Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168024.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_278, 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: 39910
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
File 1 of 2
Found at i:717 original size:26 final size:25
Alignment explanation
Indices: 631--732 Score: 68
Period size: 26 Copynumber: 4.0 Consensus size: 25
621 TTGAATAATA
* * *
631 TATATTATT-TATAATAAAATAAA-
1 TATAATATTATATATTAAATTAAAT
*
654 TATAATATT-TA-ATTAACAATTACAAA
1 TATAATATTATATATT-A-AATTA-AAT
* *
680 TAAAATAATATATATTAATATTAAAT
1 TATAATATTATATATTAA-ATTAAAT
*
706 TATAATATTATATTATTTAATTAAAT
1 TATAATATTATA-TATTAAATTAAAT
732 T
1 T
733 TTATTAATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
22 2 0.03
23 11 0.18
24 4 0.06
25 2 0.03
26 28 0.45
27 12 0.19
28 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TATAATATTATATATTAAATTAAAT
Found at i:754 original size:15 final size:15
Alignment explanation
Indices: 694--755 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 15
684 ATAATATATA
*
694 TTAATATTAAATTA-
1 TTAATATTATATTAT
708 -TAATATTATATTAT
1 TTAATATTATATTAT
* *
722 TT-A-ATTAAATTTT
1 TTAATATTATATTAT
*
735 ATTAATATTATGTTAT
1 -TTAATATTATATTAT
751 TTAAT
1 TTAAT
756 TATTTTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
13 20 0.54
14 3 0.08
15 7 0.19
16 7 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTAATATTATATTAT
Found at i:764 original size:25 final size:28
Alignment explanation
Indices: 708--778 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
698 TATTAAATTA
708 TAATATTATATTATTTAATTAAATTTTAT
1 TAATATTATATTATTTAATT-AATTTTAT
*
737 TAATATTATGTTATTTAATT-A-TTT-T
1 TAATATTATATTATTTAATTAATTTTAT
762 TAATATTAATAATTATT
1 TAATATT-AT-ATTATT
779 ATAAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 8 0.21
26 5 0.13
27 6 0.16
29 19 0.50
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
TAATATTATATTATTTAATTAATTTTAT
Found at i:1060 original size:16 final size:16
Alignment explanation
Indices: 1035--1097 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
1025 ATTAGTACAT
* *
1035 TAATATTTAATAATAT
1 TAATAATTAATAATAA
* *
1051 TAGTTATTAATAATAA
1 TAATAATTAATAATAA
1067 TAATAATTAATAATAA
1 TAATAATTAATAATAA
*
1083 T-TTAAATTAATAATA
1 TAAT-AATTAATAATA
1098 TAACCATGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
15 1 0.03
16 38 0.97
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATAATTAATAATAA
Found at i:1066 original size:19 final size:19
Alignment explanation
Indices: 1042--1083 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1032 CATTAATATT
* * *
1042 TAATAATATTAGTTATTAA
1 TAATAATAATAATTAATAA
1061 TAATAATAATAATTAATAA
1 TAATAATAATAATTAATAA
1080 TAAT
1 TAAT
1084 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAATAATAATAATTAATAA
Found at i:1562 original size:22 final size:22
Alignment explanation
Indices: 1530--1586 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
1520 TATAAATTTA
* *
1530 ATTAATAAATTATTATTAATACT
1 ATTAATTAATTAATATTAATA-T
*
1553 A-TAATTAATTAATATTTATAT
1 ATTAATTAATTAATATTAATAT
1574 ATTAATTAATTAA
1 ATTAATTAATTAA
1587 CTAATTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 27 0.90
23 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTAATTAATTAATATTAATAT
Found at i:1577 original size:18 final size:17
Alignment explanation
Indices: 1527--1583 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
1517 AAGTATAAAT
*
1527 TTAATTAATA-AAT-TA
1 TTAATTAATACTATATA
1542 TT-ATTAATACTATA-A
1 TTAATTAATACTATATA
*
1557 TTAATTAATATTTATATA
1 TTAATTAATA-CTATATA
1575 TTAATTAAT
1 TTAATTAAT
1584 TAACTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 7 0.20
15 7 0.20
16 7 0.20
17 4 0.11
18 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATTAATACTATATA
Found at i:1601 original size:22 final size:22
Alignment explanation
Indices: 1554--1603 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1544 ATTAATACTA
* *
1554 TAATTAATTAATATTTATATAT
1 TAATTAATTAATAATTATATAC
*
1576 TAATTAATTAACTAATT-TGTAC
1 TAATTAATTAA-TAATTATATAC
1598 TAATTA
1 TAATTA
1604 CAAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (22 bp):
TAATTAATTAATAATTATATAC
Found at i:1713 original size:28 final size:26
Alignment explanation
Indices: 1679--1762 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 26
1669 TTATTAAATA
1679 ATAA-TTATTA-AA-AATTATATATTT
1 ATAATTTATTATAATAATTATATA-TT
* *
1703 ATAATTTATTATAATATTTATATAGAAT
1 ATAATTTATTATAATAATTATAT--ATT
*
1731 ATAATTTATTACT-ATAATTAAATATT
1 ATAATTTATTA-TAATAATTATATATT
1757 ATAATT
1 ATAATT
1763 ACATTAGATA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
24 4 0.08
25 6 0.12
26 10 0.20
27 7 0.14
28 20 0.41
29 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
ATAATTTATTATAATAATTATATATT
Found at i:2053 original size:27 final size:27
Alignment explanation
Indices: 2023--2092 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 27
2013 GAATTAAAAC
2023 AATTATAGTAATAATATATATTAT-TTT
1 AATTATA-TAATAATATATATTATATTT
* *
2050 AATTATA-ATTAAAATATATTATATTT
1 AATTATATAATAATATATATTATATTT
*
2076 AACTATA-ATATAATATA
1 AATTATATA-ATAATATA
2093 CATGTCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.36
26 10 0.28
27 13 0.36
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
AATTATATAATAATATATATTATATTT
Found at i:2090 original size:25 final size:25
Alignment explanation
Indices: 2038--2092 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
2028 TAGTAATAAT
*
2038 ATATATTATTTTAATTATAATTAAA
1 ATATATTATTTTAACTATAATTAAA
*
2063 ATATATTATATTTAACTATAA-TATA
1 ATATATTAT-TTTAACTATAATTAAA
2088 ATATA
1 ATATA
2093 CATGTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATATTATTTTAACTATAATTAAA
Found at i:2263 original size:33 final size:30
Alignment explanation
Indices: 2178--2263 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 30
2168 TTATATAACA
2178 ATTAT-ATTA-ATAATATTATTAAT-TTTAT
1 ATTATAATTATATAATATT-TTAATATTTAT
*
2206 ATTATAATTATATAATATTATAATATTTACT
1 ATTATAATTATATAATATTTTAATATTTA-T
*
2237 A-TATTAATTATTTATATATTGTTAATA
1 ATTA-TAATTATATA-ATATT-TTAATA
2264 AAGTTTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 5 0.10
29 8 0.17
30 14 0.29
31 11 0.23
32 5 0.10
33 5 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (30 bp):
ATTATAATTATATAATATTTTAATATTTAT
Found at i:2696 original size:29 final size:29
Alignment explanation
Indices: 2606--2696 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 29
2596 TATTGATAAT
* *
2606 TAATA-ATTACTTGTAATAATTTTGTTA-A
1 TAATATATTA-TTATAATAATTATGTTATA
* *
2634 TAAATTATAGTATAATAAT-ATTAAT-TTAT-
1 T-AA-TATATTATTATAATAATT-ATGTTATA
2663 T-ATATATTATTATAATAATTATGTTATA
1 TAATATATTATTATAATAATTATGTTATA
2691 TAATAT
1 TAATAT
2697 TTAAAGACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
26 14 0.29
27 8 0.17
28 2 0.04
29 13 0.27
30 8 0.17
31 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
TAATATATTATTATAATAATTATGTTATA
Found at i:3028 original size:18 final size:17
Alignment explanation
Indices: 2998--3031 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2988 TATATCAGAT
*
2998 TATTAATTTGATTATAC
1 TATTAATTAGATTATAC
3015 TATTAAATTAGATTATA
1 TATT-AATTAGATTATA
3032 TTAATAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (17 bp):
