Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168171.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_41, 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: 255648
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
File 1 of 6
Found at i:362 original size:15 final size:12
Alignment explanation
Indices: 324--353 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
314 TAAAATTAAT
324 ATATATTATTATA
1 ATAT-TTATTATA
337 ATATTTATTATA
1 ATATTTATTATA
349 ATATT
1 ATATT
354 GTTAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATTTATTATA
Found at i:560 original size:30 final size:31
Alignment explanation
Indices: 507--567 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
497 ATTCTTTGAC
*
507 AATAAATAAATATTAATTTATTAA-AATTAA
1 AATAAATAAATATTAATTAATTAATAATTAA
537 AATAAATAAATATT-ATATAATTAATAATTAA
1 AATAAATAAATATTAAT-TAATTAATAATTAA
568 TAACTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 2 0.07
30 20 0.71
31 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
AATAAATAAATATTAATTAATTAATAATTAA
Found at i:1018 original size:15 final size:15
Alignment explanation
Indices: 998--1039 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
988 TTAATGTTAA
*
998 ATATTAATATTATTC
1 ATATTAATAATATTC
*
1013 ATATT-ATAATATTT
1 ATATTAATAATATTC
1027 ATACTTAATAATA
1 ATA-TTAATAATA
1040 ATATTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.43
15 7 0.30
16 6 0.26
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTAATAATATTC
Found at i:1097 original size:21 final size:19
Alignment explanation
Indices: 1072--1110 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
1062 TATTTATTAC
1072 TAAATAAATAATATATAATAT
1 TAAATAAAT--TATATAATAT
*
1093 TAAATTAATTATATAATA
1 TAAATAAATTATATAATA
1111 AAATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATAAATTATATAATAT
Found at i:1163 original size:16 final size:18
Alignment explanation
Indices: 1134--1166 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
1124 TTAATAATTA
1134 AATATAAGTATTATTAAC
1 AATATAAGTATTATTAAC
1152 AATATAA-T-TTATTAA
1 AATATAAGTATTATTAA
1167 TATAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
AATATAAGTATTATTAAC
Found at i:1501 original size:9 final size:10
Alignment explanation
Indices: 1456--1510 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
1446 TTATACTATA
1456 AATTATTAAT
1 AATTATTAAT
* *
1466 ATTTAATAA-
1 AATTATTAAT
1475 AATGTTATTAATT
1 AA--TTATTAA-T
1488 AATTATT-AT
1 AATTATTAAT
1497 AATTATTAAT
1 AATTATTAAT
1507 AATT
1 AATT
1511 TATGGATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
9 9 0.25
10 14 0.39
11 11 0.31
13 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
AATTATTAAT
Found at i:1902 original size:32 final size:33
Alignment explanation
Indices: 1866--1981 Score: 112
Period size: 35 Copynumber: 3.4 Consensus size: 33
1856 TTAGTTAAAT
* *
1866 ATAATTAAATTATAATATTGT-TTTAATAATTA
1 ATAATTAAATTATAATATTATATTAAATAATTA
1898 ATAA-TATAATTATATTATATTATATTAATATAATTA
1 ATAATTA-AATTATA--ATATTATATTAA-ATAATTA
* *
1934 ACTAATTAAAGTTA-AATATTATAATAAATAATTG
1 A-TAATTAAA-TTATAATATTATATTAAATAATTA
*
1968 ATAATTAAACTATA
1 ATAATTAAATTATA
1982 TGAATAGAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
31 2 0.03
32 13 0.19
33 9 0.13
34 13 0.19
35 14 0.20
36 8 0.11
37 6 0.09
38 5 0.07
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (33 bp):
ATAATTAAATTATAATATTATATTAAATAATTA
Found at i:3734 original size:30 final size:28
Alignment explanation
Indices: 3699--3767 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 28
3689 AAACAATTGC
* *
3699 TTAAATTATT-TTATTTAAATAATAAGTAA
1 TTAAATTATTATTAATTAAACAAT-A-TAA
3728 TTTAAATAATATTATTAATTAAACAATATAA
1 -TTAAAT--TATTATTAATTAAACAATATAA
3759 TTAAATTAT
1 TTAAATTAT
3768 AATATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
28 3 0.09
30 12 0.35
31 3 0.09
32 5 0.15
33 11 0.32
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
TTAAATTATTATTAATTAAACAATATAA
Found at i:3755 original size:17 final size:17
Alignment explanation
Indices: 3729--3762 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3719 AATAAGTAAT
* *
3729 TTAAATAATATTATTAA
1 TTAAACAATATAATTAA
3746 TTAAACAATATAATTAA
1 TTAAACAATATAATTAA
3763 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:3841 original size:20 final size:19
