Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005353.1 Hibiscus syriacus cultivar Beakdansim tig00012157_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67674
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Found at i:3760 original size:12 final size:12
Alignment explanation
Indices: 3740--3809 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
3730 GATCCATTAC
*
3740 CTGAATTCTGTT
1 CTGATTTCTGTT
3752 CTGATTTCT-TAT
1 CTGATTTCTGT-T
3764 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
3776 CTGATATCTGAT
1 CTGATTTCTGTT
*
3788 CTGAATTCTGTT
1 CTGATTTCTGTT
*
3800 CTAATTTCTG
1 CTGATTTCTG
3810 ATATCTCTCC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
11 3 0.07
12 40 0.87
13 3 0.07
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.50
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:3771 original size:24 final size:24
Alignment explanation
Indices: 3703--3811 Score: 114
Period size: 24 Copynumber: 4.5 Consensus size: 24
3693 AAATATTTTA
3703 TCTGATTTCTGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
* * * *
3727 TATGA-TCCATTACCTGAATTCTGT
1 TCTGATTTC-TGATCTGAATTCTGT
* *
3751 TCTGATTTCTTATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
3775 TCTGATATCTGATCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
3799 TCTAATTTCTGAT
1 TCTGATTTCTGAT
3812 ATCTCTCCGT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
23 2 0.03
24 65 0.93
25 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:8351 original size:24 final size:24
Alignment explanation
Indices: 8283--8370 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 24
8273 ATTTCCGACT
* * *
8283 TGAATTCTGTTATGATA-CATTACC
1 TGAATTCTGTTCTGATATC-TGAAC
* * * *
8307 TGAATTATGTTCTAATTTCTGATC
1 TGAATTCTGTTCTGATATCTGAAC
*
8331 TGGATTCTGTTCTGATATCTGAAC
1 TGAATTCTGTTCTGATATCTGAAC
* *
8355 TTAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
8371 TTTTGATATC
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 48 0.98
25 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGAAC
Found at i:12298 original size:17 final size:17
Alignment explanation
Indices: 12276--12308 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12266 TTACCGGATT
*
12276 AAAAACCGGTTTTTTTA
1 AAAAACAGGTTTTTTTA
12293 AAAAACAGGTTTTTTT
1 AAAAACAGGTTTTTTT
12309 CAAACCGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (17 bp):
AAAAACAGGTTTTTTTA
Found at i:15304 original size:24 final size:24
Alignment explanation
Indices: 15277--15408 Score: 133
Period size: 24 Copynumber: 5.5 Consensus size: 24
15267 TATATCAAAA
* * *
15277 ATCAAATCATAATTCACGTCAAGT
1 ATCAGATCAGAATTCATGTCAAGT
* * * *
15301 ATCATATCAAAATTTAGGTCAAGT
1 ATCAGATCAGAATTCATGTCAAGT
* *
15325 ATCATATCAGAA-TCTAAGTCAAGT
1 ATCAGATCAGAATTC-ATGTCAAGT
*
15349 ATCAGATCAGAATCCATGTC-AGAT
1 ATCAGATCAGAATTCATGTCAAG-T
*
15373 ATCAGATCAGAATCCATGTCAAGT
1 ATCAGATCAGAATTCATGTCAAGT
15397 ATCAGATCAGAA
1 ATCAGATCAGAA
15409 ATCAAATAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
23 3 0.03
24 88 0.94
25 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (24 bp):
ATCAGATCAGAATTCATGTCAAGT
Found at i:15425 original size:48 final size:48
Alignment explanation
Indices: 15325--15425 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
15315 TAGGTCAAGT
* * ** * * *
15325 ATCATATCAGAATCTAAGTCAAGTATCAGATCAGAATCCATGTCAGAT
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATAAAAA
*
15373 ATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAAT-CAAATAAAAA
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAG-AATCCAAATAAAAA
15421 ATCAG
1 ATCAG
15426 GTAAAATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 41 0.93
49 3 0.07
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.24
Consensus pattern (48 bp):
ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATAAAAA
Found at i:20388 original size:24 final size:24
Alignment explanation
Indices: 20356--20484 Score: 118
Period size: 24 Copynumber: 5.4 Consensus size: 24
20346 TATATCAAAA
*
20356 ATCAAATCATAATTCACGT-AATGT
1 ATCATATCATAATTCACGTCAA-GT
*
20380 ATCATATCATAATTCAGGTCAAGT
1 ATCATATCATAATTCACGTCAAGT
* * *
20404 ATCATATCAGAATCCAAGTCAAGT
1 ATCATATCATAATTCACGTCAAGT
* * * *
20428 ATCAGATCAGAATCCATGTC-AGAT
1 ATCATATCATAATTCACGTCAAG-T
* * *
20452 ATCATATCAGAATCCATGTCAAGT
1 ATCATATCATAATTCACGTCAAGT
20476 ATCATATCA
1 ATCATATCA
20485 GAAATCAAAT
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
23 2 0.02
24 88 0.94
25 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (24 bp):
ATCATATCATAATTCACGTCAAGT
Found at i:20485 original size:24 final size:24
Alignment explanation
Indices: 20378--20487 Score: 159
Period size: 24 Copynumber: 4.6 Consensus size: 24
20368 TTCACGTAAT
* * *
20378 GTATCATATCATAATTCAGGTCAA
1 GTATCATATCAGAATCCATGTCAA
*
20402 GTATCATATCAGAATCCAAGTCAA
1 GTATCATATCAGAATCCATGTCAA
*
20426 GTATCAGATCAGAATCCATGTC-A
1 GTATCATATCAGAATCCATGTCAA
20449 GATATCATATCAGAATCCATGTCAA
1 G-TATCATATCAGAATCCATGTCAA
20474 GTATCATATCAGAA
1 GTATCATATCAGAA
20488 ATCAAATCGA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
23 2 0.03