TATTAATTAGATTATAC
Found at i:3039 original size:18 final size:18
Alignment explanation
Indices: 3002--3040 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2992 TCAGATTATT
* *
3002 AATTTGATTATACTATTA
1 AATTAGATTATACTAATA
*
3020 AATTAGATTATATTAATA
1 AATTAGATTATACTAATA
3038 AAT
1 AAT
3041 GGTTATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
AATTAGATTATACTAATA
Found at i:3479 original size:22 final size:21
Alignment explanation
Indices: 3449--3490 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3439 TTTGTACTTT
3449 TATTATAATATATAAT-TTAAC
1 TATTATAATAT-TAATATTAAC
3470 TATTAATAATATTAATATTAA
1 TATT-ATAATATTAATATTAA
3491 TAACTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTATAATATTAATATTAAC
Found at i:3488 original size:15 final size:16
Alignment explanation
Indices: 3460--3498 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
3450 ATTATAATAT
3460 ATAAT-TTAACTATTA
1 ATAATATTAACTATTA
3475 ATAATATTAA-TATTA
1 ATAATATTAACTATTA
3490 ATAACTATT
1 ATAA-TATT
3499 TCAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATTAACTATTA
Found at i:4656 original size:18 final size:18
Alignment explanation
Indices: 4638--4683 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4628 AAATTAGTTA
4638 AATTA-ATAATTAATATT
1 AATTATATAATTAATATT
*
4655 AATTATATAGTTAAT-TAT
1 AATTATATAATTAATAT-T
4673 AATTATATAAT
1 AATTATATAAT
4684 ATTAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTATATAATTAATATT
Found at i:4686 original size:32 final size:30
Alignment explanation
Indices: 4632--4693 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 30
4622 TCAGTTAAAT
4632 TAGTTAAATTAATAATTAATATTAATTATA
1 TAGTTAAATTAATAATTAATATTAATTATA
* *
4662 TAGTTAATTATAATTATATAATATTAATTATA
1 TAGTTAAAT-TAATAAT-TAATATTAATTATA
4694 ATGATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 8 0.29
31 6 0.21
32 14 0.50
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TAGTTAAATTAATAATTAATATTAATTATA
Found at i:4695 original size:12 final size:12
Alignment explanation
Indices: 4648--4705 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
4638 AATTAATAAT
4648 TAATATTAATTA
1 TAATATTAATTA
4660 T-ATAGTTAATTA
1 TAATA-TTAATTA
4672 T-A-ATT-A-TA
1 TAATATTAATTA
4680 TAATATTAATTA
1 TAATATTAATTA
4692 TAATGA-TAATTA
1 TAAT-ATTAATTA
4704 TA
1 TA
4706 CTAAATATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 5 0.12
11 5 0.12
12 24 0.60
13 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (12 bp):
TAATATTAATTA
Found at i:5161 original size:22 final size:22
Alignment explanation
Indices: 5136--5205 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
5126 TAAGATATAG
5136 TAATATTATATTATTATTAATA
1 TAATATTATATTATTATTAATA
* * *
5158 TAATAAT-TATTAAT-TTATTA
1 TAATATTATATTATTATTAATA
* *
5178 TAATATAAT-TATATTATTAAAA
1 TAATATTATAT-TATTATTAATA
5200 TAATAT
1 TAATAT
5206 AACTATAAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
20 11 0.30
21 10 0.27
22 16 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATATTATATTATTATTAATA
Found at i:5206 original size:22 final size:22
Alignment explanation
Indices: 5177--5245 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
5167 TTAATTTATT
5177 ATAATATAATTATATTATTAAA
1 ATAATATAATTATATTATTAAA
* *
5199 ATAATATAACTATAAGTTTATTATA
1 ATAATATAATTAT-A--TTATTAAA
*
5224 ATAATAAAAGTTA-ATTATTAAA
1 ATAATATAA-TTATATTATTAAA
5246 TATAGTAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
22 19 0.50
23 1 0.03
24 1 0.03
25 15 0.39
26 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (22 bp):
ATAATATAATTATATTATTAAA
Found at i:5310 original size:14 final size:14
Alignment explanation
Indices: 5291--5317 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5281 AATACATATT
5291 ATAATTTAATTATA
1 ATAATTTAATTATA
5305 ATAATTTAATTAT
1 ATAATTTAATTAT
5318 GTTATAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTTAATTATA
Found at i:5329 original size:36 final size:34
Alignment explanation
Indices: 5288--5401 Score: 99
Period size: 36 Copynumber: 3.3 Consensus size: 34
5278 CTAAATACAT
5288 ATTATAATTTAATTATAATAATTTAATTATGTTATA
1 ATTATAATTT-A-TATAATAATTTAATTATGTTATA
* * * *
5324 ATTATAATATACATAACAA-TAAATTATGTTATTA
1 ATTATAATTTATATAATAATTTAATTATGTTA-TA
* *
5358 TATAATAAATTTATATAATAATTTAA-TA-ATTATA
1 -ATTAT-AATTTATATAATAATTTAATTATGTTATA
*
5392 ATTATTATTT
1 ATTATAATTT
5402 GCTGAATCAG
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
32 4 0.06
33 15 0.24
34 10 0.16
35 8 0.13
36 22 0.35
37 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (34 bp):
ATTATAATTTATATAATAATTTAATTATGTTATA
Found at i:5373 original size:13 final size:12
Alignment explanation
Indices: 5355--5387 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
5345 AATTATGTTA
5355 TTATATAATAAAT
1 TTATATAAT-AAT
5368 TTATATAATAAT
1 TTATATAATAAT
5380 TTA-ATAAT
1 TTATATAAT
5388 TATAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 6 0.30
13 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTATATAATAAT
Found at i:5804 original size:181 final size:178
Alignment explanation
Indices: 5434--5849 Score: 464
Period size: 181 Copynumber: 2.3 Consensus size: 178
5424 AGACTATTAG
* * * *
5434 AACAATTATCTATTTCAAATTATTTTGACCTTTTA-TTTAGTCAAAAAATAATTGCTTCAACTCA
1 AACAATTATCTATTTCAAATCATTATGACCTTTTATTTTA-TCATAAAATAATTGTTTCAACTCA
* * *
5498 TACATGCTTATTCAAATAAAATACTACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAAT
65 TAAAAGCTTATTCAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAAT
* * *
5563 TAGAAAAAAATCTATTTACCGAACAAGTTCAAATATTTTTGACTATTTA
130 TAGAAAAAAATCTATTTACCGAACAAGCTCAAATAATTTTGACCATTTA
* * **
5612 AACAATTATCTATTTAAAATCATTATGACCTTATATTTTATCATAAAATAATTGTTTCAGTTCAT
1 AACAATTATCTATTTCAAATCATTATGACCTTTTATTTTATCATAAAATAATTGTTTCAACTCAT
* * * * *
5677 AAAAGCTTATCTTAAATAAAATAATATTACTTTATTAATATTATA-AAAATTGA-TAAGTTAGAG
66 AAAAGCTTAT-TCAAATAAAATAATACTAATTTATTAACATT-TAGAAAATT-ATTAAGTAAGA-
* * ** *
5740 ATTTA-AAACATAAATC-AGTTTATCGAATTAGCTCAAATAATTTTGGCCATTTA
127 AATTAGAAA-A-AAATCTA-TTTACCGAACAAGCTCAAATAATTTTGACCATTTA
** * * *
5793 AACAATTATCTATTTCAAATCATTATGAATTTTTGTTTTGTCATAAAACAATTGTTT
1 AACAATTATCTATTTCAAATCATTATGACCTTTTATTTTATCATAAAATAATTGTTT
5850 AAATTATTTT
Statistics
Matches: 199, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
178 60 0.30
179 47 0.24
180 9 0.05
181 83 0.42
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.41
Consensus pattern (178 bp):
AACAATTATCTATTTCAAATCATTATGACCTTTTATTTTATCATAAAATAATTGTTTCAACTCAT
AAAAGCTTATTCAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGAAATT
AGAAAAAAATCTATTTACCGAACAAGCTCAAATAATTTTGACCATTTA
Found at i:5910 original size:16 final size:17
Alignment explanation
Indices: 5878--5913 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
5868 AATAAGTAAT
*
5878 TTAAATAATATTATTAA
1 TTAAACAATATTATTAA
5895 TTAAACAATA-TATTAA
1 TTAAACAATATTATTAA
5911 TTA
1 TTA
5914 TAATATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAACAATATTATTAA
Found at i:6523 original size:17 final size:16
Alignment explanation
Indices: 6489--6542 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
6479 AACTTTTTAG
*
6489 TAATTATTAAATATTAA
1 TAATTATTAAA-AATAA
6506 TAATTATTAACAAATAA
1 TAATTATTAA-AAATAA
6523 T--TTATATAAAAA-AA
1 TAATTAT-TAAAAATAA
6537 TAATTA
1 TAATTA
