Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 78 of 109
Found at i:15672495 original size:30 final size:29
Alignment explanation
Indices: 15672449--15672526 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 29
15672439 TCTTATTTTT
*
15672449 TGTTTTTCTTGATTTTTTGAAAATTTTTAGAA
1 TGTTTTTTTTG-TTTTTTGAAAATTTTT--AA
15672481 T-TTTTTTTTGTTTTTT-AAAATTTTTAA
1 TGTTTTTTTTGTTTTTTGAAAATTTTTAA
*
15672508 TGTCTTTTTT-TTTTTTGAA
1 TGTTTTTTTTGTTTTTTGAA
15672527 TTCTTGAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 9 0.21
28 9 0.21
29 9 0.21
30 6 0.14
31 8 0.19
32 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.68
Consensus pattern (29 bp):
TGTTTTTTTTGTTTTTTGAAAATTTTTAA
Found at i:15682411 original size:30 final size:30
Alignment explanation
Indices: 15682375--15682456 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 30
15682365 GTATATAAAA
* *
15682375 TATATATTTTATTATTTATTTAATTTTATATT
1 TATATA-TGTATTATTTA-ATAATTTTATATT
15682407 TATATATGTATTATTTAATAATTTTAT-TT
1 TATATATGTATTATTTAATAATTTTATATT
* *
15682436 TTTA-ATATATTAATTTAATAA
1 TATATATGTATT-ATTTAATAA
15682457 AATACTACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 6 0.13
29 14 0.31
30 9 0.20
31 10 0.22
32 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
TATATATGTATTATTTAATAATTTTATATT
Found at i:15682507 original size:18 final size:18
Alignment explanation
Indices: 15682488--15682523 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15682478 TAAGTTGTTA
15682488 TTTATATTAAAAATTATAT
1 TTTATA-TAAAAATTATAT
*
15682507 TTTTTATAAAAATTATA
1 TTTATATAAAAATTATA
15682524 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATATAAAAATTATAT
Found at i:15684826 original size:14 final size:14
Alignment explanation
Indices: 15684807--15684833 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15684797 AGTCCAATCA
15684807 ATGCCACATCATCT
1 ATGCCACATCATCT
15684821 ATGCCACATCATC
1 ATGCCACATCATC
15684834 ATAAAAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.26
Consensus pattern (14 bp):
ATGCCACATCATCT
Found at i:15684948 original size:11 final size:11
Alignment explanation
Indices: 15684934--15684960 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15684924 AAAATAATTT
15684934 AAAATATTCTA
1 AAAATATTCTA
15684945 AAAATATTCTA
1 AAAATATTCTA
15684956 AAAAT
1 AAAAT
15684961 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATATTCTA
Found at i:15684988 original size:29 final size:29
Alignment explanation
Indices: 15684939--15685012 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
15684929 AATTTAAAAT
*
15684939 ATTCTAAAAATATTCTAAAAA-TTTTTAAA
1 ATTCTAAAAAT-TTTTAAAAACTTTTTAAA
* *
15684968 ATTCCTAAAAATTTTTCAAAACTTTTGAAA
1 ATT-CTAAAAATTTTTAAAAACTTTTTAAA
* *
15684998 ACTCTATAAATTTTT
1 ATTCTAAAAATTTTT
15685013 TTTCAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (29 bp):
ATTCTAAAAATTTTTAAAAACTTTTTAAA
Found at i:15685043 original size:21 final size:22
Alignment explanation
Indices: 15685018--15685069 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
15685008 TTTTTTTTCA
15685018 AATTTTAGAAAA-TTCA-AAAAC
1 AATTTTA-AAAAGTTCATAAAAC
15685039 AATTTTAAAAAGTTCATAAAA-
1 AATTTTAAAAAGTTCATAAAAC
*
15685060 TATTTTAAAA
1 AATTTTAAAA
15685070 TCATTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 20 0.71
22 4 0.14
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (22 bp):
AATTTTAAAAAGTTCATAAAAC
Found at i:15685117 original size:10 final size:9
Alignment explanation
Indices: 15685084--15685190 Score: 58
Period size: 9 Copynumber: 11.4 Consensus size: 9
15685074 TTAATTTCTT
15685084 AAAATTCTTCA
1 AAAATT-TT-A
15685095 AAAATTTTTA
1 AAAA-TTTTA
*
15685105 AAACTTTTA
1 AAAATTTTA
*
15685114 AAAA-TTCA
1 AAAATTTTA
*
15685122 AAAAATTTA
1 AAAATTTTA
*
15685131 AAACATATT-
1 AAA-ATTTTA
15685140 AAAATTTTA
1 AAAATTTTA
* *
15685149 AGAAATCTAA
1 A-AAATTTTA
15685159 AAAATTTCATA
1 AAAATTT--TA
* *
15685170 AAAA-TCTC
1 AAAATTTTA
15685178 AAAATTTTA
1 AAAATTTTA
15685187 AAAA
1 AAAA
15685191 AATTCAAAAC
Statistics
Matches: 73, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
8 16 0.22
9 29 0.40
10 15 0.21
11 11 0.15
12 2 0.03
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATTTTA
Found at i:15685141 original size:27 final size:27
Alignment explanation
Indices: 15685091--15685143 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
15685081 CTTAAAATTC
* *
15685091 TTCAAAAATTTTTAAAACTTTTAAAAA
1 TTCAAAAATATTTAAAACTATTAAAAA
15685118 TTCAAAAA-ATTTAAAACATATTAAAA
1 TTCAAAAATATTTAAAAC-TATTAAAA
15685144 TTTTAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (27 bp):
TTCAAAAATATTTAAAACTATTAAAAA
Found at i:15685162 original size:19 final size:17
Alignment explanation
Indices: 15685103--15685190 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 17
15685093 CAAAAATTTT
*
15685103 TAAAACTTTTAAAAAT-
1 TAAAAATTTTAAAAATC
* *
15685119 TCAAAAAATTTAAAACATA
1 T-AAAAATTTTAAAA-ATC
*
15685138 TTAAAATTTTAAGAAATC
1 TAAAAATTTTAA-AAATC
15685156 TAAAAAATTTCATAAAAATC
1 T-AAAAATTT--TAAAAATC
*
15685176 TCAAAATTTTAAAAA
1 TAAAAATTTTAAAAA
15685191 AATTCAAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
16 1 0.02
17 17 0.29
18 14 0.24
19 17 0.29
20 6 0.10
21 3 0.05
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (17 bp):
TAAAAATTTTAAAAATC
Found at i:15685197 original size:18 final size:18
Alignment explanation
Indices: 15685113--15685199 Score: 61
Period size: 19 Copynumber: 4.7 Consensus size: 18
15685103 TAAAACTTTT
*
15685113 AAAAATTCAAAAAATTTAA
1 AAAAATTC-AAAATTTTAA
*
15685132 AACATATT-AAAATTTT-A
1 AA-AAATTCAAAATTTTAA
* * * *
15685149 AGAAATCTAAAAAATTTCAT
1 AAAAAT-T-CAAAATTTTAA
15685169 AAAAATCTCAAAATTTTAA
1 AAAAAT-TCAAAATTTTAA
15685188 AAAAATTCAAAA
1 AAAAATTCAAAA
15685200 CAAAAATTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
18 13 0.25
19 23 0.43
20 11 0.21
ACGTcount: A:0.61, C:0.08, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAAATTCAAAATTTTAA
Found at i:15685206 original size:13 final size:13
Alignment explanation
Indices: 15685188--15685212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15685178 AAAATTTTAA
15685188 AAAAATTCAAAAC
1 AAAAATTCAAAAC
15685201 AAAAATTCAAAA
1 AAAAATTCAAAA
15685213 AATTCAAGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATTCAAAAC
Found at i:15685305 original size:24 final size:25
Alignment explanation
Indices: 15685263--15685310 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
15685253 ACAATTAAAA
15685263 AAATAACAAAAATAGAAAATATTTC
1 AAATAACAAAAATAGAAAATATTTC
15685288 AAATAA-AAAAATCA-AAAATATTT
1 AAATAACAAAAAT-AGAAAATATTT
15685311 TGAAAAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (25 bp):
AAATAACAAAAATAGAAAATATTTC
Found at i:15685516 original size:23 final size:22
Alignment explanation
Indices: 15685477--15685520 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
15685467 TTTTTGACAA
15685477 TTTTTAAAAAAAATTTAGAATTC
1 TTTTTAAAAAAAATTTA-AATTC
**
15685500 TTTTTAAAAAATTTTTAAATT
1 TTTTTAAAAAAAATTTAAATT
15685521 TTTCCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTAAAAAAAATTTAAATTC
Found at i:15685522 original size:19 final size:20
Alignment explanation
Indices: 15685500--15685563 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
15685490 TTTAGAATTC
15685500 TTTTT-AAAAAATTTTTAAA
1 TTTTTCAAAAAATTTTTAAA
* * *
15685519 TTTTTCCAAAAATCTTTACA
1 TTTTTCAAAAAATTTTTAAA
*
15685539 TTTTTCAATAAA-TTTTAAA
1 TTTTTCAAAAAATTTTTAAA
