Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 13 of 133
Found at i:3359270 original size:21 final size:23
Alignment explanation
Indices: 3359218--3359276 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 23
3359208 GAATAAATTT
*
3359218 AAAATTATCTAATTTGTAATTAAA
1 AAAATTATCTTATTTGT-ATTAAA
3359242 AGAAATTATCTTATTT-T-TTAAA
1 A-AAATTATCTTATTTGTATTAAA
3359264 AAAATTATCTTAT
1 AAAATTATCTTAT
3359277 GTGTTATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 12 0.36
22 6 0.18
24 2 0.06
25 13 0.39
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (23 bp):
AAAATTATCTTATTTGTATTAAA
Found at i:3359286 original size:25 final size:24
Alignment explanation
Indices: 3359218--3359287 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
3359208 GAATAAATTT
* *
3359218 AAAATTATCTAATT-TGTAATTAAA
1 AAAATTATCTTATTGT-TATTTAAA
3359242 AGAAATTATCTTA-T-TT-TTTAAA
1 A-AAATTATCTTATTGTTATTTAAA
3359264 AAAATTATCTTATGTGTTATTTAA
1 AAAATTATCTTAT-TGTTATTTAA
3359288 TAGAGTTGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 11 0.28
22 6 0.15
23 2 0.05
24 5 0.13
25 15 0.38
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
AAAATTATCTTATTGTTATTTAAA
Found at i:3359352 original size:2 final size:2
Alignment explanation
Indices: 3359339--3359374 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
3359329 TGTATGTTGT
3359339 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3359375 TAGATTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3369696 original size:3 final size:3
Alignment explanation
Indices: 3369688--3369722 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
3369678 GTTGTCATAT
*
3369688 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3369723 TGTAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:3381180 original size:17 final size:17
Alignment explanation
Indices: 3381158--3381195 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3381148 AATTAGTGGC
*
3381158 AATCATAGATAAAAAA-A
1 AATCATA-AAAAAAAATA
3381175 AATCATAAAAAAAAATA
1 AATCATAAAAAAAAATA
3381192 AATC
1 AATC
3381196 CTGAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.18
Consensus pattern (17 bp):
AATCATAAAAAAAAATA
Found at i:3381184 original size:13 final size:13
Alignment explanation
Indices: 3381166--3381190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3381156 GCAATCATAG
3381166 ATAAAAAAAAATC
1 ATAAAAAAAAATC
3381179 ATAAAAAAAAAT
1 ATAAAAAAAAAT
3381191 AAATCCTGAA
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAAAAAATC
Found at i:3385390 original size:12 final size:13
Alignment explanation
Indices: 3385368--3385396 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3385358 TTTTGTTTTA
3385368 ATTTCATTTATTT
1 ATTTCATTTATTT
3385381 ATTT-ATTTATTT
1 ATTTCATTTATTT
3385393 ATTT
1 ATTT
3385397 TGCCAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTATTT
Found at i:3386081 original size:20 final size:20
Alignment explanation
Indices: 3386042--3386112 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
3386032 TAATTTTACA
*
3386042 TAATTTATATCATTAA-AAAT
1 TAATTTAT-TAATTAATAAAT
3386062 TAATTTATCT-ATTAATAAA-
1 TAATTTAT-TAATTAATAAAT
*
3386081 TATATTTATTAATTTAATAATT
1 TA-ATTTATTAA-TTAATAAAT
3386103 TAATTATATT
1 TAATT-TATT
3386113 TTATTATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
19 8 0.19
20 19 0.44
21 10 0.23
22 6 0.14
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATTTATTAATTAATAAAT
Found at i:3386933 original size:26 final size:26
Alignment explanation
Indices: 3386895--3386954 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
3386885 TTTAGGGTTC
* *
3386895 TTATTGAATGTCAAACGTGTGGTAAA
1 TTATTTAACGTCAAACGTGTGGTAAA
* *
3386921 TTATTTAACGTCAAAGGTGTGTTAAA
1 TTATTTAACGTCAAACGTGTGGTAAA
*
3386947 TTTTTTAA
1 TTATTTAA
3386955 AAAATTAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (26 bp):
TTATTTAACGTCAAACGTGTGGTAAA
Found at i:3391737 original size:22 final size:21
Alignment explanation
Indices: 3391702--3391765 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
3391692 TTAGTAGAAT
*
3391702 AATATAATTGAAATCAATATAG
1 AATATAATTAAAAT-AATATAG
* *
3391724 AATATTATTAAAATATTACTAG
1 AATATAATTAAAATAATA-TAG
*
3391746 AATATCATTAATAATAATAT
1 AATATAATTAA-AATAATAT
3391766 TTAAATCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.09
22 26 0.74
23 6 0.17
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
AATATAATTAAAATAATATAG
Found at i:3398551 original size:20 final size:20
Alignment explanation
Indices: 3398513--3398551 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3398503 AGGCTGTCAA
* * *
3398513 GAATTAAATTTTGATTATTG
1 GAATTAAAATTTCAATATTG
3398533 GAATTAAAATTTCAATATT
1 GAATTAAAATTTCAATATT
3398552 CTATCAACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (20 bp):
GAATTAAAATTTCAATATTG
Found at i:3402009 original size:2 final size:2
Alignment explanation
Indices: 3402002--3402033 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3401992 TTTCGAGGGA
3402002 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3402034 TTCACATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3413857 original size:26 final size:27
Alignment explanation
Indices: 3413810--3413860 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
3413800 TATAATTATA
*
3413810 TAAATTAAATAAATTAAGTTTTAAATT
1 TAAATTAAATAAATTAAATTTTAAATT
*
3413837 TAAATT-AATTAATTAAATTTTAAA
1 TAAATTAAATAAATTAAATTTTAAA
3413861 CTATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
TAAATTAAATAAATTAAATTTTAAATT
Found at i:3424154 original size:20 final size:20
Alignment explanation
Indices: 3424129--3424168 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3424119 TTTCTCCTGT
3424129 ATCACATGCATTATGTACTA
1 ATCACATGCATTATGTACTA
3424149 ATCACATGCATTATGTACTA
1 ATCACATGCATTATGTACTA
3424169 CAGGATAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCACATGCATTATGTACTA
Found at i:3425459 original size:11 final size:11
Alignment explanation
Indices: 3425445--3425486 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
3425435 AATTTTATAA
3425445 GAGATTTATTT
1 GAGATTTATTT
* *
3425456 GAGATTTGTTA
1 GAGATTTATTT
3425467 GAGATTTATTT
1 GAGATTTATTT
3425478 GAGATTTAT
1 GAGATTTAT
3425487 CAGATATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (11 bp):
GAGATTTATTT
Found at i:3425664 original size:51 final size:53
Alignment explanation
Indices: 3425542--3425666 Score: 137
Period size: 51 Copynumber: 2.4 Consensus size: 53
3425532 AAGAGAAAAA
* *
3425542 AAATTTTTAATAGGTAAGTTTAACTTAGCAAGAGAAAAATTCTAAAATGAAAG
1 AAATTTTTAATAGGCAAGTTTAACTTAGCAAGAGAAAAATTCTAAAAGGAAAG
* * * * * * *
3425595 AAATTCTTAATTGACAAGTTTAACTTA-CAA-AGAAGAATTCTAAGAGGAGAT
1 AAATTTTTAATAGGCAAGTTTAACTTAGCAAGAGAAAAATTCTAAAAGGAAAG
* *
3425646 AGATTTTTAATGGGCAAGTTT
1 AAATTTTTAATAGGCAAGTTT
3425667 GTATTGTTAT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
51 33 0.56
52 3 0.05
53 23 0.39
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (53 bp):
AAATTTTTAATAGGCAAGTTTAACTTAGCAAGAGAAAAATTCTAAAAGGAAAG
Found at i:3428569 original size:2 final size:2
Alignment explanation
Indices: 3428562--3428588 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3428552 CATCATGCAC
3428562 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3428589 GCTCCAGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3435478 original size:20 final size:20
Alignment explanation
Indices: 3435437--3435483 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
3435427 GTAAAATATA
3435437 ATAA-AAATTAAAAATTATT
1 ATAATAAATTAAAAATTATT
* *
3435456 ATATTAAATTAAATA-TATAT
1 ATAATAAATTAAAAATTAT-T
3435476 ATAATAAA
1 ATAATAAA
3435484 AATTTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATAAATTAAAAATTATT
Found at i:3435549 original size:42 final size:44
Alignment explanation
Indices: 3435503--3435590 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 44
3435493 ATATTTGATA
3435503 TTTATAAAATTATCAA-ATAATTAAAAATTAATAA-AAT-TATTT
1 TTTATAAAATTAT-AATATAATTAAAAATTAATAATAATATATTT
* **
3435545 TTTATAAAATTATAATTTTGTTAAAAATTAATAATAATATATTT
1 TTTATAAAATTATAATATAATTAAAAATTAATAATAATATATTT
3435589 TT
1 TT
3435591 AAATATTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 2 0.05
42 28 0.70
43 3 0.08
44 7 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (44 bp):
TTTATAAAATTATAATATAATTAAAAATTAATAATAATATATTT
Found at i:3435571 original size:18 final size:19
Alignment explanation
Indices: 3435541--3435579 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
3435531 TAATAAAATT
3435541 ATTTTTTATAAAATT-ATA
1 ATTTTTTATAAAATTAATA
3435559 ATTTTGTTA-AAAATTAATA
1 ATTTT-TTATAAAATTAATA
3435578 AT
1 AT
3435580 AATATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTTTTATAAAATTAATA
Found at i:3435781 original size:17 final size:17
Alignment explanation
Indices: 3435742--3435783 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3435732 ATTATAAAAA
*
3435742 TAATTATTTTTATGTAT
1 TAATTATTTTAATGTAT
*
3435759 TTATTATTTTAAT-TAAT
1 TAATTATTTTAATGT-AT
3435776 TAATTATT
1 TAATTATT