24 74 0.95
25 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (24 bp):
GTATCATATCAGAATCCATGTCAA
Found at i:25948 original size:12 final size:12
Alignment explanation
Indices: 25928--25962 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
25918 GATAATGCAA
25928 ATAACATTTGAT
1 ATAACATTTGAT
*
25940 ATAAAATTTGA-
1 ATAACATTTGAT
25951 ATAACATTTGAT
1 ATAACATTTGAT
25963 TTATTACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (12 bp):
ATAACATTTGAT
Found at i:26212 original size:11 final size:11
Alignment explanation
Indices: 26196--26227 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
26186 ATGTGTATAT
26196 TATATAGTATG
1 TATATAGTATG
26207 TATATAGTATG
1 TATATAGTATG
26218 TATATAGTAT
1 TATATAGTAT
26228 ATAGTTGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (11 bp):
TATATAGTATG
Found at i:26227 original size:18 final size:18
Alignment explanation
Indices: 26184--26232 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
26174 AAATGTGTAG
* *
26184 GTATGTGTATATTATATA
1 GTATGTATATAGTATATA
*
26202 GTATGTATATAGTATGTA
1 GTATGTATATAGTATATA
26220 -TATAGTATATAGT
1 GTAT-GTATATAGT
26233 TGGCATGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (18 bp):
GTATGTATATAGTATATA
Found at i:26374 original size:30 final size:27
Alignment explanation
Indices: 26340--26408 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
26330 TAATAGTTGC
26340 ATTGCATATCATATAGTTTCATATCAAATA
1 ATTGCATAT--TATA-TTTCATATCAAATA
* *
26370 ATTGCATATTATATTTGATATTAAATA
1 ATTGCATATTATATTTCATATCAAATA
*
26397 ATTAGTATATTA
1 ATT-GCATATTA
26409 CCTAGTTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.43
28 11 0.31
30 9 0.26
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (27 bp):
ATTGCATATTATATTTCATATCAAATA
Found at i:26377 original size:15 final size:15
Alignment explanation
Indices: 26340--26378 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
26330 TAATAGTTGC
*
26340 ATTGCATATCATATA
1 ATTGCATATCAAATA
* *
26355 GTTTCATATCAAATA
1 ATTGCATATCAAATA
26370 ATTGCATAT
1 ATTGCATAT
26379 TATATTTGAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (15 bp):
ATTGCATATCAAATA
Found at i:26420 original size:30 final size:28
Alignment explanation
Indices: 26351--26436 Score: 75
Period size: 30 Copynumber: 3.0 Consensus size: 28
26341 TTGCATATCA
* * *
26351 TATAGTTTCATATCAAATAATT-GCATAT
1 TATAG-TTGATATTAAATAATTAGTATAT
*
26379 TATATTTGATATTAAATAATTAGTATAT
1 TATAGTTGATATTAAATAATTAGTATAT
* **
26407 TACCTAGTTGATATTATATGGTTAGTATAT
1 TA--TAGTTGATATTAAATAATTAGTATAT
26437 ACTTATATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
27 14 0.30
28 11 0.23
30 22 0.47
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (28 bp):
TATAGTTGATATTAAATAATTAGTATAT
Found at i:27198 original size:27 final size:26
Alignment explanation
Indices: 27109--27207 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 26
27099 ATAGCTCAAC
27109 TATATAGTTTATATATAT-ATATATATA
1 TATATAGTTTATATATATCA-A-ATATA
* * * * *
27136 TATATCGTTCATATGTAAACTATATATA
1 TATATAGTTTATATAT-ATC-AAATATA
27164 TTATATAGTTTATATATATCAAATATA
1 -TATATAGTTTATATATATCAAATATA
*
27191 GTATATAGTTTACATAT
1 -TATATAGTTTATATAT
27208 GAACTATAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
27 34 0.61
28 8 0.14
29 13 0.23
30 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.47
Consensus pattern (26 bp):
TATATAGTTTATATATATCAAATATA
Found at i:27213 original size:56 final size:54
Alignment explanation
Indices: 27109--27215 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 54
27099 ATAGCTCAAC
*
27109 TATATAGTTTATATATATATATATATATATATCGTTCATATGTAAACTATATATAT
1 TATATAGTTTATATATATAAATATATATATATC-TTCATATG-AAACTATATATAT
27165 TATATAGTTTATATATATCAAATATAGTATATAGT-TTACATATG-AACTATA
1 TATATAGTTTATATATAT-AAATATA-TATATA-TCTT-CATATGAAACTATA
27216 GTTAAACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
56 25 0.54
57 8 0.17
58 12 0.26
59 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.46
Consensus pattern (54 bp):
TATATAGTTTATATATATAAATATATATATATCTTCATATGAAACTATATATAT
Found at i:27415 original size:27 final size:27
Alignment explanation
Indices: 27385--27450 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
27375 ATATTATATG
27385 GTATATAAATATCAACTATAGTACATA
1 GTATATAAATATCAACTATAGTACATA
*
27412 GTATATAAATATCAACTATAGTATATA
1 GTATATAAATATCAACTATAGTACATA
* *
27439 GTTTATATATAT
1 GTATATAAATAT
27451 AGTATATACT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (27 bp):
GTATATAAATATCAACTATAGTACATA
Found at i:27440 original size:7 final size:7
Alignment explanation
Indices: 27428--27465 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
27418 AAATATCAAC
27428 TATAGTA
1 TATAGTA
*
27435 TATAGTT
1 TATAGTA
27442 TATA-TA
1 TATAGTA
27448 TATAGTA
1 TATAGTA
*
27455 TATACTA
1 TATAGTA
27462 TATA
1 TATA
27466 AATAGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (7 bp):
TATAGTA
Found at i:27465 original size:20 final size:20
Alignment explanation
Indices: 27428--27465 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27418 AAATATCAAC
* *
27428 TATAGTATATAGTTTATATA
1 TATAGTATATACTATATATA