15685558 TCTTTT
1 T-TTTT
15685564 TACTTTTTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 11 0.31
20 25 0.69
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTCAAAAAATTTTTAAA
Found at i:15685523 original size:20 final size:21
Alignment explanation
Indices: 15685477--15685565 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 21
15685467 TTTTTGACAA
**
15685477 TTTTTAAAAAAAATTTAGAATTC
1 TTTTTAAAAAATTTTTA-AA-TC
15685500 TTTTTAAAAAATTTTTAAAT-
1 TTTTTAAAAAATTTTTAAATC
** * *
15685520 TTTTCCAAAAATCTTTACAT-
1 TTTTTAAAAAATTTTTAAATC
* *
15685540 TTTTCAATAAA-TTTTAAATC
1 TTTTTAAAAAATTTTTAAATC
15685560 TTTTTA
1 TTTTTA
15685566 CTTTTTATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
19 6 0.11
20 30 0.56
21 1 0.02
22 2 0.04
23 15 0.28
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (21 bp):
TTTTTAAAAAATTTTTAAATC
Found at i:15685575 original size:22 final size:22
Alignment explanation
Indices: 15685551--15685593 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15685541 TTTCAATAAA
15685551 TTTTAAATCTTTTTACTTTTTAT
1 TTTTAAAT-TTTTTACTTTTTAT
* *
15685574 TTTTAAGTTTTTTATTTTTT
1 TTTTAAATTTTTTACTTTTT
15685594 TAAATTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAAATTTTTTACTTTTTAT
Found at i:15685748 original size:10 final size:10
Alignment explanation
Indices: 15685735--15685775 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
15685725 AAAAAAATTG
15685735 AAAATTTTTA
1 AAAATTTTTA
15685745 AAAATTTTT-
1 AAAATTTTTA
*
15685754 AGAATTTTTAA
1 AAAATTTTT-A
15685765 AAAATTTTTA
1 AAAATTTTTA
15685775 A
1 A
15685776 CTTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.30
10 11 0.41
11 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (10 bp):
AAAATTTTTA
Found at i:15685772 original size:19 final size:18
Alignment explanation
Indices: 15685720--15685786 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 18
15685710 ATATTGTCAT
**
15685720 TTTTTAAAAAAATTGAAAA
1 TTTTT-AAAAAATTTTAAA
*
15685739 TTTTTAAAAATTTTTAGAA
1 TTTTTAAAAAATTTTA-AA
*
15685758 TTTTTAAAAAATTTTTAAC
1 TTTTTAAAAAA-TTTTAAA
15685777 TTTTTAAAAA
1 TTTTTAAAAA
15685787 GATGTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.20
19 28 0.68
20 5 0.12
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (18 bp):
TTTTTAAAAAATTTTAAA
Found at i:15685999 original size:18 final size:18
Alignment explanation
Indices: 15685950--15686000 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
15685940 AATTTAGCCT
*
15685950 TTTTTAAAAACTTTTAGAA
1 TTTTT-AAAATTTTTAGAA
** *
15685969 TTTTTAATTTTTTTATAA
1 TTTTTAAAATTTTTAGAA
15685987 TTTTTAAAATTTTT
1 TTTTTAAAATTTTT
15686001 CTTTTTAGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTAAAATTTTTAGAA
Found at i:15687096 original size:17 final size:17
Alignment explanation
Indices: 15687076--15687119 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
15687066 TCATTTTATT
* * *
15687076 TTATATTTATATATGTA
1 TTATATTAATAAATATA
15687093 TTATATTAATAAATATA
1 TTATATTAATAAATATA
15687110 TTAT-TTAATA
1 TTATATTAATA
15687120 TCTTAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTATATTAATAAATATA
Found at i:15688168 original size:19 final size:20
Alignment explanation
Indices: 15688129--15688179 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
15688119 ATAAAATTAT
* *
15688129 ATATTTTA-TTATCTATTTA
1 ATATTTTATTTATATATATA
15688148 AT-TTTTATTTATATATATA
1 ATATTTTATTTATATATATA
*
15688167 ATAATTTATTTAT
1 ATATTTTATTTAT
15688180 TATTATATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 13 0.48
20 9 0.33
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATATTTTATTTATATATATA
Found at i:15688292 original size:16 final size:17
Alignment explanation
Indices: 15688257--15688293 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15688247 ATGATCTTTT
*
15688257 TTTTTCTTTTTTAATTA
1 TTTTTCTTTTTTAATGA
15688274 TTTTTCTTTTTT-ATGA
1 TTTTTCTTTTTTAATGA
15688290 TTTT
1 TTTT
15688294 ATTAATAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTTTTAATGA
Found at i:15688909 original size:16 final size:15
Alignment explanation
Indices: 15688888--15688949 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
15688878 TCTTATTTTA
15688888 TTTTATTTTGTTTTGT
1 TTTTATTTT-TTTTGT
15688904 TTTTATTTATTTTTAGT
1 TTTTATTT-TTTTT-GT
**
15688921 TTTTATGATTTTTGT
1 TTTTATTTTTTTTGT
*
15688936 TTTAGATTTTTTTT
1 TTT-TATTTTTTTT
15688950 TGTTAGATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 5 0.13
16 24 0.63
17 9 0.24
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
TTTTATTTTTTTTGT
Found at i:15689422 original size:14 final size:14
Alignment explanation
Indices: 15689366--15689414 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
15689356 AAGTCCTTAA
*
15689366 TTTTTTTTCATTTTC
1 TTTTTTTT-ATTTAC
* *
15689381 TTTTCTCTATCTTAC
1 TTTTTTTTAT-TTAC
15689396 TTTTTTTTATTTAC
1 TTTTTTTTATTTAC
15689410 TTTTT
1 TTTTT
15689415 CTTTTTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTTATTTAC
Found at i:15689724 original size:6 final size:6
Alignment explanation
Indices: 15689713--15689740 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15689703 ATAAAATGTA
15689713 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
15689741 AAACTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:15690559 original size:12 final size:12
Alignment explanation
Indices: 15690542--15690571 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15690532 AAAAATTTTA
*
15690542 AAAATTAATTAC
1 AAAATTAAATAC
15690554 AAAATTAAATAC
1 AAAATTAAATAC
15690566 AAAATT
1 AAAATT
15690572 CCACTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTAAATAC
Found at i:15693274 original size:2 final size:2
Alignment explanation
Indices: 15693269--15693293 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15693259 AGAGAGAAAG
15693269 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15693294 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15697049 original size:23 final size:23
Alignment explanation
Indices: 15697005--15697051 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15696995 ATTTTTTTAA
*
15697005 AAAATAATATTAATATAATTATT
1 AAAATAATATTAAAATAATTATT
*
15697028 AAAAT-ATATTAAAATTATTTATT
1 AAAATAATATTAAAA-TAATTATT
15697051 A
1 A
15697052 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATAATATTAAAATAATTATT
Found at i:15697053 original size:16 final size:15
Alignment explanation
Indices: 15697033--15697121 Score: 63
Period size: 16 Copynumber: 5.5 Consensus size: 15
15697023 TTATTAAAAT
15697033 ATATTAAAATTATTTA
1 ATATTAAAATTA-TTA
*
15697049 TTATTAAAATTATTA
1 ATATTAAAATTATTA
*
15697064 ATATTAAAGAATAATTA
1 ATATT-AA-AATTATTA
*
15697081 TATTTTAATAATTATATTTA
1 -ATATTAA-AA-T-TA-TTA
*
15697101 ATATTAAAA-TATTG
1 ATATTAAAATTATTA
15697115 ATATTAA
1 ATATTAA
15697122 TATAAAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
14 9 0.15
15 9 0.15
16 13 0.22
17 11 0.19
18 7 0.12
19 7 0.12
20 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:15697060 original size:9 final size:9
Alignment explanation
Indices: 15697021--15697069 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
15697011 ATATTAATAT
15697021 AATTATTAA
1 AATTATTAA
15697030 AATATATTAA
1 AAT-TATTAA
15697040 AATTATT--
1 AATTATTAA
*
15697047 TATTATTAA
1 AATTATTAA
15697056 AATTATTAA
1 AATTATTAA
*
15697065 TATTA
1 AATTA
15697070 AAGAATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 6 0.18
9 19 0.56
