Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 26 of 199
Found at i:7569831 original size:4 final size:4
Alignment explanation
Indices: 7569822--7569926 Score: 201
Period size: 4 Copynumber: 26.2 Consensus size: 4
7569812 AAAAATTCCA
7569822 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
7569870 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7569918 ACAT ACAT A
1 ACAT ACAT A
7569927 ATTTATCTAA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 99 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:7571177 original size:16 final size:16
Alignment explanation
Indices: 7571152--7571182 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7571142 GCATTCGCAA
*
7571152 GCACATATGGTGAACT
1 GCACAAATGGTGAACT
7571168 GCACAAATGGTGAAC
1 GCACAAATGGTGAAC
7571183 AGTCCAAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (16 bp):
GCACAAATGGTGAACT
Found at i:7575837 original size:30 final size:31
Alignment explanation
Indices: 7575801--7575880 Score: 119
Period size: 30 Copynumber: 2.6 Consensus size: 31
7575791 GTAACCTCGA
7575801 TATAATGTCAGCTTGTGTGAACAACTCT-AT
1 TATAATGTCAGCTTGTGTGAACAACTCTGAT
* *
7575831 TATAATGTCAGCTTGTATGAACAATTCTGAT
1 TATAATGTCAGCTTGTGTGAACAACTCTGAT
*
7575862 T-TATTGTCAGCTTGTGTGA
1 TATAATGTCAGCTTGTGTGA
7575881 GTAACTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 42 0.93
31 3 0.07
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (31 bp):
TATAATGTCAGCTTGTGTGAACAACTCTGAT
Found at i:7578179 original size:43 final size:43
Alignment explanation
Indices: 7578101--7578257 Score: 235
Period size: 43 Copynumber: 3.7 Consensus size: 43
7578091 ATGTTCCAAT
7578101 ATCGATTTGAGATTTCGTG-AAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* * *
7578143 ATTGATTTGAGATTTCGTGTAAGACCATAACTGGGCTATTGAC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
*
7578186 ATCGATTTGAGATTTAGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
** *
7578229 ATCGATACGAGATTTCCATGTAAGACCAT
1 ATCGATTTGAGATTT-CGTGTAAGACCAT
7578258 GTTTGGGACA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
42 18 0.18
43 73 0.72
44 11 0.11
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:7579731 original size:2 final size:2
Alignment explanation
Indices: 7579724--7579772 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
7579714 GTTGTAAGCC
*
7579724 TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7579766 TA TA TA T
1 TA TA TA T
7579773 TAATTATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7580710 original size:20 final size:19
Alignment explanation
Indices: 7580682--7580720 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
7580672 TTTAAATAAT
*
7580682 TTTTTATTTTAAAAGTTTTA
1 TTTTAATTTTAAAA-TTTTA
7580702 TTTTAATTTTAAAATTTTA
1 TTTTAATTTTAAAATTTTA
7580721 GGAATCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTAATTTTAAAATTTTA
Found at i:7581224 original size:5 final size:5
Alignment explanation
Indices: 7581218--7581257 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
7581208 GTCGGATCGG
*
7581218 TTTGG TTTGAT TTTGT TTTGT TTTGT TTTGT TTTGT TTTG
1 TTTGT TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT TTTG
7581258 GGGCAATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.03, C:0.00, G:0.23, T:0.75
Consensus pattern (5 bp):
TTTGT
Found at i:7586638 original size:40 final size:38
Alignment explanation
Indices: 7586594--7586700 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 38
7586584 GATAAAGCAG
*
7586594 GAAAACACTTCCTTGAGGAAGCGTTTTGTCCACGTGGAC
1 GAAAACGCTTCCTTGAGGAA-CGTTTTGTCCACGTGGAC
* *
7586633 AGAAAACGCGTCCTTGAGGGCACGCTTTGTGTCCACGTGGAC
1 -GAAAACGCTTCCTTGA-GGAACG-TTT-TGTCCACGTGGAC
**
7586675 -AAAGTGCTTCCTTGAGGAAACGTTTT
1 GAAAACGCTTCCTTGAGG-AACGTTTT
7586701 CCTCGTGTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
40 31 0.55
41 6 0.11
42 13 0.23
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (38 bp):
GAAAACGCTTCCTTGAGGAACGTTTTGTCCACGTGGAC
Found at i:7588562 original size:30 final size:30
Alignment explanation
Indices: 7588526--7588612 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
7588516 ACGATGCAGG
*
7588526 CCCATCAACAACGCCCACACAATTACTC-GA
1 CCCATCAACAACGCCCACACAATCAC-CAGA
* * *
7588556 CCCATCAACAGCGCCCATACAATCACCAGG
1 CCCATCAACAACGCCCACACAATCACCAGA
* * *
7588586 CCCAGCAACAACACCCACACAGTCACC
1 CCCATCAACAACGCCCACACAATCACC
7588613 GAGCCCGACA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 1 0.02
30 46 0.98
ACGTcount: A:0.36, C:0.46, G:0.09, T:0.09
Consensus pattern (30 bp):
CCCATCAACAACGCCCACACAATCACCAGA
Found at i:7588709 original size:18 final size:18
Alignment explanation
Indices: 7588673--7588715 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7588663 TGCCAAATGC
*
7588673 GTATCCTAGCCCATTTAT
1 GTATCCTAACCCATTTAT
7588691 GTATCCTAACCC-TTATAT
1 GTATCCTAACCCATT-TAT
*
7588709 GTTTCCT
1 GTATCCT
7588716 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCATTTAT
Found at i:7596145 original size:14 final size:14
Alignment explanation
Indices: 7596097--7596148 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 14
7596087 TTTTTCTTGA
7596097 TCAAAATTAATTTT
1 TCAAAATTAATTTT
7596111 CTCAAAAATACTAAGATTTT
1 -TC-AAAAT--T-A-ATTTT
7596131 TCAAAATTAATTTT
1 TCAAAATTAATTTT
7596145 TCAA
1 TCAA
7596149 GAAAATTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.28
15 3 0.09
16 6 0.19
18 6 0.19
19 3 0.09
20 5 0.16
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (14 bp):
TCAAAATTAATTTT
Found at i:7601535 original size:17 final size:17
Alignment explanation
Indices: 7601515--7601553 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7601505 TTTGTATGTT
* *
7601515 TTATTTAACTTATTTTA
1 TTATTTAACATATATTA
7601532 TTATTTAACATATATTA
1 TTATTTAACATATATTA
7601549 TTATT
1 TTATT
7601554 AAATAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTAACATATATTA
Found at i:7605510 original size:30 final size:30
Alignment explanation
Indices: 7605474--7605538 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
7605464 CAACTTAACA
*
7605474 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
7605504 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
7605534 AACAA
1 AACAA
7605539 TAAAACAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.22
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:7606266 original size:51 final size:51
Alignment explanation
Indices: 7606190--7606295 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
7606180 TATTTATCCC
7606190 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
1 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
* *
7606241 AAAAATATATTATCAAATTGGATAAGTTACATTTGGTATCTGTACTTTCAT
1 AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
7606292 AAAA
1 AAAA
7606296 TGTCCAATGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (51 bp):
AAAAATATATTATCAAATGGGATAAGTCACATTTGGTATCTGTACTTTCAT
Found at i:7606379 original size:63 final size:63
Alignment explanation
Indices: 7606274--7606404 Score: 192
Period size: 63 Copynumber: 2.1 Consensus size: 63
7606264 AAGTTACATT
* * * * * *
7606274 TGGTATCTGTACTTTCATAAAATGTCCAATGTGGTACCTGAACTATCTA-TTTGTGTTTTATTA
1 TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATC-AGTATGTGTTTTATTA
7606337 TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATCAGTATGTGTTTTATTA
1 TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATCAGTATGTGTTTTATTA
7606400 TGGTA
1 TGGTA
7606405 TCTAATGTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 60 0.98
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (63 bp):
TGGTACCTATACTTTCATAAAATGTCCAATGTAGCACATGAACTATCAGTATGTGTTTTATTA
Found at i:7610692 original size:148 final size:147
Alignment explanation
Indices: 7610424--7610714 Score: 340
Period size: 148 Copynumber: 2.0 Consensus size: 147
7610414 GTCAAATTTT
* *
7610424 AACAATGATTTTTTAATCACTATTATTAATTGTGTTTGTTAATTTAAATATCTTTCATACTTATC
1 AACAATGATTTTTTAATCACTATTATTAATTATCTTTGTTAATTTAAATATCTTTCATACTTATC
* * ***
7610489 ATGATGTATTATTATAATTGTTGTATGTTATTCTATTTTTTAATTTTTTTAAAATTAAAATTATA
66 ATGATGTATCATTATAATTGTTGTATGTTAGTCTATTACCT-ATTTTTTTAAAATTAAAATTATA
*
7610554 GTTAATTTTCTTAATGTC
130 GTTAACTTTCTTAATGTC
* * * *
7610572 AACAATTATTTTTTAATCACTATTATTAAATGTATCTATTAATTTAGTTTAAATATCTTTCATAT
1 AACAATGATTTTTTAATCACTATTATT-AAT-TATCT-TT--GTTAATTTAAATATCTTTCATAC
* * *
7610637 TTATCATGA-GCTATCATTATAATTGTTTTATGTT-GT-T-TTACCT-TTTTTTTCAAATTAACA
61 TTATCATGATG-TATCATTATAATTGTTGTATGTTAGTCTATTACCTATTTTTTTAAAATTAAAA
*
7610697 TTATAGTTTACTTTCTTA
125 TTATAGTTAACTTTCTTA
7610715 TATAGTATAT
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
148 57 0.47
149 3 0.02
150 6 0.05
151 3 0.02
152 2 0.02
153 50 0.41
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.54
Consensus pattern (147 bp):
AACAATGATTTTTTAATCACTATTATTAATTATCTTTGTTAATTTAAATATCTTTCATACTTATC
ATGATGTATCATTATAATTGTTGTATGTTAGTCTATTACCTATTTTTTTAAAATTAAAATTATAG
TTAACTTTCTTAATGTC
Found at i:7611476 original size:25 final size:25
Alignment explanation
Indices: 7611439--7611497 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
7611429 AGAACAGGAT
* *
7611439 AGAGCAAAACATAACAAAATAGAA-C
1 AGAGCAGAGCATAACAAAATA-AAGC
* *
7611464 AGAGTAGAGCATAACATAATAAAGC
1 AGAGCAGAGCATAACAAAATAAAGC
7611489 AGAGCAGAG
1 AGAGCAGAG
7611498 AATGTATGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.56, C:0.14, G:0.20, T:0.10
Consensus pattern (25 bp):
AGAGCAGAGCATAACAAAATAAAGC
Found at i:7611497 original size:30 final size:30
Alignment explanation
Indices: 7611428--7611497 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
7611418 ACAACCCAAC
7611428 CAGAACAG-GATAGAGCAAAACATAACAAAA
1 CAGAACAGAG-TAGAGCAAAACATAACAAAA
* * * *
7611458 TAGAACAGAGTAGAGCATAACATAATAAAG
1 CAGAACAGAGTAGAGCAAAACATAACAAAA
*
7611488 CAGAGCAGAG
1 CAGAACAGAG
7611498 AATGTATGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.21, T:0.10
Consensus pattern (30 bp):
CAGAACAGAGTAGAGCAAAACATAACAAAA
Found at i:7613092 original size:21 final size:21
Alignment explanation
Indices: 7613068--7613110 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7613058 ACCCTTCAAA
7613068 ATGATCTTAGTCGTACGCAAG
1 ATGATCTTAGTCGTACGCAAG
* *
7613089 ATGATTTTAGTTGTACGCAAG
1 ATGATCTTAGTCGTACGCAAG
7613110 A
1 A
7613111 CCCTGGGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (21 bp):
ATGATCTTAGTCGTACGCAAG
Found at i:7617773 original size:21 final size:21
Alignment explanation
