Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168236.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_469, 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: 25748
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Found at i:140 original size:27 final size:27
Alignment explanation
Indices: 105--166 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
95 AATAATTATC
105 TAATT-TATTAATATAATAAT-ATATTA
1 TAATTATATTAA-ATAATAATAATATTA
* * *
131 TAGTTATATTAAATTATAGTAATATTA
1 TAATTATATTAAATAATAATAATATTA
158 TAATTATAT
1 TAATTATAT
167 AATTAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
TAATTATATTAAATAATAATAATATTA
Found at i:146 original size:16 final size:17
Alignment explanation
Indices: 118--169 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
108 TTTATTAATA
*
118 TAATAATAT-ATTATAG
1 TAATATTATAATTATAG
*
134 TTATATTA-AATTATAG
1 TAATATTATAATTATAG
150 TAATATTATAATTATA-
1 TAATATTATAATTATAG
166 TAAT
1 TAAT
170 TAAATATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 24 0.77
17 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
TAATATTATAATTATAG
Found at i:1412 original size:25 final size:24
Alignment explanation
Indices: 1344--1430 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 24
1334 CTAATAAATA
* * *
1344 AATAATTATATTTATTA-ATTTTC
1 AATAATTATATTAAATATATTTTT
*
1367 AA-AA-TAT-TTAACAAATA-TTTT
1 AATAATTATATTAA-ATATATTTTT
1388 AATAATTATTATTAAATATATTTTT
1 AATAATTA-TATTAAATATATTTTT
* * *
1413 ACTAGTTATATTTAATAT
1 AATAATTATATTAAATAT
1431 TATAATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 5 0.10
23 4 0.08
24 14 0.29
25 14 0.29
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (24 bp):
AATAATTATATTAAATATATTTTT
Found at i:1457 original size:17 final size:19
Alignment explanation
Indices: 1419--1457 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1409 TTTTACTAGT
1419 TATATTTAATATTATAATA
1 TATATTTAATATTATAATA
*
1438 TATATATTAATTTTA-AATA
1 TATAT-TTAATATTATAATA
1457 T
1 T
1458 TAAATCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATTTAATATTATAATA
Found at i:1524 original size:23 final size:25
Alignment explanation
Indices: 1475--1536 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
1465 AATTTATTTA
*
1475 TATAATTAAA-ATTAAAATAATTGT
1 TATAATTAAATAATAAAATAATTGT
*
1499 TATAATTAAATAATAATATAA-T-T
1 TATAATTAAATAATAAAATAATTGT
1522 TATAA-TAATATAATA
1 TATAATTAA-ATAATA
1537 TTATTATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 3 0.09
23 12 0.35
24 11 0.32
25 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TATAATTAAATAATAAAATAATTGT
Found at i:1528 original size:15 final size:16
Alignment explanation
Indices: 1508--1571 Score: 64
Period size: 15 Copynumber: 4.2 Consensus size: 16
1498 TTATAATTAA
1508 ATAATAATATAAT-TT
1 ATAATAATATAATATT
1523 ATAATAATATAATATT
1 ATAATAATATAATATT
* * *
1539 ATTATAGTAT-TTATT
1 ATAATAATATAATATT
*
1554 A-AATTATAT-ATATT
1 ATAATAATATAATATT
1568 ATAA
1 ATAA
1572 ACTATATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 10 0.25
15 20 0.50
16 10 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATAATAATATAATATT
Found at i:1530 original size:18 final size:16
Alignment explanation
Indices: 1499--1535 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1489 AAATAATTGT
1499 TATAATTAAATAATAA
1 TATAATTAAATAATAA
*
1515 TATAATT-TATAATAA
1 TATAATTAAATAATAA
1530 TATAAT
1 TATAAT
1536 ATTATTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAAATAATAA
Found at i:1656 original size:24 final size:24
Alignment explanation
Indices: 1629--1704 Score: 66
Period size: 29 Copynumber: 3.0 Consensus size: 24
1619 TTAATTTTAA
1629 TTATTTATAAATATAATTATTATT
1 TTATTTATAAATATAATTATTATT
1653 TTATTTATAGTAATTATAAATTACTTATT
1 TTATTTATA--AA-TAT-AATTA-TTATT
** *
1682 AAATTTATAAACA-AA-TATTATT
