Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 65
Found at i:2501281 original size:134 final size:132
Alignment explanation
Indices: 2501088--2501392 Score: 376
Period size: 134 Copynumber: 2.3 Consensus size: 132
2501078 ATGTGTTGAG
** * ** * * **
2501088 GAGATCTGGTCGGTAGATGACACAGCTCATACACGAAGAAGAGTTCTGGCCATCTTTAGGAAGGG
1 GAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAAAAGTTCTGGCCATCTTTAGGAAGAA
* * * *
2501153 TGATAACTCGGTTCCTACACGATGAGGACGGCGGGTTATCTAAGGGTGACACGGCTTCTACGCGA
66 TGATAACCCAGTTCCTACACGATGAGGACGACGGGTTATC-AAGGGTGACACGGC-TCTACACGA
2501218 TAAA
129 TAAA
* * *
2501222 GAGATCTGGTTGGGGGATAACACGGCTCATACGTGATGAAAAGTTCTGGTCATCTTTAGGAAGAA
1 GAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAAAAGTTCTGGCCATCTTTAGGAAGAA
* * * *
2501287 TGATAACCCAGTTCCTACGCGATGAGGACGACTGGTTATCAAGGGTGACACGGCTCTACATGATG
66 TGATAACCCAGTTCCTACACGATGAGGACGACGGGTTATCAAGGGTGACACGGCTCTACACGATA
2501352 AA
131 AA
* * * *
2501354 GAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGA
1 GAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGA
2501393 GGACGGCTGG
Statistics
Matches: 145, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
132 43 0.30
133 14 0.10
134 88 0.61
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (132 bp):
GAGATCTGGTCGGGGGATGACACGGCTCATACGTGATGAAAAGTTCTGGCCATCTTTAGGAAGAA
TGATAACCCAGTTCCTACACGATGAGGACGACGGGTTATCAAGGGTGACACGGCTCTACACGATA
AA
Found at i:2501461 original size:28 final size:28
Alignment explanation
Indices: 2501421--2501509 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
2501411 AATGATTATG
**
2501421 GTTTCAAGGGAAACTGACTCAAAGATTT
1 GTTTCAAAAGAAACTGACTCAAAGATTT
** *
2501449 GTTTCAAAAGAAAAAGACTCAAATATTT
1 GTTTCAAAAGAAACTGACTCAAAGATTT
*
2501477 GTTTTAAGAA-AAACAT-ACTCAAAGATTTT
1 GTTTCAA-AAGAAAC-TGACTCAAAGA-TTT
2501506 GTTT
1 GTTT
2501510 ATTTTGTTTC
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 40 0.82
29 9 0.18
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (28 bp):
GTTTCAAAAGAAACTGACTCAAAGATTT
Found at i:2501615 original size:65 final size:63
Alignment explanation
Indices: 2501544--2501764 Score: 241
Period size: 65 Copynumber: 3.5 Consensus size: 63
2501534 CAAATATGGT
* * * *
2501544 AAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTCTTAAAAGAAACTATCTCAAAAGAAACA
1 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTAAAAGAAATTATCTC--AAGAGATA
* * ** * * *
2501609 AAATTTTTTTTTCAAAGAAACTTATTCAATGATTTTTC--AAAAGAAATTGTCTCAAGAGATA
1 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTAAAAGAAATTATCTCAAGAGATA
* * *
2501670 AAATTTTGTTT-CAAAGAAAACAAACTCAAAGATTTTTTTTCAAAAGAAATTATCTTTAAGTGAT
1 AAATTTTGTTTCCAAAG-AAACAAACTCAAAGATTTTTCTT-AAAAGAAATTATC-TCAAGAGAT
2501734 A
63 A
*
2501735 AAATTTTGTTTCAAAAGAAACAAACTCAAA
1 AAATTTTGTTTCCAAAGAAACAAACTCAAA
2501765 TATGGACTAC
Statistics
Matches: 130, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
60 5 0.04
61 32 0.25
63 13 0.10
64 12 0.09
65 64 0.49
66 4 0.03
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (63 bp):
AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTAAAAGAAATTATCTCAAGAGATA
Found at i:2501912 original size:30 final size:32
Alignment explanation
Indices: 2501859--2501917 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
2501849 AGAGACAAAA
* *
2501859 TTTGTTTTAATAGAAATAGACTCAAAGATGAT
1 TTTGTTTTAATAGAAACAAACTCAAAGATGAT
2501891 TTTG-TTTAA-AGAAACAAACTCAAAGAT
1 TTTGTTTTAATAGAAACAAACTCAAAGAT
2501918 TTTTTTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 16 0.64
31 5 0.20
32 4 0.16
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (32 bp):
TTTGTTTTAATAGAAACAAACTCAAAGATGAT
Found at i:2502421 original size:106 final size:107
Alignment explanation
Indices: 2502252--2502567 Score: 449
Period size: 107 Copynumber: 3.0 Consensus size: 107
2502242 TGAGAAAACG
* * * *
2502252 ATCTCAAGTGAGATCAA-CTTTG-TTTAATGTGAAACAAATTCGAAATTTGTATTCTCAAAGG-A
1 ATCTCAAGTGAGATTAATTTTTGTTTTAA-GTGAATCAAATTCGAAATTTGTA-TATCAAAGGAA
*
2502314 AAAATGTCTCAAACGAGATGAAAATTGTTTTGAAAGAAATAACA
64 AAAATGTCTCAAACGAGATGAAATTTGTTTTGAAAGAAATAACA
* *
2502358 ATCTCAAGTGAGATTAATTTTTGTTTTAAGTGTATCAAATTCGAAAATTGTATATCAAAGGAAAA
1 ATCTCAAGTGAGATTAATTTTTGTTTTAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
* * *
2502423 AATGTCTCAAACGAGACGAAATTTGTATTGAAATAAATAACA
66 AATGTCTCAAACGAGATGAAATTTGTTTTGAAAGAAATAACA
*
2502465 ATCTCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
1 ATCTCAAGTGAGATTAATTTTTGTTTTAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
* * * * *
2502530 AATGTCTCAAGCAAGATGAAGTTTGTTTTTAGAGAAAT
66 AATGTCTCAAACGAGATGAAATTTGTTTTGAAAGAAAT
2502568 TGTCTCAAGC
Statistics
Matches: 186, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
106 24 0.13
107 157 0.84
108 5 0.03
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (107 bp):
ATCTCAAGTGAGATTAATTTTTGTTTTAAGTGAATCAAATTCGAAATTTGTATATCAAAGGAAAA
AATGTCTCAAACGAGATGAAATTTGTTTTGAAAGAAATAACA
Found at i:2502728 original size:36 final size:37
Alignment explanation
Indices: 2502660--2502809 Score: 157
Period size: 36 Copynumber: 4.0 Consensus size: 37
2502650 GAAACAAATT
* * * *
2502660 CAAAATTTGTATCTCAAAGGAAAAGTGTCTCAAGCGATA
1 CAAAATTTGTTTTTC-AA-GAAAATTGTCTCAAGCGAGA
* *
2502699 CGAAATTTGTTTTTCAAG-AAATTGTCTCAAACGAGA
1 CAAAATTTGTTTTTCAAGAAAATTGTCTCAAGCGAGA
2502735 CAAAAATTTGTTTTT--AGAAAATTGTCTCAAGCGAGA
1 C-AAAATTTGTTTTTCAAGAAAATTGTCTCAAGCGAGA
2502771 CAAAATTTGTTTTTCAA-AAGAAGTTGTCTCTAA-CGAGA
1 CAAAATTTGTTTTTCAAGAA-AA-TTGTCTC-AAGCGAGA
2502809 C
1 C
2502810 GACATTTTGT
Statistics
Matches: 96, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
35 15 0.16
36 36 0.38
37 16 0.17
38 15 0.16
39 14 0.15
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (37 bp):
CAAAATTTGTTTTTCAAGAAAATTGTCTCAAGCGAGA
Found at i:2503111 original size:4 final size:4
Alignment explanation
Indices: 2503104--2503285 Score: 193
Period size: 4 Copynumber: 45.5 Consensus size: 4
2503094 AATGTATGTA
2503104 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
* * *
2503152 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGCG TGCG TGTC TGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
* * * * * * * * *
2503200 TGTC TGTG CGTG CGTG TATG TGTG TCTG TGCG TGCG TGCG TGTC TGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
* * * * * * *
2503248 TGTA TGTA TGTC TGTG CGTG CGTG TTTG TGTG TCTG TG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TG
2503286 CGTGCATGTA
Statistics
Matches: 153, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 153 1.00
ACGTcount: A:0.02, C:0.08, G:0.45, T:0.46
Consensus pattern (4 bp):
TGTG
Found at i:2503132 original size:22 final size:22
Alignment explanation
Indices: 2503104--2503285 Score: 193
Period size: 22 Copynumber: 8.3 Consensus size: 22
2503094 AATGTATGTA
2503104 TGTGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTGTG
2503126 TGTGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTGTG
2503148 TGTGTGTGTGTGTGTGTGTGTG
1 TGTGTGTGTGTGTGTGTGTGTG
* *
2503170 TGTGTGTGTGTGTGTGCGTGCG
1 TGTGTGTGTGTGTGTGTGTGTG
* * * *
2503192 TGTCTGTGTGTCTGTGCGTGCG
1 TGTGTGTGTGTGTGTGTGTGTG
* * * *
2503214 TGTATGTGTGTCTGTGCGTGCG
1 TGTGTGTGTGTGTGTGTGTGTG
* * * *
2503236 TGCGTGTCTGTGTGTATGTATG
1 TGTGTGTGTGTGTGTGTGTGTG
* * * *
2503258 TCTGTGCGTGCGTGTTTGTGTG
1 TGTGTGTGTGTGTGTGTGTGTG
*
2503280 TCTGTG
1 TGTGTG
2503286 CGTGCATGTA
Statistics
Matches: 140, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 140 1.00
ACGTcount: A:0.02, C:0.08, G:0.45, T:0.46
Consensus pattern (22 bp):
TGTGTGTGTGTGTGTGTGTGTG
Found at i:2503298 original size:4 final size:4
Alignment explanation
Indices: 2503291--2503322 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
2503281 CTGTGCGTGC
2503291 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2503323 TTATGCTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:2504669 original size:6 final size:6
Alignment explanation
Indices: 2504633--2504750 Score: 51
Period size: 6 Copynumber: 18.5 Consensus size: 6
2504623 CTCTTTGTCC
* *
2504633 TCTTTT TGTTCTT TGCTTTT TCTTTTGT TCTTTT TCTTTGATT TTTTTT
1 TCTTTT TCTT-TT T-CTTTT TC-TTT-T TCTTTT TC-TT--TT TCTTTT
* * * * * *
2504682 TCTTTT TC-TCT T-TGTT TCTTTT TCTTTT CCTTTT TCACTTT ACTCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT TCTTTT
* *
2504729 TGTTTT TCTTTGT TGTTTT TCT
1 TCTTTT TCTTT-T TCTTTT TCT
2504751 CTTTGTTTTG
Statistics
Matches: 81, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
5 5 0.06
6 43 0.53
7 23 0.28
8 7 0.09
9 3 0.04
ACGTcount: A:0.03, C:0.16, G:0.07, T:0.75
Consensus pattern (6 bp):
TCTTTT
Found at i:2504684 original size:21 final size:20
Alignment explanation
Indices: 2504655--2504714 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
2504645 TTGCTTTTTC
*
2504655 TTTTGTTCTTTTTCTTTGATT
1 TTTTTTTCTTTTTCTTTG-TT
2504676 TTTTTTTCTTTTTCTCTTTGTT
1 TTTTTTTC-TTTT-TCTTTGTT
* *
2504698 TCTTTTTCTTTTCCTTT
1 TTTTTTTCTTTTTCTTT
2504715 TTCACTTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 4 0.12
21 11 0.32
22 13 0.38
23 6 0.18
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTTTTTCTTTTTCTTTGTT
Found at i:2504690 original size:27 final size:26
Alignment explanation
Indices: 2504649--2504722 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
2504639 TGTTCTTTGC
*
2504649 TTTTTCTTTTGTTCTTTTTCTTTGATTTT
1 TTTTTC-TTT-TTCTCTTTCTTT-ATTTT
* *
2504678 TTTTTCTTTTTCTCTTTGTTTCTTTT
1 TTTTTCTTTTTCTCTTTCTTTATTTT
*
2504704 TCTTTTCCTTTTTCACTTT
1 T-TTTT-CTTTTTCTCTTT
2504723 ACTCTTTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 5 0.13
27 14 0.36
28 14 0.36
29 6 0.15
ACGTcount: A:0.03, C:0.16, G:0.04, T:0.77
Consensus pattern (26 bp):
TTTTTCTTTTTCTCTTTCTTTATTTT
Found at i:2504716 original size:35 final size:35
Alignment explanation
Indices: 2504648--2504733 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 35
2504638 TTGTTCTTTG
**
2504648 CTTTTTCT-TTTG-TTCTTTTTCTTTGATTTTTTTTT