Alignment explanation
Indices: 3794--3836 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
3784 TTATTTTAAT
3794 TTATATTAATAAATTAGTTA
1 TTAT-TTAATAAATTAGTTA
3814 TTAATTTAATAAA-TA-TTA
1 TT-ATTTAATAAATTAGTTA
3832 TTATT
1 TTATT
3837 ATTTATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 5 0.23
19 2 0.09
20 10 0.45
21 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATTTAATAAATTAGTTA
Found at i:4575 original size:22 final size:21
Alignment explanation
Indices: 4550--4593 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4540 TTATTGATAA
* *
4550 AATAAATAAATAATTTATTTTT
1 AATAAAT-AATAAATTATATTT
4572 AATAAATAATAAATTATATTT
1 AATAAATAATAAATTATATTT
4593 A
1 A
4594 TAATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATAAATAATAAATTATATTT
Found at i:5197 original size:22 final size:22
Alignment explanation
Indices: 5123--5202 Score: 58
Period size: 22 Copynumber: 3.5 Consensus size: 22
5113 TGAACTGAAA
*
5123 TATAATTATTAACTTAAAATTAGAT
1 TATAATTATT-AGTT-AAATTA-AT
5148 TATAATT-TATAG-TATAA-TAAT
1 TATAATTAT-TAGTTA-AATTAAT
*
5169 ATCTAATTATTAGTTAAATTAAT
1 -TATAATTATTAGTTAAATTAAT
*
5192 TATAATAATTA
1 TATAATTATTA
5203 ACGATAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
21 2 0.04
22 23 0.51
23 10 0.22
24 2 0.04
25 8 0.18
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (22 bp):
TATAATTATTAGTTAAATTAAT
Found at i:5469 original size:19 final size:18
Alignment explanation
Indices: 5443--5491 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
5433 CAAATTATAA
5443 AAATTATTAATAATCG-TT
1 AAATTATTAATAAT-GATT
*
5461 AATATTATTATTAATGATT
1 AA-ATTATTAATAATGATT
5480 AAATTA-TAATAA
1 AAATTATTAATAA
5492 ATATATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 5 0.19
18 7 0.26
19 15 0.56
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
AAATTATTAATAATGATT
Found at i:6057 original size:14 final size:17
Alignment explanation
Indices: 6018--6050 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6008 TTGTTTGTTC
6018 AACTTATTAATTTTAAT
1 AACTTATTAATTTTAAT
6035 AAGCTTATT-ATTTTAA
1 AA-CTTATTAATTTTAA
6051 ACTTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
AACTTATTAATTTTAAT
Found at i:6384 original size:17 final size:19
Alignment explanation
Indices: 6364--6404 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
6354 AACATTTTAT
6364 ATTATATT-TAA-TATTCA
1 ATTATATTCTAACTATTCA
*
6381 ATTATATTCTAACTATTTA
1 ATTATATTCTAACTATTCA
6400 ATTAT
1 ATTAT
6405 CTATAATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATATTCTAACTATTCA
Found at i:6402 original size:19 final size:17
Alignment explanation
Indices: 6359--6404 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
6349 TATATAACAT
6359 TTTATATTATATTTAATA
1 TTTA-ATTATATTTAATA
*
6377 TTCAATTATATTCTAACTA
1 TTTAATTATATT-TAA-TA
6396 TTTAATTAT
1 TTTAATTAT
6405 CTATAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTATATTTAATA
Found at i:6787 original size:13 final size:14
Alignment explanation
Indices: 6773--6806 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
6763 AATATAAATA
*
6773 TTTAATTGTATTAT
1 TTTAATTCTATTAT
6787 TTTAA-TCTATTAT
1 TTTAATTCTATTAT
6800 TTTAATT
1 TTTAATT
6807 TTCTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (14 bp):
TTTAATTCTATTAT
Found at i:7307 original size:24 final size:29
Alignment explanation
Indices: 7252--7309 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
7242 TATCTAATAG
7252 TTATGTAATTATAACTAATTATAATTATAA
1 TTATGTAATTATAACTAATTAT-ATTATAA
7282 TTAT-TAATT-TAA-TAATTAT-TTA-AA
1 TTATGTAATTATAACTAATTATATTATAA
7306 TTAT
1 TTAT
7310 AAAAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 6 0.21
25 3 0.11
27 7 0.25
28 3 0.11
29 5 0.18
30 4 0.14
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
TTATGTAATTATAACTAATTATATTATAA
Found at i:7401 original size:26 final size:23
Alignment explanation
Indices: 7372--7420 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
7362 TGATTAATTG
*
7372 AAATTATTTATTTTAATTATTAATAA
1 AAATT-TTTATATT-ATTA-TAATAA
7398 AAATTTTTATATTATTATAATAA
1 AAATTTTTATATTATTATAATAA
7421 CTTGTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 4 0.18
25 7 0.32
26 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATTTTTATATTATTATAATAA
