Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 126 of 131
Found at i:22902181 original size:104 final size:104
Alignment explanation
Indices: 22902001--22902209 Score: 348
Period size: 104 Copynumber: 2.0 Consensus size: 104
22901991 CTGCTCGTTC
22902001 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAAC
1 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAAC
* * *
22902066 GAAGCCCTGCTCGTTCTACCTATTCGACGTTTGCAGTAG
66 GAAGCCCTGCTCGTTCCACCCATTCAACGTTTGCAGTAG
* * *
22902105 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCTGATCTTGAACAGAA-CTCGATCCCTCAA
1 CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACCT-GATCCCTCAA
22902169 CGAAGCCCTGCTCGTTCCACCCATTCAACGTTTGCAGTAG
65 CGAAGCCCTGCTCGTTCCACCCATTCAACGTTTGCAGTAG
22902209 C
1 C
22902210 TTGAACAGAA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 2 0.02
104 96 0.98
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (104 bp):
CACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATCTTGAACAGAACCTGATCCCTCAAC
GAAGCCCTGCTCGTTCCACCCATTCAACGTTTGCAGTAG
Found at i:22902204 original size:81 final size:82
Alignment explanation
Indices: 22902105--22902259 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 82
22902095 TTTGCAGTAG
* *
22902105 CACCCATTCGACGTTTGCAGTAGCTTGAACAGAA-CCTGATCTTGAACAGAA-CTCGATCCCTCA
1 CACCCATTCAACGTTTGCAGTAGCTTGAACAGAACCCCGATCTTGAACAGAATCT-GATCCCTCA
22902168 ACGAAGCCCTGCTCGTTC
65 ACGAAGCCCTGCTCGTTC
*
22902186 CACCCATTCAACGTTTGCAGTAGCTTGAACAGAACCCCGATCTTGAACAGAATCTGATCCTTCAA
1 CACCCATTCAACGTTTGCAGTAGCTTGAACAGAACCCCGATCTTGAACAGAATCTGATCCCTCAA
*
22902251 CGTAGCCCT
66 CGAAGCCCT
22902260 TTCTCCTCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 33 0.49
82 33 0.49
83 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (82 bp):
CACCCATTCAACGTTTGCAGTAGCTTGAACAGAACCCCGATCTTGAACAGAATCTGATCCCTCAA
CGAAGCCCTGCTCGTTC
Found at i:22902296 original size:185 final size:183
Alignment explanation
Indices: 22901912--22902330 Score: 565
Period size: 185 Copynumber: 2.3 Consensus size: 183
22901902 ACGTATCCTT
* *
22901912 GCTCGTTCCACCCATTCGACGTTTGCAGCAGCTTTAACAGAATCCGATCTTGAACAGAACCCGAT
1 GCTCGTTCCACCCATTCGACGTTTGCAGTAGCTTGAACAGAA-CCGATCTTGAACAGAACCCGAT
* *
22901977 CCCTCAATGAAGCCCTGCTCGTTCCACCCATTCGACGTTTGCAGCAGCTTCAACAGAACCCGATC
65 CCCTCAACGAAGCCCTGCTCGTTCCACCCATTCAACGTTTGCAGCAGCTTCAACAGAACCCGATC
* ** **
22902042 TTGAACAGAACCTGATCCCTCAACGAAGCCCTGCTCGTTCTACCTATTCGACGTTT
130 TTGAACAGAACCTGATCCCTCAACGAAGCCCTGCTCCTTCTA-CTA-TAAACGTAA
* ** *
22902098 GC-AGTAGCACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCTGATCTTGAACAGAACTCGAT
1 GCTCGTTCCACCCATTCGACGTTTGCAGTAGCTTGAACAGAACC-GATCTTGAACAGAACCCGAT
* *
22902162 CCCTCAACGAAGCCCTGCTCGTTCCACCCATTCAACGTTTGCAGTAGCTTGAACAGAACCCCGAT
65 CCCTCAACGAAGCCCTGCTCGTTCCACCCATTCAACGTTTGCAGCAGCTTCAACAGAA-CCCGAT
* * * * *
22902227 CTTGAACAGAATCTGATCCTTCAACGTAGCCCTTTCTCCTCTCT-CTA-AAAGGTAA
129 CTTGAACAGAACCTGATCCCTCAACGAAGCCC-TGCTCCT-TCTACTATAAACGTAA
22902282 GCTCGTTCCACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCCGATC
1 GCTCGTTCCACCCATTCGACGTTTGCAGTAGCTTGAACAGAA-CCGATC
22902331 CCTCAACGTA
Statistics
Matches: 204, Mismatches: 23, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
184 7 0.03
185 147 0.72
186 42 0.21
187 5 0.02
188 3 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (183 bp):
GCTCGTTCCACCCATTCGACGTTTGCAGTAGCTTGAACAGAACCGATCTTGAACAGAACCCGATC
CCTCAACGAAGCCCTGCTCGTTCCACCCATTCAACGTTTGCAGCAGCTTCAACAGAACCCGATCT
TGAACAGAACCTGATCCCTCAACGAAGCCCTGCTCCTTCTACTATAAACGTAA
Found at i:22902463 original size:25 final size:25
Alignment explanation
Indices: 22902435--22902488 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
22902425 GTTTAAATAA
*
22902435 GAATGCCTTAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
22902460 GAATGCCTAAATTAAATACCCTTAT
1 GAATGCCTAAATTAAATACCCTTAT
22902485 GAAT
1 GAAT
22902489 ATTGTGGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACCCTTAT
Found at i:22906154 original size:15 final size:15
Alignment explanation
Indices: 22906130--22906182 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
22906120 GTGTAAGTTA
*
22906130 TTATTATTATTGTTG
1 TTATTGTTATTGTTG
22906145 TTATTGTTATTGTTG
1 TTATTGTTATTGTTG
22906160 ---TTGTTATTGTTG
1 TTATTGTTATTGTTG
*
22906172 TTGTTGTTATT
1 TTATTGTTATT
22906183 TTGAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 12 0.35
15 22 0.65
ACGTcount: A:0.13, C:0.00, G:0.19, T:0.68
Consensus pattern (15 bp):
TTATTGTTATTGTTG
Found at i:22906156 original size:6 final size:6
Alignment explanation
Indices: 22906126--22906176 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
22906116 TGTTGTGTAA
* * * * *
22906126 GTTATT ATTATT ATTGTT GTTATT GTTATT GTTGTT GTTATT GTTGTT
1 GTTATT GTTATT GTTATT GTTATT GTTATT GTTATT GTTATT GTTATT
22906174 GTT
1 GTT
22906177 GTTATTTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.14, C:0.00, G:0.20, T:0.67
Consensus pattern (6 bp):
GTTATT
Found at i:22906160 original size:3 final size:3
Alignment explanation
Indices: 22906139--22906179 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
22906129 ATTATTATTA
* * *
22906139 TTG TTG TTA TTG TTA TTG TTG TTG TTA TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
22906180 ATTTTGAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.07, C:0.00, G:0.24, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:22906168 original size:18 final size:18
Alignment explanation
Indices: 22906126--22906179 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
22906116 TGTTGTGTAA
* *
22906126 GTTATTATTATTATTGTT
1 GTTATTGTTATTGTTGTT
22906144 GTTATTGTTATTGTTGTT
1 GTTATTGTTATTGTTGTT
*
22906162 GTTATTGTTGTTGTTGTT
1 GTTATTGTTATTGTTGTT
22906180 ATTTTGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (18 bp):
GTTATTGTTATTGTTGTT
Found at i:22906296 original size:23 final size:25
Alignment explanation
Indices: 22906251--22906308 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
22906241 GAGCTTGAAT
22906251 AATCGAG-TTTTTTTTCGAGTATAAA
1 AATCGAGCTTTTTTTTC-AGTATAAA
**
22906276 AATCGAGCTTTTTTTT-A-TATATT
1 AATCGAGCTTTTTTTTCAGTATAAA
22906299 AATCGAGCTT
1 AATCGAGCTT
22906309 AATCGAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 14 0.47
24 1 0.03
25 7 0.23
26 8 0.27
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (25 bp):
AATCGAGCTTTTTTTTCAGTATAAA
Found at i:22906425 original size:6 final size:6
Alignment explanation
Indices: 22906414--22906438 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22906404 AAGTTTAAAG
22906414 TCGAGC TCGAGC TCGAGC TCGAGC T
1 TCGAGC TCGAGC TCGAGC TCGAGC T
22906439 TATCATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (6 bp):
TCGAGC
Found at i:22918589 original size:20 final size:20
Alignment explanation
Indices: 22918564--22918602 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22918554 GCAATAACAT
22918564 AGAACAAATGCACATGGTTA
1 AGAACAAATGCACATGGTTA
* *
22918584 AGAACAACTGCACGTGGTT
1 AGAACAAATGCACATGGTT
22918603 GAGACCCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (20 bp):
AGAACAAATGCACATGGTTA
Found at i:22918691 original size:25 final size:25
Alignment explanation
Indices: 22918663--22918726 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 25
22918653 AAGTAAACTA
*
22918663 AACTATTTTACAAAATGATTGTGAT
1 AACTATTTTACAAAATAATTGTGAT
22918688 AACTATTTTACAAAATAATTGTGAT
1 AACTATTTTACAAAATAATTGTGAT
*
22918713 AACCTAGTTTACAA
1 AA-CTATTTTACAA
22918727 GTTATATACA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 26 0.72
26 10 0.28
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (25 bp):
AACTATTTTACAAAATAATTGTGAT
Found at i:22923599 original size:3 final size:3
Alignment explanation
Indices: 22923591--22923616 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22923581 TTTGATTGAT
22923591 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
22923617 TATAGCCGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22924112 original size:19 final size:19
Alignment explanation
Indices: 22924090--22924140 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
22924080 TTTAGTTTTA
22924090 ATTTATAATTATATTTATT
1 ATTTATAATTATATTTATT
** *
22924109 ATTTATAAGCATATTTTTT
1 ATTTATAATTATATTTATT
* *
22924128 ATATATATTTATA
1 ATTTATAATTATA
22924141 AATATAATTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTATAATTATATTTATT
Found at i:22924158 original size:23 final size:23
Alignment explanation
Indices: 22924132--22924179 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
22924122 TTTTTTATAT
22924132 ATATTTATAAATATAATT-ATTTA
1 ATATTTATAAATA-AATTCATTTA
22924155 ATATTTATAAATAAATTCATTTA
1 ATATTTATAAATAAATTCATTTA
22924178 AT
1 AT