Indices: 7617730--7617784 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
7617720 GGTGGATCAA
* *
7617730 CTCTTACGAGCTTTTGTTAAG
1 CTCTTACGAGCTTCTATTAAG
*
7617751 CTCTTACGAGCTTCTATTCAG
1 CTCTTACGAGCTTCTATTAAG
7617772 CT-TT-CGAGCTTCT
1 CTCTTACGAGCTTCT
7617785 GTTGGTGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 9 0.29
20 2 0.06
21 20 0.65
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.42
Consensus pattern (21 bp):
CTCTTACGAGCTTCTATTAAG
Found at i:7622358 original size:31 final size:31
Alignment explanation
Indices: 7622323--7622385 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
7622313 ACGTAATACT
7622323 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
1 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
*
7622354 TAGTTTCTTGTTCTCAATTATGTGTGCTTAA
1 TAGTTTCTTGTTCTCAATTATGTGTGATTAA
7622385 T
1 T
7622386 TCTTGGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (31 bp):
TAGTTTCTTGTTCTCAATTATGTGTGATTAA
Found at i:7624188 original size:9 final size:9
Alignment explanation
Indices: 7624176--7624201 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7624166 GAGAGAATAA
7624176 GTTCAACTG
1 GTTCAACTG
7624185 GTTCAACTG
1 GTTCAACTG
7624194 GTTCAACT
1 GTTCAACT
7624202 ATTTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (9 bp):
GTTCAACTG
Found at i:7629895 original size:19 final size:20
Alignment explanation
Indices: 7629855--7629904 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
7629845 AATTACAAAT
*
7629855 AAATTTAAAATAATTTTCAA
1 AAATTCAAAATAATTTTCAA
7629875 AAATTCAAAAT-ATTTAT-AA
1 AAATTCAAAATAATTT-TCAA
7629894 AAATTCCAAAA
1 AAATT-CAAAA
7629905 ATTATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTCAAAATAATTTTCAA
Found at i:7630399 original size:30 final size:30
Alignment explanation
Indices: 7630358--7630437 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
7630348 CATATTTATG
*
7630358 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* * *
7630388 GAAAGTCAAAGATATGGGTATTAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
7630418 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
7630438 CCGAGATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:7634845 original size:100 final size:100
Alignment explanation
Indices: 7634579--7635634 Score: 1223
Period size: 100 Copynumber: 10.6 Consensus size: 100
7634569 AAGCAAGATT
* ** * * *
7634579 CGCTGCATCG-CTAGGGAAATGAGATTTGCCGTTGTGACTTCAATCTTTTGAATTGCAATGTCGG
1 CGCTGCATCGCCT-GGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
** * * *
7634643 AAAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTC
65 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
* * * *
7634679 CGCTGCATCGCCTGGG--ATAAGATTCGCCGTTGTGGCTTCGATCTTTTAAACTGTAATGTTGGG
1 CGCTGCATCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGG
* **
7634742 GAAGTAAAATTCGCCT-TCATAGCTTCAATCTGTTC
66 GAAGTAAGATTCG-CTGTTGTAGCTTCAATCTGTTC
* *
7634777 CGCTGCATCGCCTGGGAAATAAGATTCACCATTGTGGCTTCGATCTTTTAAATTGCAATGTCGAG
1 CGCTGCATCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGG
* * * *
7634842 GAAGCAAGATCCGCTGTTGTAGTTTCAATTTGTTC
66 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
** *
7634877 AACTGCA-CTGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTACAATGTCGG
1 CGCTGCATC-GCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
* *
7634941 GAAAGTAAGATTCGTTGTTGTAGCTTCAATCTGTTC
65 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
* * *
7634977 CGTTGCATCGCCTGAGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGAG
1 CGCTGCATCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGG
* * * *
7635042 GAAGCAAGATCCGCTGTTGTTGCTTCAATCTATT-
66 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
** * * * *
7635076 CAATGCA-CTGCTTGGGAAATAAAATTCACCGTTGTGGCTTCGATCTTTTAAATTACAATGTCGA
1 CGCTGCATC-GCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
* * *
7635140 GGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTC
65 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
**
7635176 AACTGCA-CTGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
1 CGCTGCATC-GCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
* *
7635240 GGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTC
65 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
**
7635276 AACTGCA-CTGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
1 CGCTGCATC-GCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
*
7635340 AGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
65 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
* * * ** * *
7635376 AGCTGCATCG-CTAAGGAAATGAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTACAATGTCGG
1 CGCTGCATCGCCT-GGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGG
7635440 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
65 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
* * ** * ** * * * * *
7635476 TGCTACATCATCAGGGAGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGG
1 CGCTGCATCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGG
* * * * * *
7635541 GAAGTGAGATTCACCGTCGTAACTTCGATCTGTTC
66 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
* ** * * * *
7635576 CGCTGCATCGCCAGGGAGGTGAGATTTACCGTTGTGGCTTCAATCTTTTGAATTGCAAT
1 CGCTGCATCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAAT
7635635 CTATGGTTTT
Statistics
Matches: 839, Mismatches: 105, Indels: 24
0.87 0.11 0.02
Matches are distributed among these distances:
98 83 0.10
99 96 0.11
100 655 0.78
101 5 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (100 bp):
CGCTGCATCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGG
GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
Found at i:7634950 original size:50 final size:50
Alignment explanation
Indices: 7634592--7635571 Score: 529
Period size: 50 Copynumber: 19.7 Consensus size: 50
7634582 TGCATCGCTA
* * *
7634592 GGGAAA-TGAGATTTGCCGTTGT-GACTTCAATCTTTTGAATTGCAATGTC
1 GGGAAAGTAAGATTCGCCGTTGTAG-CTTCAATCTTTTAAATTGCAATGTC
* * * * **** *
7634641 GGAAAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCC
1 GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAAT-GTC
* * * * *
7634691 TGGG--A-TAAGATTCGCCGTTGTGGCTTCGATCTTTTAAACTGTAATGTT
1 -GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * * * **** *
7634739 GGGGAAGTAAAATTCGCC-TTCATAGCTTCAATCTGTTCCGCTGC-ATCGCC
1 GGGAAAGTAAGATTCGCCGTT-GTAGCTTCAATCTTTTAAATTGCAAT-GTC
* * * *
7634789 TGGGAAA-TAAGATTCACCATTGTGGCTTCGATCTTTTAAATTGCAATGTC
1 -GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * * * * * * *
7634839 GAGG-AAGCAAGATCCGCTGTTGTAGTTTCAAT-TTGTTCAACTGCACTGCC
1 G-GGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTT-TTAAATTGCAATGTC
* * * *
7634889 TGGGAAA-TAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTACAATGTC
1 -GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
** * *** *
7634939 GGGAAAGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCGTTGC-ATCGCC
1 GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAAT-GTC
* * * *
7634989 TGAGAAA-TAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTC
1 -GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * * * * * * *
7635039 GAGG-AAGCAAGATCCGCTGTTGTTGCTTCAATCTATTCAA-TGCACTGCTT
1 G-GGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATG-TC
* * * * *
7635089 GGGAAA-TAAAATTCACCGTTGTGGCTTCGATCTTTTAAATTACAATGTC
1 GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * * * * * * *
7635138 GAGG-AAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCAACTGCACTGCC
1 G-GGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * *
7635188 TGGGAAA-TAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTC
1 -GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* ** * * * * *
7635238 GGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTCAACTGCACTGCC
1 GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * *
7635288 TGGGAAA-TAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAATGTC
1 -GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * * ** *
7635338 -GGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCAGCTGC-ATCGCTA
1 GGGA-AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAAT-G-TC
* * * * * * *
7635389 AGGAAA-TGAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTACAATGTC
1 GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * * * *
7635438 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTT---CTGCTACATCATC
1 GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGC-A-AT-GTC
* * *
7635488 AGGG-AGGTGAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
1 -GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
* * * * * *
7635538 GGGGAAGTGAGATTCACCGTCGTAACTTCGATCT
1 GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCT
7635572 GTTCCGCTGC
Statistics
Matches: 681, Mismatches: 201, Indels: 97
0.70 0.21 0.10
Matches are distributed among these distances:
47 5 0.01
48 33 0.05
49 86 0.13
50 508 0.75
51 42 0.06
52 4 0.01
53 3 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (50 bp):
GGGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTAAATTGCAATGTC
Found at i:7636958 original size:10 final size:11
Alignment explanation
Indices: 7636943--7637007 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 11
7636933 CATTGGCCTC
7636943 TCCTTTT-TTT
1 TCCTTTTCTTT
7636953 TCCTTTTCTTT
1 TCCTTTTCTTT
* *
7636964 T-CTCTTCTTC
1 TCCTTTTCTTT
7636974 TCCTTCTTCTCTT
1 TCCTT-TTCT-TT
7636987 T-CTTTT-TTT
1 TCCTTTTCTTT
*
7636996 TCTTTTTCTTT
1 TCCTTTTCTTT
7637007 T
1 T
7637008 TGTTTTTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
9 3 0.07
10 20 0.45
11 12 0.27
12 7 0.16
13 2 0.05
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TCCTTTTCTTT
Found at i:7637016 original size:15 final size:15
Alignment explanation
Indices: 7636945--7637008 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
7636935 TTGGCCTCTC
*
7636945 CTTTTTTTTCCTTTT
1 CTTTTTTTTCTTTTT
* *
7636960 C--TTTTCTCTTCTT
1 CTTTTTTTTCTTTTT
** * *
7636973 CTCCTTCTTCTCTTT
1 CTTTTTTTTCTTTTT
7636988 CTTTTTTTTCTTTTT
1 CTTTTTTTTCTTTTT
7637003 CTTTTT
1 CTTTTT
7637009 GTTTTTTTGT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
13 10 0.29
15 25 0.71
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:7638024 original size:20 final size:20
Alignment explanation
Indices: 7638001--7638039 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7637991 TGACCTCTCC
7638001 TTTTTC-TCTTTCTTTTTCT
1 TTTTTCTTCTTTCTTTTTCT