1 CTTTTTCTCTTTGTTTCTTTTTCTTT-A-TCCTTTTT
2504683 CTTTTTCTCTTTGTTTCTTTTTCTTT-TCCTTTTT
1 CTTTTTCTCTTTGTTTCTTTTTCTTTATCCTTTTT
* *
2504717 CACTTTACTCTTTGTTT
1 C-TTTTTCTCTTTGTTT
2504734 TTCTTTGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
34 7 0.16
35 21 0.48
36 4 0.09
37 12 0.27
ACGTcount: A:0.03, C:0.17, G:0.05, T:0.74
Consensus pattern (35 bp):
CTTTTTCTCTTTGTTTCTTTTTCTTTATCCTTTTT
Found at i:2504746 original size:13 final size:12
Alignment explanation
Indices: 2504724--2504759 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
2504714 TTTCACTTTA
2504724 CTCTTTGTTTTT
1 CTCTTTGTTTTT
*
2504736 CTTTGTTGTTTTT
1 CTCT-TTGTTTTT
2504749 CTCTTTGTTTT
1 CTCTTTGTTTT
2504760 GATTTGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.00, C:0.14, G:0.11, T:0.75
Consensus pattern (12 bp):
CTCTTTGTTTTT
Found at i:2506013 original size:15 final size:14
Alignment explanation
Indices: 2505993--2506034 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
2505983 AATGAAATAT
2505993 AGATGCAAAATGCAA
1 AGATGC-AAATGCAA
2506008 AGATGCAAATGC-A
1 AGATGCAAATGCAA
*
2506021 A-ATGCAGATGCAA
1 AGATGCAAATGCAA
2506034 A
1 A
2506035 AACGTTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 9 0.36
13 4 0.16
14 6 0.24
15 6 0.24
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (14 bp):
AGATGCAAATGCAA
Found at i:2508271 original size:21 final size:22
Alignment explanation
Indices: 2508247--2508287 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2508237 ACATATGATG
2508247 TAAAATAA-AATATTTACAACA
1 TAAAATAACAATATTTACAACA
*
2508268 TAAAATAACATTATTTACAA
1 TAAAATAACAATATTTACAA
2508288 TATATACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAACAATATTTACAACA
Found at i:2508463 original size:30 final size:30
Alignment explanation
Indices: 2508422--2508479 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
2508412 ACATAAACCT
* *
2508422 AAAGACTAAAATAGCGAAATCAAGAATTTGC
1 AAAGACTAAAATAGC-AAAACAAAAATTTGC
2508453 AAAG-CTAAAATAGCAAAACAAAAATTT
1 AAAGACTAAAATAGCAAAACAAAAATTT
2508480 ACAGGACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 10 0.40
31 4 0.16
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.19
Consensus pattern (30 bp):
AAAGACTAAAATAGCAAAACAAAAATTTGC
Found at i:2509943 original size:3 final size:3
Alignment explanation
Indices: 2509937--2509978 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
2509927 TAAAGAAACG
**
2509937 TAA TAA TAA TAA TAA TAA CGA TAA TAA TAA -AA TTAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
2509979 AAAAGACCCG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2512797 original size:23 final size:23
Alignment explanation
Indices: 2512771--2512814 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2512761 TCATTCAAAC
2512771 CATACACACATCA-TCATATCAAT
1 CATACA-ACATCATTCATATCAAT
* *
2512794 CATATAATATCATTCATATCA
1 CATACAACATCATTCATATCA
2512815 CAAAAGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (23 bp):
CATACAACATCATTCATATCAAT
Found at i:2514771 original size:29 final size:30
Alignment explanation
Indices: 2514729--2514786 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
2514719 ATGGGGTTGG
2514729 TGTCAATATGACCATCAT-ACT-TTTAATTT
1 TGTCAATATGACCA-CATAACTATTTAATTT
2514758 TGTCAATATGACCACATAACTATTTAATT
1 TGTCAATATGACCACATAACTATTTAATT
2514787 CGTTTCGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 3 0.11
29 17 0.63
30 7 0.26
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (30 bp):
TGTCAATATGACCACATAACTATTTAATTT
Found at i:2521392 original size:29 final size:29
Alignment explanation
Indices: 2521345--2521400 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
2521335 CCCAGCATAG
* *
2521345 GTCGCCATGCCCTCCGGGCGACCTTGTAA
1 GTCGCCATGCACGCCGGGCGACCTTGTAA
*
2521374 GTCGCCATGCACGCTGGGCGACCTTGT
1 GTCGCCATGCACGCCGGGCGACCTTGT
2521401 CTTGCGTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.12, C:0.36, G:0.30, T:0.21
Consensus pattern (29 bp):
GTCGCCATGCACGCCGGGCGACCTTGTAA
Found at i:2521477 original size:22 final size:22
Alignment explanation
Indices: 2521450--2521494 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2521440 ACTGCATGAA
2521450 GGCGACCTCTTCCGACGTGCAT
1 GGCGACCTCTTCCGACGTGCAT
2521472 GGCGACCTCTTCCGACGTGCAT
1 GGCGACCTCTTCCGACGTGCAT
2521494 G
1 G
2521495 ACGCATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.36, G:0.29, T:0.22
Consensus pattern (22 bp):
GGCGACCTCTTCCGACGTGCAT
Found at i:2521540 original size:31 final size:31
Alignment explanation
Indices: 2521502--2521562 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
2521492 ATGACGCATG
2521502 CAAAGCTTCATCCTCTCACAACAGCTCGTAA
1 CAAAGCTTCATCCTCTCACAACAGCTCGTAA
* *
2521533 CAAAGCTTCATCCTCTCGCCACAGCTCGTA
1 CAAAGCTTCATCCTCTCACAACAGCTCGTA
2521563 TATAACACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.38, G:0.11, T:0.23
Consensus pattern (31 bp):
CAAAGCTTCATCCTCTCACAACAGCTCGTAA
Found at i:2531767 original size:22 final size:21
Alignment explanation
Indices: 2531734--2531774 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
2531724 TTCTCATCTC
2531734 AATTAAAAAATTAAATAATAA
1 AATTAAAAAATTAAATAATAA
2531755 AATTAATAAAATTAAATAAT
1 AATTAA-AAAATTAAATAAT
2531775 GGATGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AATTAAAAAATTAAATAATAA
Found at i:2532221 original size:12 final size:12
Alignment explanation
Indices: 2532204--2532228 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2532194 CAATCAAATG
2532204 ATGACACGTGAC
1 ATGACACGTGAC
2532216 ATGACACGTGAC
1 ATGACACGTGAC
2532228 A
1 A
2532229 CTAATAACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (12 bp):
ATGACACGTGAC
Found at i:2538070 original size:87 final size:87
Alignment explanation
Indices: 2537816--2538159 Score: 528
Period size: 87 Copynumber: 3.9 Consensus size: 87
2537806 AATGCAATGC
* * *
2537816 AAAATTGATGCATTCTTTGAGGATACTTGGCCATATTAAGAAA-ACAATCAAGACCATTCTTTTA
1 AAAATTGATGCATTCTTTGAGGATACTTAGCTATATT-GGAAATACAATCAAGACCATTCTTTTA
* *
2537880 ACAATCCATTTATTCTAATGAGC
65 ACAATCCATTTATTCAAATGAGA
* *
2537903 AAAATTGATGCATTCTTTGAGGATACTTATCTGTATTTGGAAATACAATCAAGACCATTCTTTTA
1 AAAATTGATGCATTCTTTGAGGATACTTAGCTATA-TTGGAAATACAATCAAGACCATTCTTTTA
*
2537968 ACAATCCATTTATTCAAACGAGA
65 ACAATCCATTTATTCAAATGAGA
* *
2537991 AAAATTGATGCATTTTTTTAGGATACTTAGCTATATTGGAAATACAATCAAGACCATTCTTTTAA
1 AAAATTGATGCATTCTTTGAGGATACTTAGCTATATTGGAAATACAATCAAGACCATTCTTTTAA
2538056 CAATCCATTTATTCAAATGAGA
66 CAATCCATTTATTCAAATGAGA
* * * * *
2538078 AAAATTGATGCATTTTTTGAGGATACTTAGCTATATTGGATATCCAATCAAGGCCAATCTTTTAA
1 AAAATTGATGCATTCTTTGAGGATACTTAGCTATATTGGAAATACAATCAAGACCATTCTTTTAA
2538143 CAATCCATTTATTCAAA
66 CAATCCATTTATTCAAA
2538160 AAATAAAACC
Statistics
Matches: 237, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
87 163 0.69
88 74 0.31
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (87 bp):
AAAATTGATGCATTCTTTGAGGATACTTAGCTATATTGGAAATACAATCAAGACCATTCTTTTAA
CAATCCATTTATTCAAATGAGA
Found at i:2543199 original size:130 final size:130
Alignment explanation
Indices: 2543058--2543305 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
2543048 TATTTATATA
*
2543058 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* *
2543123 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
2543188 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
2543253 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
2543306 GAAGAAATTA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:2543791 original size:16 final size:18
Alignment explanation
Indices: 2543770--2543803 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2543760 ATTTCTTATT
2543770 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
2543786 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
2543804 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:2543964 original size:35 final size:35
Alignment explanation
Indices: 2543925--2544001 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
2543915 ATATTACCTT
* *
2543925 AAATTGAAGTATTTTAGAATTTAGGGTTTAGAATA
1 AAATTGAAGTACTTTAGAAATTAGGGTTTAGAATA
* * * *
2543960 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATG
1 AAATTGAAGTACTTTAGAAATTAGGGTTTAGAATA
2543995 AAATTGA
1 AAATTGA
2544002 TGACTGTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.38
Consensus pattern (35 bp):
AAATTGAAGTACTTTAGAAATTAGGGTTTAGAATA
Found at i:2558253 original size:4 final size:5
Alignment explanation
Indices: 2558177--2558232 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
2558167 TTCTCTGCAC
** **
2558177 TATTT T-TTT TATTTT TATGTT TATTT GGTTT TGCTT TATTT TATTT TATTT
1 TATTT TATTT TA-TTT TAT-TT TATTT TATTT TATTT TATTT TATTT TATTT
2558228 TATTT
1 TATTT
2558233 ATTAACCATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 4 0.10
5 28 0.67
6 10 0.24
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:2563222 original size:23 final size:23
Alignment explanation
Indices: 2563196--2563256 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
2563186 CTCATATAAA
*
2563196 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
2563219 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
2563242 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
2563257 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:2563443 original size:103 final size:103
Alignment explanation
Indices: 2563272--2563489 Score: 436
Period size: 103 Copynumber: 2.1 Consensus size: 103
2563262 TAATGTCCAT
2563272 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2563337 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2563375 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2563440 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2563478 AAGGACCACATA
1 AAGGACCACATA
2563490 GACCCTCGAC
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2567986 original size:23 final size:23
Alignment explanation
Indices: 2567960--2568037 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