22924180 TTAAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTTATAAATAAATTCATTTA
Found at i:22924528 original size:34 final size:34
Alignment explanation
Indices: 22924490--22924556 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
22924480 TTTTGAATTG
22924490 AAATTCACTTAAA-TAT-TAAAAAATAATTTTTAAT
1 AAATTCA-TTAAATTATGTAAAAAA-AATTTTTAAT
*
22924524 AAATTCATTAAATTCTGTAAAAAAAATTTTTAA
1 AAATTCATTAAATTATGTAAAAAAAATTTTTAA
22924557 AAAAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 5 0.17
34 18 0.60
35 7 0.23
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.40
Consensus pattern (34 bp):
AAATTCATTAAATTATGTAAAAAAAATTTTTAAT
Found at i:22924562 original size:15 final size:14
Alignment explanation
Indices: 22924542--22924573 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22924532 TAAATTCTGT
*
22924542 AAAAAAAATTTTTA
1 AAAAAAAAATTTTA
22924556 AAAAAAAAATTTTA
1 AAAAAAAAATTTTA
22924570 AAAA
1 AAAA
22924574 TGCCTAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAAAAATTTTA
Found at i:22936268 original size:18 final size:17
Alignment explanation
Indices: 22936245--22936288 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
22936235 GTACTTACTC
*
22936245 AATAAATTTAATTTATA
1 AATAAAATTAATTTATA
*
22936262 TAATAAAAATTAATTTTTA
1 -AAT-AAAATTAATTTATA
22936281 AATAAAAT
1 AATAAAAT
22936289 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATAAAATTAATTTATA
Found at i:22936276 original size:19 final size:18
Alignment explanation
Indices: 22936252--22936287 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
22936242 CTCAATAAAT
22936252 TTAATTTATATAATAAAAA
1 TTAATTTATA-AATAAAAA
*
22936271 TTAATTTTTAAATAAAA
1 TTAATTTATAAATAAAA
22936288 TATAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTTATAAATAAAAA
Found at i:22936345 original size:13 final size:14
Alignment explanation
Indices: 22936319--22936347 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22936309 TATATTTATA
22936319 TAATTATGATATTT
1 TAATTATGATATTT
22936333 TAATTAT-ATATTT
1 TAATTATGATATTT
22936346 TA
1 TA
22936348 TTCAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TAATTATGATATTT
Found at i:22943120 original size:2 final size:2
Alignment explanation
Indices: 22943115--22943140 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22943105 TGTTTATTTC
22943115 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
22943141 ACATTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22945002 original size:17 final size:18
Alignment explanation
Indices: 22944982--22945015 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22944972 TTTTCAAAAA
*
22944982 TATTTTTAA-AAAAATTT
1 TATTTTCAAGAAAAATTT
22944999 TATTTTCAAGAAAAATT
1 TATTTTCAAGAAAAATT
22945016 GATACTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
TATTTTCAAGAAAAATTT
Found at i:22945019 original size:59 final size:58
Alignment explanation
Indices: 22944946--22945415 Score: 585
Period size: 59 Copynumber: 8.0 Consensus size: 58
22944936 TGCTTTTATA
* * * ** **
22944946 CAAGAAAAATTGATATTTTTAATTTTTTTTCAAAAATATTTTTAAAAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAA-TTTATTTT
22945005 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAAATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-AAAAATTTATTTT
* *
22945064 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAAATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT--AAAAATTTATTTT
22945124 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTAAAAATTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTTAAAAATTTATTTT
* * *
22945183 TAAGAAAAATTGATACTTTTC-ACTTTTCCTCAAAATATATTTTTTTGAAATTTTATTTT
1 CAAGAAAAATTGATAC-TTTCAACTTTTCCTCAAAA-ATATTTTTTTAAAAATTTATTTT
* ** * * *
22945242 TAAGGGAAATTGAT-CATTTCAACTTTTCTTAAAAAATA-TTTTTTAGAAATTTTATTTT
1 CAAGAAAAATTGATAC-TTTCAACTTTTCCTCAAAAATATTTTTTTA-AAAATTTATTTT
22945300 CGAA-AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAATTTATTTT
1 C-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAATTTATTTT
* **
22945358 TAA-AGAAAATTGATACTTTCAACTTTTCCT-AAAAA-ATGCATTTTAAAAATTCTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAAAAATT-TATTTT
22945416 ATATTTTTTT
Statistics
Matches: 370, Mismatches: 29, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
56 2 0.01
57 25 0.07
58 90 0.24
59 187 0.51
60 56 0.15
61 10 0.03
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAATTTATTTT
Found at i:22945507 original size:20 final size:20
Alignment explanation
Indices: 22945450--22945507 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
22945440 TTTATTCATG
*
22945450 AAAAAATACTACT-AAAAATA
1 AAAAAATACCA-TAAAAAATA
* *
22945470 AACAAACA-CATAATAAAATA
1 AAAAAATACCATAA-AAAATA
22945490 AAAAAATACCATAAAAAA
1 AAAAAATACCATAAAAAA
22945508 AATTCGGCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.03
19 2 0.07
20 22 0.73
21 5 0.17
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAATACCATAAAAAATA
Found at i:22946067 original size:26 final size:28
Alignment explanation
Indices: 22946033--22946087 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
22946023 TTCTGATCTA
* *
22946033 TCTGTTCTCTT-TTT-TACTTTTGATTT
1 TCTGCTCTCTTCTTTCTACTTTTAATTT
*
22946059 TCTGCTCTCTTCTTTCTATTTTTAATTT
1 TCTGCTCTCTTCTTTCTACTTTTAATTT
22946087 T
1 T
22946088 TTACTCTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.42
27 3 0.12
28 11 0.46
ACGTcount: A:0.09, C:0.18, G:0.05, T:0.67
Consensus pattern (28 bp):
TCTGCTCTCTTCTTTCTACTTTTAATTT
Found at i:22946094 original size:28 final size:26
Alignment explanation
Indices: 22946038--22946094 Score: 60
Period size: 28 Copynumber: 2.1 Consensus size: 26
22946028 ATCTATCTGT
* *
22946038 TCTCTTTTTTACTTTTGATTTTCTGC
1 TCTCTTTTTTACTTTTAATTTTCTAC
* *
22946064 TCTCTTCTTTCTATTTTTAATTTTTTAC
1 TCTCTT-TTT-TACTTTTAATTTTCTAC
22946092 TCT
1 TCT
22946095 ATGTTTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.24
27 3 0.12
28 16 0.64
ACGTcount: A:0.11, C:0.19, G:0.04, T:0.67
Consensus pattern (26 bp):
TCTCTTTTTTACTTTTAATTTTCTAC
Found at i:22946582 original size:41 final size:40
Alignment explanation
Indices: 22946443--22946609 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
22946433 AAAAAATAAC
**
22946443 AAAT-CTCCTCTAAACAGAGGCTCAATGACTTTTGAAAATAA
1 AAATGCTCCTCTAAACAGAGGCTCAACAAC-TTTGAAAA-AA
* * * *
22946484 ACAAAGCTCTTCTAAACAGAGGCACAACAACTTTGAAAATA
1 A-AATGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAA
* * *
22946525 AAATGTTCCTCTAAACAGAGGCTTC-ATAATTTTGAAAAAA
1 AAATGCTCCTCTAAACAGAGGC-TCAACAACTTTGAAAAAA
*
22946565 TAAATGCTCCTCTAAACAGAGGCTCCACAACTTT-AAAAAA
1 -AAATGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAA
22946605 TAAAT
1 -AAAT
22946610 TATTCATCGA
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
40 43 0.41
41 31 0.30
42 10 0.10
43 21 0.20
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (40 bp):
AAATGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAA
Found at i:22946598 original size:81 final size:84
Alignment explanation
Indices: 22946448--22946608 Score: 215
Period size: 81 Copynumber: 2.0 Consensus size: 84
22946438 ATAACAAATC
* *
22946448 TCCTCTAAACAGAGGCTCAATGACTTTTGAAAATAAACAAAGCTCTTCTAAACAGAGGCACAACA
1 TCCTCTAAACAGAGGCTCAATGAATTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCACAACA
*
22946513 ACTTT-GAAAATAAAATGT
66 ACTTTAAAAAATAAAATGT
* * *
22946531 TCCTCTAAACAGAGGCTTC-AT-AATTTTGAAAA-AATA-AATGCTCCTCTAAACAGAGGCTCCA
1 TCCTCTAAACAGAGGC-TCAATGAATTTTGAAAATAA-ACAAAGCTCCTCTAAACAGAGGCACAA
22946592 CAACTTTAAAAAATAAA
64 CAACTTTAAAAAATAAA
22946609 TTATTCATCG
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
81 30 0.43
82 19 0.28
83 18 0.26
84 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (84 bp):
TCCTCTAAACAGAGGCTCAATGAATTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCACAACA
ACTTTAAAAAATAAAATGT
Found at i:22947017 original size:114 final size:114
Alignment explanation
Indices: 22946891--22947270 Score: 487
Period size: 114 Copynumber: 3.3 Consensus size: 114
22946881 ACATCCCAAA
* * * * *
22946891 AGTTCAAAGCTTTTT-GTTTGAATTTTGAAGGTTCACATTCAAGAAATCTTAGAGTTTCACATAT
1 AGTTCAAAG-TTTTTCGCTTGAATTTTGAAGATTCACATCCAAGAAATCTTAGAGCTTCACATCT
* * * *
22946955 AAGTTCAAAGGTTCTCACTCAAAAATTTAGAAATTCGCATCCAAAATTTG
65 AAGTTCAAAGGTTCTCACTCAAAAATTTAGAGATTTGCATCAAAAAGTTG
* * *
22947005 AGTTCAAAGCTTTTCGCTTGGATTTTGGAGATTCACATCCAAGAAATCTTTA-AGCTTCACATCT
1 AGTTCAAAGTTTTTCGCTTGAATTTTGAAGATTCACATCCAAGAAATC-TTAGAGCTTCACATCT
* *
22947069 AAGTTCAAAGGTTCTCATTCAAAAATTTAGAGATTTGCATCTAAAAGTTG
65 AAGTTCAAAGGTTCTCACTCAAAAATTTAGAGATTTGCATCAAAAAGTTG
* * *
22947119 AGTTCCAAGTTTTTCGCTTGGATTTTGGAA-ATTCACATCCAAGAAATCTTTGAGCTTCACATCT
1 AGTTCAAAGTTTTTCGCTTGAATTTT-GAAGATTCACATCCAAGAAATCTTAGAGCTTCACATCT