10 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTATTAA
Found at i:15697102 original size:13 final size:14
Alignment explanation
Indices: 15697073--15697103 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15697063 AATATTAAAG
15697073 AATAATTATATTTT
1 AATAATTATATTTT
15697087 AATAATTATA-TTT
1 AATAATTATATTTT
15697100 AATA
1 AATA
15697104 TTAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATAATTATATTTT
Found at i:15697245 original size:21 final size:21
Alignment explanation
Indices: 15697219--15697258 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15697209 ATTTTATTAA
15697219 TATTAAAATAATAATATTTAT
1 TATTAAAATAATAATATTTAT
* *
15697240 TATTAAAATATTTATATTT
1 TATTAAAATAATAATATTT
15697259 TACATTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTAAAATAATAATATTTAT
Found at i:15699181 original size:29 final size:29
Alignment explanation
Indices: 15699112--15699172 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
15699102 ATTTTTAACT
* * *
15699112 TTTCAAAAATTTAAAATTTTTTTAAAATA
1 TTTCAATATTTTAAAATTTTTTAAAAATA
15699141 TTTCAATATTTTAATAA-TTTTTAAAAATA
1 TTTCAATATTTTAA-AATTTTTTAAAAATA
15699170 TTT
1 TTT
15699173 TAGTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTCAATATTTTAAAATTTTTTAAAAATA
Found at i:15699188 original size:23 final size:22
Alignment explanation
Indices: 15699158--15699204 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
15699148 ATTTTAATAA
* *
15699158 TTTTTAAAAATATTTTAGTTTTT
1 TTTTTAAAAAT-TTATAATTTTT
15699181 TTTTTAAAAATTTATAATTTTT
1 TTTTTAAAAATTTATAATTTTT
15699203 TT
1 TT
15699205 ATAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTAAAAATTTATAATTTTT
Found at i:15699214 original size:10 final size:11
Alignment explanation
Indices: 15699191--15699216 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15699181 TTTTTAAAAA
15699191 TTTATAATTTT
1 TTTATAATTTT
15699202 TTTATAATTTT
1 TTTATAATTTT
15699213 TTTA
1 TTTA
15699217 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATAATTTT
Found at i:15699828 original size:18 final size:18
Alignment explanation
Indices: 15699802--15699852 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
15699792 TACAAATTAT
*
15699802 TAAAATATAAATATGATA
1 TAAATTATAAATATGATA
* *
15699820 TAAATTATAAAATAT-TTT
1 TAAATTAT-AAATATGATA
15699838 TAAATT-TAAATATGA
1 TAAATTATAAATATGA
15699853 CATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 6 0.22
17 1 0.04
18 14 0.52
19 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
TAAATTATAAATATGATA
Found at i:15701290 original size:16 final size:17
Alignment explanation
Indices: 15701269--15701304 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15701259 TTTATTAATA
15701269 TTTTTA-TCTTTTATTT
1 TTTTTATTCTTTTATTT
*
15701285 TTTTTATTTTTTTATTT
1 TTTTTATTCTTTTATTT
15701302 TTT
1 TTT
15701305 GTTTGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTATTCTTTTATTT
Found at i:15701573 original size:13 final size:12
Alignment explanation
Indices: 15701557--15701600 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
15701547 AAATGGAATA
15701557 AATAAATAGAAAT
1 AATAAATA-AAAT
15701570 AATAAAATAAAAT
1 AAT-AAATAAAAT
15701583 AATAAA-AAAAT
1 AATAAATAAAAT
15701594 AA-AAATA
1 AATAAATA
15701601 CCAAAATAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.10
11 8 0.28
12 3 0.10
13 10 0.34
14 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:15701597 original size:8 final size:8
Alignment explanation
Indices: 15701537--15701598 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
15701527 TAAGAAAAAG
15701537 AAAAATAA
1 AAAAATAA
* *
15701545 ACAAATGGA
1 AAAAAT-AA
*
15701554 ATAAATAA
1 AAAAATAA
15701562 ATAGAAATAA
1 A-A-AAATAA
*
15701572 TAAAATAA
1 AAAAATAA
*
15701580 AATAATAA
1 AAAAATAA
15701588 AAAAATAA
1 AAAAATAA
15701596 AAA
1 AAA
15701599 TACCAAAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
8 29 0.69
9 7 0.17
10 6 0.14
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (8 bp):
AAAAATAA
Found at i:15706032 original size:18 final size:18
Alignment explanation
Indices: 15706009--15706044 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15705999 GGCAAGGTGA
15706009 TAACCCCTTGGATTATTC
1 TAACCCCTTGGATTATTC
15706027 TAACCCCTTGGATTATTC
1 TAACCCCTTGGATTATTC
15706045 GCTCCCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (18 bp):
TAACCCCTTGGATTATTC
Found at i:15706586 original size:13 final size:13
Alignment explanation
Indices: 15706568--15706593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15706558 CAATCACGTT
15706568 TAACAACTACTAC
1 TAACAACTACTAC
15706581 TAACAACTACTAC
1 TAACAACTACTAC
15706594 CCACTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
TAACAACTACTAC
Found at i:15713828 original size:43 final size:43
Alignment explanation
Indices: 15713763--15713851 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
15713753 TTTAGCTGAT
15713763 TGTTCCAAATTGTTTGTAAAACATGAGTTTTCCAAGAAAATTA
1 TGTTCCAAATTGTTTGTAAAACATGAGTTTTCCAAGAAAATTA
* *
15713806 TGTTCCAAATTGTTTGTGAAACATGAGTTTTCTAAGAAAATTA
1 TGTTCCAAATTGTTTGTAAAACATGAGTTTTCCAAGAAAATTA
15713849 TGT
1 TGT
15713852 ATTTCAATCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (43 bp):
TGTTCCAAATTGTTTGTAAAACATGAGTTTTCCAAGAAAATTA
Found at i:15716533 original size:2 final size:2
Alignment explanation
Indices: 15716526--15716562 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15716516 TTGCTTACTC
15716526 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 A
15716563 AGAATCAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15716971 original size:2 final size:2
Alignment explanation
Indices: 15716964--15716991 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15716954 ATTGATCATT
15716964 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
15716992 AGGAATCAAT
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:15717149 original size:17 final size:17
Alignment explanation
Indices: 15717127--15717162 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15717117 AATTAATAGC
*
15717127 TAAAAAAATATTTAAAT
1 TAAAAAAAAATTTAAAT
*
15717144 TAAAAAAAAATTTACAT
1 TAAAAAAAAATTTAAAT
15717161 TA
1 TA
15717163 TATAAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAAAAATTTAAAT
Found at i:15717188 original size:2 final size:2
Alignment explanation
Indices: 15717181--15717206 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15717171 GATCTTACTT
15717181 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
15717207 ATAAGTATCC
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:15717366 original size:2 final size:2
Alignment explanation
Indices: 15717361--15717391 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15717351 TCTCTCTTTA
15717361 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 A
15717392 ATGGAGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15718869 original size:25 final size:25
Alignment explanation
Indices: 15718835--15718885 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15718825 TACTTAGCAC
15718835 TTAACCTTAAAGTTAACAAAAAAAT
1 TTAACCTTAAAGTTAACAAAAAAAT
15718860 TTAACCTTAAAGTTAACAAAAAAAT
1 TTAACCTTAAAGTTAACAAAAAAAT
15718885 T
1 T
15718886 AATGAAGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (25 bp):
TTAACCTTAAAGTTAACAAAAAAAT
Found at i:15720453 original size:60 final size:59
Alignment explanation
Indices: 15720265--15720669 Score: 523
Period size: 59 Copynumber: 6.7 Consensus size: 59