7638020 TTTTTCTTCTTTCTTTTTCT
1 TTTTTCTTCTTTCTTTTTCT
7638040 CCTATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCTTCTTTCTTTTTCT
Found at i:7638039 original size:10 final size:10
Alignment explanation
Indices: 7638002--7638039 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
7637992 GACCTCTCCT
7638002 TTTTCTCTTTC
1 TTTT-TCTTTC
7638013 TTTTTCTTT-
1 TTTTTCTTTC
7638022 TTTCTTCTTTC
1 TTT-TTCTTTC
7638033 TTTTTCT
1 TTTTTCT
7638040 CCTATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 15 0.60
11 7 0.28
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:7638071 original size:8 final size:8
Alignment explanation
Indices: 7638052--7638119 Score: 109
Period size: 8 Copynumber: 8.2 Consensus size: 8
7638042 TATTTTTGAC
7638052 TTTGATTTT
1 TTTGA-TTT
7638061 TTTGATTT
1 TTTGATTT
7638069 TTTGATTT
1 TTTGATTT
7638077 TTTGATTT
1 TTTGATTT
7638085 TTTGATTT
1 TTTGATTT
7638093 TTTGATTTT
1 TTTGA-TTT
*
7638102 TTTTATTT
1 TTTGATTT
7638110 TTTGATTT
1 TTTGATTT
7638118 TT
1 TT
7638120 CTTTCGAGTC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
8 44 0.79
9 12 0.21
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (8 bp):
TTTGATTT
Found at i:7638071 original size:24 final size:23
Alignment explanation
Indices: 7638044--7638119 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 23
7638034 TTTTCTCCTA
7638044 TTTTTGA-CTTTGATTTTTTTGAT
1 TTTTTGATCTTTGA-TTTTTTGAT
*
7638067 TTTTTGATTTTTTGATTTTTTGAT
1 TTTTTGA-TCTTTGATTTTTTGAT
* *
7638091 TTTTTGATTTTTTTTATTTTTTGAT
1 TTTTTGA--TCTTTGATTTTTTGAT
7638116 TTTT
1 TTTT
7638120 CTTTCGAGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.15
24 16 0.33
25 25 0.52
ACGTcount: A:0.12, C:0.01, G:0.11, T:0.76
Consensus pattern (23 bp):
TTTTTGATCTTTGATTTTTTGAT
Found at i:7641711 original size:101 final size:101
Alignment explanation
Indices: 7641539--7641932 Score: 499
Period size: 109 Copynumber: 3.8 Consensus size: 101
7641529 ATATTTGGCA
* * * * *
7641539 ATTTGGTTAAACGAG--AAATCGAA-ACTCAGCACATTAGGGCACG-TTCCTCGAATTTCCAAAC
1 ATTTGGTTGAACGAGAAAAATC-AACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
*
7641600 GCAAAACATTGCCTTATTTTGAAAAGAATATTAAGCC
65 GCAAAACATTGCCTTATTTTTAAAAGAATATTAAGCC
*
7641637 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
7641702 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCC-----TT---ATTTTTAAAAGAATATTAAGCC
* *
7641746 ATTTGGTTGAACGAGAAAAATCGACAACCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
7641811 CAAAACATTGCCTTATTTTAAAAATTTTAAAAGAATATTAAGCC
66 CAAAACATTGCCTTA---T-----TTTTAAAAGAATATTAAGCC
7641855 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
7641920 CTAAATATTGCCT
66 CAAAACATTGCCT
7641933 CGATTAGAAA
Statistics
Matches: 260, Mismatches: 16, Indels: 29
0.85 0.05 0.10
Matches are distributed among these distances:
98 14 0.05
99 2 0.01
100 22 0.08
101 30 0.12
104 3 0.01
106 2 0.01
109 187 0.72
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (101 bp):
ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTTAAAAGAATATTAAGCC
Found at i:7641806 original size:109 final size:109
Alignment explanation
Indices: 7641615--7641932 Score: 564
Period size: 109 Copynumber: 2.9 Consensus size: 109
7641605 ACATTGCCTT
*
7641615 ATTTTGAAAAGAATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCA
1 ATTTTTAAAAGAATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCA
*
7641680 TGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAA
66 TGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAA
* * *
7641724 ATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACAACCAGCACCTTAGGGCA
1 ATTTTTAAAAGAATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCA
7641789 TGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAA
66 TGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAA
*
7641833 AATTTTAAAAGAATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCA
1 ATTTTTAAAAGAATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCA
* *
7641898 TGTTTTCTCGAATTTCCAAACGCTAAATATTGCCT
66 TGTTTTCTCGAATTTCCAAACGCAAAACATTGCCT
7641933 CGATTAGAAA
Statistics
Matches: 198, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 198 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (109 bp):
ATTTTTAAAAGAATATTAAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCA
TGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAA
Found at i:7642280 original size:16 final size:17
Alignment explanation
Indices: 7642261--7642302 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
7642251 TATATAGATA
7642261 TACATATATAAA-TATG
1 TACATATATAAAGTATG
* *
7642277 TACATATAAAAAGTATT
1 TACATATATAAAGTATG
7642294 TA-ATATATA
1 TACATATATA
7642303 TATTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (17 bp):
TACATATATAAAGTATG
Found at i:7642420 original size:3 final size:3
Alignment explanation
Indices: 7642406--7642471 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
7642396 AAATAGAAAT
* * * * *
7642406 ATA ATG ATA ATA ATA ACA TTA GTA TTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
7642454 ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA
7642472 TTAAAAGATG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7645239 original size:6 final size:6
Alignment explanation
Indices: 7645228--7645252 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7645218 GAGAATAAAA
7645228 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
7645253 TTTTATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:7646027 original size:21 final size:22
Alignment explanation
Indices: 7646003--7646053 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
7645993 ATATGCTCAG
*
7646003 TATGATCTGTGTTATGATAA-T
1 TATGATCTGTATTATGATAAGT
*
7646024 TATGACCTGTATTATGATAAGT
1 TATGATCTGTATTATGATAAGT
7646046 T-TGATCTG
1 TATGATCTG
7646054 AATCTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (22 bp):
TATGATCTGTATTATGATAAGT
Found at i:7647288 original size:25 final size:26
Alignment explanation
Indices: 7647242--7647293 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
7647232 AAAATGCAAA
7647242 ATATTTATAAAAAAATTC-AAAATTT
1 ATATTTATAAAAAAATTCAAAAATTT
* *
7647267 ATATTT-TTAAAAAATTATAAAAATTT
1 ATATTTATAAAAAAATT-CAAAAATTT
7647293 A
1 A
7647294 AAAATATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 6 0.26
26 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATTTATAAAAAAATTCAAAAATTT
Found at i:7647289 original size:26 final size:25
Alignment explanation
Indices: 7647242--7647293 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
7647232 AAAATGCAAA
*
7647242 ATATTTATAAAAAAATTCAAAATTT
1 ATATTTATAAAAAAATTAAAAATTT
* *
7647267 ATATTTTTAAAAAATTATAAAAATTT
1 ATATTTATAAAAAAAT-TAAAAATTT
7647293 A
1 A
7647294 AAAATATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATTTATAAAAAAATTAAAAATTT
Found at i:7647859 original size:39 final size:39
Alignment explanation
Indices: 7647801--7647891 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
7647791 ATTTATTTTT
7647801 AAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
1 AAAATT-AAAAAGTATTTTAAAAATATTTTAAAATTAAAA
*
7647841 AAAATTAAAAAGTCTTTTAAAAATATTTTAAAATTAAAA
1 AAAATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
*
7647880 AATAATAAAAAA
1 AA-AATTAAAAA
7647892 ATTAAAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 34 0.71
40 14 0.29
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (39 bp):
AAAATTAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
Found at i:7647897 original size:9 final size:9
Alignment explanation
Indices: 7647870--7647915 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
7647860 AAAATATTTT
7647870 AAAATTAAA
1 AAAATTAAA
*
7647879 AAATAATAAA
1 AAA-ATTAAA
7647889 AAAATT---
1 AAAATTAAA
7647895 AAAATTAAA
1 AAAATTAAA
7647904 AAAATTAAA
1 AAAATTAAA
7647913 AAA
1 AAA
7647916 TAAATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
6 6 0.19
9 17 0.55
10 8 0.26
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAATTAAA
Found at i:7647901 original size:25 final size:24
Alignment explanation
Indices: 7647868--7647915 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
7647858 TAAAAATATT
7647868 TTAAAATTAAAAAATAATAAAAAAA
1 TTAAAATTAAAAAA-AATAAAAAAA
*
7647893 TTAAAATTAAAAAAATTAAAAAA
1 TTAAAATTAAAAAAAATAAAAAA
7647916 TAAATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (24 bp):
TTAAAATTAAAAAAAATAAAAAAA
Found at i:7647905 original size:15 final size:15
Alignment explanation
Indices: 7647885--7647913 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7647875 TAAAAAATAA
7647885 TAAAAAAATTAAAAT
1 TAAAAAAATTAAAAT
7647900 TAAAAAAATTAAAA
1 TAAAAAAATTAAAA
7647914 AATAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAAATTAAAAT
Found at i:7658998 original size:20 final size:19
Alignment explanation
Indices: 7658960--7659007 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
7658950 TTATGTATAT
*
7658960 TTTAATTAATCATATTTTA
1 TTTAATTAATCATAATTTA
*
7658979 GTTTAATTAATCTTAATTTA
1 -TTTAATTAATCATAATTTA
*
7658999 CTTAATTAA
1 TTTAATTAA
7659008 GCTTGACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAATTAATCATAATTTA
Found at i:7660906 original size:33 final size:30
Alignment explanation
Indices: 7660847--7660907 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
7660837 CAATAAATGA
*
7660847 AAAATATATAAAATTATTAAATATTAAATT
1 AAAATATATAAAATTATTAAAAATTAAATT
*
7660877 AAAATAATATAAATATTTTTAAAAAATTAAA
1 AAAAT-ATATAAA-ATTATT-AAAAATTAAA
7660908 AATAATATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 7 0.27
32 5 0.19
33 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATATAAAATTATTAAAAATTAAATT
Found at i:7661257 original size:22 final size:22
Alignment explanation
Indices: 7661215--7661257 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7661205 TTCTATTGTT
*
7661215 TTGCTACCATTTTGTTATTATA
1 TTGCTACCATTTTATTATTATA
* *
7661237 TTGCTACTATTTTATTGTTAT
1 TTGCTACCATTTTATTATTAT
7661258 TATTTGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (22 bp):
TTGCTACCATTTTATTATTATA
Found at i:7662565 original size:31 final size:27
Alignment explanation
Indices: 7662500--7662568 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
7662490 ATTGAGGTGT
*
7662500 AAATTAAAGTTAAGTTTATTTAGATAC
1 AAATTAAAGTTAAGTTTATTTAGACAC
* *
7662527 AAGTTAAAGATTAAGGGCTTTATTTGGACAC
1 AAATTAAAG-TTAA--G-TTTATTTAGACAC
7662558 AAATTAAAGTT
1 AAATTAAAGTT
7662569 TAAAAAGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 8 0.24