Found at i:8196 original size:181 final size:181
Alignment explanation
Indices: 7718--8429 Score: 651
Period size: 182 Copynumber: 3.9 Consensus size: 181
7708 ATCTATTTCA
* * * * * *
7718 ATGACCTTTTGCTTTGTCATAAAAGAATTGTTTCAATTCAAATAAACTTATTCAAAATAAAATAA
1 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCGAAATAAAATAA
* * * * * *
7783 TACTAATTTATTAATAATCCAAAAATTTATAA-TAAAGAGATTTAAAAAATGACTCTGTTTTCTA
66 TACTAATTTATTAATATTCTAAAAATTAATAAGTAAA-AGATTTAAAAAATAAATCTGTTTACTA
* * * * * * *
7847 AGCAAATTTAAATAATTAGGACTATTTAAATAATTATCTATTTGAAATAGCT
130 AACAAGTTTAAATCATTATGACTATTTGAATAATTATCTATTTCAAATAGTT
* * * * ***
7899 ATAACCCTTTGTTTTGTCATAAAAGAATTTTTTTTGTTCAT-CTAAGCTTTATTTCG-AATAAAA
1 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATAC-AAGC-TTA-TTCGAAATAAAA
7962 TAATAC-ATATTTATTAATA-T-TAAGACAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTT
63 TAATACTA-ATTTATTAATATTCTAA-A-AATTAATAAGTAAAAGATTTAAAAAATAAATCTGTT
* * ** * * *
8024 TACCAAACAAGTTTAAATCATTATGGCTATTTGAGCAATTATTTATTTCAATTTGTT
125 TACTAAACAAGTTTAAATCATTATGACTATTTGAATAATTATCTATTTCAAATAGTT
* * * * * *
8081 ATGACTTTTTGTTTTATCATAAAACAATTATTTCTATTCATACAAGTTTATTCGAATTAAAATAA
1 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCGAAATAAAATAA
* * * * * * *
8146 TATTAATTTATAAATATTTTGACAATTAATAAGTAAAAGATTTAAAAAATAAATGTATTTACTAA
66 TACTAATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTACTAA
* *
8211 ACAAG-TTCAATC---ATGAATATTTGAATAATTATCTATTTCAAATCA-TT
131 ACAAGTTTAAATCATTATGACTATTTGAATAATTATCTATTTCAAAT-AGTT
* * * * * *
8258 ATGACCTTTTTCTTTTGTAATAAAACACTTGTTTCAATTCATATAAGCTTATTTGAAATAAGATA
1 ATGACC-TTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCGAAATAAAATA
* * * * *
8323 ATACTAATTCATTAATATTCTAAAAATTAATGAGTAAGAGAATTAAAAAA-AGAATATGTTTACT
65 ATACTAATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATA-AATCTGTTTACT
* * *
8387 GAATAAGTTCAAAT-AGTTATGACTATTTG-ATAAATTATACTAT
129 AAACAAGTTTAAATCA-TTATGACTATTTGAAT-AATTAT-CTAT
8430 GATTAAGCTT
Statistics
Matches: 426, Mismatches: 83, Indels: 42
0.77 0.15 0.08
Matches are distributed among these distances:
177 33 0.08
178 103 0.24
179 4 0.01
180 12 0.03
181 109 0.26
182 151 0.35
183 14 0.03
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (181 bp):
ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTCGAAATAAAATAA
TACTAATTTATTAATATTCTAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTACTAA
ACAAGTTTAAATCATTATGACTATTTGAATAATTATCTATTTCAAATAGTT
Found at i:8397 original size:178 final size:177
Alignment explanation
Indices: 7942--8398 Score: 429
Period size: 178 Copynumber: 2.5 Consensus size: 177
7932 TTGTTCATCT
* *
7942 AAGCTTTATTTCG-AATAAAATAATAC-ATATTTATTAATA-T-TAAGACAATTAATAAGTAAAA
1 AAGC-TTA-TTCGAAATAAAATAATACTA-ATTCATAAATATTCTAA-A-AATTAATAAGTAAAA
* * * * * ** * *
8003 GATTTAAAAAATAAATCTGTTTACCAAACAAGTTTAAATCATTATGGCTATTTGAGCAATTATTT
61 GAATTAAAAAATAAATATATTTACTAAACAAG-TTCAATC---ATGAATATTTGAACAATTATCT
* ** * * *
8068 ATTTCAATTTGTTATGACTTTTTGTTTTATCATAAAACAATTATTTCTATTCATAC
122 ATTTCAAATCATTATGACTTTTTCTTTTATAATAAAACAATTATTTCAATTCATAC
* * * * * * * *
8124 AAGTTTATTCGAATTAAAATAATATTAATTTATAAATATTTTGACAATTAATAAGTAAAAGATTT
1 AAGCTTATTCGAAATAAAATAATACTAATTCATAAATATTCTAAAAATTAATAAGTAAAAGAATT
* *
8189 AAAAAATAAATGTATTTACTAAACAAGTTCAATCATGAATATTTGAATAATTATCTATTTCAAAT
66 AAAAAATAAATATATTTACTAAACAAGTTCAATCATGAATATTTGAACAATTATCTATTTCAAAT
* * * *
8254 CATTATGACCTTTTTCTTTTGTAATAAAACACTTGTTTCAATTCATAT
131 CATTATGA-CTTTTTCTTTTATAATAAAACAATTATTTCAATTCATAC
* * * * *
8302 AAGCTTATTTGAAATAAGATAATACTAATTCATTAATATTCTAAAAATTAATGAGTAAGAGAATT
1 AAGCTTATTCGAAATAAAATAATACTAATTCATAAATATTCTAAAAATTAATAAGTAAAAGAATT
* * *
8367 AAAAAA-AGAATATGTTTACTGAATAAGTTCAA
66 AAAAAATA-AATATATTTACTAAACAAGTTCAA
8399 ATAGTTATGA
Statistics
Matches: 227, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
177 32 0.14
178 110 0.48
180 10 0.04
181 68 0.30
182 5 0.02
183 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (177 bp):
AAGCTTATTCGAAATAAAATAATACTAATTCATAAATATTCTAAAAATTAATAAGTAAAAGAATT
AAAAAATAAATATATTTACTAAACAAGTTCAATCATGAATATTTGAACAATTATCTATTTCAAAT
CATTATGACTTTTTCTTTTATAATAAAACAATTATTTCAATTCATAC
Found at i:8577 original size:24 final size:23
Alignment explanation