3435784 AATTAACTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TAATTATTTTAATGTAT
Found at i:3454966 original size:42 final size:42
Alignment explanation
Indices: 3454920--3455004 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
3454910 ATAGCATGTT
*
3454920 AACATAGAATTTCATTGATAATTTGTAATTGTTAAATAGACA
1 AACATAGAATTTCATTGACAATTTGTAATTGTTAAATAGACA
3454962 AACATAGAATTTCATTGACAATTTGTAATTGTTAAATAGACA
1 AACATAGAATTTCATTGACAATTTGTAATTGTTAAATAGACA
3455004 A
1 A
3455005 GCACAGAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (42 bp):
AACATAGAATTTCATTGACAATTTGTAATTGTTAAATAGACA
Found at i:3465515 original size:31 final size:31
Alignment explanation
Indices: 3465471--3465551 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 31
3465461 ACTATAAACA
*
3465471 ATGATGTTTAAATTATAATAAAATATTTAATAT
1 ATGATATTTAAATTATAA-AAAAT-TTTAATAT
*
3465504 -T-ATATTTAAATTTTAAAAAATTTTAATAT
1 ATGATATTTAAATTATAAAAAATTTTAATAT
3465533 ATGATATTTAAATTATAAA
1 ATGATATTTAAATTATAAA
3465552 TATGTTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 8 0.19
30 6 0.14
31 28 0.65
32 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (31 bp):
ATGATATTTAAATTATAAAAAATTTTAATAT
Found at i:3465563 original size:20 final size:21
Alignment explanation
Indices: 3465521--3465571 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
3465511 AAATTTTAAA
* *
3465521 AAATTTTAATATATGATATTT
1 AAATTATAATATATGATAATT
*
3465542 AAATTATAA-ATATGTTAATT
1 AAATTATAATATATGATAATT
3465562 -AA-TATAATAT
1 AAATTATAATAT
3465572 TTAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 9 0.35
21 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
AAATTATAATATATGATAATT
Found at i:3474107 original size:30 final size:30
Alignment explanation
Indices: 3474071--3474127 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
3474061 CTTACAGCTA
* *
3474071 GTTGTAATCTGTATTCCTAGAATTAAGTAT
1 GTTGTAATCTATATCCCTAGAATTAAGTAT
3474101 GTTGTAATCTATATCCCTAGAATTAAG
1 GTTGTAATCTATATCCCTAGAATTAAG
3474128 GACAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (30 bp):
GTTGTAATCTATATCCCTAGAATTAAGTAT
Found at i:3476861 original size:12 final size:13
Alignment explanation
Indices: 3476832--3476864 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3476822 CATTTTCTAT
3476832 AAAGAAAATTACA
1 AAAGAAAATTACA
*
3476845 CAAGAAAA-TACA
1 AAAGAAAATTACA
3476857 AAAGAAAA
1 AAAGAAAA
3476865 ATGAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAGAAAATTACA
Found at i:3480195 original size:10 final size:10
Alignment explanation
Indices: 3480182--3480331 Score: 58
Period size: 10 Copynumber: 14.5 Consensus size: 10
3480172 AATTCTAAAG
3480182 AATTTTGATA
1 AATTTTGATA
*
3480192 AATTTTAATA
1 AATTTTGATA
3480202 TAATTTTGATA
1 -AATTTTGATA
3480213 ATATTTT-ATA
1 A-ATTTTGATA
* *
3480223 TTATTTT-ATTT
1 -AATTTTGA-TA
*
3480234 ACTTTTGATA
1 AATTTTGATA
* *
3480244 CGATTTTAAT-
1 -AATTTTGATA
*
3480254 AATCTTTTATA
1 AAT-TTTGATA
*
3480265 TCATTTTGAT-
1 -AATTTTGATA
*
3480275 AA-TTTAATA
1 AATTTTGATA
*
3480284 TAATTTTAATA
1 -AATTTTGATA
* *
3480295 AATTTTTATTT
1 AATTTTGA-TA
3480306 AATTTTGATA
1 AATTTTGATA
*
3480316 ACTTTTGATA
1 AATTTTGATA
3480326 ATATTT
1 A-ATTT
3480332 GAGTAACTTT
Statistics
Matches: 104, Mismatches: 22, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
8 5 0.05
9 3 0.03
10 49 0.47
11 45 0.43
12 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (10 bp):
AATTTTGATA
Found at i:3480208 original size:11 final size:10
Alignment explanation
Indices: 3480182--3480311 Score: 63
Period size: 10 Copynumber: 12.6 Consensus size: 10
3480172 AATTCTAAAG
3480182 AATTTTGATA-
1 AATTTT-ATAT
3480192 AATTTTAATAT
1 AATTTT-ATAT
3480203 AATTTTGATA-
1 AATTTT-ATAT
3480213 ATATTTTATAT
1 A-ATTTTATAT
* *
3480224 TATTTTATTT
1 AATTTTATAT
* *
3480234 ACTTTTGATAC
1 AATTTT-ATAT
*
3480245 GATTTTA-AT
1 AATTTTATAT
3480254 AATCTTTTATAT
1 AA--TTTTATAT
* *
3480266 CATTTT-GAT
1 AATTTTATAT
*
3480275 AATTTAATAT
1 AATTTTATAT
3480285 AATTTTA-AT
1 AATTTTATAT
*
3480294 AAATTTTTATTT
1 -AA-TTTTATAT
3480306 AATTTT
1 AATTTT
3480312 GATAACTTTT
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
9 10 0.11
10 44 0.49
11 32 0.36
12 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (10 bp):
AATTTTATAT
Found at i:3480331 original size:21 final size:21
Alignment explanation
Indices: 3480182--3480321 Score: 101
Period size: 21 Copynumber: 6.8 Consensus size: 21
3480172 AATTCTAAAG
*
3480182 AATTTTGATAAATTTTAATAT
1 AATTTTGATAACTTTTAATAT
*
3480203 AATTTTGATAA-TATTTTATAT
1 AATTTTGATAACT-TTTAATAT
* * * *
3480224 TATTTT-ATTTACTTTTGATAC
1 AATTTTGA-TAACTTTTAATAT
* *
3480245 GATTTTAATAATCTTTT-ATAT
1 AATTTTGATAA-CTTTTAATAT
*
3480266 CATTTTGATAA--TTTAATAT
1 AATTTTGATAACTTTTAATAT
* * * *
3480285 AATTTTAATAAATTTTTATTT
1 AATTTTGATAACTTTTAATAT
3480306 AATTTTGATAACTTTT
1 AATTTTGATAACTTTT
3480322 GATAATATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
18 3 0.03
19 13 0.14
20 2 0.02
21 70 0.74
22 7 0.07
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (21 bp):
AATTTTGATAACTTTTAATAT
Found at i:3480427 original size:19 final size:18
Alignment explanation
Indices: 3480402--3480458 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
3480392 TTTGATAATT
3480402 TTTTTTATATAATTTTGA
1 TTTTTTATATAATTTTGA
* *
3480420 TATTTTTAATGTAATTTTGG
1 T-TTTTT-ATATAATTTTGA
*
3480440 TTTTTTATATAAATTTGA
1 TTTTTTATATAATTTTGA
3480458 T
1 T
3480459 GATTGTGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 11 0.34
19 10 0.31
20 11 0.34
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTTTTATATAATTTTGA
Found at i:3480445 original size:20 final size:20
Alignment explanation
Indices: 3480399--3480458 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
3480389 CATTTTGATA
*
3480399 ATTTTTTTTATATAATTTTG
1 ATTTTTTTAATATAATTTTG
* *
3480419 ATATTTTTAATGTAATTTTG
1 ATTTTTTTAATATAATTTTG
* *
3480439 -GTTTTTT-ATATAAATTTG
1 ATTTTTTTAATATAATTTTG
3480457 AT
1 AT
3480459 GATTGTGGGT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
ATTTTTTTAATATAATTTTG
Found at i:3480775 original size:21 final size:21
Alignment explanation
Indices: 3480749--3480824 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
3480739 ATTTAAAAAA
3480749 TTTAATATAGTTTTGATAACC
1 TTTAATATAGTTTTGATAACC
* * * *
3480770 TTTAATACAATGTTGTTAA-C
1 TTTAATATAGTTTTGATAACC
* * * *
3480790 TTTAGTAATA-ATTTAATAACT
1 TTTAAT-ATAGTTTTGATAACC
3480811 TTTAATATAGTTTT
1 TTTAATATAGTTTT
3480825 TAATTTCTGA
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.50
Consensus pattern (21 bp):
TTTAATATAGTTTTGATAACC
Found at i:3480884 original size:20 final size:20
Alignment explanation
Indices: 3480846--3480882 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
3480836 GTAAAGTTGT
*
3480846 TAATTTTTATATAATTTTGA
1 TAATTGTTATATAATTTTGA
3480866 TAATTGTTA-ATAATTTT
1 TAATTGTTATATAATTTT
3480883 TGCAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TAATTGTTATATAATTTTGA
Found at i:3480976 original size:11 final size:11
Alignment explanation
Indices: 3480960--3481009 Score: 64
Period size: 12 Copynumber: 4.4 Consensus size: 11
3480950 CTTATGATAT
3480960 TTTTTTAATAA
1 TTTTTTAATAA
3480971 TTTTTTATATAA
1 TTTTTTA-ATAA
*
3480983 TTTTTTGATAA
1 TTTTTTAATAA
*
3480994 TTTTTATATTAA
1 TTTTT-TAATAA
3481006 TTTT
1 TTTT
3481010 GACAACATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 16 0.47
12 18 0.53
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTTTAATAA
Found at i:3480993 original size:23 final size:22
Alignment explanation
Indices: 3480951--3481009 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
3480941 TTTTTATAAC
*
3480951 TTATGATATTTTTTTAATAATTTT
1 TTAT-ATAATTTTTTAATAA-TTT
*
3480975 TTATATAATTTTTTGATAATTT
1 TTATATAATTTTTTAATAATTT
3480997 TTATATTAATTTT
1 TTATA-TAATTTT
3481010 GACAACATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 8 0.25
23 20 0.62
24 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (22 bp):
TTATATAATTTTTTAATAATTT
Found at i:3487262 original size:24 final size:24
Alignment explanation
Indices: 3487210--3487263 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
3487200 CTAATAATTT
*
3487210 AAAATATAATACAATAACATAATA
1 AAAATATAATACAAAAACATAATA
* *
3487234 TAAATATAATACAAAAA-AGATATA
1 AAAATATAATACAAAAACATA-ATA
3487258 AAAATA
1 AAAATA
3487264 ATATAGTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATATAATACAAAAACATAATA
Found at i:3488048 original size:12 final size:13
Alignment explanation
Indices: 3488023--3488052 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
3488013 ATTTAATTTT
3488023 ATTAAAATTAATG
1 ATTAAAATTAATG
3488036 ATTAAAA-TAATG
1 ATTAAAATTAATG
3488048 ATTAA
1 ATTAA
3488053 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
ATTAAAATTAATG
Found at i:3489051 original size:10 final size:10
Alignment explanation
Indices: 3489036--3489069 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
3489026 TAAATTTTAA
3489036 ATTTAAAATT
1 ATTTAAAATT
3489046 ATTTAAAATT
1 ATTTAAAATT
3489056 ATTTAAAATT
1 ATTTAAAATT
3489066 ATTT
1 ATTT
