Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168304.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_53, 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: 157624
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.38
File 3 of 3
Found at i:138110 original size:15 final size:15
Alignment explanation
Indices: 138092--138120 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
138082 TGAATAGATA
138092 ATATTAAAATATATC
1 ATATTAAAATATATC
138107 ATATTAAAATATAT
1 ATATTAAAATATAT
138121 TAATTAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATTAAAATATATC
Found at i:138246 original size:15 final size:15
Alignment explanation
Indices: 138203--138246 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
138193 CAATAATTGT
138203 AATTA-TAATTATTA
1 AATTATTAATTATTA
* * *
138217 TATTATGAATAATTA
1 AATTATTAATTATTA
138232 AATTATTAATTATTA
1 AATTATTAATTATTA
138247 CAAATTGTCA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTATTAATTATTA
Found at i:138632 original size:23 final size:24
Alignment explanation
Indices: 138576--138632 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
138566 GAATAAAATT
* *
138576 ATATGATTAA-TATATTATTATAA
1 ATATTATTAATTATATTATCATAA
*
138599 A-ATTGTATAATTA-ATTATCATAA
1 ATATTAT-TAATTATATTATCATAA
138622 ATATTATTAAT
1 ATATTATTAAT
138633 ATTAGATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
22 3 0.11
23 18 0.67
24 6 0.22
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
ATATTATTAATTATATTATCATAA
Found at i:139161 original size:17 final size:18
Alignment explanation
Indices: 139139--139178 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
139129 ATTATAAAAT
*
139139 AATTAATTATT-TGAATA
1 AATTAATGATTATGAATA
*
139156 AATTAATGATTATTAATA
1 AATTAATGATTATGAATA
139174 AATTA
1 AATTA
139179 TAGTAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
AATTAATGATTATGAATA
Found at i:139342 original size:12 final size:11
Alignment explanation
Indices: 139297--139345 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 11
139287 TTGATATGGT
139297 ATAATTAATATA
1 ATAATTAATA-A
139309 ATGAATTAATAA
1 AT-AATTAATAA
139321 ATATATT-ATAA
1 ATA-ATTAATAA
139332 ATAATTATATAA
1 ATAATTA-ATAA
139344 AT
1 AT
139346 TAATAGTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 3 0.09
11 8 0.24
12 14 0.42
13 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
ATAATTAATAA
Found at i:139519 original size:20 final size:21
Alignment explanation
Indices: 139496--139534 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
139486 TAATTAAATT
139496 ATTAAACAAATAAT-TTTATA
1 ATTAAACAAATAATATTTATA
*
139516 ATTAAACATATAATATTTA
1 ATTAAACAAATAATATTTA
139535 ATAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAAACAAATAATATTTATA
Found at i:139574 original size:12 final size:12
Alignment explanation
Indices: 139543--139583 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
139533 TAATAAATAA
**
139543 TTATAATTATTT
1 TTATAATTAAAT
139555 TTAT-ATTAAAT
1 TTATAATTAAAT
139566 TTATAATT-AAT
1 TTATAATTAAAT
139577 TTATAAT
1 TTATAAT
139584 AAGATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATAATTAAAT
Found at i:139591 original size:22 final size:22
Alignment explanation
Indices: 139528--139593 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 22
139518 TAAACATATA
139528 ATATTTAATAA-ATAATTATAATT
1 ATATTT-ATAATA-AATTATAATT
* *
139551 ATTTTTATATTAAATTTATAATT
1 ATATTTATAATAAA-TTATAATT
139574 A-ATTTATAATAAGATTATAA
1 ATATTTATAATAA-ATTATAA
139594 AATGATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTTATAATAAATTATAATT
Found at i:139754 original size:30 final size:31
Alignment explanation
Indices: 139715--139778 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