1 TTATTTATAAATATAATTATTATT
1704 T
1 T
1705 ATATAATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 5 0.12
23 2 0.05
24 11 0.26
26 3 0.07
27 5 0.12
28 5 0.12
29 12 0.28
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (24 bp):
TTATTTATAAATATAATTATTATT
Found at i:3002 original size:25 final size:22
Alignment explanation
Indices: 2966--3020 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
2956 TATATTATAG
*
2966 TATTAAATATAACTAGTAAAAATA
1 TATTTAATATAACTA-T-AAAATA
* *
2990 TATTTAATAATAATTATTAAATA
1 TATTTAAT-ATAACTATAAAATA
3013 TATTTAAT
1 TATTTAAT
3021 TAAAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.48
24 8 0.30
25 6 0.22
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTTAATATAACTATAAAATA
Found at i:5043 original size:20 final size:20
Alignment explanation
Indices: 5020--5062 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
5010 TTAATTTAAG
5020 TATAATATAATTA-ATAAAAT
1 TATAATAT-ATTAGATAAAAT
* *
5040 TATATTATATTAGATAATAT
1 TATAATATATTAGATAAAAT
5060 TAT
1 TAT
5063 TATCTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TATAATATATTAGATAAAAT
Found at i:5124 original size:16 final size:16
Alignment explanation
Indices: 5105--5163 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 16
5095 TAATATTCAA
5105 ATAATATATAATTATT
1 ATAATATATAATTATT
5121 ATAATATAATAATAATATAT
1 ATAATAT-ATAAT--TAT-T
5141 ACTAATTATATAATTTATT
1 A-TAA-TATATAA-TTATT
5160 ATAA
1 ATAA
5164 CTTGAATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
16 7 0.19
17 5 0.14
18 3 0.08
19 5 0.14
20 5 0.14
21 7 0.19
22 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATATAATTATT
Found at i:5131 original size:21 final size:21
Alignment explanation
Indices: 5105--5192 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
5095 TAATATTCAA
5105 ATAATATATAATTATTATAAT
1 ATAATATATAATTATTATAAT
*
5126 ATAATA-ATAA-TA-TATACT
1 ATAATATATAATTATTATAAT
*
5144 A-ATTATATAATTTATTATAACT
1 ATAATATATAA-TTATTATAA-T
*
5166 -TGAATTTAT-ATTATTA-AAT
1 AT-AATATATAATTATTATAAT
*
5185 ATTATATA
1 ATAATATA
5193 ACAATTTATT
Statistics
Matches: 52, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
17 3 0.06
18 10 0.19
19 7 0.13
20 9 0.17
21 16 0.31
22 2 0.04
23 5 0.10
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (21 bp):
ATAATATATAATTATTATAAT
Found at i:5134 original size:27 final size:27
Alignment explanation
Indices: 5082--5150 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
5072 TAATTTTAAT
* * *
5082 TATAAAATTAATATAATATTCAAATAA
1 TATATAATTATTATAATATTAAAATAA
5109 TATATAATTATTATAATA-TAATAATAA
1 TATATAATTATTATAATATTAA-AATAA
* *
5136 TATATACTAATTATA
1 TATATAATTATTATA
5151 TAATTTATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TATATAATTATTATAATATTAAAATAA
Found at i:5405 original size:13 final size:12
Alignment explanation
Indices: 5383--5441 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
5373 TATTATTATT
5383 TTAA-TATATAA
1 TTAATTATATAA
5394 TCTAATTATATATA
1 T-TAATTATATA-A
*
5408 TTAATCATTATAA
1 TTAATTA-TATAA
*
5421 -CAATTATTATAA
1 TTAATTA-TATAA
5433 TTAATTATA
1 TTAATTATA
5442 ATTGTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 1 0.03
12 15 0.38
13 17 0.44
14 6 0.15
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAATTATATAA
Found at i:5441 original size:10 final size:9
Alignment explanation
Indices: 5361--5454 Score: 52
Period size: 9 Copynumber: 10.3 Consensus size: 9
5351 AATAACAATA
*
5361 TATTATTAT
1 TATTATAAT
*
5370 TATTATTAT
1 TATTATAAT
*
5379 TATTTTAA-
1 TATTATAAT
5387 TA-TATAAT
1 TATTATAAT
5395 CTAATTAT-AT
1 -T-ATTATAAT
*
5405 ATATTAATCAT
1 -TATT-ATAAT
* *
5416 TATAACAAT
1 TATTATAAT
5425 TATTATAAT
1 TATTATAAT
5434 TAATTATAAT
1 T-ATTATAAT
*
5444 TGTTA-AAT
1 TATTATAAT
5452 TAT
1 TAT
5455 ATTAAACATT