2567950 CACCACAGCT
* *
2567960 CATATAAATGCACCGAAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
* *
2567983 CATATAATTACACCGTAGTGCCG
1 CATATAATTGCACCGTAGTGCCA
* *
2568006 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
*
2568029 TATAATAAT
1 CAT-ATAAT
2568038 GACCATAAGG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 39 0.91
24 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGTAGTGCCA
Found at i:2568223 original size:103 final size:103
Alignment explanation
Indices: 2568044--2568261 Score: 436
Period size: 103 Copynumber: 2.1 Consensus size: 103
2568034 TAATGACCAT
2568044 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2568109 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2568147 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
2568212 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2568250 AAGGACCACATA
1 AAGGACCACATA
2568262 GACCCTCGAC
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 115 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2569763 original size:20 final size:20
Alignment explanation
Indices: 2569738--2569775 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2569728 AATTTTCCTT
*
2569738 TAGGGGTATCGATTCCCTAC
1 TAGGGGTATCGATACCCTAC
2569758 TAGGGGTATCGATACCCT
1 TAGGGGTATCGATACCCT
2569776 CATGACATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (20 bp):
TAGGGGTATCGATACCCTAC
Found at i:2572831 original size:23 final size:23
Alignment explanation
Indices: 2572804--2572881 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
2572794 CACCACAGCT
* *
2572804 CATATAAATGCACCGAAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
*
2572827 CATATAATTGCATCGTAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
* *
2572850 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
*
2572873 TATAATAAT
1 CAT-ATAAT
2572882 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGTAGTGCCA
Found at i:2573061 original size:103 final size:103
Alignment explanation
Indices: 2572888--2573105 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
2572878 TAATGTCCAT
* *
2572888 AAGGACCACAAATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
* *
2572953 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
66 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
2572991 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATTAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
2573056 AACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2573094 AAGGACCACATA
1 AAGGACCACATA
2573106 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
AACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2577181 original size:100 final size:100
Alignment explanation
Indices: 2577077--2577348 Score: 291
Period size: 100 Copynumber: 2.7 Consensus size: 100
2577067 TTTTGCTTGA
*
2577077 AATAAATTTTGAAATTATTTCACTCTAAAC-AAAAATTAATCTCACATGAGATGGTTACTCTTAA
1 AATAAATTTTGAAATTATTTCACTCGAAACAAAAAATT-ATCTCACATGAGATGGTTACTCTTAA
*
2577141 AATCAATTTCGTCTTTTTTAAAACAATTTACTTTGG
65 AATCAATTTCATCTTTTTTAAAACAATTTACTTTGG
* ** * *
2577177 AATAAATTTTGAAATTATTTTACTCGAAACAAAAAATTATCTCATTTGAGATTGTTTCTCTTAAA
1 AATAAATTTTGAAATTATTTCACTCGAAACAAAAAATTATCTCACATGAGATGGTTACTCTTAAA
*** * * * *
2577242 ATCAATTTCATC-TTTTTAAGGTAGTTTCCCTTGAA
66 ATCAATTTCATCTTTTTTAAAACAATTTACTTTG-G
* * * * * * **
2577277 ACACAAATTTTGAATTTGTTTCACTTGAAAC-AAAAATT-TATCACTTGAGATGGTTTTTCTTAA
1 A-ATAAATTTTGAAATTATTTCACTCGAAACAAAAAATTATCTCACATGAGATGGTTACTCTTAA
2577340 AATCAATTT
65 AATCAATTT
2577349 TTCTTGAAAT
Statistics
Matches: 146, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
99 45 0.31
100 70 0.48
101 31 0.21
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (100 bp):
AATAAATTTTGAAATTATTTCACTCGAAACAAAAAATTATCTCACATGAGATGGTTACTCTTAAA
ATCAATTTCATCTTTTTTAAAACAATTTACTTTGG
Found at i:2577395 original size:95 final size:92
Alignment explanation
Indices: 2577180--2577500 Score: 302
Period size: 95 Copynumber: 3.3 Consensus size: 92
2577170 ACTTTGGAAT
* *
2577180 AAATTTTGAAATTATTTTACTCGAAACAAAAAATTATCTCATTTGAGATTGTTTCTCTTAAAATC
1 AAATTTTGAAATTATTTTACTCGAAAC-AAAAATT-TATCAATTGAGA-TGTTTCTCTTAAAATC
* * *
2577245 AATTTCATCTTTTTAAGGTAGTTTCCCTTGAAACA
63 AATTT--T-TCTTGAA-ATAGTTTCCCTTG-AACA
* * * * * *
2577280 CAAATTTTGAATTTGTTTCACTTGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAAATCA
1 -AAATTTTGAAATTATTTTACTCGAAACAAAAATTTATCAATTGAGAT-GTTTCTCTTAAAATCA
*
2577345 ATTTTTCTTGAAATAGTTCCCCTTAGAACA
64 ATTTTTCTTGAAATAGTTTCCCTT-GAACA
* *
2577375 AAGAATTTGAAATT-TTTTCACTCGAAACAAAAATTTACCAATTGAGATGTTTCTCTTAAAATCA
1 AA-ATTTTGAAATTATTTT-ACTCGAAACAAAAATTTATCAATTGAGATGTTTCTCTTAAAATC-
* * *
2577439 AATTTTGCTTGAGATAATTTCCCTTGGAACA
63 AATTTTTCTTGAAATAGTTTCCCTT-GAACA
* * *
2577470 CATATTTTGGAATTATTTTACTTGAAGACAA
1 -AAATTTTGAAATTATTTTACTCGAA-ACAA
2577501 TTTATCTCTT
Statistics
Matches: 185, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
94 19 0.10
95 90 0.49
96 15 0.08
97 1 0.01
98 1 0.01
99 29 0.16
100 7 0.04
101 23 0.12
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (92 bp):
AAATTTTGAAATTATTTTACTCGAAACAAAAATTTATCAATTGAGATGTTTCTCTTAAAATCAAT
TTTTCTTGAAATAGTTTCCCTTGAACA
Found at i:2578031 original size:139 final size:139
Alignment explanation
Indices: 2577781--2578702 Score: 1229
Period size: 139 Copynumber: 6.6 Consensus size: 139
2577771 GATAAACCAG
* * * *
2577781 TCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTTATCCGATGAGGGGGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATA
* * *
2577846 ATGAGAAGAACTTGTCCAACCTTAGCTAGATTCATCACATATGGAGTTGGATCAACAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACAACACCTCA
*
2577911 CTCGAGTGA
131 CTCGAGGGA
* * * *
2577920 TCAACATTTCCAGTTGAGAGTTTATAATGAGAATAACTCATCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATA
* * *
2577985 ATGAGAAGAACTTGTTCAATCTTAGCTTGATTCATCATATATGGAGTTGAATCAATAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACAACACCTCA
2578050 CTCGAGGGA
131 CTCGAGGGA
* * * * *
2578059 TCAACATTTCCAGTGGAAAGTTCATAATGAGAGGAACTCACCCAAAGAGGGAGAAGAAGTTTATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATA
* * * * *
2578124 ATGAGAAAAACTTGTTTAACTTTAGCTCGATTCATGACATATGGAGTTGAATCAGA-AACACCTC
66 ATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCA-ACAACACCTC
*
2578188 GCTCGAGGGA
130 ACTCGAGGGA
* * * *
2578198 TCAACATTTCTAGTAGAGAGTTCATAATGAGAATAACTCATCCGAAGAAGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATA
* * * *
2578263 AGGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATTAGC-ACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACAACACCTCA
2578327 CTCGAGGGA
131 CTCGAGGGA
* * * * * *
2578336 TCAACATTTTCAGTGGATAGTTCATAATGAGAAGAACTCACCCGACGAGGGAGAATAAGTTTATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATA
* * * * *
2578401 ATGAAAAGAACTTGTTTAACCTTAGCTTGATTCATGACATATGGAGTTAAATCAGA-AACACCTT
66 ATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCA-ACAACACCTC
*
2578465 ACTCGAGGTA
130 ACTCGAGGGA
** * *
2578475 TCAATGTTTCCAGTGGAGAGTTCATAATAAGAATAACTCATCCGAAGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATA
* * *
2578540 AAGATAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATAAACAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACAACACCTCA
*
2578605 GTCGAGGGA
131 CTCGAGGGA
* * * * ** * *
2578614 TCAATATTTCCATTAGAGAGTTCATAATGAGAAGAACTTATATGACGAGGGAAAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATA
* *
2578679 ATGAGAATAAATTGTTCAACCTTA
66 ATGAGAAGAACTTGTTCAACCTTA
2578703 ACTCATTTCA
Statistics
Matches: 678, Mismatches: 100, Indels: 10
0.86 0.13 0.01
Matches are distributed among these distances:
138 119 0.18
139 558 0.82
140 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (139 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACAACACCTCA
CTCGAGGGA
Found at i:2578554 original size:416 final size:417
Alignment explanation
Indices: 2577781--2578735 Score: 1290
Period size: 416 Copynumber: 2.3 Consensus size: 417
2577771 GATAAACCAG
* * *
2577781 TCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTTATCCGATGAGGGGGAAGAAGTTCATA
1 TCAACATTTCTAGTAGAGAGTTCATAATGAGAAGAACTTATCCGAAGAGGGAGAAGAAGTTCATA
* * *
2577846 ATGAGAAGAACTTGTCCAACCTTAGCTAGATTCATCACATATGGAGTTGGATCAACAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAACAACACCTCA
* * * * * *
2577911 CTCGAGTGATCAACATTTCCAGTTGAGAGTTTATAATGAGAATAACTCATCCGATGAGGGAGAAG
131 CTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCCGACGAGGGAGAAG
* * * *
2577976 AAGTTCATAATGAGAAGAACTTGTTCAATCTTAGCTTGATTCATCATATATGGAGTTGAATCAAT
196 AAGTTCATAATGAAAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTAAATCAAT
* *
2578041 AACACCTCACTCGAGGGATCAACATTTCCAGTGGAAAGTTCATAATGAGAGGAACTCACCCAAAG
261 AACACCTCACTCGAGGGATCAACATTTCCAGTGGAAAGTTCATAATAAGAAGAACTCACCCAAAG
* * * * *
2578106 AGGGAGAAGAAGTTTATAATGAGAAAAACTTGTTTAACTTTAGCTCGATTCATGACATATGGAGT
326 AGGGAGAAGAAGTTCATAAAGAGAAAAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGT
*
2578171 TGAATCAGA-AACACCTC-GCTCGAGGGA
391 TGAAT-AAACAACACCTCAG-TCGAGGGA
* * *
2578198 TCAACATTTCTAGTAGAGAGTTCATAATGAGAATAACTCATCCGAAGAAGGAGAAGAAGTTCATA
1 TCAACATTTCTAGTAGAGAGTTCATAATGAGAAGAACTTATCCGAAGAGGGAGAAGAAGTTCATA
* * *
2578263 AGGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATTAGC-ACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAACAACACCTCA
* * *
2578327 CTCGAGGGATCAACATTTTCAGTGGATAGTTCATAATGAGAAGAACTCACCCGACGAGGGAGAAT
131 CTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCCGACGAGGGAGAAG
* * *
2578392 AAGTTTATAATGAAAAGAACTTGTTTAACCTTAGCTTGATTCATGACATATGGAGTTAAATCAGA
196 AAGTTCATAATGAAAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTAAATCA-A
* * ** * * * *
2578457 -AACACCTTACTCGAGGTATCAATGTTTCCAGTGGAGAGTTCATAATAAGAATAACTCATCCGAA
260 TAACACCTCACTCGAGGGATCAACATTTCCAGTGGAAAGTTCATAATAAGAAGAACTCACCCAAA
* * *
2578521 GAGGGAGAAGAAGTTCATAAAGATAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAG
325 GAGGGAGAAGAAGTTCATAAAGAGAAAAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAG
2578586 TTGAATAAACAACACCTCAGTCGAGGGA
390 TTGAATAAACAACACCTCAGTCGAGGGA
* * * ** * *
2578614 TCAATATTTCCATTAGAGAGTTCATAATGAGAAGAACTTATATGACGAGGGAAAAGAAGTTCATA
1 TCAACATTTCTAGTAGAGAGTTCATAATGAGAAGAACTTATCCGAAGAGGGAGAAGAAGTTCATA
* * * * * * *
2578679 ATGAGAATAAATTGTTCAACCTTAACTC-ATTTCATAACATAAGGACTTGAAACAACA
66 ATGAGAAGAACTTGTTCAACCTTAGCTCGA-TTCATCACATATGGAGTTGAATCAACA
2578736 CCAATACTTG
Statistics
Matches: 466, Mismatches: 67, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
415 3 0.01
416 352 0.76
417 111 0.24
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.26
Consensus pattern (417 bp):
TCAACATTTCTAGTAGAGAGTTCATAATGAGAAGAACTTATCCGAAGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAACAACACCTCA
CTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCACCCGACGAGGGAGAAG
AAGTTCATAATGAAAAGAACTTGTTCAACCTTAGCTTGATTCATCACATATGGAGTTAAATCAAT
AACACCTCACTCGAGGGATCAACATTTCCAGTGGAAAGTTCATAATAAGAAGAACTCACCCAAAG
AGGGAGAAGAAGTTCATAAAGAGAAAAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGT
TGAATAAACAACACCTCAGTCGAGGGA
Found at i:2580887 original size:16 final size:15
Alignment explanation
Indices: 2580866--2580906 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
2580856 TATTTTTGTT
2580866 ATTTAATTTTATGCAC
1 ATTTAATTTTATGC-C
*
2580882 ATTTAAATTTATGCC
1 ATTTAATTTTATGCC
*
2580897 ATTTACTTTT
1 ATTTAATTTT
2580907 TATTTATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.54
Consensus pattern (15 bp):
ATTTAATTTTATGCC
Found at i:2580901 original size:15 final size:16
Alignment explanation
Indices: 2580866--2580901 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2580856 TATTTTTGTT
*
2580866 ATTTAATTTTATGCAC
1 ATTTAAATTTATGCAC
2580882 ATTTAAATTTATGC-C
1 ATTTAAATTTATGCAC
2580897 ATTTA
1 ATTTA
2580902 CTTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTAAATTTATGCAC
Found at i:2587342 original size:5 final size:5
Alignment explanation
Indices: 2587334--2587358 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2587324 ATGAAATGAT
2587334 TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA
2587359 ATTTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:2590496 original size:23 final size:23
Alignment explanation
Indices: 2590462--2590510 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
2590452 AAAATAGTTC
*
2590462 CATAAGGACAGACTGAA-ACATGT
1 CATAAGGACAGA-AGAAGACATGT
2590485 CATAATGG-CAGAAGAAGACATGT
1 CATAA-GGACAGAAGAAGACATGT
2590508 CAT
1 CAT
2590511 TAAGTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 18 0.78
24 2 0.09
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.18
Consensus pattern (23 bp):
CATAAGGACAGAAGAAGACATGT
Found at i:2593858 original size:15 final size:15
Alignment explanation
Indices: 2593825--2593858 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2593815 ATAAAATCAT
*
2593825 TAATTCAATTTAATT
1 TAATTCAATTTAATC
*
2593840 TAATTCAATTTGATC
1 TAATTCAATTTAATC
2593855 TAAT
1 TAAT
2593859 CTCTCATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (15 bp):
TAATTCAATTTAATC
Found at i:2594022 original size:2 final size:2
Alignment explanation
Indices: 2594015--2594046 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2594005 AAGATGAGTT
2594015 TA 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
2594047 AAGGAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2595470 original size:21 final size:20
Alignment explanation
Indices: 2595446--2595488 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2595436 TATAATTAAT
*
2595446 TTATATATTTTCTTTAAAAAA
1 TTATATAGTTT-TTTAAAAAA
*
2595467 TTATATAGTTTTTTAGAAAA
1 TTATATAGTTTTTTAAAAAA
2595487 TT
1 TT
2595489 TAAAAGGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (20 bp):
TTATATAGTTTTTTAAAAAA
Found at i:2597901 original size:18 final size:19
Alignment explanation
Indices: 2597868--2597905 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
2597858 AAATCATATA
2597868 TAAAATTAAAATTATTTAT
1 TAAAATTAAAATTATTTAT
*
2597887 TAAAA-TAATATTATTTAT
1 TAAAATTAAAATTATTTAT
2597905 T
1 T
2597906 TCTAATAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAAATTAAAATTATTTAT
Found at i:2598627 original size:19 final size:18
Alignment explanation
Indices: 2598603--2598638 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2598593 TCACTTAACT
*
2598603 TTTTTAATTTTTTATAATG
1 TTTTT-ATTTTTAATAATG
2598622 TTTTTATTTTTAATAAT
1 TTTTTATTTTTAATAAT
2598639 TTCATGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTATTTTTAATAATG
Found at i:2598664 original size:29 final size:28
Alignment explanation
Indices: 2598626--2598698 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
2598616 ATAATGTTTT
2598626 TATTTTTAATAATTTCATGAATATT-TTAA
1 TATTTTTAATAATTTCAT-AAT-TTCTTAA
*
2598655 TATTTTTAATATTTTCATAATTTCTTAA
1 TATTTTTAATAATTTCATAATTTCTTAA
*
2598683 -ATTATTTAATTATTTC
1 TATT-TTTAATAATTTC
2598699 CTTAAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.13
28 17 0.44
29 17 0.44
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.59
Consensus pattern (28 bp):
TATTTTTAATAATTTCATAATTTCTTAA
Found at i:2599111 original size:17 final size:17
Alignment explanation
Indices: 2599097--2599130 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2599087 TCTCAATCTT
2599097 TGATTTCCTTCAATCCA
1 TGATTTCCTTCAATCCA
2599114 TGATTTCCTTCAATCCA
1 TGATTTCCTTCAATCCA
2599131 ATGGTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.41
Consensus pattern (17 bp):
TGATTTCCTTCAATCCA
Found at i:2601250 original size:16 final size:16
Alignment explanation
Indices: 2601218--2601269 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
2601208 TAAAATAGTT
*
2601218 TATC-AATA-ATCAGA
1 TATCGAATAGATCAAA
2601232 TATCGAATAGATCAAA
1 TATCGAATAGATCAAA
2601248 TATCGAATAGATCAAA
1 TATCGAATAGATCAAA
2601264 TATCGA
1 TATCGA
2601270 TAATTAAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 4 0.11
15 4 0.11
16 27 0.77
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (16 bp):
TATCGAATAGATCAAA
Found at i:2602239 original size:19 final size:20
Alignment explanation
Indices: 2602217--2602259 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2602207 TCCGGCCTAG
2602217 AATAATATATTTATTCAA-A
1 AATAATATATTTATTCAATA
* *
2602236 AATATTATTTTTATTCAATA
1 AATAATATATTTATTCAATA
2602256 AATA
1 AATA
2602260 TAATGATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAATATATTTATTCAATA
Found at i:2606937 original size:18 final size:18
Alignment explanation
Indices: 2606911--2606947 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2606901 GATACTAAAG
*
2606911 GGGTTAGAAACCCAATTT
1 GGGTAAGAAACCCAATTT
*
2606929 GGGTAAGAAACCTAATTT
1 GGGTAAGAAACCCAATTT
2606947 G
1 G
2606948 ATCAAGGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (18 bp):
GGGTAAGAAACCCAATTT
Found at i:2611982 original size:29 final size:29
Alignment explanation
Indices: 2611936--2611996 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
2611926 GTTTTATGTT
* * * *
2611936 GGGGGTGAGCTTGTACTTATAAAATTTTA
1 GGGGGCGAACTTGAACTTATAAAATTCTA
*
2611965 GGGGGCGAACTTGAACTTATACAATTCTA
1 GGGGGCGAACTTGAACTTATAAAATTCTA
2611994 GGG
1 GGG
2611997 ACGAAAACAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (29 bp):
GGGGGCGAACTTGAACTTATAAAATTCTA
Found at i:2613265 original size:104 final size:104
Alignment explanation
Indices: 2613084--2613276 Score: 273
Period size: 104 Copynumber: 1.9 Consensus size: 104
2613074 AAGAGCCAAT
* * * *
2613084 TTTTTCATTACTTATTATCAGAGGTCCAATTTTTTTCAATATTTGTTATTAGGGGCATACTTTTA
1 TTTTTCAGTACTTATTATCAGAGGTCCAATTTTTTTCAATATTTATTATTAGGAGCATACTCTTA
2613149 AAATTCAATTTTTTCTAATATTTATTTGTTTATGAGTCTAA
66 AAATTCAA-TTTTT-TAATATTTATTTGTTTATGAGTCTAA
* * *
2613190 TTTTTCAGTACTTTTTATTAGAGGTCCAA-TTTTTT-AATATTTATTATTATGAGCATACTCTTA
1 TTTTTCAGTACTTATTATCAGAGGTCCAATTTTTTTCAATATTTATTATTAGGAGCATACTCTTA
* *
2613253 AAATTTACTTTTTTAATATTTATT
66 AAATTCAATTTTTTAATATTTATT
2613277 ATTAGAGACA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 11 0.14
103 5 0.06
104 30 0.38
105 6 0.08
106 26 0.33
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (104 bp):
TTTTTCAGTACTTATTATCAGAGGTCCAATTTTTTTCAATATTTATTATTAGGAGCATACTCTTA
AAATTCAATTTTTTAATATTTATTTGTTTATGAGTCTAA
Found at i:2613327 original size:73 final size:74
Alignment explanation
Indices: 2613219--2613355 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 74
2613209 AGAGGTCCAA
* *
2613219 TTTTTTAATATTTATTATTATGAGCATACTCTTAAAATTTA-CTTTTTT-AATATTTATTATTAG
1 TTTTTTAATATTTATTATTATGAGCATACCCTTAAAATTTATCTTTTTTCAACATTTATTATTAG
2613282 AGACACATT
66 AGACACATT
* *
2613291 TTTTTTCAATACTTT-TTATTATGAAG-GTACCCTTAAAATTTATTTTTTTTCAACATTTATTAT
1 TTTTTT-AATA-TTTATTATTATG-AGCATACCCTTAAAATTTATCTTTTTTCAACATTTATTAT
2613354 TA
63 TA
2613356 TGAAAAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
72 6 0.11
73 26 0.46
74 11 0.20
75 13 0.23
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.54
Consensus pattern (74 bp):
TTTTTTAATATTTATTATTATGAGCATACCCTTAAAATTTATCTTTTTTCAACATTTATTATTAG
AGACACATT
Found at i:2615851 original size:105 final size:105
Alignment explanation
Indices: 2615638--2615853 Score: 272
Period size: 106 Copynumber: 2.1 Consensus size: 105
2615628 TTTGGTCTCT
* * * *
2615638 AAAAATACTTAGTGTGACAACATTGGTGGTCACAAAATATACTTTCAGTGTCAAATAAATTTATC
1 AAAAATACTTAGTGTGAAAACATTGATGGTCACAAAATATACTTTCAGTGTCAAAAAAATTCATC
* *** *
2615703 ACAATTTCTATTGATAATAGTATCAAATTTTTTGTCACTA
66 ACAATTTATATTGATAATAGTATCAAATAGATAGTCACTA
* * *
2615743 AAAAATACTTAGTGTGAAAATATTGATGGTCACAAAATATATTTTTTAGTGTCAAAAAAATTCAT
1 AAAAATACTTAGTGTGAAAACATTGATGGTCACAAAATATA-CTTTCAGTGTCAAAAAAATTCAT
* * * *
2615808 CACAATTTATATTGATAATTGTGTCGAATAGATAGTTAC-A
65 CACAATTTATATTGATAATAGTATCAAATAGATAGTCACTA
2615848 AAAAAT
1 AAAAAT
2615854 GAACAATTGT
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
105 45 0.48
106 49 0.52
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (105 bp):