15720255 TTTTTTGTAG
* *
15720265 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTT--ATTTCT-AA
* *** *
15720324 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTAAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
* * *
15720383 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGACATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTT-ATTTCTAA
*
15720443 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTGAAAATTTA--TTTC---TAA
* *
15720508 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTCG-AAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTT-GAAAATTTATTTCTAA
*
15720568 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
*
15720626 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTT
15720670 TTGGAATTTT
Statistics
Matches: 311, Mismatches: 22, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
58 50 0.16
59 96 0.31
60 81 0.26
61 24 0.08
62 3 0.01
63 4 0.01
65 51 0.16
66 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTAA
Found at i:15720834 original size:5 final size:5
Alignment explanation
Indices: 15720824--15720854 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
15720814 GCTCGGATCG
*
15720824 CGGCT CGGCT CGGCT CGGCT CAGCT CGGCT C
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT C
15720855 AAGGCAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.03, C:0.42, G:0.35, T:0.19
Consensus pattern (5 bp):
CGGCT
Found at i:15721162 original size:20 final size:20
Alignment explanation
Indices: 15721137--15721174 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15721127 GAACACCGGT
*
15721137 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
15721157 GCCGGAATCTGGAAATTT
1 GCCGGAATCTGGAAATTT
15721175 CACCGGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:15721180 original size:19 final size:20
Alignment explanation
Indices: 15721138--15721182 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15721128 AACACCGGTG
* *
15721138 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
15721158 CCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
15721177 CCGGAA
1 CCGGAA
15721183 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:15725756 original size:24 final size:24
Alignment explanation
Indices: 15725720--15725783 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
15725710 ATTAAAGCCA
* *
15725720 TAAACAAAA-TTTATGCTTTTTGGC
1 TAAA-AAAATTTTATGCTTCTTAGC
15725744 TAAAAAAATTTTATGCTTCTTAGC
1 TAAAAAAATTTTATGCTTCTTAGC
15725768 T-AAAAAATTTT-TGCTT
1 TAAAAAAATTTTATGCTT
15725784 AAATTGTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.14
23 14 0.38
24 18 0.49
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (24 bp):
TAAAAAAATTTTATGCTTCTTAGC
Found at i:15726934 original size:24 final size:26
Alignment explanation
Indices: 15726881--15726937 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
15726871 AAATTAAAAT
* *
15726881 ATTAAT-ATAAAATAATATTTTATCAT
1 ATTAATAATAAAATAATATATTA-CAC
15726907 ATTAATAATAAAATAAT-TATTA-AC
1 ATTAATAATAAAATAATATATTACAC
15726931 ATTAATA
1 ATTAATA
15726938 TGAATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 8 0.29
26 10 0.36
27 10 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAATAATAAAATAATATATTACAC
Found at i:15727206 original size:16 final size:17
Alignment explanation
Indices: 15727162--15727208 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
15727152 AGTTTTAGTT
*
15727162 ATATTTAATTATATTTA
1 ATATTTAATTATTTTTA
15727179 ATATTTAA-TATTTTTA
1 ATATTTAATTATTTTTA
*
15727195 CT-TTTAATTATTTT
1 ATATTTAATTATTTT
15727209 GATTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 5 0.19
16 14 0.52
17 8 0.30
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTTAATTATTTTTA
Found at i:15732134 original size:31 final size:30
Alignment explanation
Indices: 15732099--15732161 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
15732089 GAAGTGAAAA
*
15732099 AGAAATAAGATGAAAAAAAAAGAAAAAAATG
1 AGAAAGAAG-TGAAAAAAAAAGAAAAAAATG
* * *
15732130 AGAAAGATGTGGAAAAAAAAGAGAAAAATG
1 AGAAAGAAGTGAAAAAAAAAGAAAAAAATG
15732160 AG
1 AG
15732162 GGAAAAGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.10
Consensus pattern (30 bp):
AGAAAGAAGTGAAAAAAAAAGAAAAAAATG
Found at i:15732167 original size:21 final size:22
Alignment explanation
Indices: 15732120--15732167 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
15732110 GAAAAAAAAA
* *
15732120 GAAAAAAATGAGAAAGATG-TG
1 GAAAAAAATGAGAAAAATGAGG
*
15732141 GAAAAAAAAGAGAAAAATGAGG
1 GAAAAAAATGAGAAAAATGAGG
15732163 GAAAA
1 GAAAA
15732168 GGAAAAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.27, T:0.08
Consensus pattern (22 bp):
GAAAAAAATGAGAAAAATGAGG
Found at i:15738353 original size:16 final size:16
Alignment explanation
Indices: 15738304--15738354 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
15738294 AAAAAAACTG
* *
15738304 TTTTTCTCT-CTTACT
1 TTTTTCTTTACTTACA
* *
15738319 TTTTTCTTTCCTTATA
1 TTTTTCTTTACTTACA
*
15738335 TTTTTCTTTACTTCCA
1 TTTTTCTTTACTTACA
15738351 TTTT
1 TTTT
15738355 CATTTCTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCTTTACTTACA
Found at i:15738495 original size:20 final size:22
Alignment explanation
Indices: 15738470--15738518 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
15738460 CTTTTTGCAC
15738470 TTTTT-AAA-CAAAAAAGAATA
1 TTTTTAAAAGCAAAAAAGAATA
*
15738490 TTTTTAAAAGCAAAAAAGAAAA
1 TTTTTAAAAGCAAAAAAGAATA
*
15738512 TGTTTAA
1 TTTTTAA
15738519 GTATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 17 0.68
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (22 bp):
TTTTTAAAAGCAAAAAAGAATA
Found at i:15739433 original size:16 final size:16
Alignment explanation
Indices: 15739376--15739433 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
15739366 AATCAGGTCA
*
15739376 ATTTTAGGTTT-GGTC
1 ATTTTAGGTTTAGGTT
* *
15739391 ATTTTCGTTTTAGGTT
1 ATTTTAGGTTTAGGTT
* *
15739407 GTTTTACGTTTAGGTT
1 ATTTTAGGTTTAGGTT
*
15739423 ATTTTGGGTTT
1 ATTTTAGGTTT
15739434 GATCTATTTC
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
15 9 0.28
16 23 0.72
ACGTcount: A:0.12, C:0.05, G:0.24, T:0.59
Consensus pattern (16 bp):
ATTTTAGGTTTAGGTT
Found at i:15740258 original size:33 final size:33
Alignment explanation
Indices: 15740220--15740282 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
15740210 TTCAAGTTAA
15740220 ACTTAAACCACAACATCACAAACTCGATTTCAC
1 ACTTAAACCACAACATCACAAACTCGATTTCAC
* * * *
15740253 ACTTAAACCATAACATTACAATCTTGATTT
1 ACTTAAACCACAACATCACAAACTCGATTT
15740283 TACAATGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (33 bp):
ACTTAAACCACAACATCACAAACTCGATTTCAC
Found at i:15741237 original size:15 final size:16
Alignment explanation
Indices: 15741217--15741246 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15741207 CATCAAGATA
15741217 AATTGTTTT-AAACCT
1 AATTGTTTTCAAACCT
15741232 AATTGTTTTCAAACC
1 AATTGTTTTCAAACC
15741247 ATCATTGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (16 bp):
AATTGTTTTCAAACCT
Found at i:15742850 original size:19 final size:19
Alignment explanation
Indices: 15742826--15742865 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15742816 AACCTTGGAG
15742826 ACTAATGATGATACATCTA
1 ACTAATGATGATACATCTA
15742845 ACTAATGATGATACATCTA
1 ACTAATGATGATACATCTA
15742864 AC
1 AC
15742866 CATTTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (19 bp):
ACTAATGATGATACATCTA
Found at i:15743738 original size:21 final size:20
