Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168054.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_304, 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: 36764
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Found at i:1632 original size:18 final size:16
Alignment explanation
Indices: 1609--1680 Score: 58
Period size: 18 Copynumber: 4.2 Consensus size: 16
1599 TTAATTAGTA
1609 AATTAATAATATATAATT
1 AATTAATAAT-T-TAATT
1627 AATTAAT-ATTTAATTT
1 AATTAATAATTTAA-TT
1643 AATATAATAATTTTAATT
1 AAT-TAATAA-TTTAATT
**
1661 AAACAAATAATTTAA-T
1 -AATTAATAATTTAATT
1677 AATT
1 AATT
1681 TGTGTTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
15 5 0.11
16 7 0.16
17 11 0.24
18 15 0.33
19 7 0.16
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAATAATTTAATT
Found at i:1633 original size:15 final size:15
Alignment explanation
Indices: 1609--1651 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
1599 TTAATTAGTA
1609 AATTAA-TAATATAT
1 AATTAATTAATATAT
*
1623 AATTAATTAATATTT
1 AATTAATTAATATAT
1638 AATTTAATATAATA
1 AA-TTAAT-TAATA
1652 ATTTTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 6 0.24
15 9 0.36
16 5 0.20
17 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTAATTAATATAT
Found at i:1936 original size:23 final size:22
Alignment explanation
Indices: 1891--1945 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
1881 AAATATTTAA
*
1891 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
1913 TATAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
1936 TATAA-TAATA
1 TATAATTAATA
1946 CAAATTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 12 0.40
23 14 0.47
24 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:2039 original size:27 final size:26
Alignment explanation
Indices: 1989--2051 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
1979 ATTGTATATT
* * *
1989 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
2016 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
2042 TATAATAATT
1 T-TAATAATT
2052 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:2047 original size:16 final size:15
Alignment explanation
Indices: 2026--2060 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2016 TTAATAATTT
2026 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
2042 TATAATAATTAAATG
1 TATAATAATCAAATG
2057 TATA
1 TATA
2061 TGTGAATAGT
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:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:2238 original size:25 final size:27
Alignment explanation
Indices: 2210--2259 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
2200 AGATATGAAT
2210 TATTATAATTTAT-TATAA-TAAATAC
1 TATTATAATTTATATATAATTAAATAC
2235 TATTATAATTTATATATAATTAAAT
1 TATTATAATTTATATATAATTAAAT
2260 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 13 0.57
26 5 0.22
27 5 0.22
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TATTATAATTTATATATAATTAAATAC
Found at i:2671 original size:13 final size:14
Alignment explanation
Indices: 2642--2673 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2632 AATAATTTAA
2642 TAAATTATATAATT
1 TAAATTATATAATT
2656 TAAATTATAT-ATT
1 TAAATTATATAATT
2669 TAAAT
1 TAAAT
2674 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:2779 original size:27 final size:29
Alignment explanation
Indices: 2725--2780 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
2715 AATTAAGAAA
2725 AAATTATATAATAAGAATTTATATTTAAT
1 AAATTATATAATAAGAATTTATATTTAAT
*
2754 AAATTA-ATAATTAA-AA-TTATCTTTAAT
1 AAATTATATAA-TAAGAATTTATATTTAAT
2781 TCTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 9 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATTATATAATAAGAATTTATATTTAAT
Found at i:2940 original size:29 final size:27
Alignment explanation
Indices: 2884--2952 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 27
2874 TATAGATATA
*
2884 ATTAATAATTTTATTATAAATTTATTTG
1 ATTAAT-ATATTATTATAAATTTATTTG
*
2912 TTTAATATATTATTATATAATTATATTTG
1 ATTAATATATTATTATA-AATT-TATTTG
*
2941 ATTAATACATTA
1 ATTAATATATTA
2953 AAAGATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.29
28 9 0.26
29 16 0.46
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTAATATATTATTATAAATTTATTTG
Found at i:4587 original size:35 final size:35
Alignment explanation
Indices: 4544--4630 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 35
4534 GATTATTTTT
*
4544 TTAAT-ATAATAATA-AATT-ATTATATAG-T-TTA
1 TTAATAATTATAATATAATTAATT-TATAGTTATTA
*
4575 TTAATTATTATAATATAATTAATTTATAGTTATTA
1 TTAATAATTATAATATAATTAATTTATAGTTATTA
*
4610 TTAATAATTATATTATAATTA
1 TTAATAATTATAATATAATTA
4631 GTTGTAACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.10
32 8 0.17
33 9 0.19
34 4 0.08
35 22 0.46
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (35 bp):
TTAATAATTATAATATAATTAATTTATAGTTATTA
Found at i:6056 original size:18 final size:16
Alignment explanation
Indices: 6033--6086 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
6023 TTAATTAGTA
6033 AATTAATAATATATAATT
1 AATTAATAAT-T-TAATT
6051 AATTAAT-ATTTAATTT
1 AATTAATAATTTAA-TT
6067 AATATAATAATTTTAATT
1 AAT-TAATAA-TTTAATT
6085 AA
1 AA
6087 ACAAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.09
16 6 0.19
17 6 0.19
18 12 0.38
19 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAATAATTTAATT
Found at i:6057 original size:15 final size:16
Alignment explanation
Indices: 6000--6059 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
5990 AATTATTGTT
6000 ATTAATTAATAGTAGTTA
1 ATTAATTAATA-TAG-TA
*
6018 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
6034 ATTAA-TAATATA-TA
1 ATTAATTAATATAGTA
6048 ATTAATTAATAT
1 ATTAATTAATAT
6060 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 10 0.27
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:6064 original size:15 final size:15
Alignment explanation
Indices: 6001--6086 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 15
5991 ATTATTGTTA
* *
6001 TTAATTAA-TAGTAG
1 TTAATTAATTAATAT
* *
6015 TTAATTTATTAATTAG
1 TTAATTAATTAA-TAT
*
6031 TAAATTAA-TAATAT
1 TTAATTAATTAATAT
*
6045 ATAATTAATTAATAT
1 TTAATTAATTAATAT
6060 TTAATTTAATATAATAATT
1 TTAA-TTAAT-TAAT-A-T
6079 TTAATTAA
1 TTAATTAA
6087 ACAAAATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
14 15 0.26
15 14 0.25
16 14 0.25
17 4 0.07
18 5 0.09
19 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TTAATTAATTAATAT
Found at i:6099 original size:18 final size:18