* ** *
22947183 AAGTTCAAAGGTTCTCACTAAAAAATTTAGAGATTTATATCAAAAAGTTA
65 AAGTTCAAAGGTTCTCACTCAAAAATTTAGAGATTTGCATCAAAAAGTTG
** * *
22947233 AGTTCAAAGTTTTTCATTTGAATTTTGGATATTCACAT
1 AGTTCAAAGTTTTTCGCTTGAATTTTGAAGATTCACAT
22947271 TCAAAAGTTT
Statistics
Matches: 233, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
113 8 0.03
114 220 0.94
115 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (114 bp):
AGTTCAAAGTTTTTCGCTTGAATTTTGAAGATTCACATCCAAGAAATCTTAGAGCTTCACATCTA
AGTTCAAAGGTTCTCACTCAAAAATTTAGAGATTTGCATCAAAAAGTTG
Found at i:22947383 original size:20 final size:21
Alignment explanation
Indices: 22947336--22947392 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
22947326 GTTTCACATC
*
22947336 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
22947357 TCAAAGATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* *
22947377 TCGAAGATTCACATTT
1 TCAAAGATTCTCATTT
22947393 TATAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:22947421 original size:58 final size:58
Alignment explanation
Indices: 22947357--22947491 Score: 198
Period size: 58 Copynumber: 2.3 Consensus size: 58
22947347 TATTTGAAAT
** * *
22947357 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTTTATAAATTTTGGGTTTCACACC
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGATTGCACACC
* * *
22947415 TCAAAGATTCTCGTTTGAGTTTGAAGATTCACATTCGATAAATTTTGGATTGCACACC
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGATTGCACACC
*
22947473 TTAAAGATTCTCATTTGAA
1 TCAAAGATTCTCATTTGAA
22947492 ATTTAAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (58 bp):
TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGATTGCACACC
Found at i:22947515 original size:67 final size:67
Alignment explanation
Indices: 22947437--22947648 Score: 237
Period size: 79 Copynumber: 3.0 Consensus size: 67
22947427 GTTTGAGTTT
* *
22947437 GAAGATTCACATTCGATAAATTTTGGATTGCACACCTTAAAGATTCTCATTTGAAATTTAAAAAT
1 GAAGATTCACATTCGATAAATTTTGGATTTCACACCTTAAAGATTCTCATTTGAAATTAAAAAAT
22947502 TC
66 TC
* * *
22947504 GAAGATTCACATTCAACAAATTTT-GAGTTTCACATCTTAAAGATTCTCATTTGAAATTCAAAAA
1 GAAGATTCACATTCGATAAATTTTGGA-TTTCACACCTTAAAGATTCTCATTTGAAATT--AAAA
22947568 TTCTCATTTGAGTTC
63 -----A----A-TTC
* *
22947583 GAAGATTCACATTCGATAAATTTTGGGTTTCACACCTTAAAGATTCTCATTTGAAATTCAAAAAT
1 GAAGATTCACATTCGATAAATTTTGGATTTCACACCTTAAAGATTCTCATTTGAAATTAAAAAAT
22947648 T
66 T
22947649 ATCATTTGAA
Statistics
Matches: 121, Mismatches: 10, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
66 2 0.02
67 53 0.44
68 1 0.01
69 3 0.02
72 1 0.01
74 1 0.01
77 3 0.02
78 1 0.01
79 55 0.45
80 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (67 bp):
GAAGATTCACATTCGATAAATTTTGGATTTCACACCTTAAAGATTCTCATTTGAAATTAAAAAAT
TC
Found at i:22947595 original size:20 final size:21
Alignment explanation
Indices: 22947542--22947595 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
22947532 TTCACATCTT
22947542 AAAGATTCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
* *
22947563 AAAAATTCTCATTTG-AGTTC
1 AAAGATTCTCATTTGAAATTC
* *
22947583 GAAGATTCACATT
1 AAAGATTCTCATT
22947596 CGATAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:22947632 original size:79 final size:79
Alignment explanation
Indices: 22947499--22947734 Score: 373
Period size: 79 Copynumber: 3.0 Consensus size: 79
22947489 GAAATTTAAA
* *
22947499 AATTCGAAGATTCACATTCAACAAATTTTGAGTTTCACATCTTAAAGATTCTCATTTGAAATTCA
1 AATTCGAAGATTCACATTCAACAAATTTTGGGTTTCACACCTTAAAGATTCTCATTTGAAATTCA
22947564 AAAATTCTCATTTG
66 AAAATTCTCATTTG
* * *
22947578 AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTTAAAGATTCTCATTTGAAATTCA
1 AATTCGAAGATTCACATTCAACAAATTTTGGGTTTCACACCTTAAAGATTCTCATTTGAAATTCA
*
22947643 AAAATTATCATTTG
66 AAAATTCTCATTTG
* * *
22947657 AATTCGAAGATTCACATTCAACAAATTTTGGATTTCACACCTCAAAGATTCTTATTTGAAATTCA
1 AATTCGAAGATTCACATTCAACAAATTTTGGGTTTCACACCTTAAAGATTCTCATTTGAAATTCA
* *
22947722 AATATTCTTATTT
66 AAAATTCTCATTT
22947735 AACACTCAAA
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 142 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (79 bp):
AATTCGAAGATTCACATTCAACAAATTTTGGGTTTCACACCTTAAAGATTCTCATTTGAAATTCA
AAAATTCTCATTTG
Found at i:22947674 original size:20 final size:21
Alignment explanation
Indices: 22947621--22947674 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
22947611 TTCACACCTT
*
22947621 AAAGATTCTCATTTGAAATTC
1 AAAGATTCACATTTGAAATTC
*
22947642 AAAAATT-ATCATTTG-AATTC
1 AAAGATTCA-CATTTGAAATTC
*
22947662 GAAGATTCACATT
1 AAAGATTCACATT
22947675 CAACAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (21 bp):
AAAGATTCACATTTGAAATTC
Found at i:22947722 original size:21 final size:21
Alignment explanation
Indices: 22947697--22947897 Score: 113
Period size: 21 Copynumber: 9.0 Consensus size: 21
22947687 GATTTCACAC
22947697 CTCAAAGATTCTTATTTGAAA
1 CTCAAAGATTCTTATTTGAAA
* *
22947718 TTCAAATATTCTTATTT-AACA
1 CTCAAAGATTCTTATTTGAA-A
*
22947739 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTTATTTG-AAA
*
22947761 CCTCTTAAAGATTCTCATTT-AAGA
1 -CTC--AAAGATTCTTATTTGAA-A
* * * * *
22947785 CTTAAAAATTATCATTTAAAAA
1 CTCAAAGATTCTTATTT-GAAA
* *
22947807 TGTCTTAAAGATTCTTATTTAAAA
1 ---CTCAAAGATTCTTATTTGAAA
22947831 CTCAAAGATT-TTCATTTGAAAA
1 CTCAAAGATTCTT-ATTTG-AAA
*
22947853 CATCTTAAAGATTTTTATTT-AAGA
1 C-TC--AAAGATTCTTATTTGAA-A
*
22947877 CTCAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTTATTTGAAA
22947898 ATGTTTTAAA
Statistics
Matches: 145, Mismatches: 15, Indels: 40
0.73 0.08 0.20
Matches are distributed among these distances:
20 4 0.03
21 68 0.47
22 8 0.06
23 17 0.12
24 7 0.05
25 39 0.27
26 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
CTCAAAGATTCTTATTTGAAA
Found at i:22947800 original size:46 final size:46
Alignment explanation
Indices: 22947697--22947918 Score: 254
Period size: 46 Copynumber: 4.9 Consensus size: 46
22947687 GATTTCACAC
* * * *
22947697 CTCAAAGATTCTTATTTG-AAA--T-TCAAATATTCTTATTTAACA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAGA
* *
22947739 CTCAAAGATTCTCATTTGAAAACCTCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAGA
* * * * * *
22947785 CTTAAAAATTATCATTTAAAAATGTCTTAAAGATTCTTATTTAAAA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAGA
* * *
22947831 CTCAAAGATTTTCATTTGAAAACATCTTAAAGATTTTTATTTAAGA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAGA
* * *
22947877 CTCAAAGATTCTCATTTGAAAATGTTTTAAAGATTCTCATTT
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTT
22947919 GGAAATGTCT
Statistics
Matches: 149, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 17 0.11
43 3 0.02
45 1 0.01
46 128 0.86
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (46 bp):
CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTTATTTAAGA
Found at i:22947892 original size:92 final size:91
Alignment explanation
Indices: 22947697--22947966 Score: 293
Period size: 92 Copynumber: 3.0 Consensus size: 91
22947687 GATTTCACAC
* * * *
22947697 CTCAAAGATTCTTATTTGAAAT-TC--AAATATTCTTATTTAACACTCAAAGATTCTCATTTGAA
1 CTCAAAGATTCTCATTTAAAATGTCTTAAAGATTCTTATTTAAAACTCAAAGATTCTCATTTGAA
*
22947759 AACCTCTTAAAGATTCTCATTTAAGA
66 AACATCTTAAAGATTCTCATTTAAGA
* * * *
22947785 CTTAAAAATTATCATTTAAAAATGTCTTAAAGATTCTTATTTAAAACTCAAAGATTTTCATTTGA
1 CTCAAAGATTCTCATTT-AAAATGTCTTAAAGATTCTTATTTAAAACTCAAAGATTCTCATTTGA
* *
22947850 AAACATCTTAAAGATTTTTATTTAAGA
65 AAACATCTTAAAGATTCTCATTTAAGA
* * * *
22947877 CTCAAAGATTCTCATTTGAAAATGTTTTAAAGATTCTCATTTGGAAATGTCTTAAAGATTCTCAT
1 CTCAAAGATTCTCATTT-AAAATGTCTTAAAGATTCTTATTT--AAA--ACTCAAAGATTCTCAT
*
22947942 TT-AAGAC-TC--AAAGATTCTCATTTAA
61 TTGAAAACATCTTAAAGATTCTCATTTAA
22947967 AAATTTAGGA
Statistics
Matches: 151, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
88 13 0.09
89 4 0.03
90 2 0.01
92 108 0.72
94 5 0.03
95 4 0.03
96 15 0.10
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.40
Consensus pattern (91 bp):
CTCAAAGATTCTCATTTAAAATGTCTTAAAGATTCTTATTTAAAACTCAAAGATTCTCATTTGAA
AACATCTTAAAGATTCTCATTTAAGA
Found at i:22947909 original size:71 final size:71
Alignment explanation
Indices: 22947725--22947970 Score: 211
Period size: 71 Copynumber: 3.5 Consensus size: 71
22947715 AAATTCAAAT
* * * ** * *
22947725 ATTCTTATTTAACACTCAAAGATTCTCATTTGAAAACCTCTTAAAGATTCTCATTT---AAGA-C
1 ATTCTCATTTAAGACTCAAAGATTCTCATTTAAAAATGTTTTAAAGATTCTCATTTGAAAACATC
*
22947786 TTAAAA
66 TTAAAG
* * * * * * *
22947792 ATTATCATTTAAAAATGTCTTAAAGATTCTTATTT-AAAA---CTCAAAGATTTTCATTTGAAAA
1 ATTCTCATTT---AA-GACTCAAAGATTCTCATTTAAAAATGTTTTAAAGATTCTCATTTGAAAA
22947853 CATCTTAAAG
62 CATCTTAAAG
* * * * **
22947863 ATTTTTATTTAAGACTCAAAGATTCTCATTTGAAAATGTTTTAAAGATTCTCATTTGGAAATGTC
1 ATTCTCATTTAAGACTCAAAGATTCTCATTTAAAAATGTTTTAAAGATTCTCATTTGAAAACATC
