consensus pattern (36 bp):
TCCACCACCAACACCACCTCCTATCCCTCCACCTTT
Found at i:22678849 original size:48 final size:48
Alignment explanation
Indices: 22678685--22678842 Score: 156
Period size: 48 Copynumber: 3.3 Consensus size: 48
22678675 CACCACCAGC
* *
22678685 ACCACCTCCAGCTCCACCTCCTATCCCTCCACCTTTTCCACCTCCAAA
1 ACCACCACCAGCACCACCTCCTATCCCTCCACCTTTTCCACCTCCAAA
* * * * **** * **
22678733 GCCACCACCAGCACCCCCTCC-AACGCCACCACCACCACCAACTCCACC
1 ACCACCACCAGCACCACCTCCTATC-CCTCCACCTTTTCCACCTCCAAA
* * *
22678781 TCCACCTCCAACACCACCTCCTATCCCTCCACCTTTTCCACCTCCAAA
1 ACCACCACCAGCACCACCTCCTATCCCTCCACCTTTTCCACCTCCAAA
22678829 ACCACCACCAGCAC
1 ACCACCACCAGCAC
22678843 TGCCTCCAGT
Statistics
Matches: 79, Mismatches: 29, Indels: 4
0.71 0.26 0.04
Matches are distributed among these distances:
47 2 0.03
48 75 0.95
49 2 0.03
ACGTcount: A:0.25, C:0.57, G:0.03, T:0.15
Consensus pattern (48 bp):
ACCACCACCAGCACCACCTCCTATCCCTCCACCTTTTCCACCTCCAAA
Found at i:22679050 original size:114 final size:114
Alignment explanation
Indices: 22678794--22679041 Score: 442
Period size: 114 Copynumber: 2.2 Consensus size: 114
22678784 ACCTCCAACA
* * ** *
22678794 CCACCTCCTATCCCTCCACCTTTTCCACCTCCAAAACCACCACCAGCACTGCCTCCAGTTCTACC
1 CCACCTCCTATCCCTCCACCTTTTCCACCTCCAAAACCAACACCAGCACCGCCTCCAGCGCCACC
22678859 ACCGGCACCACCACCTGCTCCTATGCCTCCACCTTTTCCACCACCAGCT
66 ACCGGCACCACCACCTGCTCCTATGCCTCCACCTTTTCCACCACCAGCT
22678908 CCACCTCCTATCCCTCCACCTTTTCCACCTCCAAAACCAACACCAGCACCGCCTCCAGCGCCACC
1 CCACCTCCTATCCCTCCACCTTTTCCACCTCCAAAACCAACACCAGCACCGCCTCCAGCGCCACC
22678973 ACCGGCACCACCACCTGCTCCTATGCCTCCACCTTTTCCACCACCAGCT
66 ACCGGCACCACCACCTGCTCCTATGCCTCCACCTTTTCCACCACCAGCT
*
22679022 CCACCTCCTATACCTCCACC
1 CCACCTCCTATCCCTCCACC
22679042 AGCACCACCA
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 128 1.00
ACGTcount: A:0.21, C:0.53, G:0.07, T:0.19
Consensus pattern (114 bp):
CCACCTCCTATCCCTCCACCTTTTCCACCTCCAAAACCAACACCAGCACCGCCTCCAGCGCCACC
ACCGGCACCACCACCTGCTCCTATGCCTCCACCTTTTCCACCACCAGCT
Found at i:22679091 original size:72 final size:72
Alignment explanation
Indices: 22678896--22679113 Score: 240
Period size: 72 Copynumber: 2.9 Consensus size: 72
22678886 TCCACCTTTT
* * *** * * * *
22678896 CCACCACCAGCTCCACCTCCTATCCCTCCACCTTTTCCACCTCCAAAACCAACACC-AGCACCGC
1 CCACCACCAGCTCCACCTCCTATGCCTCCACCTTTTCCACCACCAGCTCCACCTCCTA-TACCTC
* *
22678960 CTCCAGCG
65 CACCAGCA
* *
22678968 CCACCACCGGCACCACCACCTGCTCCTATGCCTCCACCTTTTCCACCACCAGCTCCACCTCCTAT
1 CCACCA-C--CAGCTCCA-C--CTCCTATGCCTCCACCTTTTCCACCACCAGCTCCACCTCCTAT
22679033 ACCTCCACCAGCA
60 ACCTCCACCAGCA
*
22679046 CCACCACCAGCTCCACCTCCTATGCCTCCACCTTTTCCACCACCAGCTCCACCTCCTATCCCTCC
1 CCACCACCAGCTCCACCTCCTATGCCTCCACCTTTTCCACCACCAGCTCCACCTCCTATACCTCC
22679111 ACC
66 ACC
22679114 TTTTCCACCT
Statistics
Matches: 123, Mismatches: 16, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
72 57 0.46
73 1 0.01
74 1 0.01
75 12 0.10
76 1 0.01
77 1 0.01
78 49 0.40
79 1 0.01
ACGTcount: A:0.21, C:0.55, G:0.06, T:0.18
Consensus pattern (72 bp):
CCACCACCAGCTCCACCTCCTATGCCTCCACCTTTTCCACCACCAGCTCCACCTCCTATACCTCC
ACCAGCA
Found at i:22679136 original size:24 final size:24
Alignment explanation
Indices: 22679118--22679164 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
22679108 TCCACCTTTT
*
22679118 CCACCTCCAAGACCGCCACCACCG
1 CCACCTCCAAGACCACCACCACCG
22679142 CCACCTCCAAGACCACCACCACC
1 CCACCTCCAAGACCACCACCACC
22679165 ACCTGCGCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.60, G:0.09, T:0.04
Consensus pattern (24 bp):
CCACCTCCAAGACCACCACCACCG
Found at i:22683665 original size:19 final size:19
Alignment explanation
Indices: 22683622--22683665 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
22683612 TTCACGTAAA
22683622 TAAAAAAAGTTTTACTCCCT
1 TAAAAAAAGTTTTACT-CCT
*
22683642 AAAAAAAAGTTTTGACT-CT
1 TAAAAAAAGTTTT-ACTCCT
22683661 TAAAA
1 TAAAA
22683666 TACAACAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 12 0.57
21 3 0.14
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAAAAAGTTTTACTCCT
Found at i:22685744 original size:5 final size:5
Alignment explanation
Indices: 22685727--22685780 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
22685717 TTCATACCAG
* *
22685727 ATCAT ATCTT ATCAT ATCA- AGTCAT ATCAT ATCAA ATCAT -TGCAT ATCAT
1 ATCAT ATCAT ATCAT ATCAT A-TCAT ATCAT ATCAT ATCAT AT-CAT ATCAT
22685777 ATCA
1 ATCA
22685781 AATCCTACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 2 0.05
5 37 0.90
6 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (5 bp):
ATCAT
Found at i:22693391 original size:13 final size:13
Alignment explanation
Indices: 22693373--22693400 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22693363 AAACGAACTT
22693373 CAAAATAATTATG
1 CAAAATAATTATG
22693386 CAAAATAATTATG
1 CAAAATAATTATG
22693399 CA
1 CA
22693401 GATGAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (13 bp):
CAAAATAATTATG
Found at i:22695299 original size:137 final size:137
Alignment explanation
Indices: 22694867--22695404 Score: 781
Period size: 137 Copynumber: 3.9 Consensus size: 137
22694857 CTGTGATCCA
* ** ** * * * * *
22694867 CTCCACTGTAACTTCAGGGAGATGGGGTTTGTTTTGATCTGCTCTATTGCGACTTAAGAGATATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
* *
22694932 AGATCTGTGATTTATAGCTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTT
66 AGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
22694997 TAGTCTG
131 TAGTCTG
* * * ** * *
22695004 TTCCACTGCAACTTTAGGGAGATAGGGTTTGTTTTGATCTGCCCTACTGCAACTTCAGAGAGATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
* *
22695069 AGATCTGTGATTTATAGCTTCAATCTATTCCAC-GCAACTTCAGGGAAGTAAGATTTGCTATCTT
66 AGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
22695133 TAGTCTG
131 TAGTCTG
* * * * *
22695140 CTCCACTGCAACTTCAGAGAGATAAGACTTGTGTTGATTTGTTCTACTGCAATTTTAGAGAGATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
* * *
22695205 AGATCTGTGATTTATAACTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCCT
66 AGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
22695270 TAGTCTG
131 TAGTCTG
*
22695277 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGTAACTTCAGAGAGATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
* *
22695342 AGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTATC
66 AGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
22695405 AGGGAAATAA
Statistics
Matches: 360, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
136 119 0.33
137 241 0.67
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (137 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
AGATCTGTGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
TAGTCTG
Found at i:22695408 original size:21 final size:21
Alignment explanation
Indices: 22695382--22695425 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
22695372 CACTGTAACT
22695382 TCAGGGAAATAAGATTTGCTA
1 TCAGGGAAATAAGATTTGCTA
22695403 TCAGGGAAATAAGATTTGCTA
1 TCAGGGAAATAAGATTTGCTA
22695424 TC
1 TC
22695426 CTTAGTCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (21 bp):
TCAGGGAAATAAGATTTGCTA
Found at i:22695471 original size:45 final size:45
Alignment explanation
Indices: 22695403--22695506 Score: 190
Period size: 45 Copynumber: 2.3 Consensus size: 45
22695393 AGATTTGCTA
22695403 TCAGGGAAATAAGATTTGCTATCCTTAGTCTGCTCCACTGCAACT
1 TCAGGGAAATAAGATTTGCTATCCTTAGTCTGCTCCACTGCAACT
*
22695448 TCAGGGAAATAAGATTTGTTATCCTTAGTCTGCTCCACTGCAACT
1 TCAGGGAAATAAGATTTGCTATCCTTAGTCTGCTCCACTGCAACT
*
22695493 TCAGGGAGATAAGA