6543 ATATAACTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 3 0.09
15 7 0.22
16 6 0.19
17 15 0.47
18 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTATTAAAAATAA
Found at i:7936 original size:21 final size:21
Alignment explanation
Indices: 7901--7948 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7891 CTTTTATAAT
*
7901 TAATA-TTATATATATTTAAA
1 TAATATTTATAAATATTTAAA
*
7921 TAATATTTATAAATATTTATA
1 TAATATTTATAAATATTTAAA
*
7942 TATTATT
1 TAATATT
7949 ATTAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATATTTATAAATATTTAAA
Found at i:7954 original size:21 final size:21
Alignment explanation
Indices: 7883--7954 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
7873 TTATAATTTA
* *
7883 TATTAAATCTTT-TATAATTAA
1 TATTAAATATTTATAT-ATTAT
* *
7904 TATTATATATATTTAAATAATAT
1 TATTA-A-ATATTTATATATTAT
7927 T-TATAAATATTTATATATTAT
1 TAT-TAAATATTTATATATTAT
7948 TATTAAA
1 TATTAAA
7955 AATAATAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 23 0.57
22 4 0.10
23 11 0.28
24 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTAAATATTTATATATTAT
Found at i:8088 original size:16 final size:16
Alignment explanation
Indices: 8067--8123 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
8057 TAGTAATAAT
8067 TAATAAATAAATAGTA
1 TAATAAATAAATAGTA
*
8083 TAATAAATAATTA-TA
1 TAATAAATAAATAGTA
* *
8098 TTAATAATTAAATTGATA
1 -TAATAAATAAATAG-TA
8116 TAATAAAT
1 TAATAAAT
8124 TATAATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 2 0.06
16 22 0.67
17 7 0.21
18 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (16 bp):
TAATAAATAAATAGTA
Found at i:10022 original size:21 final size:22
Alignment explanation
Indices: 9993--10033 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9983 TCTTAATAAA
9993 AATAATTTATAT-GTATTATAT
1 AATAATTTATATAGTATTATAT
*
10014 AATATTTTATATAGTATTAT
1 AATAATTTATATAGTATTAT
10034 TACAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
AATAATTTATATAGTATTATAT
Found at i:10693 original size:14 final size:14
Alignment explanation
Indices: 10656--10693 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
10646 ATATCTTATT
*
10656 ATTTATTATTAATA
1 ATTTATTAATAATA
10670 ATGTTA-TAATAATA
1 AT-TTATTAATAATA
10684 ATTTATTAAT
1 ATTTATTAAT
10694 TTATAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 15 0.71
15 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTATTAATAATA
Found at i:10765 original size:6 final size:6
Alignment explanation
Indices: 10741--10812 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
10731 TGACTTATGA
* * *
10741 TAATAT TAACAT ATAATAT TAATAT TACAT-C TAATAT TCATAT T-ATAT
1 TAATAT TAATAT -TAATAT TAATAT TA-ATAT TAATAT TAATAT TAATAT
* *
10789 TGA-AT TAATAAT TATTAT TAATAT
1 TAATAT TAAT-AT TAATAT TAATAT
10813 AATTCAATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
5 11 0.21
6 29 0.56
7 12 0.23
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (6 bp):
TAATAT
Found at i:10775 original size:18 final size:18
Alignment explanation
Indices: 10741--10785 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
10731 TGACTTATGA
10741 TAATATTAACATATAATAT
1 TAATATT-ACATATAATAT
*
10760 TAATATTACATCTAATAT
1 TAATATTACATATAATAT
*
10778 TCATATTA
1 TAATATTA
10786 TATTGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATATTACATATAATAT
Found at i:11349 original size:17 final size:17
Alignment explanation
Indices: 11329--11365 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11319 TTATTAATAA
*
11329 TATTATAAAACAGTTAT
1 TATTATAAAACAATTAT
*
11346 TATTATAAAATAATTAT
1 TATTATAAAACAATTAT
11363 TAT
1 TAT
11366 AATGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTATAAAACAATTAT
Found at i:11419 original size:14 final size:14
Alignment explanation
Indices: 11402--11445 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
11392 ATTATAAAAT
11402 TTAATAGTTATTAA
1 TTAATAGTTATTAA
*
11416 TTAATAGATA-TAA
1 TTAATAGTTATTAA
*
11429 TTAATAATCTATTAA
1 TTAATAGT-TATTAA
11444 TT
1 TT
11446 TTAATGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.36
14 11 0.44
15 5 0.20
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (14 bp):
TTAATAGTTATTAA
Found at i:11568 original size:21 final size:21
Alignment explanation
Indices: 11523--11569 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11513 TATACTAGAT
11523 TATTATAATTTAAATAACAGA
1 TATTATAATTTAAATAACAGA
**
11544 -ATTATAATTGTTCATAACA-A
1 TATTATAATT-TAAATAACAGA
11564 TATTAT
1 TATTAT
11570 TTGTGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (21 bp):
TATTATAATTTAAATAACAGA
Found at i:11610 original size:16 final size:17
Alignment explanation
Indices: 11578--11625 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
11568 ATTTGTGATT
* *
11578 ATATTAAATTATATTTA
1 ATATTAAATAATTTTTA
11595 A-ATTAAATAATTTTTA
1 ATATTAAATAATTTTTA
*
11611 ATTATTTAATAATTT
1 A-TATTAAATAATTT
11626 ACTAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 14 0.54
17 1 0.04
18 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTAAATAATTTTTA
Found at i:11643 original size:28 final size:30
Alignment explanation
Indices: 11593--11664 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 30
11583 AAATTATATT
*
11593 TAAATTAAA-TAATT--TTTAATTATTTAA
1 TAAATTAAACTAATTAATTTAATTATTAAA
*
11620 T-AATT-TACTAATTAATTTAATTATTAAA
1 TAAATTAAACTAATTAATTTAATTATTAAA
11648 TAAATTAAACTAATTAA
1 TAAATTAAACTAATTAA
11665 CTAATAATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 1 0.03
26 9 0.24
27 1 0.03
28 13 0.35
29 4 0.11
30 9 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
TAAATTAAACTAATTAATTTAATTATTAAA
Found at i:11997 original size:15 final size:16
Alignment explanation
Indices: 11977--12006 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11967 TAATAATTTA
11977 TATTATT-ATTTATAC
1 TATTATTAATTTATAC
11992 TATTATTAATTTATA
1 TATTATTAATTTATA
12007 ATAATTCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATTAATTTATAC
Found at i:12101 original size:21 final size:21
Alignment explanation
Indices: 12077--12156 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 21
12067 TTTAATAATA
12077 ATTTAAAT-TAATTATTATACT
1 ATTTAAATATAATTATTATA-T
12098 ATTTATAATTATAA-TATTATAT
1 ATTTA-AA-TATAATTATTATAT
* *
12120 A-TTATATATAATTAATA-AT
1 ATTTAAATATAATTATTATAT
12139 ATTATAAATATAATTATT
1 ATT-TAAATATAATTATT
12157 TAATCAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
19 8 0.16
20 6 0.12
21 20 0.41
22 4 0.08
23 8 0.16
24 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAAATATAATTATTATAT
Found at i:12110 original size:15 final size:15
Alignment explanation
Indices: 12089--12145 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
12079 TTAAATTAAT
*
12089 TATTATACTATT-TA
1 TATTATAATATTATA
12103 TAATTATAATATTATA
1 T-ATTATAATATTATA
12119 TATTATATATAATTAATAA
1 TATTATA-AT-ATT-AT-A
12138 TATTATAA
1 TATTATAA
12146 ATATAATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 1 0.03
15 16 0.44
16 5 0.14
17 3 0.08
18 3 0.08
19 8 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTATAATATTATA
Found at i:12116 original size:23 final size:22
Alignment explanation
Indices: 12077--12144 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 22
12067 TTTAATAATA
*
12077 ATTTA-AATTA-ATTATTATACT
1 ATTTATAATTATAATATTATA-T