22947928 TTAAAG
66 TTAAAG
22947934 ATTCTCATTTAAGACTCAAAGATTCTCATTTAAAAAT
1 ATTCTCATTTAAGACTCAAAGATTCTCATTTAAAAAT
22947971 TTAGGACTTC
Statistics
Matches: 143, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
67 39 0.27
68 6 0.04
70 9 0.06
71 89 0.62
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (71 bp):
ATTCTCATTTAAGACTCAAAGATTCTCATTTAAAAATGTTTTAAAGATTCTCATTTGAAAACATC
TTAAAG
Found at i:22949239 original size:37 final size:35
Alignment explanation
Indices: 22949198--22949302 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 35
22949188 TCAATTTAAG
22949198 TTTTCATTTTCTCTCATTTTCATCTTTTTTTCCATTT
1 TTTTCATTTT-T-TCATTTTCATCTTTTTTTCCATTT
** *
22949235 TTTTCATTTTTTCATTTTTTTCATTTTTTTTCATTT
1 TTTTCATTTTTTCATTTTCATC-TTTTTTTCCATTT
*
22949271 TTTTTATTTTTTTTTCATTTTTCATCTTTTTT
1 TTTTCA---TTTTTTCA-TTTTCATCTTTTTT
22949303 CATCCATTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
35 9 0.16
36 18 0.32
37 10 0.18
39 14 0.25
40 6 0.11
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.75
Consensus pattern (35 bp):
TTTTCATTTTTTCATTTTCATCTTTTTTTCCATTT
Found at i:22949273 original size:10 final size:10
Alignment explanation
Indices: 22949214--22949292 Score: 96
Period size: 10 Copynumber: 8.1 Consensus size: 10
22949204 TTTTCTCTCA
22949214 TTTTCATCTTT
1 TTTTCAT-TTT
22949225 TTTTCCA-TTT
1 TTTT-CATTTT
22949235 TTTTCA--TT
1 TTTTCATTTT
22949243 TTTTCA-TTT
1 TTTTCATTTT
22949252 TTTTCATTTT
1 TTTTCATTTT
22949262 TTTTCATTTT
1 TTTTCATTTT
22949272 TTTT-ATTTTT
1 TTTTCA-TTTT
22949282 TTTTCATTTT
1 TTTTCATTTT
22949292 T
1 T
22949293 CATCTTTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.13
9 11 0.17
10 37 0.59
11 5 0.08
12 2 0.03
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:22949306 original size:10 final size:9
Alignment explanation
Indices: 22949198--22949305 Score: 98
Period size: 9 Copynumber: 11.8 Consensus size: 9
22949188 TCAATTTAAG
22949198 TTTTCATTT
1 TTTTCATTT
*
22949207 TCTCTCATTT
1 T-TTTCATTT
**
22949217 TCATC-TTT
1 TTTTCATTT
22949225 TTTTCCATTT
1 TTTT-CATTT
22949235 TTTTCA-TT
1 TTTTCATTT
22949243 TTTTCATTT
1 TTTTCATTT
22949252 TTTTCATTTT
1 TTTTCA-TTT
22949262 TTTTCATTT
1 TTTTCATTT
*
22949271 TTTTTATTT
1 TTTTCATTT
22949280 TTTT--TTCAT
1 TTTTCATT--T
22949289 TTTTCATCTT
1 TTTTCAT-TT
22949299 TTTTCAT
1 TTTTCAT
22949306 CCATTAGTTG
Statistics
Matches: 83, Mismatches: 6, Indels: 19
0.77 0.06 0.18
Matches are distributed among these distances:
7 2 0.02
8 13 0.16
9 34 0.41
10 32 0.39
11 1 0.01
12 1 0.01
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTCATTT
Found at i:22953160 original size:56 final size:57
Alignment explanation
Indices: 22953074--22953186 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 57
22953064 AAATTTGGAG
* *
22953074 AAAAAAAAGGTAAAATGAGTAAGAAATGATAATTGATATGGATAT-TTTTTTTTGTT
1 AAAAAAAAGGCAAAATGAGTAAGAAATGATAATTGATATAGATATATTTTTTTTGTT
22953130 AAAAAAAAGGCAAAATGAGTAAGAAATGATAATTGATATAGATATATTTTTTTTGTT
1 AAAAAAAAGGCAAAATGAGTAAGAAATGATAATTGATATAGATATATTTTTTTTGTT
22953187 TTATAAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 43 0.80
57 11 0.20
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (57 bp):
AAAAAAAAGGCAAAATGAGTAAGAAATGATAATTGATATAGATATATTTTTTTTGTT
Found at i:22953287 original size:58 final size:58
Alignment explanation
Indices: 22953213--22953618 Score: 520
Period size: 58 Copynumber: 7.0 Consensus size: 58
22953203 TGCTTTTATA
* *
22953213 TAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATCTTTTTAAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAATTTTATTTT
* * * *
22953271 TAAGGAAAATTAATACTTTTAACTTTTTCTAAAAAATATTTTTTTAAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAATTTTATTTT
* *
22953329 CGAAG-AAAATTGATGCTTTCAAC-TTTTCTTCAAAATATATTTTTTTGAAAA-TTTATTTT
1 -TAAGAAAAATTGATACTTTCAACTTTTTC-TCAAAA-ATATTTTTTT-AAAATTTTATTTT
* *
22953388 TAAGAAAAATTGATACTTTAAACTTTTTCTCAAAATTTATTTTTTTGAAAA-TTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAA-ATATTTTTTT-AAAATTTTATTTT
*
22953447 TAAGAAAAATTGATACTTTCAAC-TTTTCTTAAAAATA-TTTTTTAGAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTA-AAATTTTATTTT
** *
22953504 CGAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAAAAATTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAATTTTATTTT
* * ** * *
22953561 CAAGAAAAATTGACACTTTCAACTTTTTCTCAAAAATGCTTTTTAAAAATTGTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAATTTTATTTT
22953619 ATATTTTTTC
Statistics
Matches: 311, Mismatches: 27, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
55 1 0.00
56 9 0.03
57 82 0.26
58 122 0.39
59 88 0.28
60 9 0.03
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (58 bp):
TAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAATTTTATTTT
Found at i:22953397 original size:59 final size:57
Alignment explanation
Indices: 22953213--22953597 Score: 474
Period size: 59 Copynumber: 6.6 Consensus size: 57
22953203 TGCTTTTATA
* *
22953213 TAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATCTTTTT-AAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTT-TCAAAAATATTTTTTTGAAAA-TTTATTTT
* * * *
22953271 TAAGGAAAATTAATACTTTTAACTTTTTCTAAAAAATATTTTTTT-AAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTT-TCAAAAATATTTTTTTGAAAA-TTTATTTT
* *
22953329 CGAAG-AAAATTGATGCTTTCAACTTTTCTTCAAAATATATTTTTTTGAAAATTTATTTT
1 -TAAGAAAAATTGATACTTTCAACTTTT-TTCAAAA-ATATTTTTTTGAAAATTTATTTT
* *
22953388 TAAGAAAAATTGATACTTTAAACTTTTTCTCAAAATTTATTTTTTTGAAAATTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTT-TCAAAA-ATATTTTTTTGAAAATTTATTTT
* *
22953447 TAAGAAAAATTGATACTTTCAACTTTTCTT-AAAAATATTTTTTAGAAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTT-TTCAAAAATATTTTTTTGAAAATTTATTTT
** *
22953504 CGAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAAAAATTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTT-TCAAAAATATTTTTTTGAAAATTTATTTT
* *
22953561 CAAGAAAAATTGACACTTTCAACTTTTTCTCAAAAAT
1 TAAGAAAAATTGATACTTTCAACTTTTT-TCAAAAAT
22953598 GCTTTTTAAA
Statistics
Matches: 293, Mismatches: 25, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
56 1 0.00
57 97 0.33
58 92 0.31
59 98 0.33
60 5 0.02
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (57 bp):
TAAGAAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTGAAAATTTATTTT
Found at i:22953457 original size:17 final size:16
Alignment explanation
Indices: 22953419--22953454 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22953409 ACTTTTTCTC
**
22953419 AAAATTTATTTTTTTG
1 AAAATTTATTTTTAAG
22953435 AAAATTTATTTTTAAG
1 AAAATTTATTTTTAAG
22953451 AAAA
1 AAAA
22953455 ATTGATACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
AAAATTTATTTTTAAG
Found at i:22953538 original size:27 final size:27
Alignment explanation
Indices: 22953508--22953597 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
22953498 TATTTTCGAG
22953508 AAAAATTGATACTTTCAACTTTTTCTC
1 AAAAATTGATACTTTCAACTTTTTCTC
** * * *
22953535 AAAAA-T-ATTTTTTAAAAATTTATTTTC
1 AAAAATTGATACTTT-CAACTTT-TTCTC
*
22953562 AAGAAAAATTGACACTTTCAACTTTTTCTC
1 ---AAAAATTGATACTTTCAACTTTTTCTC
22953592 AAAAAT
1 AAAAAT
22953598 GCTTTTTAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 6 0.13
27 15 0.33
30 9 0.20
31 6 0.13
32 4 0.09
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.42
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTC
Found at i:22954345 original size:28 final size:26
Alignment explanation
Indices: 22954313--22954371 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
22954303 TCTGTTCTCT
22954313 TTTCTACTTTTGATTTTCTGCTCTTTTC
1 TTTCTACTTTTGATTTTCT-CT-TTTTC
** *
22954341 TTTCTGTTTTTGATTTTCTCTTTTTG
1 TTTCTACTTTTGATTTTCTCTTTTTC
22954367 TTTCT
1 TTTCT
22954372 GCGTTTCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.32
27 2 0.07
28 17 0.61
ACGTcount: A:0.05, C:0.17, G:0.08, T:0.69
Consensus pattern (26 bp):
TTTCTACTTTTGATTTTCTCTTTTTC
Found at i:22954368 original size:20 final size:20
Alignment explanation
Indices: 22954339--22954385 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
22954329 TCTGCTCTTT
* * *
22954339 TCTTTCTGTTTTTGATTTTC
1 TCTTTTTGTTTCTGAGTTTC
*
22954359 TCTTTTTGTTTCTGCGTTTC
1 TCTTTTTGTTTCTGAGTTTC
22954379 TCTTTTT
1 TCTTTTT
22954386 TGTTCTGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.02, C:0.17, G:0.11, T:0.70
Consensus pattern (20 bp):
TCTTTTTGTTTCTGAGTTTC
Found at i:22954377 original size:28 final size:28
Alignment explanation
Indices: 22954320--22954372 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
22954310 TCTTTTCTAC
22954320 TTTTGATTTTCTGCTCTTTTCTTTCTGT
1 TTTTGATTTTCTGCTCTTTTCTTTCTGT
*
22954348 TTTTGATTTTCT-CT-TTTTGTTTCTG
1 TTTTGATTTTCTGCTCTTTTCTTTCTG