1 TCAGGGAAATAAGA
22695507 CTTATGTTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (45 bp):
TCAGGGAAATAAGATTTGCTATCCTTAGTCTGCTCCACTGCAACT
Found at i:22697419 original size:40 final size:39
Alignment explanation
Indices: 22697227--22697434 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
22697217 ATTGAATGAC
* * ** * *
22697227 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * *
22697267 ATATCTGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
22697307 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
22697347 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
22697387 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
22697427 ATATCCGG
1 ATATCCGG
22697435 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
39 4 0.03
40 132 0.94
41 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:22698910 original size:45 final size:45
Alignment explanation
Indices: 22698836--22699048 Score: 193
Period size: 45 Copynumber: 4.7 Consensus size: 45
22698826 ATAGCTTCAA
*
22698836 TCTGTTCCACTGCAACTTCAGGG-GAATAAGATTTGCTATCCTTAG
1 TCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTTGCTATCCTTAG
* * * *
22698881 TCTGCTCCACTGCATCTTCAGGGAGATAAGACTTG-TGT--TGA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCCTTAG
* * * * * * *
22698922 TCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-T-G-CTAT-CCTT-AG
* * *
22698973 TCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGCTATCCTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCCTTAG
22699018 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
22699049 CTTGTAATTT
Statistics
Matches: 133, Mismatches: 24, Indels: 22
0.74 0.13 0.12
Matches are distributed among these distances:
41 26 0.20
42 3 0.02
43 1 0.01
44 3 0.02
45 59 0.44
46 6 0.05
47 3 0.02
48 1 0.01
49 2 0.02
50 2 0.02
51 27 0.20
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCCTTAG
Found at i:22699047 original size:137 final size:137
Alignment explanation
Indices: 22698801--22699053 Score: 479
Period size: 137 Copynumber: 1.8 Consensus size: 137
22698791 GGGTGTTACA
* *
22698801 TTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGGAATAAG
1 TTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAG
*
22698866 ATTTGCTATCCTTAGTCTGCTCCACTGCATCTTCAGGGAGATAAGACTTGTGTTGATCTACTCTA
66 ATTTGCTATCCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTA
22698931 CTGCAAC
131 CTGCAAC
22698938 TTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAG
1 TTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAG
22699003 ATTTGCTATCCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
66 ATTTGCTATCCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
22699054 AATTTAGCCT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 113 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (137 bp):
TTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAG
ATTTGCTATCCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTA
CTGCAAC
Found at i:22711721 original size:13 final size:13
Alignment explanation
Indices: 22711703--22711730 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22711693 AAACGAACTT
22711703 CAAAATAATTATG
1 CAAAATAATTATG
22711716 CAAAATAATTATG
1 CAAAATAATTATG
22711729 CA
1 CA
22711731 GATAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (13 bp):
CAAAATAATTATG
Found at i:22724051 original size:13 final size:13
Alignment explanation
Indices: 22724033--22724059 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22724023 GGAGTAATCG
22724033 CACACGGGCGTGT
1 CACACGGGCGTGT
22724046 CACACGGGCGTGT
1 CACACGGGCGTGT
22724059 C
1 C
22724060 CCTGCTGAGC
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:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:22724318 original size:16 final size:16
Alignment explanation
Indices: 22724279--22724312 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22724269 GTTTTGGGTT
22724279 TTCTTTATGTTTTGTA
1 TTCTTTATGTTTTGTA
22724295 TTCTTTATGTTTTGTA
1 TTCTTTATGTTTTGTA
22724311 TT
1 TT
22724313 TATTATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.71
Consensus pattern (16 bp):
TTCTTTATGTTTTGTA
Found at i:22725825 original size:20 final size:20
Alignment explanation
Indices: 22725800--22725838 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22725790 TTTCATACCA
22725800 AATCATATC-TTATCAAATCG
1 AATCATATCATT-TCAAATCG
22725820 AATCATATCATTTCAAATC
1 AATCATATCATTTCAAATC
22725839 ATAGTATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (20 bp):
AATCATATCATTTCAAATCG
Found at i:22728141 original size:41 final size:41
Alignment explanation
Indices: 22727997--22728146 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
22727987 CGCTGACTCA
* * *
22727997 AAAAGCCCTTCGAGACCAAGCTTGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
22728038 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
22728078 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
22728119 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
22728147 TAAACCCCGA
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 31 0.34
41 59 0.66
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:22734305 original size:15 final size:15
Alignment explanation
Indices: 22734285--22734341 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
22734275 CGATGAATTT
22734285 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
22734300 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
22734315 ATTGAATTTATATTG
1 ATTGAATTTATATTG
22734330 ATTGAA-TTATAT
1 ATTGAATTTATAT
22734342 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:22734785 original size:21 final size:21
Alignment explanation
Indices: 22734738--22734826 Score: 135
Period size: 21 Copynumber: 4.3 Consensus size: 21
22734728 GTCGTATTTT
22734738 AGGCACCTCGTGTGTC-TATC
1 AGGCACCTCGTGTGTCGTATC
**
22734758 ATTCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
22734779 AGGCACCTCGTGTGTCGTATC
1 AGGCACCTCGTGTGTCGTATC
* *
22734800 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCGTGTGTCGTATC
22734821 AGGCAC
1 AGGCAC
22734827 TTTATGTGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
20 14 0.23
21 48 0.77
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.31
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTATC
Found at i:22736646 original size:2 final size:2
Alignment explanation
Indices: 22736639--22736672 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22736629 TTTGAAATAA
22736639 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
22736673 CAGTCAGAGA
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:22740737 original size:15 final size:15
Alignment explanation
Indices: 22740717--22740773 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
22740707 CGATGAATTT
22740717 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
22740732 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
22740747 ATTGAATTTATATTG
1 ATTGAATTTATATTG
22740762 ATTGAA-TTATAT
1 ATTGAATTTATAT
22740774 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:22741216 original size:21 final size:21
Alignment explanation
Indices: 22741159--22741257 Score: 137
Period size: 21 Copynumber: 4.7 Consensus size: 21
22741149 GCACTTTATC
*
22741159 TGTCGTATTTAGGCACCTCGTG
1 TGTCGTA-TCAGGCACCTCGTG
**
22741181 TGTC-TATCATTCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
22741201 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
22741222 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
* *