Alignment explanation
Indices: 6058--6101 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
6048 ATTAATTAAT
* * *
6058 ATTTAATTTAATATAATA
1 ATTTAATTAAACAAAATA
6076 ATTTTAATTAAACAAAATA
1 A-TTTAATTAAACAAAATA
6095 ATTTAAT
1 ATTTAAT
6102 AATTTGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAATTAAACAAAATA
Found at i:6362 original size:23 final size:22
Alignment explanation
Indices: 6317--6371 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
6307 AAATATTTAA
*
6317 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
6339 TATAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
6362 TATAA-TAATA
1 TATAATTAATA
6372 CAAATTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 12 0.40
23 14 0.47
24 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:6465 original size:27 final size:26
Alignment explanation
Indices: 6415--6477 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
6405 ATTGTATATT
* * *
6415 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
6442 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
6468 TATAATAATT
1 T-TAATAATT
6478 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:6473 original size:16 final size:15
Alignment explanation
Indices: 6452--6486 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
6442 TTAATAATTT
6452 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
6468 TATAATAATTAAATG
1 TATAATAATCAAATG
6483 TATA
1 TATA
6487 TGTGAATAGT
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:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:6667 original size:26 final size:27
Alignment explanation
Indices: 6638--6688 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
6628 AGATATGAAT
6638 TATTATAAATTTAT-TATAA-TAAATAC
1 TATTAT-AATTTATATATAATTAAATAC
6664 TATTATAATTTATATATAATTAAAT
1 TATTATAATTTATATATAATTAAAT
6689 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TATTATAATTTATATATAATTAAATAC
Found at i:6696 original size:26 final size:24
Alignment explanation
Indices: 6635--6697 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
6625 AAAAGATATG
6635 AATTAT-TATAAATTTATTATAATA
1 AATTATATAT-AATTTATTATAATA
6659 AA-TACTATTATAATTTATATATAATTA
1 AATTA-TA-TATAATTTAT-TATAA-TA
6686 AATTATATATAA
1 AATTATATATAA
6698 AAAAGATCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
23 2 0.06
24 3 0.09
25 7 0.21
26 13 0.39
27 6 0.18
28 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTATATATAATTTATTATAATA
Found at i:7105 original size:13 final size:14
Alignment explanation
Indices: 7076--7107 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7066 AATAATTTAA
7076 TAAATTATATAATT
1 TAAATTATATAATT
7090 TAAATTATAT-ATT
1 TAAATTATATAATT
7103 TAAAT
1 TAAAT
7108 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:7213 original size:27 final size:29
Alignment explanation
Indices: 7159--7214 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
7149 AATTAAGAAA
7159 AAATTATATAATAAGAATTTATATTTAAT
1 AAATTATATAATAAGAATTTATATTTAAT
*
7188 AAATTA-ATAATTAA-AA-TTATCTTTAAT
1 AAATTATATAA-TAAGAATTTATATTTAAT
7215 TCTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 9 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATTATATAATAAGAATTTATATTTAAT
Found at i:7374 original size:29 final size:27
Alignment explanation
Indices: 7318--7386 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 27
7308 TATAGATATA
*
7318 ATTAATAATTTTATTATAAATTTATTTG
1 ATTAAT-ATATTATTATAAATTTATTTG
*
7346 TTTAATATATTATTATATAATTATATTTG
1 ATTAATATATTATTATA-AATT-TATTTG
*
7375 ATTAATACATTA
1 ATTAATATATTA
7387 AAAGATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.29
28 9 0.26
29 16 0.46
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTAATATATTATTATAAATTTATTTG
Found at i:8043 original size:16 final size:17
Alignment explanation
Indices: 8022--8054 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8012 TAATGATTTA
8022 AAATAG-ATAATTATTC
1 AAATAGTATAATTATTC
8038 AAATAGTTATAATTATT
1 AAATAG-TATAATTATT
8055 TGACTAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATAGTATAATTATTC
Found at i:9023 original size:35 final size:35
Alignment explanation
Indices: 8980--9066 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 35
8970 ATTATTTTTT
*
8980 TTAAT-ATAATAATA-AATT-ATTATATAG-T-TTA
1 TTAATAATTATAATATAATTAATT-TATAGTTATTA
*
9011 TTAATTATTATAATATAATTAATTTATAGTTATTA
1 TTAATAATTATAATATAATTAATTTATAGTTATTA
*
9046 TTAATAATTATATTATAATTA
1 TTAATAATTATAATATAATTA
9067 GTTTGTAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.10
32 8 0.17
33 9 0.19
34 4 0.08
35 22 0.46
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (35 bp):
TTAATAATTATAATATAATTAATTTATAGTTATTA
Found at i:10497 original size:15 final size:16
Alignment explanation
Indices: 10440--10499 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
10430 AATTATTGTT
10440 ATTAATTAATATTAGTTA
1 ATTAATTAATA-TAG-TA
*
10458 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
10474 ATTAA-TAATATA-TA
1 ATTAATTAATATAGTA
10488 ATTAATTAATAT
1 ATTAATTAATAT
10500 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 10 0.27
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:10525 original size:17 final size:15
Alignment explanation
Indices: 10441--10525 Score: 66
Period size: 14 Copynumber: 5.5 Consensus size: 15
10431 ATTATTGTTA
* *
10441 TTAATTAA-TATTAG
1 TTAATTAATTAATAT
* *
10455 TTAATTTATTAATTAG
1 TTAATTAATTAA-TAT
*
10471 TAAATTAA-TAATAT
1 TTAATTAATTAATAT
*
10485 ATAATTAATTAATAT
1 TTAATTAATTAATAT
10500 TTAATTTAATATAATATT
1 TTAA-TTAAT-TAATA-T
10518 TTAATTAA
1 TTAATTAA
10526 ACAAAATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
14 15 0.26
15 14 0.25
16 14 0.25
17 9 0.16
18 5 0.09
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTAATTAATTAATAT
Found at i:10798 original size:23 final size:22
Alignment explanation
Indices: 10753--10807 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
10743 AAATATTTAA
*
10753 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
10775 TATAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
10798 TATAA-TAATA
1 TATAATTAATA
10808 CAAATTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 12 0.40
23 14 0.47
24 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:10901 original size:27 final size:26
Alignment explanation
Indices: 10851--10913 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
10841 ATTGTATATT
* * *
10851 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