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
7 4 0.06
8 7 0.10
9 33 0.49
10 18 0.27
11 5 0.07
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (9 bp):
TATTATAAT
Found at i:6587 original size:20 final size:18
Alignment explanation
Indices: 6549--6590 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
6539 AACTATTTAA
*
6549 TATAAAATAAATATGAAT
1 TATAAAATAAATATAAAT
6567 TATAAATATATAATATAAAT
1 TATAAA-ATA-AATATAAAT
6587 TATA
1 TATA
6591 TTATATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TATAAAATAAATATAAAT
Found at i:6596 original size:14 final size:13
Alignment explanation
Indices: 6548--6598 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
6538 AAACTATTTA
*
6548 ATATAAAATAAAT
1 ATATAATATAAAT
*
6561 ATGA-ATTATAAAT
1 AT-ATAATATAAAT
6574 ATATAATATAAATT
1 ATATAATATAAA-T
*
6588 ATATTATATAA
1 ATATAATATAA
6599 CTTGATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 18 0.58
14 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATAATATAAAT
Found at i:8307 original size:25 final size:24
Alignment explanation
Indices: 8279--8325 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
8269 TTAACAAATA
8279 TTTTAATAATTATTATTAAATATAT
1 TTTTAATAATTA-TATTAAATATAT
* * *
8304 TTTTACTAGTTATATTTAATAT
1 TTTTAATAATTATATTAAATAT
8326 TATAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAATAATTATATTAAATATAT
Found at i:8352 original size:17 final size:19
Alignment explanation
Indices: 8314--8352 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8304 TTTTACTAGT
8314 TATATTTAATATTATAATA
1 TATATTTAATATTATAATA
*
8333 TATATATTAATTTTA-AATA
1 TATAT-TTAATATTATAATA
8352 T
1 T
8353 TAAATCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATTTAATATTATAATA
Found at i:8397 original size:24 final size:24
Alignment explanation
Indices: 8365--8432 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
8355 AATCTAATTT
*
8365 ATTTATATAATTAAA-ATTAAAATA
1 ATTT-TATAATTAAATAATAAAATA
*
8389 ATTGTTATAATTAAATAATAATATA
1 ATT-TTATAATTAAATAATAAAATA
8414 ATTTTATAA-TAATATAATA
1 ATTTTATAATTAA-ATAATA
8433 TTATATAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 3 0.08
24 25 0.64
25 11 0.28
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (24 bp):
ATTTTATAATTAAATAATAAAATA
Found at i:8415 original size:16 final size:16
Alignment explanation
Indices: 8394--8431 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8384 AAATAATTGT
8394 TATAATTAAATAATAA
1 TATAATTAAATAATAA
**
8410 TATAATTTTATAATAA
1 TATAATTAAATAATAA
8426 TATAAT
1 TATAAT
8432 ATTATATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTAAATAATAA
Found at i:8436 original size:16 final size:15
Alignment explanation
Indices: 8403--8466 Score: 60
Period size: 16 Copynumber: 4.3 Consensus size: 15
8393 TTATAATTAA
*
8403 ATAATAATATAATTTT
1 ATAATAATAT-ATATT
8419 ATAATAATATAATATT
1 ATAATAATAT-ATATT
* *
8435 AT-ATAGTATTTATT
1 ATAATAATATATATT
*
8449 A-AATTATATATATT
1 ATAATAATATATATT
8463 ATAA
1 ATAA
8467 ACTATATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 15 0.38
15 8 0.20
16 17 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATAATAATATATATT
Found at i:8551 original size:24 final size:24
Alignment explanation
Indices: 8524--8599 Score: 66
Period size: 29 Copynumber: 3.0 Consensus size: 24
8514 TTAATTTTAA
8524 TTATTTATAAATATAATTATTATT
1 TTATTTATAAATATAATTATTATT
8548 TTATTTATAGTAATTATAAATTACTTATT
1 TTATTTATA--AA-TAT-AATTA-TTATT
** *
8577 AAATTTATAAACA-AA-TATTATT
1 TTATTTATAAATATAATTATTATT
8599 T
1 T
8600 ATATAATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 5 0.12
23 2 0.05
24 11 0.26
26 3 0.07
27 5 0.12
28 5 0.12
29 12 0.28
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (24 bp):
TTATTTATAAATATAATTATTATT
Found at i:9897 original size:25 final size:22
Alignment explanation
