Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 86 of 105
Found at i:15095034 original size:39 final size:39
Alignment explanation
Indices: 15094985--15095064 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
15094975 AATATTATTT
*
15094985 TTAAATATAAATATAAAATTAAATAAAT-ATGAAAAATA
1 TTAAATATAAATATAAAATTAAATAAATAATAAAAAATA
15095023 TTAATATATAAATATAAAATTAAATAAATAATAAAAAATA
1 TTAA-ATATAAATATAAAATTAAATAAATAATAAAAAATA
15095063 TT
1 TT
15095065 TTTATATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 4 0.10
39 24 0.62
40 11 0.28
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (39 bp):
TTAAATATAAATATAAAATTAAATAAATAATAAAAAATA
Found at i:15102587 original size:30 final size:30
Alignment explanation
Indices: 15102551--15102612 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
15102541 TCTCGACGGT
*
15102551 TAAACTAAAGAATGTAATGGAAATGAAAGA
1 TAAACTAAAGAACGTAATGGAAATGAAAGA
*
15102581 TAAACTAAAGAACGTAATGTAAATGAAAGA
1 TAAACTAAAGAACGTAATGGAAATGAAAGA
15102611 TA
1 TA
15102613 GAGAAATATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (30 bp):
TAAACTAAAGAACGTAATGGAAATGAAAGA
Found at i:15106420 original size:5 final size:5
Alignment explanation
Indices: 15106412--15106453 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
15106402 AATTAAAATT
15106412 TTTAA TTTAA TTTAA TTT-A TTTGATA TTATAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTT-A-A TT-TAA TTTAA TTTAA
15106454 ATTTGATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
4 4 0.12
5 21 0.64
6 3 0.09
7 4 0.12
8 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:15106425 original size:24 final size:24
Alignment explanation
Indices: 15106370--15106456 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
15106360 AAAATAAAAA
* *
15106370 TAATTTAAAATTATAATATTTGATT
1 TAATTT-AAATTAAAATATTTAATT
** *
15106395 TGGTTTAAATTAAAATTTTTAATT
1 TAATTTAAATTAAAATATTTAATT
* **
15106419 TAATTTAATTTATTTGATATTATAATT
1 TAATTTAAATTA--AAATATT-TAATT
15106446 TAATTTAAATT
1 TAATTTAAATT
15106457 TGATATTAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 24 0.51
25 4 0.09
26 4 0.09
27 15 0.32
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (24 bp):
TAATTTAAATTAAAATATTTAATT
Found at i:15106448 original size:27 final size:24
Alignment explanation
Indices: 15106419--15106464 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
15106409 ATTTTTAATT
15106419 TAATTTAATTT--ATTTGATATTA
1 TAATTTAATTTAAATTTGATATTA
15106441 TAATTTAATTTAAATTTGATATTA
1 TAATTTAATTTAAATTTGATATTA
15106465 AATATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TAATTTAATTTAAATTTGATATTA
Found at i:15106479 original size:24 final size:24
Alignment explanation
Indices: 15106430--15106480 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
15106420 AATTTAATTT
* *
15106430 ATTTGATATTATAATTTAATTTAA
1 ATTTGATATTATAATATAATTAAA
15106454 ATTTGATATTA-AATATATATTAAA
1 ATTTGATATTATAATATA-ATTAAA
15106478 ATT
1 ATT
15106481 GAATTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTGATATTATAATATAATTAAA
Found at i:15106482 original size:23 final size:24
Alignment explanation
Indices: 15106432--15106482 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
15106422 TTTAATTTAT
* *
15106432 TTGATATTATAATTTAATTTAAAT
1 TTGATATTATAATATAATTTAAAA
15106456 TTGATATTA-AATAT-ATATTAAAA
1 TTGATATTATAATATAAT-TTAAAA
15106479 TTGA
1 TTGA
15106483 ATTGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 13 0.54
24 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (24 bp):
TTGATATTATAATATAATTTAAAA
Found at i:15106568 original size:18 final size:19
Alignment explanation
Indices: 15106533--15106574 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
15106523 TCAAATCAAA
*
15106533 TTATATATTTTATTAATTT
1 TTATATATATTATTAATTT
15106552 TTATATATATT-TTAATTT
1 TTATATATATTATTAATTT
15106570 TTATA
1 TTATA
15106575 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATATTATTAATTT
Found at i:15106687 original size:15 final size:15
Alignment explanation
Indices: 15106669--15106698 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15106659 TTAAAAATCG
15106669 ATAAGTTAAATTAAT
1 ATAAGTTAAATTAAT
*
15106684 ATAATTTAAATTAAT
1 ATAAGTTAAATTAAT
15106699 TTAAATCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
ATAAGTTAAATTAAT
Found at i:15110548 original size:18 final size:19
Alignment explanation
Indices: 15110519--15110557 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
15110509 AGACTTTTTC
15110519 ATAAAGATATATGATTTGA
1 ATAAAGATATATGATTTGA
15110538 ATAAA-ATATATGATTTGA
1 ATAAAGATATATGATTTGA
15110556 AT
1 AT
15110558 GTAGTATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (19 bp):
ATAAAGATATATGATTTGA
Found at i:15116080 original size:2 final size:2
Alignment explanation
Indices: 15116073--15116098 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15116063 CATTACGCTA
15116073 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
15116099 GCTCTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15118720 original size:2 final size:2
Alignment explanation
Indices: 15118676--15118701 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15118666 TACATGTGTG
15118676 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
15118702 CACACACAAT
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:15119912 original size:2 final size:2
Alignment explanation
Indices: 15119905--15119932 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15119895 TCTCTATCTT
15119905 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
15119933 AACTTTAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15126078 original size:1 final size:1
Alignment explanation
Indices: 15126072--15126101 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
15126062 TAAAAGACAG
15126072 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15126102 CGAACGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15126702 original size:13 final size:13
Alignment explanation
Indices: 15126662--15126703 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
15126652 TTTTAAATCT
15126662 ATTATAGTGTAAA
1 ATTATAGTGTAAA
* **
15126675 ATTAT-TTAAAAA
1 ATTATAGTGTAAA
15126687 ATTATAGTGTAAA
1 ATTATAGTGTAAA
15126700 ATTA
1 ATTA
15126704 AAACCATAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (13 bp):
ATTATAGTGTAAA
Found at i:15127185 original size:11 final size:11
Alignment explanation
Indices: 15127171--15127209 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15127161 ATTTGATATG
15127171 AATTTTAATTA
1 AATTTTAATTA
*
15127182 AATTTTAATTT
1 AATTTTAATTA
* *
15127193 GATTTGAATTA
1 AATTTTAATTA
15127204 AATTTT
1 AATTTT
15127210 CATTCGATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (11 bp):
AATTTTAATTA
Found at i:15127197 original size:22 final size:22
Alignment explanation
Indices: 15127172--15127229 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
15127162 TTTGATATGA
* *
15127172 ATTTTAATTAAATTTTAATTTG
1 ATTTAAATTAAATTTTAATTCG
* *
15127194 ATTTGAATTAAATTTTCATTCG
1 ATTTAAATTAAATTTTAATTCG
*
15127216 ATTTAAATTGAATT
1 ATTTAAATTAAATT
15127230 AAATTTTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.53
Consensus pattern (22 bp):
ATTTAAATTAAATTTTAATTCG
Found at i:15127219 original size:27 final size:25
Alignment explanation
Indices: 15127172--15127256 Score: 86
Period size: 27 Copynumber: 3.4 Consensus size: 25
15127162 TTTGATATGA
*
15127172 ATTTTAATTAAA-TTT-T-AATTTG
1 ATTTGAATTAAATTTTATCAATTTG
* *
15127194 ATTTGAATTAAATTTTCATTCGATTTA
1 ATTTGAATTAAATTTT-A-TCAATTTG
*
15127221 AATTGAATTAAATTTTATCAATTTG
1 ATTTGAATTAAATTTTATCAATTTG
*
15127246 ATTTGATTTAA
1 ATTTGAATTAA
15127257 TTTATTAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 11 0.22
23 3 0.06
25 15 0.30
26 2 0.04
27 19 0.38
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (25 bp):
ATTTGAATTAAATTTTATCAATTTG
Found at i:15127410 original size:6 final size:6
Alignment explanation
Indices: 15127401--15127447 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
15127391 CTTTCTGATC
* *
15127401 TTAAAT TT-AAT TTAAAT TTAATAT ATATAT TTAATAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA-AT TTAAAT TTAA-AT TTAAAT TTAA
15127448 TCTAAAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.15
6 19 0.56
7 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:15127417 original size:11 final size:11
Alignment explanation
Indices: 15127401--15127453 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
15127391 CTTTCTGATC
15127401 TTAAATTTAAT
1 TTAAATTTAAT
15127412 TTAAATTTAAT
1 TTAAATTTAAT
*
15127423 ATATATATTTAATAT
1 -T-TAAATTT-A-AT
15127438 TTAAATTTAAT
1 TTAAATTTAAT
*
15127449 CTAAA
1 TTAAA
15127454 ATCAAACAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 17 0.49
12 2 0.06
13 12 0.34
14 2 0.06
15 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:15127434 original size:13 final size:13