22741243 TGTCGTTTTAGGCAC
1 TGTCGTATCAGGCAC
22741258 TTTATGTGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.22
21 50 0.72
22 4 0.06
ACGTcount: A:0.14, C:0.26, G:0.25, T:0.34
Consensus pattern (21 bp):
TGTCGTATCAGGCACCTCGTG
Found at i:22744050 original size:24 final size:26
Alignment explanation
Indices: 22744003--22744052 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
22743993 AATTCCCACG
*
22744003 ACTACTTGTAGAAAATCAAGAAGAAA
1 ACTACTTGTAGAAAATCAACAAGAAA
*
22744029 ACTACTTTTA-AAAATC-ACAAGAAA
1 ACTACTTGTAGAAAATCAACAAGAAA
22744053 GAAATCTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.22
Consensus pattern (26 bp):
ACTACTTGTAGAAAATCAACAAGAAA
Found at i:22746777 original size:32 final size:31
Alignment explanation
Indices: 22746732--22746854 Score: 122
Period size: 32 Copynumber: 3.9 Consensus size: 31
22746722 TAACATGAGG
*
22746732 TTTTAGGTTCCTTAAAAGTTAGAGAAAAAAAT
1 TTTTAGGTCCCTTAAAAGTTAGA-AAAAAAAT
* * *
22746764 TTTTAGGTACCTTAAAAGTTGGTAAAAAAAAA
1 TTTTAGGTCCCTTAAAAGTTAG-AAAAAAAAT
* * * *
22746796 TTTTGGGGCCCTTAAAAGCTA-AAAAAATAT
1 TTTTAGGTCCCTTAAAAGTTAGAAAAAAAAT
* * *
22746826 TTTTGGGTCCCTTAAAAGTTGGTAAAAAA
1 TTTTAGGTCCCTTAAAAGTTAGAAAAAAA
22746855 TTCTTTTGAC
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
30 25 0.34
31 5 0.07
32 43 0.58
33 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (31 bp):
TTTTAGGTCCCTTAAAAGTTAGAAAAAAAAT
Found at i:22746818 original size:29 final size:30
Alignment explanation
Indices: 22746786--22746843 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
22746776 TAAAAGTTGG
22746786 TAAAAAAA-AATTTTGGGGCCCTTAAAAGC
1 TAAAAAAATAATTTTGGGGCCCTTAAAAGC
* *
22746815 TAAAAAAATATTTTTGGGTCCCTTAAAAG
1 TAAAAAAATAATTTTGGGGCCCTTAAAAG
22746844 TTGGTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (30 bp):
TAAAAAAATAATTTTGGGGCCCTTAAAAGC
Found at i:22749002 original size:30 final size:30
Alignment explanation
Indices: 22748966--22749025 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22748956 CAGAATAGGA
*
22748966 CAGAGCAAAAAATAAGAGAATAGAACAAAG
1 CAGAGCAAAAAATAAGAGAACAGAACAAAG
* * *
22748996 CAGAGCAGAACATAAGAGAACAGAGCAAAG
1 CAGAGCAAAAAATAAGAGAACAGAACAAAG
22749026 TAGAATTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.13, G:0.23, T:0.05
Consensus pattern (30 bp):
CAGAGCAAAAAATAAGAGAACAGAACAAAG
Found at i:22749007 original size:15 final size:14
Alignment explanation
Indices: 22748979--22749030 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
22748969 AGCAAAAAAT
*
22748979 AAGAGAATAGAACA
1 AAGAGAACAGAACA
*
22748993 AAGCAGAGCAGAACA
1 AAG-AGAACAGAACA
*
22749008 TAAGAGAACAGAGCA
1 -AAGAGAACAGAACA
22749023 AAGTAGAA
1 AAG-AGAA
22749031 TTGAACATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
14 6 0.19
15 22 0.71
16 3 0.10
ACGTcount: A:0.58, C:0.12, G:0.25, T:0.06
Consensus pattern (14 bp):
AAGAGAACAGAACA
Found at i:22749620 original size:78 final size:79
Alignment explanation
Indices: 22749523--22749679 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 79
22749513 TCACATGCAC
* *
22749523 GGTTATAAATCAGAATCAGTAACAATCAATCTAACATATTCAGATATCGTATATTCTTCATCAAC
1 GGTTATAAATCAGAATCAGTAACAATCAATCCAACATATTCAGATATCGCATATTCTTCATCAAC
*
22749588 AGAGTAACGTAGAG
66 AGAGTAACATAGAG
* * *
22749602 GGTTATAAATCA-AATCAGTAACCATCAATCCAACATATTTAGATATTGCATATTCTTCATCAAC
1 GGTTATAAATCAGAATCAGTAACAATCAATCCAACATATTCAGATATCGCATATTCTTCATCAAC
22749666 AGAGTAACATAGAG
66 AGAGTAACATAGAG
22749680 ATGTATCAGC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 60 0.83
79 12 0.17
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (79 bp):
GGTTATAAATCAGAATCAGTAACAATCAATCCAACATATTCAGATATCGCATATTCTTCATCAAC
AGAGTAACATAGAG
Found at i:22760292 original size:18 final size:18
Alignment explanation
Indices: 22760269--22760310 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22760259 TGGTCTGCTT
*
22760269 GTGTGGGTCTACAAGCCC
1 GTGTGGATCTACAAGCCC
*
22760287 GTGTGGATCTATAAGCCC
1 GTGTGGATCTACAAGCCC
*
22760305 ATGTGG
1 GTGTGG
22760311 CCCACACGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.26
Consensus pattern (18 bp):
GTGTGGATCTACAAGCCC
Found at i:22761689 original size:20 final size:20
Alignment explanation
Indices: 22761646--22761689 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
22761636 AATAACTTTT
22761646 TTATTTATAAAATCAAATAA
1 TTATTTATAAAATCAAATAA
22761666 -TATTTGAT-AAATCAAATAA
1 TTATTT-ATAAAATCAAATAA
22761685 TTATT
1 TTATT
22761690 GTCAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (20 bp):
TTATTTATAAAATCAAATAA
Found at i:22761715 original size:19 final size:19
Alignment explanation
Indices: 22761693--22761753 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
22761683 AATTATTGTC
22761693 AAATATTATTATTTTTAGT
1 AAATATTATTATTTTTAGT
* *
22761712 AAATATAACT-TTTTTATGT
1 AAATATTATTATTTTTA-GT
*
22761731 GTAATA-T-TTATTTTTAGT
1 -AAATATTATTATTTTTAGT
22761749 AAATA
1 AAATA
22761754 ATGATAGTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.12
18 9 0.27
19 16 0.48
20 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (19 bp):
AAATATTATTATTTTTAGT
Found at i:22773204 original size:18 final size:18
Alignment explanation
Indices: 22773181--22773216 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22773171 GGGTTGTATA
*
22773181 CTAATTAACCGGTAAGTT
1 CTAATTAACCAGTAAGTT
22773199 CTAATTAACCAGTAAGTT
1 CTAATTAACCAGTAAGTT
22773217 TACTTTCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
CTAATTAACCAGTAAGTT
Found at i:22782353 original size:182 final size:183
Alignment explanation
Indices: 22782035--22782380 Score: 460
Period size: 182 Copynumber: 1.9 Consensus size: 183
22782025 CAGCTTGGTG
* * *
22782035 ACACGGGTGTGTCCTAGGCCATATGAAAACTGGAGCTAAATTTTTAAATTTAAAACAAGTCAGAG
1 ACACGGGTGTGTCCTAGGCCATATGAAAACTGAAGATAAATTTTCAAATTTAAAACAAGTCAGAG
* * * * * * * * *
22782100 AGCTCCACAGGTGAGGTACACGGCCGTGTGTTCTGACACACGGGCATGTGGGATACCATATGGGC
66 AGCTCCACAGGCGAAGCACACGGCCGTGTGTTCAGACACACGGGCATATGAGAGACCACACGGGC
** * *
22782165 ATGGGAGAAGCGAATGACGTAGCACACGGCCGTGCAATACGGCCGTGTAAACT
131 ATGGGAGAAGCGAACAACATAGCACACAGCCGTGCAATACGGCCGTGTAAACT
* * *
22782218 ACACGGG-GTGTCCTAGGCCATGTGAAAACTGAAGATTAATTTTCAAATTTTAAACAAGTCAGAG
1 ACACGGGTGTGTCCTAGGCCATATGAAAACTGAAGATAAATTTTCAAATTTAAAACAAGTCAGAG
** * * * *
22782282 AGCTCCATGGGCGAAGCACATGGCCGTGTGTTCAGACATACGGGCGTATGAGAGACCACACGGGT
66 AGCTCCACAGGCGAAGCACACGGCCGTGTGTTCAGACACACGGGCATATGAGAGACCACACGGGC
22782347 ATGGGAGAAGCGAACAACATAGCACACAGCCGTG
131 ATGGGAGAAGCGAACAACATAGCACACAGCCGTG
22782381 GGATAAGGTT
Statistics
Matches: 138, Mismatches: 25, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
182 131 0.95
183 7 0.05
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.20
Consensus pattern (183 bp):
ACACGGGTGTGTCCTAGGCCATATGAAAACTGAAGATAAATTTTCAAATTTAAAACAAGTCAGAG
AGCTCCACAGGCGAAGCACACGGCCGTGTGTTCAGACACACGGGCATATGAGAGACCACACGGGC
ATGGGAGAAGCGAACAACATAGCACACAGCCGTGCAATACGGCCGTGTAAACT
Found at i:22784628 original size:6 final size:6
Alignment explanation
Indices: 22784614--22784679 Score: 87
Period size: 6 Copynumber: 10.8 Consensus size: 6
22784604 TTGAGTATAA
* * * *
22784614 TTATTT TTATGT TTATGT TTATGT TTATGT TTATCTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT
22784663 TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATT
22784680 CTTCTTGTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
6 52 0.91
7 5 0.09
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:22784690 original size:18 final size:17
Alignment explanation