3489070 TTTAAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTTAAAATT
Found at i:3489963 original size:13 final size:13
Alignment explanation
Indices: 3489945--3489969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3489935 CCTCTATCAC
3489945 TTTTTTTTGTCTT
1 TTTTTTTTGTCTT
3489958 TTTTTTTTGTCT
1 TTTTTTTTGTCT
3489970 CAACCCAATC
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:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGTCTT
Found at i:3494477 original size:11 final size:11
Alignment explanation
Indices: 3494461--3494485 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3494451 AATCTTGAAT
3494461 ATAAGCAAACC
1 ATAAGCAAACC
3494472 ATAAGCAAACC
1 ATAAGCAAACC
3494483 ATA
1 ATA
3494486 TTCCAACAAA
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:0.56, C:0.24, G:0.08, T:0.12
Consensus pattern (11 bp):
ATAAGCAAACC
Found at i:3497810 original size:12 final size:12
Alignment explanation
Indices: 3497789--3497821 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3497779 AGTTCAATTA
3497789 CCAATTCCAGTT
1 CCAATTCCAGTT
*
3497801 CCAGTTCCAGTT
1 CCAATTCCAGTT
3497813 CCAATTCCA
1 CCAATTCCA
3497822 AGTCAAAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.36, G:0.09, T:0.30
Consensus pattern (12 bp):
CCAATTCCAGTT
Found at i:3500428 original size:15 final size:15
Alignment explanation
Indices: 3500408--3500437 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3500398 AAAAACTCAA
3500408 ACATTCAATCTCTTT
1 ACATTCAATCTCTTT
*
3500423 ACATTCCATCTCTTT
1 ACATTCAATCTCTTT
3500438 CCTCTTTCCA
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:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (15 bp):
ACATTCAATCTCTTT
Found at i:3500725 original size:19 final size:20
Alignment explanation
Indices: 3500701--3500744 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3500691 ATACAAAAAA
3500701 TAAATAATTCA-TAAATATT
1 TAAATAATTCATTAAATATT
*
3500720 TAAATAATTTATTAAATATT
1 TAAATAATTCATTAAATATT
*
3500740 AAAAT
1 TAAAT
3500745 TTAAAGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATTCATTAAATATT
Found at i:3505300 original size:2 final size:2
Alignment explanation
Indices: 3505293--3505322 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3505283 TTCACTCTTA
3505293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3505323 GGGCTCAAAT
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3507422 original size:18 final size:18
Alignment explanation
Indices: 3507396--3507433 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3507386 AAAATTTTAA
*
3507396 TTTTAATTTGATTTAATT
1 TTTTAATTTAATTTAATT
*
3507414 TTTTTATTTAATTTAATT
1 TTTTAATTTAATTTAATT
3507432 TT
1 TT
3507434 ATTTTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTAATTTAATTTAATT
Found at i:3508010 original size:20 final size:19
Alignment explanation
Indices: 3507969--3508012 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
3507959 TTTCGAGATA
* * *
3507969 TTTAGTTTGATTTTGGGTT
1 TTTAGTTTGATTATAGGAT
3507988 TTTAGATTTGATTATAGGAT
1 TTTAG-TTTGATTATAGGAT
3508008 TTTAG
1 TTTAG
3508013 GTTTAGAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (19 bp):
TTTAGTTTGATTATAGGAT
Found at i:3508623 original size:15 final size:18
Alignment explanation
Indices: 3508586--3508637 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 18
3508576 ATATTTTGCA
3508586 TAATTGCATGATTATATT
1 TAATTGCATGATTATATT
3508604 TAATTGCATGA-TA-A-T
1 TAATTGCATGATTATATT
*
3508619 TAATTGCATTATTAT-TT
1 TAATTGCATGATTATATT
3508636 TA
1 TA
3508638 TTATTATTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 11 0.37
16 3 0.10
17 5 0.17
18 11 0.37
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (18 bp):
TAATTGCATGATTATATT
Found at i:3508678 original size:13 final size:11
Alignment explanation
Indices: 3508626--3508682 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
3508616 AATTAATTGC
3508626 ATTATTATTTT
1 ATTATTATTTT
**
3508637 ATTATTATTGC
1 ATTATTATTTT
3508648 ATGATATT-TTTT
1 AT--TATTATTTT
3508660 ATTATTATTTT
1 ATTATTATTTT
3508671 ATGGTATTATTT
1 AT--TATTATTT
3508683 GCATGATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 4 0.11
11 17 0.46
12 4 0.11
13 12 0.32
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:3508678 original size:23 final size:24
Alignment explanation
Indices: 3508621--3508682 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
3508611 ATGATAATTA
3508621 ATTGCAT--TATTATTTTATTATT
1 ATTGCATGATATTATTTTATTATT
3508643 ATTGCATGATATT-TTTTATTATT
1 ATTGCATGATATTATTTTATTATT
** *
3508666 ATTTTATGGTATTATTT
1 ATTGCATGATATTATTT
3508683 GCATGATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.21
23 20 0.59
24 7 0.21
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (24 bp):
ATTGCATGATATTATTTTATTATT
Found at i:3512390 original size:60 final size:60
Alignment explanation
Indices: 3512320--3512446 Score: 218
Period size: 60 Copynumber: 2.1 Consensus size: 60
3512310 ACATATACTG
* *
3512320 AGCTATTCCTAAAATTGGTTAAGAATGATGTAGTATCTTCAATTCTTTTGAAACCATTGA
1 AGCTACTCCTAAAATTGGTTAAGAATGACGTAGTATCTTCAATTCTTTTGAAACCATTGA
* *
3512380 AGCTACTCCTAAAATTGGTTAAGAATGACGTGGTATCTTTAATTCTTTTGAAACCATTGA
1 AGCTACTCCTAAAATTGGTTAAGAATGACGTAGTATCTTCAATTCTTTTGAAACCATTGA
3512440 AGCTACT
1 AGCTACT
3512447 TTATCCCAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (60 bp):
AGCTACTCCTAAAATTGGTTAAGAATGACGTAGTATCTTCAATTCTTTTGAAACCATTGA
Found at i:3513326 original size:19 final size:19
Alignment explanation
Indices: 3513304--3513341 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
3513294 AAAAAATGAT
3513304 GAAA-AGTATAAAAAAAAAA
1 GAAATAGTA-AAAAAAAAAA
3513323 GAAATAGTAAAAAAAAAAA
1 GAAATAGTAAAAAAAAAAA
3513342 ACAAATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
GAAATAGTAAAAAAAAAAA
Found at i:3513331 original size:20 final size:20
Alignment explanation
Indices: 3513304--3513347 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3513294 AAAAAATGAT
*
3513304 GAAA-AGTATAAAAAAAAAA
1 GAAATAGTAAAAAAAAAAAA
3513323 GAAATAGTAAAAAAAAAAAA
1 GAAATAGTAAAAAAAAAAAA
*
3513343 CAAAT
1 GAAAT
3513348 TGATGGGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (20 bp):
GAAATAGTAAAAAAAAAAAA
Found at i:3514926 original size:42 final size:42
Alignment explanation
Indices: 3514874--3514965 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 42
3514864 TTTCGAAGGA
* *
3514874 GAATCTTTGAATTTTATC-TATGAACCTTGAAATCTTTG-ATGT
1 GAATCATTGAATTTT-TCATATGAAACTTGAAAT-TTTGAATGT
*
3514916 GAATCATTGAATTTTTCAAATATGAAACTTTAAATTTTGAATGT
1 GAATCATTGAATTTTTC--ATATGAAACTTGAAATTTTGAATGT
3514960 GAATCA
1 GAATCA
3514966 CAAACAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
41 2 0.05
42 14 0.33
43 4 0.09
44 23 0.53
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (42 bp):
GAATCATTGAATTTTTCATATGAAACTTGAAATTTTGAATGT
Found at i:3515107 original size:52 final size:52
Alignment explanation
Indices: 3515026--3515243 Score: 183
Period size: 52 Copynumber: 4.2 Consensus size: 52
3515016 GACAAAGTTC
* * * *
3515026 AAATTCTTTCAAATCTAT-AAATTCTTGTGAAACTTTGAGTTCTTATGAATCTG
1 AAATTCTTACAAAT-T-TGAAATTCTTGTGAATCTTTGAGTTCTTACGAAACTG
* * *
3515079 AAAATTTTTACAGATTTG-AATTCTTGTGAATCTTTG-GATTTTTACGAAACTG
1 -AAATTCTTACAAATTTGAAATTCTTGTGAATCTTTGAG-TTCTTACGAAACTG
* * * * * *
3515131 AAATTCTTGCAAATTTGAAAGTCTTGTGAATCTTTGAGTTCTTGCAAAATTA
1 AAATTCTTACAAATTTGAAATTCTTGTGAATCTTTGAGTTCTTACGAAACTG
** * * * * *
3515183 AAATTCTTATGAATATGAAAGTCTTGTGAATGTTTGAATTCTTGA-GAAATTG
1 AAATTCTTACAAATTTGAAATTCTTGTGAATCTTTGAGTTCTT-ACGAAACTG
3515235 AAATTCTTA
1 AAATTCTTA
3515244 TGAATCTGAG
Statistics
Matches: 134, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
51 15 0.11
52 106 0.79
53 2 0.01
54 11 0.08
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (52 bp):
AAATTCTTACAAATTTGAAATTCTTGTGAATCTTTGAGTTCTTACGAAACTG
Found at i:3515289 original size:50 final size:50
Alignment explanation
Indices: 3515159--3515300 Score: 142
Period size: 50 Copynumber: 2.8 Consensus size: 50
3515149 AAGTCTTGTG
* * * ***
3515159 AATCTTTGAGTTCTTGCAAAATTAAAATTCTTATGAATATGAAAGTCTTGTG
1 AATCTTTAAATTCTTG-AAAATTAAAATTCTTATGAATCTG-AAGTCTTACA
* * *
3515211 AATGTTTGAATTCTTGAGAAATTGAAATTCTTATGAATCTG-AGTCTTACA
1 AATCTTTAAATTCTTGA-AAATTAAAATTCTTATGAATCTGAAGTCTTACA
* *
3515261 AATCTTTAAATTGTTGTAAAATTAAAATTCTTACGAATCT
1 AATCTTTAAATTCTTG-AAAATTAAAATTCTTATGAATCT
3515301 TTGAATTTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
50 39 0.51
51 2 0.03
52 35 0.46
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (50 bp):
AATCTTTAAATTCTTGAAAATTAAAATTCTTATGAATCTGAAGTCTTACA
Found at i:3515294 original size:35 final size:35
Alignment explanation
Indices: 3515254--3515328 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
3515244 TGAATCTGAG
*
3515254 TCTTACAAATCTTTAAATTGTTGTAAAATTAAAAT
1 TCTTACAAATCTTTAAATTGTTGCAAAATTAAAAT
* * * * *
3515289 TCTTACGAATCTTTGAATTTTTGCAAATTTGAAAT
1 TCTTACAAATCTTTAAATTGTTGCAAAATTAAAAT
3515324 TCTTA
1 TCTTA
3515329 TGAATTTGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (35 bp):