Alignment explanation
Indices: 15743705--15743743 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
15743695 GAGATTAATG
*
15743705 AGAAAAAATAGGAAAAAACT
1 AGAAAAAAGAGGAAAAAACT
15743725 AGAAAAATAGAGGAAAAAA
1 AGAAAAA-AGAGGAAAAAA
15743744 AAGGAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.08
Consensus pattern (20 bp):
AGAAAAAAGAGGAAAAAACT
Found at i:15759799 original size:187 final size:188
Alignment explanation
Indices: 15759572--15759942 Score: 586
Period size: 188 Copynumber: 2.0 Consensus size: 188
15759562 TTTTTTTTAT
15759572 GTTTTCTTATTTCTCAAATCAAACTTATCTTTAAACATTATTTATTTGAACTCAAATGAAAGTCC
1 GTTTTCTTATTTCTCAAATCAAACTTATCTTTAAACATTATTTATTTGAACTCAAATGAAAGTCC
* * *** *
15759637 AATTTTTATTTT-TAAAGTGAATTTATTCATTTTGAACTCAATACAATTTTGATAATATTAGTTT
66 AATTGTTATTTTAAAAAAAAAACTTATTCATTTTGAACTCAATACAATTTTGATAATATTAGTTT
* *
15759701 TGAAAAATAGATTAACTTAATAAAGTTGTTTTATAAGACAAAGTTTTCCAACATTTAAC
131 TGAAAAATAAATTAACTTAAGAAAGTTG-TTTATAAGACAAAGTTTTCCAACATTTAAC
*
15759760 GTTTTCTTATTTCT-AAATCAAAAC-TATCTTTAAACATTATTTATTTGAACTTAAATGAAAGTC
1 GTTTTCTTATTTCTCAAATC-AAACTTATCTTTAAACATTATTTATTTGAACTCAAATGAAAGTC
* * *
15759823 TAATTGTTGTTTTAAAAAAAAAACTTATTCATTTTGAACTCAATACAATTTTGATAATATTGGTT
65 CAATTGTTATTTTAAAAAAAAAACTTATTCATTTTGAACTCAATACAATTTTGATAATATTAGTT
*
15759888 TTGAAAAATAAATTAACTTAAGAAAGTTGTTTATAAGACAAAGTTTTCTAACATT
130 TTGAAAAATAAATTAACTTAAGAAAGTTGTTTATAAGACAAAGTTTTCCAACATT
15759943 GAATTTGTTT
Statistics
Matches: 168, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
187 78 0.46
188 90 0.54
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (188 bp):
GTTTTCTTATTTCTCAAATCAAACTTATCTTTAAACATTATTTATTTGAACTCAAATGAAAGTCC
AATTGTTATTTTAAAAAAAAAACTTATTCATTTTGAACTCAATACAATTTTGATAATATTAGTTT
TGAAAAATAAATTAACTTAAGAAAGTTGTTTATAAGACAAAGTTTTCCAACATTTAAC
Found at i:15761533 original size:23 final size:23
Alignment explanation
Indices: 15761506--15761552 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15761496 ACACCATAAA
* * *
15761506 TATATATATTAATATGTAAATTT
1 TATATACAGTAATATATAAATTT
15761529 TATATACAGTAATATATAAATTT
1 TATATACAGTAATATATAAATTT
15761552 T
1 T
15761553 TTGTGAAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
TATATACAGTAATATATAAATTT
Found at i:15762672 original size:25 final size:25
Alignment explanation
Indices: 15762643--15762693 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
15762633 CTCAACATAC
* *
15762643 TCCCTTCTATGTATCGCATTATTAG
1 TCCCTTCTATATATCACATTATTAG
15762668 TCCCTTCTATATATCACATTATTAG
1 TCCCTTCTATATATCACATTATTAG
15762693 T
1 T
15762694 TCTATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.45
Consensus pattern (25 bp):
TCCCTTCTATATATCACATTATTAG
Found at i:15765739 original size:39 final size:39
Alignment explanation
Indices: 15765685--15765777 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 39
15765675 TACTTAATCG
15765685 TTGATTAC-TTCCAAAATGG-TAACAAAAGTTATCATATTC
1 TTGATTACATT-CAAAATGGAT-ACAAAAGTTATCATATTC
15765724 TTGATTACATTCAAAATGGATACAAAAGTTATCATATTC
1 TTGATTACATTCAAAATGGATACAAAAGTTATCATATTC
* *
15765763 TTAATTACATCCAAA
1 TTGATTACATTCAAA
15765778 TTTTCAACAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 47 0.94
40 3 0.06
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (39 bp):
TTGATTACATTCAAAATGGATACAAAAGTTATCATATTC
Found at i:15768419 original size:32 final size:32
Alignment explanation
Indices: 15768382--15768445 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
15768372 CTTCATGGCA
* *
15768382 CTAAAACTAACATAAAATCTTTTAAATTTTAG
1 CTAAAACAAAAATAAAATCTTTTAAATTTTAG
15768414 CTAAAACAAAAATAAAATCTTTTAAATTTTAG
1 CTAAAACAAAAATAAAATCTTTTAAATTTTAG
15768446 GTTTTCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (32 bp):
CTAAAACAAAAATAAAATCTTTTAAATTTTAG
Found at i:15774742 original size:2 final size:2
Alignment explanation
Indices: 15774735--15774762 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15774725 TGTATCTCAA
15774735 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
15774763 CATAACAAGT
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:15775905 original size:20 final size:20
Alignment explanation
Indices: 15775867--15775904 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15775857 GTACATATGC
15775867 ATATTTAATTGTATATTTTT
1 ATATTTAATTGTATATTTTT
*
15775887 ATATTTTATT-T-TATTTTT
1 ATATTTAATTGTATATTTTT
15775905 TGTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
ATATTTAATTGTATATTTTT
Found at i:15784846 original size:6 final size:6
Alignment explanation
Indices: 15784837--15784881 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
15784827 AATGAGCATA
* * *
15784837 TTATTA TTATTG TTATTG TTATTG TTATCG TT-TCG TTATTG TTAT
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTAT
15784882 AGAAGTGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.18, C:0.04, G:0.13, T:0.64
Consensus pattern (6 bp):
TTATTG
Found at i:15787360 original size:2 final size:2
Alignment explanation
Indices: 15787353--15787379 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15787343 TAAGTCAACT
15787353 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15787380 TTCTAACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15793445 original size:58 final size:58
Alignment explanation
Indices: 15793355--15793470 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
15793345 TAGAAGGACC
**
15793355 AATTATAAACAATGGTGTGATGGTTCTGGATAATTAATTAGTCTAAATGCAAGAGATT
1 AATTATAAACAATGGTCAGATGGTTCTGGATAATTAATTAGTCTAAATGCAAGAGATT
15793413 AATTATAAACAATGGTCAGATGGTTCTGGATAATTAATTAGTCTAAATGCAAGAGATT
1 AATTATAAACAATGGTCAGATGGTTCTGGATAATTAATTAGTCTAAATGCAAGAGATT
15793471 CTCAGCCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.34
Consensus pattern (58 bp):
AATTATAAACAATGGTCAGATGGTTCTGGATAATTAATTAGTCTAAATGCAAGAGATT
Found at i:15798293 original size:66 final size:67
Alignment explanation
Indices: 15798187--15798317 Score: 176
Period size: 66 Copynumber: 2.0 Consensus size: 67
15798177 CAGATAAAAC
*
15798187 AAAACATACTCAAAATACATTTATCGGATTTACACGATTTTGCA-AATTCAACAGCCTTTGAATA
1 AAAACATACTCAAAATACATTCATCGGATTTACACGATTTTGCACAATTCAACAGCCTTTGAATA
15798251 AG
66 AG
* * ** * *
15798253 AAAACATACTTAAAGTACATTCATTTGATTTATC-CTATTTTGCACTATTCAACAGCCTTTGAAT
1 AAAACATACTCAAAATACATTCATCGGATTTA-CACGATTTTGCACAATTCAACAGCCTTTGAAT
15798317 A
65 A
15798318 TGAACCCCAC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
66 36 0.64
67 20 0.36
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.34
Consensus pattern (67 bp):
AAAACATACTCAAAATACATTCATCGGATTTACACGATTTTGCACAATTCAACAGCCTTTGAATA
AG
Found at i:15802765 original size:11 final size:11
Alignment explanation
Indices: 15802759--15802789 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15802749 ACTCGAATTT
15802759 AATTCGAATAA
1 AATTCGAATAA
15802770 AATTCGAATAA
1 AATTCGAATAA
*
15802781 AATTTGAAT
1 AATTCGAAT
15802790 TCGATTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (11 bp):
AATTCGAATAA
Found at i:15803551 original size:24 final size:22
Alignment explanation
Indices: 15803524--15803572 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
15803514 CAAACGTTCG
* *
15803524 TAATAAATATTTATTTTCAATTGA
1 TAATAAA-ATTTAATTT-AATAGA
15803548 TAATAAAATTTAATTTAATAGA
1 TAATAAAATTTAATTTAATAGA
15803570 TAA
1 TAA
15803573 CATTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (22 bp):
TAATAAAATTTAATTTAATAGA
