Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 175 of 250
Found at i:55862953 original size:24 final size:24
Alignment explanation
Indices: 55862899--55862958 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
55862889 AAAAAAAACT
*
55862899 AAAAAAATAAATGATATAAAAAAG
1 AAAAAAATAAATAATATAAAAAAG
** *
55862923 ATTAAAATAAGTAATA-AAAAAGAG
1 AAAAAAATAAATAATATAAAAA-AG
55862947 AAAAAAAATAAA
1 -AAAAAAATAAA
55862959 GGTTTAAAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 5 0.19
24 14 0.52
25 8 0.30
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAAAAATAAATAATATAAAAAAG
Found at i:55863703 original size:14 final size:14
Alignment explanation
Indices: 55863680--55863709 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
55863670 AAATTGAAAA
55863680 ATAAAGATAAATTG
1 ATAAAGATAAATTG
*
55863694 ATAAATATAAATTG
1 ATAAAGATAAATTG
55863708 AT
1 AT
55863710 TTGAAAGACC
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:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (14 bp):
ATAAAGATAAATTG
Found at i:55866854 original size:176 final size:176
Alignment explanation
Indices: 55866478--55866983 Score: 692
Period size: 176 Copynumber: 2.9 Consensus size: 176
55866468 TGATCATTTG
* * *
55866478 CTACCTCAAGAAGATAAGACTACAATCTTCAACCTGCTTTCTTTCTACCTCAGAGAGATAAGGAT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTC-TTGTACCTCAGAGAGATAAGGAT
* * * * * *
55866543 GGCGGCTAAAATGTACTCCTCTGCTATCTTGGGAAGATAAGATTCGCTATCTTCGATCTGCTCCA
65 GGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCTATCTTTGATCTGCTCCA
* * *
55866608 CTATTGCTTAGGGAGATAAGATC-ACAATCCTCAGTTTGCTTCATTG
130 CTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCATTA
* * *
55866654 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGTACCTCAAAGAGATAATGTTG
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGTACCTCAGAGAGATAAGGATG
* ** * *
55866719 GTAGCTAAAATCTACTCCCCTGCTACCTCGAAAAGATAAGATTCGCCACCTTTGATCTGCTCCAC
66 GTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCTATCTTTGATCTGCTCCAC
** * *
55866784 TACTGCTTAGGGAGATAAGATCTACAATTTTTAGTCTGCTTCCTTA
131 TACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCATTA
* * *
55866830 TTACTTCAGGAAGATAAGACTACAATC-TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTG-TACCTCAGAGAGATAAGGAT
* *
55866894 GGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCTATTTTTTGATCTGCTCC
65 GGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCTA-TCTTTGATCTGCTCC
* *
55866959 TCTACTACTTAGGGAGATAAGATCT
129 ACTACTGCTTAGGGAGATAAGATCT
55866984 TACTTCACCG
Statistics
Matches: 289, Mismatches: 38, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
175 111 0.38
176 142 0.49
177 36 0.12
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGTACCTCAGAGAGATAAGGATG
GTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCTATCTTTGATCTGCTCCAC
TACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCATTA
Found at i:55873726 original size:49 final size:49
Alignment explanation
Indices: 55873615--55873718 Score: 133
Period size: 48 Copynumber: 2.1 Consensus size: 49
55873605 CACGGGTAGT
* * *
55873615 TCACACGCCCGTGTCTATTTAACAGATTGCAACATGGCCTAAGCCACAC
1 TCACACGACCGTGTCTATTTAACAGATTGAAACACGGCCTAAGCCACAC
*
55873664 T-ACACAACCGTGTCTATTTAACAGACTCT-AAACACGGCCTAAGCCAC-C
1 TCACACGACCGTGTCTATTTAACAGA-T-TGAAACACGGCCTAAGCCACAC
55873712 TCACACG
1 TCACACG
55873719 GGCGTGTCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
48 24 0.51
49 22 0.47
50 1 0.02
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (49 bp):
TCACACGACCGTGTCTATTTAACAGATTGAAACACGGCCTAAGCCACAC
Found at i:55875667 original size:44 final size:44
Alignment explanation
Indices: 55875619--55875703 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
55875609 TTGCTTAGGG
** *
55875619 AGATAAGA-TCACAATCCTCAGTCTGCTTTCTTGCTACCTCAGGA
1 AGATAAGACT-ACAATCCTCAACCTGCTCTCTTGCTACCTCAGGA
*
55875663 AGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCA
1 AGATAAGACTACAATCCTCAACCTGCTCTCTTGCTACCTCA
55875704 AAGAGATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 35 0.97
45 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (44 bp):
AGATAAGACTACAATCCTCAACCTGCTCTCTTGCTACCTCAGGA
Found at i:55875711 original size:44 final size:43
Alignment explanation
Indices: 55875618--55875712 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 43
55875608 ATTGCTTAGG
** * *
55875618 GAGATAAGATCACAATCCTCAGTCTGCTTTCTTGCTACCTCAG
1 GAGATAAGATCACAATCCTCAACCTGCTCTCTTGCTACCTCAA
*
55875661 GAAGATAAGA-CTACAATCTTCAACCTGCTCTCTTGCTACCTCAAA
1 G-AGATAAGATC-ACAATCCTCAACCTGCTCTCTTGCTACCTC-AA
55875706 GAGATAA
1 GAGATAA
55875713 TGTTGGTGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.05
44 40 0.91
45 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
GAGATAAGATCACAATCCTCAACCTGCTCTCTTGCTACCTCAA
Found at i:55875777 original size:176 final size:177
Alignment explanation
Indices: 55875473--55875982 Score: 709
Period size: 176 Copynumber: 2.9 Consensus size: 177
55875463 GTCTGATCAT
* * * *
55875473 TTGCTACCTCAAGAAGATAAGACTACAATCTTCAACCTACTTTCTTTCTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAG
* * * *
55875538 GCTGGTGGCTAAAATGTACTCCCCTGCTATCTTGGGAAGATAAGATTCGCTATCTTCGATCTGCT
66 GCTGGTGGCTAAAATCTACTCCCCTGCTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
* *
55875603 CCACTATTGCTTAGGGAGATAAGATC-ACAATCCTCAGTCTGCTTTC
131 CCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
* * *
55875649 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAT
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAG
* * * *
55875714 GTTGGTGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTCGCCACCTTTGATCTGCT
66 GCTGGTGGCTAAAATCTACTCCCCTGCTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
* * *
55875779 CCACTACTGCTTAGGGAGATAAGATCTATAATCTTTAGTCTGCTTCC
131 CCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
* * *
55875826 TTTCT-CTTCAGGAGGATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAG
** * * * *
55875890 GCTGGCAGCTAAAATCTGCTCCCCTACTACCTTGGGATGATAAGATTCGCCATTTTTCGATCTGC
66 GCTGGTGGCTAAAATCTACTCCCCTGCTACCTTGGGAAGATAAGATTCGCCATCTTT-GATCTGC
** *
55875955 TCTTCTACTACTTAGGGAGATAAGATCT
130 TCCACTACTGCTTAGGGAGATAAGATCT
55875983 GACTTCACCG
Statistics
Matches: 294, Mismatches: 38, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
176 242 0.82
177 52 0.18
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (177 bp):
TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAG
GCTGGTGGCTAAAATCTACTCCCCTGCTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
CCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
Found at i:55888237 original size:24 final size:22
Alignment explanation
Indices: 55888210--55888253 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
55888200 AAAAACTAAA
55888210 AAAATAAATGATATAAAAAAGATT
1 AAAATAAAT-A-ATAAAAAAGATT
*
55888234 AAAATAAGTAATAAAAAAGA
1 AAAATAAATAATAAAAAAGA
55888254 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATAAATAATAAAAAAGATT
Found at i:55888261 original size:24 final size:24
Alignment explanation
Indices: 55888207--55888261 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
55888197 AAAAAAAACT
*
55888207 AAAAAAATAAATGATATAAAAAAG
1 AAAAAAATAAATAATATAAAAAAG
** *
55888231 ATTAAAATAAGTAATA-AAAAAGAG
1 AAAAAAATAAATAATATAAAAA-AG
55888255 AAAAAAA
1 AAAAAAA
55888262 AATAAAGGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (24 bp):
AAAAAAATAAATAATATAAAAAAG
Found at i:55891446 original size:30 final size:30
Alignment explanation
Indices: 55891410--55891471 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
55891400 TACTAGGGCG
55891410 ACACAAACAGCGAGAAGAAAAAAGAATTCT
1 ACACAAACAGCGAGAAGAAAAAAGAATTCT
*
55891440 ACACAAACAGCGAGAAGAAAATAGAATTCT
1 ACACAAACAGCGAGAAGAAAAAAGAATTCT
55891470 AC
1 AC
55891472 TTTTGCACAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.55, C:0.18, G:0.16, T:0.11
Consensus pattern (30 bp):
ACACAAACAGCGAGAAGAAAAAAGAATTCT
Found at i:55893831 original size:26 final size:26
Alignment explanation
Indices: 55893795--55893904 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
55893785 TGATGCAAAT
55893795 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
55893821 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
55893847 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
55893873 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
55893899 TGATAA
1 TGATAA
55893905 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 1 0.01
26 80 0.99
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:55895931 original size:136 final size:137
Alignment explanation
Indices: 55895685--55895970 Score: 502
Period size: 136 Copynumber: 2.1 Consensus size: 137
55895675 GAGTAGTCTC
55895685 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTACGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTACGGGCCATAC
*
55895750 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTAGCACAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCACAGTACC
55895815 ACTGTTA
131 ACTGTTA
* *
55895822 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTACGGGCCATAC
* *
55895886 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCACAGTACC
55895951 ACTGTTA
131 ACTGTTA
**
55895958 CCTGAATGGGCTT
1 CCCAAATGGGCTT
55895971 AGGCCCAATG
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 122 0.86
137 20 0.14
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTACGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCACAGTACC
ACTGTTA
Found at i:55897881 original size:24 final size:24
Alignment explanation
Indices: 55897835--55897881 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
55897825 AGGACTGTAA
* *
55897835 AGGAGTTCCAAGATGTTTTTCCGG
1 AGGAGTTCCAAGATGTGTCTCCGG
55897859 AGGAGCTTCCAAGAT-TGTCTCCG
1 AGGAG-TTCCAAGATGTGTCTCCG
55897882 AACCGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (24 bp):
AGGAGTTCCAAGATGTGTCTCCGG
Found at i:55900645 original size:136 final size:137
Alignment explanation
Indices: 55900362--55900633 Score: 528
Period size: 136 Copynumber: 2.0 Consensus size: 137
55900352 GTAGTCTCCC
55900362 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
55900427 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
55900492 TGTTACG
131 TGTTACG
*
55900499 CAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
55900563 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