28 4 0.12
30 3 0.09
31 19 0.56
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (27 bp):
AAATTAAAGTTAAGTTTATTTAGACAC
Found at i:7664257 original size:73 final size:71
Alignment explanation
Indices: 7664131--7664272 Score: 223
Period size: 73 Copynumber: 2.0 Consensus size: 71
7664121 TCGGGTTTAG
*
7664131 AAAAGGGATCATGCCCAGTAAGTTAGAACACGATCTTTTCTTAATTCCTGAGATCGTTTAAAAAC
1 AAAAGGGATCATGCCCAGTAAGTTAGAACACGATCTTTTCTTAATTCCCGAGATCGTTT-AAAAC
7664196 TTGAGGA
65 TTGAGGA
* *
7664203 AAAATGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTT-TTAATTCCCGAGATTGTTTAAAA
1 AAAA-GGGATCATGCCCAGTAAGTTAGAACACGATCT-TTTCTTAATTCCCGAGATCGTTTAAAA
7664267 CTTGAG
64 CTTGAG
7664273 TTTGAAAAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
72 14 0.22
73 48 0.74
74 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (71 bp):
AAAAGGGATCATGCCCAGTAAGTTAGAACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
TGAGGA
Found at i:7664970 original size:3 final size:3
Alignment explanation
Indices: 7664962--7664999 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7664952 AAAGATATAC
7664962 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 AT
7665000 TGTTGACACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7666082 original size:13 final size:13
Alignment explanation
Indices: 7666043--7666084 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
7666033 CCTAGGGTAG
7666043 TGGGT-TTAGGTT
1 TGGGTATTAGGTT
*
7666055 TGGGTATTAGATT
1 TGGGTATTAGGTT
* *
7666068 TGGGTCTTTGGTT
1 TGGGTATTAGGTT
7666081 TGGG
1 TGGG
7666085 AATTTGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.10, C:0.02, G:0.40, T:0.48
Consensus pattern (13 bp):
TGGGTATTAGGTT
Found at i:7666145 original size:3 final size:3
Alignment explanation
Indices: 7666137--7666180 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7666127 GGGCTTGTAC
7666137 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7666181 GAGTACAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7667441 original size:2 final size:2
Alignment explanation
Indices: 7667434--7667468 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7667424 GGGTTATAAA
7667434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7667469 ATACATAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7667799 original size:29 final size:29
Alignment explanation
Indices: 7667767--7667831 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
7667757 ATTCGTTTTT
*
7667767 TAAAAAAT-ATTAATAA-AATAACAAGATAA
1 TAAAAAATCA-TAAAAATAATAACAAGA-AA
*
7667796 T-AAAAATCATAAAAATAATAACAATAAA
1 TAAAAAATCATAAAAATAATAACAAGAAA
7667824 TAAAAAAT
1 TAAAAAAT
7667832 TAAAGCTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (29 bp):
TAAAAAATCATAAAAATAATAACAAGAAA
Found at i:7667809 original size:9 final size:9
Alignment explanation
Indices: 7667769--7667829 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
7667759 TCGTTTTTTA
*
7667769 AAAAATATT
1 AAAAATAAT
*
7667778 AATAA-AAT
1 AAAAATAAT
7667786 AACAAGATAAT
1 AA-AA-ATAAT
*
7667797 AAAAATCAT
1 AAAAATAAT
7667806 AAAAATAAT
1 AAAAATAAT
*
7667815 AACAATAAAT
1 AAAAAT-AAT
7667825 AAAAA
1 AAAAA
7667830 ATTAAAGCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
8 4 0.10
9 22 0.54
10 10 0.24
11 5 0.12
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (9 bp):
AAAAATAAT
Found at i:7669338 original size:88 final size:89
Alignment explanation
Indices: 7669206--7669467 Score: 375
Period size: 88 Copynumber: 3.0 Consensus size: 89
7669196 CTAGATGCGA
*
7669206 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
7669271 AATACATGAAGACAAGATCTGTCAT
66 AATACATGAAGACAAGATCTG-CAT
* * * * *
7669296 T-TTCGATCTACTTCA-CGCCAATACGTGAAGACAAGATCTGCTACCTTTGATCTATTTCATGCC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
*
7669359 AATACATGAAGACAAGATCTGCTT
66 AATACATGAAGACAAGATCTGCAT
* * * * * * *
7669383 TCTTCGATCTATTTCACCACCAATATGGGAAGACAAGATATGTTATCTTCGATATACTTCACGCT
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
7669448 AATACATGAAGACAAGATCT
66 AATACATGAAGACAAGATCT
7669468 ACTATCTTCA
Statistics
Matches: 151, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
87 3 0.02
88 76 0.50
89 71 0.47
90 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
AATACATGAAGACAAGATCTGCAT
Found at i:7669474 original size:44 final size:44
Alignment explanation
Indices: 7669205--7669476 Score: 294
Period size: 44 Copynumber: 6.1 Consensus size: 44
7669195 ACTAGATGCG
* * ***
7669205 ATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCT
* *
7669250 ATCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTG-T
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
* *
7669293 CATTTTCGATCTACTTCACGCCAATACGTGAAGACAAGATCTGCT
1 -ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
* * * *
7669338 ACCTTTGATCTATTTCATGCCAATACATGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
* * * *** * *
7669382 TTCTTCGATCTATTTCACCACCAATATGGGAAGACAAGATATGTT
1 ATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCT
* * *
7669427 ATCTTCGATATACTTCACGCTAATACATGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
7669471 ATCTTC
1 ATCTTC
7669477 AGCCTGCTCC
Statistics
Matches: 186, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.01
44 134 0.72
45 51 0.27
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (44 bp):
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
Found at i:7669606 original size:43 final size:42
Alignment explanation
Indices: 7669470--7669797 Score: 172
Period size: 43 Copynumber: 7.5 Consensus size: 42
7669460 CAAGATCTAC
* *
7669470 TATCTTCAGCCTGCTCCGC-ACAACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACAACCCA-GGAGGCAAGGCTGG
* ** * * * *** * **
7669512 TGTCTTTGATCTGCTTCACTGTCAATGAAGGAAGGCAAGACCTAC
1 TATCTTCAACCTGCTCCACT-ACAACCCAGG-AGGCAAG-GCTGG
*
7669557 TATCTTCAACCAGCTCCACTACAACCCGAGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACAACCC-AGGAGGCAAGGCTGG
* * * * *** ** *
7669600 TATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATTTGC
1 TATCTTCAACCTGCTCCACT-ACAACCCAGG-AGGCAAG-GCTGG
7669645 TATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACAACCCA-GGAGGCAAGGCTGG
* * * * *** * * *
7669688 TATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGTAAGATCTGC
1 TATCTTCAACCTGCTCCACT-ACAACCCAGG-AGGCAAG-GCTGG
* *
7669733 TATCTTCAACCTACTCCACTACGACCCAGGGAGGCAAGGCTGG
1 TATCTTCAACCTGCTCCACTACAACCCA-GGAGGCAAGGCTGG
* * *
7669776 TATCTTCGATCTGCTCCGCTAC
1 TATCTTCAACCTGCTCCACTAC
7669798 TGCTTAGGGA
Statistics
Matches: 199, Mismatches: 74, Indels: 25
0.67 0.25 0.08
Matches are distributed among these distances:
42 12 0.06
43 65 0.33
44 61 0.31
45 61 0.31
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (42 bp):
TATCTTCAACCTGCTCCACTACAACCCAGGAGGCAAGGCTGG
Found at i:7669611 original size:88 final size:88
Alignment explanation
Indices: 7669450--7669790 Score: 492
Period size: 88 Copynumber: 3.9 Consensus size: 88
7669440 TTCACGCTAA
* * * * * *
7669450 TACATGAAGACAAGATCTACTATCTTCAGCCTGCTCCGC-ACAACCCAGGGAGGCAAGGCTGGTG
1 TACAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
* *
7669514 TCTTTGATCTGCTTCACTGTCAA
66 TCTTCGATCTGCTTCACTGTCAG
*
7669537 TGA-AGGAAGGCAAGACCTACTATCTTCAACCAGCTCCACTACAACCC-GAGGAGGCAAGGCTGG
1 T-ACAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCCAG-GGAGGCAAGGCTGG
7669600 TATCTTCGATCTGCTTCACTGTCAG
64 TATCTTCGATCTGCTTCACTGTCAG
* * *
7669625 TACAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
7669690 TCTTCGATCTGCTTCACTGTCAG
66 TCTTCGATCTGCTTCACTGTCAG
* * *
7669713 TACAGGAAGGTAAGATCTGCTATCTTCAACCTA-CTCCACTACGACCCAGGGAGGCAAGGCTGGT
1 TACAGGAAGGCAAGATCTACTATCTTCAACC-AGCTCCACTACAACCCAGGGAGGCAAGGCTGGT
7669777 ATCTTCGATCTGCT
65 ATCTTCGATCTGCT
7669791 CCGCTACTGC
Statistics
Matches: 231, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
87 33 0.14
88 197 0.85
89 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (88 bp):
TACAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCCAGGGAGGCAAGGCTGGTA
TCTTCGATCTGCTTCACTGTCAG
Found at i:7669636 original size:44 final size:43
Alignment explanation
Indices: 7669495--7669797 Score: 178
Period size: 44 Copynumber: 6.9 Consensus size: 43
7669485 CCGCACAACC
* * * * *
7669495 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCAATGA
1 CAGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACT-ACAAT-A
* ** * * * **
7669540 -AGGAAGGCAAGACCTACTATCTTCAACCAGCTCCACTACAACC
1 CAGGAAGGCAAG-GCTGGTATCTTCGATCTGCTCCACTACAATA
* * *
7669583 CGAGG-AGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTA
1 C-AGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACT-ACAATA
** * * * **
7669627 CAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAG-GCTGGTATCTTCGATCTGCTCCACTACAATA
* * * *
7669671 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTA
1 CAGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACT-ACAATA
* * * * * * * **
7669715 CAGGAAGGTAAGATCTGCTATCTTCAACCTACTCCACTACGACC
1 CAGGAAGGCAAG-GCTGGTATCTTCGATCTGCTCCACTACAATA
* *
7669759 CAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTAC
1 CAGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACTAC
7669798 TGCTTAGGGA
Statistics
Matches: 184, Mismatches: 66, Indels: 18
0.69 0.25 0.07
Matches are distributed among these distances:
43 61 0.33
44 66 0.36
45 57 0.31
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (43 bp):
CAGGAAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACAATA
Found at i:7669651 original size:45 final size:45
Alignment explanation
Indices: 7669205--7669739 Score: 172
Period size: 44 Copynumber: 12.1 Consensus size: 45
7669195 ACTAGATGCG
* *** ** *
7669205 ATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCT
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCT
* * * * * *
7669250 ATCTTTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTG-T
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCT
* * * * *
7669293 CATTTTCGATCTACTTCAC-GCCAATAC-GTGAAGACAAGATCTGCT
1 -ATCTTCGATCTGCTTCACTGTCAGTACAG-GAAGGCAAGATCTGCT
* * ** * * * *
7669338 ACCTTTGATCTATTTCA-TGCCAATACATGAAGACAAGATCTGCT
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCT
* ** *** * ** * * *
7669382 TTCTTCGATCTATTTCACCACCAATATGGGAAGACAAGATATGTT
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCT
* * * * * *
7669427 ATCTTCGATATACTTCAC-G-CTAATACATGAAGACAAGATCTACT
1 ATCTTCGATCTGCTTCACTGTC-AGTACAGGAAGGCAAGATCTGCT
* ** * * *