TCTTACAAATCTTTAAATTGTTGCAAAATTAAAAT
Found at i:3515365 original size:25 final size:25
Alignment explanation
Indices: 3515337--3515384 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3515327 TATGAATTTG
**
3515337 AAAATCTTTGTGAATCTAAAAACTT
1 AAAATCTTTACGAATCTAAAAACTT
*
3515362 AAAATTTTTACGAATCTAAAAAC
1 AAAATCTTTACGAATCTAAAAAC
3515385 CTTTGCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (25 bp):
AAAATCTTTACGAATCTAAAAACTT
Found at i:3515395 original size:36 final size:36
Alignment explanation
Indices: 3515355--3515424 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
3515345 TGTGAATCTA
*
3515355 AAAACTTAAAAT-TTTTACGAATCTAAAAACCTTTGC
1 AAAACTT-AAATCCTTTACGAATCTAAAAACCTTTGC
* * *
3515391 AAAACTTGAATCCTTTATGAATCTAGAAACCTTT
1 AAAACTTAAATCCTTTACGAATCTAAAAACCTTT
3515425 ATGAATCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 3 0.10
36 26 0.90
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (36 bp):
AAAACTTAAATCCTTTACGAATCTAAAAACCTTTGC
Found at i:3515423 original size:18 final size:19
Alignment explanation
Indices: 3515402--3515437 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
3515392 AAACTTGAAT
3515402 CCTTTATGAATC-TAGAAA
1 CCTTTATGAATCTTAGAAA
3515420 CCTTTATGAATCTTAGAA
1 CCTTTATGAATCTTAGAA
3515438 TCTTTGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
CCTTTATGAATCTTAGAAA
Found at i:3515442 original size:18 final size:18
Alignment explanation
Indices: 3515398--3515480 Score: 64
Period size: 18 Copynumber: 4.5 Consensus size: 18
3515388 TGCAAAACTT
3515398 GAATCCTTTATGAATC-TA
1 GAAT-CTTTATGAATCTTA
*
3515416 GAAACCTTTATGAATCTTA
1 G-AATCTTTATGAATCTTA
*
3515435 GAATCTTTGA-GAAT-TTT
1 GAATCTTT-ATGAATCTTA
* *
3515452 GAATCATTTATTAACTTTTA
1 GAATC-TTTATGAA-TCTTA
3515472 GAATCTTTA
1 GAATCTTTA
3515481 CGAAACTTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
17 8 0.15
18 27 0.51
19 11 0.21
20 7 0.13
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (18 bp):
GAATCTTTATGAATCTTA
Found at i:3515506 original size:18 final size:16
Alignment explanation
Indices: 3515477--3515559 Score: 66
Period size: 17 Copynumber: 5.2 Consensus size: 16
3515467 TTTTAGAATC
*
3515477 TTTACGAAACTTGAAA
1 TTTATGAAACTTGAAA
*
3515493 TTTTTGCAAAACTTGAAA
1 TTTATG--AAACTTGAAA
3515511 CTTTATGAAACTTGAAA
1 -TTTATGAAACTTGAAA
3515528 --T-TGAAACTTGAAA
1 TTTATGAAACTTGAAA
* *
3515541 CTTTGTGAATCTT-AAA
1 -TTTATGAAACTTGAAA
3515557 TTT
1 TTT
3515560 TTGCTAATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
13 12 0.21
14 1 0.02
15 3 0.05
16 8 0.14
17 17 0.30
18 10 0.18
19 5 0.09
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (16 bp):
TTTATGAAACTTGAAA
Found at i:3515523 original size:17 final size:17
Alignment explanation
Indices: 3515476--3515549 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
3515466 CTTTTAGAAT
*
3515476 CTTTACGAAACTTGAAA
1 CTTTATGAAACTTGAAA
*
3515493 -TTTTTGCAAAACTTGAAA
1 CTTTATG--AAACTTGAAA
3515511 CTTTATGAAACTTGAAA
1 CTTTATGAAACTTGAAA
3515528 ---T-TGAAACTTGAAA
1 CTTTATGAAACTTGAAA
*
3515541 CTTTGTGAA
1 CTTTATGAA
3515550 TCTTAAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
13 12 0.26
14 1 0.02
16 5 0.11
17 14 0.30
18 10 0.21
19 5 0.11
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (17 bp):
CTTTATGAAACTTGAAA
Found at i:3515533 original size:6 final size:7
Alignment explanation
Indices: 3515501--3515543 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
3515491 AATTTTTGCA
3515501 AAACTTG
1 AAACTTG
3515508 AAACTTTATG
1 AAAC--T-TG
3515518 AAACTTG
1 AAACTTG
3515525 AAA-TTG
1 AAACTTG
3515531 AAACTTG
1 AAACTTG
3515538 AAACTT
1 AAACTT
3515544 TGTGAATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 6 0.19
7 18 0.56
8 1 0.03
9 1 0.03
10 6 0.19
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (7 bp):
AAACTTG
Found at i:3515534 original size:13 final size:13
Alignment explanation
Indices: 3515516--3515540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3515506 TGAAACTTTA
3515516 TGAAACTTGAAAT
1 TGAAACTTGAAAT
3515529 TGAAACTTGAAA
1 TGAAACTTGAAA
3515541 CTTTGTGAAT
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (13 bp):
TGAAACTTGAAAT
Found at i:3515535 original size:30 final size:29
Alignment explanation
Indices: 3515501--3515558 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
3515491 AATTTTTGCA
3515501 AAACTTGAAACTTTATGAAACTTGAAATTG
1 AAACTTGAAACTTTATGAAACTT-AAATTG
* *
3515531 AAACTTGAAACTTTGTGAATCTTAAATT
1 AAACTTGAAACTTTATGAAACTTAAATT
3515559 TTTGCTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (29 bp):
AAACTTGAAACTTTATGAAACTTAAATTG
Found at i:3516730 original size:20 final size:20
Alignment explanation
Indices: 3516705--3516746 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3516695 TAGAGGGAAG
* *
3516705 TTTTAGGTTTTTGGATTTTT
1 TTTTAGATTTTTAGATTTTT
*
3516725 TTTTAGATTTTTATATTTTT
1 TTTTAGATTTTTAGATTTTT
3516745 TT
1 TT
3516747 AATAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (20 bp):
TTTTAGATTTTTAGATTTTT
Found at i:3517206 original size:17 final size:17
Alignment explanation
Indices: 3517182--3517221 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
3517172 ATTTTGCTTT
*
3517182 TTTATATATTATTATTATA
1 TTTATAT-TTAATA-TATA
3517201 TTTATATTTAATATATA
1 TTTATATTTAATATATA
3517218 TTTA
1 TTTA
3517222 ATTGCATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 5 0.25
19 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATTTAATATATA
Found at i:3517382 original size:21 final size:22
Alignment explanation
Indices: 3517346--3517391 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
3517336 ATAATAATTA
*
3517346 ATTGCATTGTTA-TTTTATTATT
1 ATTGCATTGATATTTTTA-TATT
3517368 ATTGCA-TGATATTTTTATATT
1 ATTGCATTGATATTTTTATATT
3517389 ATT
1 ATT
3517392 ATTTTATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (22 bp):
ATTGCATTGATATTTTTATATT
Found at i:3517745 original size:102 final size:106
Alignment explanation
Indices: 3517565--3517765 Score: 239
Period size: 102 Copynumber: 1.9 Consensus size: 106
3517555 TTTTTTGAAA
* * * ** * *
3517565 AAATATATTTTTTAAACATTACCAACATATTGGAGGATAATTTTTTATGAAAAATTTTACCAACT
1 AAATATATTTTTTAAACACTACCAACATATTAGAGGATAATTTTTGACAAAAAATCTTACCAACA
*
3517630 TAGTAAAAGATATTCTG-AAAGTAAATT-ATTTTTACAAAC
66 TAGTAAAAGATATTCTGAAAAATAAATTGATTTTTACAAAC
* * *
3517669 AAATA-ATTTTTTAATC-CTACCAACATATTAGAGTATAATTTTTGACAAAAAATCTTATCAACA
1 AAATATATTTTTTAAACACTACCAACATATTAGAGGATAATTTTTGACAAAAAATCTTACCAACA
* * * *
3517732 TATTGAAATATATTTTGAAAAATAAATTGATTTT
66 TAGTAAAAGATATTCTGAAAAATAAATTGATTTT
3517766 AGAAGTCAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
102 51 0.64
103 19 0.24
104 10 0.12
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.39
Consensus pattern (106 bp):
AAATATATTTTTTAAACACTACCAACATATTAGAGGATAATTTTTGACAAAAAATCTTACCAACA
TAGTAAAAGATATTCTGAAAAATAAATTGATTTTTACAAAC
Found at i:3528164 original size:15 final size:15
Alignment explanation
Indices: 3528146--3528179 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3528136 AAAATTTTAG
3528146 AAATAAAA-AATAAAT
1 AAATAAAATAA-AAAT
3528161 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
3528176 AAAT
1 AAAT
3528180 TCTAATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:3545973 original size:30 final size:31
Alignment explanation
Indices: 3545937--3546002 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 31
3545927 TGTAACCTAT
3545937 CTATATCTCTT-GGTGAATTTAT-GCTCAAAA
1 CTATATCTCTTGGGTGAATTTATAG-TCAAAA
3545967 CTATATCTCTTGGGGTGAATTTATAGTCAAAA
1 CTATATCTCTT-GGGTGAATTTATAGTCAAAA
3545999 CTAT
1 CTAT
3546003 GGTTATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 11 0.33
32 21 0.64
33 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (31 bp):
CTATATCTCTTGGGTGAATTTATAGTCAAAA
Found at i:3547262 original size:33 final size:33
Alignment explanation
Indices: 3547220--3547283 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
3547210 AACAATAATT
* *
3547220 TTTTTAACTTAT-TGAGTATGAAAATTTGATAAA
1 TTTTTAACTTATAAGA-TATGAAAACTTGATAAA
3547253 TTTTTAACTTATAAGATATGAAAACTTGATA
1 TTTTTAACTTATAAGATATGAAAACTTGATA
3547284 TATTATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.44
Consensus pattern (33 bp):
TTTTTAACTTATAAGATATGAAAACTTGATAAA
Found at i:3548177 original size:16 final size:16
Alignment explanation
Indices: 3548137--3548179 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
3548127 TTTTAAATAA
*
3548137 TATTAATAAAACTATT
1 TATTATTAAAACTATT
* *
3548153 AATTTATTAAAATTATT
1 TA-TTATTAAAACTATT
3548170 TATTATTAAA
1 TATTATTAAA
3548180 GTATATTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTATTAAAACTATT
Found at i:3548382 original size:16 final size:15
Alignment explanation
Indices: 3548303--3548383 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 15
3548293 CATTTAGTAC
3548303 TATATTA-TAA-TAT
1 TATATTATTAATTAT
*
3548316 TAT-TTATTGATATAT
1 TATATTATTAAT-TAT
* *
3548331 TATATTAATAACATGAT
1 TATATT-ATTA-ATTAT
3548348 TATTTATTATTAATATAT
1 TA--TATTATTAAT-TAT
3548366 TATATTATTAAGTTAT
1 TATATTATTAA-TTAT
3548382 TA
1 TA