10878 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
10904 TATAATAATT
1 T-TAATAATT
10914 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:10909 original size:16 final size:15
Alignment explanation
Indices: 10888--10922 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
10878 TTAATAATTT
10888 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
10904 TATAATAATTAAATG
1 TATAATAATCAAATG
10919 TATA
1 TATA
10923 TGTGAATAGT
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:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:11100 original size:26 final size:27
Alignment explanation
Indices: 11071--11121 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
11061 AGATATGAAT
11071 TATTATAAATTTAT-TATAA-TAAATAC
1 TATTAT-AATTTATATATAATTAAATAC
11097 TATTATAATTTATATATAATTAAAT
1 TATTATAATTTATATATAATTAAAT
11122 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TATTATAATTTATATATAATTAAATAC
Found at i:11129 original size:26 final size:24
Alignment explanation
Indices: 11068--11130 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
11058 AAAAGATATG
11068 AATTAT-TATAAATTTATTATAATA
1 AATTATATAT-AATTTATTATAATA
11092 AA-TACTATTATAATTTATATATAATTA
1 AATTA-TA-TATAATTTAT-TATAA-TA
11119 AATTATATATAA
1 AATTATATATAA
11131 AAAAAGATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
23 2 0.06
24 3 0.09
25 7 0.21
26 13 0.39
27 6 0.18
28 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTATATATAATTTATTATAATA
Found at i:11538 original size:13 final size:14
Alignment explanation
Indices: 11509--11540 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
11499 AATAATTTAA
11509 TAAATTATATAATT
1 TAAATTATATAATT
11523 TAAATTATAT-ATT
1 TAAATTATATAATT
11536 TAAAT
1 TAAAT
11541 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:11646 original size:27 final size:29
Alignment explanation
Indices: 11592--11647 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
11582 AATTAAGAAA
11592 AAATTATATAATAAGAATTTATATTTAAT
1 AAATTATATAATAAGAATTTATATTTAAT
*
11621 AAATTA-ATAATTAA-AA-TTATCTTTAAT
1 AAATTATATAA-TAAGAATTTATATTTAAT
11648 TCTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 9 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATTATATAATAAGAATTTATATTTAAT
Found at i:11806 original size:29 final size:27
Alignment explanation
Indices: 11750--11818 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 27
11740 TATAGATATA
*
11750 ATTAATAATTTTATTATAAATTTATTTG
1 ATTAAT-ATATTATTATAAATTTATTTG
*
11778 TTTAATATATTATTATATAATTATATTTG
1 ATTAATATATTATTATA-AATT-TATTTG
*
11807 ATTAATACATTA
1 ATTAATATATTA
11819 AAAGATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.29
28 9 0.26
29 16 0.46
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTAATATATTATTATAAATTTATTTG
Found at i:13467 original size:35 final size:34
Alignment explanation
Indices: 13427--13495 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
13417 ATAATAAATT
*
13427 ATTATATAGTTTATTAATTATTATAGTATAATTA
1 ATTATATAGTTTATTAATTATTATAGTATAACTA
* *
13461 ATT-TATAGTTATTATTAATAATTATATTATAACTA
1 ATTATATAG-T-TTATTAATTATTATAGTATAACTA
13496 GTTGTATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 5 0.17
34 4 0.13
35 21 0.70
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (34 bp):
ATTATATAGTTTATTAATTATTATAGTATAACTA
Found at i:14919 original size:18 final size:16
Alignment explanation
Indices: 14896--14949 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
14886 TTAATTAGTA
14896 AATTAATAATATATAATT
1 AATTAATAAT-T-TAATT
14914 AATTAAT-ATTTAATTT
1 AATTAATAATTTAA-TT
14930 AATATAATAATTTTAATT
1 AAT-TAATAA-TTTAATT
14948 AA
1 AA
14950 ACAAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.09
16 6 0.19
17 6 0.19
18 12 0.38
19 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAATAATTTAATT
Found at i:14920 original size:15 final size:16
Alignment explanation
Indices: 14863--14922 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
14853 AATTATTGTT
14863 ATTAATTAATATTAGTTA
1 ATTAATTAATA-TAG-TA
*
14881 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
14897 ATTAA-TAATATA-TA
1 ATTAATTAATATAGTA
14911 ATTAATTAATAT
1 ATTAATTAATAT
14923 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 10 0.27
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:14927 original size:15 final size:15
Alignment explanation
Indices: 14864--14949 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 15
14854 ATTATTGTTA
* *
14864 TTAATTAA-TATTAG
1 TTAATTAATTAATAT
* *
14878 TTAATTTATTAATTAG
1 TTAATTAATTAA-TAT
*
14894 TAAATTAA-TAATAT
1 TTAATTAATTAATAT
*
14908 ATAATTAATTAATAT
1 TTAATTAATTAATAT
14923 TTAATTTAATATAATAATT
1 TTAA-TTAAT-TAAT-A-T
14942 TTAATTAA
1 TTAATTAA
14950 ACAAAATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
14 15 0.26
15 14 0.25
16 14 0.25
17 4 0.07
18 5 0.09
19 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTAATTAATTAATAT
Found at i:14962 original size:18 final size:18
Alignment explanation
Indices: 14921--14964 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
14911 ATTAATTAAT
* * *
14921 ATTTAATTTAATATAATA
1 ATTTAATTAAACAAAATA
14939 ATTTTAATTAAACAAAATA
1 A-TTTAATTAAACAAAATA
14958 ATTTAAT
1 ATTTAAT
14965 AATTTGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAATTAAACAAAATA
Found at i:15225 original size:23 final size:22
Alignment explanation
Indices: 15180--15234 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
15170 AAATATTTAA
*
15180 TATAATTAATAAATTATTTATT
1 TATAATTAATAAATTATTAATT
15202 TATAATTAAGTATAA-TATTAATT
1 TATAATTAA-TA-AATTATTAATT
15225 TATAA-TAATA
1 TATAATTAATA
15235 CAAATTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 12 0.40
23 14 0.47
24 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATAATTAATAAATTATTAATT
Found at i:15328 original size:27 final size:26
Alignment explanation
Indices: 15278--15340 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
15268 ATTGTATATT
* * *
15278 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATAACAATCAAA-TAG
*
15305 TTAATAATTTTATAATAATCAAATAG
1 TTAATAATTTTATAACAATCAAATAG
15331 TATAATAATT
1 T-TAATAATT
15341 AAATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAATAATTTTATAACAATCAAATAG
Found at i:15336 original size:16 final size:15
Alignment explanation
Indices: 15315--15349 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
15305 TTAATAATTT
15315 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