7669471 ATCTTC-AGCCTGC-TC-C-G-CACAACCCAGGGAGGCAAG-GCTGGT
1 ATCTTCGA-TCTGCTTCACTGTCAGTA--CAGGAAGGCAAGATCTGCT
* * * * *
7669513 GTCTTTGATCTGCTTCACTGTCAATGA-AGGAAGGCAAGACCTACT
1 ATCTTCGATCTGCTTCACTGTCAGT-ACAGGAAGGCAAGATCTGCT
* * * * * *** * *
7669558 ATCTTCAACCAGCTCCACT-ACAACCCGAGG-AGGCAAG-GCTGGT
1 ATCTTCGATCTGCTTCACTGTCAGTAC-AGGAAGGCAAGATCTGCT
*
7669601 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATTTGCT
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCT
* * * * *** * * *
7669646 ATCTTCAACCTGCTCCACT-ACAACCCAGGGAGGCAAG-GCTGGT
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCT
*
7669689 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGTAAGATCTGCT
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCT
7669734 ATCTTC
1 ATCTTC
7669740 AACCTACTCC
Statistics
Matches: 365, Mismatches: 100, Indels: 50
0.71 0.19 0.10
Matches are distributed among these distances:
41 2 0.01
42 14 0.04
43 57 0.16
44 188 0.52
45 101 0.28
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (45 bp):
ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCT
Found at i:7669871 original size:176 final size:175
Alignment explanation
Indices: 7669689--7670035 Score: 550
Period size: 176 Copynumber: 2.0 Consensus size: 175
7669679 CAAGGCTGGT
*
7669689 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGTAAGATCTGCTATCTTCAACCTACTCCACTA
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTA
* * *
7669754 CGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
66 CCACCCAGGGAGACAAGGCTAGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
*
7669819 TAATTTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTTACA
131 TAA-TTTTAACCGATTCCACTGCTGTCCAGGGAGATAGGATTTACA
* * * * *
7669865 ATCTTCGATCTGCTTCACTGTCAGTATAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCTCTG
1 ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTA
** * *
7669930 CCACTGAGGGAGATAAGGCTAGTGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
66 CCACCCAGGGAGACAAGGCTAGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
*
7669995 TAATTTTAACCGATTCCAGTGCTGTCCAGGGAGATAGGATT
131 TAATTTTAACCGATTCCACTGCTGTCCAGGGAGATAGGATT
7670036 CTCAATCCTC
Statistics
Matches: 156, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
175 36 0.23
176 120 0.77
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (175 bp):
ATCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTA
CCACCCAGGGAGACAAGGCTAGTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTG
TAATTTTAACCGATTCCACTGCTGTCCAGGGAGATAGGATTTACA
Found at i:7670182 original size:218 final size:218
Alignment explanation
Indices: 7669831--7670434 Score: 913
Period size: 218 Copynumber: 2.8 Consensus size: 218
7669821 ATTTTTAACC
* * **** * * *
7669831 TATTCCACTGCTGTCCAGGGAGATAGGATTTACAATCTTCGATCTGCTTCACTGTCAGTATAGGA
1 TATTCCACTGCTGACCAGGGAGATAAGA-TTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGG
* * * * **
7669896 AGGCAAGATCTGCTATCTTTAACCTGCTCCT-CTGCCACTGAGGGAGATAAGGCTAGTGTCTTCG
65 AGGCAAGATCTGCTATCTTTAGCCT-ATTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCG
*
7669960 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACCGATTCCAGTGCTGTCCAGG
129 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACCGATTCCACTGCTGTCCAGG
7670025 GAGATAGGATTCTCAATCCTCAACT
194 GAGATAGGATTCTCAATCCTCAACT
7670050 TATTCCACTGCTGACCAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGGA
1 TATTCCACTGCTGACCAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGGA
* *
7670115 GGCAAGATCTGCTATCTTTAGCCTATTCTGCTGCCACCGAGGTAGGCAAGGCTAGTATCTTCGAT
66 GGCAAGATCTGCTATCTTTAGCCTATTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
* ** *
7670180 CTGTTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACTTATTCCACTGCTGTCTAGGGA
131 CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACCGATTCCACTGCTGTCCAGGGA
7670245 GATAGGATTCTCAATCCTCAACT
196 GATAGGATTCTCAATCCTCAACT
* *
7670268 TATTCCACTGCTGACTAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGAGA
1 TATTCCACTGCTGACCAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGGA
* * **
7670333 GGCAAGATCTGCTATCTTCAGCATGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
66 GGCAAGATCTGCTATCTTTAGCCTATTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
* *
7670398 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
131 CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAAT
7670435 CTTCAATCTA
Statistics
Matches: 351, Mismatches: 33, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
217 3 0.01
218 322 0.92
219 26 0.07
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (218 bp):
TATTCCACTGCTGACCAGGGAGATAAGATTGGTTTTTTCGATCTGCTTCACTGTCAGTACAGGGA
GGCAAGATCTGCTATCTTTAGCCTATTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGAT
CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTAACCGATTCCACTGCTGTCCAGGGA
GATAGGATTCTCAATCCTCAACT
Found at i:7670248 original size:43 final size:43
Alignment explanation
Indices: 7670196--7670296 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 43
7670186 CGCTACTGCT
* * * *
7670196 TAGGGAGATAAGATCTGTAAT-TTTAACTTATTCCACTGCTGTC
1 TAGGGAGATAAGATCT-CAATCCTCAACTTATTCCACTGCTGAC
*
7670239 TAGGGAGATAGGATTCTCAATCCTCAACTTATTCCACTGCTGAC
1 TAGGGAGATAAGA-TCTCAATCCTCAACTTATTCCACTGCTGAC
7670283 TAGGGAGATAAGAT
1 TAGGGAGATAAGAT
7670297 TGGTTTTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 16 0.32
44 34 0.68
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
TAGGGAGATAAGATCTCAATCCTCAACTTATTCCACTGCTGAC
Found at i:7671759 original size:8 final size:7
Alignment explanation
Indices: 7671740--7671779 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
7671730 CCTTGGCCTC
7671740 TCTTTTT
1 TCTTTTT
7671747 TCTTTTT
1 TCTTTTT
7671754 TGC-TTTT
1 T-CTTTTT
7671761 TC-TTTT
1 TCTTTTT
7671767 TCTTTTT
1 TCTTTTT
7671774 T-TTTTT
1 TCTTTTT
7671780 GAAAAATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.39
7 18 0.58
8 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (7 bp):
TCTTTTT
Found at i:7671762 original size:14 final size:14
Alignment explanation
Indices: 7671743--7671780 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
7671733 TGGCCTCTCT
7671743 TTTTTCTTTTTTGC
1 TTTTTCTTTTTTGC
7671757 TTTTTC-TTTTT-C
1 TTTTTCTTTTTTGC
7671769 TTTTT-TTTTTTG
1 TTTTTCTTTTTTG
7671781 AAAAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTTTGC
Found at i:7676086 original size:2 final size:2
Alignment explanation
Indices: 7676075--7676109 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7676065 AGTTTTTGGT
7676075 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7676110 AAATACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7689548 original size:113 final size:113
Alignment explanation
Indices: 7689120--7689631 Score: 479
Period size: 112 Copynumber: 4.5 Consensus size: 113
7689110 AGCGCATCGT
* ** * *
7689120 TTTGGTCTTGATGTATACTAGAATTAGTGGCG-ATTATGATAAAACGCCGCTAAAGGA-AGTATT
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCA-TAAGGGAAAACGCCGCTAAAGCATACTATT
* **
7689183 AGCGGCGCATTGTCGA-AAGCGCCGCAAAA-ATCTTAACGAAAACGCATCG
65 AGCGGCGC-TT-TCGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
* * * * * * *
7689232 TTTTGTCTCGCTGTATATTAGCATTAGTGGCGCTTACA---AAAACCCGCCGCTAAAGCA-AGTA
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCATA-AGGGAAAA--CGCCGCTAAAGCATACTA
* * * * * *
7689293 TTAGCGGCGCTTACAAAAAGCGCCGCTATATATGTTAACCAAAACGCAGAG
63 TTAGCGGCGCTTTCGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
* * * * * * * *
7689344 TTTGGTCTAGAGGTACATTAGAATTTGTGGCGCTTAAGGGAAAACGCCACTAAAGCATAATATTA
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATACTATTA
* *
7689409 GCGGCGTTTTGTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
66 GCGGCGCTTT-CGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
* * * *
7689458 TTTGGTATTGAGGTATACTAGAATTAGTGGCGCA-AAGGGAACACGCCGCTAAGGCATACTATTA
1 TTTGGTCTTGATGTATACTAGAATTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATACTATTA
* * *
7689522 GCGGCGCGTTTGGAGAAGCGCCGCAAAATTTCGTAACCAAAACGCA-ACG
66 GCGGCGC-TTTCGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGA-G
* **
7689571 TTTTTGTCTTGATGTATAC-AGTAATTAGTGGCGCATACTGGAAAACGCCGCTAAAGCATAC
1 -TTTGGTCTTGATGTATACTAG-AATTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATAC
7689632 AAAATATGCT
Statistics
Matches: 330, Mismatches: 54, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
110 6 0.02
111 14 0.04
112 113 0.34
113 81 0.25
114 95 0.29
115 21 0.06
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (113 bp):
TTTGGTCTTGATGTATACTAGAATTAGTGGCGCATAAGGGAAAACGCCGCTAAAGCATACTATTA
GCGGCGCTTTCGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
Found at i:7689782 original size:200 final size:199
Alignment explanation
Indices: 7689444--7689830 Score: 512
Period size: 200 Copynumber: 1.9 Consensus size: 199
7689434 AAATATCTTA
7689444 ACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTA
1 ACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTA
* * * * *
7689509 AGGCATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATTTCGTAACCAAAACGCAACGTTT
66 AAGAATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAACGTTT
* * *
7689574 TTGTCTTGATGTATACAGTAATTAGTGGCG-CATACTG-GAAAACGCCGCTAAAGCATACAAAAT
131 TAGTCTTGATGTATACAGGAATTAGTGGCGTC-CAC-GAGAAAACGCCGCTAAAGCATACAAAAT
7689637 ATGCTC
194 ATGCTC
* * * * * *
7689643 ACCAAAACGTAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAGA-ACGCCGC
1 ACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGGCGC-AAAGGGA-ACACGCCGC
* * * * *
7689707 TAAAGAATACTATTAGCGGCATGTTTTGAGAAGCGCCGCAAAATATATTAACCAAAGCGCAGC-T
64 TAAAGAATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAACGT
* *
7689771 TTTAAGTCTTGATGTATACTGGAATTAGTGGCGTCCACGAGAAATCGCCGCTAAAGCATA
129 TTT-AGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAACGCCGCTAAAGCATA
7689831 GTATTAGCAG
Statistics
Matches: 162, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
199 48 0.30
200 112 0.69
201 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (199 bp):
ACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTA
AAGAATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAACGTTT
TAGTCTTGATGTATACAGGAATTAGTGGCGTCCACGAGAAAACGCCGCTAAAGCATACAAAATAT
GCTC
Found at i:7689895 original size:115 final size:114
Alignment explanation
Indices: 7689643--7689895 Score: 282
Period size: 115 Copynumber: 2.2 Consensus size: 114
7689633 AAATATGCTC
* * * * *