Indices: 22784647--22784690 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22784637 TTTATGTTTA
*
22784647 TCTTTTATTTTTATTTT
1 TCTTTTATTTTTATTCT
*
22784664 TATTTTTATTTTTATTCT
1 T-CTTTTATTTTTATTCT
22784682 TCTTGTTAT
1 TCTT-TTAT
22784691 GTCTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (17 bp):
TCTTTTATTTTTATTCT
Found at i:22794734 original size:23 final size:24
Alignment explanation
Indices: 22794683--22794739 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
22794673 TACTATAAAA
22794683 ATATTAT-TTAATTAAAACATTAT
1 ATATTATATTAATTAAAACATTAT
* *
22794706 AAATTATATTAATT-AAA-GTTAAT
1 ATATTATATTAATTAAAACATT-AT
22794729 ATATTATATTA
1 ATATTATATTA
22794740 TAGGAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 2 0.07
23 21 0.72
24 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
ATATTATATTAATTAAAACATTAT
Found at i:22794924 original size:35 final size:35
Alignment explanation
Indices: 22794842--22794913 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
22794832 ACTTTTTATT
* * * *
22794842 TAAGTAAAAAGATATTTATTATTTATTATAATTAT
1 TAAGTTAAAAGATATTTATTATTAATTATAATAAC
22794877 TAAGTTAAAAGATATTTATTTATTAATTA-AATAAC
1 TAAGTTAAAAGATATTTA-TTATTAATTATAATAAC
22794912 TA
1 TA
22794914 TATTATAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 23 0.72
36 9 0.28
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (35 bp):
TAAGTTAAAAGATATTTATTATTAATTATAATAAC
Found at i:22795091 original size:16 final size:16
Alignment explanation
Indices: 22795053--22795094 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
22795043 AATAGTGTAT
22795053 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
22795069 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
22795084 TATTAATTATA
1 TATTAATTATA
22795095 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:22795241 original size:15 final size:15
Alignment explanation
Indices: 22795223--22795254 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22795213 TTAAGTAAAG
22795223 ATAT-TTATA-TATT
1 ATATATTATATTATT
22795236 ATATATTATATTATT
1 ATATATTATATTATT
22795251 ATAT
1 ATAT
22795255 TAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 5 0.29
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATATTATATTATT
Found at i:22796290 original size:23 final size:23
Alignment explanation
Indices: 22796258--22796330 Score: 100
Period size: 21 Copynumber: 3.3 Consensus size: 23
22796248 GCTTTGCCGA
*
22796258 TCAGGCACCTTGTGTGTCGTATT
1 TCAGGCACCTCGTGTGTCGTATT
*
22796281 TGAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCGTGTGTCGTATT
22796302 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTCGTGTGTCGTATT
22796323 TCAGGCAC
1 TCAGGCAC
22796331 TTATGTGTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.02
21 25 0.56
23 19 0.42
ACGTcount: A:0.15, C:0.26, G:0.27, T:0.32
Consensus pattern (23 bp):
TCAGGCACCTCGTGTGTCGTATT
Found at i:22811555 original size:20 final size:22
Alignment explanation
Indices: 22811516--22811556 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
22811506 AATTAATTTT
22811516 AATTTATTATAATATAAAATAA
1 AATTTATTATAATATAAAATAA
*
22811538 AATTT-TTAT-ATTTAAAATA
1 AATTTATTATAATATAAAATA
22811557 GTGAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTTATTATAATATAAAATAA
Found at i:22819084 original size:44 final size:43
Alignment explanation
Indices: 22819035--22819193 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
22819025 TATATGTTAT
*
22819035 CGTGTAAGACCACATCTGTGACATTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACATCTG-GACATTGGCATCGA-TATTTGATTTA
* **
22819079 CGTGTAAGACCACGTCTGGGATGTTGGCATC-ATATTTGATTT-
1 CGTGTAAGACCACATCT-GGACATTGGCATCGATATTTGATTTA
* * * *
22819121 TGTGTAAGACCCCTGTCTGGACAATGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-ATCTGGACATTGGCATCGATATTTGATTTA
* *
22819164 CATGTAAGACCACATCTGGAACGTTGGCAT
1 CGTGTAAGACCACATCTGG-ACATTGGCAT
22819194 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 29 0.31
43 38 0.40
44 26 0.28
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACATCTGGACATTGGCATCGATATTTGATTTA
Found at i:22819985 original size:33 final size:33
Alignment explanation
Indices: 22819943--22820024 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
22819933 GTTATAAATC
22819943 ATATAATTTGGTATGTTTTTGGCTTATGGAATG
1 ATATAATTTGGTATGTTTTTGGCTTATGGAATG
*
22819976 ATATAATTTGGTATGTTTTTTGCTTATGGAATG
1 ATATAATTTGGTATGTTTTTGGCTTATGGAATG
*
22820009 ATATGATTTGGTATGT
1 ATATAATTTGGTATGT
22820025 GTTTCAAGCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.24, C:0.02, G:0.23, T:0.50
Consensus pattern (33 bp):
ATATAATTTGGTATGTTTTTGGCTTATGGAATG
Found at i:22823352 original size:46 final size:44
Alignment explanation
Indices: 22823285--22823451 Score: 156
Period size: 46 Copynumber: 3.6 Consensus size: 44
22823275 TATCTGTGCT
* * **
22823285 AGTGTAAGAAATGTCTTGGACATGCATTAGCTACAGCATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCT-CAG-ATGAGAGCC
*
22823331 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGAT-ATTTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGG-CTC-AGATGA---GAGCC
* * * * *
22823379 AGTGTAAGACATGTCTGGGCCATGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGC--TCAGATGAGAGCC
22823425 AGTGTAAGACATGTCTAGGACATGCAT
1 AGTGTAAGACATGTCTAGGACATGCAT
22823452 TGACCTCACG
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 57 0.57
47 5 0.05
48 35 0.35
49 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCTCAGATGAGAGCC
Found at i:22823390 original size:48 final size:46
Alignment explanation
Indices: 22823327--22823501 Score: 156
Period size: 48 Copynumber: 3.7 Consensus size: 46
22823317 ACAGCATGAG
22823327 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATATTTA
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATA--TA
* * * ** * *
22823375 AGCCAGTGTAAGACATGTCTGGGCCATGCATCGGCATTGAGACGA-G
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGA-TATA
* * * *
22823421 AGCTAGTGTAAGACATGTCTAGGACATGCATTGACCTCACGATATACA
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATAT--A
* *
22823469 AGCTAGTGTAAGACCTGTCT-GGAACATGGCATC
1 AGCCAGTGTAAGACATGTCTAGG-ACAT-GCATC
22823502 AGCTTGTGCT
Statistics
Matches: 101, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 33 0.33
47 2 0.02
48 60 0.59
49 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATATA
Found at i:22823578 original size:49 final size:49
Alignment explanation
Indices: 22823517--22823646 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 49
22823507 GTGCTGCATT
* *
22823517 AGTGTAAGACCTGTCTGGGACATGGCATCGAGAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCG-GACTCGATAGATAAAAGCC
* * * *
22823566 AGTGTAAGACCTGTTTGGGACATGGCATCGGTCTCGCTATATAAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGACTCGATAGATAAAAGCC
* *
22823615 AATGTAAGACCATGTCTGGGACATGGCGTCGG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGG
22823647 CATATGAACC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
48 2 0.03
49 50 0.71
50 18 0.26
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGACTCGATAGATAAAAGCC
Found at i:22832412 original size:28 final size:28
Alignment explanation
Indices: 22832372--22832436 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
22832362 ATGTACTAGA
*
22832372 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
22832400 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
22832428 ATACCCCTA
1 ATACCCCTA
22832437 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:22832600 original size:27 final size:27