Alignment explanation
Indices: 15127402--15127448 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
15127392 TTTCTGATCT
15127402 TAAATTTAAT-T-
1 TAAATTTAATATA
15127413 TAAATTTAATATA
1 TAAATTTAATATA
* *
15127426 TATATTTAATATT
1 TAAATTTAATATA
15127439 TAAATTTAAT
1 TAAATTTAAT
15127449 CTAAAATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 10 0.32
12 1 0.03
13 20 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:15127864 original size:16 final size:16
Alignment explanation
Indices: 15127845--15127892 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
15127835 ATTTAATTTG
*
15127845 ATTTAATTTTTTTAAA
1 ATTTATTTTTTTTAAA
*
15127861 ATTT-TTTTATTTTCAA
1 ATTTATTTT-TTTTAAA
15127877 ATTTATTTTTATTTAA
1 ATTTATTTTT-TTTAA
15127893 TATTATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 3 0.12
16 15 0.58
17 8 0.31
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTATTTTTTTTAAA
Found at i:15134470 original size:168 final size:166
Alignment explanation
Indices: 15134192--15134525 Score: 623
Period size: 168 Copynumber: 2.0 Consensus size: 166
15134182 AGAAATAGCT
*
15134192 AACATATCAAGTAAGAAAACAGTGATTTTGGACAAACAAGACCCTGAGTATATAGTCTACATATC
1 AACATATCAAGTAAGAAAACAGTGATTTTGGACAAACAAGACCCTGAGTATATAGTCTACATACC
*
15134257 CAGAGCAACCATTGTTAAACTAGTATTACATCTGCATAAGCATATCTATCCATGATTCAACATTT
66 CAGAGCAACCATTGTTAAACTAGTATTACATCTGCAAAAGCATATCTATCCATGATTCAACATTT
15134322 TAGGTTGAGTATGTATATAATATATATATATATATATA
131 TAGGTTGAGTATG--TATAATATATATATATATATATA
15134360 AACATATCAAGTAAGAAAACAGTGATTTTGGACAAACAAGACCCTGAGTATATAGTCTACATACC
1 AACATATCAAGTAAGAAAACAGTGATTTTGGACAAACAAGACCCTGAGTATATAGTCTACATACC
*
15134425 CAGAGCAGCCATTGTTAAACTAGTATTACATCTGCAAAAGCATATCTATCCATGATTCAACATTT
66 CAGAGCAACCATTGTTAAACTAGTATTACATCTGCAAAAGCATATCTATCCATGATTCAACATTT
15134490 TAGGTTGAGTATGTATAATATATATATATATATATA
131 TAGGTTGAGTATGTATAATATATATATATATATATA
15134526 GCAATTGGTG
Statistics
Matches: 163, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
166 23 0.14
168 140 0.86
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (166 bp):
AACATATCAAGTAAGAAAACAGTGATTTTGGACAAACAAGACCCTGAGTATATAGTCTACATACC
CAGAGCAACCATTGTTAAACTAGTATTACATCTGCAAAAGCATATCTATCCATGATTCAACATTT
TAGGTTGAGTATGTATAATATATATATATATATATA
Found at i:15135475 original size:4 final size:4
Alignment explanation
Indices: 15135466--15135504 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
15135456 ATATGCCCAT
15135466 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
15135505 ACTAATCCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:15142936 original size:18 final size:18
Alignment explanation
Indices: 15142884--15142937 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
15142874 AATATGTACC
* *
15142884 AATTTTATATATTTCCAT
1 AATTTTTTATATTTCAAT
* * *
15142902 TATTTAATTATAATTCAAT
1 AATTT-TTTATATTTCAAT
15142921 AATTTTTTATATTTCAA
1 AATTTTTTATATTTCAA
15142938 CCAAAAACAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTTTTATATTTCAAT
Found at i:15143703 original size:18 final size:19
Alignment explanation
Indices: 15143680--15143715 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15143670 ACCCGAATCC
15143680 GACTCC-GATCCCAAACCA
1 GACTCCAGATCCCAAACCA
*
15143698 GACTCCAGATCCGAAACC
1 GACTCCAGATCCCAAACC
15143716 CGAGTTGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.42, G:0.14, T:0.11
Consensus pattern (19 bp):
GACTCCAGATCCCAAACCA
Found at i:15147947 original size:18 final size:19
Alignment explanation
Indices: 15147893--15147955 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
15147883 AATTTTTGAC
* *
15147893 AAAATTATAAATATAA-GA
1 AAAATTATAATTATAATAA
*
15147911 AAACTTATAATTATAATAA
1 AAAATTATAATTATAATAA
* *
15147930 AATATTATATTTAT-ATAA
1 AAAATTATAATTATAATAA
15147948 AAAATTAT
1 AAAATTAT
15147956 TTGATTAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
18 25 0.68
19 12 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTATAATTATAATAA
Found at i:15149454 original size:2 final size:2
Alignment explanation
Indices: 15149449--15149482 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15149439 ATAGAAAAAC
15149449 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
15149483 AGTCACAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15150683 original size:24 final size:24
Alignment explanation
Indices: 15150637--15150683 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15150627 AAGAATATGA
*
15150637 TTTTAAGAAAATTTGAATAGAAAT
1 TTTTAAGAAAATTTAAATAGAAAT
*
15150661 TTTTAAGAAATTCTTAAAT-GAAA
1 TTTTAAGAAAAT-TTAAATAGAAA
15150684 AAATTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (24 bp):
TTTTAAGAAAATTTAAATAGAAAT
Found at i:15150822 original size:23 final size:22
Alignment explanation
Indices: 15150786--15150838 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
15150776 AAAATAAAAA
15150786 ATAAT-AATTATAATAATTAAT-
1 ATAATAAATTATAATAA-TAATG
*
15150807 ATATATAAATTTTAATAATAATG
1 ATA-ATAAATTATAATAATAATG
15150830 ATAATAAAT
1 ATAATAAAT
15150839 GAATTAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 12 0.43
23 13 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATTATAATAATAATG
Found at i:15150885 original size:16 final size:15
Alignment explanation
Indices: 15150866--15150895 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15150856 AAAACAAGTA
15150866 ATAAGGAAAATATAAC
1 ATAAGGAAAA-ATAAC
15150882 ATAAGGAAAAATAA
1 ATAAGGAAAAATAA
15150896 ATGAGATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.17
Consensus pattern (15 bp):
ATAAGGAAAAATAAC
Found at i:15153057 original size:20 final size:17
Alignment explanation
Indices: 15153021--15153081 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 17
15153011 ATTTTTAACG
15153021 AAATTATAAATATAAAA
1 AAATTATAAATATAAAA
15153038 AAATTAT-AATCATAATAA
1 AAATTATAAAT-ATAA-AA
**
15153056 AATATTATATTTATATAAA
1 AA-ATTATAAATATA-AAA
15153075 AAATTAT
1 AAATTAT
15153082 TTAATTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 3 0.08
17 11 0.30
18 9 0.24
19 12 0.32
20 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTATAAATATAAAA
Found at i:15155101 original size:2 final size:2
Alignment explanation
Indices: 15155096--15155125 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15155086 TTGTATATAT
15155096 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
15155126 CATCTTTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15166388 original size:36 final size:36
Alignment explanation
Indices: 15166338--15166464 Score: 130
Period size: 36 Copynumber: 3.4 Consensus size: 36
15166328 CTACTTTTCA
*
15166338 AAAAAAAAATTAAAATACATAATTTAAAATTTAGAAT
1 AAAAAAAAA-TAAAATACATAATTTAAAATTTAAAAT
* * * ** *
15166375 AAAATAAAATAAAATACATAATAT-GAATTTTTATT
1 AAAAAAAAATAAAATACATAATTTAAAATTTAAAAT
*
15166410 AAATAAAAATATAAAAATATATAATTTAAAATTTAAAAT
1 AAA-AAAAA-AT-AAAATACATAATTTAAAATTTAAAAT
*
15166449 AAAATAAAATAAAATA
1 AAAAAAAAATAAAATA
15166465 AAATAAATTT
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
35 10 0.14
36 24 0.33
37 12 0.17
38 16 0.22
39 10 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (36 bp):
AAAAAAAAATAAAATACATAATTTAAAATTTAAAAT
Found at i:15166453 original size:5 final size:5
Alignment explanation
Indices: 15166443--15166471 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15166433 ATTTAAAATT
15166443 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
15166472 TTTCTGACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:15168725 original size:36 final size:38
Alignment explanation
Indices: 15168684--15168835 Score: 139
Period size: 36 Copynumber: 3.9 Consensus size: 38
15168674 ATTTTTTATT
*
15168684 AATAATATATTTTTTATAAATATTATATTA-A-TAAAA
1 AATAATATATTATTTATAAATATTATATTATATTAAAA
* *
15168720 AATAATATATTATTTATTAATATTATATTATATTAATA
1 AATAATATATTATTTATAAATATTATATTATATTAAAA
* * * * *
15168758 AATAATATATTATATTAGTATGATATAAATAATATATTCATA
1 AATAATATATTAT-TTA-TA-AATAT-TATATTATATTAAAA
* *
15168800 AATATTAT-TTATTAATAATATATTATATTAATATTA
1 AATAATATATTATTTATAA-ATATTATATT-ATATTA
15168836 TTTATTTATA
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
36 28 0.30
37 1 0.01
38 21 0.22
39 14 0.15
40 3 0.03
41 8 0.09
42 19 0.20
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (38 bp):
AATAATATATTATTTATAAATATTATATTATATTAAAA
Found at i:15168743 original size:10 final size:10
Alignment explanation
Indices: 15168725--15168846 Score: 62
Period size: 10 Copynumber: 12.5 Consensus size: 10
15168715 TAAAAAATAA
15168725 TATATTAT-T
1 TATATTATAT
*
15168734 TAT-TAATAT
1 TATATTATAT
15168743 TATATTATAT
1 TATATTATAT
* *
15168753 TA-ATAAATAA
1 TATAT-TATAT
15168763 TATATTATAT
1 TATATTATAT
*
15168773 TAGTATGATAT
1 TA-TATTATAT
* *
15168784 AAATAATATAT
1 -TATATTATAT
*
15168795 TCATA-AATAT
1 T-ATATTATAT
15168805 TAT-TTAT-T
1 TATATTATAT
* *
15168813 AATAATATAT
1 TATATTATAT
15168823 TATATTAATAT