Indices: 9861--9915 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
9851 TATATTATAG
*
9861 TATTAAATATAACTAGTAAAAATA
1 TATTTAATATAACTA-T-AAAATA
* *
9885 TATTTAATAATAATTATTAAATA
1 TATTTAAT-ATAACTATAAAATA
9908 TATTTAAT
1 TATTTAAT
9916 TAAAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.48
24 8 0.30
25 6 0.22
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTTAATATAACTATAAAATA
Found at i:12014 original size:26 final size:25
Alignment explanation
Indices: 11979--12065 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 25
11969 TAATTAATAA
*
11979 AATTAATATAATATCAAATAATATAT
1 AATTATTATAATAT-AAATAATATAT
12005 AATTATTATAATA-ATAATAATA-AT
1 AATTATTATAATATA-AATAATATAT
* * *
12029 AATAATAAT-ATATAACTAATTATAT
1 AATTATTATAATATAAATAA-TATAT
12054 AATTTATTATAA
1 AA-TTATTATAA
12066 CTTGAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
23 7 0.14
24 13 0.27
25 11 0.22
26 17 0.35
27 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTATTATAATATAAATAATATAT
Found at i:12018 original size:3 final size:3
Alignment explanation
Indices: 11995--12048 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
11985 TATAATATCA
* *
11995 AAT AAT ATAT AAT TAT TAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
12042 AACT AAT
1 AA-T AAT
12049 TATATAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 37 0.80
4 9 0.20
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:12018 original size:12 final size:12
Alignment explanation
Indices: 11995--12056 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
11985 TATAATATCA
11995 AATAA-TAT-AT
1 AATAATTATAAT
*
12005 AATTATTATAAT
1 AATAATTATAAT
*
12017 AATAATAATAAT
1 AATAATTATAAT
*
12029 AATAATAATATAT
1 AATAATTATA-AT
12042 AACTAATTAT-AT
1 AA-TAATTATAAT
12054 AAT
1 AAT
12057 TTATTATAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 4 0.09
11 4 0.09
12 26 0.59
13 4 0.09
14 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAATTATAAT
Found at i:12320 original size:12 final size:12
Alignment explanation
Indices: 12264--12341 Score: 63
Period size: 12 Copynumber: 6.4 Consensus size: 12
12254 ATAACAATAT
12264 ATTATTATTATT-
1 ATTATTA-TATTA
*
12276 ATTATTATTTTA
1 ATTATTATATTA
12288 A-TA-TATATCTA
1 ATTATTATAT-TA
12299 ATTATATATATTA
1 ATTAT-TATATTA
* **
12312 ATCATTATAACA
1 ATTATTATATTA
12324 ATTATTATAATTA
1 ATTATTAT-ATTA
12337 ATTAT
1 ATTAT
12342 AATTGTTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
10 4 0.08
11 8 0.15
12 22 0.42
13 13 0.25
14 5 0.10
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTATTATATTA
Found at i:12342 original size:10 final size:9
Alignment explanation
Indices: 12263--12355 Score: 50
Period size: 9 Copynumber: 10.3 Consensus size: 9
12253 AATAACAATA
*
12263 TATTATTAT
1 TATTATAAT
*
12272 TATTATTAT
1 TATTATAAT
*
12281 TATTTTAAT
1 TATTATAAT
*
12290 ATATATCTAAT
1 -TAT-TATAAT
12301 TA-TAT-A-
1 TATTATAAT
*
12307 TATTAATCAT
1 TATT-ATAAT
* *
12317 TATAACAAT
1 TATTATAAT
12326 TATTATAAT
1 TATTATAAT
12335 TAATTATAAT
1 T-ATTATAAT
*
12345 TGTTA-AAT
1 TATTATAAT
12353 TAT
1 TAT
12356 ATTAAACATT
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 9 0.14
9 31 0.47
10 17 0.26
11 5 0.08
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (9 bp):
TATTATAAT
Found at i:13497 original size:14 final size:13
Alignment explanation
Indices: 13434--13499 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 13
13424 TTTTAAACAA
13434 ATAATA-AAACTAT
1 ATAATATAAA-TAT
*
13447 TTAATATAAATAAAT
1 ATAATATAAAT--AT
13462 ATGAATTATAAATAT
1 AT-AA-TATAAATAT
13477 ATAATATAAATTAT
1 ATAATATAAA-TAT
*
13491 ATTATATAA
1 ATAATATAA
13500 CTTGATATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
13 12 0.27
14 16 0.36
15 7 0.16
16 2 0.05
17 7 0.16
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
ATAATATAAATAT