Found at i:15805621 original size:15 final size:16
Alignment explanation
Indices: 15805601--15805630 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15805591 ACAATTGTTG
15805601 AAAAAAAA-TTAAAAC
1 AAAAAAAAGTTAAAAC
15805616 AAAAAAAAGTTAAAA
1 AAAAAAAAGTTAAAA
15805631 ATGGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAAAGTTAAAAC
Found at i:15807627 original size:29 final size:29
Alignment explanation
Indices: 15807565--15807627 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
15807555 TAATAATGTT
* * *
15807565 TTAGTTTTAGGTAACCAATATTCAGTGTA
1 TTAGTTTAAAGTAACAAATATTCAGTGTA
* **
15807594 ATAGTTTAAAGTAACAAATATTTTGTGTA
1 TTAGTTTAAAGTAACAAATATTCAGTGTA
15807623 TTAGT
1 TTAGT
15807628 AATTTTCTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (29 bp):
TTAGTTTAAAGTAACAAATATTCAGTGTA
Found at i:15808560 original size:21 final size:21
Alignment explanation
Indices: 15808535--15808575 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15808525 ATTCTTTTTG
15808535 TTGAACAAATAGTCCTCTTTA
1 TTGAACAAATAGTCCTCTTTA
* * *
15808556 TTGAATAAATGGTCTTCTTT
1 TTGAACAAATAGTCCTCTTT
15808576 GCTTACAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (21 bp):
TTGAACAAATAGTCCTCTTTA
Found at i:15811689 original size:15 final size:15
Alignment explanation
Indices: 15811637--15811690 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
15811627 TTTAATTTTC
15811637 ATAAACTTCATTCTT
1 ATAAACTTCATTCTT
* * *
15811652 ATAAAGTTTATTCTC
1 ATAAACTTCATTCTT
**
15811667 ATGCACTTCATTCTT
1 ATAAACTTCATTCTT
*
15811682 ATTAACTTC
1 ATAAACTTC
15811691 TTTAATTACT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (15 bp):
ATAAACTTCATTCTT
Found at i:15814298 original size:30 final size:31
Alignment explanation
Indices: 15814239--15814303 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
15814229 AAATTTACCT
15814239 TTTTTGCCTATACATGAATGCACTAGTTTTG
1 TTTTTGCCTATACATGAATGCACTAGTTTTG
15814270 TTTTTGCCTATACATGAATGCA-TAGTTTTG
1 TTTTTGCCTATACATGAATGCACTAGTTTTG
15814300 TTTT
1 TTTT
15814304 GAATATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.22, C:0.14, G:0.15, T:0.49
Consensus pattern (31 bp):
TTTTTGCCTATACATGAATGCACTAGTTTTG
Found at i:15817923 original size:42 final size:42
Alignment explanation
Indices: 15817876--15817958 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
15817866 AAAAAGAAAA
15817876 AGATATGCTTGAATTAAAGAAA-AACTTCAATAAGATGAGTTC
1 AGATATGCTTGAATTAAAGAAATAA-TTCAATAAGATGAGTTC
* *
15817918 AGATATGTTTGAATTAAAGAAATGATTCAATAAGATGAGTT
1 AGATATGCTTGAATTAAAGAAATAATTCAATAAGATGAGTT
15817959 TAATTTGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (42 bp):
AGATATGCTTGAATTAAAGAAATAATTCAATAAGATGAGTTC
Found at i:15818468 original size:47 final size:47
Alignment explanation
Indices: 15818281--15818521 Score: 295
Period size: 47 Copynumber: 5.1 Consensus size: 47
15818271 AGACTAGATT
* *
15818281 AGCCCTTTTCAAAAAGATTTTTAAAGTTACTTGCCTATGTTTATAAG
1 AGCCCTTTTCAAAAAGATTTTTAAAGTCACCTGCCTATGTTTATAAG
* *
15818328 AGCCC-TTTCTAAAAATTATTTTTAAAGTCACCTGCCTATGTTTATAAA
1 AGCCCTTTTC-AAAAA-GATTTTTAAAGTCACCTGCCTATGTTTATAAG
** * *
15818376 AGCCCTTTTCCAAAAGAGATTTTTAAAGTCACCTATCTATTTTTATGAG
1 AGCCCTTTT-CAAAA-AGATTTTTAAAGTCACCTGCCTATGTTTATAAG
* * * *
15818425 AGCCCTTTTTAAAAAGATTTTTAAAGTTACTTGCCTATATTTATAAG
1 AGCCCTTTTCAAAAAGATTTTTAAAGTCACCTGCCTATGTTTATAAG
* * * *
15818472 AGCCATTTTCAAAAAGACTTTTAAAGTCACCTACCTATGTTTATAGG
1 AGCCCTTTTCAAAAAGATTTTTAAAGTCACCTGCCTATGTTTATAAG
15818519 AGC
1 AGC
15818522 TCTTCTTAAA
Statistics
Matches: 164, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
46 4 0.02
47 79 0.48
48 37 0.23
49 42 0.26
50 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (47 bp):
AGCCCTTTTCAAAAAGATTTTTAAAGTCACCTGCCTATGTTTATAAG
Found at i:15818889 original size:20 final size:20
Alignment explanation
Indices: 15818842--15818881 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15818832 GAGTCAACTA
*
15818842 AGTCAAACAAAGTCAAAATT
1 AGTCAAACAAAATCAAAATT
*
15818862 AGTCAAACAAAATCTAAATT
1 AGTCAAACAAAATCAAAATT
15818882 GATCAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (20 bp):
AGTCAAACAAAATCAAAATT
Found at i:15819347 original size:25 final size:26
Alignment explanation
Indices: 15819319--15819373 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
15819309 TCAAAATAAC
15819319 TTTTAAGGGTAGTTTTGTAA-TTAAT
1 TTTTAAGGGTAGTTTTGTAATTTAAT
15819344 TTTTAAGGGTAGTTTTGTAATTTAAT
1 TTTTAAGGGTAGTTTTGTAATTTAAT
15819370 TTTT
1 TTTT
15819374 TTGAGTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.56
Consensus pattern (26 bp):
TTTTAAGGGTAGTTTTGTAATTTAAT
Found at i:15819652 original size:31 final size:31
Alignment explanation
Indices: 15819615--15819679 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
15819605 AGAATATTGA
*
15819615 TTTCTAAGAAAATGACTTAAATACTGAAAAT
1 TTTCTAAGAAAATGACTTAAAGACTGAAAAT
*
15819646 TTTCTAAGAAAATGGCTTAAAGACTGAAAAT
1 TTTCTAAGAAAATGACTTAAAGACTGAAAAT
15819677 TTT
1 TTT
15819680 GTATTATGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (31 bp):
TTTCTAAGAAAATGACTTAAAGACTGAAAAT
Found at i:15829414 original size:26 final size:26
Alignment explanation
Indices: 15829385--15829447 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
15829375 TACAAAGGTA
15829385 AATGCAAAATATTTATGATAAAAAAT
1 AATGCAAAATATTTATGATAAAAAAT
15829411 AATGCAAAATATTTATGATAAAAAAT
1 AATGCAAAATATTTATGATAAAAAAT
*
15829437 AATGAAAAATA
1 AATGCAAAATA
15829448 AGGAGCTGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (26 bp):
AATGCAAAATATTTATGATAAAAAAT
Found at i:15830017 original size:34 final size:34
Alignment explanation
Indices: 15829978--15830076 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 34
15829968 TGTATTATTG
* *
15829978 GATATGCATATTTGGTAACATAAAGAACTTATCA
1 GATATGCATATCTGATAACATAAAGAACTTATCA
* * *
15830012 TATATGTATATCTGATAACATAAAGAATTTATCA
1 GATATGCATATCTGATAACATAAAGAACTTATCA
* *
15830046 GATATGTATAATCCG-TAACATACAA-AACTTA
1 GATATGCAT-ATCTGATAACATA-AAGAACTTA
15830077 CCGAGTTTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
34 49 0.89
35 6 0.11
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (34 bp):
GATATGCATATCTGATAACATAAAGAACTTATCA
Found at i:15832763 original size:61 final size:62
Alignment explanation
Indices: 15832666--15832793 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 62
15832656 TTATCTAGTA
* * *
15832666 AAAATCTCACAAATTCTCATCATAAATAATATAATTATAAAATAAATAAAACATAGTAAATT
1 AAAATCTCACAAATTCTCACCATAAATAATAGAATTATAAAATAAATAAAACATAGTAAACT
* * * * * *
15832728 AAAA-CTCACAAATTCTCACCATAGATGATGGAATTATGAAATATATAAAACTTAGTAAACT
1 AAAATCTCACAAATTCTCACCATAAATAATAGAATTATAAAATAAATAAAACATAGTAAACT
15832789 AAAAT
1 AAAAT
15832794 TCAAATATCA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 52 0.93
62 4 0.07
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.29
Consensus pattern (62 bp):
AAAATCTCACAAATTCTCACCATAAATAATAGAATTATAAAATAAATAAAACATAGTAAACT
Found at i:15833076 original size:15 final size:15
Alignment explanation
Indices: 15833043--15833092 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
15833033 TAAATCTCAT
*
15833043 AAAATAATATATTTA
1 AAAATAATATATTAA
15833058 AAAATAATA-ATATAA
1 AAAATAATATAT-TAA
15833073 AAAATGAAT-TAGTTAA
1 AAAAT-AATATA-TTAA
15833089 AAAA
1 AAAA
15833093 GATAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 2 0.07
15 16 0.53
16 11 0.37
17 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (15 bp):