139705 ATAACTATTA
* * *
139715 TTACTTAATATTATA-AATTAAGTTATATAAT
1 TTACTTAATAATATATAAGTAAATTATAT-AT
139746 TTAC-TAATAATATATAAGTAAATTATATAT
1 TTACTTAATAATATATAAGTAAATTATATAT
139776 TTA
1 TTA
139779 GAACTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
TTACTTAATAATATATAAGTAAATTATATAT
Found at i:140213 original size:15 final size:15
Alignment explanation
Indices: 140193--140239 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
140183 ATTATATAAG
140193 ATAAATTTTAATTAT
1 ATAAATTTTAATTAT
140208 ATAAA-TTTAATTTAT
1 ATAAATTTTAA-TTAT
*
140223 ATTTAAATTTAAATTAT
1 A--TAAATTTTAATTAT
140240 CTAATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 10 0.37
17 8 0.30
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAAATTTTAATTAT
Found at i:141167 original size:20 final size:19
Alignment explanation
Indices: 141140--141235 Score: 68
Period size: 20 Copynumber: 5.5 Consensus size: 19
141130 AAATATTTAT
141140 TAATATTAATAAATTAATA
1 TAATATTAATAAATTAATA
141159 TAATCATTAATAAATTAA-A
1 TAAT-ATTAATAAATTAATA
141178 T-AT-TTAAT-AATT--TA
1 TAATATTAATAAATTAATA
141192 T-ATATT--TAAATTAAT-
1 TAATATTAATAAATTAATA
* * *
141207 TTATATTAGTTAAATGAATA
1 TAATATTA-ATAAATTAATA
*
141227 TAAAATTAA
1 TAATATTAA
141236 ATAATATAGT
Statistics
Matches: 62, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
13 1 0.02
14 8 0.13
15 7 0.11
16 11 0.18
18 2 0.03
19 14 0.23
20 19 0.31
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATATTAATAAATTAATA
Found at i:141186 original size:16 final size:16
Alignment explanation
Indices: 141141--141200 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
141131 AATATTTATT
141141 AATA-TTAATAAATTA
1 AATATTTAATAAATTA
141156 ATATAATCATTAATAAATTA
1 A-AT-AT--TTAATAAATTA
*
141176 AATATTTAATAATTTA
1 AATATTTAATAAATTA
*
141192 TATATTTAA
1 AATATTTAA
141201 ATTAATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 1 0.03
16 20 0.53
17 1 0.03
18 2 0.05
19 2 0.05
20 12 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTTAATAAATTA
Found at i:141208 original size:18 final size:16
Alignment explanation
Indices: 141165--141212 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
141155 AATATAATCA
* *
141165 TTAATAAATTAAATAT
1 TTAATAATTTATATAT
141181 TTAATAATTTATATAT
1 TTAATAATTTATATAT
141197 TTAAATTAATTTATAT
1 TT-AA-TAATTTATAT
141213 TAGTTAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 16 0.57
17 2 0.07
18 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATAATTTATATAT
Found at i:141922 original size:27 final size:29
Alignment explanation
Indices: 141855--141935 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 29
141845 ATGAATATAA
*
141855 TATTTAATTATAATTTTTAAATAAACTAT
1 TATTTAATTATAATATTTAAATAAACTAT
*
141884 T-TTTAATATATAA-ATTT-AATAATAGT-T
1 TATTTAAT-TATAATATTTAAATAA-ACTAT
*
141911 TATTTAATTATATATAATTAAATAA
1 TATTTAATTATA-ATATTTAAATAA
141936 TTATTACTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 11 0.26
28 18 0.42
29 9 0.21
30 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TATTTAATTATAATATTTAAATAAACTAT
Found at i:142393 original size:43 final size:45
Alignment explanation
Indices: 142345--142429 Score: 113
Period size: 43 Copynumber: 1.9 Consensus size: 45
142335 TTATAAAATT
142345 ATAGTTATCTAATATA-ACTATTATT-A-AAATAATAATTTATAAA
1 ATAGTTAT-TAATATATACTATTATTCATAAATAATAATTTATAAA
* * *
142388 ATAGTTATTTATATATATTATTATTCATAAATAATATTTTAT
1 ATAGTTATTAATATATACTATTATTCATAAATAATAATTTAT
142430 GAGTAACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 6 0.17
43 16 0.44
44 1 0.03
45 13 0.36
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (45 bp):
ATAGTTATTAATATATACTATTATTCATAAATAATAATTTATAAA