27448 TATAGTATATACTATATA
1 TATAGTATATACTATATA
27466 AATAGTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (20 bp):
TATAGTATATACTATATATA
Found at i:27500 original size:24 final size:24
Alignment explanation
Indices: 27460--27527 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
27450 TAGTATATAC
*
27460 TATATAAA-TAGTTTATATAATTCA
1 TATATAAACTA-TATATATAATTCA
*
27484 T-TAATAAACTATATATATAGTTCA
1 TAT-ATAAACTATATATATAATTCA
*
27508 TATGTAAACTATATAGTATA
1 TATATAAACTATATA-TATA
27528 TACTATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.03
24 29 0.78
25 7 0.19
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (24 bp):
TATATAAACTATATATATAATTCA
Found at i:27567 original size:33 final size:32
Alignment explanation
Indices: 27425--27569 Score: 93
Period size: 33 Copynumber: 4.3 Consensus size: 32
27415 TATAAATATC
*
27425 AACTATAGTATATAGTTTATAT-A-T-ATAGTAT
1 AACTATA-TAAATAGTTTATATAATTAAT-GTAT
*
27456 ATACTATATAAATAGTTTATATAATTCAT-TAAT
1 A-ACTATATAAATAGTTTATATAATTAATGT-AT
* * *
27489 AAACTATATATATAGTTCATATGTAAACTATATAGTAT
1 -AACTATATAAATAGTT--TATAT-AATTA-AT-GTAT
27527 ATACTATATAAATAGTTTAT-TAATTAATGTATT
1 A-ACTATATAAATAGTTTATATAATTAATGTA-T
27560 CAACTATATA
1 -AACTATATA
27570 GTATTTATAT
Statistics
Matches: 92, Mismatches: 7, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
31 14 0.15
32 11 0.12
33 28 0.30
34 8 0.09
35 5 0.05
36 6 0.07
37 3 0.03
38 16 0.17
39 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
AACTATATAAATAGTTTATATAATTAATGTAT
Found at i:27620 original size:2 final size:2
Alignment explanation
Indices: 27601--27658 Score: 91
Period size: 2 Copynumber: 29.0 Consensus size: 2
27591 ACTTTGAATT
*
27601 TA TA TA GTA TA AA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27643 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
27659 ATTGTTTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 1 0.02
2 49 0.94
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:29926 original size:20 final size:18
Alignment explanation
Indices: 29903--29950 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
29893 GTGCCAGCAA
29903 TATCGATACTGACCCTTGGG
1 TATCGATACT-ACCC-TGGG
*
29923 TATCGATACCTACCCTGTG
1 TATCGATA-CTACCCTGGG
29942 TATCGATAC
1 TATCGATAC
29951 CAAAAATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 11 0.42
20 12 0.46
21 2 0.08
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (18 bp):
TATCGATACTACCCTGGG
Found at i:29946 original size:19 final size:21
Alignment explanation
Indices: 29903--29951 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
29893 GTGCCAGCAA
29903 TATCGATA-CTGACCCTTGGG
1 TATCGATACCTGACCCTTGGG
*
29923 TATCGATACCT-ACCC-TGTG
1 TATCGATACCTGACCCTTGGG
29942 TATCGATACC
1 TATCGATACC
29952 AAAAATAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 13 0.48
20 12 0.44
21 2 0.07
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (21 bp):
TATCGATACCTGACCCTTGGG
Found at i:32092 original size:15 final size:15
Alignment explanation
Indices: 32055--32086 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32045 ACTATTGTGA
*
32055 CAAATTTAATTTTGT
1 CAAAATTAATTTTGT
32070 CAAAATTAATTTTGT
1 CAAAATTAATTTTGT
32085 CA
1 CA
32087 CTATTAGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (15 bp):
CAAAATTAATTTTGT
Found at i:33704 original size:12 final size:12
Alignment explanation
Indices: 33684--33753 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
33674 GATACATGAC
*
33684 CTGAATTCTGTT
1 CTGATTTCTGTT
*
33696 CTGATTTCTGAT
1 CTGATTTCTGTT
*
33708 ATGGATTT-TGTT
1 CT-GATTTCTGTT
*
33720 CTGATATCTGTT
1 CTGATTTCTGTT
*
33732 CTGAATTCTGTT
1 CTGATTTCTGTT
*
33744 TTGATTTCTG
1 CTGATTTCTG
33754 ATATCTCCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 4 0.09
12 37 0.80
13 5 0.11
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.53
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:33719 original size:24 final size:24
Alignment explanation
Indices: 33685--33757 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
33675 ATACATGACC
33685 TGAATTCTGTTCTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
* * * * *
33709 TGGATTTTGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATTTCTGATA
*
33733 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
33757 T
1 T
33758 CTCCGTTTAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:34277 original size:22 final size:21
Alignment explanation
Indices: 34252--34293 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34242 GGATTCTACC
34252 TAAAAATCAC-AAAATATATATA
1 TAAAAAT-ACTAAAATA-ATATA
34274 TAAAAATACTAAAATAATAT
1 TAAAAATACTAAAATAATAT
34294 CATTTGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATACTAAAATAATATA
Found at i:35398 original size:17 final size:18
Alignment explanation
Indices: 35376--35424 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
35366 TGTCCGGGTT
*
35376 TTTTTATCGTTATT-TTA
1 TTTTTATCATTATTATTA
*
35393 TTTTTATTATTATTATTA
1 TTTTTATCATTATTATTA
*
35411 TTTATTATTATTAT
1 TTT-TTATCATTAT
35425 GTTTATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.43
18 6 0.21