AAAATAATATATTAA
Found at i:15833231 original size:17 final size:18
Alignment explanation
Indices: 15833194--15833246 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
15833184 CCTACAAATG
**
15833194 AAATAATATAATATTAAC
1 AAATAATATAATAACAAC
15833212 AAATAATAT-ATAACAAC
1 AAATAATATAATAACAAC
15833229 -AA-AATATAATAACTAAC
1 AAATAATATAATAAC-AAC
15833246 A
1 A
15833247 TTATGCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 5 0.17
16 7 0.23
17 9 0.30
18 9 0.30
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAATATAATAACAAC
Found at i:15835897 original size:10 final size:11
Alignment explanation
Indices: 15835877--15835936 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 11
15835867 CTTAGTGAGC
15835877 TTTCTTTTTTT
1 TTTCTTTTTTT
15835888 TTTCTTTTTTT
1 TTTCTTTTTTT
15835899 AAATTTCTTTCTTTCT
1 ---TTTCTTT-TTT-T
15835915 TTTCTTTCATTTT
1 TTTCTTT--TTTT
15835928 TTTCTTTTT
1 TTTCTTTTT
15835937 AATAAAAGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
11 13 0.31
13 15 0.36
14 10 0.24
15 3 0.07
16 1 0.02
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:15835916 original size:22 final size:22
Alignment explanation
Indices: 15835888--15835934 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
15835878 TTCTTTTTTT
15835888 TTTCTTTT-TTTAAATTTCTTTC
1 TTTCTTTTCTTT-AATTTCTTTC
* *
15835910 TTTCTTTTCTTTCATTTTTTTC
1 TTTCTTTTCTTTAATTTCTTTC
15835932 TTT
1 TTT
15835935 TTAATAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTTTTCTTTAATTTCTTTC
Found at i:15837726 original size:37 final size:37
Alignment explanation
Indices: 15837682--15837758 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
15837672 TGTCACAGTG
* *
15837682 ATAAATTTGTAATAATGATGATATATAGTCGATAGTA
1 ATAAATTTGTAATAATAATGATATATAGTCAATAGTA
*
15837719 ATAAATTTGTAATAGTAATGATATATAGTCAATAGTA
1 ATAAATTTGTAATAATAATGATATATAGTCAATAGTA
15837756 ATA
1 ATA
15837759 TATTATGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (37 bp):
ATAAATTTGTAATAATAATGATATATAGTCAATAGTA
Found at i:15837754 original size:20 final size:19
Alignment explanation
Indices: 15837702--15837761 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
15837692 AATAATGATG
*
15837702 ATATATAGTCGATAGTAAT
1 ATATATAGTCAATAGTAAT
* *
15837721 AAAT-TTGT-AATAGTAAT
1 ATATATAGTCAATAGTAAT
15837738 GATATATAGTCAATAGTAAT
1 -ATATATAGTCAATAGTAAT
15837758 ATAT
1 ATAT
15837762 TATGTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 8 0.24
18 6 0.18
19 10 0.30
20 9 0.27
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.38
Consensus pattern (19 bp):
ATATATAGTCAATAGTAAT
Found at i:15837761 original size:17 final size:17
Alignment explanation
Indices: 15837702--15837761 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
15837692 AATAATGATG
*
15837702 ATATATAGTCGATAGTA
1 ATATATAGTCAATAGTA
* *
15837719 ATAAATTTGT-AATAGTAA
1 ATATA-TAGTCAATAGT-A
15837737 TGATATATAGTCAATAGTA
1 --ATATATAGTCAATAGTA
15837756 ATATAT
1 ATATAT
15837762 TATGTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
17 15 0.45
18 4 0.12
19 4 0.12
20 10 0.30
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.38
Consensus pattern (17 bp):
ATATATAGTCAATAGTA
Found at i:15840053 original size:20 final size:20
Alignment explanation
Indices: 15840017--15840054 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15840007 CTATTAGCTC
*
15840017 TTTTTTTTACTTATTTTTAG
1 TTTTTTTTACATATTTTTAG
15840037 TTTTTTTTATCAT-TTTTT
1 TTTTTTTTA-CATATTTTT
15840055 TCATTTACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTTTTACATATTTTTAG
Found at i:15843780 original size:63 final size:63
Alignment explanation
Indices: 15843681--15843807 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
15843671 TGCAAGATAG
*
15843681 GCTGTGCTATTTATATACACACAAACAATTAACAACTGATGACTATGAGTGAGTGAGGCCATT
1 GCTGTGCTATTTATATACACACAAACAATTAACAACTGATGACTATGAGTGAGTAAGGCCATT
* * *
15843744 GCTGTGCTATTTATATATACATAAACAATTAACAACTGATGACTCTGAGTGAGTAAGGCCATT
1 GCTGTGCTATTTATATACACACAAACAATTAACAACTGATGACTATGAGTGAGTAAGGCCATT
15843807 G
1 G
15843808 ACTCATTGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (63 bp):
GCTGTGCTATTTATATACACACAAACAATTAACAACTGATGACTATGAGTGAGTAAGGCCATT
Found at i:15844852 original size:25 final size:24
Alignment explanation
Indices: 15844824--15844870 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
15844814 AAATAAACAG
15844824 TTTTAACTATTTAAAAATAGATAGT
1 TTTTAACTA-TTAAAAATAGATAGT
** *
15844849 TTTTGTCTATTCAAAATAGATA
1 TTTTAACTATTAAAAATAGATA
15844871 ATCATGTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (24 bp):
TTTTAACTATTAAAAATAGATAGT
Found at i:15852413 original size:11 final size:11
Alignment explanation
Indices: 15852397--15852421 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15852387 ATTTTATGTG
15852397 TTTATCTTGCA
1 TTTATCTTGCA
15852408 TTTATCTTGCA
1 TTTATCTTGCA
15852419 TTT
1 TTT
15852422 CAATAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTATCTTGCA
Found at i:15854850 original size:22 final size:21
Alignment explanation
Indices: 15854819--15854862 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
15854809 CTATAAGACT
15854819 TTCGAATATAAGCTTTAACACC
1 TTCGAATATAAGCTTTAA-ACC
* *
15854841 TTCGAGTATAATCTTTAAACC
1 TTCGAATATAAGCTTTAAACC
15854862 T
1 T
15854863 ATGGGTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (21 bp):
TTCGAATATAAGCTTTAAACC
Found at i:15855124 original size:58 final size:58
Alignment explanation
Indices: 15854896--15855247 Score: 248
Period size: 58 Copynumber: 6.1 Consensus size: 58
15854886 TTTGACTTTA
* * * * * *
15854896 CATTTTGACTTATGCTCA-ATCCAAATCATTTTCGATCTTGGCTCAGTC-AGGTTATCTT
1 CATTCTGACTTAGGCTCAGA-CCAAGTCATTTTCTATCTTGGCTTAGTCTA-GTCATCTT
* ** * * * *
15854954 CATTCTAACTTAGGCAT-AGAGTAAGTCATTTTTTACCATGGCTTAGTCTGGTCATCTT
1 CATTCTGACTTAGGC-TCAGACCAAGTCATTTTCTATCTTGGCTTAGTCTAGTCATCTT
* * * * * * **
15855012 TACTTC-GACTTAGGCTTAGACTAAATCATCTTCTATCTTGGCTCAGTCCCGTCATCTT
1 CA-TTCTGACTTAGGCTCAGACCAAGTCATTTTCTATCTTGGCTTAGTCTAGTCATCTT
* * * *
15855070 CATTCTAACTTAGGCTCAGACCATGTCATTTTCAATCTTAGCTTAGTCTAGTCAT-TAT
1 CATTCTGACTTAGGCTCAGACCAAGTCATTTTCTATCTTGGCTTAGTCTAGTCATCT-T
* * * * * ** *
15855128 TATTTTGACTTAGGCTCAGATCATGTCATTTTTTATCTCAGCTTAGTCTGGTCATCTT
1 CATTCTGACTTAGGCTCAGACCAAGTCATTTTCTATCTTGGCTTAGTCTAGTCATCTT
* * * * * * *
15855186 CATT-TCGACTTAAGCTCAAACCAAGTCATCTTCAATCTTGACTTAATCTAGTCACCTT
1 CATTCT-GACTTAGGCTCAGACCAAGTCATTTTCTATCTTGGCTTAGTCTAGTCATCTT
15855244 CATT
1 CATT
15855248 TTTTTTATTT
Statistics
Matches: 227, Mismatches: 58, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
57 6 0.03
58 215 0.95
59 6 0.03
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (58 bp):
CATTCTGACTTAGGCTCAGACCAAGTCATTTTCTATCTTGGCTTAGTCTAGTCATCTT
Found at i:15855165 original size:116 final size:115
Alignment explanation
Indices: 15854897--15855249 Score: 320
Period size: 116 Copynumber: 3.0 Consensus size: 115
15854887 TTGACTTTAC
* * *
15854897 ATTTTGACTTATGCTCA-ATCCAAATCATTTTCGATCTTGGCTCAGTCAGGTTATCTTCATTCTA
1 ATTTTGACTTAGGCTCAGAT-CAAATCATTTTCTATCTTGGCTCAGTCAGGTCATCTTCATTCTA
** ** * * *
15854961 ACTTAGGCAT-AGAGTAAGTCATTTTTTACCATGGCTTAGTCTGGTCATCTTT
65 ACTTAGGC-TCAGACCAAGTCATTTTCAATC-TTGCTTAGTCTAGTCATCTTT
* * * * **
15855013 ACTTCGACTTAGGCTTAGA-CTAAATCATCTTCTATCTTGGCTCAGTCCCGTCATCTTCATTCTA
1 ATTTTGACTTAGGCTCAGATC-AAATCATTTTCTATCTTGGCTCAGTCAGGTCATCTTCATTCTA
*
15855077 ACTTAGGCTCAGACCATGTCATTTTCAATCTTAGCTTAGTCTAGTCAT-TATT