Indices: 8501--8585 Score: 61
Period size: 24 Copynumber: 3.7 Consensus size: 23
8491 ATAACTAATA
* *
8501 AATAATTATATTTATTA-ATTTTT
1 AATAATTATATTAAATATA-TTTT
*
8524 AA-AA-TAT-TTAACAAATATTTT
1 AATAATTATATTAA-ATATATTTT
8545 AATAATTATTATTAAATATATTTT
1 AATAATTA-TATTAAATATATTTT
* * *
8569 ACTAGTTATATTTAATA
1 AATAATTATATTAAATA
8586 CTATAATATA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
20 3 0.06
21 10 0.20
22 5 0.10
23 12 0.24
24 15 0.31
25 4 0.08
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (23 bp):
AATAATTATATTAAATATATTTT
Found at i:8759 original size:15 final size:15
Alignment explanation
Indices: 8739--8768 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8729 AAATATAATA
*
8739 TAAATATTTAAATTT
1 TAAATATTAAAATTT
8754 TAAATATTAAAATTT
1 TAAATATTAAAATTT
8769 ATTTTAAGTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATATTAAAATTT
Found at i:9373 original size:18 final size:18
Alignment explanation
Indices: 9337--9375 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9327 AATTAAAATT
* **
9337 AATATATTTTTATTGAAA
1 AATATATATTTATAAAAA
9355 AATATATATTTATAAAAA
1 AATATATATTTATAAAAA
9373 AAT
1 AAT
9376 TATCTAACTA
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:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATATATTTATAAAAA
Found at i:9715 original size:19 final size:20
Alignment explanation
Indices: 9691--9733 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
9681 TAATAGTCAT
9691 ATATTAGTTA-ATTT-TTATA
1 ATATTA-TTACATTTATTATA
9710 ATATTATTACTATTTATTATA
1 ATATTATTAC-ATTTATTATA
9731 ATA
1 ATA
9734 ATTAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.14
19 6 0.29
20 4 0.19
21 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATTATTACATTTATTATA
Found at i:9803 original size:14 final size:15
Alignment explanation
Indices: 9762--9871 Score: 56
Period size: 14 Copynumber: 7.3 Consensus size: 15
9752 ATGTAATAAT
9762 TTAATAA-ATTATTA
1 TTAATAATATTATTA
9776 -TAATTAA-A-TATTA
1 TTAA-TAATATTATTA
9789 TTAATAATATT-TTA
1 TTAATAATATTATTA
* *
9803 TGAATCATATTAATTA
1 TTAATAATATT-ATTA
9819 TT-ATAATATGTAATTA
1 TTAATAATAT-T-ATTA
**
9835 -TAATTGTA-TATTA
1 TTAATAATATTATTA
9848 TATAATAATTATTTATTA
1 T-TAATAA-TA-TTATTA
9866 TATAAT
1 T-TAAT
9872 TTAATTGGAC
Statistics
Matches: 75, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
13 15 0.20
14 21 0.28
15 12 0.16
16 16 0.21
18 11 0.15
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
TTAATAATATTATTA
Found at i:9836 original size:13 final size:13
Alignment explanation
Indices: 9817--9849 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9807 TCATATTAAT
9817 TATTATAATATGTA
1 TATTATAAT-TGTA
9831 -ATTATAATTGTA
1 TATTATAATTGTA
9843 TATTATA
1 TATTATA
9850 TAATAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (13 bp):
TATTATAATTGTA
Found at i:9855 original size:18 final size:18
Alignment explanation
Indices: 9834--9871 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9824 ATATGTAATT
*
9834 ATAATTGTATATTATATA
1 ATAATTATATATTATATA
*
9852 ATAATTATTTATTATATA
1 ATAATTATATATTATATA
9870 AT
1 AT
9872 TTAATTGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATAATTATATATTATATA
Found at i:9857 original size:40 final size:40
Alignment explanation
Indices: 9813--9898 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
9803 TGAATCATAT
* * *
9813 TAATTATTATAATATGTAATTATAATTGTATAT-TATA-TAA
1 TAATTATT-TAATATATAATT-TAATTGGACATATATATTAA
*
9853 TAATTATTTATTATATAATTTAATTGGACATATATATTAA
1 TAATTATTTAATATATAATTTAATTGGACATATATATTAA
9893 TAATTA
1 TAATTA
9899 AATAACATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 9 0.22
39 14 0.35
40 17 0.43
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (40 bp):
TAATTATTTAATATATAATTTAATTGGACATATATATTAA
Found at i:9970 original size:13 final size:12
Alignment explanation
Indices: 9924--9975 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
9914 ATTGTTTGAC
9924 AATAATAGTTAAT
1 AATAATA-TTAAT
9937 AA-AATATTAAT
1 AATAATATTAAT
9948 AATAACTATTAACT
1 AATAA-TATTAA-T
*
9962 ATTAATATT-AT
1 AATAATATTAAT
9973 AAT
1 AAT
9976 TAATTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 10 0.29
12 7 0.21
13 12 0.35
14 5 0.15
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:9977 original size:6 final size:6