55900628 TGTTAC
131 TGTTAC
55900634 CTGAATGGGC
Statistics
Matches: 134, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
136 116 0.87
137 18 0.13
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTACG
Found at i:55903577 original size:21 final size:22
Alignment explanation
Indices: 55903528--55903570 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
55903518 AGAAATTTGG
55903528 TAGAGAAAAGAAAGAAAAAGGAA
1 TAGAGAAAAGAAAGAAAAA-GAA
*
55903551 TAGAGAAAAGAAAAAAAAAG
1 TAGAGAAAAGAAAGAAAAAG
55903571 TCAGAGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (22 bp):
TAGAGAAAAGAAAGAAAAAGAA
Found at i:55906552 original size:23 final size:24
Alignment explanation
Indices: 55906509--55906557 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
55906499 ATGGTTTTTT
* *
55906509 AATATTATTTGATAAAGTTTC-AA
1 AATATTATTTCATAAACTTTCTAA
55906532 AATATT-TTTCATAAATCTTTCTAA
1 AATATTATTTCATAAA-CTTTCTAA
55906556 AA
1 AA
55906558 ATAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (24 bp):
AATATTATTTCATAAACTTTCTAA
Found at i:55907246 original size:5 final size:5
Alignment explanation
Indices: 55907236--55907271 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
55907226 TGTGTTCTTA
*
55907236 ATTTT ATTTT ATTTT AATTTT ATTTT ATATT ATTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT
55907272 CACTAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:55907254 original size:16 final size:16
Alignment explanation
Indices: 55907233--55907263 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
55907223 CTGTGTGTTC
55907233 TTAATTTTATTTTATT
1 TTAATTTTATTTTATT
55907249 TTAATTTTATTTTAT
1 TTAATTTTATTTTAT
55907264 ATTATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTAATTTTATTTTATT
Found at i:55912490 original size:21 final size:21
Alignment explanation
Indices: 55912464--55912509 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
55912454 ACATCAATGC
55912464 TCCTATGACATCTAGATATGG
1 TCCTATGACATCTAGATATGG
55912485 TCCTATGACATCTAGATATGG
1 TCCTATGACATCTAGATATGG
55912506 TCCT
1 TCCT
55912510 TCAGGACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (21 bp):
TCCTATGACATCTAGATATGG
Found at i:55913011 original size:18 final size:18
Alignment explanation
Indices: 55912985--55913023 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
55912975 CTCAGGAAAC
*
55912985 TTTATATCCTTGAGGGAT
1 TTTAAATCCTTGAGGGAT
**
55913003 TTTAAATCCTTTTGGGAT
1 TTTAAATCCTTGAGGGAT
55913021 TTT
1 TTT
55913024 CATATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (18 bp):
TTTAAATCCTTGAGGGAT
Found at i:55916872 original size:25 final size:25
Alignment explanation
Indices: 55916838--55916888 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
55916828 TAGTGTCTTA
55916838 GTGTCGAAACTTTGAAAACTTGAAG
1 GTGTCGAAACTTTGAAAACTTGAAG
55916863 GTGTCGAAACTTTGAAAACTTGAAG
1 GTGTCGAAACTTTGAAAACTTGAAG
55916888 G
1 G
55916889 ACTTTTAAAA
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:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (25 bp):
GTGTCGAAACTTTGAAAACTTGAAG
Found at i:55917782 original size:3 final size:3
Alignment explanation
Indices: 55917774--55918039 Score: 189
Period size: 3 Copynumber: 89.7 Consensus size: 3
55917764 GGGTAAAAAT
* *
55917774 ATA ATA AT- ATA A-A AGTA GTA ATA ATA ATA ATA ATG ATA A-A TATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
55917818 GTA ATA ATA ATA GTA ATA A-A A-A AT- AGA ACA ACAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * * * *
55917861 ATA ATA CATTA ATA AAA ATA ATA AGA AT- GTG TTA ATA ATA ATA A-A
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
55917906 TTA ATGA ATTA ATA ATA A-A ATAA ATAA ATA A-A CACA AAA ATA A-A
1 ATA AT-A A-TA ATA ATA ATA AT-A AT-A ATA ATA -ATA ATA ATA ATA
* * *
55917950 AT- ATA ATT ATA ATA GTA ATA CTA A-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55917996 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
55918040 GTGATAAAAC
Statistics
Matches: 212, Mismatches: 30, Indels: 42
0.75 0.11 0.15
Matches are distributed among these distances:
2 21 0.10
3 170 0.80
4 18 0.08
5 3 0.01
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:55921989 original size:97 final size:95
Alignment explanation
Indices: 55921670--55922003 Score: 361
Period size: 97 Copynumber: 3.5 Consensus size: 95
55921660 TAAAATATGC
* *
55921670 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATGAATAAAATTTACCATTTTAGTGGCTAT
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAG-GGCCAT
* * **
55921735 GTCCACTAAGTTTCCAGTACGCCCCACTACTG
65 GTCCACTAGGTTTCCAGTACG-CTCACTGTTG
* * * * * * *
55921767 CTTAAATCCAAACCTTTATTACAAGAAATAAATTCATGAATAAAACTTATCATTTTAGGGGCATG
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGGCCATG
* * **
55921832 -CCTCCTAGGTTTCTAGTACATTC-C-GTCACTG
66 TCC-ACTAGGTTTCCAGTACGCTCACTGT---TG
* * *
55921863 CTGAAATCCAAACTCTCATTACAAGAAATAAATTAGTAAATAAAATTTACCATTTTAGGGACCAT
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGG-CCAT
55921928 GTCC-CTTAGGTTTCCAGTACGCTCAACTGTTG
65 GTCCAC-TAGGTTTCCAGTACGCTC-ACTGTTG
* *
55921960 CTTAAATCCAAACCCTTATTACAATAAATAAATTAATAAATAAA
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAA
55922004 TCCTTAAACT
Statistics
Matches: 194, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
94 1 0.01
95 3 0.02
96 72 0.37
97 113 0.58
98 2 0.01
99 1 0.01
100 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (95 bp):
CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGGCCATG
TCCACTAGGTTTCCAGTACGCTCACTGTTG
Found at i:55923526 original size:7 final size:7
Alignment explanation
Indices: 55923514--55923538 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55923504 AATTATTGAG
55923514 TAAATTT
1 TAAATTT
55923521 TAAATTT
1 TAAATTT
55923528 TAAATTT
1 TAAATTT
55923535 TAAA
1 TAAA
55923539 AAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:55929008 original size:64 final size:64
Alignment explanation
Indices: 55928929--55929062 Score: 169
Period size: 64 Copynumber: 2.1 Consensus size: 64
55928919 AGTGCAGGGT
* * * * * * *
55928929 TCACACAAGCCAAGGACACGGACGTGTGTCTAGGCTATGCAACTCACTGATTACAAGATAAGGA
1 TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACCCACTGATTACAAAATAAGGA
* * *
55928993 TCACACAGGCCAAGGACACGAATATATGTCCAGGCCATGTAACCCACTGATTACAAAATAAGGA
1 TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACCCACTGATTACAAAATAAGGA
*
55929057 CCACAC
1 TCACAC
55929063 GGGTGGAGGA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (64 bp):
TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACCCACTGATTACAAAATAAGGA
Found at i:55931822 original size:24 final size:25
Alignment explanation
Indices: 55931795--55931850 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
55931785 TTGTTTTATG
* *
55931795 TATATATTTTCTTTTAAATCTA-TA
1 TATATATTTCCTTTCAAATCTATTA
55931819 TATATATTTCCTTTCAAATCTATTA
1 TATATATTTCCTTTCAAATCTATTA
*
55931844 TGTATAT
1 TATATAT
55931851 AGTTTATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (25 bp):
TATATATTTCCTTTCAAATCTATTA
Found at i:55931917 original size:22 final size:21
Alignment explanation
Indices: 55931891--55931940 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
55931881 TATATACTTT
*
55931891 TATTATTTAAAACTCTTTTATA
1 TATTATTT-AAACCCTTTTATA
*
55931913 TATTA-TT-ATCCCTTTTATA
1 TATTATTTAAACCCTTTTATA
55931932 TATTATTTA
1 TATTATTTA
55931941 TATTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 2 0.08
22 5 0.21
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTATTTAAACCCTTTTATA
Found at i:55932230 original size:52 final size:52
Alignment explanation
Indices: 55932152--55932251 Score: 200
Period size: 52 Copynumber: 1.9 Consensus size: 52
55932142 ACATTTGATA
55932152 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
55932204 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTT
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTT
55932252 TATATTATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (52 bp):
TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
Found at i:55932987 original size:17 final size:17
Alignment explanation
Indices: 55932961--55932994 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55932951 TATATAATTG
*
55932961 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
55932978 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
55932995 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:55934235 original size:24 final size:24
Alignment explanation
Indices: 55934169--55934251 Score: 103
Period size: 24 Copynumber: 3.5 Consensus size: 24
55934159 GAAATGATTT
**
55934169 TGGCACTATGTGTGCAAATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
55934193 TGGCACTATGTGTGTGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
*
55934217 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
55934241 TGTCAATATGT
1 TGGCACTATGT
55934252 ATGTGAATTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:55934280 original size:48 final size:48
Alignment explanation
Indices: 55934169--55934281 Score: 131
Period size: 48 Copynumber: 2.4 Consensus size: 48
55934159 GAAATGATTT
** * * * *
55934169 TGGCACTATGTGTGCAAATTTGAATGGCACTATGTGTGTGGATTTGTA
1 TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGTGAATTTGTA
*
55934217 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACT-TA
1 TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGTGAATT--TGTA
55934266 -GGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
55934282 GTTAACATGG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 53 0.95
49 2 0.04
50 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (48 bp):
TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGTGAATTTGTA
Found at i:55940453 original size:17 final size:17
Alignment explanation
Indices: 55940427--55940460 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55940417 TATATAATTG
*
55940427 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
55940444 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
55940461 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:55941354 original size:46 final size:46
Alignment explanation
Indices: 55941301--55941476 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
55941291 TATTTGGGCA
55941301 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55941347 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
55941392 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