1 TATATT-ATAT
15168834 TAT-TTAT-T
1 TATATTATAT
15168842 TATAT
1 TATAT
15168847 AATAAATATA
Statistics
Matches: 84, Mismatches: 17, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
8 10 0.12
9 19 0.23
10 29 0.35
11 25 0.30
12 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (10 bp):
TATATTATAT
Found at i:15168744 original size:13 final size:13
Alignment explanation
Indices: 15168726--15168846 Score: 72
Period size: 13 Copynumber: 9.3 Consensus size: 13
15168716 AAAAAATAAT
15168726 ATATTATTTATTA
1 ATATTATTTATTA
15168739 ATATTA--TATT-
1 ATATTATTTATTA
* * *
15168749 ATATTAATAAATA
1 ATATTATTTATTA
15168762 ATA-TATTATATTA
1 ATATTATT-TATTA
* * * *
15168775 GTATGATATAAATA
1 ATATTAT-TTATTA
* *
15168789 ATA-TATTCATAA
1 ATATTATTTATTA
15168801 ATATTATTTATTA
1 ATATTATTTATTA
15168814 ATAATATATTATATTA
1 AT-AT-TATT-TATTA
*
15168830 ATATTATTTATTT
1 ATATTATTTATTA
15168843 ATAT
1 ATAT
15168847 AATAAATATA
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
10 6 0.07
11 4 0.05
12 11 0.14
13 33 0.41
14 13 0.16
15 7 0.09
16 7 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (13 bp):
ATATTATTTATTA
Found at i:15168783 original size:18 final size:19
Alignment explanation
Indices: 15168683--15168832 Score: 100
Period size: 18 Copynumber: 8.1 Consensus size: 19
15168673 CATTTTTTAT
*
15168683 TAATAATATATT-T-TTTA
1 TAATAATATATTATATTAA
* *
15168700 TAAATATTATATTA-ATAAA
1 T-AATAATATATTATATTAA
* *
15168719 AAATAATATATTAT-TTAT
1 TAATAATATATTATATTAA
*
15168737 TAATATTATATTATATTAA
1 TAATAATATATTATATTAA
*
15168756 TAAATAATATATTATATTAG
1 T-AATAATATATTATATTAA
* * *
15168776 T-ATGATATA-AATAATATAT
1 TAATAATATATTAT-AT-TAA
* *
15168795 TCATAA-ATATTAT-TTAT
1 TAATAATATATTATATTAA
15168812 TAATAATATATTATATTAA
1 TAATAATATATTATATTAA
15168831 TA
1 TA
15168833 TTATTTATTT
Statistics
Matches: 102, Mismatches: 19, Indels: 22
0.71 0.13 0.15
Matches are distributed among these distances:
17 11 0.11
18 52 0.51
19 17 0.17
20 22 0.22
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TAATAATATATTATATTAA
Found at i:15168855 original size:9 final size:9
Alignment explanation
Indices: 15168843--15168869 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
15168833 TTATTTATTT
15168843 ATATAATAA
1 ATATAATAA
15168852 ATATAATAA
1 ATATAATAA
15168861 ATATAATAA
1 ATATAATAA
15168870 TAGTTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATATAATAA
Found at i:15181522 original size:29 final size:30
Alignment explanation
Indices: 15181457--15181529 Score: 96
Period size: 29 Copynumber: 2.4 Consensus size: 30
15181447 AAATTATACT
*
15181457 ATTAATCATTTAATTATAATCATATTTTTAA
1 ATTAATCATTAAATTATAA-CATATTTTTAA
15181488 ATTAATCATTAAATTAGTAA-A-ATTTTTAA
1 ATTAATCATTAAATTA-TAACATATTTTTAA
*
15181517 TTTAATCATTAAA
1 ATTAATCATTAAA
15181530 ATTTGATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 20 0.51
30 1 0.03
31 15 0.38
32 3 0.08
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTAATCATTAAATTATAACATATTTTTAA
Found at i:15182279 original size:26 final size:26
Alignment explanation
Indices: 15182219--15182280 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
15182209 TAAAAAGAAT
* *
15182219 AAAAAAAATTATTATAATTATGATTG
1 AAAAAAAATTACTATAATTATAATTG
* *
15182245 AAAATAAATTACTGTAATTATAATT-
1 AAAAAAAATTACTATAATTATAATTG
15182270 ATAAAAAAATT
1 A-AAAAAAATT
15182281 TTAATTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (26 bp):
AAAAAAAATTACTATAATTATAATTG
Found at i:15187377 original size:27 final size:27
Alignment explanation
Indices: 15187339--15187390 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
15187329 AAGCGGATCT
15187339 TTTATGATGAAGAGGATGAGCTTCACA
1 TTTATGATGAAGAGGATGAGCTTCACA
15187366 TTTATGATGAAGAGGATGAGCTTCA
1 TTTATGATGAAGAGGATGAGCTTCA
15187391 AGAGAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (27 bp):
TTTATGATGAAGAGGATGAGCTTCACA
Found at i:15187399 original size:27 final size:27
Alignment explanation
Indices: 15187342--15187400 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
15187332 CGGATCTTTT
***
15187342 ATGATGAAGAGGATGAGCTTCACATTT
1 ATGATGAAGAGGATGAGCTTCACAAGA
15187369 ATGATGAAGAGGATGAGCTTCA-AGAGA
1 ATGATGAAGAGGATGAGCTTCACA-AGA
15187396 ATGAT
1 ATGAT
15187401 TCGGAGTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.25
Consensus pattern (27 bp):
ATGATGAAGAGGATGAGCTTCACAAGA
Found at i:15196752 original size:22 final size:23
Alignment explanation
Indices: 15196726--15196769 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
15196716 TTACTTAATA
*
15196726 ATTATC-TTTCAATTAATTTTTT
1 ATTATCATTTCAAGTAATTTTTT
*
15196748 ATTATCATTTGAAGTAATTTTT
1 ATTATCATTTCAAGTAATTTTT
15196770 AAATTTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (23 bp):
ATTATCATTTCAAGTAATTTTTT
Found at i:15196897 original size:24 final size:24
Alignment explanation
Indices: 15196870--15196933 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
15196860 ATAAATTTTT
15196870 ATAAATTTATTAAATTCAATCT-AA
1 ATAAATTTATTAAA-TCAATCTAAA
*
15196894 ATAAATTTATTTGAATCAATCTAAAA
1 ATAAATTTA-TTAAATCAATCT-AAA
*
15196920 AAAAATTTATTAAA
1 ATAAATTTATTAAA
15196934 CAAAATGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 16 0.47
25 8 0.24
26 10 0.29
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAAATTTATTAAATCAATCTAAA
Found at i:15222612 original size:2 final size:2
Alignment explanation
Indices: 15222605--15222643 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15222595 AAGTCTCAAA
15222605 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15222644 CATCTCATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15240763 original size:30 final size:31
Alignment explanation
Indices: 15240702--15240763 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
15240692 AAATATTATT
* *
15240702 TATTAATATATAATAATTAATCTAATAGAAA
1 TATTAATATATAATAATTAATCAAAAAGAAA
*
15240733 TATTTATATATAA-AATTAAT-AAAAAGGAAA
1 TATTAATATATAATAATTAATCAAAAA-GAAA
15240763 T
1 T
15240764 TAAAATCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.11
30 12 0.44
31 12 0.44
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (31 bp):
TATTAATATATAATAATTAATCAAAAAGAAA
Found at i:15240932 original size:18 final size:16
Alignment explanation
Indices: 15240890--15240925 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
15240880 TTTAATTTTT
15240890 TTATTAATTTTATATA
1 TTATTAATTTTATATA
15240906 TTATTAATTTTATA-A
1 TTATTAATTTTATATA
15240921 TTATT
1 TTATT
15240926 TTTAATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTAATTTTATATA
Found at i:15242170 original size:24 final size:22
Alignment explanation
Indices: 15242141--15242190 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
15242131 TTTAATACTT
15242141 ATTAAATTAATAATTTATAAAATA
1 ATTAAA-TAATAATTTATAAAA-A
* *
15242165 ATTAAATATTATTTTATAAAAA
1 ATTAAATAATAATTTATAAAAA
15242187 ATTA
1 ATTA
15242191 TAAAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 13 0.54
24 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAAATAATAATTTATAAAAA
Found at i:15251778 original size:27 final size:27
Alignment explanation
Indices: 15251725--15251786 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
15251715 ATTATATGTA
* * **
15251725 ATAAAATT-TTAAATTATTTAATTTTT
1 ATAAAATTAATAAATTATTAAAAATTT
15251751 ATAAAATTAATAAATTATTAAAAATTT
1 ATAAAATTAATAAATTATTAAAAATTT
*
15251778 ATTAAATTA
1 ATAAAATTA
15251787 TTTTTATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATAAAATTAATAAATTATTAAAAATTT
Found at i:15251783 original size:19 final size:19
Alignment explanation
Indices: 15251735--15251788 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
15251725 ATAAAATTTT
* *
15251735 AAATTATTTAATTTTTATA
1 AAATTATTAAATTATTATA
*
15251754 AAATTAATAAATTATTA-A
1 AAATTATTAAATTATTATA
15251772 AAATTTATTAAATTATT
1 AAA-TTATTAAATTATT
15251789 TTTATATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTATTAAATTATTATA
Found at i:15251824 original size:42 final size:41
Alignment explanation
Indices: 15251745--15251825 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 41
15251735 AAATTATTTA
*
15251745 ATTTTTATAAAATTAATAAATTATTAAAAATTTATTAAATT
1 ATTTTTATAAAATTAATAAATTATTAAAAATTAATTAAATT
15251786 ATTTTTATATCAAA-TAAT-AATATATTAATAAA-TAATTAAA
1 ATTTTTATA--AAATTAATAAAT-TATTAA-AAATTAATTAAA
15251826 AAATAATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
41 12 0.34
42 17 0.49
43 6 0.17
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (41 bp):
ATTTTTATAAAATTAATAAATTATTAAAAATTAATTAAATT
Found at i:15251877 original size:25 final size:25
Alignment explanation
Indices: 15251835--15251882 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
15251825 AAAATAATAA
15251835 TATATTAATTAAAGAATT-TTTTAT
1 TATATTAATTAAAGAATTATTTTAT
15251859 TATATTAAATTAACA-AATTATTTT
1 TATATT-AATTAA-AGAATTATTTT
15251883 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.29