Alignment explanation
Indices: 9968--10099 Score: 57
Period size: 6 Copynumber: 22.2 Consensus size: 6
9958 AACTATTAAT
* *
9968 ATTATA A-T-TA ATTATA AGTTATA ATTAAA ATTAT- TTGATATA ATTATA
1 ATTATA ATTATA ATTATA A-TTATA ATTATA ATTATA AT--TATA ATTATA
* * * *
10016 TTTA-A ATTTTA ATT-TA ATTATTA A-TAGTA ATTA-A GTTATTTT ATTATA
1 ATTATA ATTATA ATTATA ATTA-TA ATTA-TA ATTATA ATTA--TA ATTATA
* *
10064 AGTTATA ATAATA ATT-TA A-TATT ATTATA ATTATA A
1 A-TTATA ATTATA ATTATA ATTATA ATTATA ATTATA A
10100 AATTATGAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 32
0.66 0.11 0.23
Matches are distributed among these distances:
4 4 0.04
5 20 0.21
6 46 0.49
7 20 0.21
8 4 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (6 bp):
ATTATA
Found at i:10029 original size:36 final size:35
Alignment explanation
Indices: 9970--10054 Score: 84
Period size: 36 Copynumber: 2.4 Consensus size: 35
9960 CTATTAATAT
*
9970 TATAATTAATTATAAGTTATAATTAAAATTATTTGA
1 TATAATTAATTATAAATTATAATT-AAATTATTTGA
* * *
10006 TATAATTATATT-TAAATTTTAATTTAATTA-TTAA
1 TATAATTA-ATTATAAATTATAATTAAATTATTTGA
10040 TAGTAATTAAGTTAT
1 TA-TAATTAA-TTAT
10055 TTTATTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
34 6 0.15
35 13 0.32
36 19 0.46
37 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.51
Consensus pattern (35 bp):
TATAATTAATTATAAATTATAATTAAATTATTTGA
Found at i:11755 original size:174 final size:179
Alignment explanation
Indices: 11535--11878 Score: 391
Period size: 174 Copynumber: 1.9 Consensus size: 179
11525 GAACTGAAAT
* * *
11535 AATTGTTTTATGACTAAACAAAAGATCAAAATGATATGAAATAGATAATTATTCTAATA-A-TTT
1 AATTGTTTTATGACTAAACAAAAGATCAAAACGATATGAAATAGATAATCATTC--ATAGAGTCT
* * *
11598 TAACTATTTGAATTGATTCAG-TAAACA-ATTT-TTTTTTAA-ATC-T-CTTATTAATTTTTAAA
64 TAACTATTTGAACTGATT-AGATAAACAGATTTATTTTTTAATATCTTGCTTATTAAGTTTCAAA
11657 ATATTATTAAATTAGTATTATTTTAATCCAAATAAACTTAAACGAACAAAAC
128 ATATTATTAAATTAGTATTATTTTAATCCAAATAAACTTAAACGAACAAAAC
* * * * *
11709 AATTGTTTTATG-TTAAAAGAAAAGGTCATAACGATTTGAAATAGATAATCATTCATAGAGTCTT
1 AATTGTTTTATGACT-AAACAAAAGATCAAAACGATATGAAATAGATAATCATTCATAGAGTCTT
* * * ** * * *
11773 AATTATTTGAACTGGTTTGATAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCGAAA
65 AACTATTTGAACTGATTAGATAAACAGATTTATTTTTTAA-TATCTTGCTTATTAAGTTTCAAAA
* *
11838 TATTATTAAATTAGTATTATTTTATTCTAAATAAACTTAAA
129 TATTATTAAATTAGTATTATTTTAATCCAAATAAACTTAAA
11879 TAATTAATAT
Statistics
Matches: 139, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
172 3 0.02
173 3 0.02
174 66 0.47
175 4 0.03
176 8 0.06
178 2 0.01
179 1 0.01
180 52 0.37
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (179 bp):
AATTGTTTTATGACTAAACAAAAGATCAAAACGATATGAAATAGATAATCATTCATAGAGTCTTA
ACTATTTGAACTGATTAGATAAACAGATTTATTTTTTAATATCTTGCTTATTAAGTTTCAAAATA
TTATTAAATTAGTATTATTTTAATCCAAATAAACTTAAACGAACAAAAC
Found at i:11959 original size:15 final size:16
Alignment explanation
Indices: 11939--11970 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11929 TAGTTTAAAA
11939 TAATTATTA-AATAAT
1 TAATTATTATAATAAT
11954 TAATTATTATAATAAT
1 TAATTATTATAATAAT
11970 T
1 T
11971 GCTTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATTATAATAAT
Found at i:12329 original size:16 final size:17
Alignment explanation
Indices: 12287--12339 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
12277 TATTATTTGT
* *
12287 ATAATATAATTTTTATA
1 ATAATATAATGTATATA
*
12304 CTAATATAATGTATA-A
1 ATAATATAATGTATATA
* *
12320 ATAATTTAATTTATATA
1 ATAATATAATGTATATA
12337 ATA
1 ATA
12340 TTACAATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
ATAATATAATGTATATA
Found at i:12533 original size:32 final size:32
Alignment explanation
Indices: 12469--12542 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
12459 ATTTTTATAT
* *
12469 TATTATTA-TAAGTATATTTATAATTAAAAAA
1 TATTATTATTAAGTATATATATAAATAAAAAA
* * *
12500 TATTATTATTAATTTTATATATAAATAATAAA
1 TATTATTATTAAGTATATATATAAATAAAAAA
12532 TATTATTATTA
1 TATTATTATTA
12543 TTATATGTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 8 0.22
32 29 0.78
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
TATTATTATTAAGTATATATATAAATAAAAAA
Found at i:13578 original size:181 final size:175
Alignment explanation