7689643 ACCAAAACGTAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAGAACGCCGCT
1 ACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTCACGAGAGAACGCCGCT
*
7689708 AAAGAATACTATTAGCGGCATGTTTTGAGAAGCGCCGCAAAATATATTA
66 AAAGAATACTATTAGCGGCATGTTTTGAAAAGCGCCGCAAAATATATTA
* * * *
7689757 ACCAAAGCGCAG-CTTTTAAGTCTTGATGTATACTGGAATTAGTGGCG-TCCACGAGA-AATCGC
1 ACCAAAACGCAGAGTTTT--GTCTTGAGGTATACTAGAATTAGTGGCGCT-CACGAGAGAA-CGC
* * * *
7689819 CGCTAAAGCATAGTATTAGCAGCGC-T-TTTTGAAAAGCGCCGGAAAATATCTTA
62 CGCTAAAGAATACTATTAGC-G-GCATGTTTTGAAAAGCGCCGCAAAATATATTA
7689872 ACCAAAACGCAGAGTTTTGGTCTT
1 ACCAAAACGCAGAGTTTT-GTCTT
7689896 AACCATGCAT
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
113 4 0.03
114 13 0.11
115 90 0.78
116 6 0.05
117 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (114 bp):
ACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTCACGAGAGAACGCCGCT
AAAGAATACTATTAGCGGCATGTTTTGAAAAGCGCCGCAAAATATATTA
Found at i:7689977 original size:21 final size:21
Alignment explanation
Indices: 7689953--7689992 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7689943 TTTGGTTTAT
*
7689953 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTTAAAGGTTGG
*
7689974 GGTTTAAGGTTTAGAGGTT
1 GGTTTAAGGTTTAAAGGTT
7689993 ACGTGTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGTTTAAAGGTTGG
Found at i:7692696 original size:12 final size:12
Alignment explanation
Indices: 7692679--7692717 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
7692669 TTTTACTTCA
7692679 TTTAACAGAATG
1 TTTAACAGAATG
7692691 TTTAACAGAATG
1 TTTAACAGAATG
7692703 TTTAACAGAATG
1 TTTAACAGAATG
7692715 TTT
1 TTT
7692718 TACTTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
TTTAACAGAATG
Found at i:7693242 original size:2 final size:2
Alignment explanation
Indices: 7693235--7693260 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7693225 AAGTAAAATA
7693235 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7693261 TTTTGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7695216 original size:21 final size:20
Alignment explanation
Indices: 7695190--7695241 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
7695180 CGACAACTTA
*
7695190 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGT-GCAGCGAGAG
7695211 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGG-TGCAGCGAGAG
7695232 AAGCAGAGGT
1 AAGCAGAGGT
7695242 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.46, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGTGCAGCGAGAG
Found at i:7695769 original size:41 final size:42
Alignment explanation
Indices: 7695682--7695781 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 42
7695672 CGTTAAATAA
* * * *
7695682 CATGTTCTTTC-GCGGCACTTAATAAAAAACGCCACTGAAGAT
1 CATGTTC-TTCAGCGGCGCTTAAGAAAAAACGCCACTAAAGAC
*
7695724 CATGTTCTTCAGCGGCGCTT-AGAAAAAACGCCGCTAAAGAC
1 CATGTTCTTCAGCGGCGCTTAAGAAAAAACGCCACTAAAGAC
*
7695765 CATGTTCTTTAGCGGCG
1 CATGTTCTTCAGCGGCG
7695782 TTTTTGTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 36 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (42 bp):
CATGTTCTTCAGCGGCGCTTAAGAAAAAACGCCACTAAAGAC
Found at i:7698610 original size:21 final size:21
Alignment explanation
Indices: 7698586--7698627 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7698576 AAGCATATTA
*
7698586 CTTTCATATGGCATACACCAT
1 CTTTCATATGGCACACACCAT
7698607 CTTTCATATGGCACACACCAT
1 CTTTCATATGGCACACACCAT
7698628 GAATGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (21 bp):
CTTTCATATGGCACACACCAT
Found at i:7708793 original size:26 final size:26
Alignment explanation
Indices: 7708764--7708818 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
7708754 ATATTTTCTT
* *
7708764 AAAATTTTATCAAGGGCAAAATCGTC
1 AAAATTTTACCAAGGGCAAAACCGTC
* *
7708790 AAAATTTTACCAGGGGTAAAACCGTC
1 AAAATTTTACCAAGGGCAAAACCGTC
7708816 AAA
1 AAA
7708819 GTTTGCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (26 bp):
AAAATTTTACCAAGGGCAAAACCGTC
Found at i:7718235 original size:127 final size:130
Alignment explanation
Indices: 7718098--7718363 Score: 362
Period size: 127 Copynumber: 2.1 Consensus size: 130
7718088 TTTATAATTA
7718098 ATTTTTAATATATTAGCT-TCCTTGGTTAAATGGTTAAATAATAATGATTTCATCTTTAAATATC
1 ATTTTTAATATATTAGCTCT-CTTGGTTAAATGGTTAAATAATAATGATTTCATCTTTAAATATC
*** * * * *
7718162 AAGTTCAATTCCT-TT-T-TTGAACAT-ATTTGTAATTTTTATTTCATTTTATTTTAAGCTTTTT
65 AAGTTCAATTCCTCTTCTAAAAAAAATAATTTGTAATTTTTATTACATGTTATTTCAAGCTTTTT
7718223 T
130 T
* * *
7718224 CATTTTTAATATATTAGCTCTCTTGGTTAAATGGTTAAATAATAATGATTTTATTTTTAAATCTC
1 -ATTTTTAATATATTAGCTCTCTTGGTTAAATGGTTAAATAATAATGATTTCATCTTTAAATATC
* *
7718289 AGGTTCAATTCCTCTTCTAAAAAAAATACATTTGTAATTTTTATTACATGTTGTTTCAAGCTTTT
65 AAGTTCAATTCCTCTTCTAAAAAAAATA-ATTTGTAATTTTTATTACATGTTATTTCAAGCTTTT
7718354 TT
129 TT
7718356 ATTTTTAA
1 ATTTTTAA
7718364 ATAATAAATA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
127 71 0.59
128 3 0.02
129 1 0.01
130 4 0.03
131 8 0.07
132 34 0.28
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (130 bp):
ATTTTTAATATATTAGCTCTCTTGGTTAAATGGTTAAATAATAATGATTTCATCTTTAAATATCA
AGTTCAATTCCTCTTCTAAAAAAAATAATTTGTAATTTTTATTACATGTTATTTCAAGCTTTTTT
Found at i:7720726 original size:13 final size:13
Alignment explanation
Indices: 7720690--7720735 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
7720680 GTATATGGAT
7720690 ATAA-AAATAATA
1 ATAATAAATAATA
7720702 A-AATGAAAATAATA
1 ATAAT--AAATAATA
7720716 ATAATAAATAATA
1 ATAATAAATAATA
7720729 ATAATAA
1 ATAATAA
7720736 TACAATGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.07
12 1 0.03
13 15 0.50
14 9 0.30
15 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:7720752 original size:3 final size:3
Alignment explanation
Indices: 7720690--7720737 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
7720680 GTATATGGAT
*
7720690 ATA AAA ATA ATA A-A ATGA A-A ATA ATA ATA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA ATA
7720735 ATA
1 ATA
7720738 CAATGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:7722617 original size:132 final size:132
Alignment explanation
Indices: 7722466--7723170 Score: 855
Period size: 132 Copynumber: 5.3 Consensus size: 132
7722456 GATCTGAAAT
* * * *
7722466 CTTCAATCTACT-CACTGTAACCGCAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCACTGTC
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACT-AC
* * * * *
7722530 TATGCAGGAAGGTAAGATCTGCAATCTTTAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTA
65 TATGCAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGA-TAGAATTA
7722594 CTGG
129 CTGG
* *
7722598 CTTCAATGTACT-CACTGTAA-CTACAGGGAGGTAAAATTCACCATCTTTGATCTGTTCCACTAC
1 CTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTAC
* *
7722661 --TGCTTAGGGAGAAAATATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGA-AGTAGAAT
65 TATGC--AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGA-TAGAAT
7722723 TACTGG
127 TACTGG
* *
7722729 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTAC-
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
* * * ** *
7722793 -TGCTTGGGGAGACAAGATCTGAAATC-TCTAATCCATTCCACTGTTGCCC-GTGGAGATAGAGT
66 ATGC--AGGGAGATAAGATCTGAAATCTTC-AATCTATTCCACTACTGCCCAG-GGAGATAGAAT
*
7722855 TACTTG
127 TACTGG
* * ** *
7722861 TTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATTCATTATCTTCGATTTGCTCCACTACT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
* * *
7722926 ACT-TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTACTGCCCAGGGAGATAGAATTAC
66 A-TGCAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTAC
7722990 TGG
130 TGG
* *
7722993 CTTCAATGTACTCCACTGTAACCTCAGTGAGGTAAAA-TCTGCCATCTTCGATCTGCTCCACTAC
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTC-ACCATCTTCGATCTGCTCCACTAC
* *
7723057 --TGCTTAGGGAGATAAGATCTGTAATCTTCAATTTATTCCACTACTGCCCAGGGAGATAGAATT
65 TATGC--AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATT
7723120 ACTGG
128 ACTGG
* *
7723125 CTTCAATGTACTCCACTGTAACCTCAGGAAGGTAAAATCCACCATC
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATC
7723171 AACCTGTTCC
Statistics
Matches: 502, Mismatches: 53, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
129 4 0.01
131 75 0.15
132 416 0.83
133 6 0.01
135 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
ATGCAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTACT
GG
Found at i:7722880 original size:264 final size:263
Alignment explanation
Indices: 7722466--7723170 Score: 942
Period size: 264 Copynumber: 2.7 Consensus size: 263
7722456 GATCTGAAAT
* * * *
7722466 CTTCAATCTACT-CACTGTAACCGCAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCACT-GT
1 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
* * *
7722529 -CTATGCAGGAAGGTAAGATCTGCAATCTTTAATCTATTCCACTGCTGCCCAGGGA-AGTAGAAT
66 GCT-TG--GGGAGATAAGATCTGAAATC-TTAATCTATTCCACTGCTGCCCAGGGAGA-TAGAAT
* *
7722592 TACTGGCTTCAATGTACT-CACTGTAA-CTACAGGGAGGTAAAATTCACCATCTTTGATCTGTTC
126 TACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATTCACCATCTTCGATCTGCTC
* *
7722655 CACTACTGCTTAGGGAGAAAATATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGA-AGTA
190 CACTACTACTTAGGGAGAAAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGA-TA
7722719 GAATTACTGG
254 GAATTACTGG
*
7722729 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACT
1 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
* * * *
7722794 GCTTGGGGAGACAAGATCTGAAATCTCTAATCCATTCCACTGTTGCCC-GTGGAGATAGAGTTAC
66 GCTTGGGGAGATAAGATCTGAAATCT-TAATCTATTCCACTGCTGCCCAG-GGAGATAGAATTAC
* * * ** *
7722858 TTGTTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATTCATTATCTTCGATTTGCTCCACT
129 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACT
* * *
7722923 ACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCGCTACTGCCCAGGGAGATAGAATT
194 ACTACTTAGGGAGAAAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATT
7722988 ACTGG
259 ACTGG
* * *
7722993 CTTCAATGTACTCCACTGTAACCTCAGTGAGGTAAAA-TCTGCCATCTTCGATCTGCTCCACTAC
1 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTCGATCTGCTCCACTAC
* * * *
7723057 TGCTTAGGGAGATAAGATCTGTAATCTTCAATTTATTCCACTACTGCCCAGGGAGATAGAATTAC
65 TGCTTGGGGAGATAAGATCTGAAATCTT-AATCTATTCCACTGCTGCCCAGGGAGATAGAATTAC
* *
7723122 TGGCTTCAATGTACTCCACTGTAACCTCAGGAAGGTAAAATCCACCATC
129 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATC
7723171 AACCTGTTCC
Statistics
Matches: 386, Mismatches: 44, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
262 2 0.01
263 73 0.19