3548384 GATAATCTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
12 3 0.06
13 5 0.10
15 6 0.12
16 16 0.31
17 9 0.17
18 9 0.17
19 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (15 bp):
TATATTATTAATTAT
Found at i:3548410 original size:22 final size:22
Alignment explanation
Indices: 3548392--3548447 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
3548382 TAGATAATCT
3548392 TTATTCAT-TAATATAATAATA
1 TTATTCATATAATATAATAATA
* *
3548413 TTATTGATATAATAT-ATATTA
1 TTATTCATATAATATAATAATA
3548434 TTATT-A-ATAATATA
1 TTATTCATATAATATA
3548448 TATTTGTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 7 0.23
20 1 0.03
21 17 0.55
22 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATTCATATAATATAATAATA
Found at i:3548435 original size:21 final size:20
Alignment explanation
Indices: 3548325--3548451 Score: 72
Period size: 19 Copynumber: 6.3 Consensus size: 20
3548315 TTATTTATTG
*
3548325 ATATATTA-TATTA-ATAAC
1 ATATATTATTATTATATAAT
*
3548343 ATGATTATTTATTATTAATATATT
1 AT-A-TA-TTATTATT-ATATAAT
*
3548367 ATATTATTAAGTTATTAGATAAT
1 ATA-TATT-A-TTATTATATAAT
* *
3548390 CTTTATTCATTA--ATATAAT
1 ATATATT-ATTATTATATAAT
*
3548409 A-ATATTA-T-TGATATAAT
1 ATATATTATTATTATATAAT
3548426 ATATATTATTATTA-ATAAT
1 ATATATTATTATTATATAAT
3548445 ATATATT
1 ATATATT
3548452 TGTTAATATA
Statistics
Matches: 85, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
16 1 0.01
17 9 0.11
18 12 0.14
19 20 0.24
20 4 0.05
21 6 0.07
22 11 0.13
23 12 0.14
24 10 0.12
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (20 bp):
ATATATTATTATTATATAAT
Found at i:3548442 original size:33 final size:32
Alignment explanation
Indices: 3548405--3548483 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
3548395 TTCATTAATA
3548405 TAATAATATTATTGATATAATATATATT-ATTAT
1 TAATAATATTATTG-T-TAATATATATTGATTAT
*
3548438 TAATAATATATATTTGTTAATATATATTGTTTAT
1 TAATAATAT-TA-TTGTTAATATATATTGATTAT
* *
3548472 AAATAAAATTAT
1 TAATAATATTAT
3548484 ATTCAAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 1 0.03
33 22 0.55
34 14 0.35
35 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (32 bp):
TAATAATATTATTGTTAATATATATTGATTAT
Found at i:3549539 original size:30 final size:31
Alignment explanation
Indices: 3549468--3549542 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
3549458 CCATCTAGTC
3549468 AAGGGCTCAATTGAGGTGAAAGTAGATATTT
1 AAGGGCTCAATTGAGGTGAAAGTAGATATTT
** * *
3549499 AAGGATTCAATT-TGGTGAAA-TAGAATGTTT
1 AAGGGCTCAATTGAGGTGAAAGTAG-ATATTT
3549529 AAGGGCTCAATTGA
1 AAGGGCTCAATTGA
3549543 TCCCAAATAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
29 3 0.09
30 22 0.63
31 10 0.29
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (31 bp):
AAGGGCTCAATTGAGGTGAAAGTAGATATTT
Found at i:3549745 original size:48 final size:48
Alignment explanation
Indices: 3549668--3549761 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
3549658 TGACTACGAC
*
3549668 ACAATTATGTATGTGTGCCAAAATCATTAAGGTGTAAAAGGGATTTAT
1 ACAAATATGTATGTGTGCCAAAATCATTAAGGTGTAAAAGGGATTTAT
*
3549716 ACAAATATGTATG-GATGCCAAAA-CAATTAAGGTGTAAAATGGATTT
1 ACAAATATGTATGTG-TGCCAAAATC-ATTAAGGTGTAAAAGGGATTT
3549762 GATTAAGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (48 bp):
ACAAATATGTATGTGTGCCAAAATCATTAAGGTGTAAAAGGGATTTAT
Found at i:3554076 original size:31 final size:31
Alignment explanation
Indices: 3554034--3554093 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
3554024 TGATTGCTTA
*
3554034 CAACCATGAATGAAAACTCGGTATAATCATT
1 CAACCACGAATGAAAACTCGGTATAATCATT
*
3554065 CAACCACGAATGAAAACTCGGTATCATCA
1 CAACCACGAATGAAAACTCGGTATAATCA
3554094 CATCACATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (31 bp):
CAACCACGAATGAAAACTCGGTATAATCATT
Found at i:3564364 original size:89 final size:91
Alignment explanation
Indices: 3564210--3564377 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 91
3564200 GTGTTTGCTC
* * * * *
3564210 CTAATCTTTTATTACTTCATCTGTTCGCTTGATGTTGTTCTTCATTATCACTATTATTGTCTCAT
1 CTAATCTTTTAGTACTTCATCTGTTCACTTGA-GGTGTTCTTCATTAGCACTATCATTGTCTCAT
3564275 CTGTGCTTAAGTGAGCCACTTTTACTG
65 CTGTGCTTAAGTGAGCCACTTTTACTG
* * *
3564302 CTAATCTTTTAGTACTTGATCTTTTCACTTG-GGT-TTCTTCATTAGCACTATCATTTTCTCATC
1 CTAATCTTTTAGTACTTCATCTGTTCACTTGAGGTGTTCTTCATTAGCACTATCATTGTCTCATC
3564365 TGTGCTTAAGTGA
66 TGTGCTTAAGTGA
3564378 CCCAACTTGG
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 39 0.57
90 2 0.03
92 27 0.40
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (91 bp):
CTAATCTTTTAGTACTTCATCTGTTCACTTGAGGTGTTCTTCATTAGCACTATCATTGTCTCATC
TGTGCTTAAGTGAGCCACTTTTACTG
Found at i:3572755 original size:29 final size:29
Alignment explanation
Indices: 3572712--3572778 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
3572702 TAAACGTATA
3572712 TTTGTGTTTGTTTGTTTATTTTTAAATGTG
1 TTTGTG-TTGTTTGTTTATTTTTAAATGTG
3572742 TTTGTGTTGTTTGTTTATTTTTAAATGTG
1 TTTGTGTTGTTTGTTTATTTTTAAATGTG
3572771 TTTGTGTT
1 TTTGTGTT
3572779 TAGTTTGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 31 0.84
30 6 0.16
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.67
Consensus pattern (29 bp):
TTTGTGTTGTTTGTTTATTTTTAAATGTG
Found at i:3572979 original size:14 final size:14
Alignment explanation
Indices: 3572942--3572984 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
3572932 CACTTCATGA
3572942 ATAATAAATAAATT
1 ATAATAAATAAATT
*
3572956 ATAATCAAATAACTT
1 ATAAT-AAATAAATT
3572971 -TAAATAAATAAATT
1 AT-AATAAATAAATT
3572985 TTAAATGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAAATAAATT
Found at i:3572989 original size:15 final size:16
Alignment explanation
Indices: 3572947--3573000 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
3572937 CATGAATAAT
*
3572947 AAATAAATTAT-AATC
1 AAATAAATTTTAAATC
*
3572962 AAAT-AACTTTAAAT-
1 AAATAAATTTTAAATC
*
3572976 AAATAAATTTTAAATG
1 AAATAAATTTTAAATC
3572992 AACATAAAT
1 AA-ATAAAT
3573001 GAATTCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 8 0.25
15 16 0.50
16 2 0.06
17 6 0.19
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (16 bp):
AAATAAATTTTAAATC
Found at i:3573128 original size:26 final size:25
Alignment explanation
Indices: 3573085--3573133 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
3573075 TATAAATGAT
*
3573085 CAAAAAATGAATAATAAATGAATAA
1 CAAAAAATGAATAATAAACGAATAA
**
3573110 CAAACAAATGAATTTTAAACGAAT
1 CAAA-AAATGAATAATAAACGAAT
3573134 TATAAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (25 bp):
CAAAAAATGAATAATAAACGAATAA
Found at i:3579584 original size:14 final size:15
Alignment explanation
Indices: 3579554--3579594 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
3579544 CGTGATTTTT
*
3579554 ATAAATA-TATAATA
1 ATAAATATTTTAATA
3579568 ATAAATATTTTAA-A
1 ATAAATATTTTAATA
3579582 ATAAAT-TTTTAAT
1 ATAAATATTTTAAT
3579595 TAATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 14 0.58
15 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAAATATTTTAATA
Found at i:3593524 original size:22 final size:23
Alignment explanation
Indices: 3593481--3593526 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
3593471 AATATGAAAA
* *
3593481 TATTAAATATAATTTTTTATTTT
1 TATTAAATATAATTTATAATTTT
*
3593504 TATTAAAT-TTATTTATAATTTT
1 TATTAAATATAATTTATAATTTT
3593526 T
1 T
3593527 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTAAATATAATTTATAATTTT
Found at i:3595273 original size:10 final size:10
Alignment explanation
Indices: 3595242--3595267 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3595232 ATATTTTTTT
3595242 AATATTTATA
1 AATATTTATA
3595252 AATATTTATA
1 AATATTTATA
3595262 AATATT
1 AATATT
3595268 ATTAAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATATTTATA
Found at i:3595617 original size:134 final size:133
Alignment explanation
Indices: 3595365--3595847 Score: 357
Period size: 134 Copynumber: 3.6 Consensus size: 133
3595355 TACTACCATT
* * * * * * *
3595365 TTAATGGCGTTT-TCATCTTTGAAATGCCGTTAAATTAGTTACGTTTTTACAAGAAAAACAA--C
1 TTAATGACGTTTGT-ATCTTTGAAACGCCGCTAATTTAGTGACATTTTT--ATGAAAAA-AATGC
* * * * * * ** * * * *
3595427 ATTGCTTTGATGACGTTTATAACTGAAAATATCGTTACTTTGGATGCTTTTGTATCTGAAAACGT
62 ATTGCTTTGGTGGCATTTGTAACTGAAAATATTGCTACTTTACAGGCGTTTATATCTGAAAACGC
*
3595492 CTCCATA
127 CTACATA
* **
3595499 TTAAT-AGCGTTTGTATTTTTGAAACGCCGCTAATTTAGTGACATTTTTATGAAAAAAATATTAT
1 TTAATGA-CGTTTGTATCTTTGAAACGCCGCTAATTTAGTGACATTTTTATGAAAAAAAT-GCAT
* * *
3595563 TGCTTTGGTGGTATTTGTAATTGAAAATATTGCTACTTTACAGGCGTTTATATCTGAAAATGCCT
64 TGCTTTGGTGGCATTTGTAACTGAAAATATTGCTACTTTACAGGCGTTTATATCTGAAAACGCCT
*
3595628 ATATA
129 ACATA
* * ** * *
3595633 TTAGTGACGTTTGTATCTTTGAGACGCCGCTAATTTAGTGGTATTTTTATGAGAAAAATGCGTTG
1 TTAATGACGTTTGTATCTTTGAAACGCCGCTAATTTAGTGACATTTTTATGAAAAAAATGCATTG
* **** * * ** * * *
3595698 CTTTGGTGGCGTTTGTAACTGAAAACGCCGTTACTTTAGAGATG-CTAGTATTTGAAAACGCCTT
66 CTTTGGTGGCATTTGTAACTGAAAATATTGCTACTTTACAGGCGTTTA-TATCTGAAAACGCCTA
3595762 CATA
130 CATA
** * * * * * * * *
3595766 TTAGCGACATTTGTATCTTTGAGACGCTGCTAATTTAGTAAC-GTTTTATGAGAAAAGTGTCGTT
1 TTAATGACGTTTGTATCTTTGAAACGCCGCTAATTTAGTGACATTTTTATGAAAAAAATG-CATT