19 10 0.36
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTATCATTATTATTA
Found at i:35404 original size:3 final size:3
Alignment explanation
Indices: 35385--35424 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
35375 TTTTTTATCG
*
35385 TTA TT- TTA TTT TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
35425 GTTTATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:35414 original size:16 final size:15
Alignment explanation
Indices: 35385--35432 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 15
35375 TTTTTTATCG
35385 TTATT-TTATTTTTA
1 TTATTATTATTTTTA
35399 TTATTATTATTATTTA
1 TTATTATTATT-TTTA
*
35415 TTATTATTATGTTTA
1 TTATTATTATTTTTA
35430 TTA
1 TTA
35433 ATTACATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 5 0.16
15 12 0.39
16 14 0.45
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTATTATTATTTTTA
Found at i:35421 original size:22 final size:22
Alignment explanation
Indices: 35389--35432 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
35379 TTATCGTTAT
*
35389 TTTATTTTTATTAT-TATTATTA
1 TTTATTATTATTATGT-TTATTA
35411 TTTATTATTATTATGTTTATTA
1 TTTATTATTATTATGTTTATTA
35433 ATTACATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTATTATTATTATGTTTATTA
Found at i:35436 original size:13 final size:13
Alignment explanation
Indices: 35390--35432 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
35380 TATCGTTATT
*
35390 TTATTTTTAT-TA
1 TTATTATTATGTA
*
35402 TTATTATTATTTA
1 TTATTATTATGTA
35415 TTATTATTATGT-
1 TTATTATTATGTA
35427 TTATTA
1 TTATTA
35433 ATTACATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 15 0.54
13 13 0.46
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTATTATGTA
Found at i:35521 original size:25 final size:25
Alignment explanation
Indices: 35492--35691 Score: 400
Period size: 25 Copynumber: 8.0 Consensus size: 25
35482 CAATCAACCC
35492 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
35517 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
35542 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
35567 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
35592 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
35617 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
35642 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
35667 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
35692 TCCCCTAAAT
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 175 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:36223 original size:18 final size:19
Alignment explanation
Indices: 36198--36264 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
36188 GAGAAAAAGG
36198 AAAAAGAA-A-ACAAAAAA
1 AAAAAGAAGATACAAAAAA
*
36215 AAAACAGAAGATA-GAAAAA
1 AAAA-AGAAGATACAAAAAA
*
36234 AAAAAGAGAGATTCGAAACAAA
1 AAAAAGA-AGATAC-AAA-AAA
36256 AAAAA-AAGA
1 AAAAAGAAGA
36265 GAAAGGAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
17 4 0.10
18 7 0.17
19 14 0.35
20 4 0.10
21 3 0.08
22 8 0.20
ACGTcount: A:0.76, C:0.06, G:0.13, T:0.04
Consensus pattern (19 bp):
AAAAAGAAGATACAAAAAA
Found at i:36273 original size:22 final size:22
Alignment explanation
Indices: 36191--36273 Score: 62
Period size: 24 Copynumber: 3.8 Consensus size: 22
36181 GGGTTCAGAG
* * *
36191 AAAAAGGAAAAAGAAAACAAAA
1 AAAAAAGAGAAAGGAAACAAAA
* * *
36213 AAAAAACAG-AA-GATAGAAAA
1 AAAAAAGAGAAAGGAAACAAAA
**
36233 AAAAAAGAGAGATTCGAAACAAAA
1 AAAAAAGAGA-A-AGGAAACAAAA
36257 AAAAAAGAGAAAGGAAA
1 AAAAAAGAGAAAGGAAA
36274 GAGGAGAGAA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
20 14 0.31
21 2 0.04
22 11 0.24
23 1 0.02
24 17 0.38
ACGTcount: A:0.75, C:0.05, G:0.17, T:0.04
Consensus pattern (22 bp):
AAAAAAGAGAAAGGAAACAAAA
Found at i:40782 original size:26 final size:25
Alignment explanation
Indices: 40754--40825 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
40744 TTTTTGACGT
40754 TCTATCTCTTTGAGACCTTG-AA-A
1 TCTATCTCTTTGAGACCTTGAAACA
**
40777 --TAT-TCTTTTCGACCTTGAAACGA
1 TCTATCTCTTTGAGACCTTGAAAC-A
40800 TCTATCTCTTTGAGACCTTGAAACA
1 TCTATCTCTTTGAGACCTTGAAACA
40825 T
1 T
40826 TCTTTCCACC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
20 12 0.31
21 5 0.13
23 1 0.03
25 5 0.13
26 16 0.41
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.39
Consensus pattern (25 bp):
TCTATCTCTTTGAGACCTTGAAACA
Found at i:41436 original size:12 final size:12
Alignment explanation
Indices: 41418--41478 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
41408 GACGCAGAGT
41418 GCAAAGATCAAA
1 GCAAAGATCAAA
* **
41430 CCAAAGAAAAAA
1 GCAAAGATCAAA
* *
41442 ACAAAGAGCAAA
1 GCAAAGATCAAA
* *
41454 GAAAAAATCAAA
1 GCAAAGATCAAA
*
41466 GCAAAAATCAAA
1 GCAAAGATCAAA
41478 G
1 G
41479 AAAAAGCAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.67, C:0.15, G:0.13, T:0.05
Consensus pattern (12 bp):
GCAAAGATCAAA
Found at i:41483 original size:12 final size:12
Alignment explanation
Indices: 41450--41483 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
41440 AAACAAAGAG
41450 CAAAGAAAAAAT
1 CAAAGAAAAAAT
*
41462 CAAAGCAAAAAT
1 CAAAGAAAAAAT
41474 CAAAGAAAAA
1 CAAAGAAAAA