Alignment explanation
Indices: 22832542--22832631 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
22832532 AGGAAGCGTC
22832542 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
22832570 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
22832597 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
22832626 CTGGTG
1 CTGGTG
22832632 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:22832650 original size:55 final size:56
Alignment explanation
Indices: 22832542--22832656 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
22832532 AGGAAGCGTC
* *
22832542 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
22832597 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
22832653 CTGG
1 CTGG
22832657 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:22833746 original size:11 final size:10
Alignment explanation
Indices: 22833718--22833751 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22833708 AGCCTGTAAG
22833718 TATTCTGAAT
1 TATTCTGAAT
*
22833728 TTTTCTGAAT
1 TATTCTGAAT
22833738 ATATTCTGAAT
1 -TATTCTGAAT
22833749 TAT
1 TAT
22833752 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:22839972 original size:8 final size:8
Alignment explanation
Indices: 22839959--22839988 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
22839949 CTAGATCGGC
22839959 AAAAGCCG
1 AAAAGCCG
22839967 AAAAGCCG
1 AAAAGCCG
*
22839975 AAATGCCG
1 AAAAGCCG
22839983 AAAAGC
1 AAAAGC
22839989 TGGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:22840465 original size:27 final size:27
Alignment explanation
Indices: 22840407--22840496 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
22840397 AGGAAGCGTC
22840407 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
22840435 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
22840462 CTGGTGGCACTGCTACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
22840491 CTGGTG
1 CTGGTG
22840497 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:22840515 original size:55 final size:56
Alignment explanation
Indices: 22840407--22840521 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
22840397 AGGAAGCGTC
* *
22840407 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * * *
22840462 CTGGTGGC-ACTGCTACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
22840518 CTGG
1 CTGG
22840522 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:22840532 original size:56 final size:54
Alignment explanation
Indices: 22840416--22840536 Score: 127
Period size: 56 Copynumber: 2.2 Consensus size: 54
22840406 CCTGGTGGCT
* * * * *
22840416 ATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGTTCTGGTGGC
1 ATGCTACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTTCTGGAGCC
* * *
22840470 ACTGCTACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTATCTGGCAGCC
1 A-TGCTACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGT-TCTGG-AGCC
22840527 ATGCTACAAA
1 ATGCTACAAA
22840537 TTTCTCTGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
54 1 0.02
55 21 0.38
56 30 0.55
57 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (54 bp):
ATGCTACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTTCTGGAGCC
Found at i:22841949 original size:99 final size:95
Alignment explanation
Indices: 22841770--22841951 Score: 240
Period size: 99 Copynumber: 1.9 Consensus size: 95
22841760 CAATACATGT
* * * *
22841770 GAGCTAGTTTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAATGTAAGACCATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATATGAGTCAATGTAAGACCATGT
*
22841835 CTGGGACATGGCATCGACACGAAAAAAGGA
66 CTGGGACATGACATCGACACGAAAAAAGGA
* *
22841865 GAGCCAGTGTAAGACCA-GTCTGGGATATGGCATCGGCCTCGATATAAGAGAGTCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGATAT----GAGTCAATGTAAGAC
*
22841929 CATGTTTGGGACATGACATCGAC
61 CATGTCTGGGACATGACATCGAC
22841952 TCGATATGTG
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
94 18 0.24
95 22 0.30
99 34 0.46
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATATGAGTCAATGTAAGACCATGT
CTGGGACATGACATCGACACGAAAAAAGGA
Found at i:22841979 original size:47 final size:47
Alignment explanation
Indices: 22841779--22842136 Score: 270
Period size: 49 Copynumber: 7.5 Consensus size: 47
22841769 TGAGCTAGTT
* * * *
22841779 TAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTG--TCAATG
1 TAAGACCATGTCTGGGACATGGCATCGACTCGATATGAGATTCAGTG
* * * **
22841824 TAAGACCATGTCTGGGACATGGCATCGACACGAAAAAAGGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACTCG---ATATGAGATTCAGTG
* * *
22841874 TAAGACCA-GTCTGGGATATGGCATCGGCCTCGATATAAGAGAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATC-GACTCGATAT--GAGATTCAGTG
* * * * *
22841923 TAAGACCATGTTTGGGACATGACATCGACTCGATATGTGATTAAATG
1 TAAGACCATGTCTGGGACATGGCATCGACTCGATATGAGATTCAGTG
* *
22841970 TAAGACCATGTTTGGGACATTGGCATTG--T--AT-TGCA-ATTTC-GTG
1 TAAGACCATGTCTGGGACA-TGGCATCGACTCGATATG-AGA-TTCAGTG
* *
22842013 TAAGACCTTGTGTGGGACAGTGGCATCGACCTCGATATAAGAGAGTT-AGTG
1 TAAGACCATGTCTGGGACA-TGGCATCGA-CTCGATAT--GAGA-TTCAGTG
* * * *
22842064 TAAGACCATGTCTGAGACATGGCATCGACTCGATATGTGATTAAATG
1 TAAGACCATGTCTGGGACATGGCATCGACTCGATATGAGATTCAGTG
*
22842111 TAAGGCCATGTCTGGGACATTGGCAT
1 TAAGACCATGTCTGGGACA-TGGCAT
22842137 TGTATTGTGA
Statistics
Matches: 250, Mismatches: 39, Indels: 45
0.75 0.12 0.13
Matches are distributed among these distances:
43 29 0.12
44 4 0.02
45 29 0.12
46 4 0.02
47 51 0.20
48 18 0.07
49 52 0.21
50 40 0.16
51 23 0.09
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGACTCGATATGAGATTCAGTG
Found at i:22842067 original size:141 final size:140
Alignment explanation
Indices: 22841871--22842182 Score: 491
Period size: 141 Copynumber: 2.2 Consensus size: 140
22841861 AGGAGAGCCA
* * * * *
22841871 GTGTAAGACCAGTCTGGGATA-TGGCATCGGCCTCGATATAAGAGAGTCAGTGTAAGACCATGTT
1 GTGTAAGACCTGTGTGGGACAGTGGCATCGACCTCGATATAAGAGAGTCAGTGTAAGACCATGTC
* *
22841935 TGGGACATGACATCGACTCGATATGTGATTAAATGTAAGACCATGTTTGGGACATTGGCATTGTA
66 TGAGACATGACATCGACTCGATATGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATTGTA
22842000 TTGCAATTTC
131 TTGCAATTTC
*
22842010 GTGTAAGACCTTGTGTGGGACAGTGGCATCGACCTCGATATAAGAGAGTTAGTGTAAGACCATGT
1 GTGTAAGACC-TGTGTGGGACAGTGGCATCGACCTCGATATAAGAGAGTCAGTGTAAGACCATGT
* *
22842075 CTGAGACATGGCATCGACTCGATATGTGATTAAATGTAAGGCCATGTCTGGGACATTGGCATTGT
65 CTGAGACATGACATCGACTCGATATGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATTGT
**
22842140 ATTGTGATTTC
130 ATTGCAATTTC
22842151 GTGTAAGACCCTGTGTGGGACAGTGGCATCGA
1 GTGTAAGA-CCTGTGTGGGACAGTGGCATCGA
22842183 TATGTGATAA
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
139 10 0.06
140 8 0.05
141 138 0.87
142 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (140 bp):
GTGTAAGACCTGTGTGGGACAGTGGCATCGACCTCGATATAAGAGAGTCAGTGTAAGACCATGTC
TGAGACATGACATCGACTCGATATGTGATTAAATGTAAGACCATGTCTGGGACATTGGCATTGTA
TTGCAATTTC
Found at i:22842189 original size:43 final size:43
Alignment explanation
Indices: 22841952--22842190 Score: 135
Period size: 43 Copynumber: 5.3 Consensus size: 43
22841942 TGACATCGAC
* * * *
22841952 TCGATATGTGATTAAATGTAAGACCATGTTTGGGACATTGGCA
1 TCGATATGTGATTTAGTGTAAGACCATGTCTGGGACAGTGGCA
* * * *
22841995 TTG-TAT-TGCAATTTCGTGTAAGACCTTGTGTGGGACAGTGGCATCGA
1 TCGATATGTG--ATTTAGTGTAAGACCATGTCTGGGACAGTGG---C-A
* * *
22842042 CCTCGATATAAGAGAGTTAGTGTAAGACCATGTCTGAGACA-TGGCATCGA
1 --TCGATAT--GTGATTTAGTGTAAGACCATGTCTGGGACAGTGG---C-A
* * * *
22842092 CTCGATATGTGATTAAATGTAAGGCCATGTCTGGGACATTGGCA