12098 ATTTATAATTATAATATTATAT
1 ATTTATAATTATAATATTATAT
12120 ATTATATATAATTAATAATATTATA
1 A-T-T-TATAATT-ATAATATTATA
12145 AATATAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 5 0.12
22 7 0.17
23 9 0.22
24 1 0.03
25 7 0.17
26 11 0.28
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTATAATTATAATATTATAT
Found at i:12137 original size:26 final size:25
Alignment explanation
Indices: 12087--12144 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
12077 ATTTAAATTA
*
12087 ATTATTATACTATTTATAATTATAAT
1 ATTA-TATACTATATATAATTATAAT
*
12113 ATTATATATTATATATAATTAATAAT
1 ATTATATACTATATATAATT-ATAAT
12139 ATTATA
1 ATTATA
12145 AATATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTATATACTATATATAATTATAAT
Found at i:12149 original size:23 final size:24
Alignment explanation
Indices: 12087--12150 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
12077 ATTTAAATTA
*
12087 ATTATTATACTATTTATAATTATAAT
1 ATTA-TATA-TATATATAATTATAAT
12113 ATTATATATTATATATAATTAATAAT
1 ATTATATA-TATATATAATT-ATAAT
*
12139 ATTATAAATATA
1 ATTATATATATA
12151 ATTATTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.53
26 16 0.47
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTATATATATATATAATTATAAT
Found at i:13043 original size:23 final size:22
Alignment explanation
Indices: 12998--13044 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
12988 TTAAAATATA
*
12998 ATTAACTTATATAATATATAAT
1 ATTAACTAATATAATATATAAT
13020 ATTAACTAATTATAATACTA-AAT
1 ATTAACTAA-TATAATA-TATAAT
13043 AT
1 AT
13045 AACATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 12 0.55
24 2 0.09
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAACTAATATAATATATAAT
Found at i:13406 original size:22 final size:21
Alignment explanation
Indices: 13371--13435 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
13361 TATAATAGTT
13371 AATTATTTTAATAATTAATACA
1 AATTATTTT-ATAATTAATACA
* * *
13393 AATTATTCTTATAAATCATATA
1 AATTATT-TTATAATTAATACA
*
13415 AATTATAATTATACATTAATA
1 AATTAT-TTTATA-ATTAATA
13436 TATTATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTATTTTATAATTAATACA
Found at i:13928 original size:16 final size:15
Alignment explanation
Indices: 13899--13933 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13889 ACTATTCACA
13899 TATACATTTAATTAT
1 TATACATTTAATTAT
*
13914 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
13930 TATA
1 TATA
13934 AAATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:13957 original size:27 final size:28
Alignment explanation
Indices: 13908--13962 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
13898 ATATACATTT
* *
13908 AATTATTATACTATTTGATTA-TTATAA
1 AATTATTATACTATTTAAATATTTATAA
13935 AATTATTA-ACTAATTTAAATATTTATAA
1 AATTATTATACT-ATTTAAATATTTATAA
13963 TGAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 15 0.62
28 6 0.25
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
AATTATTATACTATTTAAATATTTATAA
Found at i:14194 original size:15 final size:15
Alignment explanation
Indices: 14170--14235 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 15
14160 TAATTTATTA
*
14170 AATTAAATATTAATT
1 AATTATATATTAATT
14185 AATTATATATT-ATT
1 AATTATATATTAATT
*
14199 AATT-TACTAATTAATA
1 AATTATA-T-ATTAATT
14215 AATTAACTAATATTAATT
1 AATT-A-T-ATATTAATT
14233 AAT
1 AAT
14236 AACAATGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
15 13 0.32
16 6 0.15
18 9 0.22
19 2 0.05
20 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATATATTAATT
Found at i:14340 original size:17 final size:16
Alignment explanation
Indices: 14295--14356 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 16
14285 TATAATTAGT
14295 TAATATAATAACATTAAA
1 TAATAT-ATAA-ATTAAA
14313 TAATATATAAATTAAA
1 TAATATATAAATTAAA
* *
14329 TAATCATTTAAAATAAAA
1 TAAT-ATAT-AAATTAAA
*
14347 TATTATATAA
1 TAATATATAA
14357 TATAATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 12 0.32
17 10 0.26
18 16 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATATATAAATTAAA
Found at i:14412 original size:17 final size:16
Alignment explanation
Indices: 14357--14408 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
14347 TATTATATAA
14357 TATAATAATTAATCTTAT
1 TATAATAA-TAAT-TTAT
* *
14375 TATAATAATAAGTTAAA
1 TATAATAATAA-TTTAT
14392 TATAATAATAATTTAT
1 TATAATAATAATTTAT
14408 T
1 T
14409 TATATTACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.14
17 16 0.55
18 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TATAATAATAATTTAT
Found at i:14851 original size:15 final size:15
Alignment explanation
Indices: 14831--14869 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14821 ATAATTTATT
*
14831 TATATATAATATATAA
1 TATATAT-ATAGATAA
14847 TTATATATATAGATAA
1 -TATATATATAGATAA
14863 TATATAT
1 TATATAT
14870 TATGGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 7 0.33
17 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TATATATATAGATAA
Found at i:14862 original size:23 final size:23
Alignment explanation
Indices: 14796--14872 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
14786 TAATAATATA
* *
14796 ATATAATTATTTCATAAATATAAT
1 ATATAATTATAT-ATATATATAAT
*
14820 A-ATAATT-TATTTATATATAAT
1 ATATAATTATATATATATATAAT
*
14841 ATATAATTATATATATAGATAAT
1 ATATAATTATATATATATATAAT
14864 ATAT-ATTAT
1 ATATAATTAT
14873 GGTAAATAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
21 10 0.22
22 13 0.28
23 22 0.48
24 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATAATTATATATATATATAAT
Found at i:16187 original size:15 final size:15
Alignment explanation
Indices: 16156--16212 Score: 59
Period size: 13 Copynumber: 4.1 Consensus size: 15
16146 TTAATTTAAG
*
16156 TTATATTAATAACAT
1 TTATATTAATAATAT
*
16171 TTATATTAATATTA-
1 TTATATTAATAATAT
*
16185 TT-TATTAATAATAA
1 TTATATTAATAATAT
16199 TTATA--AATAATAT
1 TTATATTAATAATAT
16212 T
1 T
16213 ATTCTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 18 0.50
14 4 0.11
15 14 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATATTAATAATAT
Found at i:16202 original size:13 final size:13
Alignment explanation
Indices: 16122--16215 Score: 52
Period size: 13 Copynumber: 7.1 Consensus size: 13
16112 TATTTTAATA
16122 TAATAATAATTAT
1 TAATAATAATTAT
16135 T-AT-ATAATTTAT
1 TAATAATAA-TTAT
*
16147 TAAT-TTAAGTTATAT
1 TAATAATAA--T-TAT
* *
16162 TAATAACATTTATAT
1 TAATAATA-AT-TAT
* *
16177 TAATATTATTTAT
1 TAATAATAATTAT
16190 TAATAATAATTAT
1 TAATAATAATTAT
*
16203 AAATAAT-ATTAT
1 TAATAATAATTAT
16215 T
1 T
16216 CTTAAAATGA
Statistics
Matches: 65, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
11 4 0.06
12 12 0.18
13 26 0.40
14 4 0.06
15 18 0.28
16 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (13 bp):
TAATAATAATTAT
Found at i:16237 original size:29 final size:29
Alignment explanation
Indices: 16159--16238 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 29
16149 ATTTAAGTTA
* * *
16159 TATTAATAACATTTAT-ATTAATATTATT
1 TATTAATAATAATTATAAATAATATTATT
16187 TATTAATAATAATTATAAATAATATTA-T
1 TATTAATAATAATTATAAATAATATTATT
*
16215 TCTTAA-AATGAATTATAATATAAT
1 TATTAATAAT-AATTATAA-ATAAT
16239 CATAATATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
27 3 0.07
28 28 0.62
29 14 0.31
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (29 bp):
TATTAATAATAATTATAAATAATATTATT