41484 GCAAAGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.74, C:0.12, G:0.09, T:0.06
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:42683 original size:12 final size:12
Alignment explanation
Indices: 42666--42740 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 12
42656 GATTGAGAAA
42666 CATACATCAACT
1 CATACATCAACT
*
42678 CATACATACAAATAT
1 CATACAT-C-AA-CT
42693 ACATACATCAACT
1 -CATACATCAACT
*
42706 CATACATACATATAT
1 CATACAT-CA-A-CT
*
42721 ACATACATCAACA
1 -CATACATCAACT
42734 CATACAT
1 CATACAT
42741 GCATGTTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
12 21 0.42
13 4 0.08
14 6 0.12
15 5 0.10
16 14 0.28
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (12 bp):
CATACATCAACT
Found at i:42684 original size:16 final size:16
Alignment explanation
Indices: 42665--42740 Score: 87
Period size: 16 Copynumber: 5.2 Consensus size: 16
42655 AGATTGAGAA
42665 ACATACATCAACTCAT
1 ACATACATCAACTCAT
42681 ACATACA--AA-T-AT
1 ACATACATCAACTCAT
42693 ACATACATCAACTCAT
1 ACATACATCAACTCAT
42709 ACATACAT--A-T-AT
1 ACATACATCAACTCAT
*
42721 ACATACATCAACACAT
1 ACATACATCAACTCAT
42737 ACAT
1 ACAT
42741 GCATGTTACA
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
12 19 0.37
13 2 0.04
14 6 0.12
15 1 0.02
16 23 0.45
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (16 bp):
ACATACATCAACTCAT
Found at i:42696 original size:28 final size:28
Alignment explanation
Indices: 42665--42740 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
42655 AGATTGAGAA
42665 ACATACATCAACTCATACATACAAATAT
1 ACATACATCAACTCATACATACAAATAT
*
42693 ACATACATCAACTCATACATACATATAT
1 ACATACATCAACTCATACATACAAATAT
*
42721 ACATACATCAACACATACAT
1 ACATACATCAACTCATACAT
42741 GCATGTTACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (28 bp):
ACATACATCAACTCATACATACAAATAT
Found at i:43145 original size:36 final size:36
Alignment explanation
Indices: 43105--43203 Score: 180
Period size: 36 Copynumber: 2.8 Consensus size: 36
43095 GATTTTTCTA
43105 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
43141 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
**
43177 AAAACAAATTTTGTCTCATTTGAGACA
1 AAAACAAATTTTGTCTCGCTTGAGACA
43204 TTTTCCCTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTATTTC
Found at i:43532 original size:101 final size:98
Alignment explanation
Indices: 43326--43554 Score: 250
Period size: 101 Copynumber: 2.3 Consensus size: 98
43316 TGAGAATTTT
** * *
43326 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
43391 AAAAACAAAATCTCACCTTAGATTGTTGTTTCTTTC
66 AAAAACAAAATCTCACCTTAGA-T-TCGTTTC-TTC
* * *
43427 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCAC-
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
43491 ATTAAACAAAGTTGATCTCA-CTTGAGA-TCGTTTC-TC
66 A-AAAACAAA----ATCTCACCTT-AGATTCGTTTCTTC
*
43527 AAAAACAAACTTTGTCTCGCTTGAGACA
1 -AAAACAAATTTTGTCTCGCTTGAGACA
43555 ATTGCTCTAA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
100 3 0.03
101 89 0.81
102 6 0.05
104 3 0.03
105 9 0.08
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (98 bp):
AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATCTCACCTTAGATTCGTTTCTTC
Found at i:43570 original size:36 final size:34
Alignment explanation
Indices: 43527--43624 Score: 101
Period size: 36 Copynumber: 2.8 Consensus size: 34
43517 ATCGTTTCTC
43527 AAAAACAAACTTTGTCTCGCTTGAGACAAT-TGCTCT
1 AAAAACAAA-TTTGTCTCGCTTGAGACAATAT-CT-T
** *
43563 AAAAACAAATTTTGTCTCATTTGAGACTATATCTT
1 AAAAACAAA-TTTGTCTCGCTTGAGACAATATCTT
*
43598 -AAAGCAAATTTCGTCTCGCTTGAGACA
1 AAAAACAAATTT-GTCTCGCTTGAGACA
43625 TCATTTTCTC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
33 3 0.06
34 19 0.37
35 1 0.02
36 28 0.54
37 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (34 bp):
AAAAACAAATTTGTCTCGCTTGAGACAATATCTT
Found at i:43906 original size:29 final size:29
Alignment explanation
Indices: 43870--43964 Score: 142
Period size: 29 Copynumber: 3.4 Consensus size: 29
43860 GTTTCTCTTG
43870 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
43899 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* *
43928 AAATATCTTTGAG-TTGTTTCTTTTG-A-
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
43954 AAAAATCTTTG
1 AAAAATCTTTG
43965 GAAACAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
26 10 0.16
27 1 0.02
28 11 0.18
29 39 0.64
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:44295 original size:120 final size:118
Alignment explanation
Indices: 44127--44348 Score: 270
Period size: 120 Copynumber: 1.9 Consensus size: 118
44117 TTAACAAAAT
* * * *
44127 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTCTCTCTTGAGACAGTTTCTAATTAAAAAC
1 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATATCTTAAGACAATTTCT-ATTAAAAA-
*
44192 TAATTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTTACTTAAGATGTAATC
64 -AATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTTACTTAAGATGTAATC
** * *
44247 CATCTTTGAGTCTATTTCTTTTGAAACAAAAT-TT-TATATCTTAAAGACAATTTCTTTTGAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTATATCTT-AAGACAATTTCTATTAAAAA
* * *