55941440 CCCGAGCTCGTTGAGTTGAGTCCGATTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55941477 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55941456 original size:93 final size:93
Alignment explanation
Indices: 55941297--55941469 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
55941287 AGGATATTTG
* * *
55941297 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
55941362 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
55941390 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
*
55941455 TTGAGTCCGATTTCG
66 TTGAGTCCGAGTTCG
55941470 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55946395 original size:46 final size:46
Alignment explanation
Indices: 55946342--55946470 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
55946332 TATTTGGGCA
*
55946342 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
55946388 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
55946434 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55946471 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 74 0.99
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55948934 original size:24 final size:24
Alignment explanation
Indices: 55948907--55949013 Score: 133
Period size: 24 Copynumber: 4.5 Consensus size: 24
55948897 GAAATGATTT
* *
55948907 TGGCACTATGTGCGTGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
55948931 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
55948955 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
55948979 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
55949003 TGTCAATATGT
1 TGGCACTATGT
55949014 ACGTGAATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 75 1.00
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:55948962 original size:48 final size:48
Alignment explanation
Indices: 55948907--55949042 Score: 150
Period size: 48 Copynumber: 2.8 Consensus size: 48
55948897 GAAATGATTT
* *
55948907 TGGCACTATGTGCGTGAATTTGAATGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGCGTGAATTTGAATGGCACTATGTGTGCGAATTGGAA
* * * * *
55948955 TGGCACTATGTGTGCGGATTTGTATGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGCGTGAATTTGAATGGCACTATGTGTGCGAATTGGAA
* * *
55949003 TGTCAATATGTACGTGAATTACT-AA-GGCACTATGTGTGCG
1 TGGCACTATGTGCGTGAATT--TGAATGGCACTATGTGTGCG
55949043 GGTTAACATG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
48 70 0.97
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (48 bp):
TGGCACTATGTGCGTGAATTTGAATGGCACTATGTGTGCGAATTGGAA
Found at i:55952085 original size:18 final size:18
Alignment explanation
Indices: 55952050--55952083 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55952040 GCCGACGAAT
*
55952050 AAAACACAAACCCGAAAC
1 AAAACACAAAACCGAAAC
55952068 AAAAC-CAAAACCGAAA
1 AAAACACAAAACCGAAA
55952084 ACTTAGTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.29, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAACACAAAACCGAAAC
Found at i:55953222 original size:130 final size:130
Alignment explanation
Indices: 55952899--55953224 Score: 489
Period size: 131 Copynumber: 2.5 Consensus size: 130
55952889 GAAAAATCGA
* * *
55952899 AACCCAGCACGGTAGAGCATGATTCCCCGAATTTCCAAACATTGAACATTGCCTT-GTTTT-AGA
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAGA
* * *
55952962 A-TTTAAAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCGAACGAGAAATTGC
66 ATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGC
* * *
55953026 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTGAAG
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTT-AAG
* * *
55953091 AATTTTCAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTG
65 AATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTG
55953156 C
130 C
*
55953157 AACCCAGCA-GGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCATTCGTTTTAAAG
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTT-AAG
55953221 AATT
65 AATT
55953225 CTTGAATGAA
Statistics
Matches: 178, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
127 49 0.28
128 5 0.03
130 58 0.33
131 66 0.37
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (130 bp):
AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAGA
ATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGC
Found at i:55955116 original size:10 final size:10
Alignment explanation
Indices: 55955070--55955117 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
55955060 TAAAATTATT
55955070 TTATTATATA
1 TTATTATATA
55955080 TTATT-TCATA
1 TTATTAT-ATA
55955090 TTATTATTATTA
1 TTATTA-TA-TA
55955102 TTTATTATATA
1 -TTATTATATA
55955113 TTATT
1 TTATT
55955118 TTTCACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 1 0.03
10 18 0.55
11 3 0.09
12 5 0.15
13 6 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATTATATA
Found at i:55955117 original size:23 final size:24
Alignment explanation
Indices: 55955040--55955117 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 24
55955030 TTTTTAACCT
*
55955040 TATTTTTA-TATTATATATTATAA
1 TATTATTATTATTATATATTATAA
* *
55955063 AATTATT-TTATTATATATTATTTCA
1 TATTATTATTATTATATATTA--TAA
*
55955088 TATTATTATTATTATTTATTAT-A
1 TATTATTATTATTATATATTATAA
55955111 TATTATT
1 TATTATT
55955118 TTTCACAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
23 25 0.54
24 1 0.02
25 8 0.17
26 12 0.26
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTATTATTATATATTATAA
Found at i:55955132 original size:3 final size:3
Alignment explanation
Indices: 55955064--55955117 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
55955054 ATATTATAAA
*
55955064 ATT ATT -TT ATT ATAT ATT ATT -TC A-T ATT ATT ATT ATT ATTT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
55955108 ATAT ATT ATT
1 AT-T ATT ATT
55955118 TTTCACAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 4 0.09
3 30 0.70
4 9 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:55955469 original size:22 final size:21
Alignment explanation
Indices: 55955444--55955488 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
55955434 ATTAATTACT
* *
55955444 TATTTTATACTTATATTATATA
1 TATTATATAATTATATTAT-TA
*
55955466 TATTATATAATTATTTTATTA
1 TATTATATAATTATATTATTA
55955487 TA
1 TA
55955489 AATATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATATAATTATATTATTA
Found at i:55958778 original size:45 final size:43
Alignment explanation
Indices: 55958679--55958804 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 43
55958669 TGTTTTTATC
* ** *
55958679 CTGCTCTACTGCAACTTCAAAGAGATAAGGATTGTGACTTCGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTAACTTCGAT
*
55958723 CTGCTCCACTGCAACTTCAGGGAAATAAGATCTGCTAACTTC-AGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TAACTTCGA-T
*
55958768 CTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAA
55958805 TTTACAGCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
43 3 0.04
44 30 0.42
45 37 0.52
46 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAACTTCGAT
Found at i:55958924 original size:87 final size:87
Alignment explanation
Indices: 55958809--55959151 Score: 382
Period size: 87 Copynumber: 3.9 Consensus size: 87
55958799 TTGTAATTTA
* * *
55958809 CAGCCTGTTACCTTACTGCTTAGGGGGTTAAGG-TCACCGTCTTCGATTTGCTCCACTACTACTT
1 CAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCT-ACCGTCTTCGATCTGCTCCACTACTACTT
* *
55958873 AGGAAGACAAGATCTACAATCTT
65 AGGGAGACAAGATCTGCAATCTT
** * * * * * *
55958896 TGGCTTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTTGATCTGTTCCACTGCAACTT
1 CAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCT-ACCGTCTTCGATCTGCTCCACTACTACTT
* *
55958961 CAGGGGGACAAGATCTGTAATCTT
65 -AGGGAGACAAGATCTGCAATCTT
* ** * * * **
55958985 CAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCTTCTTCAATTTGCTCCACTACTGTTTA
1 CAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTACCGTCTTCGATCTGCTCCACTACTACTTA
55959050 GGGAGACAAGATCTGCAATCTT
66 GGGAGACAAGATCTGCAATCTT
* ** * * *
55959072 CAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTTGCTTCTTCGATCTGCTCCACTACTGCTCA
1 CAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTACCGTCTTCGATCTGCTCCACTACTACTTA
*
55959137 GGGAGGCAAGATCTG
66 GGGAGACAAGATCTG
55959152 TGAATTCACT
Statistics
Matches: 214, Mismatches: 40, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
87 122 0.57
88 42 0.20
89 50 0.23
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (87 bp):
CAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTACCGTCTTCGATCTGCTCCACTACTACTTA
GGGAGACAAGATCTGCAATCTT
Found at i:55959029 original size:43 final size:43
Alignment explanation
Indices: 55958981--55959115 Score: 107
Period size: 43 Copynumber: 3.1 Consensus size: 43
55958971 AGATCTGTAA
55958981 TCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCT
1 TCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCT
*** * ** ** * *
55959024 TCTTCAATTTGCT-CCACTACTGTTTAG-GGAGACAA-GATCTGCAA
1 TCTTCAGCCTGTTACC-CTACTACTTAGAGG-GTTAAGGCT-TGC-T
55959068 TCTTCAGCCTGTTACCCTACTACTTA-AGGGGTTAAGGCTTGCT
1 TCTTCAGCCTGTTACCCTACTACTTAGA-GGGTTAAGGCTTGCT
55959111 TCTTC
1 TCTTC
55959116 GATCTGCTCC
Statistics
Matches: 64, Mismatches: 20, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
42 6 0.09
43 29 0.45
44 23 0.36
45 6 0.09
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (43 bp):
TCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCT
Found at i:55959071 original size:176 final size:175
Alignment explanation
Indices: 55958767--55959128 Score: 469
Period size: 176 Copynumber: 2.1 Consensus size: 175
55958757 CTAACTTCAG
* * *
55958767 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTAATTTACAGCCTGTTACCTTACTGCTTAG
1 TCTGCTCCACTGCAACCTCAGGGAGACAAGACTTGTAATTTACAGCCTGTTACCCTACTACTTAG
* * *
55958832 GGGGTTAAGGTCACCGTCTTCGATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTT
66 AGGGTTAAGGTCACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTC
* * * *
55958897 GGCTTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTTGA
131 AGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCACT-TCTTCGA
* * *
55958943 TCTGTTCCACTGCAACTTCAGGGGGACAAGA-TCTGTAATCTT-CAGCCTGTTACCCTACTACTT
1 TCTGCTCCACTGCAACCTCAGGGAGACAAGACT-TGTAAT-TTACAGCCTGTTACCCTACTACTT
** * ** * *
55959006 AGAGGGTTAAGG-CTTGCTTCTTCAATTTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAATC
64 AGAGGGTTAAGGTC-ACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATC
**
55959070 TTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTTGCTTCTTCGA
128 TTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCACTTCTTCGA
55959118 TCTGCTCCACT
1 TCTGCTCCACT
55959129 ACTGCTCAGG
Statistics
Matches: 160, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
175 18 0.11
176 140 0.88
177 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (175 bp):
TCTGCTCCACTGCAACCTCAGGGAGACAAGACTTGTAATTTACAGCCTGTTACCCTACTACTTAG
AGGGTTAAGGTCACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTC
AGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCACTTCTTCGA
Found at i:55970863 original size:131 final size:129
Alignment explanation
Indices: 55970528--55970855 Score: 473
Period size: 131 Copynumber: 2.5 Consensus size: 129
55970518 GTCCAACGAA
* * *
55970528 AAATTGAAACCCAACAAGGTAGAGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTT-GT
1 AAATTGAAACCCAACACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGT
* ** * *
55970592 TTT-AGAATATAGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGAAAATGGG
66 TTTAAGAATTTTCAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAGAAAACGGG
* * * * *
55970655 AAATTGCAACCCAACACGATGGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGT
1 AAATTGAAACCCAACACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGT
55970720 TTTGAAGAATTTTCAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGA-ACAAACG
66 TTT-AAGAATTTTCAAA-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAGA-AAACG
55970784 GG
128 GG
* *
55970786 AAATTGTAACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGT
1 AAATTGAAACCCAACACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGT
55970851 TTTAA
66 TTTAA
55970856 AAAATTTTTG
Statistics
Matches: 177, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
127 54 0.31
128 5 0.03
130 12 0.07
131 106 0.60
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (129 bp):
AAATTGAAACCCAACACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGT
TTTAAGAATTTTCAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAGAAAACGGG
Found at i:55980589 original size:18 final size:18
Alignment explanation
Indices: 55980566--55980621 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
55980556 TCACTTTTTA
55980566 ATATTTATGAGCATATTT
1 ATATTTATGAGCATATTT
* **
55980584 ATATTT-T-A-TATA-AA
1 ATATTTATGAGCATATTT
55980598 ATATTTATGAGCATATTT
1 ATATTTATGAGCATATTT
55980616 ATATTT
1 ATATTT
55980622 TATAAAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 6 0.21
15 4 0.14
16 2 0.07
17 4 0.14
18 12 0.43
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.52
Consensus pattern (18 bp):
ATATTTATGAGCATATTT
Found at i:55980591 original size:19 final size:19
Alignment explanation
Indices: 55980569--55980624 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
55980559 CTTTTTAATA
55980569 TTTATGAGCATATTTATAT
1 TTTATGAGCATATTTATAT
**
55980588 TTTAT----ATA-AAATA-
1 TTTATGAGCATATTTATAT
55980601 TTTATGAGCATATTTATAT
1 TTTATGAGCATATTTATAT
55980620 TTTAT
1 TTTAT
55980625 AAAAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 3 0.11
17 3 0.11
18 3 0.11
19 10 0.37
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (19 bp):
TTTATGAGCATATTTATAT
Found at i:55980650 original size:30 final size:32
Alignment explanation
Indices: 55980565--55980642 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
55980555 TTCACTTTTT
55980565 AATATTTATGAGCATATTTATATTTTATATAA
1 AATATTTATGAGCATATTTATATTTTATATAA
55980597 AATATTTATGAGCATATTTATATTTTATA-AA
1 AATATTTATGAGCATATTTATATTTTATATAA
55980628 AATATTTA-GAG-ATAT
1 AATATTTATGAGCATAT
55980643 CTAATATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
29 4 0.09
30 3 0.07
31 10 0.22
32 29 0.63
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (32 bp):
AATATTTATGAGCATATTTATATTTTATATAA
Found at i:55984175 original size:17 final size:18
Alignment explanation
Indices: 55984148--55984198 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
55984138 AAAAGGTATT
*
55984148 TTTGAAATTTTTTAAAAA
1 TTTGAAATTTTTAAAAAA
55984166 TTTG-AATTTTTAAAAAA
1 TTTGAAATTTTTAAAAAA
* * *
55984183 TATAAAATATTTAAAA
1 TTTGAAATTTTTAAAA
55984199 TGATAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (18 bp):
TTTGAAATTTTTAAAAAA
Found at i:55984353 original size:18 final size:18
Alignment explanation
Indices: 55984330--55984364 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55984320 AATTTTATTA
55984330 AAAAATACTATGAAATTG
1 AAAAATACTATGAAATTG
* *
55984348 AAAAATATTATTAAATT
1 AAAAATACTATGAAATT
55984365 TTATTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAAATACTATGAAATTG
Found at i:55984386 original size:40 final size:40
Alignment explanation
Indices: 55984309--55984387 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
55984299 TTATAATATT
**
55984309 AAAATATTAAAAATTTTATTAAAAAATACTATGAAATTGA
1 AAAATATTAAAAATTTTATTAAAAAATACTAAAAAATTGA
* *
55984349 AAAATATTATTAAATTTTATTAAAAAGTA-TAAAAAATTG
1 AAAATATTA-AAAATTTTATTAAAAAATACTAAAAAATTG
55984388 TTTCAAATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 17 0.50
41 17 0.50
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (40 bp):
AAAATATTAAAAATTTTATTAAAAAATACTAAAAAATTGA
Found at i:55984667 original size:55 final size:55
Alignment explanation
Indices: 55984599--55984702 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
55984589 GTGAGCACCC
* * *
55984599 ATAACGGGTGAGCTCTTAGGGAGCTC-TCCAGAGCCTACATGTCAGGCAAGCACTT
1 ATAACAGGCGAGCTCTTAGGGAGCTCGT-CAGAGCCTACATGTCAAGCAAGCACTT
* *
55984654 ATAACAGGCGAGCTCTTGGGGAGCTCGTCAGAGCCTACGTGTCAAGCAA
1 ATAACAGGCGAGCTCTTAGGGAGCTCGTCAGAGCCTACATGTCAAGCAA
55984703 ACAGGGTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (55 bp):
ATAACAGGCGAGCTCTTAGGGAGCTCGTCAGAGCCTACATGTCAAGCAAGCACTT
Found at i:55985729 original size:24 final size:24
Alignment explanation
Indices: 55985702--55985755 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
55985692 GAAAATCCAA
55985702 TTATTTTTGCTCCTAGCTTTATAC
1 TTATTTTTGCTCCTAGCTTTATAC
*
55985726 TTATTTTTGCTCCTAGCTTTATCC
1 TTATTTTTGCTCCTAGCTTTATAC
55985750 TTATTT
1 TTATTT
55985756 GTTTGGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.15, C:0.20, G:0.07, T:0.57
Consensus pattern (24 bp):
TTATTTTTGCTCCTAGCTTTATAC
Found at i:55992490 original size:43 final size:43
Alignment explanation
Indices: 55992429--55992510 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
55992419 GTAGATGAGG
55992429 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
1 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
55992472 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCT
1 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCT
55992511 ATTACTTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (43 bp):
GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
Found at i:56006989 original size:20 final size:20
Alignment explanation
Indices: 56006964--56007001 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56006954 TCTTTTCTTT
*
56006964 TCTTTTTTTTTAATTTGGAC
1 TCTTTTGTTTTAATTTGGAC
*
56006984 TCTTTTGTTTTATTTTGG
1 TCTTTTGTTTTAATTTGG
56007002 TTCAATTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.08, G:0.13, T:0.68
Consensus pattern (20 bp):
TCTTTTGTTTTAATTTGGAC
Found at i:56008471 original size:21 final size:18
Alignment explanation
Indices: 56008430--56008480 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 18
56008420 ATATATATGT
56008430 AATATAAAAAATTAAATA
1 AATATAAAAAATTAAATA
*
56008448 AATATAATGAAATGTAATATA
1 AATATAA-AAAAT-TAA-ATA
*
56008469 AATATAACAAAT
1 AATATAAAAAAT
56008481 ATTTTTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 7 0.25
21 10 0.36
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AATATAAAAAATTAAATA
Found at i:56010574 original size:206 final size:206
Alignment explanation
Indices: 56010209--56010970 Score: 1168
Period size: 206 Copynumber: 3.7 Consensus size: 206
56010199 AAATCTACTT
* * * * *
56010209 CTTCGATTTGTTCCCTGACAATACAGAGATGGCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * *
56010274 GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
56010339 GGATTTCCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATG
131 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
56010404 GAGATGCCAAA
196 GAGATGCCAAA
* * *
56010415 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * *
56010480 GTGAAAGCTAAATTAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
* *
56010544 TGGATCTGCTTCAGTCTAATCATTTGAAGGTTAGATTTGCTATGTGTCTGCCCTCCGTCGAATAT
130 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
56010609 GGAGACGCCAAA
195 GGAGATGCCAAA
* *
56010621 CTTCGATCTGCTCTCTGACAATATAGAGATGCCAAATCATCTTAGACTTACTTCAGCGTAAGCAC
1 CTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* *
56010686 GTGAAAGCTAAATCAGCTATGAT-TTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
* * * *
56010750 TGGAGCTGCTTCAATCTAGTCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATAT
130 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
56010815 GAAGATGCCAAA
195 GGAGATGCCAAA
* * *
56010827 CTTCGATCTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* **
56010892 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
56010957 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
56010971 CTAGATCTGC
Statistics
Matches: 509, Mismatches: 44, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
205 1 0.00
206 500 0.98
207 8 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (206 bp):
CTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
GAGATGCCAAA
Found at i:56021237 original size:57 final size:57
Alignment explanation
Indices: 56021169--56021302 Score: 250
Period size: 57 Copynumber: 2.4 Consensus size: 57
56021159 ACTTCCATAT
*
56021169 ATATTCGGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
1 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
56021226 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
1 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
*
56021283 ATATTCTACGATTCCTTTAT
1 ATATTCTGCGATTCCTTTAT
56021303 TTTTCTTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 75 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (57 bp):
ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
Found at i:56022703 original size:18 final size:19
Alignment explanation
Indices: 56022663--56022703 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