Found at i:16307 original size:6 final size:6
Alignment explanation
Indices: 16256--16327 Score: 51
Period size: 6 Copynumber: 11.7 Consensus size: 6
16246 TTTTAATTGG
* *
16256 ATTATA ATT-TA ATTA-A TATTA-A ATAATA ATTTTTAA ATTAATA ATTATA
1 ATTATA ATTATA ATTATA -ATTATA ATTATA A-TTAT-A ATT-ATA ATTATA
*
16305 ATTATA ATTAATA AGTATA ATTA
1 ATTATA ATT-ATA ATTATA ATTA
16328 ATAAATACAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
5 9 0.17
6 28 0.53
7 13 0.25
8 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (6 bp):
ATTATA
Found at i:16313 original size:19 final size:19
Alignment explanation
Indices: 16291--16327 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16281 ATAATTTTTA
*
16291 AATTAATAATTATAATTAT
1 AATTAATAAGTATAATTAT
16310 AATTAATAAGTATAATTA
1 AATTAATAAGTATAATTA
16328 ATAAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AATTAATAAGTATAATTAT
Found at i:16318 original size:13 final size:13
Alignment explanation
Indices: 16259--16331 Score: 58
Period size: 13 Copynumber: 6.3 Consensus size: 13
16249 TAATTGGATT
16259 ATAATT-TAATTA
1 ATAATTATAATTA
16271 AT-ATTA-AA-TA
1 ATAATTATAATTA
16281 ATAATT-T--TT-
1 ATAATTATAATTA
16290 A-AATTAATAATT-
1 ATAATT-ATAATTA
16302 ATAATTATAATTA
1 ATAATTATAATTA
*
16315 ATAAGTATAATTA
1 ATAATTATAATTA
16328 ATAA
1 ATAA
16332 ATACAATCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 19
0.71 0.01 0.27
Matches are distributed among these distances:
8 4 0.08
9 1 0.02
10 6 0.12
11 8 0.16
12 11 0.22
13 20 0.40
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (13 bp):
ATAATTATAATTA
Found at i:17022 original size:30 final size:31
Alignment explanation
Indices: 16955--17033 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 31
16945 TAGTATATTA
*
16955 TTATAATATT-ATTAAAATAAATTTAATATAT
1 TTAT-ATATTAATTAAAATAAATATAATATAT
* * *
16986 TGATATATTAATTTAATTAAATATAATA-AT
1 TTATATATTAATTAAAATAAATATAATATAT
17016 TTATATATTAATTAAAAT
1 TTATATATTAATTAAAAT
17034 TATTAACTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 22 0.55
31 18 0.45
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
TTATATATTAATTAAAATAAATATAATATAT
Found at i:17312 original size:31 final size:31
Alignment explanation
Indices: 17264--17334 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
17254 ATCAAATAAA
* **
17264 TATTAATAATTTAAATATTTTAATAATCAAT
1 TATTAATTATTTAAATATGATAATAATCAAT
* *
17295 TATTAATTA-TTATAATATGATAATATTTAAT
1 TATTAATTATTTA-AATATGATAATAATCAAT
17326 TA-TAATTAT
1 TATTAATTAT
17335 AATTAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TATTAATTATTTAAATATGATAATAATCAAT
Found at i:17988 original size:27 final size:27
Alignment explanation
Indices: 17941--18005 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
17931 TATAAGTATC
*
17941 AATAATA-ATATTATTGAT-AA-AATA
1 AATAATATTTATTATTGATAAATAATA
17965 AATAAGTAATTTATTATT-ATTAAATAATA
1 AATAA-T-ATTTATTATTGA-TAAATAATA
17994 AATAATATTTAT
1 AATAATATTTAT
18006 AATGTAATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
24 5 0.15
25 1 0.03
26 2 0.06
27 14 0.41
28 3 0.09
29 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (27 bp):
AATAATATTTATTATTGATAAATAATA
Found at i:18460 original size:13 final size:13
Alignment explanation
Indices: 18433--18468 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18423 CAGTATAATA
18433 TTATAATAA-ATT
1 TTATAATAATATT
18445 TTATAATAATATT
1 TTATAATAATATT
*
18458 TTATGATAATA
1 TTATAATAATA
18469 ATTATAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTATAATAATATT
Found at i:18668 original size:24 final size:23
Alignment explanation
Indices: 18602--18668 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 23
18592 CCATATAAAT
* *
18602 AATAATT-ATATATATAATTAGTA
1 AATAATTAATAT-TATAAATAATA
*
18625 ACTAAATTAATAATT-TAAATAATA
1 AAT-AATTAAT-ATTATAAATAATA
18649 AATAATTACATATTATAAAT
1 AATAATTA-ATATTATAAAT
18669 TGTATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
23 10 0.29
24 20 0.57
25 3 0.09
26 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (23 bp):
AATAATTAATATTATAAATAATA
Found at i:18770 original size:18 final size:19
Alignment explanation
Indices: 18737--18772 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18727 AGTTAATTGA
*
18737 CTTGTTCTAATAAATTAAG
1 CTTGTACTAATAAATTAAG
18756 CTTGTACTAAT-AATTAA
1 CTTGTACTAATAAATTAA
18773 TAGTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (19 bp):
CTTGTACTAATAAATTAAG
Found at i:18878 original size:13 final size:14
Alignment explanation
Indices: 18851--18879 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18841 ATATTATTTA
18851 TATTATATGATAAT
1 TATTATATGATAAT
18865 TATTATAT-ATAAT
1 TATTATATGATAAT
18878 TA
1 TA
18880 AATAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
TATTATATGATAAT
Found at i:19022 original size:19 final size:19
Alignment explanation
Indices: 19000--19051 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
18990 TATAATTATT
19000 AATTATTATTATATTAATA
1 AATTATTATTATATTAATA
*
19019 AATTATTAACT-TATT-ATA
1 AATTATT-ATTATATTAATA
*
19037 AATTAAT-TTATATTA
1 AATTATTATTATATTA
19052 CTCAGATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 4 0.15
18 9 0.33
19 11 0.41
20 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTATTATTATATTAATA
Found at i:19022 original size:26 final size:26
Alignment explanation
Indices: 18993--19043 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
18983 ATAATTGTAT
*
18993 AATTATTAA-TTATTATTATATTAATA
1 AATTATTAACTTATTA-TAAATTAATA
19019 AATTATTAACTTATTATAAATTAAT
1 AATTATTAACTTATTATAAATTAAT
19044 TTATATTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
AATTATTAACTTATTATAAATTAATA
Found at i:19282 original size:39 final size:38
Alignment explanation
Indices: 19206--19284 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 38
19196 TTAAAATAAT
*
19206 TAATAAATTATATCAACATTATCTATTTAATAAATTAAA
1 TAATAAATTATATCAACATTATCTAATTAAT-AATTAAA
19245 TAATAAAGTTAT-TCAAACAATTATCTAATTAAT-ATTAAA
1 TAATAAA-TTATATC-AAC-ATTATCTAATTAATAATTAAA
19284 T
1 T
19285 TATTGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 16 0.44
40 7 0.19
41 13 0.36
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.41
Consensus pattern (38 bp):
TAATAAATTATATCAACATTATCTAATTAATAATTAAA
Found at i:19634 original size:18 final size:18
Alignment explanation
Indices: 19588--19634 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
19578 TATTATTTAA
*
19588 TAAT-ATTAAAAATAAAT
1 TAATAATTAAAATTAAAT
19605 TAATAATT-AAATTAATAT
1 TAATAATTAAAATTAA-AT
19623 TAA-AATTAAAAT
1 TAATAATTAAAAT
19635 CCTTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATTAAAATTAAAT
Found at i:20330 original size:20 final size:20
Alignment explanation
Indices: 20307--20367 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
20297 ATATTTAATA
20307 TTATAATATAATCTTTATAT
1 TTATAATATAATCTTTATAT
*
20327 TTATAA-ATAGA-CTATAATATT
1 TTATAATATA-ATCT-TTATA-T
* *
20348 TTATAATATTATATTTATAT
1 TTATAATATAATCTTTATAT
20368 AATATTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
19 5 0.16
20 12 0.38
21 12 0.38
22 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATAATATAATCTTTATAT
Found at i:20376 original size:14 final size:15
Alignment explanation
Indices: 20343--20375 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