264 302 0.78
265 7 0.02
266 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (263 bp):
CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTACT
GCTTGGGGAGATAAGATCTGAAATCTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
GCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCACCATCTTCGATCTGCTCCACTAC
TACTTAGGGAGAAAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTAC
TGG
Found at i:7722969 original size:44 final size:44
Alignment explanation
Indices: 7722916--7723114 Score: 136
Period size: 44 Copynumber: 4.5 Consensus size: 44
7722906 CTTCGATTTG
*
7722916 CTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTA
1 CTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTCAATCTA
* * * * * * *
7722960 TTCCGCTACTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCAATGTA
1 CTCCACTACTACTCAGGGAGATAAGATCTGTAAT--CTTCAATCTA
* * * * ** * *
7723003 CTCCACT-GTAACCTCAGTGAGGTAAAATCTGCCATCTTCGATCTG
1 CTCCACTACT-A-CTCAGGGAGATAAGATCTGTAATCTTCAATCTA
* * *
7723048 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATTTA
1 CTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTCAATCTA
* * *
7723092 TTCCACTACTGCCCAGGGAGATA
1 CTCCACTACTACTCAGGGAGATA
7723115 GAATTACTGG
Statistics
Matches: 110, Mismatches: 37, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 17 0.15
44 69 0.63
45 16 0.15
46 2 0.02
47 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
CTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTCAATCTA
Found at i:7723340 original size:87 final size:88
Alignment explanation
Indices: 7723178--7723341 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 88
7723168 ATCAACCTGT
* * * *
7723178 TCCACTGCAACCGAGGGAGGTAAGGCTGGTATCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGC
1 TCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCAATCTACTTCGCTGTCAATGCAGGAAGGC
*
7723243 AAGATTTGCTATCTTTAACTTGC
66 AAGATCTGCTATCTTTAACTTGC
* * * ** * *
7723266 TCCACTACAACTGAGGGAGGCAAGGCT-TTATTTTTGATCTACTTTGCTGTCGATGCAGGAAGGC
1 TCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCAATCTACTTCGCTGTCAATGCAGGAAGGC
7723330 AAGATCTGCTAT
66 AAGATCTGCTAT
7723342 TTTCACTGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
87 40 0.62
88 24 0.38
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (88 bp):
TCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCAATCTACTTCGCTGTCAATGCAGGAAGGC
AAGATCTGCTATCTTTAACTTGC
Found at i:7724590 original size:7 final size:7
Alignment explanation
Indices: 7724580--7724622 Score: 70
Period size: 7 Copynumber: 6.1 Consensus size: 7
7724570 TCTATTTTAT
7724580 TTTTTCA
1 TTTTTCA
7724587 TTTTTCA
1 TTTTTCA
7724594 TTTTTCA
1 TTTTTCA
7724601 -TTTTCA
1 TTTTTCA
7724607 TCTTTTCA
1 T-TTTTCA
7724615 TTTTTCA
1 TTTTTCA
7724622 T
1 T
7724623 CTCATCATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.18
7 21 0.62
8 7 0.21
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTTCA
Found at i:7724623 original size:15 final size:15
Alignment explanation
Indices: 7724581--7724634 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
7724571 CTATTTTATT
7724581 TTTTCATTTTTCAT-
1 TTTTCATTTTTCATC
7724595 TTTTCA-TTTTCATC
1 TTTTCATTTTTCATC
7724609 TTTTCATTTTTCATC
1 TTTTCATTTTTCATC
**
7724624 TCATCATTTTT
1 TTTTCATTTTT
7724635 TTACGACTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 7 0.19
14 12 0.33
15 17 0.47
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCATTTTTCATC
Found at i:7724633 original size:21 final size:21
Alignment explanation
Indices: 7724584--7724633 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
7724574 TTTTATTTTT
*
7724584 TCAT-TTTTCATTTTTCATTT
1 TCATCTTTTCATTTTTCATTC
7724604 TCATCTTTTCATTTTTCA-TC
1 TCATCTTTTCATTTTTCATTC
7724624 TCATCATTTT
1 TCATC-TTTT
7724634 TTTACGACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (21 bp):
TCATCTTTTCATTTTTCATTC
Found at i:7727466 original size:19 final size:20
Alignment explanation
Indices: 7727442--7727481 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7727432 AACTGTGTTT
* *
7727442 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
7727461 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
7727481 A
1 A
7727482 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:7727531 original size:13 final size:13
Alignment explanation
Indices: 7727513--7727538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7727503 ATGTTCAATT
7727513 TTTACTAGAAAAC
1 TTTACTAGAAAAC
7727526 TTTACTAGAAAAC
1 TTTACTAGAAAAC
7727539 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:7729550 original size:13 final size:13
Alignment explanation
Indices: 7729514--7729559 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
7729504 GTATATGGAT
7729514 ATAA-AAATAATA
1 ATAATAAATAATA
7729526 A-AATGAAAATAATA
1 ATAAT--AAATAATA
7729540 ATAATAAATAATA
1 ATAATAAATAATA
7729553 ATAATAA
1 ATAATAA
7729560 TACAATGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.07
12 1 0.03
13 15 0.50
14 9 0.30
15 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:7729576 original size:3 final size:3
Alignment explanation
Indices: 7729514--7729561 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
7729504 GTATATGGAT
*
7729514 ATA AAA ATA ATA A-A ATGA A-A ATA ATA ATA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA ATA
7729559 ATA
1 ATA
7729562 CAATGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:7730790 original size:39 final size:41
Alignment explanation
Indices: 7730747--7730841 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 41
7730737 TTAAAAATTA
** *
7730747 TTTTAATAAAATAAAATTTTTATTATATTTAT-TTGTG-TT
1 TTTTAATAAAATAAAACATTTATTATATTTATGTAGTGTTT
*
7730786 TTTTAATACAATAAAACATTTATTATATTTATGGTAGTGTTT
1 TTTTAATAAAATAAAACATTTATTATATTTAT-GTAGTGTTT
7730828 TTTTAATATAAATA
1 TTTTAATA-AAATA
7730842 CATTTTAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 29 0.62
41 4 0.09
42 10 0.21
43 4 0.09
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (41 bp):
TTTTAATAAAATAAAACATTTATTATATTTATGTAGTGTTT
Found at i:7733094 original size:2 final size:2
Alignment explanation
Indices: 7733051--7733075 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7733041 TATGGATAAG
7733051 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7733076 AGGTTCGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7733767 original size:41 final size:41
Alignment explanation
Indices: 7733696--7733857 Score: 157
Period size: 41 Copynumber: 4.0 Consensus size: 41
7733686 TGAAAATAAG
* * * *
7733696 ATGTTTCAGACTTTACGTCCAAG-AGTCTTGATGCCGATGAA
1 ATGTTTCAGACTTTATGT-CTAGCAGGCTTGATGCCGGTGAA
*
7733737 ATGTTTCAGACTTTATGTCTAGTAGGCTTGATGCCGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
* ** *
7733778 TTACTTCAGACTTTATATCTAGCAGGCTTTG-TGCCGGTGAA
1 ATGTTTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
* * * * * *
7733819 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
7733858 TTTTAAACAA
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
40 5 0.05
41 91 0.92
42 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (41 bp):
ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
Found at i:7734935 original size:2 final size:2
Alignment explanation
Indices: 7734928--7734965 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7734918 GTACTAAATG
7734928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7734966 TATGAAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7735357 original size:22 final size:23
Alignment explanation
Indices: 7735315--7735358 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7735305 TCATGATTGA
* *
7735315 AGATTCTCATTTGATTTCTTTGG
1 AGATTATCATGTGATTTCTTTGG
7735338 AGATTATCATGTG-TTTCTTTG
1 AGATTATCATGTGATTTCTTTG
7735359 TTTCTTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (23 bp):
AGATTATCATGTGATTTCTTTGG
Found at i:7743728 original size:24 final size:24
Alignment explanation
Indices: 7743690--7743987 Score: 149
Period size: 24 Copynumber: 12.6 Consensus size: 24
7743680 TGAATTGGAT
* *
7743690 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
7743715 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
*
7743739 AATTT-AAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * **
7743759 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
* * *
7743784 AATCTAAAATAACAATATATAATA
1 AATTTAAAATAATAATATATGATA
*
7743808 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
7743829 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
* ** *
7743853 AATTTAAAATAAT-GT-TACAATG
1 AATTTAAAATAATAATATATGATA
7743875 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* **
7743898 AA-TTACAAATAATAAAACGTGATA
1 AATTTA-AAATAATAATATATGATA
* **
7743922 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
** *
7743946 AA-TTAACTTAGATAATATTGGTGATA
1 AATTTAAAATA-ATAATA-T-ATGATA
7743972 AATTTAATAATAATAA
1 AATTTAA-AATAATAA
7743988 GTTTAAACAT
Statistics
Matches: 203, Mismatches: 47, Indels: 44
0.69 0.16 0.15
Matches are distributed among these distances:
20 5 0.02
21 13 0.06
22 34 0.17
23 37 0.18
24 84 0.41
25 15 0.07
26 5 0.02
27 8 0.04
28 2 0.01
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:7743762 original size:69 final size:67
Alignment explanation
Indices: 7743687--7743949 Score: 185
Period size: 69 Copynumber: 3.8 Consensus size: 67
7743677 AAATGAATTG
* * * *
7743687 GATAATTTACAATAAATAATATATAATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATT
1 GATAATTTA-AATAAAT-ATACATGATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATA
*
7743751 TTGAT
63 TTAAT
* * * *
7743756 GATAATTCTAGAAT-AATCATACGTGATAAATCTAAAATAACAATATATAATAAATTTAAAAATA
1 GATAATT-TA-AATAAAT-ATACATGATAAATTTAAAATAATAATACATAATAAATTTAAAAATA
7743820 TTAAT
63 TTAAT
* ** *
7743825 GATAAATTTGAAATAGATATACATGATAAATTTAAAATAATGTTAC--AATGAATTTAAAATAAT
1 GAT-AATTT-AAATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTT-AAA-AAT
* *
7743888 AATATT
62 ATTAAT
* * * * * *
7743894 GATAAATTACAA-ATAATAAAACGTGATAAATCTAAAATAATAATATACAATAAATT
1 GATAATTTA-AATA-AAT-ATACATGATAAATTTAAAATAATAATACATAATAAATT
7743950 AACTTAGATA
Statistics
Matches: 152, Mismatches: 30, Indels: 22
0.75 0.15 0.11
Matches are distributed among these distances:
67 10 0.07
68 11 0.07
69 110 0.72
70 14 0.09
71 7 0.05
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (67 bp):
GATAATTTAAATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTA
AT
Found at i:7743828 original size:45 final size:45