Found at i:13942 original size:27 final size:27
Alignment explanation
Indices: 13907--13968 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
13897 AATAATTATC
13907 TAATT-TATTAATATAATAAT-ATATTA
1 TAATTATATTAA-ATAATAATAATATTA
* * *
13933 TAGTTATATTAAATTATAGTAATATTA
1 TAATTATATTAAATAATAATAATATTA
13960 TAATTATAT
1 TAATTATAT
13969 AATTAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
TAATTATATTAAATAATAATAATATTA
Found at i:13948 original size:16 final size:17
Alignment explanation
Indices: 13920--13971 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
13910 TTTATTAATA
*
13920 TAATAATAT-ATTATAG
1 TAATATTATAATTATAG
*
13936 TTATATTA-AATTATAG
1 TAATATTATAATTATAG
13952 TAATATTATAATTATA-
1 TAATATTATAATTATAG
13968 TAAT
1 TAAT
13972 TAAATATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 24 0.77
17 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
TAATATTATAATTATAG
Found at i:15215 original size:25 final size:24
Alignment explanation
Indices: 15147--15233 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 24
15137 CTAATAAATA
* * *
15147 AATAATTATATTTATTA-ATTTTC
1 AATAATTATATTAAATATATTTTT
*
15170 AA-AA-TAT-TTAACAAATA-TTTT
1 AATAATTATATTAA-ATATATTTTT
15191 AATAATTATTATTAAATATATTTTT
1 AATAATTA-TATTAAATATATTTTT
* * *
15216 ACTAGTTATATTTAATAT
1 AATAATTATATTAAATAT
15234 TATAATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 5 0.10
23 4 0.08
24 14 0.29
25 14 0.29
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (24 bp):
AATAATTATATTAAATATATTTTT
Found at i:15260 original size:17 final size:19
Alignment explanation
Indices: 15222--15260 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15212 TTTTACTAGT
15222 TATATTTAATATTATAATA
1 TATATTTAATATTATAATA
*
15241 TATATATTAATTTTA-AATA
1 TATAT-TTAATATTATAATA
15260 T
1 T
15261 TAAATCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATTTAATATTATAATA
Found at i:15327 original size:23 final size:25
Alignment explanation
Indices: 15278--15339 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
15268 AATTTATTTA
*
15278 TATAATTAAA-ATTAAAATAATTGT
1 TATAATTAAATAATAAAATAATTGT
*
15302 TATAATTAAATAATAATATAA-T-T
1 TATAATTAAATAATAAAATAATTGT
15325 TATAA-TAATATAATA
1 TATAATTAA-ATAATA
15340 TTATTATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 3 0.09
23 12 0.35
24 11 0.32
25 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TATAATTAAATAATAAAATAATTGT
Found at i:15331 original size:15 final size:16
Alignment explanation
Indices: 15311--15374 Score: 64
Period size: 15 Copynumber: 4.2 Consensus size: 16
15301 TTATAATTAA
15311 ATAATAATATAAT-TT
1 ATAATAATATAATATT
15326 ATAATAATATAATATT
1 ATAATAATATAATATT
* * *
15342 ATTATAGTAT-TTATT
1 ATAATAATATAATATT
*
15357 A-AATTATAT-ATATT
1 ATAATAATATAATATT
15371 ATAA
1 ATAA
15375 ACTATATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 10 0.25
15 20 0.50
16 10 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATAATAATATAATATT
Found at i:15333 original size:18 final size:16
Alignment explanation
Indices: 15302--15338 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
15292 AAATAATTGT
15302 TATAATTAAATAATAA
1 TATAATTAAATAATAA
*
15318 TATAATT-TATAATAA
1 TATAATTAAATAATAA
15333 TATAAT
1 TATAAT
15339 ATTATTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAAATAATAA
Found at i:15459 original size:24 final size:24
Alignment explanation
Indices: 15432--15507 Score: 66
Period size: 29 Copynumber: 3.0 Consensus size: 24
15422 TTAATTTTAA
15432 TTATTTATAAATATAATTATTATT
1 TTATTTATAAATATAATTATTATT
15456 TTATTTATAGTAATTATAAATTACTTATT
1 TTATTTATA--AA-TAT-AATTA-TTATT
** *
15485 AAATTTATAAACA-AA-TATTATT
1 TTATTTATAAATATAATTATTATT
15507 T
1 T
15508 ATATAATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
22 5 0.12
23 2 0.05
24 11 0.26