20333 ATAGACTATA
20343 ATATTTTATAATATT
1 ATATTTTATAATATT
20358 ATATTTATATAATATT
1 ATATTT-TATAATATT
20374 AT
1 AT
20376 TCAAAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTTTATAATATT
Found at i:21393 original size:33 final size:31
Alignment explanation
Indices: 21340--21407 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 31
21330 TATTAATTTG
* *
21340 ATTAGAAATAAATTAGTATAATTAT-TTAATT
1 ATTAGAAATAAATAAGTATAATAATCTTAA-T
*
21371 ATTAGTAATTAAATAAGTTATAATAATCTTAAT
1 ATTAG-AAATAAATAAG-TATAATAATCTTAAT
21404 ATTA
1 ATTA
21408 TGACTATCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 5 0.16
32 9 0.29
33 13 0.42
34 4 0.13
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (31 bp):
ATTAGAAATAAATAAGTATAATAATCTTAAT
Found at i:22628 original size:12 final size:12
Alignment explanation
Indices: 22613--22653 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
22603 TAATAAGTTA
22613 ATAAATATTAAT
1 ATAAATATTAAT
22625 ATAAATAATTAAT
1 ATAAAT-ATTAAT
* *
22638 ATTATTATTAAT
1 ATAAATATTAAT
22650 ATAA
1 ATAA
22654 TTTTTATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAAATATTAAT
Found at i:22877 original size:21 final size:21
Alignment explanation
Indices: 22832--22878 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22822 ACAAAAGGTT
* *
22832 TATAATTATAATTTAAAATAT
1 TATAATAATAATTTAAAATAG
* *
22853 TATAATAATAATTTTATATAG
1 TATAATAATAATTTAAAATAG
22874 TATAA
1 TATAA
22879 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAATAATAATTTAAAATAG
Found at i:22918 original size:14 final size:14
Alignment explanation
Indices: 22848--22928 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 14
22838 TATAATTTAA
22848 AATATTATAATAA-T
1 AATATTAT-ATAATT
* *
22862 AATTTTATATAGTAT
1 AATATTATATAAT-T
*
22877 AA-ATTTAAATAATT
1 AATA-TTATATAATT
22891 AATATTATAATAATT
1 AATATTAT-ATAATT
22906 ATATATTAT-TAATT
1 A-ATATTATATAATT
22920 AAT-TTATAT
1 AATATTATAT
22929 CTAAATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
12 4 0.07
13 6 0.11
14 19 0.35
15 18 0.33
16 7 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (14 bp):
AATATTATATAATT
Found at i:22926 original size:19 final size:16
Alignment explanation
Indices: 22884--22928 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
22874 TATAAATTTA
22884 AATAATTA-ATATTAT
1 AATAATTATATATTAT
22899 AATAATTATATATTATT
1 AATAATTATATATTA-T
22916 AATTAATT-TATAT
1 AA-TAATTATATAT
22929 CTAAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.30
16 6 0.22
17 8 0.30
18 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATAATTATATATTAT
Found at i:24154 original size:17 final size:17
Alignment explanation
Indices: 24128--24161 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24118 AATAAGTAAT
* *
24128 TTAAATAATATTATTAA
1 TTAAACAATATAATTAA
24145 TTAAACAATATAATTAA
1 TTAAACAATATAATTAA
24162 ATTATAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAACAATATAATTAA
Found at i:24219 original size:18 final size:17
Alignment explanation
Indices: 24196--24231 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
24186 TTTTAATTTA
24196 AATTAATAAATTATTATT
1 AATTAATAAA-TATTATT
24214 AATTAATAAATATTATT
1 AATTAATAAATATTATT
24231 A
1 A
24232 TTTATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAATAAATATTATT
Found at i:24230 original size:20 final size:19
Alignment explanation
Indices: 24196--24241 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
24186 TTTTAATTTA
24196 AATTAAT-AAATTATTATT
1 AATTAATAAAATTATTATT
24214 AATTAATAAATATTATTATT
1 AATTAATAAA-ATTATTATT
*
24234 TATTAATA
1 AATTAATA
24242 GTAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 16 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTAATAAAATTATTATT
Found at i:24772 original size:17 final size:16
Alignment explanation
Indices: 24738--24791 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
24728 GACTTTTTAG
*
24738 TAATTATTAAATATTAA
1 TAATTATTAAA-AATAA
24755 TAATTATTAATAAATAA
1 TAATTATTAA-AAATAA
24772 T--TTATATAAAAA-AA
1 TAATTAT-TAAAAATAA
24786 TAATTA
1 TAATTA
24792 ATATAACTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 3 0.09
15 7 0.22
16 6 0.19
17 15 0.47
18 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATTATTAAAAATAA
Found at i:26116 original size:16 final size:15
Alignment explanation
Indices: 26087--26121 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
26077 TACTAATACC
26087 TTAT-TATAATTAGA
1 TTATATATAATTAGA
26101 TTATATATATATTAGA
1 TTATATATA-ATTAGA
26117 TTATA
1 TTATA
26122 ATTTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 4 0.21
16 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (15 bp):
TTATATATAATTAGA
Found at i:26197 original size:23 final size:21
Alignment explanation
Indices: 26125--26203 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 21
26115 GATTATAATT
26125 TTATATTATAAATCATTTATATA
1 TTAT-TTATAAAT-ATTTATATA
* *
26148 TAATATTATATATATTTGA-ATA
1 TTAT-TTATAAATATTT-ATATA
*
26170 ATATTTGATTAAATATTTATATA
1 TTATTT-A-TAAATATTTATATA
*
26193 TTATTTTTAAA
1 TTATTTATAAA
26204 CAAATAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 6 0.13
22 11 0.24
23 28 0.62
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATTTATAAATATTTATATA
Found at i:26360 original size:12 final size:12
Alignment explanation
Indices: 26345--26386 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
26335 TAATAAAATA
*
26345 AATTATATTAAT
1 AATTAAATTAAT
26357 AATTAAATTAAT
1 AATTAAATTAAT
*
26369 ATAATAAATTAA-
1 A-ATTAAATTAAT
26381 AATTAA
1 AATTAA
26387 TTGATTAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 4 0.15
12 13 0.50
13 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTAAATTAAT
Found at i:26363 original size:17 final size:18
Alignment explanation
Indices: 26317--26381 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 18
26307 ATTAGTAATA
26317 ATTAAT-AAATAAA-TAGT
1 ATTAATAAAATAAATTA-T
26334 A-TAATAAAATAAATTAT
1 ATTAATAAAATAAATTAT
*
26351 ATTAAT-AATTAAATTA-
1 ATTAATAAAATAAATTAT
*
26367 ATATAATAAATTAAA
1 AT-TAATAAAATAAA
26382 ATTAATTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
16 6 0.14
17 23 0.55
18 13 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
ATTAATAAAATAAATTAT
Found at i:26364 original size:21 final size:22
Alignment explanation
Indices: 26309--26374 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 22
26299 TTATTAGTAT
26309 TAGTAATAATT-AATAAATAAA
1 TAGTAATAATTAAATAAATAAA
* *
26330 TAGT-ATAATAAAATAAAT-TA
1 TAGTAATAATTAAATAAATAAA
* *
26350 TATTAATAATTAAATTAATATAA
1 TAGTAATAATTAAATAAATA-AA
26373 TA
1 TA
26375 AATTAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 9 0.26
21 23 0.66
23 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (22 bp):
TAGTAATAATTAAATAAATAAA
Found at i:27024 original size:15 final size:14
Alignment explanation
Indices: 26998--27030 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
26988 ATTAGTTTAA
26998 ATAT-TTATATTAT
1 ATATATTATATTAT
27011 ATATATTATGATTAT
1 ATATATTAT-ATTAT
27026 ATATA
1 ATATA
27031 AATCTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 4 0.22
15 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
ATATATTATATTAT
Found at i:28203 original size:10 final size:10
Alignment explanation
Indices: 28177--28210 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