Alignment explanation
Indices: 7743779--7743949 Score: 127
Period size: 45 Copynumber: 3.7 Consensus size: 45
7743769 TAATCATACG
*
7743779 TGATAAATCTAAAATAACAATATATAATAAATTTAAAAATATTAA
1 TGATAAATCTAAAATAATAATATATAATAAATTTAAAAATATTAA
* * * * *
7743824 TGATAAATTTGAAATAGAT-ATACATGATAAATTTAAAATAATGTTACA
1 TGATAAATCTAAAATA-ATAATATATAATAAATTT-AAA-AATATTA-A
* * * * *
7743872 --ATGAATTTAAAATAATAATAT-TGATAAA-TTACAAATAATAAAA
1 TGATAAATCTAAAATAATAATATATAATAAATTTAAAAAT-AT-TAA
*
7743915 CGTGATAAATCTAAAATAATAATATACAATAAATT
1 --TGATAAATCTAAAATAATAATATATAATAAATT
7743950 AACTTAGATA
Statistics
Matches: 97, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 3 0.03
45 36 0.37
46 19 0.20
47 25 0.26
48 6 0.06
49 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (45 bp):
TGATAAATCTAAAATAATAATATATAATAAATTTAAAAATATTAA
Found at i:7744788 original size:23 final size:22
Alignment explanation
Indices: 7744762--7744806 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7744752 AGATTAAATC
7744762 TCTAAGATTACAAAATCTTATCT
1 TCTAAGATTAC-AAATCTTATCT
* * *
7744785 TCTACGATTGCATATCTTATCT
1 TCTAAGATTACAAATCTTATCT
7744807 AAGATTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (22 bp):
TCTAAGATTACAAATCTTATCT
Found at i:7744812 original size:19 final size:19
Alignment explanation
Indices: 7744785--7744838 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
7744775 AATCTTATCT
* *
7744785 TCTACGATTGCATATCTTA
1 TCTAAGATTGCATATCATA
7744804 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
7744823 TCTAAAATTGCATATC
1 TCTAAGATTGCATATC
7744839 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7753990 original size:19 final size:21
Alignment explanation
Indices: 7753966--7754006 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
7753956 AAAGTTAACT
*
7753966 ACAATTTAGAA-C-TTTAGAA
1 ACAATTTAAAATCATTTAGAA
7753985 ACAATTTAAAATCATTTAGAA
1 ACAATTTAAAATCATTTAGAA
7754006 A
1 A
7754007 TGGTTCAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (21 bp):
ACAATTTAAAATCATTTAGAA
Found at i:7754555 original size:19 final size:21
Alignment explanation
Indices: 7754528--7754582 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 21
7754518 ATTTAACCCT
*
7754528 AAACTTTTATAAAATATT-A-
1 AAACATTTATAAAATATTAAC
7754547 AAACATTTA-AAAAT-TTAAC
1 AAACATTTATAAAATATTAAC
*
7754566 AAATATTTAT-AAATATT
1 AAACATTTATAAAATATT
7754583 TATATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 6 0.20
19 20 0.67
20 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AAACATTTATAAAATATTAAC
Found at i:7760154 original size:15 final size:15
Alignment explanation
Indices: 7760134--7760164 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7760124 AAAATAACAT
7760134 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
7760149 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
7760164 A
1 A
7760165 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:7771957 original size:35 final size:35
Alignment explanation
Indices: 7771911--7771982 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
7771901 ACAAACTTGG
**
7771911 GATAAGCTCAAGCAGGTTTTCTAGGGATCACAGAA
1 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
7771946 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
1 GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
7771981 GA
1 GA
7771983 AAGATGATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (35 bp):
GATAAGCTCAAGCAGGAGTTCTAGGGATCACAGAA
Found at i:7773340 original size:44 final size:44
Alignment explanation
Indices: 7773260--7773343 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
7773250 CATCCATGCT
* *
7773260 AACTGCGAACTCTGAGCTCACCAGAAGATGCAAGCTCACCTGTG
1 AACTACGAACTCTGAGCTCACCAAAAGATGCAAGCTCACCTGTG
* *
7773304 AACTACGAACTGTGAGCTCACCAAAATG-TGCGAGCTCACC
1 AACTACGAACTCTGAGCTCACCAAAA-GATGCAAGCTCACC
7773344 AACATTGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (44 bp):
AACTACGAACTCTGAGCTCACCAAAAGATGCAAGCTCACCTGTG
Found at i:7773357 original size:17 final size:17
Alignment explanation
Indices: 7773314--7773377 Score: 76
Period size: 17 Copynumber: 3.7 Consensus size: 17
7773304 AACTACGAAC
*
7773314 TGTGAGCTCACCAAAAT
1 TGTGAGCTCACCAACAT
*
7773331 GTGCGAGCTCACCAACAT
1 -TGTGAGCTCACCAACAT
7773349 TGTGAGCTCACCAAGCA-
1 TGTGAGCTCACCAA-CAT
*
7773366 TGAGAGCTCACC
1 TGTGAGCTCACC
7773378 TACAAGCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
17 24 0.59
18 17 0.41
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (17 bp):
TGTGAGCTCACCAACAT
Found at i:7774531 original size:23 final size:23
Alignment explanation
Indices: 7774499--7774547 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
7774489 TGTGTAACTT
*
7774499 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
7774522 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
7774545 TTC
1 TTC
7774548 TAACTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:7778945 original size:23 final size:23
Alignment explanation
Indices: 7778919--7778967 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
7778909 TGTGTAACTT
*
7778919 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
7778942 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
7778965 TTC
1 TTC
7778968 TAACTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:7788140 original size:21 final size:21
Alignment explanation
Indices: 7788115--7788161 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7788105 GCAGTAACAG
*
7788115 ACATCAAAAAGCTACAATTCC
1 ACATCAAAAAGCTACAAATCC
* * *
7788136 ACATCAGAAAGTTTCAAATCC
1 ACATCAAAAAGCTACAAATCC
7788157 ACATC
1 ACATC
7788162 CTCTTACACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.28, G:0.06, T:0.21
Consensus pattern (21 bp):
ACATCAAAAAGCTACAAATCC
Found at i:7817794 original size:15 final size:15
Alignment explanation
Indices: 7817774--7817803 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7817764 GAATCCTATA
7817774 CTTACTATATCATAT
1 CTTACTATATCATAT
7817789 CTTACTATATCATAT
1 CTTACTATATCATAT
7817804 TGTTTATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTACTATATCATAT
Found at i:7819097 original size:138 final size:138
Alignment explanation
Indices: 7818921--7819173 Score: 400
Period size: 138 Copynumber: 1.8 Consensus size: 138
7818911 AAAAAGAATT
* *
7818921 ATTTCCATGTCTTTTATATTTTGACTGAAATCAATTAATATAACTGTTTATATTAATAAATTCAG
1 ATTTCCATGTCTTTTATATTTTGACTAAAATCAATTAATATAACTATTTATATTAATAAATTCAG
* * * *
7818986 TGATATATATACAATTAATATTTTGTATGAATCAAATTTATATATTAATTATATTCTTTCTAAAA
66 TAAAATATATACAATTAATATTTTGCATGAATCAAATTCATATATTAATTATATTCTTTCTAAAA
7819051 TAATATTA
131 TAATATTA
* *
7819059 ATTTCCATGTCTTTTATATTTTGA-TCAAAATTAATTAATATAACTATTTATATTAATAAATTCG
1 ATTTCCATGTCTTTTATATTTTGACT-AAAATCAATTAATATAACTATTTATATTAATAAATTCA
* *
7819123 GTAAAATATATAGAATTAATATTTTGCATTAATCAAATTCATATATTAATT
65 GTAAAATATATACAATTAATATTTTGCATGAATCAAATTCATATATTAATT
7819174 TTATCTATGT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 103 0.99
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (138 bp):
ATTTCCATGTCTTTTATATTTTGACTAAAATCAATTAATATAACTATTTATATTAATAAATTCAG
TAAAATATATACAATTAATATTTTGCATGAATCAAATTCATATATTAATTATATTCTTTCTAAAA
TAATATTA
Found at i:7836401 original size:16 final size:16
Alignment explanation
Indices: 7836391--7836433 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
7836381 CCATAATAGT
7836391 CACATATCAT-ATAAA
1 CACATATCATAATAAA
*
7836406 CACATATCATAATACA
1 CACATATCATAATAAA
7836422 CACATATTCATA
1 CACATA-TCATA
7836434 TTTTAAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (16 bp):
CACATATCATAATAAA
Found at i:7836411 original size:15 final size:15
Alignment explanation
Indices: 7836391--7836434 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
7836381 CCATAATAGT
7836391 CACATATCATATAAA
1 CACATATCATATAAA
*
7836406 CACATATCATAATACA
1 CACATATCAT-ATAAA
7836422 CACATATTCATAT
1 CACATA-TCATAT
7836435 TTTAAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 10 0.38
16 12 0.46
17 4 0.15
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:7838119 original size:15 final size:15
Alignment explanation
Indices: 7838099--7838127 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7838089 GAATCGAGTT
7838099 GAGTCAAAAAATTTC
1 GAGTCAAAAAATTTC
7838114 GAGTCAAAAAATTT
1 GAGTCAAAAAATTT
7838128 GAATTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (15 bp):
GAGTCAAAAAATTTC
Found at i:7838506 original size:31 final size:29
Alignment explanation
Indices: 7838471--7838535 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
7838461 TAAACTGAAA
*
7838471 AACTTAATTTTTTATTTGAGTTGATCCAGAT
1 AACTTAA--TTTTATTCGAGTTGATCCAGAT
*
7838502 AACTTGATTTTATTCGAGTTGATCCAGAT
1 AACTTAATTTTATTCGAGTTGATCCAGAT
7838531 AACTT
1 AACTT
7838536 GATTAACTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 26 0.81
31 6 0.19
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (29 bp):
AACTTAATTTTATTCGAGTTGATCCAGAT
Found at i:7838522 original size:29 final size:29
Alignment explanation
Indices: 7838480--7838539 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
7838470 AAACTTAATT
*
7838480 TTTTATTTGAGTTGATCCAGATAACTTGA
1 TTTTATTCGAGTTGATCCAGATAACTTGA
7838509 TTTTATTCGAGTTGATCCAGATAACTTGA
1 TTTTATTCGAGTTGATCCAGATAACTTGA
7838538 TT
1 TT
7838540 AACTCAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (29 bp):
TTTTATTCGAGTTGATCCAGATAACTTGA
Found at i:7849139 original size:15 final size:16
Alignment explanation
Indices: 7849119--7849149 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7849109 AGCTCACTAT
7849119 TTTTGTA-AGCTCGCA
1 TTTTGTAGAGCTCGCA
7849134 TTTTGTAGAGCTCGCA
1 TTTTGTAGAGCTCGCA
7849150 CATTTGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (16 bp):
TTTTGTAGAGCTCGCA
Found at i:7854315 original size:29 final size:29
Alignment explanation
Indices: 7854273--7854330 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
7854263 AACAGACAAT
* *
7854273 AATATGTGGCATCCTAGTCAACTTTCCAA
1 AATATGTGACATCCAAGTCAACTTTCCAA
*
7854302 AATATGTGACATCCAAGTTAACTTTCCAA
1 AATATGTGACATCCAAGTCAACTTTCCAA
7854331 TTGGGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (29 bp):
AATATGTGACATCCAAGTCAACTTTCCAA
Found at i:7855043 original size:2 final size:2
Alignment explanation
Indices: 7855036--7855062 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7855026 AGTAAAATGG
7855036 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7855063 CAAATACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.