AAAAATACTTAGTGTGAAAACATTGATGGTCACAAAATATACTTTCAGTGTCAAAAAAATTCATC
ACAATTTATATTGATAATAGTATCAAATAGATAGTCACTA
Found at i:2616962 original size:45 final size:45
Alignment explanation
Indices: 2616912--2617154 Score: 362
Period size: 45 Copynumber: 5.4 Consensus size: 45
2616902 ATAAAATATT
* *
2616912 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTGCCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
*
2616957 TTACCATTTATTCAATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* **
2617002 TTACCATTTATTCCATAAGCTCGTAACCTTAACTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
2617047 TTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
2617093 TTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCAATACAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
*
2617138 TTGCCA-TTATTCCATAA
1 TTACCATTTATTCCATAA
2617155 CCGTATACCA
Statistics
Matches: 180, Mismatches: 17, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
44 10 0.06
45 130 0.72
46 40 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:2617086 original size:24 final size:24
Alignment explanation
Indices: 2617058--2617131 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 24
2617048 TACCATTTAA
2617058 TACCATAAGCTCGTAAGCTTATTT
1 TACCATAAGCTCGTAAGCTTATTT
*
2617082 TACCAATATA-CT--T-A-C-CATTT
1 TACC-ATA-AGCTCGTAAGCTTATTT
*
2617102 GTTCCATAAGCTCGTAAGCTTATTT
1 -TACCATAAGCTCGTAAGCTTATTT
2617127 TACCA
1 TACCA
2617132 ATACACTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 18
0.63 0.07 0.31
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 4 0.11
22 2 0.05
23 2 0.05
24 9 0.24
25 9 0.24
26 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (24 bp):
TACCATAAGCTCGTAAGCTTATTT
Found at i:2617145 original size:91 final size:90
Alignment explanation
Indices: 2616912--2617132 Score: 352
Period size: 91 Copynumber: 2.4 Consensus size: 90
2616902 ATAAAATATT
* * *
2616912 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTGCCAAAATACTTACCATTTATTCAATAAGC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATACAATAAGC
2616977 TCGTAAGCTTATTTTACCAAAATAC
66 TCGTAAGCTTATTTTACCAAAATAC
* ** *
2617002 TTACCATTTATTCCATAAGCTCGTAACCTTAACTTACCAAAATACTTACCATTTAATACCATAAG
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTT-ATACAATAAG
*
2617067 CTCGTAAGCTTATTTTACCAATATAC
65 CTCGTAAGCTTATTTTACCAAAATAC
*
2617093 TTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCAA
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAA
2617133 TACACTTGCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 49 0.42
91 69 0.58
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (90 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATACAATAAGC
TCGTAAGCTTATTTTACCAAAATAC
Found at i:2617181 original size:136 final size:135
Alignment explanation
Indices: 2616912--2617184 Score: 381
Period size: 136 Copynumber: 2.0 Consensus size: 135
2616902 ATAAAATATT
* *
2616912 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTGCCAAAATACTTACCATTTATTCAATAAGC
1 TTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATTCAATAAGC
* * *
2616977 TCGTAAGCTTATTTTACCAAAATACTTACCATTTATTCCATAAGCTCGTAACCTTAACTTACCAA
66 TCGTAAGCTTATTTTACCAAAACACTTACCATTTATTCCATAAGCTCGTAACCATAACATACCAA
2617042 AATAC
131 AATAC
* * *
2617047 TTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTGTTCCATAAG
1 TTACCATTT-ATACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATTCAATAAG
* *
2617112 CTCGTAAGCTTATTTTACCAATACACTTGCCA-TTATTCCATAA-C-CGTATACCATAGACAATA
65 CTCGTAAGCTTATTTTACCAAAACACTTACCATTTATTCCATAAGCTCGTA-ACCATA-AC-ATA
2617174 GCCAAATATAC
127 -CCAAA-ATAC
2617185 AACCCTCATA
Statistics
Matches: 122, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
133 4 0.03
134 6 0.05
135 22 0.18
136 81 0.66
137 5 0.04
138 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (135 bp):
TTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTATTCAATAAGC
TCGTAAGCTTATTTTACCAAAACACTTACCATTTATTCCATAAGCTCGTAACCATAACATACCAA
AATAC
Found at i:2625738 original size:9 final size:9
Alignment explanation
Indices: 2625724--2625813 Score: 83
Period size: 9 Copynumber: 9.7 Consensus size: 9
2625714 AAGAAAAGTG
2625724 AAAAAGAAA
1 AAAAAGAAA
2625733 AAAAAGAAA
1 AAAAAGAAA
2625742 ATAAAAGAGAA
1 A-AAAAGA-AA
2625753 AAAAAGAGAA
1 AAAAAGA-AA
*
2625763 AAAAGGAAA
1 AAAAAGAAA
*
2625772 ATAAAAGAGA
1 A-AAAAGAAA
2625782 AAAAAGAAA
1 AAAAAGAAA
* *
2625791 AGAATG-AA
1 AAAAAGAAA
*
2625799 AAGAAGAAA
1 AAAAAGAAA
*
2625808 GAAAAG
1 AAAAAG
2625814 GAGAAAAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
8 5 0.08
9 30 0.45
10 28 0.42
11 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:2625757 original size:20 final size:18
Alignment explanation
Indices: 2625707--2625821 Score: 108
Period size: 20 Copynumber: 6.2 Consensus size: 18
2625697 ACACCTGAAG
*
2625707 AAAAGAAAAGAAAAGTG-A
1 AAAAGAAAA-AAAAGAGAA
*
2625725 AAAAGAAAAAAAAGAAAA
1 AAAAGAAAAAAAAGAGAA
2625743 TAAAAGAGAAAAAAAGAGAA
1 -AAAAGA-AAAAAAAGAGAA
2625763 AAAAGGAAAATAAAAGAGAA
1 AAAA-GAAAA-AAAAGAGAA
* *
2625783 AAAAGAAAAGAATGA-AA
1 AAAAGAAAAAAAAGAGAA
* *
2625800 AGAAGAAAGAAAAGGAGAA
1 AAAAGAAA-AAAAAGAGAA
2625819 AAA
1 AAA
2625822 TTGAAATGTG
Statistics
Matches: 81, Mismatches: 9, Indels: 13
0.79 0.09 0.13
Matches are distributed among these distances:
17 14 0.17
18 19 0.23
19 22 0.27
20 26 0.32
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAAAGAGAA
Found at i:2625809 original size:30 final size:29
Alignment explanation
Indices: 2625707--2625800 Score: 113
Period size: 30 Copynumber: 3.3 Consensus size: 29
2625697 ACACCTGAAG
* *
2625707 AAAAGAAAAGAAAAGTG--AAAAAGAAAA
1 AAAAGAAAATAAAAGAGAAAAAAAGAAAA
2625734 AAAAGAAAATAAAAGAGAAAAAAAGAGAAA
1 AAAAGAAAATAAAAGAGAAAAAAAGA-AAA
*
2625764 AAAGGAAAATAAAAGAG-AAAAAAGAAAA
1 AAAAGAAAATAAAAGAGAAAAAAAGAAAA
* *
2625792 GAATGAAAA
1 AAAAGAAAA
2625801 GAAGAAAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 15 0.25
28 10 0.17
29 15 0.25
30 19 0.32
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (29 bp):
AAAAGAAAATAAAAGAGAAAAAAAGAAAA
Found at i:2625810 original size:7 final size:8
Alignment explanation
Indices: 2625703--2625807 Score: 50
Period size: 7 Copynumber: 13.9 Consensus size: 8
2625693 AATTACACCT
2625703 GAAGAAAA
1 GAAGAAAA
2625711 GAAAAGAAAA
1 G--AAGAAAA
*
2625721 G-TGAAAAA
1 GAAG-AAAA
2625729 GAA-AAAA
1 GAAGAAAA
2625736 -AAGAAAA
1 GAAGAAAA
* *
2625743 TAA-AAGA
1 GAAGAAAA
*
2625750 GAAAAAAA
1 GAAGAAAA
2625758 G-AGAAAA
1 GAAGAAAA
*
2625765 -AAG-GAA
1 GAAGAAAA
*
2625771 -AATAAAA
1 GAAGAAAA
2625778 G-AGAAAA
1 GAAGAAAA
2625785 -AAGAAAA
1 GAAGAAAA
2625792 GAATGAAAA
1 GAA-GAAAA
2625801 GAAGAAA
1 GAAGAAA
2625808 GAAAAGGAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
6 6 0.08
7 34 0.46
8 18 0.24
9 8 0.11
10 8 0.11
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (8 bp):
GAAGAAAA
Found at i:2625821 original size:21 final size:22
Alignment explanation
Indices: 2625725--2625821 Score: 57
Period size: 21 Copynumber: 4.6 Consensus size: 22
2625715 AGAAAAGTGA
*
2625725 AAAAGAA-AAAAAAGAAAATAA-
1 AAAAGAATGAAAAAGAAAA-AAG
* *
2625746 AAGAGAA-AAAAAGAGAAAAAAG
1 AAAAGAATGAAAA-AGAAAAAAG
*
2625768 -GAA-AAT-AAAAGAGAAAAAAG
1 AAAAGAATGAAAA-AGAAAAAAG
*
2625788 AAAAGAATG-AAAAGAAGAAAG
1 AAAAGAATGAAAAAGAAAAAAG
*
2625809 AAAAGGA-GAAAAA
1 AAAAGAATGAAAAA
2625822 TTGAAATGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
20 17 0.27
21 34 0.54
22 12 0.19
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (22 bp):
AAAAGAATGAAAAAGAAAAAAG
Found at i:2626376 original size:18 final size:18
Alignment explanation
Indices: 2626353--2626387 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2626343 AAAAAATTAC
*
2626353 TTTAATAAAGTTTTCTAA
1 TTTAATAAAATTTTCTAA
2626371 TTTAATAAAATTTTCTA
1 TTTAATAAAATTTTCTA
2626388 CTTCTAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTAATAAAATTTTCTAA
Found at i:2626579 original size:21 final size:20
Alignment explanation
Indices: 2626555--2626598 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
2626545 GCAATTCTTT
2626555 ACTTTAACGAACAAATTCTCC
1 ACTTTAA-GAACAAATTCTCC
* *
2626576 AC-TTGAGAACATATTCTCC
1 ACTTTAAGAACAAATTCTCC
2626595 ACTT
1 ACTT
2626599 CTTTCACGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 14 0.70
20 4 0.20
21 2 0.10
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (20 bp):
ACTTTAAGAACAAATTCTCC
Found at i:2629018 original size:46 final size:48
Alignment explanation
Indices: 2628946--2629070 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 48
2628936 ATCATTTGGG
* * *
2628946 CATCCTTTCATACCCATTATGTATTGTTTACATTTT-T-CCTTTATGA
1 CATCCTTTCATACCAATTATGCATTGTTTACATTTTATACCTATATGA
* *
2628992 CATCCATTCATACCAATTATGCATTGTTGTACATTTTATATCTATATGA
1 CATCCTTTCATACCAATTATGCATTGTT-TACATTTTATACCTATATGA
* *
2629041 CATCCTTTCATACCACTTATGCATCGTTTA
1 CATCCTTTCATACCAATTATGCATTGTTTA
2629071 TATCCAAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 25 0.37
47 8 0.12
48 3 0.04
49 32 0.47
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45
Consensus pattern (48 bp):
CATCCTTTCATACCAATTATGCATTGTTTACATTTTATACCTATATGA
Found at i:2629224 original size:81 final size:81
Alignment explanation
Indices: 2629122--2629880 Score: 1135
Period size: 81 Copynumber: 9.4 Consensus size: 81
2629112 GCGTTTACTT
* * * * **
2629122 TTCATCTAACTTGCATGATTGATACATTTCTATCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2629187 CAACAGTCTTTAACCA
66 CAACGGTCTTTAACCG
* * *
2629203 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGTACAACTAGGCCATTTATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
2629268 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * *
2629284 TTCATCTAACTGGCATAATTGGCACATTTCTGCCAAATGCATAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2629349 CAACGGTCTTTAATCG
66 CAACGGTCTTTAACCG
* * *
2629365 TTCATCTAACTGGAATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2629430 CAACGGTCTTTAATCG