65 ACTTAGGCTCAGACCAAGTCATTTTCAATCTT-GCTTAGTCTAGTCATCT-TT
** * ** * * *
15855129 ATTTTGACTTAGGCTCAGATCATGTCATTTTTTATCTCAGCTTAGTCTGGTCATCTTCATT-TCG
1 ATTTTGACTTAGGCTCAGATCAAATCATTTTCTATCTTGGCTCAGTCAGGTCATCTTCATTCT-A
* * * * * *
15855193 ACTTAAGCTCAAACCAAGTCATCTTCAATCTTGACTTAATCTAGTCACCTTC
65 ACTTAGGCTCAGACCAAGTCATTTTCAATCTTG-CTTAGTCTAGTCATCTTT
15855245 ATTTT
1 ATTTT
15855250 TTTTATTTTG
Statistics
Matches: 191, Mismatches: 37, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
115 6 0.03
116 182 0.95
117 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.41
Consensus pattern (115 bp):
ATTTTGACTTAGGCTCAGATCAAATCATTTTCTATCTTGGCTCAGTCAGGTCATCTTCATTCTAA
CTTAGGCTCAGACCAAGTCATTTTCAATCTTGCTTAGTCTAGTCATCTTT
Found at i:15855529 original size:65 final size:65
Alignment explanation
Indices: 15855421--15855551 Score: 167
Period size: 65 Copynumber: 2.0 Consensus size: 65
15855411 AAACCTAAAG
* * * * *
15855421 TAAGACCAAATCATATCATTTTCTAACTTTAGCTAAGTTTAAGTCATCAGTTTTGAAC-TTTGGC
1 TAAGACCAAATCATATCATTTTCTAACTTGAGCTAAATCTAAGTCATCAATTTTCAACTTTTGGC
* *
15855485 TAAGACCAAGTCAATATCATTTTCTGACTATGA-CTAAATCTAAGTCATCAATTTTCAACTTTTG
1 TAAGACCAAATC-ATATCATTTTCTAACT-TGAGCTAAATCTAAGTCATCAATTTTCAACTTTTG
15855549 GC
64 GC
15855551 T
1 T
15855552 TAGTACAAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 11 0.19
65 37 0.65
66 9 0.16
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (65 bp):
TAAGACCAAATCATATCATTTTCTAACTTGAGCTAAATCTAAGTCATCAATTTTCAACTTTTGGC
Found at i:15859111 original size:7 final size:8
Alignment explanation
Indices: 15859088--15859113 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15859078 ACACCCGTCC
15859088 AATGAAAA
1 AATGAAAA
15859096 AATGAAAA
1 AATGAAAA
15859104 AATGAAAA
1 AATGAAAA
15859112 AA
1 AA
15859114 AATGCAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AATGAAAA
Found at i:15859713 original size:6 final size:6
Alignment explanation
Indices: 15859704--15859736 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
15859694 CCCAACCCCA
15859704 AACCCT AACCCT AACCCT AACCCT AACCCT AAC
1 AACCCT AACCCT AACCCT AACCCT AACCCT AAC
15859737 AACAATTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:15864857 original size:21 final size:21
Alignment explanation
Indices: 15864831--15864877 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
15864821 GATATTTAAA
15864831 TCACTATATAGAAGCTAACTT
1 TCACTATATAGAAGCTAACTT
15864852 TCACTATATAGAAGCTAACTT
1 TCACTATATAGAAGCTAACTT
*
15864873 ACACT
1 TCACT
15864878 TAGAGATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
TCACTATATAGAAGCTAACTT
Found at i:15866856 original size:3 final size:3
Alignment explanation
Indices: 15866834--15866876 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
15866824 TGCATAAAAT
* * *
15866834 TTA TTA TTG TTA TTG CTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15866877 GCATAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15867015 original size:21 final size:22
Alignment explanation
Indices: 15866991--15867045 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
15866981 AATTAACAAG
*
15866991 ACATAAAATTAAATTTAAATA-
1 ACATAAAATTAAATATAAATAT
*
15867012 ACATAAAATAAAATATAAATAT
1 ACATAAAATTAAATATAAATAT
15867034 A-ATTAAAATTAA
1 ACA-TAAAATTAA
15867046 CACACATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
ACATAAAATTAAATATAAATAT
Found at i:15868107 original size:23 final size:23
Alignment explanation
Indices: 15868080--15868125 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15868070 CATTTTTTTC
*
15868080 CTCCTTTCCCTCTTT-TTCTTCAA
1 CTCCTTTCCCCCTTTCTT-TTCAA
15868103 CTCCTTTCCCCCTTTCTTTTCAA
1 CTCCTTTCCCCCTTTCTTTTCAA
15868126 GAAGGAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (23 bp):
CTCCTTTCCCCCTTTCTTTTCAA
Found at i:15868367 original size:18 final size:19
Alignment explanation
Indices: 15868340--15868375 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15868330 TTACCCTTAA
15868340 TAGGTCGTTTT-TTATAAT
1 TAGGTCGTTTTCTTATAAT
*
15868358 TAGGTTGTTTTCTTATAA
1 TAGGTCGTTTTCTTATAA
15868376 ATCAATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.22, C:0.06, G:0.17, T:0.56
Consensus pattern (19 bp):
TAGGTCGTTTTCTTATAAT
Found at i:15869044 original size:23 final size:23
Alignment explanation
Indices: 15869005--15869054 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
15868995 TTCGACCCAA
*
15869005 GTTAACTTTGGGTCTCTAAATGG
1 GTTAACTTTGGGGCTCTAAATGG
**
15869028 GTTAA-TTTGTGGGCTCTTTATGG
1 GTTAACTTTG-GGGCTCTAAATGG
15869051 GTTA
1 GTTA
15869055 TAAATGATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.44
Consensus pattern (23 bp):
GTTAACTTTGGGGCTCTAAATGG
Found at i:15872818 original size:47 final size:47
Alignment explanation
Indices: 15872767--15872858 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
15872757 ATCCAAACCC
*
15872767 AACATTAAATTATCTTAAATTTTAATAAAAAATTAAAATATTTAACA
1 AACATTAAATTATCTTAAATTTTAACAAAAAATTAAAATATTTAACA
*
15872814 AACATTAAATTATTTTAAATTTTAACAAAAAATTAAAATATTTAA
1 AACATTAAATTATCTTAAATTTTAACAAAAAATTAAAATATTTAA
15872859 AAATTGAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (47 bp):
AACATTAAATTATCTTAAATTTTAACAAAAAATTAAAATATTTAACA
Found at i:15872837 original size:27 final size:29
Alignment explanation
Indices: 15872802--15872856 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
15872792 TAAAAAATTA
* *
15872802 AAATATTTAAC-AAACATTAAATTATTTT
1 AAATATTTAACAAAAAATTAAAATATTTT
15872830 AAAT-TTTAACAAAAAATTAAAATATTT
1 AAATATTTAACAAAAAATTAAAATATTT
15872857 AAAAATTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATATTTAACAAAAAATTAAAATATTTT
Found at i:15872857 original size:27 final size:27
Alignment explanation
Indices: 15872792--15872859 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
15872782 TAAATTTTAA
* * *
15872792 TAAAAAATTAAAATATTTAACAAACAT
1 TAAAATATTTAAATATTTAACAAAAAT
*
15872819 TAAATTATTTTAAAT-TTTAACAAAAAAT
1 TAAAATA-TTTAAATATTTAAC-AAAAAT
15872847 TAAAATATTTAAA
1 TAAAATATTTAAA
15872860 AATTGAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAATATTTAAATATTTAACAAAAAT
Found at i:15874488 original size:21 final size:21
Alignment explanation
Indices: 15874464--15874515 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
15874454 GAATCCTATT
15874464 GTAGCCTCTTAAAATCTTTCA
1 GTAGCCTCTTAAAATCTTTCA
15874485 GTAGCCTCTTAAAATCTTTCA
1 GTAGCCTCTTAAAATCTTTCA
15874506 -TCAGCCTCTT
1 GT-AGCCTCTT
15874516 CCTTGCTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (21 bp):
GTAGCCTCTTAAAATCTTTCA
Found at i:15884310 original size:36 final size:35
Alignment explanation
Indices: 15884225--15884299 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 35
15884215 AAAAAAGACG
* *
15884225 TTTTCATAATTATGATAAAAAGATATTATAATAAT
1 TTTTTATAATTATGATAAAAAAATATTATAATAAT
15884260 TTTTTACTAATTATGATAAAAAAAGTATTATAATAAT
1 TTTTTA-TAATTATGATAAAAAAA-TATTATAATAAT
15884297 TTT
1 TTT
15884300 AGTTTATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 5 0.14
36 16 0.44
37 15 0.42
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (35 bp):
TTTTTATAATTATGATAAAAAAATATTATAATAAT
Found at i:15885078 original size:2 final size:2
Alignment explanation
Indices: 15885071--15885104 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15885061 AGTTTCTCTT
15885071 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
15885105 AAGAATGATA
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
Done.