25 10 0.48
26 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TATATTAATTAAAGAATTATTTTAT
Found at i:15251909 original size:10 final size:10
Alignment explanation
Indices: 15251878--15251917 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
15251868 TTAACAAATT
*
15251878 ATTTTTTAAA
1 ATTTTTAAAA
*
15251888 ATTTTAATAAA
1 ATTTTTA-AAA
15251899 ATTTTTAAAA
1 ATTTTTAAAA
15251909 ATTTTTAAA
1 ATTTTTAAA
15251918 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:15251925 original size:14 final size:14
Alignment explanation
Indices: 15251906--15251938 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15251896 AAAATTTTTA
15251906 AAAATTTTTAAATT
1 AAAATTTTTAAATT
15251920 AAAA-TTTTAAATT
1 AAAATTTTTAAATT
*
15251933 TAAATT
1 AAAATT
15251939 AAAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATTTTTAAATT
Found at i:15251929 original size:13 final size:13
Alignment explanation
Indices: 15251883--15251938 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 13
15251873 AAATTATTTT
15251883 TTAAAATTTT-AA
1 TTAAAATTTTAAA
*
15251895 -TAAAATTTTTAA
1 TTAAAATTTTAAA
*
15251907 --AAATTTTTAAA
1 TTAAAATTTTAAA
15251918 TTAAAATTTTAAA
1 TTAAAATTTTAAA
*
15251931 TTTAAATT
1 TTAAAATT
15251939 AAAATATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 18 0.49
12 2 0.05
13 17 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAAATTTTAAA
Found at i:15251934 original size:19 final size:19
Alignment explanation
Indices: 15251912--15251948 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15251902 TTTAAAAATT
*
15251912 TTTAAATTAAAATTTTAAA
1 TTTAAATTAAAATATTAAA
15251931 TTTAAATTAAAATATTAA
1 TTTAAATTAAAATATTAA
15251949 GATATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAATTAAAATATTAAA
Found at i:15265062 original size:16 final size:16
Alignment explanation
Indices: 15265041--15265071 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15265031 CCATTTAGTT
15265041 AAGCCCCAGAAAAAGC
1 AAGCCCCAGAAAAAGC
*
15265057 AAGCCCTAGAAAAAG
1 AAGCCCCAGAAAAAG
15265072 TAAAGGCAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.26, G:0.19, T:0.03
Consensus pattern (16 bp):
AAGCCCCAGAAAAAGC
Found at i:15268870 original size:34 final size:34
Alignment explanation
Indices: 15268822--15268893 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
15268812 AATTTTGACC
*
15268822 TTTG-ATATACAAATCTAAAAAATTTTAAAAGTT
1 TTTGAATATACAAATCTAAAAAATTTTAAAAGCT
* * * *
15268855 TTTGAATATATAAATCTTAAAACTTTTAAGAGCT
1 TTTGAATATACAAATCTAAAAAATTTTAAAAGCT
15268889 TTTGA
1 TTTGA
15268894 GTTTTTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (34 bp):
TTTGAATATACAAATCTAAAAAATTTTAAAAGCT
Found at i:15268970 original size:34 final size:34
Alignment explanation
Indices: 15268931--15269003 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
15268921 ACAAAATTGG
*
15268931 AAACTTTTAAAAATTTTCAAATTTGCAAATCCAA
1 AAACTTTTAAAAATTTTCAAATTTACAAATCCAA
* ** *
15268965 AAACTTTTAAAGATTTTTGAATTTACAAATTCAA
1 AAACTTTTAAAAATTTTCAAATTTACAAATCCAA
15268999 AAACT
1 AAACT
15269004 AAAAAATAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (34 bp):
AAACTTTTAAAAATTTTCAAATTTACAAATCCAA
Found at i:15274911 original size:2 final size:2
Alignment explanation
Indices: 15274904--15274931 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15274894 AAATGTTTTA
15274904 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
15274932 TTTTAATGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15276337 original size:20 final size:20
Alignment explanation
Indices: 15276312--15276361 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
15276302 TTATCATATG
15276312 ATAATTATTTGTATTCAAAC
1 ATAATTATTTGTATTCAAAC
*
15276332 ATAATTATTTGTGTTCAAAC
1 ATAATTATTTGTATTCAAAC
15276352 ATAATTATTT
1 ATAATTATTT
15276362 AAAATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (20 bp):
ATAATTATTTGTATTCAAAC
Found at i:15280153 original size:29 final size:30
Alignment explanation
Indices: 15280111--15280175 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
15280101 TATAGATCAA
* *
15280111 TATTAAATTTTGTTATTATAC-TTTACTTT
1 TATTTAATTTTGTTATTATACTTTTAATTT
15280140 TATTTAATTTTGTTATTATACTTTTAATTT
1 TATTTAATTTTGTTATTATACTTTTAATTT
15280170 TATTTA
1 TATTTA
15280176 TAGATATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (30 bp):
TATTTAATTTTGTTATTATACTTTTAATTT
Found at i:15280963 original size:11 final size:11
Alignment explanation
Indices: 15280947--15281019 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
15280937 GAATAAAACC
*
15280947 AAAAAATAATT
1 AAAAAATAAAT
*
15280958 AAAAAATAGATT
1 AAAAAATA-AAT
15280970 AAAAAATAAAAT
1 AAAAAAT-AAAT
* *
15280982 AAAATAGAAAT
1 AAAAAATAAAT
15280993 AAAAAATAAA-
1 AAAAAATAAAT
15281003 AATAAAATGAAA-
1 AA-AAAAT-AAAT
15281015 AAAAA
1 AAAAA
15281020 GAAAACCTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
10 2 0.04
11 28 0.53
12 22 0.42
13 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:15280973 original size:23 final size:23
Alignment explanation
Indices: 15280947--15281019 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
15280937 GAATAAAACC
*
15280947 AAAAAATAATTAA-AAAATAG-ATT
1 AAAAAATAA--AATAAAATAGAAAT
15280970 AAAAAATAAAATAAAATAGAAAT
1 AAAAAATAAAATAAAATAGAAAT
15280993 AAAAAATAAAAATAAAAT-GAAA-
1 AAAAAAT-AAAATAAAATAGAAAT
15281015 AAAAA
1 AAAAA
15281020 GAAAACCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
21 2 0.04
22 12 0.26
23 22 0.48
24 10 0.22
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (23 bp):
AAAAAATAAAATAAAATAGAAAT
Found at i:15280998 original size:18 final size:19
Alignment explanation
Indices: 15280977--15281017 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
15280967 ATTAAAAAAT
15280977 AAAAT-AAAATAGAAAT-AA
1 AAAATAAAAATA-AAATGAA
15280995 AAAATAAAAATAAAATGAA
1 AAAATAAAAATAAAATGAA
15281014 AAAA
1 AAAA
15281018 AAGAAAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAATAAAAATAAAATGAA
Found at i:15281000 original size:13 final size:13
Alignment explanation
Indices: 15280957--15281009 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
15280947 AAAAAATAAT
*
15280957 TAAAAAATAG-AT
1 TAAAAAATAGAAA
15280969 TAAAAAATA-AAA
1 TAAAAAATAGAAA
15280981 T--AAAATAGAAA
1 TAAAAAATAGAAA
*
15280992 TAAAAAATAAAAA
1 TAAAAAATAGAAA
15281005 TAAAA
1 TAAAA
15281010 TGAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 6 0.17
11 4 0.11
12 11 0.31
13 14 0.40
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (13 bp):
TAAAAAATAGAAA
Found at i:15281413 original size:11 final size:11
Alignment explanation
Indices: 15281399--15281438 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
15281389 AAAAACCTAG
15281399 AAAAATTCCAA
1 AAAAATTCCAA
15281410 AAAAATTCC-A
1 AAAAATTCCAA
*
15281420 AAAAA-TCCAT
1 AAAAATTCCAA
15281430 AAAAATTCC
1 AAAAATTCC
15281439 TAAACCGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 3 0.12
10 11 0.42
11 12 0.46
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAATTCCAA
Found at i:15281442 original size:10 final size:11
Alignment explanation
Indices: 15281399--15281442 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
15281389 AAAAACCTAG
*
15281399 AAAAATTCCAA
1 AAAAATTCCAT
15281410 AAAAATTCCA-
1 AAAAATTCCAT
15281420 AAAAA-TCCAT
1 AAAAATTCCAT
15281430 AAAAATTCC-T
1 AAAAATTCCAT
15281440 AAA
1 AAA
15281443 CCGTTGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.13
10 14 0.45
11 13 0.42
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAATTCCAT
Found at i:15281848 original size:24 final size:22
Alignment explanation
Indices: 15281815--15281871 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
15281805 GATTTAAGCA
*
15281815 AAAAAGGAAAGGAAGAACAAAGAAG
1 AAAAA-GAAAAGAAGAA-AAA-AAG
*
15281840 AAAAAGAAAAGAAGAAAAAATG
1 AAAAAGAAAAGAAGAAAAAAAG
15281862 AAAATAGAAA
1 AAAA-AGAAA
15281872 TATAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.21
23 8 0.28
24 10 0.34
25 5 0.17
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAAGAAGAAAAAAAG
Found at i:15281881 original size:3 final size:3
Alignment explanation
Indices: 15281873--15282113 Score: 100
Period size: 3 Copynumber: 80.7 Consensus size: 3
15281863 AAATAGAAAT
* * * *
15281873 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGA A-A AGAA ACA CAGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA -ATA
* * * * * * * **
15281919 AAA AGA AAA ATA A-A AAA AGTG ATA ATA ATA ATA ACA ATA ACA GCA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
15281964 ACA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATT ATT ATT ATT ATT ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
15282012 ATT ATA A-A AGA A-A CATA GA-A A-A AGA AAA AAA AGA A-A AGTG ATA
1 ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * *
15282055 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATG ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15282103 ATA ATA ATA AT