Found at i:142716 original size:20 final size:18
Alignment explanation
Indices: 142671--142722 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
142661 AAATAATTAA
142671 AATTA-ATAATATTAAAT
1 AATTATATAATATTAAAT
*
142688 AATTATATAATATTCTAAT
1 AATTATATAATATT-AAAT
*
142707 AATATATATATTATTA
1 AAT-TATATAATATTA
142723 TGATATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 5 0.17
18 8 0.28
19 6 0.21
20 10 0.34
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTATATAATATTAAAT
Found at i:143590 original size:16 final size:16
Alignment explanation
Indices: 143560--143659 Score: 51
Period size: 18 Copynumber: 5.8 Consensus size: 16
143550 TATTAATATA
*
143560 ATATTATAATCTAATT
1 ATATTATAATATAATT
*
143576 ATATTATGATATAA-T
1 ATATTATAATATAATT
*
143591 ACATTGAGTAATAT-ATT
1 ATATT-A-TAATATAATT
*
143608 AGATTATTAATAATATATTT
1 --A-TATT-ATAATATAATT
*
143628 AATATTATAATATTAATG
1 -ATATTATAATA-TAATT
*
143646 ATTAATATAATATA
1 A-TATTATAATATA
143660 TTACACTAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
15 5 0.08
16 14 0.22
17 15 0.23
18 16 0.25
19 8 0.12
20 6 0.09
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (16 bp):
ATATTATAATATAATT
Found at i:144026 original size:27 final size:27
Alignment explanation
Indices: 143995--144069 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 27
143985 AATAGTATTC
143995 AATATAATATAATATAATATAAAAATT
1 AATATAATATAATATAATATAAAAATT
* *
144022 AATAT-ATA-AATTATTAATATGAATATT
1 AATATAATATAA-TA-TAATATAAAAATT
144049 AATA-ACTATATAATAT-ATATA
1 AATATA--ATATAATATAATATA
144070 GTTATTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
25 2 0.05
26 5 0.13
27 24 0.62
28 1 0.03
29 5 0.13
30 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (27 bp):
AATATAATATAATATAATATAAAAATT
Found at i:144048 original size:12 final size:12
Alignment explanation
Indices: 143995--144052 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 12
143985 AATAGTATTC
143995 AATA-TAATAT-
1 AATATTAATATA
144005 AATA-TAATATA
1 AATATTAATATA
*
144016 AAAATTAATATATA
1 AATATT-A-ATATA
*
144030 AATTATTAATATG
1 AA-TATTAATATA
144043 AATATTAATA
1 AATATTAATA
144053 ACTATATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 10 0.25
11 3 0.08
12 9 0.22
13 7 0.17
14 8 0.20
15 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
AATATTAATATA
Found at i:145484 original size:23 final size:24
Alignment explanation
Indices: 145437--145485 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
145427 TTTTTGTTTA
*
145437 TATAAATTATTTATTAATAATTAT
1 TATAAATTATTTATTAATAAATAT
145461 TATAAA-TATTTA-TAATCAAATAT
1 TATAAATTATTTATTAAT-AAATAT
145484 TA
1 TA
145486 ATAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 13 0.57
24 6 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TATAAATTATTTATTAATAAATAT
Found at i:145493 original size:51 final size:48
Alignment explanation
Indices: 145438--145577 Score: 129
Period size: 51 Copynumber: 2.7 Consensus size: 48
145428 TTTTGTTTAT
*
145438 ATAAATTATTTATTAATAATTATTATAAATATTTATAATCAAATATTAATA
1 ATAAATTATTTATT-ATAATTAATATAAATATTTA-AAT-AAATATTAATA
* * *
145489 ATAAATATATTT-TTATAACTAATATAACTTATATTTAAATAAGTATTATTA
1 ATAAAT-TATTTATTATAATTAATATAA---ATATTTAAATAAATATTAATA
* *
145540 ATTAATTATTAATATTATAATTAATATTAATTATTTAA
1 ATAAATTATT--TATTATAATTAATA-TAAATATTTAA
145578 TAGTATATAA
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
50 15 0.20
51 29 0.39
52 9 0.12
53 18 0.24
54 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (48 bp):
ATAAATTATTTATTATAATTAATATAAATATTTAAATAAATATTAATA
Found at i:145496 original size:13 final size:13
Alignment explanation
Indices: 145462--145496 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