66 CAACGGTCTTTAACCG
* *
2629446 TTCATCTAACGGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
** *
2629511 CAACGCCCTTTAACTG
66 CAACGGTCTTTAACCG
* *
2629527 TTCATCTAACT-GCATAATTGACACATTTCTGCCAAATGCATC-GCTAGGCCATTTATCCTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA-CAGCTAGGCCATTTATCTTTTAC
*
2629590 TCAACGGTCTTTAACTG
65 TCAACGGTCTTTAACCG
* * * *
2629607 TTCATCTAGCTGGCATAATTGACACCTTTTTTCCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2629672 CAACGGTCTTTAGCCG
66 CAACGGTCTTTAACCG
* *
2629688 TTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
2629753 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * *
2629769 TTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATACACAACTAGACCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2629834 CAACAGTCTTTAATCG
66 CAACGGTCTTTAACCG
2629850 TTCATCTAACTGGCATAATTGACACCTTTCT
1 TTCATCTAACTGGCATAATTGACACCTTTCT
2629881 AACACCTTTC
Statistics
Matches: 619, Mismatches: 56, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
80 73 0.12
81 546 0.88
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
CAACGGTCTTTAACCG
Found at i:2629824 original size:404 final size:405
Alignment explanation
Indices: 2629122--2629881 Score: 1238
Period size: 404 Copynumber: 1.9 Consensus size: 405
2629112 GCGTTTACTT
* * * *
2629122 TTCATCTAACTTGCATGATTGATACATTTCTATCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTTGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCCTTTACT
*
2629187 CAACAGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGTACAACTAGG
66 CAACAGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
* *
2629252 CCATTTATATTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGGCACATTTCTGC
131 CCATTTATATTTTACTCAACGGTCTTTAACCGTTCATCTAACTAGCATAATTGACACATTTCTGC
* * *
2629317 CAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAATCGTTCATCTAACTGGAATA
196 CAAATGCACAACTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGAATA
* * * *
2629382 ATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAATCGT
261 ATTGACACATTTCTGTCAAATACACAACTAGACCATTTATCTTTTACTCAACAGTCTTTAATCGT
2629447 TCATCTAACGGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTC
326 TCATCTAACGGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTC
2629512 AACGCCCTTTAACTG
391 AACGCCCTTTAACTG
*
2629527 TTCATCTAAC-TGCATAATTGACACATTTCTGCCAAATGCATC-GCTAGGCCATTTATCCTTTAC
1 TTCATCTAACTTGCATAATTGACACATTTCTACCAAATGCA-CAGCTAGGCCATTTATCCTTTAC
* ** * * *
2629590 TCAACGGTCTTTAACTGTTCATCTAGCTGGCATAATTGACACCTTTTTTCCAAATGCACAACTAG
65 TCAACAGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAG
* * *
2629655 GCCATTTATCTTTTACTCAACGGTCTTTAGCCGTTCATCTAACTAGCATAATTGACACCTTTCTG
130 GCCATTTATATTTTACTCAACGGTCTTTAACCGTTCATCTAACTAGCATAATTGACACATTTCTG
*
2629720 CCAAATGCACAACTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCAT
195 CCAAATGCACAACTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGAAT
*
2629785 AATTGACACCTTTCT-TCCAAATACACAACTAGACCATTTATCTTTTACTCAACAGTCTTTAATC
260 AATTGACACATTTCTGT-CAAATACACAACTAGACCATTTATCTTTTACTCAACAGTCTTTAATC
*
2629849 GTTCATCTAACTGGCATAATTGACACCTTTCTA
324 GTTCATCTAACGGGCATAATTGACACCTTTCTA
2629882 ACACCTTTCT
Statistics
Matches: 326, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
403 1 0.00
404 314 0.96
405 11 0.03
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (405 bp):
TTCATCTAACTTGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCCTTTACT
CAACAGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
CCATTTATATTTTACTCAACGGTCTTTAACCGTTCATCTAACTAGCATAATTGACACATTTCTGC
CAAATGCACAACTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGAATA
ATTGACACATTTCTGTCAAATACACAACTAGACCATTTATCTTTTACTCAACAGTCTTTAATCGT
TCATCTAACGGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTC
AACGCCCTTTAACTG
Found at i:2630231 original size:19 final size:19
Alignment explanation
Indices: 2630209--2630257 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
2630199 ACTATACTAG
2630209 GGTATCGATACTCTATTAC
1 GGTATCGATACTCTATTAC
2630228 GGTATCGATACTCTATTAC
1 GGTATCGATACTCTATTAC
2630247 GGTATCGATAC
1 GGTATCGATAC
2630258 CATTTTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (19 bp):
GGTATCGATACTCTATTAC
Found at i:2631420 original size:33 final size:34
Alignment explanation
Indices: 2631383--2631452 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
2631373 ACTATATAAT
2631383 TATAA-AAAT-ATAAACAAGTAAAATTAAAAC-ATA
1 TATAATAAATAATAAA-AA-TAAAATTAAAACTATA
* *
2631416 TATAATCAATAATAAAAATAAAATTATAACTATA
1 TATAATAAATAATAAAAATAAAATTAAAACTATA
2631450 TAT
1 TAT
2631453 TTAAAAGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 16 0.50
34 11 0.34
35 5 0.16
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (34 bp):
TATAATAAATAATAAAAATAAAATTAAAACTATA
Found at i:2632371 original size:19 final size:20
Alignment explanation
Indices: 2632335--2632372 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2632325 GGTTTGCTCG
*
2632335 TTTTTTTTCTTGTTTGTTGT
1 TTTTTTTTCTTGTCTGTTGT
2632355 TTTTTTTTCTT-TCTGTTG
1 TTTTTTTTCTTGTCTGTTG
2632373 GTTGCCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.08, G:0.13, T:0.79
Consensus pattern (20 bp):
TTTTTTTTCTTGTCTGTTGT
Found at i:2632807 original size:3 final size:3
Alignment explanation
Indices: 2632799--2632862 Score: 78
Period size: 3 Copynumber: 21.7 Consensus size: 3
2632789 GGCTCGTTTG
** *
2632799 TAA TAA TAA TTT TAA TAA AAA TAA -AA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2632846 TAA T-A TAAA TAA TAA TA
1 TAA TAA T-AA TAA TAA TA
2632863 GAAAATGGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 4 0.08
3 46 0.88
4 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2633223 original size:124 final size:123
Alignment explanation
Indices: 2633001--2633302 Score: 402
Period size: 124 Copynumber: 2.5 Consensus size: 123
2632991 ATGTGGAATA
* * *
2633001 AATTCTTCTCT-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---GGATGATGTT
1 AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGATGATGCT
* * * * * *
2633062 GACCTATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATG
65 AACATATTTCCTTATGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATG
* *
2633121 AACTTCTTCTTTCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCT
1 AA-TTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCT
* * *
2633186 AATATATTTCTTTATGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTATG
65 AACATATTTCCTTATGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATG
*
2633245 AA--CTTC-TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGCTGAT
1 AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGAT
2633303 CCATCAAGTG
Statistics
Matches: 161, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
120 52 0.32
121 17 0.11
122 32 0.20
124 60 0.37
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (123 bp):
AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATGATGCTA
ACATATTTCCTTATGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATG
Found at i:2633418 original size:115 final size:114
Alignment explanation
Indices: 2633214--2633698 Score: 431
Period size: 116 Copynumber: 4.2 Consensus size: 114
2633204 ATAGAATTAT
**
2633214 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAA---CTTC-TTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
* * *
2633275 ATTATGAACT-TTCTCTGGAAAGGCTGATCCATCAAGTGATGGATT-TA
66 ATTATGAACTCTTCTCTGGAAAGGCTGATCCATCAAATGATGAATTCAA
*
2633322 GCAAAAGGTTGCACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGAT---GAGTTCTT
* * *
2633387 CTCATTATGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAA
63 CTCATTATGAACTCTTCTCTGGAAAGGCTGATCCATCAAATGATGAATTCAA
* *
2633438 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTTCTTCTTCAGATGAGTTCTTCT
*** * *** *
2633502 CATTATGAACTC-GAACTGGAAATGTTAATGCTGATCTATCTTCTTCTG-TGATAGAGTCAA
65 CATTATGAACTCTTCTCTGGAAA-G-----GCTGATC---CATCAAATGATG--A-ATTCAA
* ** * *
2633562 GCAAAAAAAGTTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTTC-TCTTCAGATAAGTTCTT
1 GC---AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTT
* * ** **
2633626 CTCATTATGAAC-C-T-TCTGGCAACGCTGATCCATTGAATGATGAATTTGA
63 CTCATTATGAACTCTTCTCTGGAAAGGCTGATCCATCAAATGATGAATTCAA
2633675 GCAAAAGGTTGAACAAATTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCT
2633699 TTCTTCAGAT
Statistics
Matches: 305, Mismatches: 44, Indels: 54
0.76 0.11 0.13
Matches are distributed among these distances:
108 30 0.10
110 19 0.06
111 4 0.01
112 13 0.04
113 33 0.11
114 1 0.00
115 51 0.17
116 53 0.17
117 3 0.01
118 7 0.02
119 6 0.02
121 2 0.01
122 5 0.02
123 1 0.00
124 12 0.04
125 1 0.00
126 30 0.10
127 34 0.11
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (114 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTTCTCTGGAAAGGCTGATCCATCAAATGATGAATTCAA
Found at i:2633486 original size:116 final size:112
Alignment explanation
Indices: 2633215--2633513 Score: 403
Period size: 115 Copynumber: 2.7 Consensus size: 112
2633205 TAGAATTATG
**
2633215 CAAAAGGTTGAACAAGCTCTTCTCATTATGAAC---TTCTTCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCTTCTTCAGATGAGTTCTTCTCAT
* * * *
2633277 TATGAACT-TTCTCTGGAAAGGCTGATCCATCAAGTGATGGATTTAG
66 TATGAACTCTTCTCTGGAAAGGCTGATCCATCAAATGATGAATTAAA
*
2633323 CAAAAGGTTGCACAAATTCTTCTCATTATGAA-TTTCTTCTTTCTTCTTCAGATGACGAGTTCTT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTT-TTC-TTCTTCTTCAGAT---GAGTTCTT
* * *
2633387 CTCATTATGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAA
61 CTCATTATGAACTCTTCTCTGGAAAGGCTGATCCATCAAATGATGAATT-AAA
2633439 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTT-CTTCTTCAGATGAGTTCTTCTCA
2633504 TTATGAACTC
65 TTATGAACTC
2633514 GAACTGGAAA
Statistics
Matches: 168, Mismatches: 11, Indels: 19
0.85 0.06 0.10
Matches are distributed among these distances:
108 29 0.17
111 3 0.02
112 13 0.08
113 22 0.13
115 49 0.29
116 49 0.29