22954373 CGTTTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.04, C:0.15, G:0.11, T:0.70
Consensus pattern (28 bp):
TTTTGATTTTCTGCTCTTTTCTTTCTGT
Found at i:22956976 original size:25 final size:27
Alignment explanation
Indices: 22956925--22956976 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
22956915 ATTAATTAAA
* *
22956925 ATTAATATATTTTTATTAAAAATATAT
1 ATTAATATATATGTATTAAAAATATAT
*
22956952 ATTAATATATATGTATAAAAAATAT
1 ATTAATATATATGTATTAAAAATAT
22956977 CTAAATATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
ATTAATATATATGTATTAAAAATATAT
Found at i:22960289 original size:16 final size:16
Alignment explanation
Indices: 22960268--22960302 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
22960258 CAGTAAAAAT
*
22960268 AACTGTAATAACAGGA
1 AACTGTAACAACAGGA
22960284 AACTGTAACAACAGGA
1 AACTGTAACAACAGGA
22960300 AAC
1 AAC
22960303 ATATATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.14
Consensus pattern (16 bp):
AACTGTAACAACAGGA
Found at i:22963571 original size:27 final size:30
Alignment explanation
Indices: 22963522--22963587 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
22963512 AATATATTCA
* *
22963522 TATATTTATATCATATAAGTTAT-T-AAATT
1 TATATATATATCATAT-AGTTATATAAAAAT
*
22963551 TATATATATATCATAT-TTTATATAAAAAT
1 TATATATATATCATATAGTTATATAAAAAT
22963580 TATATATA
1 TATATATA
22963588 ATAATTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.12
28 1 0.03
29 27 0.84
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (30 bp):
TATATATATATCATATAGTTATATAAAAAT
Found at i:22963596 original size:27 final size:28
Alignment explanation
Indices: 22963550--22963625 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
22963540 GTTATTAAAT
*
22963550 TTATATATATATCATATTTTAT-ATAAAAA
1 TTATATATA-ATAAT-TTTTATCATAAAAA
22963579 TTATATATAATAATTTTTATCGATAAAAA
1 TTATATATAATAATTTTTATC-ATAAAAA
** * *
22963608 AAATATAAAATTATTTTT
1 TTATATATAATAATTTTT
22963626 TATTTTATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 6 0.15
28 4 0.10
29 30 0.75
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (28 bp):
TTATATATAATAATTTTTATCATAAAAA
Found at i:22963699 original size:19 final size:19
Alignment explanation
Indices: 22963677--22963715 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22963667 ATTTATTTTT
* *
22963677 TTTATATTTTTTTATCATA
1 TTTATATCTTATTATCATA
22963696 TTTATATCTTATTATCATA
1 TTTATATCTTATTATCATA
22963715 T
1 T
22963716 CATATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATATCTTATTATCATA
Found at i:22964132 original size:13 final size:12
Alignment explanation
Indices: 22964106--22964130 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22964096 AGTGTTTATT
22964106 ATTTTTATGTAA
1 ATTTTTATGTAA
22964118 ATTTTTATGTAA
1 ATTTTTATGTAA
22964130 A
1 A
22964131 ATATTAAAAA
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:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTTTATGTAA
Found at i:22964213 original size:27 final size:24
Alignment explanation
Indices: 22964155--22964218 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 24
22964145 TTAGACGATC
22964155 TTTAT-ATTTATATTTTATAAAAT
1 TTTATAATTTATATTTTATAAAAT
* *
22964178 ATTAAAATTTATATATTTATATAATAT
1 TTTATAATTTATAT-TTTATA-AA-AT
22964205 TTTATAATTTATAT
1 TTTATAATTTATAT
22964219 CGATATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 8 0.24
25 6 0.18
26 2 0.06
27 14 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTATAATTTATATTTTATAAAAT
Found at i:22965322 original size:22 final size:22
Alignment explanation
Indices: 22965281--22965322 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22965271 TATATATTTT
*
22965281 TAATTTTATTAAACTTTTTATA
1 TAATTTTATTAAACATTTTATA
22965303 TAATTATTATTAAA-ATTTTA
1 TAATT-TTATTAAACATTTTA
22965323 AATATGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTTATTAAACATTTTATA
Found at i:22967049 original size:16 final size:16
Alignment explanation
Indices: 22967025--22967084 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
22967015 ATTTATTTAT
*
22967025 ATATATTTATATAATA
1 ATATTTTTATATAATA
* * *
22967041 ATATTTTTAAATATTT
1 ATATTTTTATATAATA
*
22967057 ATA-TTTTA-AAAATA
1 ATATTTTTATATAATA
22967071 ATATTTTTAT-TAAT
1 ATATTTTTATATAAT
22967085 TTCGGGTCGG
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
14 6 0.18
15 13 0.38
16 15 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTTTTATATAATA
Found at i:22967078 original size:15 final size:15
Alignment explanation
Indices: 22967037--22967079 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22967027 ATATTTATAT
22967037 AATAATATTTTTAAA
1 AATAATATTTTTAAA
* *
22967052 TAT-TTATATTTTAAA
1 AATAATAT-TTTTAAA
22967067 AATAATATTTTTA
1 AATAATATTTTTA
22967080 TTAATTTCGG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATAATATTTTTAAA
Found at i:22969620 original size:18 final size:19
Alignment explanation
Indices: 22969586--22969626 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
22969576 TTGTTAAATC
22969586 AATTTAGATAAATAAATAA
1 AATTTAGATAAATAAATAA
22969605 AATTT-GATCAAA-AAATAA
1 AATTTAGAT-AAATAAATAA
22969623 AATT
1 AATT
22969627 AGAATTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
AATTTAGATAAATAAATAA
Found at i:22969731 original size:31 final size:32
Alignment explanation
Indices: 22969683--22969752 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
22969673 AATTTTTAAA
* *
22969683 ATTTTTTTTATTATAATAGATAAGACCCATTT
1 ATTTTATTTATTATAATAGATAAAACCCATTT
*
22969715 ATTTTATTT-TTATAATAGATAAAACCTATTT
1 ATTTTATTTATTATAATAGATAAAACCCATTT
22969746 ATTTTAT
1 ATTTTAT
22969753 AATTTGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 27 0.77
32 8 0.23
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (32 bp):
ATTTTATTTATTATAATAGATAAAACCCATTT
Found at i:22969777 original size:33 final size:32
Alignment explanation
Indices: 22969693--22969787 Score: 104
Period size: 31 Copynumber: 3.0 Consensus size: 32
22969683 ATTTTTTTTA
* * *
22969693 TTATAATAGATAAGACCCATTTATTTTAT-TT
1 TTATAATAGATAAAACCTATTTATTTTATAAT
22969724 TTATAATAGATAAAACCTATTTATTTTATAAT
1 TTATAATAGATAAAACCTATTTATTTTATAAT
* **
22969756 TTGTAATATGATAAAGTCTATTT-TTTATATAA
1 TTATAATA-GATAAAACCTATTTATTT-TATAA
22969788 AATAATAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.49
32 11 0.20
33 17 0.31
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (32 bp):
TTATAATAGATAAAACCTATTTATTTTATAAT
Found at i:22969876 original size:9 final size:9
Alignment explanation
Indices: 22969846--22969889 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
22969836 AAACTCAAAT
22969846 AATTAA-TA
1 AATTAATTA
22969854 AATTTAATTGA
1 AA-TTAATT-A
*
22969865 AATTATTTA
1 AATTAATTA
22969874 AATTAATTA
1 AATTAATTA
22969883 AATTAAT
1 AATTAAT
22969890 AATTTACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 2 0.06
9 20 0.65
10 6 0.19
11 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (9 bp):
AATTAATTA
Found at i:22975544 original size:24 final size:25
Alignment explanation
Indices: 22975498--22975544 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
22975488 TTTTATTTTT
*
22975498 TATTTATAATTTAAAATTCAATATA
1 TATTTATAATTTAAAATTAAATATA
22975523 TATTTA-ATATTT-AAATTAAATA
1 TATTTATA-ATTTAAAATTAAATA
22975545 AAAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TATTTATAATTTAAAATTAAATATA
Found at i:22977542 original size:9 final size:9
Alignment explanation
Indices: 22977528--22977557 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
22977518 GATATTTTAT
22977528 TAATTAAAA
1 TAATTAAAA
22977537 TAATTAAAA
1 TAATTAAAA
22977546 TATATTAAAA
1 TA-ATTAAAA
22977556 TA
1 TA
22977558 TAACAACTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:22977554 original size:10 final size:10
Alignment explanation
Indices: 22977530--22977559 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
22977520 TATTTTATTA
22977530 ATTAAAATA-
1 ATTAAAATAT
22977539 ATTAAAATAT
1 ATTAAAATAT
22977549 ATTAAAATAT
1 ATTAAAATAT
22977559 A
1 A
22977560 ACAACTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:22986993 original size:27 final size:27
Alignment explanation
Indices: 22986955--22987020 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
22986945 GCTCTCAGGC
22986955 AATGAGCTTTGATCTGTTCGTTTAATT
1 AATGAGCTTTGATCTGTTCGTTTAATT
*
22986982 AATGAGCTTTGATCTGTTCGTTTTATT
1 AATGAGCTTTGATCTGTTCGTTTAATT
*
22987009 AATGAACTTTGA
1 AATGAGCTTTGA
22987021 AATATTGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (27 bp):
AATGAGCTTTGATCTGTTCGTTTAATT
Found at i:22987233 original size:2 final size:2
Alignment explanation
Indices: 22987226--22987257 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22987216 TACCGTGTTC