Indices: 13356--13835 Score: 468
Period size: 181 Copynumber: 2.7 Consensus size: 175
13346 AGCCTATCAG
13356 AATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAATTAGGAGATTTAAAAAATAAATT
1 AATAAAATAATACTAATTTATTAATATTT--AAAATTAATAA-TAGGAGATTTAAAAAATAAATT
* * *
13421 TGTTTATCAAATTAGTTCAAATAGTTATAACTATTTGAACAATTGTATATTTTC-AATCGTTATA
63 TGTTTACCAAACTAGTTCAAATAGTTATAACTATTTGAACAATTATATA-TTTCAAATCGTTATA
* *
13485 ACCTTTTGTTTTGTCATAAAACAATTATTTATCTTCATACAAGCTTATTCAA
127 ACATTTTGTTTTGTCATAAAACAA--ATGT-TCTTCATACAAGCTTATTCAA
* * * *
13537 AATAAAATAATACTAATCTAGTAATATTATGAAATTTAATAACT-GATAGATTTAAAAAATAAAT
1 AATAAAATAATACTAATTTATTAATATT-T-AAAATTAATAA-TAG-GAGATTTAAAAAATAAAT
* * * * * * *
13601 TTGTTTACCAAACCAATTTAAATAGTTA-AGGCTATATGAATAATTATCTATTTCAAATCGTTAT
62 TTGTTTACCAAACTAGTTCAAATAGTTATA-ACTATTTGAACAATTATATATTTCAAATCGTTAT
* * * * * * * **
13665 GATATTTTGTTTTGTCGTAAAACAAATGTTGTTCATATAAGTTTGTTTGA
126 AACATTTTGTTTTGTCATAAAACAAATGTTCTTCATACAAGCTTATTCAA
* * *
13715 AATAAAATAATATTAATTTATTAATATTTCAAAAATTAAT-A-A-GAGATTTAATAAATAAATCT
1 AATAAAATAATACTAATTTATTAATATTT--AAAATTAATAATAGGAGATTTAAAAAATAAATTT
* * * * * * * *
13777 ATTTACCATACTAGTTCAATTGGTTATAACAATTTGAACATTTATTTCTTTCAAATCGT
64 GTTTACCAAACTAGTTCAAATAGTTATAACTATTTGAACAATTATATATTTCAAATCGT
13836 ACTAAAGTAT
Statistics
Matches: 243, Mismatches: 49, Indels: 21
0.78 0.16 0.07
Matches are distributed among these distances:
174 60 0.25
175 1 0.00
177 2 0.01
178 48 0.20
179 3 0.01
180 6 0.02
181 122 0.50
182 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (175 bp):
AATAAAATAATACTAATTTATTAATATTTAAAATTAATAATAGGAGATTTAAAAAATAAATTTGT
TTACCAAACTAGTTCAAATAGTTATAACTATTTGAACAATTATATATTTCAAATCGTTATAACAT
TTTGTTTTGTCATAAAACAAATGTTCTTCATACAAGCTTATTCAA
Found at i:13977 original size:13 final size:12
Alignment explanation
Indices: 13959--14005 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
13949 ATTGTATATA
13959 ATTTATTATAAAT
1 ATTTATTAT-AAT
13972 ATTTATTATAAT
1 ATTTATTATAAT
**
13984 ATTTAAAACTAAT
1 ATTTATTA-TAAT
13997 ATTTATTAT
1 ATTTATTAT
14006 TTATAAAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTTATTATAAT
Found at i:14130 original size:44 final size:40
Alignment explanation
Indices: 14080--14170 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 40
14070 GTTATTACAA
*
14080 AATAATAAATATATTATAATATATCAATCGTTATTATATAGTAT
1 AATAATAAATATATTATAATATAT-AATCG-TATT-T-TAATAT
* * *
14124 AATAATAAGTATATTATATTATATTATCGTATTTTAATAT
1 AATAATAAATATATTATAATATATAATCGTATTTTAATAT
14164 AATAATA
1 AATAATA
14171 TTATAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 12 0.28
41 1 0.02
42 4 0.09
43 4 0.09
44 22 0.51
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (40 bp):
AATAATAAATATATTATAATATATAATCGTATTTTAATAT
Found at i:14177 original size:11 final size:11
Alignment explanation
Indices: 14161--14209 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
14151 CGTATTTTAA
14161 TATAATAATAT
1 TATAATAATAT
14172 TATAAT-A-AT
1 TATAATAATAT
14181 TATAA-AATAAT
1 TATAATAAT-AT
**
14192 TATAATTTTAT
1 TATAATAATAT
14203 TATAATA
1 TATAATA
14210 TATCAATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 8 0.26
10 1 0.03
11 21 0.68
12 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATAATAATAT
Found at i:16374 original size:16 final size:17
Alignment explanation
Indices: 16353--16384 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16343 TAAATATTTT
16353 AATTATTGATT-AATAA
1 AATTATTGATTCAATAA
16369 AATTATTGATTCAATA
1 AATTATTGATTCAATA
16385 GACTATTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTATTGATTCAATAA
Found at i:16375 original size:25 final size:24
Alignment explanation
Indices: 16317--16375 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
16307 ATAATATAAC
16317 ATTAAAATT-TTATAATTATTATA
1 ATTAAAATTATTATAATTATTATA
* *
16340 ATTTAAA-TATTTTAATTATTGATTA
1 ATTAAAATTATTATAATTATT-A-TA
16365 A-TAAAATTATT
1 ATTAAAATTATT
16376 GATTCAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.03
23 16 0.55
24 5 0.17
25 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTAAAATTATTATAATTATTATA
Found at i:16425 original size:16 final size:15
Alignment explanation
Indices: 16396--16430 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16386 ACTATTCACA