44310 AATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCT
64 AATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCT
44349 CTCGAGACAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
117 24 0.28
118 10 0.11
119 12 0.14
120 37 0.43
121 4 0.05
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (118 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATATCTTAAGACAATTTCTATTAAAAAAA
TCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTTACTTAAGATGTAATC
Found at i:44416 original size:40 final size:40
Alignment explanation
Indices: 44353--44432 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
44343 TTGTCTCTCG
*
44353 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
* * *
44393 AGACAATTTCTTTT-AAAACTACCCACCTTGGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTGGAGATCGTTT
44433 TTATTAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
Found at i:44551 original size:15 final size:15
Alignment explanation
Indices: 44528--44571 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
44518 TTTTGAGTCG
*
44528 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
44543 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
44558 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
44572 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:44719 original size:64 final size:62
Alignment explanation
Indices: 44577--44731 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 62
44567 AAACAAGATC
* * * *
44577 ATCTTTGAGTTTGTTTCTCTGGAAAC-AATGTTTTATCCCTTAAAACAATTTCTTTTGAAAA
1 ATCTTTGAGTTTGTTTCTTTGGAAACAAAAGTTTTATCCCTCAAAACAATTTCTTTAGAAAA
* * * * * * * **
44638 ATCATTGAATCTCTTTCTTTGGAAACAAAAGTTTGTATCTCTCGAGACGGTTTCTTTGAGAAAA
1 ATCTTTGAGTTTGTTTCTTTGGAAACAAAAGTTT-TATCCCTCAAAACAATTTCTTT-AGAAAA
44702 ATCTTTGAGTTTGTTTCTTTGGAAACAAAA
1 ATCTTTGAGTTTGTTTCTTTGGAAACAAAA
44732 TTTACCATCT
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
61 21 0.28
62 6 0.08
63 16 0.22
64 31 0.42
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (62 bp):
ATCTTTGAGTTTGTTTCTTTGGAAACAAAAGTTTTATCCCTCAAAACAATTTCTTTAGAAAA
Found at i:44909 original size:66 final size:65
Alignment explanation
Indices: 44772--44941 Score: 207
Period size: 67 Copynumber: 2.6 Consensus size: 65
44762 ACAAAACAAA
* * ***
44772 CATCTTTGAGATCGTTTCCCTTGAAATGAATTTTGTCTCGTTTGAGACAATTTCCCATGAAACGT
1 CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTCGCACGAGACAATTTCCCATGAAACGT
* * * * * *
44837 CGATCTTTGAGAACGTTTCCCTTAAAAACGAATTTTGTCTTGCACGAGACAGTTTCCCTTTAAAT
1 C-ATCTTTGAGATCGTTTCCCTT-AAAACGAATTTTGTCTCGCACGAGACAATTTCCCATGAAAC
44902 GT
64 GT
*
44904 CATCTTTGAG-TCGTTTCCCTTAAAACGAATTTGGTCTC
1 CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTC
44942 TTTTGAGACA
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 15 0.17
65 11 0.12
66 29 0.33
67 34 0.38
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (65 bp):
CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTCGCACGAGACAATTTCCCATGAAACGT
Found at i:45111 original size:40 final size:40
Alignment explanation
Indices: 45053--45381 Score: 177
Period size: 40 Copynumber: 7.8 Consensus size: 40
45043 CCAGCCGTCC
* * *
45053 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCATCCCTAGACCAGATCTCT
* * * *
45093 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCTAG---ACCAGATC-TCT
* * * *
45136 TCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--TAGA---CCAGATCTCT
* * *
45182 TCATCACGTATGAGCCGTGTCATCAGCT-GACCAGATCTCC
1 TCATCACGTAGGAGCCGTGTCATC-CCTAGACCAGATCTCT
* *
45222 TCATCACGTAGGAGCCGTGTCA-CCCTTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCC-TAG---ACCAGATC-TCT
* * * *
45265 TCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--TAGA---CCAGATCTCT
* *
45311 TCATCACGTATGAGCCGTGTCTTTCTCC--GACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTC-ATC-CCTAGACCAGATCTCT
*
45351 TCATCACGTAGGAGCCATGTCA-CCCTTAGAC
1 TCATCACGTAGGAGCCGTGTCATCCC-TAGAC
45382 GACCAGACCT
Statistics
Matches: 222, Mismatches: 39, Indels: 56
0.70 0.12 0.18
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 2 0.01
40 85 0.38
42 2 0.01
43 60 0.27
44 3 0.01
45 2 0.01
46 58 0.26
47 6 0.03
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (40 bp):
TCATCACGTAGGAGCCGTGTCATCCCTAGACCAGATCTCT
Found at i:45189 original size:46 final size:46
Alignment explanation
Indices: 45133--45330 Score: 173
Period size: 46 Copynumber: 4.5 Consensus size: 46
45123 TAACCAGCCG
*
45133 TCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAGAAC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
* * * * * *
45179 TCTTCATCACGTATGAGCCGTGTCATCAGC--T-GA---CCAGATC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
* * ** *
45219 TCCTCATCACGTAGGAGCCGTG---TCACCCTTAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
*
45261 GTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
* * *
45308 TCTTCATCACGTATGAGCCGTGT
1 TCCTCATCACGTAGGAACCGTGT
45331 CTTTCTCCGA
Statistics
Matches: 120, Mismatches: 21, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
37 4 0.03
39 1 0.01
40 28 0.23
42 1 0.01
43 26 0.22
44 1 0.01
46 58 0.48