15331 TATAATAATTAAATG
1 TATAATAATCAAATG
15346 TATA
1 TATA
15350 TGTGAATAGT
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:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:15529 original size:26 final size:27
Alignment explanation
Indices: 15500--15550 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
15490 AGATATGAAT
15500 TATTATAAATTTAT-TATAA-TAAATAC
1 TATTAT-AATTTATATATAATTAAATAC
15526 TATTATAATTTATATATAATTAAAT
1 TATTATAATTTATATATAATTAAAT
15551 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TATTATAATTTATATATAATTAAATAC
Found at i:15558 original size:26 final size:24
Alignment explanation
Indices: 15497--15559 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
15487 AAAAGATATG
15497 AATTAT-TATAAATTTATTATAATA
1 AATTATATAT-AATTTATTATAATA
15521 AA-TACTATTATAATTTATATATAATTA
1 AATTA-TA-TATAATTTAT-TATAA-TA
15548 AATTATATATAA
1 AATTATATATAA
15560 AAAAAGATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
23 2 0.06
24 3 0.09
25 7 0.21
26 13 0.39
27 6 0.18
28 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTATATATAATTTATTATAATA
Found at i:15968 original size:13 final size:14
Alignment explanation
Indices: 15939--15970 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15929 AATAATTTAA
15939 TAAATTATATAATT
1 TAAATTATATAATT
15953 TAAATTATAT-ATT
1 TAAATTATATAATT
15966 TAAAT
1 TAAAT
15971 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:16076 original size:27 final size:29
Alignment explanation
Indices: 16022--16077 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
16012 AATTAAGAAA
16022 AAATTATATAATAAGAATTTATATTTAAT
1 AAATTATATAATAAGAATTTATATTTAAT
*
16051 AAATTA-ATAATTAA-AA-TTATCTTTAAT
1 AAATTATATAA-TAAGAATTTATATTTAAT
16078 TCTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 9 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AAATTATATAATAAGAATTTATATTTAAT
Found at i:16237 original size:29 final size:27
Alignment explanation
Indices: 16181--16249 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 27
16171 TATAGATATA
*
16181 ATTAATAATTTTATTATAAATTTATTTG
1 ATTAAT-ATATTATTATAAATTTATTTG
*
16209 TTTAATATATTATTATATAATTATATTTG
1 ATTAATATATTATTATA-AATT-TATTTG
*
16238 ATTAATACATTA
1 ATTAATATATTA
16250 AAAGATTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.29
28 9 0.26
29 16 0.46
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTAATATATTATTATAAATTTATTTG
Found at i:16905 original size:16 final size:17
Alignment explanation
Indices: 16884--16916 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16874 TAATGATTTA
16884 AAATAG-ATAATTATTC
1 AAATAGTATAATTATTC
16900 AAATAGTTATAATTATT
1 AAATAG-TATAATTATT
16917 TGACTAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATAGTATAATTATTC
Found at i:17300 original size:21 final size:21
Alignment explanation
Indices: 17276--17367 Score: 55
Period size: 21 Copynumber: 4.3 Consensus size: 21
17266 TACTGAATAA
17276 AATTAATATAATAATAATTAT
1 AATTAATATAATAATAATTAT
** * *
17297 AATTGTTTTCATAAATTAATTA-
1 AATTAATATAAT-AA-TAATTAT
17319 AATTAAT-TAATTAATATATTAT
1 AATTAATATAA-TAATA-ATTAT
* * *
17341 AAATATTAT-ATTATAAATTAT
1 AATTAATATAATAAT-AATTAT
17362 AATTAA
1 AATTAA
17368 CAATATGTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
20 2 0.04
21 28 0.54
22 15 0.29
23 7 0.13
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (21 bp):
AATTAATATAATAATAATTAT
Found at i:17897 original size:18 final size:18
Alignment explanation
Indices: 17874--17930 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
17864 TATATAGTTT
*
17874 ATTAATTATTATAATATA
1 ATTAATTATTATATTATA
*
17892 ATTAA-T-TTATAGTTATT
1 ATTAATTATTATA-TTATA
*
17909 ATTAATAATTATATTATA
1 ATTAATTATTATATTATA
17927 ATTA
1 ATTA
17931 GTTGCAGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 5 0.16
17 9 0.28
18 13 0.41
19 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTAATTATTATATTATA
Found at i:17902 original size:35 final size:35
Alignment explanation
Indices: 17855--17930 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
17845 TAATATACTA
* *
17855 ATAAATAATTATATAG-T-TTATTAATTATTATAAT
1 ATAATTAATT-TATAGTTATTATTAATAATTATAAT
*
17889 ATAATTAATTTATAGTTATTATTAATAATTATATT
1 ATAATTAATTTATAGTTATTATTAATAATTATAAT
17924 ATAATTA
1 ATAATTA
17931 GTTGCAGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 5 0.14
34 10 0.27
35 22 0.59
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (35 bp):
ATAATTAATTTATAGTTATTATTAATAATTATAAT
Found at i:18754 original size:35 final size:33
Alignment explanation
Indices: 18709--18792 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 33
18699 TTACAACTAG
*
18709 TTATAATATAATTATTAATAATAACTATA-AATTAA
1 TTATATTATAATTATTAAT-A-AACTATATAA-TAA
*
18744 TTATATTATAATAATTAATAAACTATATAATAA
1 TTATATTATAATTATTAATAAACTATATAATAA
*
18777 TT-TATTATTA-TATTAA
1 TTATATTATAATTATTAA
18793 AAAATAATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
31 5 0.11
32 7 0.16
33 12 0.27
34 3 0.07
35 17 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (33 bp):
TTATATTATAATTATTAATAAACTATATAATAA
Found at i:18799 original size:35 final size:33
Alignment explanation
Indices: 18731--18804 Score: 78
Period size: 35 Copynumber: 2.2 Consensus size: 33
18721 TATTAATAAT
**
18731 AACTATAAATTAATTATATTATAATAATTAATA
1 AACTATAAATTAATTATATTATAATAAAAAATA
*
18764 AACTATATAA-TAATTTATTATTATATTAAAAAATA
1 AACTATA-AATTAA-TTA-TATTATAATAAAAAATA
*
18799 ATCTAT
1 AACTAT
18805 TTCAAATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
33 10 0.29
34 5 0.15
35 19 0.56
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (33 bp):
AACTATAAATTAATTATATTATAATAAAAAATA
Found at i:19745 original size:16 final size:17
Alignment explanation
Indices: 19713--19755 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
19703 TCTTTAGTCA
19713 AATAATTATAACTATTTG
1 AATAATTAT-ACTATTTG
*
19731 AATAATTAT-CTATTTT
1 AATAATTATACTATTTG
*
19747 AATCATTAT
1 AATAATTAT
19756 TACTTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
18 9 0.39
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:20752 original size:17 final size:17
Alignment explanation
Indices: 20730--20765 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20720 TAATTATAAT
* *
20730 ATAATTATTTAATGTTA
1 ATAATTATATAATATTA
20747 ATAATTATATAATATTA
1 ATAATTATATAATATTA
20764 AT
1 AT
20766 TATAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATAATTATATAATATTA
Found at i:20772 original size:20 final size:20
Alignment explanation
Indices: 20747--20807 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
20737 TTTAATGTTA
20747 ATAATTATATAATATTAATT
1 ATAATTATATAATATTAATT
*
20767 ATAATTTTATAATAATT-ATT
1 ATAATTATATAAT-ATTAATT
*
20787 ACTATATTAAATAATA-TAATT
1 A-TA-ATTATATAATATTAATT
20808 TTCCTCAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 17 0.50
21 9 0.26
22 8 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATTATATAATATTAATT
Found at i:20778 original size:28 final size:29
Alignment explanation
Indices: 20724--20785 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 29
20714 ATAACTTAAT
20724 TATAATATAATTATTTAATGTTAATAATTA
1 TATAATATAATTA-TTAATGTTAATAATTA
*
20754 TATAATATTAATTA-TAATTTTATAATAATTA
1 TATAATA-TAATTATTAA-TGT-TAATAATTA
20785 T
1 T
20786 TACTATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 3 0.11
30 9 0.32
31 16 0.57
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TATAATATAATTATTAATGTTAATAATTA
Found at i:21078 original size:15 final size:16
Alignment explanation
Indices: 21058--21124 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
21048 TGTCCAATTA
21058 AATTATATAATA-AAT
1 AATTATATAATATAAT
21073 AATTAT-T-ATATAAT
1 AATTATATAATATAAT
*
21087 ATATTATATACA-ATTAT
1 A-ATTATATA-ATATAAT
* *
21104 AATTACATATTATAAT
1 AATTATATAATATAAT
21120 AATTA
1 AATTA
21125 ATATGATTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 5 0.12
15 11 0.26
16 17 0.40
17 5 0.12
18 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATATAATATAAT
Found at i:21151 original size:14 final size:15
Alignment explanation
Indices: 21110--21175 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
21100 TTATAATTAC
21110 ATATTA-TAATAATTA
1 ATATTATTAATAA-TA
* *
21125 ATATGATTCATAA-A
1 ATATTATTAATAATA
21139 ATATTATTAATAAT-
1 ATATTATTAATAATA
21153 AT-TTAATT-ATAATA
1 ATATT-ATTAATAATA
21167 AT-TTATTAA
1 ATATTATTAA
21176 ATTATTACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 10 0.24
14 22 0.52
15 5 0.12
16 5 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
ATATTATTAATAATA
Found at i:21230 original size:18 final size:19
Alignment explanation
Indices: 21209--21244 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21199 TTATATTATA
21209 TATAAATAGTAA-TAATAT
1 TATAAATAGTAACTAATAT
*
21227 TATAAATATTAACTAATA
1 TATAAATAGTAACTAATA
21245 AATGACTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
TATAAATAGTAACTAATAT
Found at i:21784 original size:35 final size:37
Alignment explanation
Indices: 21740--21815 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
21730 AATTTATTAT
*
21740 TAATCAAATT-ATAAT-TATATTATA-TATAATATAAA
1 TAATCAAATTAATAATATATATTAAATTAT-ATATAAA
* *
21775 TAATTAAATTAATAATATTTATTAAATTATATATAAA
1 TAATCAAATTAATAATATATATTAAATTATATATAAA
21812 TAAT
1 TAAT
21816 ATCTTTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 9 0.26
36 5 0.14
37 18 0.51
38 3 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (37 bp):
TAATCAAATTAATAATATATATTAAATTATATATAAA
Found at i:21988 original size:14 final size:14
Alignment explanation
Indices: 21962--21994 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21952 ATAATTGTTT
*
21962 ATTA-TATTTAATA
1 ATTATTATTAAATA
21975 ATTATTATTAAATA
1 ATTATTATTAAATA
21989 ATTATT
1 ATTATT
21995 TTTATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATTATTAAATA
Found at i:22190 original size:13 final size:13
Alignment explanation
Indices: 22172--22196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22162 TAATTTATTT
22172 AATAATTAGATTA
1 AATAATTAGATTA
22185 AATAATTAGATT
1 AATAATTAGATT
22197 TATTTGTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
AATAATTAGATTA
Found at i:22298 original size:17 final size:17
Alignment explanation
Indices: 22276--22328 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
22266 ATATTTGTAT
22276 TATATTTTAATTAATTA
1 TATATTTTAATTAATTA
*
22293 TATATTATAATTAAATTA
1 TATATTTTAATT-AATTA
* * *
22311 GAT-TATTATTTAATTA
1 TATATTTTAATTAATTA
22327 TA
1 TA
22329 AAAATTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTTTAATTAATTA
Found at i:22299 original size:22 final size:22
Alignment explanation
Indices: 22273--22326 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
22263 TAAATATTTG
* *
22273 TATTATATTTTAATTA-ATTAT
1 TATTATAATTAAATTAGATTAT
22294 ATATTATAATTAAATTAGATTAT
1 -TATTATAATTAAATTAGATTAT
22317 TATT-TAATTA
1 TATTATAATTA
22327 TAAAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 6 0.21
22 18 0.62
23 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATAATTAAATTAGATTAT
Found at i:22335 original size:17 final size:17
Alignment explanation
Indices: 22315--22347 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22305 AAATTAGATT
22315 ATTATTTAATTATAAAA
1 ATTATTTAATTATAAAA
*
22332 ATTATTTAATTTTAAA
1 ATTATTTAATTATAAA
22348 TTAATAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATTTAATTATAAAA
Found at i:22386 original size:27 final size:27
Alignment explanation
Indices: 22320--22417 Score: 74
Period size: 29 Copynumber: 3.3 Consensus size: 27
22310 AGATTATTAT
*
22320 TTAATTATAAAAATTATTTAATTTTAAA
1 TTAA-TATAAAAATTAATTAATTTTAAA
22348 TTAATAAGTAAAAATTTTAATTAATTTT-AA
1 TTAAT-A-TAAAAA--TTAATTAATTTTAAA
22378 TT-ATATAAATAAATTAGATTTAATATTTAAAA
1 TTAATAT-AA-AAATTA-A-TTAAT-TTT-AAA
22410 TTAATATA
1 TTAATATA
22418 TATTATAGTA
Statistics
Matches: 57, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
27 5 0.09
28 9 0.16
29 16 0.28
30 7 0.12
31 11 0.19
32 5 0.09
33 4 0.07
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TTAATATAAAAATTAATTAATTTTAAA
Found at i:22853 original size:27 final size:28
Alignment explanation
Indices: 22801--22856 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
22791 TAAGAATAAT
22801 AATTTTAATAAAAATATTATAATTATTAA
1 AATTTTAATAAAAATATTAT-ATTATTAA
*
22830 AATTTTCAATAATAAT-TTAT-TTATTAA
1 AATTTT-AATAAAAATATTATATTATTAA
22857 TTTAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 7 0.28
29 10 0.40
30 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
AATTTTAATAAAAATATTATATTATTAA
Found at i:23122 original size:92 final size:92
Alignment explanation
Indices: 22958--23127 Score: 214
Period size: 92 Copynumber: 1.8 Consensus size: 92
22948 TGAACAGAGC
** *** * * * *
22958 CAATTGTTTTATGACAAAACAAAATGTCATAATGTTTTGAAATAGATAATTGTTTAGATAGTCAT
1 CAATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATAGACAT
*
23023 AATTATTTCAACTTGATCGATAAGAAA
66 AACTATTTCAACTTGATCGATAAGAAA
* *
23050 CAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATGGACAT
1 CAATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATAGACAT
* *
23115 GACTATTTGAACT
66 AACTATTTCAACT
23128 GGTTTGGTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
92 64 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (92 bp):
CAATTGTTTTACAACAAAACAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATAGACAT
AACTATTTCAACTTGATCGATAAGAAA
Found at i:23447 original size:145 final size:145
Alignment explanation
Indices: 23292--23587 Score: 321
Period size: 145 Copynumber: 2.0 Consensus size: 145
23282 GTTCAAACAA
* * * *
23292 TCATAACTATTTAAAAT-CACTCGGTAAATAAATTTATTTT-TTAAATCTTTTACTTATTAA-TT
1 TCATAACTATTT-AAATGCACTCAGAAAATAAATTTATTTTCTAAAAT-TATT-CTTATTAATTT
* * **
23354 TTGGAATATTAATTAATTAAAATTATTTTATTCCAAATAAGCTTGTTTGAA-GAGAAACAATTGG
63 TTGGAATATTAATAAATTAAAATTATTTTATTCAAAATAAGCTTGCATGAACG-GAAACAATTGG
*
23418 TTTATAATAAAACAAAAAG
127 TTTATAACAAAACAAAAAG
* *** **
23437 TCATAACTATTTGAATGTGTTCAGAAAATAGCTTTATTTTCTAAAATTATTCTTATTAATTTTTG
1 TCATAACTATTTAAATGCACTCAGAAAATAAATTTATTTTCTAAAATTATTCTTATTAATTTTTG
* * * * *
23502 GAATATTAATAAATTTATATTATTTTATTCAAAATATGCTTGCATGAACGGAACCAATTGTTTTA
66 GAATATTAATAAATTAAAATTATTTTATTCAAAATAAGCTTGCATGAACGGAAACAATTGGTTTA
** *
23567 TGGCAAAACAAAATG
131 TAACAAAACAAAAAG
23582 TCATAA
1 TCATAA
23588 TGTTTTGAAA
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
144 11 0.09
145 107 0.86
146 6 0.05
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (145 bp):
TCATAACTATTTAAATGCACTCAGAAAATAAATTTATTTTCTAAAATTATTCTTATTAATTTTTG
GAATATTAATAAATTAAAATTATTTTATTCAAAATAAGCTTGCATGAACGGAAACAATTGGTTTA
TAACAAAACAAAAAG
Found at i:23451 original size:180 final size:181
Alignment explanation
Indices: 23045--23451 Score: 464
Period size: 181 Copynumber: 2.3 Consensus size: 181
23035 TTGATCGATA
* * * * *
23045 AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
1 AGAAACAATTGTTTTATAACAAAACAAAAAGTCATAACAATTTGAAATAAATAATAGTTCAAATC
* * * * *** *
23110 GACATGACTATTTGAACTGGTTTGGTAAACTAATTAATTTTTTAAATCTTCAACTTATTAATTTT
66 AACATAACTATTTAAAATCACTCGGTAAACTAATTAATTTTTTAAATCTTCAACTTATTAATTTT
* ** *
23175 TAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTATGAAT
131 TAGAATATTAATATATTAAAATTATTTTATTCCAAATAAACTTGTATGAAG
* * * * *
23226 CGAAACAATTATTTTATAACAAAAC-AAAAGATTATAACGATTTGAAATAAATAATTGTTCAAA-
1 AGAAACAATTGTTTTATAACAAAACAAAAAG-TCATAACAATTTGAAATAAATAATAGTTCAAAT
* **
23289 CAATCATAACTATTTAAAATCACTCGGTAAA-TAAATTTATTTTTTAAATCTTTTACTTATTAA-
65 CAA-CATAACTATTTAAAATCACTCGGTAAACT-AATTAATTTTTTAAATCTTCAACTTATTAAT
* * *
23352 TTTTGGAATATTAAT-TAATTAAAATTATTTTATTCCAAATAAGCTTGTTTGAAG
128 TTTTAGAATATTAATAT-ATTAAAATTATTTTATTCCAAATAAACTTGTATGAAG
* * *
23406 AGAAACAATTGGTTTATAATAAAACAAAAAGTCATAACTATTTGAA
1 AGAAACAATTGTTTTATAACAAAACAAAAAGTCATAACAATTTGAA
23452 TGTGTTCAGA
Statistics
Matches: 187, Mismatches: 34, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
179 1 0.01
180 85 0.45
181 101 0.54
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (181 bp):
AGAAACAATTGTTTTATAACAAAACAAAAAGTCATAACAATTTGAAATAAATAATAGTTCAAATC
AACATAACTATTTAAAATCACTCGGTAAACTAATTAATTTTTTAAATCTTCAACTTATTAATTTT
TAGAATATTAATATATTAAAATTATTTTATTCCAAATAAACTTGTATGAAG
Found at i:24986 original size:36 final size:34
Alignment explanation
Indices: 24945--25013 Score: 102
Period size: 36 Copynumber: 2.0 Consensus size: 34
24935 AATTGTTATT
24945 ATTAAGATAATAATAATAATGTTATAATTAATAATA
1 ATTAAGATAATAAT-ATAAT-TTATAATTAATAATA
* *
24981 ATTAAGATAATAATATAGTTTATCATTAATAAT
1 ATTAAGATAATAATATAATTTATAATTAATAAT
25014 TAATATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 13 0.42
35 4 0.13
36 14 0.45
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (34 bp):
ATTAAGATAATAATATAATTTATAATTAATAATA
Found at i:25513 original size:25 final size:24
Alignment explanation
Indices: 25460--25522 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
25450 TAATAAATCT
*
25460 ATTTATATATTTAATAAATATAATT
1 ATTTATA-ATTTAATAAATATAATA
*
25485 ATTTATAATTATAACTAATTAT-ATA
1 ATTTATAATT-TAA-TAAATATAATA
25510 ATTTATTAATTTA
1 ATTTA-TAATTTA
25523 TATTATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 3 0.09
25 19 0.58
26 11 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTATAATTTAATAAATATAATA
Found at i:25571 original size:20 final size:19
Alignment explanation
Indices: 25471--25587 Score: 64
Period size: 20 Copynumber: 6.1 Consensus size: 19
25461 TTTATATATT
* *
25471 TAATAAATATAATTATTTA
1 TAATAATTATAATTATTAA
* *
25490 TAATTATAACTAATTATATAA
1 TAATAATTA-TAATTAT-TAA
* *
25511 TTTATTAATT-TATATTATAAA
1 --TAATAATTATA-ATTATTAA
*
25532 T-ATAAGTATAA-TA-T-A
1 TAATAATTATAATTATTAA
*
25547 TAATATTTATAATTATTTAA
1 TAATAATTATAATTA-TTAA
*
25567 TAATAATTATTATTATTAA
1 TAATAATTATAATTATTAA
25586 TA
1 TA
25588 TAACTAATAG
Statistics
Matches: 72, Mismatches: 15, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
15 2 0.03
16 8 0.11
17 4 0.06
18 5 0.07
19 16 0.22
20 21 0.29
21 6 0.08
22 5 0.07
23 5 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
TAATAATTATAATTATTAA
Found at i:25983 original size:17 final size:17
Alignment explanation
Indices: 25963--26012 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
25953 AATCATATTA
25963 ATTATAATATTATAAGT
1 ATTATAATATTATAAGT
*
25980 ATTATAATATTTTATAATT
1 ATTATAATA--TTATAAGT
*
25999 AAT-TAATATTATAA
1 ATTATAATATTATAA
26013 AATTAATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 9 0.31
18 5 0.17
19 9 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTATAATATTATAAGT
Found at i:26007 original size:18 final size:18
Alignment explanation
Indices: 25967--26019 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
25957 ATATTAATTA
*
25967 TAATATTATAAGTATT-A-
1 TAATATTATAA-AATTAAT
* *
25984 TAATATTTTATAATTAAT
1 TAATATTATAAAATTAAT
26002 TAATATTATAAAATTAAT
1 TAATATTATAAAATTAAT
26020 GACAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 16 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TAATATTATAAAATTAAT
Found at i:26155 original size:35 final size:35
Alignment explanation
Indices: 26116--26183 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
26106 TAGTAAAATA
*
26116 ATATTATATTAGTCAAA-AATA-TAAATATATATTAT
1 ATATTAT-TT-GTAAAATAATATTAAATATATATTAT
*
26151 ATATTATTTGTAAAATAATATTAAATATTTATT
1 ATATTATTTGTAAAATAATATTAAATATATATT