117 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTTCTCTGGAAAGGCTGATCCATCAAATGATGAATTAAA
Found at i:2634678 original size:114 final size:115
Alignment explanation
Indices: 2634478--2634930 Score: 793
Period size: 115 Copynumber: 4.0 Consensus size: 115
2634468 GATCATGCAG
* * * * * *
2634478 TTCATCTTTCAATTCTAATGATTGG-TTCTGTGGTTCCTACCGAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
* * *
2634542 AACATTTCCAGAAGATGCTATTGGGTCTCCATATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
*
2634592 TTCATCTTTCAAATCCAATGATTGG-TTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
2634656 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
2634706 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
2634771 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
2634821 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
2634886 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGA
2634931 TAACGTGGTA
Statistics
Matches: 326, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 129 0.40
115 197 0.60
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
Found at i:2635248 original size:19 final size:17
Alignment explanation
Indices: 2635224--2635272 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
2635214 AAAATAAAAG
2635224 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTTTC--A
*
2635243 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
2635259 AATAAATTGAATTT
1 AATAAATTGAATTT
2635273 AAAGAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 3 0.11
19 11 0.41
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:2635651 original size:9 final size:9
Alignment explanation
Indices: 2635622--2635669 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
2635612 CATCTTAACC
2635622 CTTTTTTTT
1 CTTTTTTTT
* *
2635631 -TCTTTCTT
1 CTTTTTTTT
2635639 CTTTTTTTT
1 CTTTTTTTT
2635648 CTTTTTTTT
1 CTTTTTTTT
2635657 CATTTTTTTT
1 C-TTTTTTTT
2635667 CTT
1 CTT
2635670 CAAGCATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 6 0.18
9 18 0.55
10 9 0.27
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:2635667 original size:19 final size:18
Alignment explanation
Indices: 2635622--2635669 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
2635612 CATCTTAACC
*
2635622 CTTTTTTTT-TCTTTCTT
1 CTTTTTTTTCTTTTTCTT
*
2635639 CTTTTTTTTCTTTTTTTT
1 CTTTTTTTTCTTTTTCTT
2635657 CATTTTTTTTCTT
1 C-TTTTTTTTCTT
2635670 CAAGCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 7 0.26
19 11 0.41
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (18 bp):
CTTTTTTTTCTTTTTCTT
Found at i:2646274 original size:28 final size:26
Alignment explanation
Indices: 2646219--2646276 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
2646209 AAACATTAAT
*
2646219 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
2646245 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
2646273 AAAA
1 AAAA
2646277 GAAAGAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:2647128 original size:33 final size:34
Alignment explanation
Indices: 2647091--2647160 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
2647081 ACTATATAAT
2647091 TATAA-AAAT-ATAAACAAGTAAAATTAAAAC-ATA
1 TATAATAAATAATAAA-AA-TAAAATTAAAACTATA
* *
2647124 TATAATCAATAATAAAAATAAAATTAGAACTATA
1 TATAATAAATAATAAAAATAAAATTAAAACTATA
2647158 TAT
1 TAT
2647161 TTAAAAGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 16 0.50
34 11 0.34
35 5 0.16
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (34 bp):
TATAATAAATAATAAAAATAAAATTAAAACTATA
Found at i:2648089 original size:21 final size:21
Alignment explanation
Indices: 2648047--2648085 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2648037 GGTTTGCTCA
*
2648047 TTTTTTTTCTTGTTTGTTGTT
1 TTTTTTTTCTTGTCTGTTGTT
2648068 TTTTTTTTCTT-TCTGTTG
1 TTTTTTTTCTTGTCTGTTG
2648086 GTTTCCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.00, C:0.08, G:0.13, T:0.79
Consensus pattern (21 bp):
TTTTTTTTCTTGTCTGTTGTT
Found at i:2648551 original size:23 final size:23
Alignment explanation
Indices: 2648513--2648557 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2648503 GCCCGTTTGT
* *
2648513 AATAATAATTTTAATAAAAATAA
1 AATAATAATATAAATAAAAATAA
*
2648536 AATAATAATATAAATAATAATA
1 AATAATAATATAAATAAAAATA
2648558 GAAAATGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAATAATATAAATAAAAATAA
Found at i:2650113 original size:2 final size:2
Alignment explanation
Indices: 2650106--2650132 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2650096 AGAGGAACTC
2650106 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
2650133 AAAGAATCTG
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
Found at i:2652487 original size:10 final size:10
Alignment explanation
Indices: 2652472--2652497 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2652462 TACACATTCT
2652472 GATGTGATCG
1 GATGTGATCG
2652482 GATGTGATCG
1 GATGTGATCG
2652492 GATGTG
1 GATGTG
2652498 GGTAGTGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.42, T:0.31
Consensus pattern (10 bp):
GATGTGATCG
Found at i:2658844 original size:17 final size:17
Alignment explanation
Indices: 2658822--2658855 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2658812 TTCCAATTCG
2658822 TAGGATCTAGTGTTACC
1 TAGGATCTAGTGTTACC
2658839 TAGGATCTAGTGTTACC
1 TAGGATCTAGTGTTACC
2658856 GCTGATCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (17 bp):
TAGGATCTAGTGTTACC
Found at i:2660336 original size:19 final size:19
Alignment explanation
Indices: 2660293--2660336 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
2660283 TAAAAATATA
* *
2660293 TTTTAATAAAGTTTTCTAC
1 TTTTAATAAAATTCTCTAC
2660312 -TTTAATAAAATTCTCTAC
1 TTTTAATAAAATTCTCTAC
2660330 TTTTAAT
1 TTTTAAT
2660337 CTAATTAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTAATAAAATTCTCTAC
Found at i:2665084 original size:19 final size:19
Alignment explanation
Indices: 2665040--2665087 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
2665030 AAAATAAACA
* *
2665040 TCTAT-TTTAATAAATTTT
1 TCTATCTTTAATAAAATTC
2665058 TCTA-CTTTAATAAAATTC
1 TCTATCTTTAATAAAATTC
2665076 TCTATCTTTAAT
1 TCTATCTTTAAT
2665088 CAAACTAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.54
Consensus pattern (19 bp):
TCTATCTTTAATAAAATTC
Found at i:2666495 original size:4 final size:4
Alignment explanation
Indices: 2666486--2666511 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2666476 TGTGAAATAA
2666486 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
2666512 GGGTGAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2670853 original size:23 final size:23
Alignment explanation
Indices: 2670807--2670859 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2670797 TTCTGTGTAA
*
2670807 TTCTACGTGGCACTACGGTGCAT
1 TTCTACGTGGCACTACGGTACAT
2670830 TTCTACGTGGCACTTA-GGTACAT
1 TTCTACGTGGCAC-TACGGTACAT
*
2670853 TTATACG
1 TTCTACG
2670860 AGATGTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 25 0.93
24 2 0.07
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (23 bp):
TTCTACGTGGCACTACGGTACAT
Found at i:2675882 original size:23 final size:23
Alignment explanation
Indices: 2675856--2675918 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
2675846 TATGGCATTT
*
2675856 CGGTGCAATTCTACGTGGCACTA
1 CGGTGCAATTCTACGAGGCACTA
* *
2675879 CGGTGCATTTCTACGAGGCACTT
1 CGGTGCAATTCTACGAGGCACTA
* *
2675902 CGGTGCATTTATACGAG
1 CGGTGCAATTCTACGAG
2675919 TTGTGGTGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
CGGTGCAATTCTACGAGGCACTA
Found at i:2677657 original size:27 final size:28
Alignment explanation
Indices: 2677627--2677679 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
2677617 ATGAAAAATG
* *
2677627 ACACAAATAAAAG-AAATAATTTAGTGT
1 ACACAAACAAAAGAAAATAAATTAGTGT
2677654 ACACAAACAAAAGAAAATAAATTAGT
1 ACACAAACAAAAGAAAATAAATTAGT
2677680 TAGTACAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (28 bp):
ACACAAACAAAAGAAAATAAATTAGTGT
Found at i:2679185 original size:16 final size:16
Alignment explanation
Indices: 2679166--2679228 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
2679156 AAAATAAATG
*
2679166 TAAATAAAAATAAAAA
1 TAAATAATAATAAAAA
2679182 TAAA-AATAATAATATAA
1 TAAATAATAATAA-A-AA
*
2679199 TAAAATAATAATAATAA
1 T-AAATAATAATAAAAA
*
2679216 TAATTAATAATAA
1 TAAATAATAATAA
2679229 TTTAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.17
16 16 0.40
17 6 0.15
18 3 0.08
19 8 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAATAATAATAAAAA
Found at i:2679194 original size:3 final size:3
Alignment explanation
Indices: 2679168--2679249 Score: 82
Period size: 3 Copynumber: 28.3 Consensus size: 3
2679158 AATAAATGTA
* * *
2679168 AAT AAA AAT AAA AAT AAA AAT AAT AAT -AT AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
2679214 AAT AATT AAT AAT AAT -TT AAT AAT AAT -TT AAT AAT A
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2679250 TTTTTGTATA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.09
3 55 0.86
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2679200 original size:11 final size:11
Alignment explanation
Indices: 2679186--2679249 Score: 76
Period size: 11 Copynumber: 5.6 Consensus size: 11
2679176 TAAAAATAAA
2679186 AATAATAATAT
1 AATAATAATAT
2679197 AATAA-AATAAT
1 AATAATAAT-AT
2679208 AATAATAATAATT
1 AATAATAAT-A-T
*
2679221 AATAATAATTT
1 AATAATAATAT
*
2679232 AATAATAATTT
1 AATAATAATAT
2679243 AATAATA
1 AATAATA
2679250 TTTTTGTATA
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
10 3 0.06
11 31 0.63
12 5 0.10
13 10 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAATAATAT
Found at i:2679205 original size:13 final size:14
Alignment explanation
Indices: 2679169--2679249 Score: 69
Period size: 14 Copynumber: 5.6 Consensus size: 14
2679159 ATAAATGTAA
*
2679169 ATAAAAATAA-AA-
1 ATAATAATAATAAT
*
2679181 ATAAAAATAATAAT
1 ATAATAATAATAAT
2679195 ATAATAA-AATAAT
1 ATAATAATAATAAT
2679208 AATAATAATAATTAAT
1 -ATAATAATAA-TAAT
2679224 AATAATTTAATAATAAT
1 -ATAA--TAATAATAAT