16396 TATACATTTAATTAT
1 TATACATTTAATTAT
*
16411 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
16427 TATA
1 TATA
16431 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:16437 original size:27 final size:27
Alignment explanation
Indices: 16405--16467 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
16395 ATATACATTT
* *
16405 AATTATTATACT-ATTTGATTATTATAA
1 AATTATTA-ACTAATTTAATTATAATAA
*
16432 AATTATTAACTAATTTAATTGTAATAA
1 AATTATTAACTAATTTAATTATAATAA
*
16459 ATTTATTAA
1 AATTATTAA
16468 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:16775 original size:21 final size:21
Alignment explanation
Indices: 16751--16809 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
16741 ATTAGTTAAA
16751 TAATTATACTAATTATAATTT
1 TAATTATACTAATTATAATTT
* *
16772 TAATTA-AATACATTATATTTT
1 TAATTATACTA-ATTATAATTT
*
16793 TAGTTATAAC-AATTATA
1 TAATTAT-ACTAATTATA
16810 CAATTGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 1 0.03
23 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
TAATTATACTAATTATAATTT
Found at i:17298 original size:27 final size:27
Alignment explanation
Indices: 17246--17301 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
17236 TTAAACAAAT
* *
17246 TTAATAATAATTATTATTATCAATTTA
1 TTAATAATAATTAATATTATAAATTTA
17273 TTAATAAT-ATTAATATTATAATATTTA
1 TTAATAATAATTAATATTATAA-ATTTA
17300 TT
1 TT
17302 TGATTAGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAATAATAATTAATATTATAAATTTA
Found at i:17460 original size:17 final size:17
Alignment explanation
Indices: 17414--17501 Score: 60
Period size: 17 Copynumber: 5.2 Consensus size: 17
17404 TCAATCCTAT
*
17414 ATTATAACT-ATTTATGA
1 ATTATAA-TAATTTATTA
*
17431 TATTATTAT-ATTTATTA
1 -ATTATAATAATTTATTA
17448 ATTATAATAATTTATTA
1 ATTATAATAATTTATTA
* *
17465 AATATAA-ATTCTTATT-
1 ATTATAATAAT-TTATTA
*
17481 A-TATAATTAATTTAGTA
1 ATTATAA-TAATTTATTA
17498 ATTA
1 ATTA
17502 ATTATTATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
15 5 0.09
16 14 0.25
17 30 0.53
18 8 0.14
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTATAATAATTTATTA
Found at i:17787 original size:17 final size:19
Alignment explanation
Indices: 17758--17792 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17748 ACATTACAAT
17758 AATAAATAAA-TTTAATAA
1 AATAAATAAATTTTAATAA
17776 AATAAA-AAATTTTAATA
1 AATAAATAAATTTTAATA
17793 TTTTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAAATAAATTTTAATAA
Found at i:18774 original size:31 final size:28
Alignment explanation
Indices: 18681--18774 Score: 82
Period size: 31 Copynumber: 3.1 Consensus size: 28
18671 TATTAAATTT
*
18681 ATATTAATAATAGTTTATTTAATATTTAA
1 ATATTAATAATAATTTATTTAAT-TTTAA
18710 ATATT-ATAATTAAATATTATATTAATTTATAA
1 ATATTAATAA-T-AAT-TTAT-TTAATTT-TAA
*
18742 ATATTAATAACTGAATTAATTTAATTGTTAA
1 ATATTAATAA-T-AATTTATTTAATT-TTAA
18773 AT
1 AT
18775 TAAATATTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
28 4 0.07
29 6 0.11
30 2 0.04
31 17 0.31
32 17 0.31
33 8 0.15
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (28 bp):
ATATTAATAATAATTTATTTAATTTTAA
Found at i:18937 original size:10 final size:10
Alignment explanation
Indices: 18922--18946 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18912 TGCAAATTAT
18922 ATTAAAGATA
1 ATTAAAGATA
18932 ATTAAAGATA
1 ATTAAAGATA
18942 ATTAA
1 ATTAA
18947 TATGATTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (10 bp):
ATTAAAGATA
Found at i:19422 original size:23 final size:22
Alignment explanation
Indices: 19377--19446 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 22
19367 ACTAATATAA
* *
19377 ATTAATT-TAAATATATAAATT
1 ATTAATTATAAATATTTAATTT
19398 ATTAATTATGAAATATTTAATTT
1 ATTAATTAT-AAATATTTAATTT
* *
19421 ATTAATGAT-TATA-TTAATTT
1 ATTAATTATAAATATTTAATTT
19441 ATTAAT
1 ATTAAT
19447 ATTAACAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
20 13 0.30
21 10 0.23
22 1 0.02
23 19 0.44
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTAATTATAAATATTTAATTT
Found at i:19437 original size:20 final size:19
Alignment explanation
Indices: 19348--19450 Score: 67
Period size: 19 Copynumber: 5.5 Consensus size: 19
19338 ACTATATTAT
*
19348 TTAATTTTATATTAATTTAA
1 TTAATATTATATTAATTT-A
* *
19368 CTAATA-TAAATTAATTTA
1 TTAATATTATATTAATTTA