22987226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22987258 TATCCTCCAG
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):
AT
Found at i:22999530 original size:21 final size:21
Alignment explanation
Indices: 22999504--22999548 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
22999494 GTTGCTATCA
22999504 ATCAAGGAATCACTGATTAAG
1 ATCAAGGAATCACTGATTAAG
22999525 ATCAAGGAATCACTGATTAAG
1 ATCAAGGAATCACTGATTAAG
22999546 ATC
1 ATC
22999549 GTCTTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (21 bp):
ATCAAGGAATCACTGATTAAG
Found at i:23001650 original size:28 final size:29
Alignment explanation
Indices: 23001619--23001677 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
23001609 AGTTAATAAA
*
23001619 TTTATAATTT-AACATCATATTAAATATT
1 TTTAAAATTTAAACATCATATTAAATATT
*
23001647 TTTAAAATTTAAATATCATATTAAATATT
1 TTTAAAATTTAAACATCATATTAAATATT
23001676 TT
1 TT
23001678 ATTATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTAAAATTTAAACATCATATTAAATATT
Found at i:23002045 original size:18 final size:19
Alignment explanation
Indices: 23001996--23002046 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
23001986 TAAGTATAAA
23001996 ATAATTATATATAAAACATAT
1 ATAATT-TA-ATAAAACATAT
*
23002017 ATAGAAATTAATAAAA-ATAT
1 AT--AATTTAATAAAACATAT
23002037 ATAATTTAAT
1 ATAATTTAAT
23002047 TTGATTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 7 0.27
20 6 0.23
21 8 0.31
22 2 0.08
23 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAATTTAATAAAACATAT
Found at i:23003936 original size:13 final size:13
Alignment explanation
Indices: 23003914--23003943 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23003904 AAATAATACC
23003914 TATATACATATCA
1 TATATACATATCA
*
23003927 TATATTCATATCA
1 TATATACATATCA
23003940 TATA
1 TATA
23003944 ATATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (13 bp):
TATATACATATCA
Found at i:23017862 original size:14 final size:14
Alignment explanation
Indices: 23017843--23017870 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23017833 TCATAAAGAA
23017843 AGCCTATATTTCTC
1 AGCCTATATTTCTC
23017857 AGCCTATATTTCTC
1 AGCCTATATTTCTC
23017871 TCAATTCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
AGCCTATATTTCTC
Found at i:23018140 original size:19 final size:19
Alignment explanation
Indices: 23018083--23018140 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
23018073 AAAAATAGAC
* *
23018083 TCTCTTTTTTCTCTTTCTC
1 TCTCATTTTTCTCTTTCTT
* * **
23018102 TCTTATCTTTCTCTGGCTT
1 TCTCATTTTTCTCTTTCTT
*
23018121 TCTCCTTTTTCTCTTTCTT
1 TCTCATTTTTCTCTTTCTT
23018140 T
1 T
23018141 TTTCTCGTCT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (19 bp):
TCTCATTTTTCTCTTTCTT
Found at i:23020269 original size:19 final size:20
Alignment explanation
Indices: 23020220--23020272 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
23020210 AAGTCTTTTA
23020220 AATTAAATTATGTAATATTAC
1 AATTAAATTAT-TAATATTAC
* *
23020241 AA-TAATTTATTTATATT-C
1 AATTAAATTATTAATATTAC
23020259 AATTAAATTATTAA
1 AATTAAATTATTAA
23020273 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 3 0.11
19 15 0.56
20 7 0.26
21 2 0.07
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTAAATTATTAATATTAC
Found at i:23020280 original size:30 final size:30
Alignment explanation
Indices: 23020246--23020395 Score: 108
Period size: 30 Copynumber: 4.6 Consensus size: 30
23020236 ATTACAATAA
23020246 TTTATTTATATTCAATTAAAT-TATTAAATT
1 TTTATTT-TATTCAATTAAATATATTAAATT
23020276 TTTATTTTCATTCAATTAAATAATCATTTTAAATT
1 TTTATTTT-ATTCAATTAAAT-AT-A--TTAAATT
* * **
23020311 TATTATTTTATTACAATTAATAGGATGTTTAAAGA
1 T-TTATTTTATT-CAATTAA-A-TAT-ATTAAATT
*
23020346 TTTATTTATATTCTATTAAAT-TATTAGAA-T
1 TTTATTT-TATTCAATTAAATATATTA-AATT
23020376 TTTATTTTCATTCAATTAAA
1 TTTATTTT-ATTCAATTAAA
23020396 GTTTTCGTTG
Statistics
Matches: 97, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
29 2 0.02
30 39 0.40
31 3 0.03
32 1 0.01
33 2 0.02
34 12 0.12
35 21 0.22
36 14 0.14
37 3 0.03
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTATTTTATTCAATTAAATATATTAAATT
Found at i:23020636 original size:27 final size:23
Alignment explanation
Indices: 23020589--23020640 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
23020579 ATTATTATTA
23020589 TTATTATAATATAATTAAAAATAT
1 TTATTATAATATAATTAAAAA-AT
*
23020613 TTATTGTAATTATAATTGAGAAAAAT
1 TTATTATAA-TATAATT-A-AAAAAT
23020639 TT
1 TT
23020641 TTAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.33
25 7 0.29
26 5 0.21
27 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (23 bp):
TTATTATAATATAATTAAAAAAT
Found at i:23027826 original size:13 final size:13
Alignment explanation
Indices: 23027794--23027837 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
23027784 TTGCTATTGC
23027794 ATTAAAAAA-AT-
1 ATTAAAAAATATG
23027805 ATT-AAAAATATG
1 ATTAAAAAATATG
*
23027817 TTTAAAAAATATG
1 ATTAAAAAATATG
23027830 ATTAAAAA
1 ATTAAAAA
23027838 TTATAAGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 5 0.18
11 5 0.18
12 2 0.07
13 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (13 bp):
ATTAAAAAATATG
Found at i:23029475 original size:32 final size:32
Alignment explanation
Indices: 23029411--23029482 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
23029401 ATTTGATGAT
* *
23029411 TTTATATATTTATATTGTATAAAATATTAAAA
1 TTTATATATTTATATTATATAAAATATAAAAA
* ***
23029443 TTTATTTATTTATATTATATTTTATATAAAAA
1 TTTATATATTTATATTATATAAAATATAAAAA
23029475 -TTATATAT
1 TTTATATAT
23029483 CAATATGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 7 0.21
32 26 0.79
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (32 bp):
TTTATATATTTATATTATATAAAATATAAAAA
Found at i:23029980 original size:28 final size:28
Alignment explanation
Indices: 23029948--23030002 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
23029938 AGTACTTAAT
*
23029948 ATGAAATGTTTATTATTGTTTTGTTGAA
1 ATGAAATGTTTATTAATGTTTTGTTGAA
23029976 ATGAAATGTTTATTAATGTTTTGTTGA
1 ATGAAATGTTTATTAATGTTTTGTTGA
23030003 TGTAAGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (28 bp):
ATGAAATGTTTATTAATGTTTTGTTGAA
Found at i:23034469 original size:22 final size:22
Alignment explanation
Indices: 23034443--23034486 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23034433 TGTATATTTA
*
23034443 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
23034465 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
23034487 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:23045176 original size:20 final size:20
Alignment explanation
Indices: 23045151--23045188 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23045141 TTATTCATTT
*
23045151 TATTTTATATCATCGTATCA
1 TATTTTAAATCATCGTATCA
*
23045171 TATTTTAAATTATCGTAT
1 TATTTTAAATCATCGTAT
23045189 TAACAGATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (20 bp):
TATTTTAAATCATCGTATCA
Found at i:23046331 original size:14 final size:14
Alignment explanation
Indices: 23046314--23046345 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
23046304 GCCATTGAAT
23046314 TCTCAATAAAACAA
1 TCTCAATAAAACAA
23046328 TCTC--TAAAACAA
1 TCTCAATAAAACAA
23046340 TCTCAA
1 TCTCAA
23046346 CCATGGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 4
0.80 0.00 0.20
Matches are distributed among these distances:
12 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TCTCAATAAAACAA
Found at i:23053581 original size:8 final size:8
Alignment explanation
Indices: 23053568--23053606 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
23053558 TTGTAGCATT
23053568 TATTTTAA
1 TATTTTAA
23053576 TATTTTAA
1 TATTTTAA
23053584 TA-TTTAA
1 TATTTTAA
23053591 CTATTTTAA
1 -TATTTTAA
23053600 TATTTTA
1 TATTTTA
23053607 TAATTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 5 0.17
8 19 0.66
9 5 0.17
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTTTAA
Found at i:23053612 original size:16 final size:16
Alignment explanation
Indices: 23053568--23053613 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
23053558 TTGTAGCATT
23053568 TATTTTA-ATATTTTAA
1 TATTTTATA-ATTTTAA
*
23053584 TATTTAACT-ATTTTAA
1 TATTTTA-TAATTTTAA
23053600 TATTTTATAATTTT
1 TATTTTATAATTTT
23053614 TATAGCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTATAATTTTAA
Found at i:23053642 original size:19 final size:19
Alignment explanation
Indices: 23053601--23053643 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23053591 CTATTTTAAT
*
23053601 ATTTTATAATTTTTATAGC
1 ATTTTATAATTTTTATAGA
*
23053620 ATTTTATTATTTTTGATA-A
1 ATTTTATAATTTTT-ATAGA
23053639 ATTTT
1 ATTTT
23053644 GTTGTGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
ATTTTATAATTTTTATAGA
Found at i:23053697 original size:21 final size:21
Alignment explanation