28167 TATCTAACAA
28177 ATAATATATT
1 ATAATATATT
28187 ATAAATATATT
1 AT-AATATATT
*
28198 ATAATATTTT
1 ATAATATATT
28208 ATA
1 ATA
28211 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATAATATATT
Found at i:28209 original size:40 final size:38
Alignment explanation
Indices: 28152--28238 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 38
28142 TATTAATATT
*
28152 ATAATTATAATTATTTATCTAACAAATAAT-ATATTATAA
1 ATAATTATAATTATTTATATAA-AAA-AATAATATTATAA
*
28191 ATATATTATAA-TATTTTATATAAAAAAATAATTTTATAA
1 ATA-ATTATAATTA-TTTATATAAAAAAATAATATTATAA
*
28230 TTAATTATA
1 ATAATTATA
28239 TTAAATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
38 9 0.21
39 18 0.43
40 15 0.36
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (38 bp):
ATAATTATAATTATTTATATAAAAAAATAATATTATAA
Found at i:29014 original size:18 final size:18
Alignment explanation
Indices: 28983--29027 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
28973 TGACTTATGA
28983 TAATATTAACATATAATAT
1 TAATATT-ACATATAATAT
29002 TAATATTACATATAATAT
1 TAATATTACATATAATAT
*
29020 TCATATTA
1 TAATATTA
29028 TATTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATATTACATATAATAT
Found at i:30260 original size:15 final size:16
Alignment explanation
Indices: 30240--30269 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30230 TAATAATTTA
30240 TATTATT-ATTTATAC
1 TATTATTAATTTATAC
30255 TATTATTAATTTATA
1 TATTATTAATTTATA
30270 ATAATTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATTAATTTATAC
Found at i:30391 original size:25 final size:28
Alignment explanation
Indices: 30350--30407 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 28
30340 ATTTAAATTA
*
30350 ATTAT-TATCTATTTAT-AATT-ATAAT
1 ATTATATATCTATATATAAATTAATAAT
30375 ATTATATAT-TATATATAAATTAATAAT
1 ATTATATATCTATATATAAATTAATAAT
30402 ATTATA
1 ATTATA
30408 AATATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 11 0.38
26 7 0.24
27 11 0.38
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTATATATCTATATATAAATTAATAAT
Found at i:31306 original size:23 final size:22
Alignment explanation
Indices: 31261--31307 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
31251 TTAAAATATA
*
31261 ATTAACTTATATAATATATAAT
1 ATTAACTAATATAATATATAAT
31283 ATTAACTAATTATAATACTA-AAT
1 ATTAACTAA-TATAATA-TATAAT
31306 AT
1 AT
31308 AACATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 12 0.55
24 2 0.09
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAACTAATATAATATATAAT
Found at i:31422 original size:14 final size:14
Alignment explanation
Indices: 31403--31429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31393 AGTATTTAGT
31403 AATAATTTGATCAC
1 AATAATTTGATCAC
31417 AATAATTTGATCA
1 AATAATTTGATCA
31430 ATAAGTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (14 bp):
AATAATTTGATCAC
Found at i:31684 original size:22 final size:21
Alignment explanation
Indices: 31649--31713 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
31639 TATAATAGTT
31649 AATTATTTTAATAATTAATACA
1 AATTATTTT-ATAATTAATACA
* * *
31671 AATTATTCTTATAAATCATATA
1 AATTATT-TTATAATTAATACA
*
31693 AATTATAATTATACATTAATA
1 AATTAT-TTTATA-ATTAATA
31714 TATTATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTATTTTATAATTAATACA
Found at i:31739 original size:18 final size:19
Alignment explanation
Indices: 31695--31741 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
31685 ATCATATAAA
31695 TTATAAT-TATACATTAAT
1 TTATAATATATACATTAAT
* * *
31713 ATATTATATATA-ATTATT
1 TTATAATATATACATTAAT
31731 TTATAATATAT
1 TTATAATATAT
31742 TTAGATATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATAATATATACATTAAT
Found at i:31811 original size:24 final size:23
Alignment explanation
Indices: 31784--31829 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
31774 AACTAATATT
*
31784 TAATTACAAATATTTGATTATTTG
1 TAATAACAAATATTT-ATTATTTG
*
31808 TAATAATAAATATTTATTATTT
1 TAATAACAAATATTTATTATTT
31830 AAATTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TAATAACAAATATTTATTATTTG
Found at i:31837 original size:23 final size:23
Alignment explanation
Indices: 31791--31847 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 23
31781 ATTTAATTAC
*
31791 AAATATTTGATTATTTGTAATAAT
1 AAATATTT-ATTATTTGAAATAAT
31815 AAATATTTATTATTT-AAAT--T
1 AAATATTTATTATTTGAAATAAT
31835 AATATATTTATTA
1 AA-ATATTTATTA
31848 ATATTTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 10 0.32
22 3 0.10
23 7 0.23
24 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AAATATTTATTATTTGAAATAAT
Found at i:32293 original size:7 final size:7
Alignment explanation
Indices: 32277--32324 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
32267 GAATGTTAAT
*
32277 AATTTAA
1 AATTTTA
32284 AATTTTA
1 AATTTTA
32291 AATTTTA
1 AATTTTA
32298 AATTTTA
1 AATTTTA
*
32305 AA-TTAA
1 AATTTTA
32311 AATATTTA
1 AAT-TTTA
32319 AATTTT
1 AATTTT
32325 TATATTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 5 0.14
7 25 0.69
8 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTTTA
Found at i:32294 original size:14 final size:14
Alignment explanation
Indices: 32277--32323 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
32267 GAATGTTAAT
32277 AATTTAAAATTTTA
1 AATTTAAAATTTTA
*
32291 AATTTTAAATTTTA
1 AATTTAAAATTTTA
32305 AA-TTAAAATATTTA
1 AATTTAAAAT-TTTA
32319 AATTT
1 AATTT
32324 TTATATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 6 0.21
14 21 0.72
15 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTTAAAATTTTA
Found at i:32443 original size:15 final size:15
Alignment explanation
Indices: 32425--32454 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32415 TAAATATTTT
*
32425 AATTATTGATTAATA
1 AATTATTGATCAATA
32440 AATTATTGATCAATA
1 AATTATTGATCAATA
32455 GACTATTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
AATTATTGATCAATA
Found at i:32496 original size:16 final size:15
Alignment explanation
Indices: 32467--32501 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
32457 CTATTCAACA
32467 TATACATTTAATTAT
1 TATACATTTAATTAT
*
32482 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
32498 TATA
1 TATA
32502 AAATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:32508 original size:27 final size:27
Alignment explanation
Indices: 32476--32538 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
32466 ATATACATTT
* *
32476 AATTATTATACT-ATTTGATTATTATAA
1 AATTATTA-ACTAATTTAATTATAATAA
*
32503 AATTATTAACTAATTTAATTGTAATAA
1 AATTATTAACTAATTTAATTATAATAA
*
32530 ATTTATTAA
1 AATTATTAA
32539 AATATACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (27 bp):
AATTATTAACTAATTTAATTATAATAA
Found at i:32612 original size:23 final size:22
Alignment explanation
Indices: 32582--32648 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
32572 ACACAATTTG
*
32582 TATT-ATTATAAATTAAT-ATT
1 TATTAATTATAAATAAATAATT
*
32602 ATACTTAATTACAAATAAATAATT
1 -TA-TTAATTATAAATAAATAATT
*
32626 TATTAATTAT-ATTAAAT-ATT
1 TATTAATTATAAATAAATAATT
32646 TAT
1 TAT
32649 AATGAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.15
21 8 0.21
22 9 0.23
23 13 0.33
24 3 0.08
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTAATTATAAATAAATAATT
Found at i:33027 original size:17 final size:16
Alignment explanation