56022653 AGAATAAGTT
56022663 TTTAATTAAATAAATTTAA
1 TTTAATTAAATAAATTTAA
* *
56022682 -TTAATTGAA-AATTTTAA
1 TTTAATTAAATAAATTTAA
56022699 TTTAA
1 TTTAA
56022704 ATATACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTAATTAAATAAATTTAA
Found at i:56025470 original size:13 final size:13
Alignment explanation
Indices: 56025454--56025478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56025444 TTTAGTTTAG
56025454 TATTTTATTTACT
1 TATTTTATTTACT
56025467 TATTTTATTTAC
1 TATTTTATTTAC
56025479 ATTTATACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTTACT
Found at i:56025579 original size:16 final size:16
Alignment explanation
Indices: 56025554--56025588 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
56025544 TAATTCCCAT
*
56025554 TTTATTTATTTACGTA
1 TTTATCTATTTACGTA
*
56025570 TTTATCTATTTACTTA
1 TTTATCTATTTACGTA
56025586 TTT
1 TTT
56025589 TTACAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTATCTATTTACGTA
Found at i:56025767 original size:3 final size:3
Alignment explanation
Indices: 56025752--56025795 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
56025742 TCATTCGCTT
* * * *
56025752 TTA TTA TTG TTA TTA TCA CTA TTA TTA TTA CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
56025796 TAGGGTTACT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:56028527 original size:19 final size:20
Alignment explanation
Indices: 56028503--56028546 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
56028493 AAAAGATTTT
56028503 CCACAAATCCGATGAT-AAC
1 CCACAAATCCGATGATAAAC
56028522 CCACAAATCCGATGATAAAC
1 CCACAAATCCGATGATAAAC
56028542 CCACA
1 CCACA
56028547 TATAGTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.14
Consensus pattern (20 bp):
CCACAAATCCGATGATAAAC
Found at i:56029081 original size:11 final size:11
Alignment explanation
Indices: 56029036--56029084 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
56029026 AGATAAATAT
*
56029036 TATTTTATTAA
1 TATTTTATTAG
*
56029047 TATTTTAATAAG
1 TATTTT-ATTAG
56029059 ATATTTTATTAG
1 -TATTTTATTAG
56029071 TATTTTATTAG
1 TATTTTATTAG
56029082 TAT
1 TAT
56029085 ATAAAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.61
12 7 0.21
13 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (11 bp):
TATTTTATTAG
Found at i:56030366 original size:24 final size:24
Alignment explanation
Indices: 56030315--56030583 Score: 414
Period size: 24 Copynumber: 11.0 Consensus size: 24
56030305 ACTTTATCAT
*
56030315 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
56030340 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
56030364 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
56030388 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56030412 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
56030437 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
56030461 TTAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56030485 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
56030510 ATAATTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
56030535 ATAATTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
56030560 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56030584 CACTTCCTCC
Statistics
Matches: 233, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
24 124 0.53
25 109 0.47
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:56030448 original size:73 final size:72
Alignment explanation
Indices: 56030314--56030582 Score: 416
Period size: 73 Copynumber: 3.7 Consensus size: 72
56030304 TACTTTATCA
* *
56030314 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTTAATAACTGGGGCAT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCAT
56030377 AAGCCCTTT
64 AAGCCCTTT
56030386 TGATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATA
1 T-ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATA
56030451 AGCCCTTT
65 AGCCCTTT
*
56030459 TATTAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAATTGGGGCATA
1 TA-TAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATA
56030524 AGCCCTTTT
65 AGCCC-TTT
* *
56030533 TAATAATTGGGGCATAAGCCCTTTTTAATAATTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCCTTTT
56030583 ACACTTCCTC
Statistics
Matches: 185, Mismatches: 5, Indels: 11
0.92 0.02 0.05
Matches are distributed among these distances:
72 30 0.16
73 106 0.57
74 21 0.11
75 28 0.15
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (72 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAA
GCCCTTT
Found at i:56030660 original size:20 final size:20
Alignment explanation
Indices: 56030635--56030698 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
56030625 TGAAGACATA
56030635 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
*
56030655 ATGTGCATATCATACATGTC
1 ATGTGCATATCATACATATC
*
56030675 ATGTGCATATCATACATACC
1 ATGTGCATATCATACATATC
56030695 ATGT
1 ATGT
56030699 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:56030665 original size:11 final size:11
Alignment explanation
Indices: 56030635--56030687 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
56030625 TGAAGACATA
56030635 ATGTGCATATC
1 ATGTGCATATC
*
56030646 A--TACATATC
1 ATGTGCATATC
56030655 ATGTGCATATC
1 ATGTGCATATC
* *
56030666 A--TACATGTC
1 ATGTGCATATC
56030675 ATGTGCATATC
1 ATGTGCATATC
56030686 AT
1 AT
56030688 ACATACCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
ATGTGCATATC
Found at i:56030767 original size:25 final size:25
Alignment explanation
Indices: 56030735--56030782 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
56030725 ATATATAAAC
* *
56030735 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGAAAAATGGTCATTTTTA
56030760 CCTAGGGGAAAAATGGTCATTTT
1 CCTAGGGGAAAAATGGTCATTTT
56030783 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGAAAAATGGTCATTTTTA
Found at i:56033462 original size:31 final size:30
Alignment explanation
Indices: 56033415--56033474 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
56033405 TATTCACTTA
*
56033415 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
*
56033445 TTAATTTTTATTATTATTTTAGAGGCATTT
1 TTAA-TTTTATTATTATTTTAAAGGCATTT
56033475 ACTTGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:56034776 original size:27 final size:27
Alignment explanation
Indices: 56034730--56035022 Score: 326
Period size: 27 Copynumber: 11.0 Consensus size: 27
56034720 CCAAATTATT
* *
56034730 GAAATACCC-CCAATTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
56034756 -AAAGTACCCCCGATTTATAAAATTACC
1 GAAA-TACCCTCGATTTGTAAAATTACC
* *
56034783 CAAATATCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
56034810 GAAATACCGTCGA-TTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
56034836 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
56034863 GAAATACCGTCGA-TTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
**
56034889 GAAATACCCTCGATTTGTAAAATTATT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
56034916 GAAATACCCTC-AGTTTGCAAAATTACT
1 GAAATACCCTCGA-TTTGTAAAATTACC
* ** * *
56034943 AAAATACCCTTAATTTGTAATATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
**
56034970 GAAATACCCTCGCCTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
56034997 AAAATACCCTCGATTTATAGAATTAC
1 GAAATACCCTCGATTTGTAAAATTAC
56035023 AGTTTTACCC
Statistics
Matches: 228, Mismatches: 32, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
25 3 0.01
26 55 0.24
27 166 0.73
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:56035035 original size:54 final size:53
Alignment explanation
Indices: 56034743--56035022 Score: 328
Period size: 53 Copynumber: 5.2 Consensus size: 53
56034733 ATACCCCCAA
* * * *
56034743 TTGTAAAATTACC-AAAGTACCCCCGATTTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCGAAA-TACCCTCGA-TTGTAAAATTACCAAAATACCCTCGAT
* *
56034797 TTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACCGAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCCTCGATTGTAAAATTACCAAAATACCCTCGAT
* **
56034850 TTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCCTCGATTGTAAAATTACCAAAATACCCTCGAT
** * * * **
56034903 TTGTAAAATTATTGAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTTAAT
1 TTGTAAAATTACCGAAATACCCTC-GATTGTAAAATTACCAAAATACCCTCGAT
* * *
56034957 TTGTAATATTACTGAAATACCCTCGCCTTGTAAAATTACCAAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCCTCG-ATTGTAAAATTACCAAAATACCCTCGAT
* *
56035011 TTATAGAATTAC
1 TTGTAAAATTAC
56035023 AGTTTTACCC
Statistics
Matches: 199, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 98 0.49
54 98 0.49
55 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
TTGTAAAATTACCGAAATACCCTCGATTGTAAAATTACCAAAATACCCTCGAT
Found at i:56035058 original size:27 final size:27
Alignment explanation
Indices: 56034743--56035059 Score: 282
Period size: 27 Copynumber: 11.8 Consensus size: 27
56034733 ATACCCCCAA
* * *
56034743 TTGTAAAATTACCAAAGTACCCCCGAT
1 TTGTAAAATTACTAAAATACCCTCGAT
* ** *
56034770 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACTAAAATACCCTCGAT
** *
56034797 TTGTAAAATTACCGAAATACCGTCGA-
1 TTGTAAAATTACTAAAATACCCTCGAT
**
56034823 TTGTAAAATTACCGAAATACCCTCGAT
1 TTGTAAAATTACTAAAATACCCTCGAT
** *
56034850 TTGTAAAATTACCGAAATACCGTCGA-
1 TTGTAAAATTACTAAAATACCCTCGAT
*
56034876 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACTAAAATACCCTCGAT
* *
56034903 TTGTAAAATTATTGAAATACCCTC-AGT
1 TTGTAAAATTACTAAAATACCCTCGA-T
* **
56034930 TTGCAAAATTACTAAAATACCCTTAAT
1 TTGTAAAATTACTAAAATACCCTCGAT
* * **
56034957 TTGTAATATTACTGAAATACCCTCGCC
1 TTGTAAAATTACTAAAATACCCTCGAT
*
56034984 TTGTAAAATTACCAAAATACCCTCGAT
1 TTGTAAAATTACTAAAATACCCTCGAT
* * ***
56035011 TTATAGAATTAC-AGTTTTACCCTCGAT
1 TTGTAAAATTACTA-AAATACCCTCGAT
** *
56035038 TTACAAAATTATTAAAATACCC
1 TTGTAAAATTACTAAAATACCC
56035060 CTGTAGGGTA
Statistics
Matches: 243, Mismatches: 41, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 51 0.21
27 190 0.78
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCTCGAT
Found at i:56035075 original size:27 final size:27
Alignment explanation
Indices: 56035052--56035291 Score: 277
Period size: 27 Copynumber: 9.0 Consensus size: 27
56035042 AAAATTATTA
* *
56035052 AAATACCCCTGTAGGGTAGTATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
56035079 AAATACCCCTGTA-GGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
56035105 AAATACCCCTATA-AGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** * *
56035131 AAATACCATTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