3595830 GCTTTGGTGGCATTTGTA
65 GCTTTGGTGGCATTTGTA
3595848 TAAAAAATAT
Statistics
Matches: 281, Mismatches: 60, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
131 2 0.01
132 24 0.09
133 109 0.39
134 144 0.51
135 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (133 bp):
TTAATGACGTTTGTATCTTTGAAACGCCGCTAATTTAGTGACATTTTTATGAAAAAAATGCATTG
CTTTGGTGGCATTTGTAACTGAAAATATTGCTACTTTACAGGCGTTTATATCTGAAAACGCCTAC
ATA
Found at i:3595779 original size:133 final size:132
Alignment explanation
Indices: 3595508--3595847 Score: 362
Period size: 133 Copynumber: 2.5 Consensus size: 132
3595498 ATTAATAGCG
* * * ***
3595508 TTTGTATTTTTGAAACGCCGCTAATTTAGTGACATTTTTATGAAAAAAATATTATTGCTTTGGTG
1 TTTGTATCTTTGAGACGCCGCTAATTTAGTGA-ATTTTTATGAGAAAAAT-GCGTTGCTTTGGTG
* * * ** * * * *
3595573 GTATTTGTAATTGAAAATATTGCTACTTTACAGGCGTTTATATCTGAAAATGCCTATATATTAGT
64 GCATTTGTAACTGAAAACACCGCTACTTTACAGACGTCTATATCTGAAAACGCCTATATATTAGC
*
3595638 GACG
129 GACA
*
3595642 TTTGTATCTTTGAGACGCCGCTAATTTAGTGGTATTTTTATGAGAAAAATGCGTTGCTTTGGTGG
1 TTTGTATCTTTGAGACGCCGCTAATTTAGT-GAATTTTTATGAGAAAAATGCGTTGCTTTGGTGG
* * * * * *
3595707 CGTTTGTAACTGAAAACGCCGTTACTTTAGAGATG-CTAGTATTTGAAAACGCCT-TCATATTAG
65 CATTTGTAACTGAAAACACCGCTACTTTACAGACGTCTA-TATCTGAAAACGCCTAT-ATATTAG
3595770 CGACA
128 CGACA
* * *
3595775 TTTGTATCTTTGAGACGCTGCTAATTTAGT-AACGTTTTATGAGAAAAGTGTCGTTGCTTTGGTG
1 TTTGTATCTTTGAGACGCCGCTAATTTAGTGAA-TTTTTATGAGAAAAATG-CGTTGCTTTGGTG
3595839 GCATTTGTA
64 GCATTTGTA
3595848 TAAAAAATAT
Statistics
Matches: 173, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
131 1 0.01
132 18 0.10
133 109 0.63
134 44 0.25
135 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (132 bp):
TTTGTATCTTTGAGACGCCGCTAATTTAGTGAATTTTTATGAGAAAAATGCGTTGCTTTGGTGGC
ATTTGTAACTGAAAACACCGCTACTTTACAGACGTCTATATCTGAAAACGCCTATATATTAGCGA
CA
Found at i:3599973 original size:662 final size:662
Alignment explanation
Indices: 3598710--3600692 Score: 3777
Period size: 662 Copynumber: 3.0 Consensus size: 662
3598700 TAGTTTAGAA
3598710 CATATATAAAGCCATTGAGAAGTTAAGAAATCAAAACTTACGATATATAAAGAACATATCGATTT
1 CATATATAAAGCCATTGAGAAGTTAAGAAATCAAAACTTACGATATATAAAGAACATATCGATTT
3598775 AATTAAATCAAAAGATAATGTGTGATTTAGAATACAATAATTATACAATAGCGAATGTGACATTA
66 AATTAAATCAAAAGATAATGTGTGATTTAGAATACAATAATTATACAATAGCGAATGTGACATTA
*
3598840 ATTACATATAATCATTTATTACATTATGTCTTAAACATTCGAATTACAAATTATAGATGCACCAT
131 ATTACATATAATCATTTATTACATTATGTCTTAAACACTCGAATTACAAATTATAGATGCACCAT
*
3598905 TTCATGGTTCATAAATGTCTTCAGTAACATCTTCATGGACCCACTGAGCGTAGGTACTAGAGATA
196 TTTATGGTTCATAAATGTCTTCAGTAACATCTTCATGGACCCACTGAGCGTAGGTACTAGAGATA
*
3598970 TTTTCATCCAAGTTTTGTTCAGCAAAAAGATAACATTCAGTTTCATGTTCAACATCATCTCTGGT
261 TTTTCATCCAAGTTTTGTTCAGCAAAAAGATAACATTTAGTTTCATGTTCAACATCATCTCTGGT
*
3599035 ATCTAACCCCATATCAAATAAGTCTCTAGGTGTGTTTCAAAAAATAACAAACTAACCCAATTCTT
326 ATCTAACCCCACATCAAATAAGTCTCTAGGTGTGTTTCAAAAAATAACAAACTAACCCAATTCTT
3599100 TGGGATCTTCAGAGTAAAATACTTGTTTGACTTGAGATGAAAAAACATAAGGTTCATCGATGAGT
391 TGGGATCTTCAGAGTAAAATACTTGTTTGACTTGAGATGAAAAAACATAAGGTTCATCGATGAGT
* ***
3599165 TGTTGTCCAGTGTGAAATAATCGAGAAAAATTCACAAGTGTAAATCCGTACTGATATTTCTTAAT
456 TGTTGTCCAGTGTGAAATAATCGAGAAAAATTCACAAGTATAAATTTATACTGATATTTCTTAAT
*
3599230 ACCCCTCGCATTATTCACATCATCCTAATCATACCGAAATAAGATAACTTTCCACTTGCCATTGT
521 ACCCCTCGCATTATTCACATCATCCTAATCATACCGAAATAAGATAACTTTCCACTTGCCATAGT
*
3599295 AATCCAACTCAATGATGTCATTAATCATGCCATAATAGTCAATATTTCCCTCTAAAGGGTTTGTT
586 AATCCAACTCAATGATGTCATTAATCATGCCATAATAGTCAATATTTCCCTCTAAAGGGTTTGTG
3599360 TCACTAGCAAAC
651 TCACTAGCAAAC
*
3599372 CATATATAAAGCCATTGAAAAGTTAAGAAATCAAAACTTACGATATATAAAGAACATATCGATTT
1 CATATATAAAGCCATTGAGAAGTTAAGAAATCAAAACTTACGATATATAAAGAACATATCGATTT
3599437 AATTAAATCAAAAGATAATGTGTGATTTAGAATACAATAATTATACAATAGCGAATGTGACATTA
66 AATTAAATCAAAAGATAATGTGTGATTTAGAATACAATAATTATACAATAGCGAATGTGACATTA
3599502 ATTACATATAATCATTTATTACATTATGTCTTAAACACTCGAATTACAAATTATAGATGCACCAT
131 ATTACATATAATCATTTATTACATTATGTCTTAAACACTCGAATTACAAATTATAGATGCACCAT
3599567 TTTATGGTTCATAAATGTCTTCAGTAACATCTTCATGGACCCACTGAGCGTAGGTACTAGAGATA
196 TTTATGGTTCATAAATGTCTTCAGTAACATCTTCATGGACCCACTGAGCGTAGGTACTAGAGATA
3599632 TTTTCATCCAAGTTTTGTTCAGCAAAAAGATAACATTTAGTTTCATGTTCAACATCATCTCTGGT
261 TTTTCATCCAAGTTTTGTTCAGCAAAAAGATAACATTTAGTTTCATGTTCAACATCATCTCTGGT
3599697 ATCTAACCCCACATCAAATAAGTCTCTAGGTGTGTTTCAAAAAATAACAAACTAACCCAATTCTT
326 ATCTAACCCCACATCAAATAAGTCTCTAGGTGTGTTTCAAAAAATAACAAACTAACCCAATTCTT
3599762 TGGGATCTTCAGAGTAAAATACTTGTTTGACTTGAGATGAAAAAACATAAGGTTCATCGATGAGT
391 TGGGATCTTCAGAGTAAAATACTTGTTTGACTTGAGATGAAAAAACATAAGGTTCATCGATGAGT
3599827 TGTTGTCCAGTGTGAAATAATCGAGAAAAATTCACAAGTATAAATTTATACTGATATTTCTTAAT
456 TGTTGTCCAGTGTGAAATAATCGAGAAAAATTCACAAGTATAAATTTATACTGATATTTCTTAAT
**
3599892 ACCCCTCGCATTATTCACATCATCCTAATCATACCGAAATAAGATAACTTTCCACTTGCTGTAGT
521 ACCCCTCGCATTATTCACATCATCCTAATCATACCGAAATAAGATAACTTTCCACTTGCCATAGT
*
3599957 AATCCAACTTAATGATGTCATTAATCATGCCATAATAGTCAATATTTCCCTCTAAAGGGTTTGTG
586 AATCCAACTCAATGATGTCATTAATCATGCCATAATAGTCAATATTTCCCTCTAAAGGGTTTGTG
3600022 TCACTAGCAAAC
651 TCACTAGCAAAC
*
3600034 CATATATAAAGCCATTGAGAAGTTAAGAAATCAAAACTTACGATATATAAAAAACATATCGATTT
1 CATATATAAAGCCATTGAGAAGTTAAGAAATCAAAACTTACGATATATAAAGAACATATCGATTT
3600099 AATTAAATCAAAAGATAATGTGTGATTTAGAATACAATAATTATACAATAGCGAATGTGACATTA
66 AATTAAATCAAAAGATAATGTGTGATTTAGAATACAATAATTATACAATAGCGAATGTGACATTA
*
3600164 ATTACATACAATCATTTATTACATTATGTCTTAAACACTCGAATTACAAATTATAGATGCACCAT
131 ATTACATATAATCATTTATTACATTATGTCTTAAACACTCGAATTACAAATTATAGATGCACCAT
*
3600229 TTTATGGTTCATAAATGTCTTCAGTAACATCTTCATGGACCCATTGAGCGTAGGTACTAGAGATA
196 TTTATGGTTCATAAATGTCTTCAGTAACATCTTCATGGACCCACTGAGCGTAGGTACTAGAGATA
3600294 TTTTCATCCAAGTTTTGTTCAGCAAAAAGATAACATTTAGTTTCATGTTCAACATCATCTCTGGT
261 TTTTCATCCAAGTTTTGTTCAGCAAAAAGATAACATTTAGTTTCATGTTCAACATCATCTCTGGT
3600359 ATCTAACCCCACATCAAATAAGTCTCTAGGTGTGTTTCAAAAAATAACAAACTAACCCAATTCTT
326 ATCTAACCCCACATCAAATAAGTCTCTAGGTGTGTTTCAAAAAATAACAAACTAACCCAATTCTT
3600424 TGGGATCTTCAGAGTAAAATACTTGTTTGACTTGAGATGAAAAAACATAAGGTTCATCGATGAGT
391 TGGGATCTTCAGAGTAAAATACTTGTTTGACTTGAGATGAAAAAACATAAGGTTCATCGATGAGT
3600489 TGTTGTCCAGTGTGAAATAATCGAGAAAAATTCACAAGTATAAATTTATACTGATATTTCTTAAT
456 TGTTGTCCAGTGTGAAATAATCGAGAAAAATTCACAAGTATAAATTTATACTGATATTTCTTAAT
* *
3600554 ACCCCTCGCATTATTCACATCATCCTAATCATACTGAAATAAGATAACTTTTCACTTGCCATAGT
521 ACCCCTCGCATTATTCACATCATCCTAATCATACCGAAATAAGATAACTTTCCACTTGCCATAGT
* *
3600619 AATCCAACTCAATGATGTCATTAATCATGTCATAATAGTCAATATTTCCCTTTAAAGGGTTTGTG
586 AATCCAACTCAATGATGTCATTAATCATGCCATAATAGTCAATATTTCCCTCTAAAGGGTTTGTG
3600684 TCACTAGCA
651 TCACTAGCA
3600693 CTAGCATAGT
Statistics
Matches: 1296, Mismatches: 25, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
662 1296 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (662 bp):
CATATATAAAGCCATTGAGAAGTTAAGAAATCAAAACTTACGATATATAAAGAACATATCGATTT
AATTAAATCAAAAGATAATGTGTGATTTAGAATACAATAATTATACAATAGCGAATGTGACATTA
ATTACATATAATCATTTATTACATTATGTCTTAAACACTCGAATTACAAATTATAGATGCACCAT
TTTATGGTTCATAAATGTCTTCAGTAACATCTTCATGGACCCACTGAGCGTAGGTACTAGAGATA
TTTTCATCCAAGTTTTGTTCAGCAAAAAGATAACATTTAGTTTCATGTTCAACATCATCTCTGGT
ATCTAACCCCACATCAAATAAGTCTCTAGGTGTGTTTCAAAAAATAACAAACTAACCCAATTCTT
TGGGATCTTCAGAGTAAAATACTTGTTTGACTTGAGATGAAAAAACATAAGGTTCATCGATGAGT
TGTTGTCCAGTGTGAAATAATCGAGAAAAATTCACAAGTATAAATTTATACTGATATTTCTTAAT
ACCCCTCGCATTATTCACATCATCCTAATCATACCGAAATAAGATAACTTTCCACTTGCCATAGT
AATCCAACTCAATGATGTCATTAATCATGCCATAATAGTCAATATTTCCCTCTAAAGGGTTTGTG
TCACTAGCAAAC
Found at i:3606659 original size:5 final size:6
Alignment explanation
Indices: 3606645--3606702 Score: 53
Period size: 6 Copynumber: 8.7 Consensus size: 6
3606635 CCCAATTGGC
*
3606645 TTTTAT TTTTAT TTTTAT TATTTAT CTATTTAT TAATATAT ATTTTAT
1 TTTTAT TTTTAT TTTTAT T-TTTAT -T-TTTAT T--TTTAT -TTTTAT
3606693 TTTTAT TTTT
1 TTTTAT TTTT
3606703 TTATCTATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
6 23 0.50
7 10 0.22
8 12 0.26
9 1 0.02
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:3606727 original size:33 final size:36
Alignment explanation
Indices: 3606651--3606716 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
3606641 TGGCTTTTAT
*
3606651 TTTTATTTTTATTATTTATCTATTTATTAATATATA
1 TTTTATTTTTATTATTTATCTATCTATTAATATATA
3606687 TTTTATTTTTATT-TTT-T-TATCTATTAATAT
1 TTTTATTTTTATTATTTATCTATCTATTAATAT
3606717 CTTTATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 12 0.41
34 1 0.03
35 3 0.10
36 13 0.45
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (36 bp):
TTTTATTTTTATTATTTATCTATCTATTAATATATA
Found at i:3606729 original size:37 final size:33
Alignment explanation
Indices: 3606645--3606784 Score: 94
Period size: 37 Copynumber: 4.1 Consensus size: 33
3606635 CCCAATTGGC
3606645 TTTTATT-TTTATTTTTATTATTTATCTATTTA
1 TTTTATTATTTATTTTTATTATTTATCTATTTA
* *
3606677 TTAATATATATTTTATTTTTATTTTTTTATCTATTAATA
1 TT-TTAT-TA-TTTATTTTTA-TTATTTATCTATT--TA
*
3606716 TCTTTATTATTTATCTGCTT-TTATTTTAT-TA-TTA
1 T-TTTATTATTTAT-T-TTTATTA-TTTATCTATTTA
* * *