26 3 0.07
27 5 0.12
28 5 0.12
29 12 0.28
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (24 bp):
TTATTTATAAATATAATTATTATT
Found at i:16805 original size:25 final size:22
Alignment explanation
Indices: 16769--16823 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
16759 TATATTATAG
*
16769 TATTAAATATAACTAGTAAAAATA
1 TATTTAATATAACTA-T-AAAATA
* *
16793 TATTTAATAATAATTATTAAATA
1 TATTTAAT-ATAACTATAAAATA
16816 TATTTAAT
1 TATTTAAT
16824 TAAAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.48
24 8 0.30
25 6 0.22
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTTAATATAACTATAAAATA
Found at i:18842 original size:20 final size:20
Alignment explanation
Indices: 18819--18861 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
18809 TTAATTTAAG
18819 TATAATATAATTA-ATAAAAT
1 TATAATAT-ATTAGATAAAAT
* *
18839 TATATTATATTAGATAATAT
1 TATAATATATTAGATAAAAT
18859 TAT
1 TAT
18862 TATTATTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TATAATATATTAGATAAAAT
Found at i:18918 original size:51 final size:51
Alignment explanation
Indices: 18826--18973 Score: 130
Period size: 51 Copynumber: 2.9 Consensus size: 51
18816 AAGTATAATA
* * * *
18826 TAATTAATAAAATTATATTATATTAGATAATATTATTATTATTCTAATTTT
1 TAATTAATAAAATTATATAATATTAAATAATATTATAATTATTATAATTTT
**
18877 TAATT-ATAAAATTAATATAATATTCAAATAATA-TATAATTATTATAA-TAA
1 TAATTAATAAAATT-ATATAATATT-AAATAATATTATAATTATTATAATTTT
*
18927 TAA-TAATAATAA-TA-ATAATATATAACTAAT-TATATAATTTATTATAA
1 TAATTAATAA-AATTATATAATAT-TAAATAATAT-TATAA-TTATTATAA
18974 CTTGAAATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
48 13 0.16
49 8 0.10
50 26 0.32
51 28 0.34
52 7 0.09
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (51 bp):
TAATTAATAAAATTATATAATATTAAATAATATTATAATTATTATAATTTT
Found at i:18926 original size:3 final size:3
Alignment explanation
Indices: 18903--18956 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
18893 ATAATATTCA
* *
18903 AAT AAT ATAT AAT TAT TAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
18950 AACT AAT
1 AA-T AAT
18957 TATATAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 37 0.80
4 9 0.20
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:18960 original size:12 final size:10
Alignment explanation
Indices: 18903--18964 Score: 76
Period size: 9 Copynumber: 6.3 Consensus size: 10
18893 ATAATATTCA
18903 AATAATATAT
1 AATAATATAT
*
18913 AATTAT-TAT
1 AATAATATAT
18922 AATAATA-AT
1 AATAATATAT
18931 AATAATA-AT
1 AATAATATAT
18940 AATAATATAT
1 AATAATATAT
18950 AACTAATTATAT
1 AA-TAA-TATAT
18962 AAT
1 AAT
18965 TTATTATAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
9 26 0.57
10 9 0.20
11 4 0.09
12 7 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AATAATATAT
Found at i:19217 original size:13 final size:12
Alignment explanation
Indices: 19195--19253 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
19185 TATTATTATT
19195 TTAA-TATATAA
1 TTAATTATATAA
19206 TCTAATTATATATA
1 T-TAATTATATA-A
*
19220 TTAATCATTATAA
1 TTAATTA-TATAA
*
19233 -CAATTATTATAA
1 TTAATTA-TATAA
19245 TTAATTATA
1 TTAATTATA
19254 ATTGTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 1 0.03
12 15 0.38
13 17 0.44
14 6 0.15
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAATTATATAA
Found at i:19253 original size:10 final size:9
Alignment explanation
Indices: 19173--19266 Score: 52
Period size: 9 Copynumber: 10.3 Consensus size: 9
19163 AATAACAATA
*
19173 TATTATTAT
1 TATTATAAT
*
19182 TATTATTAT
1 TATTATAAT
*
19191 TATTTTAA-
1 TATTATAAT
19199 TA-TATAAT
1 TATTATAAT
19207 CTAATTAT-AT
1 -T-ATTATAAT
*
19217 ATATTAATCAT
1 -TATT-ATAAT
* *
19228 TATAACAAT
1 TATTATAAT
19237 TATTATAAT
1 TATTATAAT
19246 TAATTATAAT
1 T-ATTATAAT
*
19256 TGTTA-AAT
1 TATTATAAT
19264 TAT
1 TAT
19267 ATTAAACATT