56035158 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
56035185 AAATACCCCTGTAGGATAGGATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
56035212 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
56035239 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * * *
56035266 AGATTCCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
56035292 ATTTTACCCC
Statistics
Matches: 181, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 45 0.25
27 136 0.75
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:56035228 original size:81 final size:80
Alignment explanation
Indices: 56035052--56035266 Score: 324
Period size: 81 Copynumber: 2.7 Consensus size: 80
56035042 AAAATTATTA
* * *
56035052 AAATACCCCTGTAGGGTAGTATTATCGAAATACCCCTGTA-GGTAGAATTACCGAAATACCCCTA
1 AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTA
56035116 TAAGTAGAATTACCG
66 TAAGTAGAATTACCG
* * * *
56035131 AAATACCATTGTAGGGTAGAAATATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTA
* * *
56035196 TAGGATAGGATTACTG
66 TAAG-TAGAATTACCG
56035212 AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCGA
1 AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCGA
56035267 GATTCCCTTG
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
79 35 0.29
80 25 0.21
81 61 0.50
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (80 bp):
AAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTA
TAAGTAGAATTACCG
Found at i:56035771 original size:22 final size:22
Alignment explanation
Indices: 56035719--56035772 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
56035709 TTAAAGCCTT
*
56035719 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGCGCCAAC
* *
56035741 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGCGCCAAC
56035763 CTGATTATGG
1 CTGATTATGG
56035773 TTGTGTGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGCGCCAAC
Found at i:56035779 original size:22 final size:21
Alignment explanation
Indices: 56035719--56035780 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
56035709 TTAAAGCCTT
*
56035719 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGG-TTTGTGCCAAC
* *
56035741 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGG-TTTGTGCCAAC
56035763 CTGATTATGGTTGTGTGC
1 CTGATTATGGTT-TGTGC
56035781 AAAACGTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.06
22 29 0.91
23 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (21 bp):
CTGATTATGGTTTGTGCCAAC
Found at i:56036029 original size:27 final size:26
Alignment explanation
Indices: 56035942--56036049 Score: 103
Period size: 27 Copynumber: 4.1 Consensus size: 26
56035932 ATTGTGTTAA
* * *
56035942 GTGGCTTTGCTACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCT-TTTCTG
*
56035969 GTGGCTATGCCACAAATAT-TTATT-TG
1 GTGGCTCTGCCAC-AATATCTT-TTCTG
56035995 GTGGCTCTGCCACAATATCTTTATCTG
1 GTGGCTCTGCCACAATATCTTT-TCTG
* * *
56036022 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTTTTCTG
56036048 GT
1 GT
56036050 AGCCATGCTG
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
25 6 0.09
26 24 0.35
27 35 0.51
28 4 0.06
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTTTTCTG
Found at i:56036181 original size:6 final size:6
Alignment explanation
Indices: 56036170--56036263 Score: 66
Period size: 6 Copynumber: 15.2 Consensus size: 6
56036160 ATTCATATTT
* * *
56036170 TGATTC TGATTC TG-TTACC TGATAC TGATTC TGATTC TG-TCACC TAATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGAT--TC TGATTC
* * * *
56036220 TAATTC TGATTC TGATTC TGTTATC TGATAC TGATTC TAATTC T
1 TGATTC TGATTC TGATTC TGAT-TC TGATTC TGATTC TGATTC T
56036264 CATTTTGGTT
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
5 3 0.04
6 55 0.79
7 10 0.14
8 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:56036197 original size:19 final size:17
Alignment explanation
Indices: 56036170--56036257 Score: 61
Period size: 19 Copynumber: 4.8 Consensus size: 17
56036160 ATTCATATTT
*
56036170 TGATTCTGATTCTGTTACC
1 TGATACTGATTCTGTT--C
56036189 TGATACTGATTCTGATTC
1 TGATACTGATTCTG-TTC
* *
56036207 TG-TCACCTAATTCTAATTC
1 TGAT-A-CTGATTCT-GTTC
*
56036226 TGATTCTGATTCTGTTATC
1 TGATACTGATTCTG-T-TC
56036245 TGATACTGATTCT
1 TGATACTGATTCT
56036258 AATTCTCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
17 1 0.02
18 12 0.22
19 39 0.71
20 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (17 bp):
TGATACTGATTCTGTTC
Found at i:56036198 original size:25 final size:25
Alignment explanation
Indices: 56036170--56036263 Score: 98
Period size: 25 Copynumber: 3.5 Consensus size: 25
56036160 ATTCATATTT
56036170 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTGATAC
* *
56036195 TGATTCTGATTCTGTCACCTAATTCTAATTC
1 TGATTCTGATTCTGTTACCTGA---T-A--C
*
56036226 TGATTCTGATTCTGTTATCTGATAC
1 TGATTCTGATTCTGTTACCTGATAC
*
56036251 TGATTCTAATTCT
1 TGATTCTGATTCT
56036264 CATTTTGGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
25 33 0.58
27 1 0.02
28 2 0.04
29 1 0.02
31 20 0.35
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCTGATAC
Found at i:56037743 original size:16 final size:16
Alignment explanation
Indices: 56037722--56037753 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56037712 AATCGCAACC
56037722 TATGCAACATGTCATG
1 TATGCAACATGTCATG
*
56037738 TATGCAGCATGTCATG
1 TATGCAACATGTCATG
56037754 CCCATATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (16 bp):
TATGCAACATGTCATG
Found at i:56037933 original size:27 final size:27
Alignment explanation
Indices: 56037899--56038055 Score: 201
Period size: 27 Copynumber: 5.9 Consensus size: 27
56037889 CAAAATGGTA
*
56037899 ATTT-TACCCCACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
56037925 ATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* * * *
56037952 AATCCTATCCTACAGGGGTATTTC-GAT
1 ATTTCTACCCTACAAGGGTATTTCAG-T
*
56037979 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* *
56038006 ATTTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGT
* *
56038033 AATTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
56038056 TAATAATTTT
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.04
27 111 0.95
28 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCAGT
Found at i:56038019 original size:81 final size:80
Alignment explanation
Indices: 56037899--56038055 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 80
56037889 CAAAATGGTA
*
56037899 ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATCCTATCCTA
1 ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATCCTACCCTA
56037964 CAGGGGTATTTCGAT
66 CAGGGGTATTTCGAT
* * * * *
56037979 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
1 ATTT-TACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATCCTACCCT
56038044 ACAGGGGTATTT
65 ACAGGGGTATTT
56038056 TAATAATTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 4 0.06
81 66 0.94
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATCCTACCCTA
CAGGGGTATTTCGAT
Found at i:56038132 original size:27 final size:26
Alignment explanation
Indices: 56038102--56038332 Score: 180
Period size: 27 Copynumber: 8.6 Consensus size: 26
56038092 TTTAAATCAG
* *
56038102 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
56038129 GGGTATTTTAGTAATTTTACAAATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* *
56038156 GGATATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTT-AGTAATTTTACAAATC-GA
* * * *
56038183 GGGTATTTCGGTAATTATATAAATTGA
1 GGGTATTT-AGTAATTTTACAAATCGA
56038210 GGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
** *
56038236 CAGTACTTCAGTAATTTTACAAATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * * * *
56038263 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTT-AGTAATTTTACAAATCGA
* * *
56038290 GGGTACTTTGGTAATTTTACAACT-GG
1 GGGTA-TTTAGTAATTTTACAAATCGA
56038316 GGGTATTTCAGTAATTT
1 GGGTATTT-AGTAATTT
56038333 GGTAAACTAA
Statistics
Matches: 164, Mismatches: 32, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.02
26 41 0.25
27 114 0.70
28 6 0.04
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:56038153 original size:54 final size:53
Alignment explanation
Indices: 56038112--56038332 Score: 201
Period size: 54 Copynumber: 4.1 Consensus size: 53
56038102 GGGTACTTTG
* *
56038112 GTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCGAGGATATTTCA
1 GTAATTTTACAA-TCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
* * * * * * * * *
56038166 GTAATTTTGCAAACTGAGGGTATTTCGGTAATTATATAAATTGAGGGTATTTTA
1 GTAATTTTACAATC-GAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
** **
56038220 GTAATTTTACAATCGACAGTACTTCAGTAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
* * * ** * * *
56038273 GTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTA-CAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
56038326 GTAATTT
1 GTAATTT
56038333 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 54 0.41
54 78 0.59
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
GTAATTTTACAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
Found at i:56038326 original size:80 final size:80
Alignment explanation
Indices: 56038111--56038332 Score: 259
Period size: 80 Copynumber: 2.8 Consensus size: 80
56038101 GGGGTACTTT
* * * *
56038111 GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCGAGGATATTTCAGTAATTTTGC
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTAC-AATCGAGGGTATTTCAGTAATTTTAC
*
56038176 AAACTGAGGGTATTTC
65 AAACTGAGGATATTTC
* * ** *
56038192 GGTAATTATATAAATTGAGGGTATTTTAGTAATTTTACAATCGACAGTACTTCAGTAATTTTACA
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACA
*
56038257 AA-TCGAGGATATTTG
66 AACT-GAGGATATTTC
* * * * *
56038272 GGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA-CTGGGGGTATTTCAGTAATTT
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATC-GAGGGTATTTCAGTAATTT
56038333 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 82 0.69
81 34 0.29
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACA
AACTGAGGATATTTC
Found at i:56039730 original size:52 final size:51
Alignment explanation
Indices: 56039623--56039740 Score: 164
Period size: 52 Copynumber: 2.3 Consensus size: 51
56039613 ACTTCTGATC
* *
56039623 AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAATGACA
* * * * *
56039674 AGTGATAAGTGATAAGTGGTAGCTTTAGCTATCACTTATTTGATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAACTA-CACTTATCTGATCAATGACA