47 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
Found at i:45197 original size:89 final size:83
Alignment explanation
Indices: 45043--45203 Score: 214
Period size: 83 Copynumber: 1.9 Consensus size: 83
45033 CTAAAGATGG
* *
45043 CCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGC
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTAGGAGC
45108 CGTGTCAACCATAGATAA
66 CGTGTCAACCATAGATAA
* * *
45126 CCAGCCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCTTCATCACGT
*
45191 ATGAGCCGTGTCA
60 AGGAGCCGTGTCA
45204 TCAGCTGACC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
83 31 0.47
84 2 0.03
86 3 0.05
89 30 0.45
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (83 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTAGGAGC
CGTGTCAACCATAGATAA
Found at i:45387 original size:129 final size:129
Alignment explanation
Indices: 45053--45380 Score: 507
Period size: 129 Copynumber: 2.5 Consensus size: 129
45043 CCAGCCGTCC
* * * * *
45053 TCATCATGTAGGAACCGTGTCATC-CCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATCAGCC-GACCAGATCTCTTCATCACGTAGGAGCCGTGTCACC
* * *
45117 CATAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGCCAGAACTCT
65 CTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
* *
45182 TCATCACGTATGAGCCGTGTCATCAGCTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCC
1 TCATCACGTATGAGCCGTGTCATCAGCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACCC
45247 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
66 TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
* * *
45311 TCATCACGTATGAGCCGTGTCTTTC-TCCGACCAGATCTCTTCATCACGTAGGAGCCATGTCACC
1 TCATCACGTATGAGCCGTGTC-ATCAGCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACC
45375 CTTAGA
65 CTTAGA
45381 CGACCAGACC
Statistics
Matches: 182, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
129 179 0.98
130 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (129 bp):
TCATCACGTATGAGCCGTGTCATCAGCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACCC
TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTATTATCACCTTTAGATGGCCAGAACTCT
Found at i:45585 original size:17 final size:18
Alignment explanation
Indices: 45563--45611 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
45553 TGTCCGGGTT
*
45563 TTTTTATCGTTATT-TTA
1 TTTTTATCATTATTATTA
*
45580 TTTTTATTATTATTATTA
1 TTTTTATCATTATTATTA
*
45598 TTTATTATTATTAT
1 TTT-TTATCATTAT
45612 GTTTATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.43
18 6 0.21
19 10 0.36
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTATCATTATTATTA
Found at i:45591 original size:3 final size:3
Alignment explanation
Indices: 45572--45611 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
45562 TTTTTTATCG
*
45572 TTA TT- TTA TTT TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
45612 GTTTATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:45601 original size:16 final size:15
Alignment explanation
Indices: 45572--45619 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 15
45562 TTTTTTATCG
45572 TTATT-TTATTTTTA
1 TTATTATTATTTTTA
45586 TTATTATTATTATTTA
1 TTATTATTATT-TTTA
*
45602 TTATTATTATGTTTA
1 TTATTATTATTTTTA
45617 TTA
1 TTA
45620 ATTACATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 5 0.16
15 12 0.39
16 14 0.45
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTATTATTATTTTTA
Found at i:45608 original size:22 final size:22
Alignment explanation
Indices: 45576--45619 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
45566 TTATCGTTAT
*
45576 TTTATTTTTATTAT-TATTATTA
1 TTTATTATTATTATGT-TTATTA
45598 TTTATTATTATTATGTTTATTA
1 TTTATTATTATTATGTTTATTA
45620 ATTACATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTATTATTATTATGTTTATTA
Found at i:45623 original size:13 final size:13
Alignment explanation
Indices: 45577--45619 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
45567 TATCGTTATT
*
45577 TTATTTTTAT-TA
1 TTATTATTATGTA
*
45589 TTATTATTATTTA
1 TTATTATTATGTA
45602 TTATTATTATGT-
1 TTATTATTATGTA
45614 TTATTA
1 TTATTA
45620 ATTACATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 15 0.54
13 13 0.46
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTATTATGTA
Found at i:45708 original size:25 final size:25
Alignment explanation
Indices: 45679--45778 Score: 200
Period size: 25 Copynumber: 4.0 Consensus size: 25
45669 CAATCAACCC
45679 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
45704 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
45729 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
45754 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
45779 TCCCCTAAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 75 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:48988 original size:32 final size:32
Alignment explanation
Indices: 48952--49042 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
48942 ATTTCTCATT
*
48952 ATAAAAAA-TGTGACAAATAATATTCTA-TCACA
1 ATAAAAAATTGTAACAAA-AATATT-TAGTCACA
*
48984 ATAAAAAATTGTAACAAAATTATTTAGTCACA
1 ATAAAAAATTGTAACAAAAATATTTAGTCACA
* *
49016 GTAAAAAAGT-TATA-AAAAATATTTAGT