145452 AATAATTATT
*
145462 ATAAATATTTATA
1 ATAAATATTAATA
145475 ATCAAATATTAATA
1 AT-AAATATTAATA
145489 ATAAATAT
1 ATAAATAT
145497 ATTTTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATATTAATA
Found at i:145569 original size:18 final size:17
Alignment explanation
Indices: 145532--145616 Score: 59
Period size: 18 Copynumber: 4.9 Consensus size: 17
145522 TTTAAATAAG
145532 TATTATTAATTAATTATTAA
1 TATTA-TAATTAA-TATT-A
145552 TATTATAATTAATATTA
1 TATTATAATTAATATTA
*
145569 -ATTAT--TTAATAGTA
1 TATTATAATTAATATTA
* *
145583 TATAATTAAGTAATATTAA
1 TATTA-TAATTAATATT-A
* *
145602 AATTATGATTAATAT
1 TATTATAATTAATAT
145617 ATAGTATATT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
16 6 0.12
17 1 0.02
18 18 0.35
19 11 0.21
20 5 0.10
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATTATAATTAATATTA
Found at i:145597 original size:32 final size:29
Alignment explanation
Indices: 145526--145601 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
145516 CTTATATTTA
* *
145526 AATAAGTATTATTAATTAATTATTAATAT
1 AATAAGTAATATTAATTAATTAATAATAT
* * *
145555 TATAATTAATATTAATTATTTAATAGTATAT
1 AATAAGTAATATTAATTAATTAATA--ATAT
145586 AATTAAGTAATATTAA
1 AA-TAAGTAATATTAA
145602 AATTATGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 20 0.54
31 5 0.14
32 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
AATAAGTAATATTAATTAATTAATAATAT
Found at i:145613 original size:50 final size:51
Alignment explanation
Indices: 145520--145616 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 51
145510 ATATAACTTA
* *
145520 TATTTAAATAAGTATTATTAATTAATTATTAATATTATAATTAATATTAAT
1 TATTTAAATAAGTATTATTAAGTAATTATTAAAATTATAATTAATATTAAT
*
145571 TATTT-AAT-AGTATATAATTAAGTAA-TATTAAAATTATGATTAATAT
1 TATTTAAATAAGTAT-T-ATTAAGTAATTATTAAAATTATAATTAATAT
145617 ATAGTATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 5 0.12
50 23 0.56
51 13 0.32
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (51 bp):
TATTTAAATAAGTATTATTAAGTAATTATTAAAATTATAATTAATATTAAT
Found at i:145804 original size:26 final size:28
Alignment explanation
Indices: 145755--145806 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
145745 TTTAAAATTT
**
145755 AAATATGATATATATTATCTATTATTAC
1 AAATATGATATATATTATAAATTATTAC
145783 AAATAT-ATA-ATATTATAAATTATT
1 AAATATGATATATATTATAAATTATT
145807 GCTATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 3 0.14
28 6 0.27
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
AAATATGATATATATTATAAATTATTAC
Found at i:146696 original size:14 final size:13
Alignment explanation
Indices: 146679--146720 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
146669 TTTATTATGA
146679 TTATATTAATTTAT
1 TTATATT-ATTTAT
146693 TTATATTATTTA-
1 TTATATTATTTAT
**
146705 GAATATTATTTAT
1 TTATATTATTTAT
146718 TTA
1 TTA
146721 AATAATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATATTATTTAT
Found at i:147046 original size:20 final size:21
Alignment explanation
Indices: 146998--147046 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
146988 TTAACATTTA
146998 TATTTAAAGTAAATATTTAAT
1 TATTTAAAGTAAATATTTAAT
* *
147019 TATCTAAA-TATATATTTAAAT
1 TATTTAAAGTAAATATTT-AAT
147040 T-TTTAAA
1 TATTTAAA
147047 ATGTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTTAAAGTAAATATTTAAT
Found at i:147624 original size:30 final size:31
Alignment explanation
Indices: 147567--147626 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
147557 AAGTAATACT
*
147567 GTAATTTGTTTTACTATTAATAATTAATAAA
1 GTAATTTGTTTTACTATTAAAAATTAATAAA
147598 GTAATTTGTTTTA-TCA-TAAAAATTAATAA
1 GTAATTTGTTTTACT-ATTAAAAATTAATAA
147627 CTATTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (31 bp):