56039726 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
56039741 ATGTGATCCG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 27 0.47
52 31 0.53
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAATGACA
Found at i:56040237 original size:45 final size:46
Alignment explanation
Indices: 56040130--56040239 Score: 170
Period size: 45 Copynumber: 2.4 Consensus size: 46
56040120 CCAAAAACAA
* *
56040130 GTAAGACCATAGCCGAAAGACGCTATGGCATCATGATTCAGATGAT
1 GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGATGAT
*
56040176 -TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAGAT-AT
1 GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGATGAT
*
56040220 GTAAGACCATAGTTGAAAGA
1 GTAAGACCATAGCTGAAAGA
56040240 TACCATGGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
44 2 0.03
45 57 0.97
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (46 bp):
GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGATGAT
Found at i:56040248 original size:45 final size:43
Alignment explanation
Indices: 56040130--56040379 Score: 153
Period size: 46 Copynumber: 5.5 Consensus size: 43
56040120 CCAAAAACAA
** ** * *
56040130 GTAAGACCATAGCCGAAAGACGCTATGGCATCATGATTCAGATGAT
1 GTAAGACCATAGTTGAAAGATACCATGGCATCATGA--CAGA-AAT
* **** * *
56040176 -TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAGATAT
1 GTAAGACCATAGTTGAAAGATACCATGGCATCATGA--CAGAAAT
*
56040220 GTAAGACCATAGTTGAAAGATACCATGGCAAT-AAGACGAGAAAT
1 GTAAGACCATAGTTGAAAGATACCATGGC-ATCATGAC-AGAAAT
* * *
56040264 GAATAAGACCATGGTGGAAAGATACCATGGCAACATGACAGAAAAT
1 G--TAAGACCATAGTTGAAAGATACCATGGCATCATGACAG-AAAT
* * *
56040310 GAATAAGACCATGGTTGAAAGATACCATAGCAACATGACAGGAAAT
1 G--TAAGACCATAGTTGAAAGATACCATGGCATCATGACA-GAAAT
**
56040356 GAATAAGACCAGGGTTGAAAGATA
1 G--TAAGACCATAGTTGAAAGATA
56040380 GAAATGAATA
Statistics
Matches: 178, Mismatches: 18, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.01
44 8 0.04
45 67 0.38
46 101 0.57
47 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (43 bp):
GTAAGACCATAGTTGAAAGATACCATGGCATCATGACAGAAAT
Found at i:56040284 original size:46 final size:45
Alignment explanation
Indices: 56040221--56040379 Score: 237
Period size: 46 Copynumber: 3.5 Consensus size: 45
56040211 TTCAGATATG
* * *
56040221 TAAGACCATAGTTGAAAGATACCATGGCAATAAGACGAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
*
56040267 TAAGACCATGGTGGAAAGATACCATGGCAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
*
56040313 TAAGACCATGGTTGAAAGATACCATAGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
*
56040359 TAAGACCAGGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
56040380 GAAATGAATA
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
45 2 0.02
46 101 0.97
47 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.17
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:56040546 original size:13 final size:13
Alignment explanation
Indices: 56040505--56040547 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
56040495 TCAAATGACG
*
56040505 AATGGTTATATGA
1 AATGGTTGTATGA
* **
56040518 ATTGGTTGTACAA
1 AATGGTTGTATGA
56040531 AATGGTTGTATGA
1 AATGGTTGTATGA
56040544 AATG
1 AATG
56040548 TTTACAAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (13 bp):
AATGGTTGTATGA
Found at i:56040562 original size:26 final size:26
Alignment explanation
Indices: 56040505--56040599 Score: 79
Period size: 26 Copynumber: 3.6 Consensus size: 26
56040495 TCAAATGACG
*
56040505 AATGGTTATATGAATTGGTTGTACAA
1 AATGGTTATATGAAATGGTTGTACAA
*
56040531 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTATATGAAATGGTTGTACAA
* *
56040555 GAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTATAT-GAAATGGT-TGTACAA
* *
56040584 AATAGTTGTATGAAAT
1 AATGGTTATATGAAAT
56040600 AATTATGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (26 bp):
AATGGTTATATGAAATGGTTGTACAA
Found at i:56044272 original size:28 final size:28
Alignment explanation
Indices: 56044232--56044329 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
56044222 ATAGTAAGTC
* *
56044232 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATTAAACT
56044260 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATTAAACT
56044288 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATTAAACT
56044316 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56044330 CAATCTCATT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 66 0.99
29 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATTAAACT
Found at i:56051954 original size:28 final size:28
Alignment explanation
Indices: 56051914--56052012 Score: 164
Period size: 28 Copynumber: 3.5 Consensus size: 28
56051904 ATATAGTAAG
* *
56051914 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCACACTTAGTGCTAT-ACAATTAAAC
56051942 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATTAAAC
56051970 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATTAAAC
56051998 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
56052013 CAATCTCATT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 67 0.99
29 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATTAAAC
Found at i:56058690 original size:44 final size:43
Alignment explanation
Indices: 56058609--56059208 Score: 345
Period size: 44 Copynumber: 13.4 Consensus size: 43
56058599 CATTATGGCG
* * *
56058609 AATCTTATCTCCCTAAAGTTGCAGTGGAGTC-GGTTGAAGTCACT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAG-CAGATTGAAGT-ACT
* * *
56058653 AATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TA-CT
* * *** *
56058698 AATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCTA-T
1 AATCTTATCTCCCTGAAG-TTGCAGTAGAGCAGATTGAAG-TACT
* * *
56058741 AAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGCTTGAAATTAC-
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-AAGTACT
* *
56058785 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * *
56058830 AAATCTTATCTCTCTAAAGTCGTAGTAGAGCAGATTAAAGCTA-T
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * *
56058874 AAACCTTATCTCCCTGAAGTTCCAGTAGAGCAGGTTGAAATTAC-
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-AAGTACT
* * * *
56058918 AAGTCTTATCCCCCTGAAGTTGCAGTAGAGAAAATTGAAGATAGCA
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TA-CT
* * *
56058964 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTA-T
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * * * *
56059007 AAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGATGCG
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * * * *
56059052 AATCTTATTTCCCTGAAGTTGAAGTGGAATGGATTAATGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAG-A-GCA--GAT--T-GAAG-TACT
* * * * * *
56059103 AATCTTACCTCCTTGGAGTTGCAGTGGAGCAGATTGAAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * *
56059147 AATCTTATTTCCCTGAAGTTACAGT-GAAGCAGATTGAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTGAAG-TACT
56059191 AATCTTATC-CCCTTGAAG
1 AATCTTATCTCCC-TGAAG
56059209 CTATAGTGGA
Statistics
Matches: 428, Mismatches: 99, Indels: 58
0.73 0.17 0.10
Matches are distributed among these distances:
43 13 0.03
44 267 0.62
45 107 0.25
46 6 0.01
47 2 0.00
48 2 0.00
49 2 0.00
50 2 0.00
51 27 0.06
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTACT
Found at i:56058754 original size:89 final size:89
Alignment explanation
Indices: 56058609--56059208 Score: 427
Period size: 89 Copynumber: 6.7 Consensus size: 89
56058599 CATTATGGCG
* * * * *
56058609 AATCTTATCTCCCTAAAGTTGCAGTGGAGTCGG-TTGAAG-TCACT-AATCTTGTCTCCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTAGA-ACGGATTAAAGCT-A-TAAATCTTATCTCCCTGAAG
*
56058671 TTGCAGTGGAGCAGATTGAAGATAGCA
63 TTGCAGTAGAGCAGATTGAAGATAGCA
* * * *
56058698 AATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCTATAAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAG-TTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTT
*
56058762 GCAGTAGAGCAGCTTGAA-ATTA-CA
65 GCAGTAGAGCAGATTGAAGA-TAGCA
* * * * * * * * *
56058786 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTAAAGTC
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTA-TAAATCTTATCTCCCTGAAGTT
* * * *
56058851 GTAGTAGAGCAGATTAAAGCTA-TA
65 GCAGTAGAGCAGATTGAAGATAGCA
* * * * * * *
56058875 AACCTTATCTCCCTGAAGTTCCAGTAGAGCAGG-TTGAAA-TTACAAGTCTTATCCCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAAC-GGATT-AAAGCTATAAATCTTATCTCCCTGAAGT
* *
56058938 TGCAGTAGAGAAAATTGAAGATAGCA
64 TGCAGTAGAGCAGATTGAAGATAGCA
* * * * * *
56058964 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
* * * *
56059029 TAGTGGAGTAGATTGAAGAT-GCG
66 CAGTAGAGCAGATTGAAGATAGCA
* * * * * * *
56059052 AATCTTATTTCCCTGAAGTTGAAGTGGAATGGATTAATGCTACAAGTTACAAATCTTACCTCCTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCT---A--T--AAATCTTATCTCCCT
* * *
56059117 GGAGTTGCAGTGGAGCAGATTGAAGAT-GCG
59 GAAGTTGCAGTAGAGCAGATTGAAGATAGCA
* * * *
56059147 AATCTTATTTCCCTGAAGTTACAGT-GAAGCAGATTGAAGCTA-ATAATCTTATC-CCCTTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAA-CGGATTAAAGCTATA-AATCTTATCTCCC-TGAAG
56059209 CTATAGTGGA
Statistics
Matches: 400, Mismatches: 88, Indels: 47
0.75 0.16 0.09
Matches are distributed among these distances:
87 3 0.01
88 122 0.31
89 196 0.49
90 4 0.01
91 1 0.00
92 1 0.00
93 1 0.00
94 3 0.01
95 69 0.17
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
CAGTAGAGCAGATTGAAGATAGCA
Found at i:56058797 original size:133 final size:133
Alignment explanation
Indices: 56058612--56059079 Score: 604
Period size: 133 Copynumber: 3.5 Consensus size: 133
56058602 TATGGCGAAT
* * * * *
56058612 CTTATCTCCCTAAAGTTGCAGTGGAGTC-GGTTGAAGTCACTAATCTTGTCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTAGAG-CAGGTTGAAATTACGAATCTTATCTCCCTGAAGTTGCA
* * ***
56058676 GTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCTA
65 GTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAG-TTGTAGTAGAGCAGATTAAAGCTA
56058740 TAAAC
129 TAAAC
* *
56058745 CTTATCTCCCTGAAGTTGCAGTAGAGCAGCTTGAAATTAC-AAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACGAA-TCTTATCTCCCTGAAGTTGCA
* * *
56058809 GTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTAAAGTCGTAGTAGAGCAGATTAAAGCTAT
65 GTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTAT
56058874 AAAC
130 AAAC
* * *
56058878 CTTATCTCCCTGAAGTTCCAGTAGAGCAGGTTGAAATTAC-AAGTCTTATCCCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACGAA-TCTTATCTCCCTGAAGTTGCA
* * *