3606750 TTAT-TTATCTATTTTT-TTATTTATCTAATTA
1 TTTTATTATTTATTTTTATTATTTATCTATTTA
3606781 TTTT
1 TTTT
3606785 TTGTTATCTA
Statistics
Matches: 86, Mismatches: 9, Indels: 27
0.70 0.07 0.22
Matches are distributed among these distances:
29 5 0.06
30 7 0.08
31 7 0.08
32 9 0.10
33 5 0.06
34 4 0.05
36 11 0.13
37 21 0.24
38 8 0.09
39 8 0.09
40 1 0.01
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (33 bp):
TTTTATTATTTATTTTTATTATTTATCTATTTA
Found at i:3606738 original size:33 final size:30
Alignment explanation
Indices: 3606657--3606764 Score: 93
Period size: 30 Copynumber: 3.6 Consensus size: 30
3606647 TTATTTTTAT
*
3606657 TTTTATTATTTATCTATTTATTAATATATA
1 TTTTATTATTTATCTTTTTATTAATATATA
* *
3606687 TTTTATT-TTTATTTTTTTATCTATTA-ATA
1 TTTTATTATTTATCTTTTTAT-TAATATATA
3606716 TCTTTATTATTTATCTGCTTTTATT--T-TAT-
1 T-TTTATTATTTATCT--TTTTATTAATATATA
*
3606745 TATTATTATTTATCTATTTT
1 TTTTATTATTTATCT-TTTT
3606765 TTTATTTATC
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
27 4 0.06
28 13 0.20
29 16 0.24
30 20 0.30
31 6 0.09
32 1 0.02
33 6 0.09
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.69
Consensus pattern (30 bp):
TTTTATTATTTATCTTTTTATTAATATATA
Found at i:3606762 original size:22 final size:23
Alignment explanation
Indices: 3606651--3606818 Score: 70
Period size: 22 Copynumber: 7.4 Consensus size: 23
3606641 TGGCTTTTAT
*
3606651 TTTTATTTTTAT-TATTTATCTA
1 TTTTATTATTATATATTTATCTA
* *
3606673 -TTTATTAATATATATTT-TAT-
1 TTTTATTATTATATATTTATCTA
* * * *
3606693 TTTTATTTTTTTATCTATTA-ATA
1 TTTTATTATTATATAT-TTATCTA
*
3606716 TCTTTATTATT-TATCTGCTT-T-TA
1 T-TTTATTATTATATAT--TTATCTA
3606739 TTTTATTATTAT-TATTTATCTA
1 TTTTATTATTATATATTTATCTA
* * * * *
3606761 TTTTTTTATTTATCTAATTATTTT
1 TTTTATTA-TTATATATTTATCTA
3606785 TTGTTATCTATTAATATATTTATCT-
1 TT-TTAT-TATT-ATATATTTATCTA
3606810 TTTT-TTATT
1 TTTTATTATT
3606819 TTGATTAATT
Statistics
Matches: 112, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
20 2 0.02
21 23 0.21
22 33 0.29
23 15 0.13
24 21 0.19
25 7 0.06
26 11 0.10
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.69
Consensus pattern (23 bp):
TTTTATTATTATATATTTATCTA
Found at i:3606771 original size:16 final size:16
Alignment explanation
Indices: 3606750--3606819 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
3606740 TTTATTATTA
3606750 TTATTTATCTATTTTT
1 TTATTTATCTATTTTT
3606766 TTATTTATCTAATTATTT
1 TTATTTATCT-ATT-TTT
**
3606784 TT-TGTTATCTATTAAT
1 TTAT-TTATCTATTTTT
*
3606800 ATATTTATC--TTTTT
1 TTATTTATCTATTTTT
3606814 TTATTT
1 TTATTT
3606820 TGATTAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.18
16 17 0.39
17 8 0.18
18 11 0.25
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (16 bp):
TTATTTATCTATTTTT
Found at i:3606791 original size:18 final size:17
Alignment explanation
Indices: 3606750--3606794 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
3606740 TTTATTATTA
3606750 TTATTTATCT-ATTTTT
1 TTATTTATCTAATTTTT
3606766 TTATTTATCTAATTATTT
1 TTATTTATCTAATT-TTT
3606784 TT-TGTTATCTA
1 TTAT-TTATCTA
3606795 TTAATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.38
17 4 0.15
18 12 0.46
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (17 bp):
TTATTTATCTAATTTTT
Found at i:3606817 original size:44 final size:42
Alignment explanation
Indices: 3606698--3606835 Score: 102
Period size: 42 Copynumber: 3.2 Consensus size: 42
3606688 TTTATTTTTA
* * * * *
3606698 TTTTT-TTATCTATTAATATCTTTATTATTTATCTGCTTTTAT
1 TTTTTGTTATCTATTAATATATTTATTTTTTTTAT-CTATTAT
* * * *
3606740 TTTATTATTAT-TATTTATCTATTT-TTTTATTTATCTAATTAT
1 TTT-TTGTTATCTATTAATATATTTATTTTTTTTATCT-ATTAT
* *
3606782 TTTTTGTTATCTATTAATATATTTATCTTTTTTTATTTTGATTAA
1 TTTTTGTTATCTATTAATATATTTAT-TTTTTTTA-TCT-ATTAT
3606827 TTTTTGTTA
1 TTTTTGTTA
3606836 AGATTAGGAT
Statistics
Matches: 74, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
41 8 0.11
42 27 0.36
43 13 0.18
44 11 0.15
45 15 0.20
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (42 bp):
TTTTTGTTATCTATTAATATATTTATTTTTTTTATCTATTAT
Found at i:3606817 original size:88 final size:89
Alignment explanation
Indices: 3606643--3606807 Score: 230
Period size: 88 Copynumber: 1.9 Consensus size: 89
3606633 GGCCCAATTG
* * * * *
3606643 GCTTTTATTTTTATTTTTATTATTTATCTATTTATTAATATATATTTTATTTTTATTTTTTTATC
1 GCTTTTATTTTTATTATTATTATTTATCTATTTATTAATATATATCTAATTATTATTTTGTTATC
*
3606708 TATTAATATCTTTATTATTTATCT
66 TATTAATATATTTATTATTTATCT
* *
3606732 GCTTTTA-TTTTATTATTATTATTTATCTATTT-TT-TTATTTATCTAATTATT-TTTTGTTATC
1 GCTTTTATTTTTATTATTATTATTTATCTATTTATTAATATATATCTAATTATTATTTTGTTATC
3606793 TATTAATATATTTAT
66 TATTAATATATTTAT
3606808 CTTTTTTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 23 0.34
86 12 0.18
87 2 0.03
88 24 0.35
89 7 0.10
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (89 bp):
GCTTTTATTTTTATTATTATTATTTATCTATTTATTAATATATATCTAATTATTATTTTGTTATC
TATTAATATATTTATTATTTATCT
Found at i:3607660 original size:25 final size:23
Alignment explanation
Indices: 3607632--3607704 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 23
3607622 AATAAATATT
3607632 AATTATCTAATGATGAAA-TTTATAA
1 AATT-TCTAATGA--AAATTTTATAA
*
3607657 AATTTTCAAATGAAAATTTTTATAA
1 AA-TTTCTAATGAAAA-TTTTATAA
*
3607682 AATTTCTAGGTGAAAAATTTTAT
1 AATTTCTA-ATG-AAAATTTTAT
3607705 CTAGATTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 3 0.08
24 5 0.12
25 26 0.65
26 6 0.15
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (23 bp):
AATTTCTAATGAAAATTTTATAA
Found at i:3614256 original size:8 final size:8
Alignment explanation
Indices: 3614243--3614316 Score: 51
Period size: 8 Copynumber: 9.0 Consensus size: 8
3614233 GGTGAAAGGT
3614243 GAAAAAAA
1 GAAAAAAA
3614251 GAAAAAGAA
1 GAAAAA-AA
*
3614260 AAAAAAAA
1 GAAAAAAA
* *
3614268 GGAGAAAAT
1 -GAAAAAAA
3614277 GAAAAAAA
1 GAAAAAAA
3614285 GAAAAGAAA
1 GAAAA-AAA
* *
3614294 -AAAAGAC
1 GAAAAAAA
**
3614301 GAAAGGAA
1 GAAAAAAA
3614309 GAAAAAAA
1 GAAAAAAA
3614317 AGACTCAAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
7 1 0.02
8 34 0.68
9 15 0.30
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (8 bp):
GAAAAAAA
Found at i:3614261 original size:33 final size:31
Alignment explanation
Indices: 3614223--3614297 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 31
3614213 ATGAAAAATG
* * *
3614223 AGAAAAAAATGGTGAAAGGTGAAAAAAAGAAAA
1 AGAAAAAAAAGGAGAAA-ATGAAAAAAAG-AAA
3614256 AGAAAAAAAAAAGGAGAAAATGAAAAAAAGAAA
1 AG--AAAAAAAAGGAGAAAATGAAAAAAAGAAA
3614289 AGAAAAAAA
1 AGAAAAAAA
3614298 GACGAAAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 7 0.19
33 7 0.19
34 10 0.27
35 13 0.35
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (31 bp):
AGAAAAAAAAGGAGAAAATGAAAAAAAGAAA
Found at i:3614262 original size:14 final size:13
Alignment explanation
Indices: 3614243--3614299 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
3614233 GGTGAAAGGT
3614243 GAAAAAAAGAAAAA
1 GAAAAAAA-AAAAA
*
3614257 GAAAAAAAAAAGGA
1 GAAAAAAAAAA-AA
*
3614271 GAAAATGAAAAAAA
1 GAAAA-AAAAAAAA
*
3614285 GAAAAGAAAAAAA
1 GAAAAAAAAAAAA
3614298 GA
1 GA
3614300 CGAAAGGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
13 13 0.34
14 20 0.53
15 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:3614268 original size:28 final size:29
Alignment explanation
Indices: 3614237--3614296 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
3614227 AAAAATGGTG
*
3614237 AAAGGTGAAAA-AAAGAAAAAGAAAA-AAA
1 AAAGGAGAAAATAAA-AAAAAGAAAAGAAA
*
3614265 AAAGGAGAAAATGAAAAAAAGAAAAGAAA
1 AAAGGAGAAAATAAAAAAAAGAAAAGAAA
3614294 AAA
1 AAA
3614297 AGACGAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (29 bp):
AAAGGAGAAAATAAAAAAAAGAAAAGAAA
Found at i:3614317 original size:28 final size:29
Alignment explanation
Indices: 3614249--3614319 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
3614239 AGGTGAAAAA
*
3614249 AAGAAAAAGAAA-AAAAAAAGGAGAAAATG
1 AAGAAAAA-AAAGAAAAAAAGGAGAAAAGG
*
3614278 AAAAAAAGAAAAGAAAAAAA-GACG-AAAGG
1 AAGAAAA-AAAAGAAAAAAAGGA-GAAAAGG
3614307 AAGAAAAAAAAGA
1 AAGAAAAAAAAGA
3614320 CTCAAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 6 0.17
29 21 0.58
30 9 0.25
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.01
Consensus pattern (29 bp):
AAGAAAAAAAAGAAAAAAAGGAGAAAAGG
Found at i:3616154 original size:41 final size:40
Alignment explanation
Indices: 3616089--3616445 Score: 304
Period size: 41 Copynumber: 8.8 Consensus size: 40
3616079 GGAGCAATTT
* ** *
3616089 ATTTTTTTTCAAAGTTTTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * * *
3616129 ATTTACTTTTCAAAGTCATGGTGCCTCTGTTTATATGAGTA
1 ATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
3616170 ATTTATTTTTCAAAGTCGTGATGCCTCTGTTTAGAGGAGTA
1 ATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
3616211 ATTTATTTTCAAAGTCGTGGTTGCCTCTATTTAGATGAGCA
1 ATTTATTTTCAAAGTCGTGG-TGCCTCTGTTTAGAGGAGCA
* * *
3616252 ATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTATAGGTGC-
1 ATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
** * * * * * ***
3616292 ATTTATTTTTGAAGTCATGGTACTTC-GACTTAGAGAATTT