1 ATA ATA ATA AT
15282114 TTATAAAAAC
Statistics
Matches: 198, Mismatches: 29, Indels: 22
0.80 0.12 0.09
Matches are distributed among these distances:
2 12 0.06
3 178 0.90
4 8 0.04
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:15282202 original size:26 final size:26
Alignment explanation
Indices: 15282170--15282286 Score: 101
Period size: 26 Copynumber: 4.5 Consensus size: 26
15282160 GACCTAGAAA
15282170 CAATGGGCCTAATCGAGCTCGGACAT
1 CAATGGGCCTAATCGAGCTCGGACAT
* * *
15282196 CAATGGGCCTAAT-TAGGTCTAGACAT
1 CAATGGGCCTAATCGAGCTC-GGACAT
* * * **
15282222 CGATGGGCCTAATTGAGCTTGGATGT
1 CAATGGGCCTAATCGAGCTCGGACAT
** * * *
15282248 CAACAGGCTTAATCGGGCTTGGACAT
1 CAATGGGCCTAATCGAGCTCGGACAT
15282274 CAATGGGCCTAAT
1 CAATGGGCCTAAT
15282287 AGGACTCGAA
Statistics
Matches: 68, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
25 4 0.06
26 61 0.90
27 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (26 bp):
CAATGGGCCTAATCGAGCTCGGACAT
Found at i:15282619 original size:54 final size:54
Alignment explanation
Indices: 15282489--15282627 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
15282479 GAGTCAAAAA
*
15282489 ATGATTTGA-CTGGAGCCAAGATCAAATAACTGGGACGATGCCGCGAGTCTGAAG
1 ATGATTTGACCT-GAGCCAAGATCAAATGACTGGGACGATGCCGCGAGTCTGAAG
* * * * * * *
15282543 ACGATCTAACCAGAGCCAAGATCAAATGA-TTGGACTGATGTCGCGAGTTTGAAG
1 ATGATTTGACCTGAGCCAAGATCAAATGACTGGGAC-GATGCCGCGAGTCTGAAG
* *
15282597 ATGATTTGACCTGAGTCGAGATCAAATGACT
1 ATGATTTGACCTGAGCCAAGATCAAATGACT
15282628 AGTACAATGT
Statistics
Matches: 68, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
53 5 0.07
54 61 0.90
55 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (54 bp):
ATGATTTGACCTGAGCCAAGATCAAATGACTGGGACGATGCCGCGAGTCTGAAG
Found at i:15282871 original size:114 final size:114
Alignment explanation
Indices: 15282565--15282970 Score: 456
Period size: 114 Copynumber: 3.5 Consensus size: 114
15282555 GAGCCAAGAT
* * * *
15282565 CAAATGATTGGACTGATGTCGCGAGTTTGAAGATGATTTGACCTGAGTCGAGATCAAATGACTAG
1 CAAATGACTGGACTGATGTCGCGAGTCTGAAAATGATTTGACCTAAGTCGAGATCAAATGACTAG
* * * * *
15282630 TACAATGTCGCAAGTTGAAAGGTGACCAAGATCGAGTTGAGGTCGTAAA
66 GACGATGTCGCAAGTCGAAAAGTGACCAAGATCGAGTCGAGGTCGTAAA
* * *
15282679 CAAATGAGTGGACTGATGTCGCGAGTCTGAAAATGATTTGACCTGAA-TCGAGATCAAATAACTG
1 CAAATGACTGGACTGATGTCGCGAGTCTGAAAATGATTTGACCT-AAGTCGAGATCAAATGACTA
*
15282743 GGACGATATCGCAAGTCGAAAAGTGACCAAGATCGAGTCGAGGTCGTAAA
65 GGACGATGTCGCAAGTCGAAAAGTGACCAAGATCGAGTCGAGGTCGTAAA
* * *
15282793 TAAATGACTGGACTGATGTCGTGAGTCTGAAGATGATTTGACCTAAGTCGAGATCAAATGACTAG
1 CAAATGACTGGACTGATGTCGCGAGTCTGAAAATGATTTGACCTAAGTCGAGATCAAATGACTAG
* * * * * * ***
15282858 GATGATG-CTGCAAGTCAAAATAAAATGACTAGGATCGAGTCAAGGTTAAAAA
66 GACGATGTC-GCAAGTC--GA-AAAGTGACCAAGATCGAGTCGAGGTCGTAAA
* * *** * * *
15282910 CAAAAGACCGGACTGATGTTATGGGTCTGAAAATGATCTGACCTGAGTCGAGATCAAATGA
1 CAAATGACTGGACTGATGTCGCGAGTCTGAAAATGATTTGACCTAAGTCGAGATCAAATGA
15282971 TTGGGATAAT
Statistics
Matches: 249, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
113 3 0.01
114 168 0.67
115 1 0.00
116 1 0.00
117 76 0.31
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (114 bp):
CAAATGACTGGACTGATGTCGCGAGTCTGAAAATGATTTGACCTAAGTCGAGATCAAATGACTAG
GACGATGTCGCAAGTCGAAAAGTGACCAAGATCGAGTCGAGGTCGTAAA
Found at i:15282985 original size:231 final size:228
Alignment explanation
Indices: 15282566--15282985 Score: 518
Period size: 231 Copynumber: 1.8 Consensus size: 228
15282556 AGCCAAGATC
* * * *
15282566 AAATGATTGGACTGATGTCGCGAGTTTGAAGATGATTTGACCTGAGTCGAGATCAAATGACTAGT
1 AAATGACTGGACTGATGTCGCGAGTCTGAAGATGATTTGACCTAAGTCGAGATCAAATGACTAGG
** ** ** ** * **
15282631 ACAATGTCGCAAGTTGAAAGGTGACCAAGATCGAGTTGAGGTCGTAAACAAATGAGTGGACTGAT
66 ACAATGTCGCAAGTAAAAAAATGACCAAGATCGAGTCAAGGTCAAAAACAAAAGACCGGACTGAT
* * *
15282696 GTCGCGAGTCTGAAAATGATTTGACCTGAATCGAGATCAAATAACTGGGACGATATCGCAAGTCG
131 GTCACGAGTCTGAAAATGATCTGACCTGAATCGAGATCAAATAACTGGGACAATATCGCAAGTCG
15282761 AAAAGTGACCAAGATCGAGTCGAGGTCGTAAAT
196 AAAAGTGACCAAGATCGAGTCGAGGTCGTAAAT
*
15282794 AAATGACTGGACTGATGTCGTGAGTCTGAAGATGATTTGACCTAAGTCGAGATCAAATGACTAGG
1 AAATGACTGGACTGATGTCGCGAGTCTGAAGATGATTTGACCTAAGTCGAGATCAAATGACTAGG
** * * *
15282859 ATGATG-CTGCAAGTCAAAATAAAATGACTAGGATCGAGTCAAGGTTAAAAACAAAAGACCGGAC
66 ACAATGTC-GCAAGT--AAA-AAAATGACCAAGATCGAGTCAAGGTCAAAAACAAAAGACCGGAC
* * * * * * *
15282923 TGATGTTATGGGTCTGAAAATGATCTGACCTGAGTCGAGATCAAATGATTGGGATAATATCGC
127 TGATGTCACGAGTCTGAAAATGATCTGACCTGAATCGAGATCAAATAACTGGGACAATATCGC
15282986 CAGCCAAAAT
Statistics
Matches: 157, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
227 1 0.01
228 70 0.45
230 1 0.01
231 85 0.54
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (228 bp):
AAATGACTGGACTGATGTCGCGAGTCTGAAGATGATTTGACCTAAGTCGAGATCAAATGACTAGG
ACAATGTCGCAAGTAAAAAAATGACCAAGATCGAGTCAAGGTCAAAAACAAAAGACCGGACTGAT
GTCACGAGTCTGAAAATGATCTGACCTGAATCGAGATCAAATAACTGGGACAATATCGCAAGTCG
AAAAGTGACCAAGATCGAGTCGAGGTCGTAAAT
Found at i:15283026 original size:117 final size:117
Alignment explanation
Indices: 15282802--15283036 Score: 256
Period size: 117 Copynumber: 2.0 Consensus size: 117
15282792 ATAAATGACT
* * * *
15282802 GGACTGATGTCGTGAGTCTGAAGATGATTTGACCTAAGTCGAGATCAAATGACTAGGATGATGCT
1 GGACTGATGTCATGAGTCTGAAAATGATCTGACCTAAGTCGAGATCAAATGACTAGGATAATGCT
* * * * * * * *
15282867 GCAAGTCAAAATAAAATGACTAGGATCGAGTCAAGGTTAAAAACAAAAGACC
66 GCAAGCCAAAATAAAACGACCAAGACCAAGTCAAGATAAAAAACAAAAGACC
* * * * * *
15282919 GGACTGATGTTATGGGTCTGAAAATGATCTGACCTGAGTCGAGATCAAATGATTGGGATAAT-AT
1 GGACTGATGTCATGAGTCTGAAAATGATCTGACCTAAGTCGAGATCAAATGACTAGGATAATGCT
* * * *
15282983 CGCCAGCCAAAATAAAACGACCAAGACCAAGTCGAGATAAAAAATAAATGACC
66 -GCAAGCCAAAATAAAACGACCAAGACCAAGTCAAGATAAAAAACAAAAGACC
15283036 G
1 G
15283037 TATGAAACAA
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
116 1 0.01
117 94 0.99
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (117 bp):
GGACTGATGTCATGAGTCTGAAAATGATCTGACCTAAGTCGAGATCAAATGACTAGGATAATGCT
GCAAGCCAAAATAAAACGACCAAGACCAAGTCAAGATAAAAAACAAAAGACC
Found at i:15283310 original size:41 final size:41
Alignment explanation
Indices: 15283259--15283370 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
15283249 AACTTGGATA
* * *
15283259 CACATATTTGGTAAAGAAGCTATTTTTCATTAACC-TGAAGG
1 CACATCTTTGGCAAAGAAACTATTTTTCATTAACCTTG-AGG
** * * *
15283300 TGCATCTTTGGCAAAGAAACCATCTTTCATTAGCCTTGAGG
1 CACATCTTTGGCAAAGAAACTATTTTTCATTAACCTTGAGG
*
15283341 CACATTTTTGGCAAAGAAACTATTTTTCAT
1 CACATCTTTGGCAAAGAAACTATTTTTCAT
15283371 CCACTTGGAA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 55 0.96
42 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (41 bp):
CACATCTTTGGCAAAGAAACTATTTTTCATTAACCTTGAGG
Found at i:15283445 original size:6 final size:6
Alignment explanation
Indices: 15283430--15283478 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
15283420 ATGAAAGTCA
*
15283430 TTTTTG -TTTTG TTTTTG TTTTTG TTTTTG TTTTCG -TTTTG TTTTT-
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
15283475 TTTT
1 TTTT
15283479 AGGAGGCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 13 0.33
6 26 0.67
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:15283451 original size:12 final size:12
Alignment explanation
Indices: 15283430--15283478 Score: 68
Period size: 11 Copynumber: 4.3 Consensus size: 12
15283420 ATGAAAGTCA
15283430 TTTTTG-TTTTG
1 TTTTTGTTTTTG
15283441 TTTTTGTTTTTG
1 TTTTTGTTTTTG
*
15283453 TTTTTGTTTTCG
1 TTTTTGTTTTTG
15283465 -TTTTGTTTTT-
1 TTTTTGTTTTTG
15283475 TTTT
1 TTTT
15283479 AGGAGGCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 18 0.53
12 16 0.47
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (12 bp):
TTTTTGTTTTTG
Found at i:15283452 original size:17 final size:17
Alignment explanation
Indices: 15283430--15283478 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
15283420 ATGAAAGTCA
15283430 TTTTTGTTTTGTTTTTG
1 TTTTTGTTTTGTTTTTG
*
15283447 TTTTTGTTTTTGTTTTCG
1 TTTTTG-TTTTGTTTTTG
15283465 -TTTTGTTTT-TTTTT
1 TTTTTGTTTTGTTTTT
15283479 AGGAGGCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 4 0.14
16 4 0.14
17 11 0.38
18 10 0.34
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (17 bp):
TTTTTGTTTTGTTTTTG
Found at i:15286909 original size:29 final size:30
Alignment explanation
Indices: 15286867--15286931 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
15286857 TATAGATCAA
* *
15286867 TATTAAATTTTGTTATTATAC-TTTACTTT
1 TATTTAATTTTGTTATTATACTTTTAATTT
15286896 TATTTAATTTTGTTATTATACTTTTAATTT
1 TATTTAATTTTGTTATTATACTTTTAATTT
15286926 TATTTA
1 TATTTA
15286932 TAGATATCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (30 bp):
TATTTAATTTTGTTATTATACTTTTAATTT
Found at i:15287548 original size:26 final size:26
Alignment explanation
Indices: 15287519--15287574 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
15287509 ATAAAAATTA