26184 GTTTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 6 0.21
35 18 0.62
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (35 bp):
ATATTATTTGTAAAATAATATTAAATATATATTAT
Found at i:26401 original size:20 final size:22
Alignment explanation
Indices: 26352--26396 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
26342 AATCTTTTAC
26352 TTAATATATGAATATAAAATAT
1 TTAATATATGAATATAAAATAT
*
26374 TTAATATATGAATA-ACAATAT
1 TTAATATATGAATATAAAATAT
26395 TT
1 TT
26397 TTATAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (22 bp):
TTAATATATGAATATAAAATAT
Found at i:27304 original size:23 final size:23
Alignment explanation
Indices: 27278--27325 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27268 TTATAACTAA
*
27278 TATAATAACAATTATA-TAATCTT
1 TATAATAA-AATTATATTAATATT
*
27301 TATAATAATATTATATTAATATT
1 TATAATAAAATTATATTAATATT
27324 TA
1 TA
27326 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
TATAATAAAATTATATTAATATT
Found at i:28836 original size:10 final size:10
Alignment explanation
Indices: 28821--28851 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
28811 GTATTTTTAT
28821 AATATTAATA
1 AATATTAATA
*
28831 AATATTAATT
1 AATATTAATA
28841 AATATTAATA
1 AATATTAATA
28851 A
1 A
28852 TAGATTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATTAATA
Found at i:28960 original size:44 final size:43
Alignment explanation
Indices: 28909--28991 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 43
28899 AATTGTATAT
*
28909 TAATTAATACAAATATTTATTAATGATAATAAATTAATTATTAG
1 TAATTAATACAAATATTCATTAATGA-AATAAATTAATTATTAG
*** * *
28953 TAATTAATGTTAATATTCATTAATTAAATTAATTAATTA
1 TAATTAATACAAATATTCATTAATGAAATAAATTAATTA
28992 GCATTTACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 12 0.36
44 21 0.64
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (43 bp):
TAATTAATACAAATATTCATTAATGAAATAAATTAATTATTAG
Found at i:29371 original size:14 final size:15
Alignment explanation
Indices: 29354--29383 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
29344 CATTATTAAA
29354 TAATATTTC-ATTAT
1 TAATATTTCTATTAT
29368 TAATATTTCTATTAT
1 TAATATTTCTATTAT
29383 T
1 T
29384 GGGCATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATATTTCTATTAT
Found at i:29497 original size:13 final size:13
Alignment explanation
Indices: 29463--29498 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
29453 TTAAATTAAA
*
29463 AATAATTAAAATT
1 AATATTTAAAATT
29476 AATTATTTAAAATT
1 AA-TATTTAAAATT
29490 AATATTTAA
1 AATATTTAA
29499 TAATATTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATTTAAAATT
Found at i:29537 original size:23 final size:22
Alignment explanation
Indices: 29496--29541 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
29486 AATTAATATT
*
29496 TAATAATATTGATTATATTTAAA
1 TAATAATATTGAATATA-TTAAA
29519 TAATAATTATTGAAT-TATTAAA
1 TAATAA-TATTGAATATATTAAA
29541 T
1 T
29542 TAAATCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 8 0.38
24 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
TAATAATATTGAATATATTAAA
Found at i:29876 original size:26 final size:27
Alignment explanation
Indices: 29829--29884 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
29819 TTAATTAAAA
*
29829 TATAAATATTTTAATTAAATTATT-AT
1 TATAAATATTATAATTAAATTATTAAT
*
29855 TATAAATACTTATAATT-TATTATTAAT
1 TATAAATA-TTATAATTAAATTATTAAT
29882 TAT
1 TAT
29885 CTGAATATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TATAAATATTATAATTAAATTATTAAT
Found at i:29900 original size:27 final size:28
Alignment explanation
Indices: 29870--29937 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
29860 ATACTTATAA
29870 TTTATTATTAATTATCTGAA-TATTGAT
1 TTTATTATTAATTATCTGAATTATTGAT
* * * *
29897 TTTAAT-TTAAATATTTTAATTATTGAT
1 TTTATTATTAATTATCTGAATTATTGAT
29924 TTTAATTAATTAAT
1 TTT-ATT-ATTAAT
29938 AGATATTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 10 0.32
27 15 0.48
28 2 0.06
30 4 0.13
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (28 bp):
TTTATTATTAATTATCTGAATTATTGAT
Found at i:29906 original size:26 final size:26
Alignment explanation
Indices: 29876--29935 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
29866 ATAATTTATT
29876 ATTAATTATCTGAA-TATTGATTTTA
1 ATTAATTATCTGAATTATTGATTTTA
* * *
29901 ATTTAAATATTTTAATTATTGATTTTA
1 A-TTAATTATCTGAATTATTGATTTTA
29928 ATTAATTA
1 ATTAATTA
29936 ATAGATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.03
26 16 0.55
27 12 0.41
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (26 bp):
ATTAATTATCTGAATTATTGATTTTA
Found at i:29927 original size:13 final size:13
Alignment explanation
Indices: 29890--29931 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
29880 ATTATCTGAA
29890 TATTGATTTTAATT
1 TATTGATTTTAA-T
*
29904 TAAAT-ATTTTAAT
1 T-ATTGATTTTAAT
29917 TATTGATTTTAAT
1 TATTGATTTTAAT
29930 TA
1 TA
29932 ATTAATAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 2 0.08
13 12 0.50
14 8 0.33
15 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (13 bp):
TATTGATTTTAAT
Found at i:30605 original size:16 final size:17
Alignment explanation
Indices: 30584--30616 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30574 TATTGATTTC
30584 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
30600 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
30617 TGAACTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:31963 original size:16 final size:17
Alignment explanation
Indices: 31942--31974 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31932 TAGCGATTAG
31942 AAATAG-ATAATTATTC
1 AAATAGTATAATTATTC
31958 AAATAGTTATAATTATT
1 AAATAG-TATAATTATT
31975 TGTACTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATAGTATAATTATTC
Found at i:32507 original size:19 final size:19
Alignment explanation
Indices: 32485--32521 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
32475 AATAGTCATA
32485 TATTT-AATTAATATTTAAT
1 TATTTAAATTAA-ATTTAAT
32504 TATTTAAATTAAATTTAA
1 TATTTAAATTAAATTTAA
32522 AAAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTAAATTAAATTTAAT
Found at i:34471 original size:181 final size:177
Alignment explanation
Indices: 33993--34590 Score: 571
Period size: 181 Copynumber: 3.3 Consensus size: 177
33983 CATGGTTGGC
* * * * *
33993 AAACAGATTCATTTTTTAATTCTCTTACTCATTAATTTTCATAATATTAAT-AA-TTAGTATTAT
1 AAACAAATTCATTTTTTAAATCTCTTACTTATTAATTGTCAAAATATTAATAAATTTA-TATTAT
* * * * * * * * *