GTAATTTGTTTTACTATTAAAAATTAATAAA
Found at i:148060 original size:9 final size:9
Alignment explanation
Indices: 147991--148063 Score: 60
Period size: 9 Copynumber: 7.8 Consensus size: 9
147981 ATAGTTGGTA
147991 ATTAATAAT
1 ATTAATAAT
148000 ACTATAAATAAT
1 A-T-T-AATAAT
148012 ATT-ATAAT
1 ATTAATAAT
*
148020 ATTTATAAT
1 ATTAATAAT
*
148029 AGT-ATATAT
1 ATTAATA-AT
*
148038 TTTAAATAAT
1 ATT-AATAAT
148048 ATTAATAAT
1 ATTAATAAT
148057 ATTAATA
1 ATTAATA
148064 TAAAATTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
8 11 0.21
9 24 0.45
10 6 0.11
11 5 0.09
12 7 0.13
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (9 bp):
ATTAATAAT
Found at i:148835 original size:21 final size:21
Alignment explanation
Indices: 148803--148845 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
148793 AATCAAAATA
148803 ATTTTAAATAATTAT-TATTT
1 ATTTTAAATAATTATATATTT
*
148823 ATTTATAATTAATTATATATTT
1 ATTT-TAAATAATTATATATTT
148845 A
1 A
148846 ATATTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTAAATAATTATATATTT
Found at i:148843 original size:18 final size:17
Alignment explanation
Indices: 148810--148845 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
148800 ATAATTTTAA
*
148810 ATAATTATTATTTATTT
1 ATAATTATTATATATTT
148827 ATAATTAATTATATATTT
1 ATAATT-ATTATATATTT
148845 A
1 A
148846 ATATTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATAATTATTATATATTT
Found at i:148872 original size:24 final size:23
Alignment explanation
Indices: 148841--148891 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
148831 TTAATTATAT
*
148841 ATTT-AATATTCAAAAATATTAAA
1 ATTTAAATATT-AAAAAGATTAAA
* *
148864 ATTTAAATATTAATAAGATTTAA
1 ATTTAAATATTAAAAAGATTAAA
148887 ATTTA
1 ATTTA
148892 TTATATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTTAAATATTAAAAAGATTAAA
Found at i:149192 original size:29 final size:29
Alignment explanation
Indices: 149134--149191 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
149124 AATTAGGTAT
* *
149134 TATTAATTATTTTAGATTAATATTTAAAA
1 TATTAATTATTATAGATTAATATATAAAA
149163 TATTAATTATTATA-ATTATAATATATAAA
1 TATTAATTATTATAGA-T-TAATATATAAA
149192 TTACATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 14 0.56
30 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
TATTAATTATTATAGATTAATATATAAAA
Found at i:149568 original size:24 final size:22
Alignment explanation
Indices: 149541--149586 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
149531 TAATAAAACA
*
149541 AATTATATATATTATTATATTTAT
1 AATTATATAAATTA-TA-ATTTAT
*
149565 AATTATTTAAATTATAATTTAT
1 AATTATATAAATTATAATTTAT
149587 TAATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 2 0.10
24 12 0.60
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTATATAAATTATAATTTAT
Found at i:150209 original size:18 final size:17
Alignment explanation
Indices: 150186--150244 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 17
150176 TAATGTTAAT
*
150186 TTATATAACTTAATATTA
1 TTATATAA-TTAATAGTA
*
150204 TTATATAATTGATAGT-
1 TTATATAATTAATAGTA
150220 TTATA-AATTAAT-GTA
1 TTATATAATTAATAGTA
*
150235 TAATATAATT
1 TTATATAATT
150245 TACTATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 2 0.06
15 10 0.29
16 9 0.26
17 6 0.17
18 8 0.23
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
TTATATAATTAATAGTA
Found at i:150244 original size:31 final size:34
Alignment explanation
Indices: 150171--150244 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 34
150161 AATAAATAAT
* *
150171 TAATATAA-TGTTAATTTATATAACTTAATATTA
1 TAATATAATTGATAATTTATATAACTTAATAGTA
* *
150204 TTATATAATTGATAGTTTATA-AA-TTAAT-GTA
1 TAATATAATTGATAATTTATATAACTTAATAGTA
150235 TAATATAATT
1 TAATATAATT