*
15287519 TTATGGTTAT-TTGAAAATATATTTCT
1 TTAT-GTTATATTGAAAAGATATTTCT
* * *
15287545 TTATTTTTTATTGAAAAGATATTTTT
1 TTATGTTATATTGAAAAGATATTTCT
15287571 TTAT
1 TTAT
15287575 CTATCTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (26 bp):
TTATGTTATATTGAAAAGATATTTCT
Found at i:15287739 original size:12 final size:12
Alignment explanation
Indices: 15287699--15287774 Score: 61
Period size: 11 Copynumber: 6.6 Consensus size: 12
15287689 CTTTTTTTTT
*
15287699 TAAAGAATAAAA
1 TAAAAAATAAAA
*
15287711 CTAGAAAAT--AA
1 -TAAAAAATAAAA
15287722 TAAAAAAT-AAA
1 TAAAAAATAAAA
*
15287733 TTAAAAATAAAA
1 TAAAAAATAAAA
*
15287745 T-AAAATTAAAA
1 TAAAAAATAAAA
* *
15287756 TTAAAATTAAAA
1 TAAAAAATAAAA
15287768 TAAAAAA
1 TAAAAAA
15287775 AAGAAAACCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
10 7 0.13
11 21 0.40
12 19 0.36
13 6 0.11
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:15287746 original size:23 final size:24
Alignment explanation
Indices: 15287699--15287774 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 24
15287689 CTTTTTTTTT
* *
15287699 TAAAGAATAAAACTAGAAAAT--AA
1 TAAAAAATAAAATTA-AAAATAAAA
15287722 TAAAAAAT-AAATTAAAAATAAAA
1 TAAAAAATAAAATTAAAAATAAAA
* *
15287745 T-AAAATTAAAATTAAAATTAAAA
1 TAAAAAATAAAATTAAAAATAAAA
15287768 TAAAAAA
1 TAAAAAA
15287775 AAGAAAACCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.11
22 10 0.23
23 25 0.57
24 4 0.09
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (24 bp):
TAAAAAATAAAATTAAAAATAAAA
Found at i:15287754 original size:6 final size:6
Alignment explanation
Indices: 15287730--15287772 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
15287720 AATAAAAAAT
*
15287730 AAATTA AAAATA AAA-TA AAATTA AAATTA AAATTA AAA-TA AAA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAA
15287773 AAAAGAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:15288032 original size:21 final size:21
Alignment explanation
Indices: 15288006--15288047 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15287996 GAATCCCATA
* *
15288006 AAAAAAAACTAGAAAAATTCC
1 AAAAAAAACCACAAAAATTCC
*
15288027 AAAAAAATCCACAAAAATTCC
1 AAAAAAAACCACAAAAATTCC
15288048 TAAACCGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.19, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAAAAAACCACAAAAATTCC
Found at i:15288452 original size:24 final size:23
Alignment explanation
Indices: 15288424--15288481 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
15288414 GATTTAAGCA
*
15288424 AAAAAGGAAATGAAGAACAAAAAAG
1 AAAAA-GAAAAGAAGAA-AAAAAAG
*
15288449 AAAAAGAAAAGAAGAAAAAAATG
1 AAAAAGAAAAGAAGAAAAAAAAG
15288472 AAAATAGAAA
1 AAAA-AGAAA
15288482 TATAATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 10 0.33
24 15 0.50
25 5 0.17
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (23 bp):
AAAAAGAAAAGAAGAAAAAAAAG
Found at i:15288491 original size:3 final size:3
Alignment explanation
Indices: 15288483--15288721 Score: 229
Period size: 3 Copynumber: 79.7 Consensus size: 3
15288473 AAATAGAAAT
15288483 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
15288531 ATA ATA ATA ATA ATA ATA AGA A-A AGAA ACA CAGA AAA AGA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA -ATA ATA ATA ATA ATA
* *
15288577 A-A AAA AGTG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
15288622 ATA ATA A-A AGAA ACA CAGA AAA AGA A-A A-A AAA AGA A-A AGTG ATA
1 ATA ATA ATA A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
15288666 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15288714 ATA ATA AT
1 ATA ATA AT
15288722 TTATAAAAAC
Statistics
Matches: 208, Mismatches: 17, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
2 12 0.06
3 186 0.89
4 10 0.05
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:15288810 original size:26 final size:26
Alignment explanation
Indices: 15288778--15288894 Score: 110
Period size: 26 Copynumber: 4.5 Consensus size: 26
15288768 GACCTAGAAA
15288778 CAATGGGCCTAATCGAGCTCGGACAT
1 CAATGGGCCTAATCGAGCTCGGACAT
* * *
15288804 CAATGGGCCTAAT-TAGGTCTAGACAT
1 CAATGGGCCTAATCGAGCTC-GGACAT
* * * **
15288830 CGATGGGCCTAATTGAGCTTGGATGT
1 CAATGGGCCTAATCGAGCTCGGACAT
* * * *
15288856 CAATAGGCTTAATCGGGCTTGGACAT
1 CAATGGGCCTAATCGAGCTCGGACAT
15288882 CAATGGGCCTAAT
1 CAATGGGCCTAAT
15288895 AGGACTCGAA
Statistics
Matches: 70, Mismatches: 19, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
25 4 0.06
26 63 0.90
27 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (26 bp):
CAATGGGCCTAATCGAGCTCGGACAT
Found at i:15288859 original size:52 final size:52
Alignment explanation
Indices: 15288778--15288894 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 52
15288768 GACCTAGAAA
* *
15288778 CAATGGGCCTAATCGAGCTCGGACATCAATGGGCCTAATTAGGTC-TAGACAT
1 CAATGGGCCTAATCGAGCTCGGACATCAATAGGCCTAA-TAGGGCTTAGACAT
* * * ** * * *
15288830 CGATGGGCCTAATTGAGCTTGGATGTCAATAGGCTTAATCGGGCTTGGACAT
1 CAATGGGCCTAATCGAGCTCGGACATCAATAGGCCTAATAGGGCTTAGACAT
15288882 CAATGGGCCTAAT
1 CAATGGGCCTAAT
15288895 AGGACTCGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 4 0.08
52 49 0.92
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (52 bp):
CAATGGGCCTAATCGAGCTCGGACATCAATAGGCCTAATAGGGCTTAGACAT
Found at i:15289118 original size:41 final size:41
Alignment explanation
Indices: 15289067--15289178 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
15289057 AACTTGGATA
* * *
15289067 CACATATTTGGTAAAGAAGCTATTTTTCATTAACCTGAAGG
1 CACATCTTTGGCAAAGAAACTATTTTTCATTAACCTGAAGG
** * * * *
15289108 TGCATCTTTGGCAAAGAAACCATCTTTCATTAGCCTGGAGG
1 CACATCTTTGGCAAAGAAACTATTTTTCATTAACCTGAAGG
* *
15289149 CACATTTTTGGCAAAAAAACTATTTTTCAT
1 CACATCTTTGGCAAAGAAACTATTTTTCAT
15289179 CCACTTGGAA
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (41 bp):
CACATCTTTGGCAAAGAAACTATTTTTCATTAACCTGAAGG
Found at i:15289253 original size:6 final size:6
Alignment explanation
Indices: 15289238--15289276 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
15289228 ATGAAAGTCA
15289238 TTTTTG -TTTTG TTTTTG TTTTTG TTTTTG -TTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
15289277 TTTAGGAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:15289254 original size:11 final size:11
Alignment explanation
Indices: 15289238--15289276 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
15289228 ATGAAAGTCA
15289238 TTTTTGTTTTG
1 TTTTTGTTTTG
15289249 TTTTTGTTTTTG
1 TTTTTG-TTTTG
15289261 TTTTTGTTTTG
1 TTTTTGTTTTG
15289272 TTTTT
1 TTTTT
15289277 TTTAGGAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:15289260 original size:17 final size:17
Alignment explanation
Indices: 15289238--15289276 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
15289228 ATGAAAGTCA
15289238 TTTTTG-TTTTGTTTTTG
1 TTTTTGTTTTTG-TTTTG
15289255 TTTTTGTTTTTGTTTTG
1 TTTTTGTTTTTGTTTTG
15289272 TTTTT
1 TTTTT
15289277 TTTAGGAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTTGTTTTTGTTTTG
Found at i:15292248 original size:29 final size:30
Alignment explanation
Indices: 15292216--15292272 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15292206 AATATTAAAA
*
15292216 TTTGCTATTATAC-TTTACTTTTATTTAAT
1 TTTGCTATTATACTTTTAATTTTATTTAAT
*
15292245 TTTGTTATTATACTTTTAATTTTATTTA
1 TTTGCTATTATACTTTTAATTTTATTTA
15292273 TAGATATCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.65
Consensus pattern (30 bp):
TTTGCTATTATACTTTTAATTTTATTTAAT
Found at i:15293065 original size:11 final size:11
Alignment explanation
Indices: 15293049--15293080 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
15293039 AGAATAAACC
15293049 AAAAAATAATT
1 AAAAAATAATT
15293060 AAAAAATAGATT
1 AAAAAATA-ATT
15293072 AAAAAATAA
1 AAAAAATAA
15293081 AATAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (11 bp):
AAAAAATAATT
Found at i:15293086 original size:12 final size:12
Alignment explanation
Indices: 15293049--15293112 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
15293039 AGAATAAACC
*
15293049 AAAAAAT-AATT
1 AAAAAATAAAAT
* *
15293060 AAAAAATAGATT
1 AAAAAATAAAAT
15293072 AAAAAATAAAAT
1 AAAAAATAAAAT
15293084 --AAAATAGAAAT
1 AAAAAATA-AAAT
15293095 AAAAAAATTAAAAT
1 -AAAAAA-TAAAAT
15293109 AAAA
1 AAAA
15293113 TGAAAAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 6 0.14
11 11 0.25
12 13 0.30
13 4 0.09
14 8 0.18
15 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:15293094 original size:6 final size:5
Alignment explanation
Indices: 15293074--15293118 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
15293064 AATAGATTAA
*
15293074 AAAAT AAAAT AAAAT AGAAAT AAAA- AAATT AAAAT AAAAT GAAAA
1 AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT -AAAA
15293119 AAAGAAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 3 0.09
5 23 0.66
6 9 0.26
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:15293100 original size:25 final size:23
Alignment explanation