1 -TCGATATGTGATTTAGTGTAAGACCATGTCTGGGACAGTGGCA
* * * *
22842136 TTG-TATTGTGATTTCGTGTAAGACCCTGTGTGGGACAGTGGCA
1 TCGATA-TGTGATTTAGTGTAAGACCATGTCTGGGACAGTGGCA
22842179 TCGATATGTGAT
1 TCGATATGTGAT
22842191 AACATATAAG
Statistics
Matches: 152, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
41 2 0.01
42 5 0.03
43 67 0.44
44 3 0.02
45 1 0.01
46 1 0.01
47 25 0.16
48 3 0.02
49 10 0.07
50 12 0.08
51 22 0.14
53 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTTAGTGTAAGACCATGTCTGGGACAGTGGCA
Found at i:22842201 original size:43 final size:43
Alignment explanation
Indices: 22842062--22842205 Score: 114
Period size: 43 Copynumber: 3.3 Consensus size: 43
22842052 AGAGAGTTAG
*
22842062 TGTAAGACCATGTCTGAGACA-TGGCATCGACTCGATATGTGATTAA-A
1 TGTAAGACCATGTCTGGGACAGTGG---C-A-TCGATATGTGA-TAACA
* * * ** *
22842109 TGTAAGGCCATGTCTGGGACATTGGCATTG-TATTGTGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATA-TGTGATAACA
* *
22842152 TGTAAGACCCTGTGTGGGACAGTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATAACA
*
22842195 TATAAGACCAT
1 TGTAAGACCAT
22842206 ATCTAGGATA
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
42 3 0.04
43 48 0.62
44 3 0.04
45 1 0.01
47 19 0.25
48 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATAACA
Found at i:22845062 original size:78 final size:81
Alignment explanation
Indices: 22844936--22845117 Score: 221
Period size: 78 Copynumber: 2.3 Consensus size: 81
22844926 GACTCGCTCA
** * *
22844936 AATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCCGG
* *
22844999 GTTTAGTAACTT-GCAC
65 ATATAGTAACTTAGCAC
* **
22845015 AATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
22845078 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
22845094 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22845118 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 45 0.51
79 29 0.33
80 11 0.12
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCAC
Found at i:22845117 original size:40 final size:39
Alignment explanation
Indices: 22844927--22845117 Score: 179
Period size: 40 Copynumber: 4.8 Consensus size: 39
22844917 GGATATAACG
* ** * *
22844927 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
22844967 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
22845007 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
22845045 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATATAGTA
* *
22845085 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
22845118 CATCATTCGA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 71 0.57
41 8 0.06
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:22853095 original size:78 final size:81
Alignment explanation
Indices: 22852969--22853150 Score: 221
Period size: 78 Copynumber: 2.3 Consensus size: 81
22852959 GACTCGCTCA
** * *
22852969 AATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCCGG
* *
22853032 GTTTAGTAACTT-GCAC
65 ATATAGTAACTTAGCAC
* **
22853048 AATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
22853111 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
22853127 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22853151 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 45 0.51
79 29 0.33
80 11 0.12
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCAC
Found at i:22853150 original size:40 final size:39
Alignment explanation
Indices: 22852960--22853150 Score: 179
Period size: 40 Copynumber: 4.8 Consensus size: 39
22852950 GGATATAACG
* ** * *
22852960 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
22853000 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
22853040 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
22853078 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATATAGTA
* *
22853118 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
22853151 CATCATTCGA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 71 0.57
41 8 0.06
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:22857515 original size:28 final size:28
Alignment explanation
Indices: 22857458--22857525 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
22857448 TATATATATA
* * * *
22857458 AATGGAACTTAGTGTGCAAAGTATCGAG
1 AATGGCACTTAGTGTACAAAGCATCCAG
22857486 AATGGCACTTAGTGTACGAAA-CATCCAG
1 AATGGCACTTAGTGTAC-AAAGCATCCAG
**
22857514 AATATCACTTAG
1 AATGGCACTTAG
22857526 CATGCGAGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 30 0.91
29 3 0.09
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (28 bp):
AATGGCACTTAGTGTACAAAGCATCCAG
Found at i:22858465 original size:43 final size:43
Alignment explanation
Indices: 22858404--22858490 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
22858394 AAGTTAATAA
22858404 ATTACTTATTATTTTCATATGAACTTACTAAGCTTTATAGCTT
1 ATTACTTATTATTTTCATATGAACTTACTAAGCTTTATAGCTT
22858447 ATTACTTATTATTTTCATATGAACTTACTAAGCTTTATAGCTT
1 ATTACTTATTATTTTCATATGAACTTACTAAGCTTTATAGCTT
22858490 A
1 A
22858491 CTCCCCTTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (43 bp):
ATTACTTATTATTTTCATATGAACTTACTAAGCTTTATAGCTT
Found at i:22858505 original size:43 final size:43
Alignment explanation
Indices: 22858414--22858507 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
22858404 ATTACTTATT
* * *
22858414 ATTTTCATATGAACTTACTAAGCTTTATAGCTTATTACTTATT
1 ATTTTCATATGAACTTACTAAGCTTTATAGCTTATCACCTATC
*
22858457 ATTTTCATATGAACTTACTAAGCTTTATAGCTTACTCCCCT-TC
1 ATTTTCATATGAACTTACTAAGCTTTATAGCTTA-TCACCTATC
*
22858500 CTTTTCAT
1 ATTTTCAT
22858508 CTCTTAAGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 42 0.93
44 3 0.07
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (43 bp):
ATTTTCATATGAACTTACTAAGCTTTATAGCTTATCACCTATC
Found at i:22863663 original size:48 final size:46
Alignment explanation
Indices: 22863558--22863770 Score: 182
Period size: 46 Copynumber: 4.5 Consensus size: 46
22863548 TATGTGTGCT
* * ** *
22863558 AGTGTAAGACATGTTTAGGACATGCATCAGCCAC-AGCATGA-GAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTTCGAG-AT-ATAAGCC
* *
22863604 AATGTAAGACATGTCTAGGACATGCATTGGCTTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTTCGAGATA--TAAGCC
* * * *
22863652 AGTGTAAGACATGTCTGGGACATGCATCGGCATT-GAGACGA-GAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGC-TTCGAGA-TATAAGCC
* * * *
22863698 AGTGTAAGACATGTCTAGGACATGTATCGGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCTTCGAGATAT--AAGCC
*
22863746 AGTGTAAGACCTGTCTAGGACATGC
1 AGTGTAAGACATGTCTAGGACATGC
22863771 TGTCAGCTTA
Statistics
Matches: 136, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.02
46 65 0.48
47 2 0.01
48 63 0.46
49 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCTTCGAGATATAAGCC
Found at i:22863707 original size:94 final size:94
Alignment explanation
Indices: 22863558--22863770 Score: 259
Period size: 94 Copynumber: 2.3 Consensus size: 94
22863548 TATGTGTGCT
* *
22863558 AGTGTAAGACATGTTTAGGACATGCATCAGCCACAGCATGAGAGCCAATGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCACAGCACGAGAGCCAATGTAAGACATGTCTAGG
* * **
22863623 ACATGCATTGGCTTCGAGATATTTAAGCC
66 ACATGCATCGGCCTCGAGATATACAAGCC
* * * * *
22863652 AGTGTAAGACATGTCTGGGACATGCATC-GGCATTGAG-ACGAGAGCTAGTGTAAGACATGTCTA
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCA--CAGCACGAGAGCCAATGTAAGACATGTCTA
* * *
22863715 GGACATGTATCGGCCTCGCGATATACAAGCT
64 GGACATGCATCGGCCTCGAGATATACAAGCC
*
22863746 AGTGTAAGACCTGTCTAGGACATGC
1 AGTGTAAGACATGTCTAGGACATGC
22863771 TGTCAGCTTA
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
93 3 0.03
94 96 0.95