150245 TACTATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 11 0.31
32 5 0.14
33 9 0.26
34 10 0.29
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (34 bp):
TAATATAATTGATAATTTATATAACTTAATAGTA
Found at i:151014 original size:15 final size:16
Alignment explanation
Indices: 150994--151037 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
150984 TATTTTATTA
150994 ATTATTAATATTTTAC-
1 ATTATTAATATTTT-CT
151010 A-TATTAATATATTTCT
1 ATTATTAATAT-TTTCT
151026 ATTATTAATATT
1 ATTATTAATATT
151038 AACAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.40
16 6 0.24
17 9 0.36
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTAATATTTTCT
Found at i:151028 original size:23 final size:22
Alignment explanation
Indices: 150967--151039 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
150957 CTAAACTATT
*
150967 TATTAATAATATT-ATATTATT-T
1 TATTAAT--TATTAATATTATTAA
150989 TATTAATTATTAATATT-TTACA
1 TATTAATTATTAATATTATTA-A
**
151011 TATTAATATATTTCTATTATTAA
1 TATTAAT-TATTAATATTATTAA
151034 TATTAA
1 TATTAA
151040 CAATTTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
20 6 0.14
21 5 0.12
22 14 0.33
23 15 0.35
24 3 0.07
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTAATTATTAATATTATTAA
Found at i:151139 original size:17 final size:16
Alignment explanation
Indices: 151117--151148 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
151107 TAATATTTTA
151117 ATTAATTAATATATATT
1 ATTAATTAA-ATATATT
151134 ATTAATTAAATATAT
1 ATTAATTAAATATAT
151149 AATTTACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATTAAATATATT
Found at i:151430 original size:23 final size:23
Alignment explanation
Indices: 151399--151462 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
151389 ATTATTGATT
*
151399 TTAATAATTATTATAATAATATTA
1 TTAA-AATTATTATAATAATACTA
151423 TTAAAATTATTATAATAATACTA
1 TTAAAATTATTATAATAATACTA
*
151446 -TAAATATTAATATAATA
1 TTAAA-ATTATTATAATA
151463 TTAATTTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 4 0.11
23 29 0.78
24 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAAAATTATTATAATAATACTA
Found at i:151437 original size:20 final size:23
Alignment explanation
Indices: 151402--151465 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 23
151392 ATTGATTTTA
* *
151402 ATAATTATTATAATAATATTA-T
1 ATAAATATTATTATAATATTACT
*
151424 -TAAA-ATTATTATAATAATACT
1 ATAAATATTATTATAATATTACT
*
151445 ATAAATATTAATATAATATTA
1 ATAAATATTATTATAATATTA
151466 ATTTATGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 13 0.38
21 4 0.12
22 4 0.12
23 13 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
ATAAATATTATTATAATATTACT
Found at i:151538 original size:17 final size:18
Alignment explanation
Indices: 151516--151550 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
151506 AATATTTGGA
151516 TTAACT-TATTATATAAT
1 TTAACTATATTATATAAT
151533 TTAACTAATATTATATAA
1 TTAACT-ATATTATATAA
151551 GATTAGTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAACTATATTATATAAT
Found at i:151607 original size:15 final size:15
Alignment explanation
Indices: 151565--151608 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
151555 AGTTAGAATC
151565 ATTTTATCATTTTAAT
1 ATTTTATCA-TTTAAT
*
151581 ATTTGGAT-ATTTAAT
1 ATTT-TATCATTTAAT
151596 ATTTTATCATTTA
1 ATTTTATCATTTA
151609 TTACTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 2 0.08
15 15 0.62
16 5 0.21
17 2 0.08
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (15 bp):
ATTTTATCATTTAAT
Found at i:152811 original size:17 final size:18
Alignment explanation
Indices: 152789--152829 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
152779 TAATAAATTG
152789 ATAATTAAATATT-AATA
1 ATAATTAAATATTAAATA