34056 TTTATTTCAAATAAGCTTATTTGAACTGAAACAATTGTTTTATTACAAAACAAAAAGGGCATAAT
65 TTTATTTGAAATAAGCTTGTATGAAC-AAAAAAATTATTTTATGACAAAACAAAAA-GTCATAAC
** ** * *
34121 GATTTGAAATAGTTAATTATTCAAATTGTCATGGCTATTTCAACTTGTTCGGT
128 GATTTGAAATAAATAATTATTCAAA-TGTCATAAC-ATTTAAACTT-TTCGAT
* * *
34174 AAACATATTTATTTTTTAAATCT-TCTACTTATTAATTGTCAAAA-ATTAATAAATTAATATTAC
1 AAACAAATTCATTTTTTAAATCTCT-TACTTATTAATTGTCAAAATATTAATAAATTTATATTA-
* * * * *
34237 TTTAATTTG-AATAACCTTGTATGAACAGAAATAACTATTTTATGCCAAAACAAAAAGTCATAAC
64 TTTTATTTGAAATAAGCTTGTATGAACA-AAAAAATTATTTTATGACAAAACAAAAAGTCATAAC
* *
34301 AATTTGAAATAAATAATTATTCAAATAGTCATAACAGTTTGAACTTATTCGAT
128 GATTTGAAATAAATAATTATTCAAAT-GTCATAACA-TTTAAACTT-TTCGAT
* * **
34354 AAACAAATTTATTTTTTAAATCTTTTACTTATTAATTGTCTTAATATTAATAAATTTATATTATT
1 AAACAAATTCATTTTTTAAATCTCTTACTTATTAATTGTCAAAATATTAATAAATTTATATTATT
* * * *
34419 TTATTTGAAAGAAGCTTGTATGAA-AAAAAAATTTTATTTTATGATAAAACAAAAGGTTAT-ACT
66 TTATTTGAAATAAGCTTGTATGAACAAAAAAA--TTATTTTATGACAAAACAAAAAGTCATAAC-
* * * * *
34482 GATTTCAAAAAAATAATTGTTCAAATGTCATAATTATTTAAACTTTTCTAGT
128 GATTTGAAATAAATAATTATTCAAATGTCATAA-CATTTAAACTTTTCGA-T
* * *
34534 AAACAAATTCATTTTTTTAAATCTCTTAATTATTAATTTTCAAAATATTGATAAATT
1 AAACAAATTCA-TTTTTTAAATCTCTTACTTATTAATTGTCAAAATATTAATAAATT
34591 GGTATTAAAA
Statistics
Matches: 346, Mismatches: 55, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
179 11 0.03
180 130 0.38
181 196 0.57
182 9 0.03
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (177 bp):
AAACAAATTCATTTTTTAAATCTCTTACTTATTAATTGTCAAAATATTAATAAATTTATATTATT
TTATTTGAAATAAGCTTGTATGAACAAAAAAATTATTTTATGACAAAACAAAAAGTCATAACGAT
TTGAAATAAATAATTATTCAAATGTCATAACATTTAAACTTTTCGAT
Found at i:34645 original size:20 final size:21
Alignment explanation
Indices: 34602--34655 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
34592 GTATTAAAAT
*
34602 AATTAAATCAATTAAAGTTTA
1 AATTAAATCAATTAAAGCTTA
34623 AATTAAA-CAAATTAAA-CTTA
1 AATTAAATC-AATTAAAGCTTA
34643 AATTAGAAT-AATT
1 AATTA-AATCAATT
34656 TTCAAATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (21 bp):
AATTAAATCAATTAAAGCTTA
Found at i:34945 original size:28 final size:28
Alignment explanation
Indices: 34883--34947 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 28
34873 ATTTTACTTG
* *
34883 AATATTAATGATAAAATATTAAATTAAT
1 AATATTATTAATAAAATATTAAATTAAT
34911 AA-A--ATTAATAAAATATT-AATTAATT
1 AATATTATTAATAAAATATTAAATTAA-T
34936 AATATTATTAAT
1 AATATTATTAAT
34948 TATCTAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
24 6 0.19
25 15 0.48
26 1 0.03
27 1 0.03
28 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
AATATTATTAATAAAATATTAAATTAAT
Found at i:34946 original size:17 final size:17
Alignment explanation
Indices: 34924--34958 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34914 ATTAATAAAA
34924 TATTAATTAAT-TAATAT
1 TATTAATT-ATCTAATAT
34941 TATTAATTATCTAATAT
1 TATTAATTATCTAATAT
34958 T
1 T
34959 TCATAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTAATTATCTAATAT
Found at i:35202 original size:13 final size:13
Alignment explanation
Indices: 35184--35214 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
35174 AATTCTTATG
35184 ATTTAAATATATA
1 ATTTAAATATATA
35197 ATTTAAATATATA
1 ATTTAAATATATA
35210 ATTTA
1 ATTTA
35215 TTAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAAATATATA
Found at i:35361 original size:25 final size:24
Alignment explanation
Indices: 35325--35378 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
35315 TATATTATAG
35325 TATTAAATATAACTAGTAAAAATA
1 TATTAAATATAACTAGTAAAAATA
* * *
35349 TATTTAATAATAATTATTAAAAATA
1 TATTAAAT-ATAACTAGTAAAAATA
35374 T-TTAA
1 TATTAA
35379 TTGAATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TATTAAATATAACTAGTAAAAATA
Found at i:36020 original size:32 final size:32
Alignment explanation
Indices: 35949--36029 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
35939 TTAAATTTAC
* *
35949 TAATATTAATAAT-TAGTATTAATAGTAAAATT
1 TAATATTAATAATAT-TTATAAATAGTAAAATT
*
35981 TATTATTAATAATATTTATAAGATAGTAAAA-T
1 TAATATTAATAATATTTATAA-ATAGTAAAATT
*
36013 TAATATTATTATATATT
1 TAATATTAATA-ATATT
36030 GTTATATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 26 0.63
33 15 0.37
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (32 bp):
TAATATTAATAATATTTATAAATAGTAAAATT
Found at i:36573 original size:182 final size:180
Alignment explanation
Indices: 36047--36608 Score: 531
Period size: 180 Copynumber: 3.1 Consensus size: 180
36037 AATACTAATT
* * *
36047 TATTAATCTTTCAAAAA-T--TAA-TAAGAGATTTAAAAAAT-AAATCTGTTTA-CAAACCAATT
1 TATTAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAAAT-TGTTTACCGAACCAGTT
* ** * * * * * * *
36106 CAAATAGTTATGACTAT-TAGAGCAGTTTTATACTTCAAAATATTATAACCTTTTTTTTTGTCAT
65 CAAATAATTAAAACTATATA-A-AAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCAT
* * *
36170 AAAA-TAATTATTTTTGTTCATACAAGCTTATTTGAAATAAAATAAAACAAATC
128 AAAACTAA-TATTTTTGTTCATATAAGCTTATTAGAAATAAAATAAAATAAATC
* * * *
36223 TAATAATATTAT-GAAAATTAATAACTAAGAGATTTAAAAAATAAAATTGTTTGCCGAACTAGTT
1 TATTAATATT-TCAAAAATTAATAACTAAGAGATTTAAAAAATAAAATTGTTTACCGAACCAGTT
* *
36287 CAAATAGTTAAAACTATATAAAAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAA
65 CAAATAATTAAAACTATATAAAAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCATAA
** *
36352 AAC-AATATTTTCAATTCATACT-AGCTTATATAG-AATAAAATAAAATAAATT
130 AACTAATATTTT-TGTTCATA-TAAGCTTAT-TAGAAATAAAATAAAATAAATC
* * ** * *
36403 TATTAAAATTTCAAAAATTAATAAGTAAGAGAATTT-AAAAATAATTTATGTTTACCTAACCGGT
1 TATTAATATTTCAAAAATTAATAACTAAGAG-ATTTAAAAAATAAAAT-TGTTTACCGAACCAGT
* ** * * *
36467 TCAATTAATTATGACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCAT
64 TCAAATAATTAAAACTATAT-AAAAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCAT
* * * * *
36532 AAAACTAATGTTTTTGTTCATATAAGTTTGTTCGAAATAAAATAATACT-AATC
128 AAAACTAATATTTTTGTTCATATAAGCTTATTAGAAATAAAATAA-AATAAATC
*
36585 TATTAATATTTCAAGAATTAATAA
1 TATTAATATTTCAAAAATTAATAA
36609 AAATTTTAAA
Statistics
Matches: 315, Mismatches: 51, Indels: 34
0.79 0.13 0.09
Matches are distributed among these distances:
176 12 0.04
177 2 0.01
179 10 0.03
180 125 0.40
181 63 0.20
182 94 0.30
183 9 0.03
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (180 bp):
TATTAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAAATTGTTTACCGAACCAGTTC
AAATAATTAAAACTATATAAAAATTATCTATTTCAAATTATTATAACCTTTTGTTTTGTCATAAA
ACTAATATTTTTGTTCATATAAGCTTATTAGAAATAAAATAAAATAAATC
Done.