95 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCACAGCACGAGAGCCAATGTAAGACATGTCTAGG
ACATGCATCGGCCTCGAGATATACAAGCC
Found at i:22863888 original size:49 final size:49
Alignment explanation
Indices: 22863789--22863913 Score: 144
Period size: 49 Copynumber: 2.5 Consensus size: 49
22863779 TATGGTGTGT
* *
22863789 CAGTGTAAGACCTGTCTGGGACATGGCATCGAGACCGATAGATGAGAGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCGAGACCGATAGATGAAAGC
* * * * * *
22863838 CAGTGTAAGACATGTTTGGGAAATGGCATCG-GTCTTGCTATATGAAAGC
1 CAGTGTAAGACATGTCTGGGACATGGCATCGAGAC-CGATAGATGAAAGC
*
22863887 CAGTGCAAGACCATGTCTGGGACATGG
1 CAGTGTAAGA-CATGTCTGGGACATGG
22863914 TGTCGGCATC
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.03
49 47 0.75
50 14 0.22
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCGAGACCGATAGATGAAAGC
Found at i:22873440 original size:67 final size:67
Alignment explanation
Indices: 22873361--22873493 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
22873351 GGTGGATTTT
*
22873361 TCCTTAGGTATTGTCTAAATCAATCAGTTTTCCCAAAAGTATTTCCCCAATTTTCTTCCTGTGCA
1 TCCTTAGGTATTGTCCAAATCAATCAGTTTTCCCAAAAGTATTTCCCCAATTTTCTTCCTGTGCA
22873426 TA
66 TA
*
22873428 TCCTTGGGTATTGTCCAAATCAATCAGTTTTCCCAAAAGTATTTCCCCAATTTTCTTCCTGTGCA
1 TCCTTAGGTATTGTCCAAATCAATCAGTTTTCCCAAAAGTATTTCCCCAATTTTCTTCCTGTGCA
22873493 T
66 T
22873494 TCTTAGTTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (67 bp):
TCCTTAGGTATTGTCCAAATCAATCAGTTTTCCCAAAAGTATTTCCCCAATTTTCTTCCTGTGCA
TA
Found at i:22880800 original size:4 final size:4
Alignment explanation
Indices: 22880791--22880831 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
22880781 TCTTAAAAAA
22880791 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
22880832 TTAGTAGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:22881754 original size:49 final size:48
Alignment explanation
Indices: 22881654--22881755 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 48
22881644 ACACACGCCT
* * * * *
22881654 GTGTCTATTTAACAGATTGTAACACGGCTTAAGCCACACCACACGGCC
1 GTGTCTATTTAACAGACTCTAACACAGCCTAAGCCACACCACAAGGCC
* *
22881702 GTGTCTATTTAGCAGACTCTAAACACAGCCTAAGCCAC-CTCACAAGGGC
1 GTGTCTATTTAACAGACTCT-AACACAGCCTAAGCCACAC-CACAAGGCC
22881751 GTGTC
1 GTGTC
22881756 CCTGTCGAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 18 0.40
49 27 0.60
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (48 bp):
GTGTCTATTTAACAGACTCTAACACAGCCTAAGCCACACCACAAGGCC
Found at i:22882150 original size:12 final size:13
Alignment explanation
Indices: 22882113--22882150 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
22882103 AATACTTGAT
22882113 TTGTTCTTAATTA
1 TTGTTCTTAATTA
*
22882126 TGTGTTCTTAATTC
1 T-TGTTCTTAATTA
22882140 TTGTT-TTAATT
1 TTGTTCTTAATT
22882151 TTCCAGGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.18, C:0.08, G:0.11, T:0.63
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:22889270 original size:26 final size:26
Alignment explanation
Indices: 22889239--22889346 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22889229 TGAAATCCCC
*
22889239 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22889265 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22889291 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22889317 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22889343 ATCA
1 ATCA
22889347 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22891168 original size:24 final size:25
Alignment explanation
Indices: 22891113--22891159 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
22891103 GGGTGAATAA
22891113 ATTTTTTTGCTTTCCTTTATTTTTG
1 ATTTTTTTGCTTTCCTTTATTTTTG
* *
22891138 A-TTTTTTGCTTTCTTTTCTTTT
1 ATTTTTTTGCTTTCCTTTATTTT
22891160 ATTTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.74
Consensus pattern (25 bp):
ATTTTTTTGCTTTCCTTTATTTTTG
Found at i:22909477 original size:46 final size:46
Alignment explanation
Indices: 22909425--22909652 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
22909415 AGTGTGCTCT
22909425 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
22909471 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
22909517 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
22909563 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
22909609 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
22909653 TCACGTCAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:22924822 original size:21 final size:21
Alignment explanation
Indices: 22924781--22924822 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22924771 TTGAGTCAAA
* * *
22924781 CATTTTCAAATATGTTTTAAT
1 CATTTTCAAACAAGTTATAAT
22924802 CATTTTCAAACAAGTTATAAT
1 CATTTTCAAACAAGTTATAAT
22924823 TGCTTTAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (21 bp):
CATTTTCAAACAAGTTATAAT
Found at i:22927468 original size:57 final size:58
Alignment explanation
Indices: 22927405--22927523 Score: 186
Period size: 57 Copynumber: 2.1 Consensus size: 58
22927395 CATTTCTAGG
*
22927405 TCATTTTCATTGTGGAGAAAACCACATTCATTTCCAAATGTTT-CCATTTCTCCATTT
1 TCATTTTCATTGTGGAGAAAACCACATTCAATTCCAAATGTTTACCATTTCTCCATTT
* * * *
22927462 TCATTTTCATTTTGGAGAAAACCATATTCAATTCGAAATGTTTATCATTTCTCCATTT
1 TCATTTTCATTGTGGAGAAAACCACATTCAATTCCAAATGTTTACCATTTCTCCATTT
22927520 TCAT
1 TCAT
22927524 CATTTCTATC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 39 0.70
58 17 0.30
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (58 bp):
TCATTTTCATTGTGGAGAAAACCACATTCAATTCCAAATGTTTACCATTTCTCCATTT
Found at i:22932758 original size:44 final size:44
Alignment explanation
Indices: 22932695--22932785 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
22932685 AATTCTATTG
22932695 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTACTTTAATA
1 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTACTTTAATA
* *
22932739 TTAGTTTTCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTACTTTAATA
22932783 TTA
1 TTA
22932786 TTTGACCTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTACTTTAATA
Found at i:22934083 original size:7 final size:7
Alignment explanation
Indices: 22934071--22934108 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
22934061 TGACGTTCCA
22934071 TTTCTCT
1 TTTCTCT
22934078 TTTCTCT
1 TTTCTCT
22934085 TTTCTCT
1 TTTCTCT
*
22934092 CTTCTCT
1 TTTCTCT
*
22934099 GTTCTCT
1 TTTCTCT
22934106 TTT
1 TTT
22934109 GTTTCTCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (7 bp):
TTTCTCT
Found at i:22936741 original size:2 final size:2
Alignment explanation
Indices: 22936734--22936769 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
22936724 ATTCGGCATC
22936734 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
22936770 TTCTTTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22937559 original size:26 final size:26
Alignment explanation
Indices: 22937517--22937569 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
22937507 TTATTTTTAT
22937517 TATCATTAATAACATAAT-TACTAAAC
1 TATCATTAATAACATAATATA-TAAAC
*
22937543 TATCCTTAATGAA-ATAATATATAAAC
1 TATCATTAAT-AACATAATATATAAAC
22937569 T
1 T
22937570 TAATAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (26 bp):
TATCATTAATAACATAATATATAAAC
Found at i:22943875 original size:33 final size:33
Alignment explanation
Indices: 22943831--22943897 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
22943821 TACCTCCAGA
22943831 GTTAGACCATATCCATGATGTTTTTCATGTTTC
1 GTTAGACCATATCCATGATGTTTTTCATGTTTC
*
22943864 GTTAGATCATATCCATGATGTTTTTCATGTTTC