1 ATAAAAAATTGTA-ACAAAAATATTTAGT
49043 TTCAAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
31 16 0.31
32 27 0.53
33 8 0.16
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (32 bp):
ATAAAAAATTGTAACAAAAATATTTAGTCACA
Found at i:49149 original size:21 final size:19
Alignment explanation
Indices: 49123--49165 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
49113 TTGATGTTAT
49123 AATTTAACTTAATTGTGACAA
1 AATTT-ACTT-ATTGTGACAA
* *
49144 AATTTACTTTTTGTGATAA
1 AATTTACTTATTGTGACAA
49163 AAT
1 AAT
49166 AATTGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (19 bp):
AATTTACTTATTGTGACAA
Found at i:51023 original size:20 final size:20
Alignment explanation
Indices: 50998--51051 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
50988 TTGCACCCTT
*
50998 GATGCATGGATGCATGGCA-G
1 GATGCATCGATGCATGG-ATG
51018 GATGCATCGATGCATGGATG
1 GATGCATCGATGCATGGATG
51038 GATGCATCGATGCA
1 GATGCATCGATGCA
51052 CTAAGTGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (20 bp):
GATGCATCGATGCATGGATG
Found at i:54493 original size:20 final size:20
Alignment explanation
Indices: 54468--54522 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
54458 TGTAGCCTTT
*
54468 ATGCATGGATGCATGGCA-GG
1 ATGCATCGATGCATGG-ATGG
54488 ATGCATCGATGCATGGATGG
1 ATGCATCGATGCATGGATGG
54508 ATGCATCGATGCATG
1 ATGCATCGATGCATG
54523 CATCGATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (20 bp):
ATGCATCGATGCATGGATGG
Found at i:54510 original size:12 final size:12
Alignment explanation
Indices: 54495--54550 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
54485 AGGATGCATC
*
54495 GATGCATGGATG
1 GATGCATCGATG
54507 GATGCATCGATG
1 GATGCATCGATG
*
54519 CATGCATCGAT-
1 GATGCATCGATG
*
54530 -AT--ATGGATG
1 GATGCATCGATG
54539 GATGCATCGATG
1 GATGCATCGATG
54551 CACTAAGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 5 0.14
10 4 0.11
12 27 0.75
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (12 bp):
GATGCATCGATG
Found at i:54513 original size:32 final size:32
Alignment explanation
Indices: 54488--54552 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
54478 GCATGGCAGG
*
54488 ATGCATCGATGCATGGATGGATGCATCGATGC
1 ATGCATCGATACATGGATGGATGCATCGATGC
*
54520 ATGCATCGATATATGGATGGATGCATCGATGC
1 ATGCATCGATACATGGATGGATGCATCGATGC
54552 A
1 A
54553 CTAAGTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (32 bp):
ATGCATCGATACATGGATGGATGCATCGATGC
Found at i:54755 original size:30 final size:29
Alignment explanation
Indices: 54710--54768 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
54700 TAACTTTGAA
*
54710 TAAATTCAATTAAGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
54739 TAAATTCAATTTAAGTCCAAAAACATTTTG
1 TAAATTCAA-TTAAGTCCAAAAACATTTTG
54769 CCTTAAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:58873 original size:2 final size:2
Alignment explanation
Indices: 58866--58930 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
58856 TTCATCTTCC
58866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58908 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
58931 CATTTTTCCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59736 original size:7 final size:7
Alignment explanation
Indices: 59714--59786 Score: 132
Period size: 7 Copynumber: 10.7 Consensus size: 7
59704 ATAACAAACA
59714 CATG-TT
1 CATGCTT
59720 CATG-TT
1 CATGCTT
59726 CATGCTT
1 CATGCTT
59733 CATGCTT
1 CATGCTT
59740 CATGCTT
1 CATGCTT
59747 CATGCTT
1 CATGCTT
59754 CATGCTT
1 CATGCTT
59761 CATGCTT
1 CATGCTT
59768 CATGCTT
1 CATGCTT
59775 CATGCTT
1 CATGCTT
59782 CATGC
1 CATGC
59787 ACAATACTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
6 10 0.15
7 56 0.85
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (7 bp):
CATGCTT
Found at i:65161 original size:24 final size:20
Alignment explanation
Indices: 65104--65166 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
65094 TTTCCCTTGA
*
65104 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
65124 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
65147 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
65167 TATGCATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 1 0.03
23 4 0.11
24 14 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:65167 original size:24 final size:22
Alignment explanation
Indices: 65104--65168 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
65094 TTTCCCTTGA
*
65104 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATCCTTAAC
*
65124 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CCTTAAC
65147 ATGTGCATCGATGCACTCCTTA
1 A-GTGCATCGATGCA-TCCTTA
65169 TGCATCATGC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.46
25 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATCCTTAAC
Found at i:67112 original size:21 final size:22
Alignment explanation
Indices: 67077--67119 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
67067 TTTTATTTCA
*
67077 TTTGTTTTATTTATATTATTAT
1 TTTGTTTTATATATATTATTAT
67099 TTTGTTTTA-ATATATTATTAT
1 TTTGTTTTATATATATTATTAT
67120 ATTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTGTTTTATATATATTATTAT
Done.