Indices: 32982--33043 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 16
32972 TATAATTAGT
32982 TAATATAATAACATTAAA
1 TAATAT-ATAA-ATTAAA
33000 TAATATATAAATTAAA
1 TAATATATAAATTAAA
* *
33016 TAATCATTTAAAATAAAA
1 TAAT-ATAT-AAATTAAA
*
33034 TATTATATAA
1 TAATATATAA
33044 TATAATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 12 0.32
17 10 0.26
18 16 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATATATAAATTAAA
Found at i:33102 original size:20 final size:20
Alignment explanation
Indices: 33034--33102 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
33024 TAAAATAAAA
33034 TATTATATAAT-ATAATAATT
1 TATT-TATAATAATAATAATT
* * *
33054 AATCTTATTATAATAATAAGT
1 TAT-TTATAATAATAATAATT
**
33075 TAAATATAATAATAATAATT
1 TATTTATAATAATAATAATT
33095 TATTTATA
1 TATTTATA
33103 TTACTATGCT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
20 27 0.73
21 10 0.27
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (20 bp):
TATTTATAATAATAATAATT
Found at i:33528 original size:27 final size:29
Alignment explanation
Indices: 33498--33567 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 29
33488 ATTTATTAAC
*
33498 ATTATATTTTATAA-AAAATTATTT-ATA
1 ATTATATATTATAATAAAATTATTTCATA
*
33525 ATTA-ATATTATAATATAATTATTTCATA
1 ATTATATATTATAATAAAATTATTTCATA
*
33553 A--ATATAATATAATAA
1 ATTATATATTATAATAA
33568 TTTATTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 9 0.25
27 23 0.64
28 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTATATATTATAATAAAATTATTTCATA
Found at i:33568 original size:30 final size:29
Alignment explanation
Indices: 33514--33590 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
33504 TTTTATAAAA
*
33514 AATTATTTAT-AAT-TAATATTATAATAT
1 AATTATTTATAAATATAATATAATAATAT
*
33541 AATTATTTCATAAATATAATATAATAATTT
1 AATTATTT-ATAAATATAATATAATAATAT
* *
33571 ATTTATATATAATATATAAT
1 AATTATTTATAA-ATATAAT
33591 TATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.19
28 2 0.05
29 7 0.17
30 25 0.60
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
AATTATTTATAAATATAATATAATAATAT
Found at i:33595 original size:17 final size:17
Alignment explanation
Indices: 33521--33612 Score: 74
Period size: 17 Copynumber: 5.8 Consensus size: 17
33511 AAAAATTATT
*
33521 TATAATTA-ATATTATAA
1 TATAATTATATATAAT-A
*
33538 TATAATTATTTCATAA-A
1 TATAATTATAT-ATAATA
33555 TATAA-TATA-ATAAT-
1 TATAATTATATATAATA
*
33569 T-TATTTATATATAATA
1 TATAATTATATATAATA
33585 TATAATTATATAT-ATA
1 TATAATTATATATAATA
*
33601 GATAA-TATATAT
1 TATAATTATATAT
33613 TATAGTAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
13 2 0.03
14 9 0.15
15 12 0.19
16 11 0.18
17 24 0.39
18 1 0.02
19 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (17 bp):
TATAATTATATATAATA
Found at i:33610 original size:23 final size:23
Alignment explanation
Indices: 33537--33616 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
33527 TAATATTATA
* *
33537 ATATAATTATTTCATAAATATAAT
1 ATATAATTATAT-ATATATATAAT
*
33561 ATAATAATT-TATTTATATATAAT
1 AT-ATAATTATATATATATATAAT
*
33584 ATATAATTATATATATAGATAAT
1 ATATAATTATATATATATATAAT
33607 ATAT-ATTATA
1 ATATAATTATA
33617 GTAAATAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.24
23 27 0.55
24 4 0.08
25 6 0.12
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
ATATAATTATATATATATATAAT
Found at i:34109 original size:17 final size:16
Alignment explanation
Indices: 34065--34110 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
34055 TTAAAAGTTA
*
34065 TATAATATTAAATCAAAC
1 TATAATA-T-AATAAAAC
34083 TATAATATAATAAAAC
1 TATAATATAATAAAAC
34099 TATATATATAAT
1 TATA-ATATAAT
34111 CTTTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.42
17 8 0.31
18 7 0.27
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (16 bp):
TATAATATAATAAAAC
Found at i:34513 original size:18 final size:19
Alignment explanation
Indices: 34466--34518 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
34456 AACTTGTATT
*
34466 ATAACTTGATTATAAATTATA
1 ATAACTT-A-TATTAATTATA
34487 ATAACTTATATTAATTAT-
1 ATAACTTATATTAATTATA
* *
34505 ATAAGTTATGTTAA
1 ATAACTTATATTAA
34519 CTTAATTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 12 0.41
19 9 0.31
20 1 0.03
21 7 0.24
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (19 bp):
ATAACTTATATTAATTATA
Found at i:34831 original size:7 final size:7
Alignment explanation
Indices: 34821--34876 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
34811 TATTATATAC
34821 AATTATT
1 AATTATT
34828 AATTATT
1 AATTATT
34835 AATTATTT
1 AATTA-TT
*
34843 AATATAAT
1 AAT-TATT
*
34851 AATAATT
1 AATTATT
34858 -ATTATAT
1 AATTAT-T
34865 AATTTATT
1 AA-TTATT
34873 AATT
1 AATT
34877 TAAGTTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
6 4 0.10
7 17 0.43
8 13 0.32
9 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTATT
Found at i:34875 original size:19 final size:18
Alignment explanation
Indices: 34822--34876 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
34812 ATTATATACA
34822 ATTAT-TAATTATTAATT
1 ATTATATAATTATTAATT
*
34839 ATTTAATATAA-TAATAATT
1 A-TT-ATATAATTATTAATT
34858 ATTATATAATTTATTAATT
1 ATTATATAA-TTATTAATT
34877 TAAGTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 17 0.55
20 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATATAATTATTAATT
Found at i:34875 original size:22 final size:22
Alignment explanation
Indices: 34782--34875 Score: 73
Period size: 24 Copynumber: 4.1 Consensus size: 22
34772 CATTTAAATA
* *
34782 AATAA-TAGTATATAATTTTTTT
1 AATAATTATTATATAA-TTTATT
* *
34804 ACTAATATATTATATACAATTATT
1 AATAAT-TATTATATA-ATTTATT
* * * *
34828 AATTATTAATTATTTAATATAAT
1 AATAATT-ATTATATAATTTATT
34851 AATAATTATTATATAATTTATT
1 AATAATTATTATATAATTTATT
34873 AAT
1 AAT
34876 TTAAGTTATA
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
22 19 0.35
23 11 0.20
24 23 0.43
25 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (22 bp):
AATAATTATTATATAATTTATT
Found at i:34962 original size:29 final size:29
Alignment explanation
Indices: 34882--34977 Score: 90
Period size: 28 Copynumber: 3.3 Consensus size: 29
34872 TAATTTAAGT
* * *
34882 TATATTAATAACATTTAT-ATTAATATTA
1 TATATTAATAATAATTATAAATAATATTA
34910 TATATTAATAATAATTATAAATAATATTA
1 TATATTAATAATAATTATAAATAATATTA
* *
34939 T-TCTTAA-AATGAATTATAATATAATCATAA
1 TATATTAATAAT-AATTATAA-ATAAT-ATTA
*
34969 TATTTTAAT
1 TATATTAAT
34978 TGGATTATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.05
28 29 0.52
29 15 0.27
30 4 0.07
31 5 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (29 bp):
TATATTAATAATAATTATAAATAATATTA
Found at i:35038 original size:19 final size:19
Alignment explanation
Indices: 35016--35052 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35006 ATAATTTTTA
*
35016 AATTAATAATTATAATTAT
1 AATTAATAAGTATAATTAT
35035 AATTAATAAGTATAATTA
1 AATTAATAAGTATAATTA
35053 ATAAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
AATTAATAAGTATAATTAT
Found at i:35043 original size:13 final size:13
Alignment explanation
Indices: 35016--35056 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
35006 ATAATTTTTA
35016 AATTAATAATT-AT
1 AATT-ATAATTAAT
35029 AATTATAATTAAT
1 AATTATAATTAAT
*
35042 AAGTATAATTAAT
1 AATTATAATTAAT
35055 AA
1 AA
35057 ATACAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (13 bp):
AATTATAATTAAT
Done.