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
7 4 0.06
8 7 0.10
9 33 0.49
10 18 0.27
11 5 0.07
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (9 bp):
TATTATAAT
Found at i:20399 original size:20 final size:18
Alignment explanation
Indices: 20361--20402 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
20351 AACTATTTAA
*
20361 TATAAAATAAATATGAAT
1 TATAAAATAAATATAAAT
20379 TATAAATATATAATATAAAT
1 TATAAA-ATA-AATATAAAT
20399 TATA
1 TATA
20403 TTATATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TATAAAATAAATATAAAT
Found at i:20408 original size:14 final size:13
Alignment explanation
Indices: 20360--20410 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
20350 AAACTATTTA
*
20360 ATATAAAATAAAT
1 ATATAATATAAAT
*
20373 ATGA-ATTATAAAT
1 AT-ATAATATAAAT
20386 ATATAATATAAATT
1 ATATAATATAAA-T
*
20400 ATATTATATAA
1 ATATAATATAA
20411 CTTGATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 18 0.58
14 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATAATATAAAT
Found at i:20848 original size:27 final size:27
Alignment explanation
Indices: 20813--20874 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
20803 AATAATTATC
20813 TAATT-TATTAATATAATAAT-ATATTA
1 TAATTATATTAA-ATAATAATAATATTA
* * *
20839 TAGTTATATTAAATTATAGTAATATTA
1 TAATTATATTAAATAATAATAATATTA
20866 TAATTATAT
1 TAATTATAT
20875 AATTAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
TAATTATATTAAATAATAATAATATTA
Found at i:20854 original size:16 final size:17
Alignment explanation
Indices: 20826--20877 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
20816 TTTATTAATA
*
20826 TAATAATAT-ATTATAG
1 TAATATTATAATTATAG
*
20842 TTATATTA-AATTATAG
1 TAATATTATAATTATAG
20858 TAATATTATAATTATA-
1 TAATATTATAATTATAG
20874 TAAT
1 TAAT
20878 TAAATATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 24 0.77
17 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
TAATATTATAATTATAG
Found at i:21760 original size:18 final size:17
Alignment explanation
Indices: 21737--21770 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21727 ATTAATAAAT
21737 TATTATAGATAATTTTAA
1 TATTATA-ATAATTTTAA
*
21755 TATTATAATATTTTTA
1 TATTATAATAATTTTA
21771 TTAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTATAATAATTTTAA
Found at i:22116 original size:25 final size:24
Alignment explanation
Indices: 22047--22134 Score: 60
Period size: 24 Copynumber: 3.8 Consensus size: 24
22037 AACTAATAAA
* *
22047 TAATAATTATATTTATTA-ATTTT
1 TAATAATTATATTAAATATATTTT
* *
22070 CAA-AA-TAT-TTAACAAATA-TTT
1 TAATAATTATATTAA-ATATATTTT
22091 TAATAATTATTATTAAATATATTTT
1 TAATAATTA-TATTAAATATATTTT
* * *
22116 TACTAGTTATATTTAATAT
1 TAATAATTATATTAAATAT
22135 TATAATATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 5 0.10
23 4 0.08
24 14 0.29
25 14 0.29
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (24 bp):
TAATAATTATATTAAATATATTTT
Found at i:22162 original size:21 final size:21
Alignment explanation
Indices: 22123--22164 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22113 TTTTACTAGT
22123 TATATTTAATATTATAATATA
1 TATATTTAATATTATAATATA
*
22144 TATATATTAATTTTA-AATATA
1 TATAT-TTAATATTATAATATA
22165 AAATCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATTTAATATTATAATATA
Found at i:22229 original size:23 final size:23
Alignment explanation
Indices: 22181--22241 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
22171 AATTTATTTA
*
22181 TATAATTAAATTAA-AATAATTGT
1 TATAATTAAA-TAATAATAAATGT
22204 TATAATTAAATAATAATATAAT-T
1 TATAATTAAATAATAATA-AATGT
22227 TATAA-TAATATAATA
1 TATAATTAA-ATAATA
22242 TTATTATAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 6 0.18
23 26 0.76
24 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TATAATTAAATAATAATAAATGT
Found at i:22233 original size:15 final size:16