56058942 GTAGAGAAAATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTAT
65 GTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTAT
56059007 AAAC
130 AAAC
* * * * * * *
56059011 CTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGA-TGCGAATCTTATTTCCCTGAAGTTGAA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAA-ATTACGAATCTTATCTCCCTGAAGTTGCA
56059075 GTGGA
65 GTGGA
56059080 ATGGATTAAT
Statistics
Matches: 296, Mismatches: 34, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
132 3 0.01
133 288 0.97
134 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (133 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACGAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
AAC
Found at i:56060539 original size:31 final size:31
Alignment explanation
Indices: 56060503--56060564 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
56060493 ACGACTAAGT
56060503 GTGTACATCCCCACAAACAACATGCATACAA
1 GTGTACATCCCCACAAACAACATGCATACAA
56060534 GTGTACATCCCCACAAACAACATGCATACAA
1 GTGTACATCCCCACAAACAACATGCATACAA
56060565 ACAGATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.32, G:0.10, T:0.16
Consensus pattern (31 bp):
GTGTACATCCCCACAAACAACATGCATACAA
Found at i:56060763 original size:40 final size:38
Alignment explanation
Indices: 56060671--56060763 Score: 87
Period size: 40 Copynumber: 2.4 Consensus size: 38
56060661 ACCATCTCCT
* * * *
56060671 TCCAACCCAACACACCATGTGGGGATAAAATCGATCCA
1 TCCAACCCTACACACCATATAGGGATAAAATCGACCCA
* * * * *
56060709 CCCATCCTTGCACACCGTATATAGGGATATAATCGACCCA
1 TCCAACCCTACACACC--ATATAGGGATAAAATCGACCCA
56060749 TCCAACCCTACACAC
1 TCCAACCCTACACAC
56060764 TATAAAGTAC
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
38 11 0.28
40 29 0.73
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.18
Consensus pattern (38 bp):
TCCAACCCTACACACCATATAGGGATAAAATCGACCCA
Found at i:56061792 original size:20 final size:22
Alignment explanation
Indices: 56061752--56061794 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
56061742 TAGGAGAGCG
56061752 AAAGGAAGGAGAAACGGGCCAA
1 AAAGGAAGGAGAAACGGGCCAA
*
56061774 AAAGGAA-GA-AAATGGGCCAA
1 AAAGGAAGGAGAAACGGGCCAA
56061794 A
1 A
56061795 GTACGAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.53, C:0.12, G:0.33, T:0.02
Consensus pattern (22 bp):
AAAGGAAGGAGAAACGGGCCAA
Found at i:56062330 original size:14 final size:15
Alignment explanation
Indices: 56062311--56062340 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
56062301 ATACTTAACT
56062311 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
56062325 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
56062340 T
1 T
56062341 TTTGATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:56063115 original size:15 final size:15
Alignment explanation
Indices: 56063091--56063120 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56063081 CACAACTAAT
56063091 CGAAAAAGAAGAAAA
1 CGAAAAAGAAGAAAA
*
56063106 CGAAAGAGAAGAAAA
1 CGAAAAAGAAGAAAA
56063121 ATGGAGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (15 bp):
CGAAAAAGAAGAAAA
Found at i:56064765 original size:3 final size:3
Alignment explanation
Indices: 56064757--56064959 Score: 136
Period size: 3 Copynumber: 68.3 Consensus size: 3
56064747 TAATTTAATA
* *
56064757 TAT TAT TAT TAT TAT TAT TAT CAT TAT T-T TAC TAT TAT TACT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * *
56064801 TAT TCGT TAG TAT TAT TAT TAAT T-T TACC T-T TAT T-T CCT-T TAC
1 TAT T-AT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT --TAT TAT
* * *
56064844 TAT TAT TTT TAT TAT CAT TAAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * **
56064890 TAT TTT TAT TAC TAT TAC TAC TAT TAT TAT TA- TAT TGT TAT TAT TCC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56064937 TAT TA- TAT TAT TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
56064960 TTTACCTATT
Statistics
Matches: 155, Mismatches: 30, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
2 15 0.10
3 126 0.81
4 14 0.09
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:56065124 original size:15 final size:15
Alignment explanation
Indices: 56065094--56065127 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56065084 TTACCATTAC
*
56065094 CATTAATATTATTAT
1 CATTAATATTACTAT
*
56065109 CATTATTATTACTAT
1 CATTAATATTACTAT
56065124 CATT
1 CATT
56065128 TTTTTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
CATTAATATTACTAT
Found at i:56069018 original size:50 final size:50
Alignment explanation
Indices: 56068940--56069116 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
56068930 CCATGGAAAC
56068940 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * ** * *
56068990 AATTGATAAGTAATAATTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
56069040 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
56069090 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
56069117 CTGATCAGTG
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
50 85 0.78
51 24 0.22
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:56069209 original size:31 final size:31
Alignment explanation
Indices: 56069094--56069201 Score: 171
Period size: 31 Copynumber: 3.5 Consensus size: 31
56069084 AAATGACAAC
*
56069094 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
*
56069125 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
* *
56069156 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
*
56069187 TGAATAGTGGTAGCT
1 TGAAAAGTGGTAGCT
56069202 TTGGCTACAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
Found at i:56069220 original size:7 final size:7
Alignment explanation
Indices: 56069208--56069236 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
56069198 AGCTTTGGCT
56069208 ACAAGTG
1 ACAAGTG
56069215 ACAAGTG
1 ACAAGTG
56069222 ACAAGTG
1 ACAAGTG
56069229 ACAAGTG
1 ACAAGTG
56069236 A
1 A
56069237 TTTTTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:56069365 original size:47 final size:46
Alignment explanation
Indices: 56069241--56069365 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 46
56069231 AAGTGATTTT
* * *
56069241 TGTATAAGACCATATTTGAGATATGGCATCGGTGTGATATATGCTAC
1 TGTATAAGACCATA-TTGGGATATGGCATCAGTGAGATATATGCTAC
* * * *
56069288 TGTATAAGACCATATCTGGGATAAGACATCAGTGAGATATGTGATTAC
1 TGTATAAGACCATAT-TGGGATATGGCATCAGTGAGATATATG-CTAC
*
56069336 -GTATAAGACCATAGTTGGGCTATGGCATCA
1 TGTATAAGACCATA-TTGGGATATGGCATCA
56069366 TTATGTAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
46 1 0.02
47 60 0.92
48 4 0.06
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (46 bp):
TGTATAAGACCATATTGGGATATGGCATCAGTGAGATATATGCTAC
Found at i:56077483 original size:16 final size:15
Alignment explanation
Indices: 56077448--56077499 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
56077438 CTAATCGAAA
56077448 AAGAAGAAAATGAAG
1 AAGAAGAAAATGAAG
* *
56077463 GAGAAGAAAAATGGAG
1 AAGAAG-AAAATGAAG
*
56077479 AAGAAGGGAAAAAGAAG
1 AAGAA--GAAAATGAAG
56077496 AAGA
1 AAGA
56077500 GAAGTTCGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.17
16 12 0.41
17 11 0.38
18 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (15 bp):
AAGAAGAAAATGAAG
Found at i:56077502 original size:19 final size:20
Alignment explanation
Indices: 56077444--56077503 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
56077434 ACAACTAATC
*
56077444 GAAAAAGAAGAAAATGAAGGA
1 GAAAAAGAAGAAGA-GAAGGA
*
56077465 GAAGAAA-AATGGAGAAGAAGG-
1 GAA-AAAGAA-GAAG-AGAAGGA
56077486 GAAAAAGAAGAAGAGAAG
1 GAAAAAGAAGAAGAGAAG
56077504 TTCGACAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 10 0.31
22 10 0.31
23 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
GAAAAAGAAGAAGAGAAGGA
Found at i:56078920 original size:3 final size:3
Alignment explanation
Indices: 56078912--56078987 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
56078902 ACACATTCGC
56078912 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56078960 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
56078988 TATGGTTACT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:56084907 original size:15 final size:15
Alignment explanation
Indices: 56084865--56084916 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
56084855 TTTTATAAAA
*
56084865 AATATTTTAATTTTT
1 AATATTTAAATTTTT
*
56084880 --TATTTAATTTTTTT
1 AATATTTAA-ATTTTT
56084894 AATATTTAAATTTTT
1 AATATTTAAATTTTT
*
56084909 ACTATTTA
1 AATATTTA
56084917 TCAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 12 0.40
16 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
AATATTTAAATTTTT
Found at i:56085052 original size:21 final size:23
Alignment explanation
Indices: 56085015--56085057 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
56085005 AATATAAAAA
56085015 ATTTAAAAAATATAG-AATATTT
1 ATTTAAAAAATATAGAAATATTT
56085037 ATTT-AAAAATCA-AGAAATATT
1 ATTTAAAAAAT-ATAGAAATATT
56085058 AGAAGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTTAAAAAATATAGAAATATTT
Found at i:56085089 original size:19 final size:19
Alignment explanation
Indices: 56085067--56085103 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
56085057 TAGAAGTGTG
56085067 AATTTATATAAAAATATTA
1 AATTTATATAAAAATATTA
56085086 AATTTATATAAAAATATT
1 AATTTATATAAAAATATT
56085104 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTATATAAAAATATTA
Found at i:56086462 original size:38 final size:38
Alignment explanation
Indices: 56086420--56086498 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
56086410 TCCCAAATTG
*
56086420 AGATGTCCTAAGCTAGAGGAATAGCCATATTGCATTAA
1 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
56086458 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
1 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
56086496 AGA
1 AGA
56086499 GGATTAGTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (38 bp):
AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
Found at i:56090369 original size:26 final size:26
Alignment explanation
Indices: 56090338--56090445 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
56090328 TGAAATGCCC
*
56090338 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
56090364 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
56090390 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
56090416 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56090442 ATCA
1 ATCA
56090446 ATTTGTATCA
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
Done.