*
2679241 TTAATAATA
1 ATAATAATA
2679250 TTTTTGTATA
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
12 10 0.17
13 8 0.13
14 18 0.30
15 2 0.03
16 12 0.20
17 4 0.07
18 6 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:2679227 original size:22 final size:22
Alignment explanation
Indices: 2679180--2679249 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
2679170 TAAAAATAAA
*
2679180 AATAAAAATAATAAT-ATAA-T
1 AATAATAATAATAATAATAATT
2679200 AA-AATAATAATAATAATAATT
1 AATAATAATAATAATAATAATT
*
2679221 AATAATAAT-TTAATAATAATTT
1 AATAATAATAATAATAATAA-TT
2679243 AATAATA
1 AATAATA
2679250 TTTTTGTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 11 0.25
20 6 0.14
21 12 0.27
22 15 0.34
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAATAATAATAATAATAATT
Found at i:2680700 original size:2 final size:2
Alignment explanation
Indices: 2680693--2680751 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
2680683 AAATTAATTT
2680693 TA TA TA TA TA TA 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 TA TA TA
* *
2680735 TA TT TA TC TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA
2680752 GTTTATAGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2681591 original size:20 final size:20
Alignment explanation
Indices: 2681568--2681608 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2681558 ATCCCTTCCA
* *
2681568 TTTGTTTTATTTTCTTCTTC
1 TTTGTTTCATTTTCTTATTC
2681588 TTTGTTTCATTTTCTTATTC
1 TTTGTTTCATTTTCTTATTC
2681608 T
1 T
2681609 CTATTTAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.73
Consensus pattern (20 bp):
TTTGTTTCATTTTCTTATTC
Found at i:2683663 original size:21 final size:22
Alignment explanation
Indices: 2683631--2683671 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
2683621 CCCAGATTGT
2683631 TTCAGTCCGAAT-AAGAAAAAG
1 TTCAGTCCGAATGAAGAAAAAG
2683652 TTCAG-CCTGAATGAAGAAAA
1 TTCAGTCC-GAATGAAGAAAA
2683672 CTACAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.50
22 7 0.39
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (22 bp):
TTCAGTCCGAATGAAGAAAAAG
Found at i:2694180 original size:24 final size:24
Alignment explanation
Indices: 2694148--2694194 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2694138 TAGGTGCTAG
2694148 TATTAATCTTATGCCTTTGTCCAA
1 TATTAATCTTATGCCTTTGTCCAA
2694172 TATTAATCTTATGCCTTTGTCCA
1 TATTAATCTTATGCCTTTGTCCA
2694195 TTTTTAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (24 bp):
TATTAATCTTATGCCTTTGTCCAA
Found at i:2694755 original size:14 final size:14
Alignment explanation
Indices: 2694736--2694765 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2694726 AATAGTATAT
2694736 TTTATAATAATTTA
1 TTTATAATAATTTA
2694750 TTTATAATAATTTA
1 TTTATAATAATTTA
2694764 TT
1 TT
2694766 ATATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATAATAATTTA
Found at i:2694810 original size:42 final size:42
Alignment explanation
Indices: 2694741--2694843 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
2694731 TATATTTTAT
* ** **
2694741 AATAATTTA-TTTATAATAATTTATTATATTTTAAATGGTCAA
1 AATAATATATTTTATAATAAAATATTATATTTTAAATAAT-AA
* *
2694783 AATAATATATTTTATAATAAAAT-TTATATTTTTAATAATTA
1 AATAATATATTTTATAATAAAATATTATATTTTAAATAATAA
2694824 AATAATATATTTTAATAATA
1 AATAATATATTTT-ATAATA
2694844 TAAAATAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 14 0.27
42 27 0.52
43 11 0.21
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (42 bp):
AATAATATATTTTATAATAAAATATTATATTTTAAATAATAA
Found at i:2694820 original size:21 final size:21
Alignment explanation
Indices: 2694781--2694843 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
2694771 TTAAATGGTC
2694781 AAAATAATATATTTT-ATAAT
1 AAAATAATATATTTTAATAAT
*
2694801 AAAAT-TTATATTTTTAATAAT
1 AAAATAATATA-TTTTAATAAT
*
2694822 TAAATAATATATTTTAATAAT
1 AAAATAATATATTTTAATAAT
2694843 A
1 A
2694844 TAAAATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.11
20 9 0.25
21 19 0.53
22 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAATAATATATTTTAATAAT
Found at i:2697859 original size:16 final size:16
Alignment explanation
Indices: 2697834--2697865 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2697824 CAATTTGACC
2697834 CAAACCGAAAACAACT
1 CAAACCGAAAACAACT
*
2697850 CAAACTGAAAACAACT
1 CAAACCGAAAACAACT
2697866 TTAATCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.28, G:0.06, T:0.09
Consensus pattern (16 bp):
CAAACCGAAAACAACT
Found at i:2701147 original size:35 final size:35
Alignment explanation
Indices: 2701087--2701153 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
2701077 ATTCTTCATG
* *
2701087 GGGTATCGATACCGAAGTGGTAGTATCGGTACCAT
1 GGGTATCGATACCGAAGTAGAAGTATCGGTACCAT
*
2701122 GGGTATCGATACC-AATGTAGAAGTATTGGTAC
1 GGGTATCGATACCGAA-GTAGAAGTATCGGTAC
2701154 TATTTTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 26 0.93
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (35 bp):
GGGTATCGATACCGAAGTAGAAGTATCGGTACCAT
Found at i:2702014 original size:21 final size:21
Alignment explanation
Indices: 2701990--2702043 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2701980 CCTTTGATAC
* *
2701990 ATATATGTGGTCTTTTGGGAT
1 ATATATGTGGTCATTTGGAAT
*
2702011 ATATATTTGGTCATTTGGAAT
1 ATATATGTGGTCATTTGGAAT
*
2702032 AAATATGTGGTC
1 ATATATGTGGTC
2702044 CTACGGGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (21 bp):
ATATATGTGGTCATTTGGAAT
Found at i:2702016 original size:23 final size:22
Alignment explanation
Indices: 2701977--2702043 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
2701967 GGTTCTACGC
* *
2701977 GGTCCTTT-GATACATATATGT
1 GGTCATTTGGATATATATATGT
*
2701998 GGTCTTTTGGGATATATAT-T-T
1 GGTCATTT-GGATATATATATGT
*
2702019 GGTCATTTGGA-ATAAATATGT
1 GGTCATTTGGATATATATATGT
2702040 GGTC
1 GGTC
2702044 CTACGGGACA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.13
20 4 0.11
21 20 0.53
22 1 0.03
23 8 0.21
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (22 bp):
GGTCATTTGGATATATATATGT
Found at i:2702450 original size:23 final size:23
Alignment explanation
Indices: 2702404--2702450 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2702394 GACTATCTGA
* **
2702404 TATGAAAGTATGTAAATGTGTGT
1 TATGAAAGTATCTAAATGCATGT
*
2702427 TATGAAAGTATCTAACTGCATGT
1 TATGAAAGTATCTAAATGCATGT
2702450 T
1 T
2702451 TCATTAGTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
TATGAAAGTATCTAAATGCATGT
Found at i:2706573 original size:21 final size:20
Alignment explanation
Indices: 2706549--2706647 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 20
2706539 GTTTCTACGC
2706549 GGTCCTTCGAGACATATATGT
1 GGTCCTTCG-GACATATATGT
*
2706570 GGTCCTTTGGAACATATATGT
1 GGTCCTTCGG-ACATATATGT
* *
2706591 GGTCATTCGGGACATATATTT
1 GGTCCTTC-GGACATATATGT
* *
2706612 GGTCATTTGGAACATATATGT
1 GGTCCTTCGG-ACATATATGT
*
2706633 AGTCCTTCGAGACAT
1 GGTCCTTCG-GACAT
2706648 TTCTATGCGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
20 3 0.05
21 59 0.91
22 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (20 bp):
GGTCCTTCGGACATATATGT
Found at i:2706609 original size:23 final size:23
Alignment explanation
Indices: 2706562--2706716 Score: 70
Period size: 23 Copynumber: 7.0 Consensus size: 23
2706552 CCTTCGAGAC
* * *
2706562 ATATATGTGGTCCTT-TGGA-AC
1 ATATATGTGGTCATTCGGGACAT
2706583 ATATATGTGGTCATTCGGGACAT
1 ATATATGTGGTCATTCGGGACAT
* *
2706606 ATAT-T-TGGTCATT-TGGA-AC
1 ATATATGTGGTCATTCGGGACAT
* * *
2706625 ATATATGTAGTCCTTCGAGACAT
1 ATATATGTGGTCATTCGGGACAT
* * * * * *
2706648 TTCTATGCGGTTATTCGGAATAT
1 ATATATGTGGTCATTCGGGACAT
* * * *
2706671 TTCTTTGCGGTCATTCGGGACAT
1 ATATATGTGGTCATTCGGGACAT
* * * *
2706694 TTCTATGCGGTCATTCAGGACAT
1 ATATATGTGGTCATTCGGGACAT
2706717 TTCTACGCGG
Statistics
Matches: 103, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
19 5 0.05
20 4 0.04
21 28 0.27
22 6 0.06
23 60 0.58
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATATGTGGTCATTCGGGACAT
Found at i:2706621 original size:42 final size:42
Alignment explanation
Indices: 2706549--2706647 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
2706539 GTTTCTACGC
*
2706549 GGTCCTTCGAGACATATATGTGGTCCTTTGGAACATATATGT
1 GGTCCTTCGAGACATATATGTGGTCATTTGGAACATATATGT
* * *
2706591 GGTCATTCGGGACATATATTTGGTCATTTGGAACATATATGT
1 GGTCCTTCGAGACATATATGTGGTCATTTGGAACATATATGT
*
2706633 AGTCCTTCGAGACAT
1 GGTCCTTCGAGACAT
2706648 TTCTATGCGG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (42 bp):
GGTCCTTCGAGACATATATGTGGTCATTTGGAACATATATGT
Found at i:2706717 original size:23 final size:22
Alignment explanation
Indices: 2706638--2706728 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 22
2706628 TATGTAGTCC
*
2706638 TTCGAGACATTTCTATGCGGTTA
1 TTCG-GACATTTCTATGCGGTCA
* *
2706661 TTCGGAATATTTCTTTGCGGTCA
1 TTCGG-ACATTTCTATGCGGTCA
2706684 TTCGGGACATTTCTATGCGGTCA
1 TTC-GGACATTTCTATGCGGTCA
*
2706707 TTCAGGACATTTCTACGCGGTC
1 TTC-GGACATTTCTATGCGGTC
2706729 CTTTGAGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.02
23 56 0.95
24 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (22 bp):
TTCGGACATTTCTATGCGGTCA
Found at i:2708190 original size:18 final size:18
Alignment explanation
Indices: 2708149--2708190 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2708139 TTTTTTTATT
*
2708149 TAATTTTAGTTTTGAAAA
1 TAATTATAGTTTTGAAAA
2708167 -AATTATAGTTTT-AATAA
1 TAATTATAGTTTTGAA-AA
2708184 TAATTAT
1 TAATTAT
2708191 TTATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 13 0.62
18 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TAATTATAGTTTTGAAAA
Found at i:2714891 original size:28 final size:28
Alignment explanation
Indices: 2714860--2714915 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
2714850 TCCAGATCAT
*
2714860 CAACATATGTTGATACTTAGTCAACTAA
1 CAACATATATTGATACTTAGTCAACTAA
*
2714888 CAACATATATTGGTACTTAGTCAACTAA
1 CAACATATATTGATACTTAGTCAACTAA
2714916 TTGTTTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (28 bp):
CAACATATATTGATACTTAGTCAACTAA
Done.