152806 ATAATT-AATATTAAATA
1 ATAATTAAATATTAAATA
*
152823 ATTATTA
1 ATAATTA
152830 TAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATTAAATATTAAATA
Found at i:152835 original size:13 final size:14
Alignment explanation
Indices: 152789--152835 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
152779 TAATAAATTG
152789 ATAATTAAATATTAATA
1 ATAATT-AATATT-A-A
152806 ATAATTAATATTAA
1 ATAATTAATATTAA
*
152820 ATAATTATTA-TAA
1 ATAATTAATATTAA
152833 ATA
1 ATA
152836 TTTTATTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.21
14 10 0.34
15 1 0.03
16 6 0.21
17 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATTAATATTAA
Found at i:154163 original size:25 final size:25
Alignment explanation
Indices: 154130--154188 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
154120 TGATTTAATC
* * *
154130 AATAA-TATTTATTTATTTATAATT
1 AATAATTATTTATTAATTTAAAATA
*
154154 ATTAATTATTTATTAATTTAAAATA
1 AATAATTATTTATTAATTTAAAATA
154179 AATAATTATT
1 AATAATTATT
154189 ATGATTCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AATAATTATTTATTAATTTAAAATA
Found at i:154344 original size:17 final size:17
Alignment explanation
Indices: 154322--154369 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
154312 TAGTTATAAT
*
154322 ATAATTTATTAAATTTA
1 ATAATTAATTAAATTTA
*
154339 ATAATTAATTGAATTTA
1 ATAATTAATTAAATTTA
154356 ATAGA-TAATTAAAT
1 ATA-ATTAATTAAAT
154370 AAATTTACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
ATAATTAATTAAATTTA
Found at i:154560 original size:22 final size:21
Alignment explanation
Indices: 154530--154570 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
154520 ATATATTAAT
*
154530 TTTAAATATTAAATCTAATTTA
1 TTTAAATA-TAAATCAAATTTA
*
154552 TTTATATATAAATCAAATT
1 TTTAAATATAAATCAAATT
154571 ACAAAATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAATATAAATCAAATTTA
Found at i:156160 original size:22 final size:24
Alignment explanation
Indices: 156117--156165 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
156107 TACAAAATTA
*
156117 TTTATAAATTAATCATTAATTAAT
1 TTTATAAATAAATCATTAATTAAT
*
156141 TTTA-AAATAAAT-ATTGATTAAT
1 TTTATAAATAAATCATTAATTAAT
156163 TTT
1 TTT
156166 CTATTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 7 0.30
24 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTATAAATAAATCATTAATTAAT
Found at i:156748 original size:23 final size:23
Alignment explanation
Indices: 156717--156780 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
156707 ATTATTGATT
* *
156717 TTAATAATTATTATAATAATATTA
1 TTAA-AATTATTATAATAACACTA
156741 TTAAAATTATTATAATAACACTA
1 TTAAAATTATTATAATAACACTA
*
156764 -TAAATATTAATATAATA
1 TTAAA-ATTATTATAATA
156781 TTAATTTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.11
23 28 0.78
24 4 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAAAATTATTATAATAACACTA
Found at i:156856 original size:17 final size:18
Alignment explanation
Indices: 156834--156868 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
156824 AATATTTGGA
156834 TTAACT-TATTATATAAT
1 TTAACTATATTATATAAT
156851 TTAACTAATATTATATAA
1 TTAACT-ATATTATATAA
156869 GATTAGTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAACTATATTATATAAT
Found at i:156925 original size:15 final size:15
Alignment explanation
Indices: 156883--156932 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
156873 AGTTAGAATC
156883 ATTTTATCATTTTAAT
1 ATTTTATCA-TTTAAT
*
156899 ATTTGGAT-ATTTAAT
1 ATTT-TATCATTTAAT
*
156914 ATTTTATCATTTATT
1 ATTTTATCATTTAAT
156929 ATTT
1 ATTT
156933 AAATGTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.07
15 20 0.69
16 5 0.17
17 2 0.07
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (15 bp):
ATTTTATCATTTAAT
Done.