Indices: 15293072--15293126 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
15293062 AAAATAGATT
15293072 AAAAAATAAAATAAAATAGAAATAA
1 AAAAAATAAAATAAAAT-GAAA-AA
*
15293097 AAAAATTAAAATAAAATGAAAAA
1 AAAAAATAAAATAAAATGAAAAA
15293120 AAGAAAA
1 AA-AAAA
15293127 CCTGCAATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 4 0.15
24 7 0.26
25 16 0.59
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (23 bp):
AAAAAATAAAATAAAATGAAAAA
Found at i:15293108 original size:20 final size:19
Alignment explanation
Indices: 15293079--15293126 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
15293069 ATTAAAAAAT
15293079 AAAATAAAATAGAAAT-AAA
1 AAAATAAAATA-AAATGAAA
15293098 AAAATTAAAATAAAATGAAA
1 AAAA-TAAAATAAAATGAAA
*
15293118 AAAAGAAAA
1 AAAATAAAA
15293127 CCTGCAATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (19 bp):
AAAATAAAATAAAATGAAA
Found at i:15293948 original size:16 final size:18
Alignment explanation
Indices: 15293918--15293954 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
15293908 ATTTGAGCAG
15293918 AAAAAGAAAGAAAGAACA
1 AAAAAGAAAGAAAGAACA
15293936 AAAAAG-AAG-AAGAACA
1 AAAAAGAAAGAAAGAACA
15293952 AAA
1 AAA
15293955 GAAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 3 0.16
18 6 0.32
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAAGAACA
Found at i:15293948 original size:24 final size:23
Alignment explanation
Indices: 15293916--15293962 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
15293906 AAATTTGAGC
15293916 AGAAAAAGAA-AGAAAGAACAAAAA
1 AGAAAAAGAACA-AAAGAA-AAAAA
*
15293940 AGAAGAAGAACAAAAGAAAAAAA
1 AGAAAAAGAACAAAAGAAAAAAA
15293963 TAAAAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 15 0.71
25 1 0.05
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (23 bp):
AGAAAAAGAACAAAAGAAAAAAA
Found at i:15293975 original size:6 final size:6
Alignment explanation
Indices: 15293958--15294035 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
15293948 AACAAAAGAA
* * * * *
15293958 AAAAAT AAAAAT AGAAATAT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AAAAAT AAAAAT A-AAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * *
15294008 AATAAT AATAAT AAGAA- AAACAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
15294036 AGGAAAGTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
5 3 0.05
6 53 0.83
7 5 0.08
8 3 0.05
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:15293984 original size:3 final size:3
Alignment explanation
Indices: 15293976--15294159 Score: 136
Period size: 3 Copynumber: 63.7 Consensus size: 3
15293966 AAATAGAAAT
*
15293976 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
15294024 A-A A-A CATA A-A A-A AGGA A-A GTG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
15294066 ATA ATA ATA ATA ATA ATA A-A AGA A-A CACA A-A AAA AGA AAA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * * *
15294109 AGA A-A GTG ATA ATA GTA ATA ATA ATA AT- ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15294155 ATA AT
1 ATA AT
15294160 TTATAAAAAC
Statistics
Matches: 154, Mismatches: 16, Indels: 22
0.80 0.08 0.11
Matches are distributed among these distances:
2 16 0.10
3 134 0.87
4 4 0.03
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (3 bp):
ATA
Found at i:15294276 original size:26 final size:26
Alignment explanation
Indices: 15294238--15294307 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
15294228 ATTGGGTCCA
*
15294238 GACATCGACGGGCCTAATCGAGCTTG
1 GACATCAACGGGCCTAATCGAGCTTG
* * *
15294264 GACGTCAATGGGCCTAATCGGGCTTG
1 GACATCAACGGGCCTAATCGAGCTTG
15294290 GACATCAACGGGCCTAAT
1 GACATCAACGGGCCTAAT
15294308 AGGACCCGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.30, T:0.20
Consensus pattern (26 bp):
GACATCAACGGGCCTAATCGAGCTTG
Found at i:15294538 original size:54 final size:54
Alignment explanation
Indices: 15294480--15294658 Score: 162
Period size: 54 Copynumber: 3.3 Consensus size: 54
15294470 GTAGAGGTTG
* **
15294480 AATGATTGGGACAATGCCGTGAGTCAAAAAATGATCTGATTGGAGCCAAGATCA
1 AATGACTGGGACAATGCCGTGAGTCAAAAAATGATCTGACCGGAGCCAAGATCA
* *** *
15294534 AATGACTGGGACAATGTCGTGAGTTTGAAGATGATCTGACCGGAGCCAAGATCA
1 AATGACTGGGACAATGCCGTGAGTCAAAAAATGATCTGACCGGAGCCAAGATCA
* ** ** * * * * *
15294588 AATGACT-GGACTGATGTTGTGAGTCTGAAGATGATCTAACCTGAGTCGAGATCA
1 AATGACTGGGAC-AATGCCGTGAGTCAAAAAATGATCTGACCGGAGCCAAGATCA
* *
15294642 AATAACTGGGATAATGC
1 AATGACTGGGACAATGC
15294659 TGCAAGTTAA
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.04
54 97 0.93
55 3 0.03
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (54 bp):
AATGACTGGGACAATGCCGTGAGTCAAAAAATGATCTGACCGGAGCCAAGATCA
Found at i:15294980 original size:117 final size:114
Alignment explanation
Indices: 15294587--15294997 Score: 439
Period size: 114 Copynumber: 3.6 Consensus size: 114
15294577 AGCCAAGATC
* * ** * * *
15294587 AAATGACTGGACTGATGTTGTGAGTCTGAAGATGATCTAACCTGAGTCGAGATCAAATAACTGGG
1 AAATGACTGAATTGATGTCATGAGTCTGAAGATGATCTGACCTGAGTCAAGATCAAATGACTGGG
* * * *
15294652 ATAATGCTGCAAGTTAAAAGGTGATCAAGATCGAGTTGAGGTCATAAAT
66 ATAATGCTGCAAGTAAAAAAGTGACCAAGATCGAGTCGAGGTCATAAAT
* * * ** * *
15294701 AAATGAGTGGATTGACGTCGCGAGTCTGAAGATGATTTGACCTGAGTCGAGATCAAATGACTGGG
1 AAATGACTGAATTGATGTCATGAGTCTGAAGATGATCTGACCTGAGTCAAGATCAAATGACTGGG
* ** * *
15294766 ATGATGCTGCAAGTCGAAAAGTGACCAAGAGCGAGTCGAGGTCGTAAAT
66 ATAATGCTGCAAGTAAAAAAGTGACCAAGATCGAGTCGAGGTCATAAAT
* * * * *
15294815 AAATAACTGGAA-TAATGTCATGAGTCTGAAGATGATTTGACCTAAGTCAAGATCAAATGACTAG
1 AAATGACT-GAATTGATGTCATGAGTCTGAAGATGATCTGACCTGAGTCAAGATCAAATGACTGG
* * * * *
15294879 GATAATGCTGCAAGATAAAATAAAATGACCAGGATCGAGTCAAGGTAAAAAAT
65 GATAATGCTGCAAG-T-AAA-AAAGTGACCAAGATCGAGTCGAGGTCATAAAT
** *
15294932 AAATGA-TCGAATTGATGTCATGAGTCTGAAGATGATCTGATTTGAGTCAAGATCAAATGATTGG
1 AAATGACT-GAATTGATGTCATGAGTCTGAAGATGATCTGACCTGAGTCAAGATCAAATGACTGG
15294996 GA
65 GA
15294998 CAATACCATT
Statistics
Matches: 247, Mismatches: 45, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
114 162 0.66
115 3 0.01
116 5 0.02
117 77 0.31
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (114 bp):
AAATGACTGAATTGATGTCATGAGTCTGAAGATGATCTGACCTGAGTCAAGATCAAATGACTGGG
ATAATGCTGCAAGTAAAAAAGTGACCAAGATCGAGTCGAGGTCATAAAT
Found at i:15295016 original size:117 final size:116
Alignment explanation
Indices: 15294722--15295057 Score: 288
Period size: 117 Copynumber: 2.9 Consensus size: 116
15294712 TTGACGTCGC
* * * * ** * * *
15294722 GAGTCTGAAGATGATTTGACCTGAGTCGAGATCAAATGACTGGGATGATGCTGCAAGTC--GA-A
1 GAGTCTGAAGATGATCTGACCTAAGTCAAGATCAAATGACTAGGACAATAC-GCAAGACAAAATA
* * * * *** * *
15294784 AAGTGACCAAGAGCGAGTCGAGGTCGTAAATAAATAACTGGAA-TAATGTCAT
65 AAGAGACCAGGATCGAGTCAAGGTAAAAAATAAATAA-TCGAATTGATGTCAT
* * * *
15294836 GAGTCTGAAGATGATTTGACCTAAGTCAAGATCAAATGACTAGGATAATGCTGCAAGATAAAATA
1 GAGTCTGAAGATGATCTGACCTAAGTCAAGATCAAATGACTAGGACAATAC-GCAAGACAAAATA
*
15294901 AA-ATGACCAGGATCGAGTCAAGGTAAAAAATAAATGATCGAATTGATGTCAT
65 AAGA-GACCAGGATCGAGTCAAGGTAAAAAATAAATAATCGAATTGATGTCAT
** * * * *
15294953 GAGTCTGAAGATGATCTGATTTGAGTCAAGATCAAATGATTGGGACAATAC-CATTAGCCAAAAT
1 GAGTCTGAAGATGATCTGACCTAAGTCAAGATCAAATGACTAGGACAATACGCA--AGACAAAAT
* * *
15295017 AAAGAGACCAGTATCGAGTCGAGGTCAAAAATAAATAATCG
64 AAAGAGACCAGGATCGAGTCAAGGTAAAAAATAAATAATCG
15295058 TATGAAACCA
Statistics
Matches: 183, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
114 53 0.29
115 2 0.01
116 5 0.03
117 122 0.67
118 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (116 bp):
GAGTCTGAAGATGATCTGACCTAAGTCAAGATCAAATGACTAGGACAATACGCAAGACAAAATAA
AGAGACCAGGATCGAGTCAAGGTAAAAAATAAATAATCGAATTGATGTCAT
Found at i:15295349 original size:41 final size:41
Alignment explanation
Indices: 15295280--15295427 Score: 161
Period size: 41 Copynumber: 3.6 Consensus size: 41
15295270 AACCTAGATA
* * * *
15295280 CACATATTTGGCAAAGAAGCTATTTTTCATCAACTTGGAGG
1 CACATCTTTGGCAAAGAAACCATCTTTCATCAACTTGGAGG
* * * * *
15295321 CGCATCTTTGGCAAATAAACCATCTTTCATTAGCTTGAAGG
1 CACATCTTTGGCAAAGAAACCATCTTTCATCAACTTGGAGG
* * * * *
15295362 CACATCTTTGGCAAAGAAACTATTTTTCATCCACCTGGAAG
1 CACATCTTTGGCAAAGAAACCATCTTTCATCAACTTGGAGG
*
15295403 CACATCCTTGGCAAAGAAACCATCT
1 CACATCTTTGGCAAAGAAACCATCT
15295428 CTCAAGGAGA
Statistics
Matches: 85, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 85 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (41 bp):
CACATCTTTGGCAAAGAAACCATCTTTCATCAACTTGGAGG
Found at i:15295512 original size:6 final size:6
Alignment explanation
Indices: 15295451--15295506 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
15295441 ATGGAAATCA
* * *
15295451 TTTT-T TTTTGT TTTTGT TTTTAT TTTTAT TTTTGT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
15295498 TTTTAT TTT
1 TTTTAT TTT
15295507 GTTTTTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
5 4 0.09
6 43 0.91
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:15295513 original size:12 final size:11