1 GTTAGACCATATCCATGATGTTTTTCATGTTTC
22943897 G
1 G
22943898 ATGTTGAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (33 bp):
GTTAGACCATATCCATGATGTTTTTCATGTTTC
Found at i:22944646 original size:7 final size:7
Alignment explanation
Indices: 22944612--22944649 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
22944602 TGGCGTTCCC
*
22944612 TTTCTCC
1 TTTCTCT
22944619 TTTCTCT
1 TTTCTCT
22944626 TTTCTCT
1 TTTCTCT
*
22944633 TTCCTCT
1 TTTCTCT
22944640 TTTCTCT
1 TTTCTCT
22944647 TTT
1 TTT
22944650 GTTTCTCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTCTCT
Found at i:22950443 original size:87 final size:87
Alignment explanation
Indices: 22950297--22950466 Score: 313
Period size: 87 Copynumber: 2.0 Consensus size: 87
22950287 CATATCTTAG
22950297 ATTTAAGTCTATCTAATGGTCAATGTCGAATATCAAAGAAAAAAATTGTTTGGATTTTGGTTCAC
1 ATTTAAGTCTATCTAATGGTCAATGTCGAATATCAAAGAAAAAAATTGTTTGGATTTTGGTTCAC
*
22950362 ACGTTCATGATGTTCAAACAAC
66 ACGTTCATGATATTCAAACAAC
* *
22950384 ATTTAAGTCTATCTAATGGTCAATGTCGAATATCAAAGAAAAAAGTTGTTTGGATTTTGGTTCGC
1 ATTTAAGTCTATCTAATGGTCAATGTCGAATATCAAAGAAAAAAATTGTTTGGATTTTGGTTCAC
22950449 ACGTTCATGATATTCAAA
66 ACGTTCATGATATTCAAA
22950467 GTTGTTTCAT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (87 bp):
ATTTAAGTCTATCTAATGGTCAATGTCGAATATCAAAGAAAAAAATTGTTTGGATTTTGGTTCAC
ACGTTCATGATATTCAAACAAC
Found at i:22952400 original size:18 final size:18
Alignment explanation
Indices: 22952374--22952409 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22952364 TCATTTTACC
*
22952374 TATTTTGCTAGAAAGTTT
1 TATTCTGCTAGAAAGTTT
22952392 TATTCTGCTAGAAAGTTT
1 TATTCTGCTAGAAAGTTT
22952410 GACTTCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (18 bp):
TATTCTGCTAGAAAGTTT
Found at i:22957846 original size:3 final size:3
Alignment explanation
Indices: 22957838--22957878 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
22957828 GGACTCAGCT
*
22957838 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC CGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
22957879 TTGGCGTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.34, G:0.34, T:0.32
Consensus pattern (3 bp):
TGC
Found at i:22960744 original size:19 final size:19
Alignment explanation
Indices: 22960692--22960748 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
22960682 ATGTATTTTG
* *
22960692 TAAAAAAATTATAA-CATT
1 TAAAAAAATTACAATAATT
* * *
22960710 T-AAAATATTTCTATAATT
1 TAAAAAAATTACAATAATT
22960728 TAAAAAAATTACAATAATT
1 TAAAAAAATTACAATAATT
22960747 TA
1 TA
22960749 TAATTTTTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 8 0.28
18 5 0.17
19 16 0.55
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAAAATTACAATAATT
Found at i:22960760 original size:16 final size:16
Alignment explanation
Indices: 22960741--22960771 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22960731 AAAAATTACA
*
22960741 ATAATTTATAATTTTT
1 ATAATTTACAATTTTT
22960757 ATAATTTACAATTTT
1 ATAATTTACAATTTT
22960772 AAAAAATTAG
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:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
ATAATTTACAATTTTT
Found at i:22960760 original size:35 final size:36
Alignment explanation
Indices: 22960692--22960764 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
22960682 ATGTATTTTG
* *
22960692 TAAAAAAATTATAACATTTAAAATATTTCTATAATT
1 TAAAAAAATTACAAAATTTAAAATATTTCTATAATT
*
22960728 TAAAAAAATTACAATAATTTATAAT-TTT-TATAATT
1 TAAAAAAATTACAA-AATTTAAAATATTTCTATAATT
22960763 TA
1 TA
22960765 CAATTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 9 0.27
36 16 0.48
37 8 0.24
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (36 bp):
TAAAAAAATTACAAAATTTAAAATATTTCTATAATT
Found at i:22970951 original size:18 final size:20
Alignment explanation
Indices: 22970904--22970944 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
22970894 CTCAATATCC
22970904 TTAATCTCTCTGAAATAAAT
1 TTAATCTCTCTGAAATAAAT
22970924 TTAATCTCTCTGAAATAAAT
1 TTAATCTCTCTGAAATAAAT
22970944 T
1 T
22970945 CAGTCTCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TTAATCTCTCTGAAATAAAT
Found at i:22970951 original size:20 final size:20
Alignment explanation
Indices: 22970906--22970953 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
22970896 CAATATCCTT
*
22970906 AATCTCTCTGAAATAAATTT
1 AATCTCTCTGAAATAAATTC
22970926 AATCTCTCTGAAATAAATTC
1 AATCTCTCTGAAATAAATTC
*
22970946 AGTCTCTC
1 AATCTCTC
22970954 AATATGATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (20 bp):
AATCTCTCTGAAATAAATTC
Found at i:22972640 original size:20 final size:20
Alignment explanation
Indices: 22972600--22972672 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
22972590 ATTCATTTCT
** *
22972600 ATTCATATAAATTGTAATTC
1 ATTCATATAAACAGTAGTTC
22972620 ATTCATAT-AACAAGTAGTTC
1 ATTCATATAAAC-AGTAGTTC
* *
22972640 ATCCGTATAAACAGTAGTTC
1 ATTCATATAAACAGTAGTTC
22972660 -TTCTATATAAACA
1 ATTC-ATATAAACA
22972673 CATATCTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 4 0.09
20 36 0.84
21 3 0.07
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (20 bp):
ATTCATATAAACAGTAGTTC
Found at i:22973145 original size:23 final size:24
Alignment explanation
Indices: 22973111--22973166 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
22973101 GCATTTAATG
*
22973111 ATCA-ATA-ATTCAATT-TATCAA
1 ATCATATACATTCAATTCAATCAA
*
22973132 ATCATATACATTCAATTCAATTAA
1 ATCATATACATTCAATTCAATCAA
22973156 AT-ATATACATT
1 ATCATATACATT
22973167 TAAATACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 17 0.57
24 6 0.20
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
ATCATATACATTCAATTCAATCAA
Found at i:22975560 original size:2 final size:2
Alignment explanation
Indices: 22975553--22975595 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
22975543 TTACTTTAGA
22975553 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
22975595 A
1 A
22975596 GTTTGAGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22977614 original size:24 final size:22
Alignment explanation
Indices: 22977586--22977639 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
22977576 AGTAATAGTT
* *
22977586 TGCAGATAAGACTTCTAGTAAAAA
1 TGCAGATAAG-CTACCAGT-AAAA
*
22977610 TGCAGACAAGCTACCAGTAAAA
1 TGCAGATAAGCTACCAGTAAAA
22977632 TGC-GATAA
1 TGCAGATAA
22977640 ATCTCCCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.15
22 7 0.27
23 6 0.23
24 9 0.35
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (22 bp):
TGCAGATAAGCTACCAGTAAAA
Found at i:22987191 original size:17 final size:18
Alignment explanation
Indices: 22987155--22987202 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
22987145 TAAAAACATA
*
22987155 AAAATACT-ACACAAATT
1 AAAATACTAAAACAAATT
22987172 AAAATACTAAAACAAA-T
1 AAAATACTAAAACAAATT
*
22987189 -AAATATTAAAACAA
1 AAAATACTAAAACAA
22987203 GAAACAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 13 0.46
17 9 0.32
18 6 0.21
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATACTAAAACAAATT
Found at i:22987395 original size:21 final size:21
Alignment explanation
Indices: 22987358--22987414 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
22987348 AAAATAATAT
* *
22987358 TAAAA-ACAACAACAGAACAA
1 TAAAACACCACAAAAGAACAA
22987378 TAAAACACCACAAAAGAACAA
1 TAAAACACCACAAAAGAACAA
*
22987399 TAAAACAGCATCAAAA
1 TAAAACACCA-CAAAA
22987415 CAGCAGTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 5 0.16
21 22 0.69
22 5 0.16
ACGTcount: A:0.67, C:0.21, G:0.05, T:0.07
Consensus pattern (21 bp):
TAAAACACCACAAAAGAACAA
Done.