1 ATTTATTTTCAAAGTCGTGGTGCCTCTG-TTTAGAGGAGCA
* * * * *
3616332 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGATGAGCT
1 ATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * ** *
3616373 ATTTATTTTTCAAAGTCGTTGAGCCTCTAATTAGAGGAGCC
1 ATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
3616414 ATTTATTTTCAAGGTCGTGGAGCCTCTGTTTA
1 ATTTATTTTCAAAGTCGTGGTGCCTCTGTTTA
3616446 TAGAAGCTTT
Statistics
Matches: 258, Mismatches: 52, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.00
39 20 0.08
40 51 0.20
41 171 0.66
42 15 0.06
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (40 bp):
ATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:3616431 original size:81 final size:84
Alignment explanation
Indices: 3616332--3616495 Score: 210
Period size: 84 Copynumber: 2.0 Consensus size: 84
3616322 TAGAGAATTT
* * *
3616332 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGATG-AGC-TATTTA-TTTTTCAAAGTCGTTG
1 ATTTATTTTTCAAAGTCGTGGAGCCTCTGATTAGA-GAAGCTTATTTATTTTTTCAAAATCGTAG
3616394 AGCCTCTAATTAGAGGAGCC
65 AGCCTCTAATTAGAGGAGCC
* * *
3616414 ATTTA-TTTTCAAGGTCGTGGAGCCTCTGTTTATAGAAGCTTTATTTATTTTTTCAAAATCGTAG
1 ATTTATTTTTCAAAGTCGTGGAGCCTCTGATTAGAGAAGC-TTATTTATTTTTTCAAAATCGTAG
* *
3616478 AGCTTCTATTTAGAGGAG
65 AGCCTCTAATTAGAGGAG
3616496 TTTTGATAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 1 0.01
81 28 0.40
82 5 0.07
83 6 0.09
84 30 0.43
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (84 bp):
ATTTATTTTTCAAAGTCGTGGAGCCTCTGATTAGAGAAGCTTATTTATTTTTTCAAAATCGTAGA
GCCTCTAATTAGAGGAGCC
Found at i:3616755 original size:29 final size:30
Alignment explanation
Indices: 3616721--3616792 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
3616711 TTTTTATTTT
*
3616721 TATTTTTATTT-TTTGTCTATTTATTAATA
1 TATTTTTATTTATTTGTCTATCTATTAATA
* *
3616750 TATTTTT-TTTATTTTTTTATCTATTAATA
1 TATTTTTATTTATTTGTCTATCTATTAATA
*
3616779 TCTTTATTATTTAT
1 TATTT-TTATTTAT
3616793 CTACTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 26 0.72
30 2 0.06
31 5 0.14
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (30 bp):
TATTTTTATTTATTTGTCTATCTATTAATA
Found at i:3616774 original size:21 final size:21
Alignment explanation
Indices: 3616711--3616774 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
3616701 GCCTAATTGG
*
3616711 TTTTTATTTTTATT-TTTATTT
1 TTTTTATTTTT-TTATATATTT
* *
3616732 TTTGTCTATTTATTAATATATTT
1 TTT-T-TATTTTTTTATATATTT
*
3616755 TTTTTATTTTTTTATCTATT
1 TTTTTATTTTTTTATATATT
3616775 AATATCTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 16 0.47
22 3 0.09
23 15 0.44
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTATTTTTTTATATATTT
Found at i:3616793 original size:23 final size:22
Alignment explanation
Indices: 3616756--3616855 Score: 62
Period size: 23 Copynumber: 4.4 Consensus size: 22
3616746 AATATATTTT
*
3616756 TTTTATTTTTTTATCTA-TTAATA
1 TTTTA-TTATTTATCTACTT-ATA
*
3616779 TCTTTATTATTTATCTACTTTTA
1 T-TTTATTATTTATCTACTTATA
*
3616802 TTTTATTA-TTAT-TATTTATCTA
1 TTTTATTATTTATCTACTTA--TA
* * *
3616824 TTTCTTTTATTTATCTAATTATT
1 TTT-TATTATTTATCTACTTATA
*
3616847 TTTTGTTAT
1 TTTTATTAT
3616856 CTATTAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
20 4 0.06
21 4 0.06
22 17 0.27
23 22 0.35
24 10 0.16
25 5 0.08
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.69
Consensus pattern (22 bp):
TTTTATTATTTATCTACTTATA
Found at i:3616803 original size:17 final size:16
Alignment explanation
Indices: 3616781--3616883 Score: 62
Period size: 17 Copynumber: 6.6 Consensus size: 16
3616771 TATTAATATC
3616781 TTTATTATTTATCTACT
1 TTTATTATTTATCTA-T
3616798 TTTA-T-TTTAT-TA-
1 TTTATTATTTATCTAT
3616810 -TTATTATTTATCTAT
1 TTTATTATTTATCTAT
*
3616825 TTCTTTTATTTATCTAAT
1 TT-TATTATTTATCT-AT
*
3616843 TATT-TTTTGTTATCTA-
1 T-TTATTAT-TTATCTAT
*
3616859 TTAATATATTTATCT-T
1 TTTAT-TATTTATCTAT
3616875 TTT-TTATTT
1 TTTATTATTT
3616884 TGATTAATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 27
0.68 0.05 0.27
Matches are distributed among these distances:
11 3 0.04
12 1 0.01
13 5 0.07
14 9 0.13
15 7 0.10
16 12 0.17
17 21 0.30
18 10 0.14
19 1 0.01
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.69
Consensus pattern (16 bp):
TTTATTATTTATCTAT
Found at i:3616875 original size:45 final size:43
Alignment explanation
Indices: 3616761--3616881 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 43
3616751 ATTTTTTTTA
* * *
3616761 TTTTTTTATCTATTAATATCTTTAT-TATTTATCTA-CTTTTAT
1 TTTTTTTATCTATTAATATATTTATCT-TTTATTTATCTATTAT
* *
3616803 TTTATTATTAT-TATTTATCTA-TT-TCTTTTATTTATCTAATTAT
1 TTT-TT-TTATCTATTAATATATTTATCTTTTATTTATCT-ATTAT
3616846 TTTTTGTTATCTATTAATATATTTATCTTTT-TTTAT
1 TTTTT-TTATCTATTAATATATTTATCTTTTATTTAT
3616882 TTTGATTAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
41 8 0.13
42 14 0.22
43 24 0.38
44 11 0.17
45 6 0.10
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (43 bp):
TTTTTTTATCTATTAATATATTTATCTTTTATTTATCTATTAT
Found at i:3617621 original size:4 final size:4
Alignment explanation
Indices: 3617607--3617656 Score: 57
Period size: 4 Copynumber: 12.2 Consensus size: 4
3617597 AGATTTTTGG
* *
3617607 TATT T-TT TATT TATTT TATT TATT TATTT TACT TATT TTTT TATT TATT
1 TATT TATT TATT TA-TT TATT TATT TA-TT TATT TATT TATT TATT TATT
3617656 T
1 T
3617657 TATCAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 3 0.08
4 28 0.72
5 8 0.21
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:3617623 original size:9 final size:9
Alignment explanation
Indices: 3617611--3617659 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
3617601 TTTTGGTATT
3617611 TTTTATTTA
1 TTTTATTTA
3617620 TTTTATTTA
1 TTTTATTTA
3617629 -TTTATTT-
1 TTTTATTTA
*
3617636 TACTTATTT-
1 T-TTTATTTA
3617645 TTTTATTTA
1 TTTTATTTA
3617654 TTTTAT
1 TTTTAT
3617660 CAAAATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 13 0.37
9 22 0.63
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTTA
Found at i:3617630 original size:13 final size:13
Alignment explanation
Indices: 3617612--3617656 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
3617602 TTTGGTATTT
3617612 TTTATTTATTTTA
1 TTTATTTATTTTA
3617625 TTTATTTATTTTA
1 TTTATTTATTTTA
*
3617638 CTTATTT-TTTTA
1 TTTATTTATTTTA
3617650 TTTATTT
1 TTTATTT
3617657 TATCAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:3619443 original size:18 final size:18
Alignment explanation
Indices: 3619420--3619456 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3619410 TTGCTGAACC
*
3619420 TTGTTGTATGATATTGTA
1 TTGTTGAATGATATTGTA
*
3619438 TTGTTGAATGGTATTGTA
1 TTGTTGAATGATATTGTA
3619456 T
1 T
3619457 GATATTGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (18 bp):
TTGTTGAATGATATTGTA
Found at i:3619450 original size:80 final size:80
Alignment explanation
Indices: 3619330--3619574 Score: 359
Period size: 80 Copynumber: 3.1 Consensus size: 80
3619320 AATATTATGA
* * * *
3619330 TTTGCTGAACCTTATTGTTTGAT-TTTTTTTGTTGAATGGTATTGTATGATATTGGGAGGTTGAA
1 TTTGCTGAACCTTGTTGTATGATATTATTTTGTTGAATGGTATTGTATGATATTGGGAGGCTGAA
3619394 TCATATGCTGAATGG
66 TCATATGCTGAATGG
* * *
3619409 TTTGCTGAACCTTGTTGTATGATATTGTATTGTTGAATGGTATTGTATGATATTGGGGGGCTGAA
1 TTTGCTGAACCTTGTTGTATGATATTATTTTGTTGAATGGTATTGTATGATATTGGGAGGCTGAA
3619474 TCATATGCTGAATGG
66 TCATATGCTGAATGG
* * *
3619489 TTTGCTGAACCTTGTTGTCTGATATTATTTTGCTGAATGGTTTTGTATGATATT-GGAGGCCTGA
1 TTTGCTGAACCTTGTTGTATGATATTATTTTGTTGAATGGTATTGTATGATATTGGGAGG-CTGA
* *
3619553 ATCGTATGTTGAATGG
65 ATCATATGCTGAATGG
3619569 TTTGCT
1 TTTGCT
3619575 AAATGGTGTT
Statistics
Matches: 150, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 25 0.17
80 125 0.83
ACGTcount: A:0.21, C:0.08, G:0.27, T:0.44
Consensus pattern (80 bp):
TTTGCTGAACCTTGTTGTATGATATTATTTTGTTGAATGGTATTGTATGATATTGGGAGGCTGAA
TCATATGCTGAATGG
Found at i:3619523 original size:40 final size:40
Alignment explanation
Indices: 3619399--3619531 Score: 112
Period size: 40 Copynumber: 3.3 Consensus size: 40
3619389 TTGAATCATA
* * *
3619399 TGCTGAATGGTTTGCTGAACCTTGTTGTATGATATTGTAT
1 TGCTGAATGGTTTGCTGAACCTTGTTGTCTGATATTATTT
* * ** * * *
3619439 TGTTGAATGGTATTGTATGATA--TTGGGGGGCTGA-ATCA-TA
1 TGCTGAATGGT-TTG-CTGA-ACCTT-GTTGTCTGATATTATTT
3619479 TGCTGAATGGTTTGCTGAACCTTGTTGTCTGATATTATTT
1 TGCTGAATGGTTTGCTGAACCTTGTTGTCTGATATTATTT
3619519 TGCTGAATGGTTT
1 TGCTGAATGGTTT
3619532 TGTATGATAT
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
37 1 0.01
38 9 0.13
39 8 0.12
40 34 0.50
41 7 0.10
42 8 0.12
43 1 0.01
ACGTcount: A:0.20, C:0.09, G:0.27, T:0.44
Consensus pattern (40 bp):
TGCTGAATGGTTTGCTGAACCTTGTTGTCTGATATTATTT
Found at i:3622028 original size:20 final size:20
Alignment explanation
Indices: 3622003--3622058 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
3621993 AATATATATC
3622003 TTTTATTTCTTCA-TAAGTAA
1 TTTTATTTCTT-ATTAAGTAA
*
3622023 TTTTATTTATTATTAAGTAA
1 TTTTATTTCTTATTAAGTAA
*
3622043 TCTTT-TTTCTTTTTAA
1 T-TTTATTTCTTATTAA
3622059 TTTAGGGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.87
21 3 0.10
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTATTTCTTATTAAGTAA
Done.