Indices: 23053673--23053719 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
23053663 TTGTTCTTTG
**
23053673 ATAATATTTGTAGTATTTGTT
1 ATAATATTTGTACCATTTGTT
* *
23053694 ATAACATTTGTACCATTTTTT
1 ATAATATTTGTACCATTTGTT
23053715 ATAAT
1 ATAAT
23053720 TCTTATGGTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (21 bp):
ATAATATTTGTACCATTTGTT
Found at i:23053799 original size:12 final size:11
Alignment explanation
Indices: 23053731--23053801 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
23053721 CTTATGGTGT
23053731 TTTTTTTTATA
1 TTTTTTTTATA
*
23053742 ATTTTTTT-TA
1 TTTTTTTTATA
*
23053752 TTATTTTTATAA
1 TTTTTTTTAT-A
* *
23053764 TTTTTTTAACA
1 TTTTTTTTATA
* *
23053775 TTTTTGTAATA
1 TTTTTTTTATA
23053786 TTTTTTTTACTA
1 TTTTTTTTA-TA
23053798 TTTT
1 TTTT
23053802 CGTTAATATT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
10 8 0.17
11 25 0.53
12 14 0.30
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (11 bp):
TTTTTTTTATA
Found at i:23053808 original size:24 final size:22
Alignment explanation
Indices: 23053763--23053812 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
23053753 TATTTTTATA
*
23053763 ATTTTTTTAACATTTTTGTAAT
1 ATTTTTTTAACATTTTCGTAAT
*
23053785 ATTTTTTTTACTATTTTCGTTAAT
1 ATTTTTTTAAC-ATTTTCG-TAAT
23053809 ATTT
1 ATTT
23053813 ATAGCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 8 0.33
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.66
Consensus pattern (22 bp):
ATTTTTTTAACATTTTCGTAAT
Found at i:23053821 original size:44 final size:43
Alignment explanation
Indices: 23053742--23053829 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 43
23053732 TTTTTTTATA
* * *
23053742 ATTTTTTTTATTATTTTTATAATTTTTTTAACATTTTTGTAAT
1 ATTTTTTTTACTATTTTTATAATATTTATAACATTTTTGTAAT
* *
23053785 ATTTTTTTTACTATTTTCGT-TAATATTTATAGCATTTTTTTAAT
1 ATTTTTTTTACTATTTT--TATAATATTTATAACATTTTTGTAAT
23053829 A
1 A
23053830 ACTTTTGTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
43 16 0.42
44 21 0.55
45 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (43 bp):
ATTTTTTTTACTATTTTTATAATATTTATAACATTTTTGTAAT
Found at i:23054633 original size:19 final size:19
Alignment explanation
Indices: 23054596--23054635 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23054586 ATTTATTTGA
*
23054596 TTATTAAAATATTAGATAC
1 TTATTAAAATATTAAATAC
23054615 TTATTAAAAT-TTGAAATAC
1 TTATTAAAATATT-AAATAC
23054634 TT
1 TT
23054636 TATATAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TTATTAAAATATTAAATAC
Found at i:23054733 original size:16 final size:16
Alignment explanation
Indices: 23054709--23054747 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23054699 TATATAATTT
*
23054709 TTTAA-AAATATAACA
1 TTTAATAAATATAAAA
*
23054724 TTTAATAAATTTAAAA
1 TTTAATAAATATAAAA
23054740 TTTAATAA
1 TTTAATAA
23054748 TAACATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAATAAATATAAAA
Found at i:23055030 original size:73 final size:73
Alignment explanation
Indices: 23054950--23055094 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 73
23054940 ATTTTTTTTG
* * * * *
23054950 ATAAAAAAGTTTTAAGTTTAAATTTCATCGATAATTATTTATTAAGATTATTTTGAATATATAAT
1 ATAAAAAAATTTTAAATTTAAATTTCATCGATAATTATTTATTAAAATTATCTCGAATATATAAT
23055015 TTATAATT
66 TTATAATT
*
23055023 ATAAAAAAATTTTAAATTTAAATTTTATCGATAATTATTTATTAAAATTATCTCGAATATATAAT
1 ATAAAAAAATTTTAAATTTAAATTTCATCGATAATTATTTATTAAAATTATCTCGAATATATAAT
23055088 TTATAAT
66 TTATAAT
23055095 CATTTATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (73 bp):
ATAAAAAAATTTTAAATTTAAATTTCATCGATAATTATTTATTAAAATTATCTCGAATATATAAT
TTATAATT
Found at i:23059790 original size:42 final size:39
Alignment explanation
Indices: 23059740--23059822 Score: 89
Period size: 41 Copynumber: 2.1 Consensus size: 39
23059730 AAAGTTAAAA
* *
23059740 AATATTTTT-TGTGTTTAATATATA-AAAATGAATTATAATAT
1 AATATTTTTATAT-TTT-ATATATACAAAAT-AAATA-AATAT
23059781 AATAGTTTTTATATTTTATATATACAAAATAAATAAATAT
1 AATA-TTTTTATATTTTATATATACAAAATAAATAAATAT
23059821 AA
1 AA
23059823 ATATATGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
40 7 0.19
41 15 0.41
42 13 0.35
43 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (39 bp):
AATATTTTTATATTTTATATATACAAAATAAATAAATAT
Found at i:23060289 original size:8 final size:9
Alignment explanation
Indices: 23060264--23060288 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23060254 TAAGGTTGAA
23060264 AAAAAAAAT
1 AAAAAAAAT
23060273 AAAAAAAAT
1 AAAAAAAAT
23060282 AAAAAAA
1 AAAAAAA
23060289 TGTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:23060326 original size:16 final size:16
Alignment explanation
Indices: 23060305--23060343 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23060295 AAAAATCGTA
23060305 ATATTTGATTCTATTT
1 ATATTTGATTCTATTT
* *
23060321 ATATTTTATTTTATTT
1 ATATTTGATTCTATTT
23060337 AT-TTTGA
1 ATATTTGA
23060344 ATTAAGATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (16 bp):
ATATTTGATTCTATTT
Found at i:23060523 original size:25 final size:22
Alignment explanation
Indices: 23060469--23060526 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
23060459 ATAATTGTTT
*
23060469 TATATAAAAATTTATTTAAATA
1 TATATAAAAAATTATTTAAATA
23060491 TAT-T-AAAAATTATGTTAAAATAA
1 TATATAAAAAATTAT-TT-AAAT-A
23060514 TATATAAAAAATT
1 TATATAAAAAATT
23060527 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 7 0.23
23 4 0.13
24 1 0.03
25 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TATATAAAAAATTATTTAAATA
Found at i:23061195 original size:26 final size:24
Alignment explanation
Indices: 23061157--23061214 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
23061147 TTTGTTTTTT
23061157 AAAAATATATTTAATAAATAAAAATC
1 AAAAATATATTTAAT--ATAAAAATC
* * *
23061183 AAAATTATTTTTAATATAAAAATA
1 AAAAATATATTTAATATAAAAATC
23061207 AATAAATA
1 AA-AAATA
23061215 AAATATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 10 0.37
25 4 0.15
26 13 0.48
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAAATATATTTAATATAAAAATC
Found at i:23062049 original size:17 final size:17
Alignment explanation
Indices: 23062029--23062063 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23062019 GGATTCTATG
*
23062029 AAAAGTGTGATTTTCGA
1 AAAAGTGTGATATTCGA
23062046 AAAAGTGTGATATTCGA
1 AAAAGTGTGATATTCGA
23062063 A
1 A
23062064 GTTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (17 bp):
AAAAGTGTGATATTCGA
Found at i:23062517 original size:63 final size:62
Alignment explanation
Indices: 23062437--23062629 Score: 203
Period size: 62 Copynumber: 3.1 Consensus size: 62
23062427 AATATAAAGA
* *
23062437 GATTATTTAAGGTATTTTTGGTCCAAAAATGCTTTAAATAATCTCTAATATTTTTTAAAAATG
1 GATTATTTAAGGTATTTTTGAT-CAAAAATGCCTTAAATAATCTCTAATATTTTTTAAAAATG
* * * *
23062500 GATTATTTAAGATATTTTTTGATTAAAAATGCCTTAAATAATACTCT-TTAATTTTTAAAAGAT-
1 GATTATTTAAGGTA-TTTTTGATCAAAAATGCCTTAAATAAT-CTCTAATATTTTTTAAAA-ATG
* * * * * * *
23062563 -ATAATTTAAGGTGTTTTTTTATCAAAAATACCTTAAATAATCTTTAATATTTTTTTAAAAGG
1 GATTATTTAAGGT-ATTTTTGATCAAAAATGCCTTAAATAATCTCTAATATTTTTTAAAAATG
23062625 GATTA
1 GATTA
23062630 CTAAAAACTT
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
61 4 0.04
62 44 0.42
63 44 0.42
64 13 0.12
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (62 bp):
GATTATTTAAGGTATTTTTGATCAAAAATGCCTTAAATAATCTCTAATATTTTTTAAAAATG
Found at i:23064988 original size:11 final size:11
Alignment explanation
Indices: 23064963--23065025 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
23064953 ATAATCACCT
23064963 AATCAATATCTA
1 AATCAATATC-A
23064975 AATCAATATCA
1 AATCAATATCA
* *
23064986 AATCAATTTCT
1 AATCAATATCA
* *
23064997 AAT-ATTCTCTA
1 AATCAATATC-A
23065008 AATCAATATCA
1 AATCAATATCA
23065019 AATCAAT
1 AATCAAT
23065026 CTAGAATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
10 4 0.10
11 24 0.57
12 14 0.33
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (11 bp):
AATCAATATCA
Found at i:23065034 original size:33 final size:33
Alignment explanation
Indices: 23064971--23065035 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
23064961 CTAATCAATA
* **
23064971 TCTAAATCAATATCAAATCAATTTCTAATATTC
1 TCTAAATCAATATCAAATCAATCTAGAATATTC
23065004 TCTAAATCAATATCAAATCAATCTAGAATATT
1 TCTAAATCAATATCAAATCAATCTAGAATATT
23065036 ACTAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.37
Consensus pattern (33 bp):
TCTAAATCAATATCAAATCAATCTAGAATATTC
Found at i:23069561 original size:41 final size:41
Alignment explanation
Indices: 23069516--23069594 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 41
23069506 AATCAATGTC
*
23069516 TAATCAATTTAAAATATTACTTA-AATATTACTAGAATAATA
1 TAATCAATCTAAAATATTA-TTAGAATATTACTAGAATAATA
23069557 TAATCAATCTAAAATATTATTAGAATATTACTAGAATA