Alignment explanation
Indices: 22213--22276 Score: 64
Period size: 15 Copynumber: 4.2 Consensus size: 16
22203 TTATAATTAA
22213 ATAATAATATAAT-TT
1 ATAATAATATAATATT
22228 ATAATAATATAATATT
1 ATAATAATATAATATT
* * *
22244 ATTATAGTAT-TTATT
1 ATAATAATATAATATT
*
22259 A-AATTATAT-ATATT
1 ATAATAATATAATATT
22273 ATAA
1 ATAA
22277 ACTATATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 10 0.25
15 20 0.50
16 10 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATAATAATATAATATT
Found at i:22235 original size:18 final size:16
Alignment explanation
Indices: 22204--22240 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
22194 AAATAATTGT
22204 TATAATTAAATAATAA
1 TATAATTAAATAATAA
*
22220 TATAATT-TATAATAA
1 TATAATTAAATAATAA
22235 TATAAT
1 TATAAT
22241 ATTATTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAAATAATAA
Found at i:23257 original size:15 final size:16
Alignment explanation
Indices: 23221--23259 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
23211 ATTAATTAAT
*
23221 TTATAATTATATATTG
1 TTATAATTATATATAG
23237 TATATAATTATATA-AG
1 T-TATAATTATATATAG
23253 TTATAAT
1 TTATAAT
23260 AAAATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 3 0.14
17 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTATAATTATATATAG
Found at i:23699 original size:23 final size:24
Alignment explanation
Indices: 23673--23726 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
23663 TATATTATAG
23673 TATTAAT-ATAACTAGTAAAAATA
1 TATTAATAATAACTAGTAAAAATA
* * *
23696 TATTTAATAATAATTATTAAATATA
1 TA-TTAATAATAACTAGTAAAAATA
23721 T-TTAAT
1 TATTAAT
23727 TAAAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.27
24 5 0.19
25 14 0.54
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TATTAATAATAACTAGTAAAAATA
Found at i:23716 original size:25 final size:22
Alignment explanation
Indices: 23675--23726 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
23665 TATTATAGTA
23675 TTAATATAACTAGTAAAAATATAT
1 TTAATATAACTAGT--AAATATAT
* *
23699 TTAATAATAATTATTAAATATAT
1 TTAAT-ATAACTAGTAAATATAT
23722 TTAAT
1 TTAAT
23727 TAAAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.52
24 5 0.20
25 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATATAACTAGTAAATATAT
Found at i:24175 original size:14 final size:15
Alignment explanation
Indices: 24158--24194 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
24148 TTAATTAAAT
*
24158 AAATTTGATAA-TTA
1 AAATTTAATAATTTA
24172 AAA-TTAATAATTTA
1 AAATTTAATAATTTA
24186 AAATTTAAT
1 AAATTTAAT
24195 TAATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
AAATTTAATAATTTA
Found at i:24647 original size:14 final size:13
Alignment explanation
Indices: 24620--24655 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
24610 ACAAGTTTAA
24620 ATTA-TTAAATTT
1 ATTATTTAAATTT
24632 ATTATTTAAATATT
1 ATTATTTAAAT-TT
24646 ATTATTTAAA
1 ATTATTTAAA
24656 AGATAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTATTTAAATTT
Found at i:25451 original size:20 final size:19
Alignment explanation
Indices: 25397--25451 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 19
25387 TATGTAATAG
25397 ATTATAATTATATAAATTTA
1 ATTATAATTA-ATAAATTTA
*
25417 ATTAGTATGATTAATGAATATTA
1 ATTA-TA--ATTAATAAAT-TTA
25440 ATTATAATTAAT
1 ATTATAATTAAT
25452 TGATTTAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 10 0.33
21 2 0.07
22 7 0.23
23 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
ATTATAATTAATAAATTTA
Found at i:25662 original size:12 final size:11
Alignment explanation
Indices: 25644--25673 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
25634 ATTAATAGTA
25644 ATTTAATTAAT
1 ATTTAATTAAT
25655 AGTTTAATTAAT
1 A-TTTAATTAAT
25667 ATTTAAT
1 ATTTAAT
25674 GAGTACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
ATTTAATTAAT
Done.