Alignment explanation
Indices: 15295451--15295515 Score: 67
Period size: 12 Copynumber: 5.6 Consensus size: 11
15295441 ATGGAAATCA
*
15295451 TTTTTTTTTGT
1 TTTTTTTTTAT
15295462 TTTTGTTTTTAT
1 TTTT-TTTTTAT
*
15295474 TTTTATTTTTGT
1 TTTT-TTTTTAT
15295486 TTTTATTTTTAT
1 TTTT-TTTTTAT
* *
15295498 TTTTATTTTGT
1 TTTTTTTTTAT
15295509 TTTTTTT
1 TTTTTTT
15295516 AGTAGGCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
11 15 0.33
12 31 0.67
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:15295513 original size:18 final size:18
Alignment explanation
Indices: 15295451--15295506 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
15295441 ATGGAAATCA
*
15295451 TTTT-TTTTTGTTTTTGT
1 TTTTATTTTTATTTTTGT
15295468 TTTTATTTTTATTTTTGT
1 TTTTATTTTTATTTTTGT
*
15295486 TTTTATTTTTATTTTTAT
1 TTTTATTTTTATTTTTGT
15295504 TTT
1 TTT
15295507 GTTTTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 4 0.11
18 32 0.89
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (18 bp):
TTTTATTTTTATTTTTGT
Found at i:15299434 original size:24 final size:23
Alignment explanation
Indices: 15299406--15299460 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
15299396 TTTTGGCAGA
15299406 GTTTTTTGGCTTTT-TTTTACAG
1 GTTTTTTGGCTTTTCTTTTACAG
* *
15299428 GATTTTTGGGCTTTTCTTTTGCAG
1 G-TTTTTTGGCTTTTCTTTTACAG
15299452 GTGTTTTTG
1 GT-TTTTTG
15299461 TAGCTCTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 13 0.48
24 13 0.48
ACGTcount: A:0.07, C:0.09, G:0.24, T:0.60
Consensus pattern (23 bp):
GTTTTTTGGCTTTTCTTTTACAG
Found at i:15299979 original size:50 final size:48
Alignment explanation
Indices: 15299862--15300286 Score: 403
Period size: 47 Copynumber: 8.7 Consensus size: 48
15299852 ATTTAAAACG
* * * * *
15299862 GCTCATCTAAGCTGAAGCTCAACAACTTTAAAAA-TCATTTTGAAAGA
1 GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAATTTATCTTGAAAAA
* * *
15299909 GCTCCTCTAAGTA-AAGGCTCAATAACTTTAAAAATGTATCTTGAGAAAAA
1 GCTCCTCTAAGCAGAA-GCTCAACAACTTTAAAAATTTATCTT--GAAAAA
** * * **
15299959 GCTTTTCTAAGTAGATGCTCAATGACTTTAAAAATCTTATCTTGAAAAA
1 GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAAT-TTATCTTGAAAAA
* * *
15300008 GCTCATCTCAGCAGAAGCTCAACAACTTTAAAAAAATTCATCTTGAAAAA
1 GCTCCTCTAAGCAGAAGCTCAACAACTTT--AAAAATTTATCTTGAAAAA
*
15300058 GCTCCTCTAAGCAGATGCTCAACAACTTT-AAAATTTATCTTGAAAAA
1 GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAATTTATCTTGAAAAA
* * *
15300105 GC-CTCTCTAAGCAGAAGCTCAACAACTTTAAAAATCTCATTTTAAAAAA
1 GCTC-CTCTAAGCAGAAGCTCAACAACTTTAAAAAT-TTATCTTGAAAAA
* * * * *
15300154 GCTCCTTTAAGCAGAGGCTTAACAA-TTT-TAAATTTCATCTTGAAAAG
1 GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAATTT-ATCTTGAAAAA
* * *
15300201 GCTCCTTTCAGCAGAGGCTCAACAACTTTAAAGAAATTCTCATCTTGAAAAA
1 GCTCCTCTAAGCAGAAGCTCAACAACTTT-AA-AAATT-T-ATCTTGAAAAA
* * *
15300253 GCTCTTTTAAGCAAAAGCTCAACAACTTTAAAAA
1 GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAA
15300287 ATTCACCTGT
Statistics
Matches: 315, Mismatches: 45, Indels: 33
0.80 0.11 0.08
Matches are distributed among these distances:
46 4 0.01
47 105 0.33
48 15 0.05
49 58 0.18
50 76 0.24
51 20 0.06
52 37 0.12
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (48 bp):
GCTCCTCTAAGCAGAAGCTCAACAACTTTAAAAATTTATCTTGAAAAA
Found at i:15300103 original size:146 final size:145
Alignment explanation
Indices: 15299862--15300286 Score: 489
Period size: 146 Copynumber: 2.9 Consensus size: 145
15299852 ATTTAAAACG
* * * * *
15299862 GCTCATCTAAGCTGAAGCTCAACAACTTTAAAAA-TCATTTTGAAAGAGCTCCTCTAAGTAAAGG
1 GCTCATCTAAGCAGAAGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAGAGG
* * * * **
15299926 CTCAATAACTTTAAAAATGTATCTTGAGAAAAAGCTTTTCTAAGTAGATGCTCAATGACTTTAAA
66 CTCAACAACTTTAAAAATTTATCTT--GAAAAAGCTTTTCTAAGCAGAAGCTCAACAACTTTAAA
* *
15299991 AATCTTATCTTGAAAAA
129 AATCTCATCTTAAAAAA
*
15300008 GCTCATCTCAGCAGAAGCTCAACAACTTTAAAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAGA
1 GCTCATCTAAGCAGAAGCTCAACAACTTT--AAAAATTCATCTTGAAAAAGCTCCTCTAAGCAGA
* * *
15300073 TGCTCAACAACTTT-AAAATTTATCTTGAAAAAGCCTCTCTAAGCAGAAGCTCAACAACTTTAAA
64 GGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCTTTTCTAAGCAGAAGCTCAACAACTTTAAA
*
15300137 AATCTCATTTTAAAAAA
129 AATCTCATCTTAAAAAA
* * * * * * * * *
15300154 GCTCCTTTAAGCAGAGGCTTAACAA-TTTTAAATTTCATCTTGAAAAGGCTCCTTTCAGCAGAGG
1 GCTCATCTAAGCAGAAGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAGAGG
*
15300218 CTCAACAACTTTAAAGAAATTCTCATCTTGAAAAAGCTCTTT-TAAGCAAAAGCTCAACAACTTT
66 CTCAACAACTTT-AA-AAATT-T-ATCTTGAAAAAGCT-TTTCTAAGCAGAAGCTCAACAACTTT
15300282 AAAAA
126 AAAAA
15300287 ATTCACCTGT
Statistics
Matches: 238, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
143 42 0.18
145 4 0.02
146 98 0.41
147 1 0.00
148 55 0.23
149 38 0.16
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (145 bp):
GCTCATCTAAGCAGAAGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAGAGG
CTCAACAACTTTAAAAATTTATCTTGAAAAAGCTTTTCTAAGCAGAAGCTCAACAACTTTAAAAA
TCTCATCTTAAAAAA
Found at i:15300194 original size:96 final size:95
Alignment explanation
Indices: 15299990--15300284 Score: 369
Period size: 96 Copynumber: 3.0 Consensus size: 95
15299980 ATGACTTTAA
15299990 AAATCTTATCTTGAAAAAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAAAAAT-TCATCTTGA
1 AAAT-TTATCTTGAAAAAGCTC-TCTCAGCAGAAGCTCAACAACTTT-AAAAAATCTCATCTTGA
* * *
15300054 AAAAGCTCCTCTAAGCAGATGCTCAACAACTTTA
63 AAAAGCTCCTTTAAGCAGAAGCTCAACAA-TTTT
* * *
15300088 AAATTTATCTTGAAAAAGCCTCTCTAAGCAGAAGCTCAACAACTTT-AAAAATCTCATTTTAAAA
1 AAATTTATCTTGAAAAAG-CTCTCTCAGCAGAAGCTCAACAACTTTAAAAAATCTCATCTTGAAA
* *
15300152 AAGCTCCTTTAAGCAGAGGCTTAACAATTTT
65 AAGCTCCTTTAAGCAGAAGCTCAACAATTTT
* * *
15300183 AAATTTCATCTTGAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAGAAATTCTCATCTTG
1 AAATTT-ATCTTGAAAAAGCT-CTCTCAGCAGAAGCTCAACAACTTTAAA-AAA-TCTCATCTTG
* * *
15300248 AAAAAGCTCTTTTAAGCAAAAGCTCAACAACTTT
62 AAAAAGCTCCTTTAAGCAGAAGCTCAACAATTTT
15300282 AAA
1 AAA
15300285 AAATTCACCT
Statistics
Matches: 172, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
95 17 0.10
96 66 0.38
97 39 0.23
98 10 0.06
99 40 0.23
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (95 bp):
AAATTTATCTTGAAAAAGCTCTCTCAGCAGAAGCTCAACAACTTTAAAAAATCTCATCTTGAAAA
AGCTCCTTTAAGCAGAAGCTCAACAATTTT
Found at i:15300283 original size:99 final size:95
Alignment explanation
Indices: 15299869--15300284 Score: 401
Period size: 99 Copynumber: 4.3 Consensus size: 95
15299859 ACGGCTCATC
* * * * * * *
15299869 TAAGCTGAAGCTCAACAACTTTAAAAATCATTTTGAAAGAGCTCCTCTAAGTA-AAGGCTCAATA
1 TAAGCAGAAGCTCAACAACTTT-AAATTTATCTTGAAAAAGCTCCTCTAAGCAGAA-GCTCAACA
* *
15299933 ACTTTAAAAATGT-ATCTTGAGAAAAAGCT-TTT
64 ACTTTAAAAATCTCATCTT--GAAAAAGCTCCTT
* * ** * *
15299965 CTAAGTAGATGCTCAATGACTTTAAAAATCTTATCTTGAAAAAGCTCATCTCAGCAGAAGCTCAA
1 -TAAGCAGAAGCTCAACAACTTT--AAAT-TTATCTTGAAAAAGCTCCTCTAAGCAGAAGCTCAA
*
15300030 CAACTTTAAAAAAAT-TCATCTTGAAAAAGCTCCTC
62 CAACTTT--AAAAATCTCATCTTGAAAAAGCTCCTT
*
15300065 TAAGCAGATGCTCAACAACTTTAAAATTTATCTTGAAAAAGC-CTCTCTAAGCAGAAGCTCAACA
1 TAAGCAGAAGCTCAACAACTTT-AAATTTATCTTGAAAAAGCTC-CTCTAAGCAGAAGCTCAACA
* *
15300129 ACTTTAAAAATCTCATTTTAAAAAAGCTCCTT
64 ACTTTAAAAATCTCATCTTGAAAAAGCTCCTT
* * * * * * *
15300161 TAAGCAGAGGCTTAACAATTTTAAATTTCATCTTGAAAAGGCTCCTTTCAGCAGAGGCTCAACAA
1 TAAGCAGAAGCTCAACAACTTTAAATTT-ATCTTGAAAAAGCTCCTCTAAGCAGAAGCTCAACAA
*
15300226 CTTTAAAGAAATTCTCATCTTGAAAAAGCTCTTT
65 CTTT-AA-AAA-TCTCATCTTGAAAAAGCTCCTT
*
15300260 TAAGCAAAAGCTCAACAACTTTAAA
1 TAAGCAGAAGCTCAACAACTTTAAA
15300285 AAATTCACCT
Statistics
Matches: 268, Mismatches: 37, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
95 12 0.04
96 71 0.26
97 58 0.22
98 12 0.04
99 100 0.37
100 4 0.01
101 11 0.04
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (95 bp):
TAAGCAGAAGCTCAACAACTTTAAATTTATCTTGAAAAAGCTCCTCTAAGCAGAAGCTCAACAAC
TTTAAAAATCTCATCTTGAAAAAGCTCCTT
Found at i:15304646 original size:17 final size:16
Alignment explanation
Indices: 15304606--15304653 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
15304596 AACATAGGCA
15304606 CAAAAAAATGAAATGG
1 CAAAAAAATGAAATGG
*
15304622 CAAGAAAATGATTAA-GG
1 CAAAAAAATGA--AATGG
*
15304639 CAAAAAAAGGAAATG
1 CAAAAAAATGAAATG
15304654 ATTCGAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 2 0.08
16 11 0.42
17 11 0.42
18 2 0.08
ACGTcount: A:0.60, C:0.06, G:0.21, T:0.12
Consensus pattern (16 bp):
CAAAAAAATGAAATGG
Found at i:15311384 original size:11 final size:11
Alignment explanation
Indices: 15311370--15311411 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
15311360 ATGTGTAAAA
15311370 TTTTATTTTAT
1 TTTTATTTTAT
15311381 TTTTATTTTGA-
1 TTTTATTTT-AT
*
15311392 TTTTATTTTGT
1 TTTTATTTTAT
*
15311403 TTTTGTTTT
1 TTTTATTTT
15311412 TTCTTATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 26 0.96
12 1 0.04
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (11 bp):
TTTTATTTTAT
Done.