1 TAATCAATCTAAAATATTATTAGAATATTACTAGAATA
23069595 TCATTGACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 3 0.08
41 33 0.92
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.38
Consensus pattern (41 bp):
TAATCAATCTAAAATATTATTAGAATATTACTAGAATAATA
Found at i:23071183 original size:13 final size:15
Alignment explanation
Indices: 23071172--23071201 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23071162 TATTATCATT
23071172 ATTATATATCATCTA
1 ATTATATATCATCTA
23071187 CATTATATATCATCT
1 -ATTATATATCATCT
23071202 TCGTCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATATATCATCTA
Found at i:23074187 original size:276 final size:276
Alignment explanation
Indices: 23073694--23074240 Score: 1085
Period size: 276 Copynumber: 2.0 Consensus size: 276
23073684 TTAAATTCTG
23073694 TTTAATTGGTGCTAAATTAGATGTCAATTTCATATGAGAAGTGCTTTTGTTTATTGCTGCAGATA
1 TTTAATTGGTGCTAAATTAGATGTCAATTTCATATGAGAAGTGCTTTTGTTTATTGCTGCAGATA
23073759 TATTATAGATTGGCTTCTGTCCTGTTATTTCAAAAAAGCCTGAAATACCTTGGTGTAATTAAGAG
66 TATTATAGATTGGCTTCTGTCCTGTTATTTCAAAAAAGCCTGAAATACCTTGGTGTAATTAAGAG
23073824 TCAAAAGTATGTTTTAGTGCTTCTTCCCCTTTTGAAAATGCTGTATTTATTATCAGAATTCACCC
131 TCAAAAGTATGTTTTAGTGCTTCTTCCCCTTTTGAAAATGCTGTATTTATTATCAGAATTCACCC
23073889 TTCTAGAGATCTTTCTTGGAGCATGACTTTGTCCCTTGAGATAGCATACATGCATATTAACCTTG
196 TTCTAGAGATCTTTCTTGGAGCATGACTTTGTCCCTTGAGATAGCATACATGCATATTAACCTTG
23073954 ATTAACTTAGTGCTAA
261 ATTAACTTAGTGCTAA
*
23073970 TTTAATTGGTGCTAAATTAGATTTCAATTTCATATGAGAAGTGCTTTTGTTTATTGCTGCAGATA
1 TTTAATTGGTGCTAAATTAGATGTCAATTTCATATGAGAAGTGCTTTTGTTTATTGCTGCAGATA
23074035 TATTATAGATTGGCTTCTGTCCTGTTATTTCAAAAAAGCCTGAAATACCTTGGTGTAATTAAGAG
66 TATTATAGATTGGCTTCTGTCCTGTTATTTCAAAAAAGCCTGAAATACCTTGGTGTAATTAAGAG
23074100 TCAAAAGTATGTTTTAGTGCTTCTTCCCCTTTTGAAAATGCTGTATTTATTATCAGAATTCACCC
131 TCAAAAGTATGTTTTAGTGCTTCTTCCCCTTTTGAAAATGCTGTATTTATTATCAGAATTCACCC
23074165 TTCTAGAGATCTTTCTTGGAGCATGACTTTGTCCCTTGAGATAGCATACATGCATATTAACCTTG
196 TTCTAGAGATCTTTCTTGGAGCATGACTTTGTCCCTTGAGATAGCATACATGCATATTAACCTTG
23074230 ATTAACTTAGT
261 ATTAACTTAGT
23074241 AAGCTCCCAT
Statistics
Matches: 270, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
276 270 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (276 bp):
TTTAATTGGTGCTAAATTAGATGTCAATTTCATATGAGAAGTGCTTTTGTTTATTGCTGCAGATA
TATTATAGATTGGCTTCTGTCCTGTTATTTCAAAAAAGCCTGAAATACCTTGGTGTAATTAAGAG
TCAAAAGTATGTTTTAGTGCTTCTTCCCCTTTTGAAAATGCTGTATTTATTATCAGAATTCACCC
TTCTAGAGATCTTTCTTGGAGCATGACTTTGTCCCTTGAGATAGCATACATGCATATTAACCTTG
ATTAACTTAGTGCTAA
Found at i:23081276 original size:29 final size:28
Alignment explanation
Indices: 23081225--23081280 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
23081215 CAATTGAACA
23081225 TTTAAATATTTTTTTATCTAATTAAATT
1 TTTAAATATTTTTTTATCTAATTAAATT
*
23081253 TTTAAATTTTATTTTTAT-TCAATTAAAT
1 TTTAAATATT-TTTTTATCT-AATTAAAT
23081281 CTTCAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTAAATATTTTTTTATCTAATTAAATT
Found at i:23086511 original size:20 final size:21
Alignment explanation
Indices: 23086476--23086517 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
23086466 GAAATTTTTT
23086476 ATTAAAAATAATTAAATTAAA
1 ATTAAAAATAATTAAATTAAA
*
23086497 ATTAAAATTAA-TAAATTAAA
1 ATTAAAAATAATTAAATTAAA
23086517 A
1 A
23086518 GATCTCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAAAAATAATTAAATTAAA
Found at i:23086824 original size:25 final size:23
Alignment explanation
Indices: 23086783--23086829 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
23086773 TCATTTTAAA
23086783 TAAAAAATTTTACAAATTTTATT
1 TAAAAAATTTTACAAATTTTATT
*
23086806 TAAAAAATTTCATATAAATTTTAT
1 TAAAAAATTT--TACAAATTTTAT
23086830 CTATCACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAAAAATTTTACAAATTTTATT
Found at i:23091848 original size:18 final size:18
Alignment explanation
Indices: 23091825--23091861 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23091815 TGGGTTGTTG
23091825 CCTCCCAACGATGTGCTA
1 CCTCCCAACGATGTGCTA
23091843 CCTCCCAACGATGTGCTA
1 CCTCCCAACGATGTGCTA
23091861 C
1 C
23091862 ATCAAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.41, G:0.16, T:0.22
Consensus pattern (18 bp):
CCTCCCAACGATGTGCTA
Found at i:23094337 original size:25 final size:25
Alignment explanation
Indices: 23094303--23094350 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23094293 TTATAATTTT
*
23094303 ATTTTAATATAAATTATAATATATA
1 ATTTTAATATAAAATATAATATATA
*
23094328 ATTTTTATATAAAATATAATATA
1 ATTTTAATATAAAATATAATATA
23094351 AACATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTTAATATAAAATATAATATATA
Found at i:23094349 original size:23 final size:23
Alignment explanation
Indices: 23094294--23094351 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
23094284 AAAAATATTT
* * *
23094294 TATAATTTTATTTTAATATAAAT
1 TATAATATAATTTTAATATAAAA
*
23094317 TATAATATATAATTTTTATATAAAA
1 TAT-A-ATATAATTTTAATATAAAA
23094342 TATAATATAA
1 TATAATATAA
23094352 ACATATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 9 0.31
24 2 0.07
25 18 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATAATATAATTTTAATATAAAA
Found at i:23094981 original size:13 final size:13
Alignment explanation
Indices: 23094940--23094981 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
23094930 AAATTATAAA
23094940 AATAACTAAAATT
1 AATAACTAAAATT
* *
23094953 TA-AACAAAAATT
1 AATAACTAAAATT
23094965 -ATAACTAAAATT
1 AATAACTAAAATT
23094977 AATAA
1 AATAA
23094982 AATAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 1 0.04
12 18 0.75
13 5 0.21
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAACTAAAATT
Found at i:23109566 original size:15 final size:16
Alignment explanation
Indices: 23109546--23109579 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
23109536 ACTATTGAGA
*
23109546 TTTGAACTTGTGAT-T
1 TTTGAACTCGTGATGT
23109561 TTTGAACTCGTGATGT
1 TTTGAACTCGTGATGT
23109577 TTT
1 TTT
23109580 AAGTTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (16 bp):
TTTGAACTCGTGATGT
Found at i:23109696 original size:31 final size:31
Alignment explanation
Indices: 23109655--23109715 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
23109645 TCATACATAC
*
23109655 ATATTGAATATCATTTGAACTCAAAATTTAT
1 ATATTAAATATCATTTGAACTCAAAATTTAT
23109686 ATATTAAATATCATTTGAACTCAAAATTTA
1 ATATTAAATATCATTTGAACTCAAAATTTA
23109716 AATTATTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATATTAAATATCATTTGAACTCAAAATTTAT
Found at i:23111596 original size:23 final size:24
Alignment explanation
Indices: 23111565--23111617 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
23111555 AACTAATTTA
*
23111565 ATTTAATTTGAATCAA-TTTTTTT
1 ATTTAATTTGAATCAAGTGTTTTT
* * *
23111588 ATTTGATTTGGATTAAGTGTTTTT
1 ATTTAATTTGAATCAAGTGTTTTT
23111612 ATTTAA
1 ATTTAA
23111618 AGGTCTAACT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.58
Consensus pattern (24 bp):
ATTTAATTTGAATCAAGTGTTTTT
Found at i:23126818 original size:16 final size:16
Alignment explanation
Indices: 23126794--23126841 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
23126784 TTTATTTTTT
*
23126794 TATTTTTTATTATTGA
1 TATTATTTATTATTGA
23126810 TATTATTTATTATT-A
1 TATTATTTATTATTGA
*
23126825 TA-AATTTATTA-TGA
1 TATTATTTATTATTGA
23126839 TAT
1 TAT
23126842 ATTACTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 1 0.04
14 11 0.39
15 3 0.11
16 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (16 bp):
TATTATTTATTATTGA
Found at i:23130640 original size:16 final size:16
Alignment explanation
Indices: 23130610--23130652 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
23130600 AAAATTACAT
*
23130610 TAATAA-TTCAAATAA
1 TAATAATTTTAAATAA
23130625 T-ATAAATTTTAAATAA
1 TAAT-AATTTTAAATAA
23130641 TAATAATTTTAA
1 TAATAATTTTAA
23130653 CCAACAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 17 0.71
17 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:23131131 original size:17 final size:15
Alignment explanation
Indices: 23131090--23131133 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
23131080 ATAAAATAAA
23131090 ATAATATTATTTAAT
1 ATAATATTATTTAAT
*
23131105 ATAATTTTATTCATAAT
1 ATAATATTATT--TAAT
*
23131122 ATTATATTATTT
1 ATAATATTATTT
23131134 TATTTTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 11 0.46
17 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
ATAATATTATTTAAT
Found at i:23135542 original size:5 final size:5
Alignment explanation
Indices: 23135529--23135560 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
23135519 TAGGCAGAGG
*
23135529 AGGAG AGGAA AGGAA AGGAA AGGAA AGGAA AG
1 AGGAA AGGAA AGGAA AGGAA AGGAA AGGAA AG
23135561 TTATAAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (5 bp):
AGGAA
Done.