19386 --AATA-TATA--AA-TTA
1 TTAATATTATATTAATTTA
*
19399 TTAATTATGAAATATTTAATTTA
1 TTAA-TAT--TATA-TTAATTTA
19422 TTAATGATTATATTAATTTA
1 TTAAT-ATTATATTAATTTA
19442 TTAATATTA
1 TTAATATTA
19451 ACAAATATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
13 3 0.05
14 2 0.03
15 2 0.03
16 9 0.14
18 1 0.02
19 17 0.26
20 17 0.26
21 3 0.05
22 3 0.05
23 9 0.14
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (19 bp):
TTAATATTATATTAATTTA
Found at i:19958 original size:180 final size:181
Alignment explanation
Indices: 19561--20165 Score: 522
Period size: 181 Copynumber: 3.3 Consensus size: 181
19551 TAATATCATT
* * * * ** * *
19561 AATAATACTAATTTATTAATATTTAAAAATTTAATCAGTAAGAGATTTAAAAAGTAAATCTACTT
1 AATAATACTAATTTAATAATATTCAAAAAATTAATAACAAAGAGATTTAAAAAATAAATCTAATT
* * * ** ** * * * * * **
19626 ACCAAACCATTTCATATAGTTTTGACTATTTTAAAAATTCTCTATTTCGAATCGTTATAACCTTT
66 ACTAAACCAATTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTATGATATTT
** * * * * ** **
19691 TATTTTATCATCAAACAATTGGTTCT-GTTTATATTATTTTATTTGGAATAA
131 TATTTGGTCATAAAACAATT-ATTTTAGTTCATACAAGCTTATTTGGAATAA
** * * * *
19742 AAT-ATAACTAATTTAATAATATTCTGAAACTTAATAACCAAGAAAATTAAAAAATAAATCTAAT
1 AATAAT-ACTAATTTAATAATATTCAAAAAATTAATAACAAAGAGATTTAAAAAATAAATCTAAT
* * * *
19806 TGCTAAACCAATTGAAATAGTTAAGACTA-TATGAATGATTATCTATTTTAAATCATTATGACT-
65 TACTAAACCAATTCAAATAGTTAAGACTATTA-GAATAATTATCTATTTCAAATCATTATGA-TA
* * * * *
19869 TTTTCTTTTGTCGTAAAACAATTATTTT-GTTCGTACAAGCTTATTTGGATTAA
128 TTTTATTTGGTCATAAAACAATTATTTTAGTTCATACAAGCTTATTTGGAATAA
* * **
19922 AATAATACTAATTTAATAATATTTC-AAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTT
1 AATAATACTAATTTAATAATA-TTCAAAAAATTAATAACAAAGAGATTTAAAAAATAAATCTAAT
* ** * *
19986 TACTGAATTAGTTCAAATGGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTATGATATT
65 TACTAAACCAATTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTATGATATT
* * * * *
20051 TTATTTGGTTATAAAACAATTGTTTTAGTTCATAGAAGGTTATTTAGAATAA
130 TTATTTGGTCATAAAACAATTATTTTAGTTCATACAAGCTTATTTGGAATAA
* * *
20103 ATTAATACTAATTTAGTAACATTCAAAAAATTAATAA-AAATGAGATTTAAAAAAATAAATCTA
1 AATAATACTAATTTAATAATATTCAAAAAATTAATAACAAA-GAGATTT-AAAAAATAAATCTA
20166 TTTATCGAAC
Statistics
Matches: 338, Mismatches: 75, Indels: 21
0.78 0.17 0.05
Matches are distributed among these distances:
179 1 0.00
180 150 0.44
181 175 0.52
182 12 0.04
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (181 bp):
AATAATACTAATTTAATAATATTCAAAAAATTAATAACAAAGAGATTTAAAAAATAAATCTAATT
ACTAAACCAATTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTATGATATTT
TATTTGGTCATAAAACAATTATTTTAGTTCATACAAGCTTATTTGGAATAA
Found at i:21074 original size:181 final size:177
Alignment explanation
Indices: 20644--21106 Score: 452
Period size: 181 Copynumber: 2.6 Consensus size: 177
20634 TCAATATTTC
* *
20644 AAATCATTATGACCTTTTGTATTGTCATAAAATAATTGTTTTTGATCATACAAGCTTATTTGAAA
1 AAATCATTAAGACCTTTTGT-TTGTCATAAAATAATTGTTTAT-ATCATACAAGCTTATTTG-AA
*
20709 TAAAATAATACTAATTTATTAATATTTCAAAAA-T--TAATAAGAGATTTAAAAAATAAATATGT
63 TAAAATAATACTAATTTATTAATATTTCAAAAATTAATAATAAGAGATTTAAAAAATAAATATGC
* * * *
20771 TTACCAAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCAATCTT
128 TTACCAAACCAATTCAAATAGTTATAAATATTAGAACAATTATCAATCTT
* * * * * **
20821 AAATCATTAAGATC-TTTGTTTTGTCATAAAACAATTATCTTTAAATCATAGAAGCTTATTTGGT
1 AAATCATTAAGACCTTTTG-TTTGTCATAAAATAA-T-TGTTTATATCATACAAGCTTATTTGAA
* *
20885 TAAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTT
63 T-AAAATAATACTAATTTATTAATATTTCAAAAATTAATAA-TAAGAGATTTAAAAAATAAATAT
* ** * * * *
20950 GCTTGCGGAACTAATTCAAATAGTTA-AAATGATTAGAATAATTATCTATTTT
126 GCTTACCAAACCAATTCAAATAGTTATAAAT-ATTAGAACAATTATCAATCTT
* * *** * * * *
21002 AGATCGTTCTTACCTTTTGTTTAGTCATCAAATACTTGTTTCATATCTTACAAGTTTATTTAGAA
1 AAATCATTAAGACCTTTTGTTT-GTCATAAAATAATTGTTT-ATATCATACAAGCTTATTT-GAA
* * *
21067 TAAAATAATCCAAATTTATTAACA-TTCAAAAAATTAATAA
63 TAAAATAATACTAATTTATTAATATTTC-AAAAATTAATAA
21107 CCAAAATATA
Statistics
Matches: 229, Mismatches: 43, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
176 18 0.08
177 62 0.27
178 5 0.02
180 12 0.05
181 117 0.51
182 15 0.07
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (177 bp):
AAATCATTAAGACCTTTTGTTTGTCATAAAATAATTGTTTATATCATACAAGCTTATTTGAATAA
AATAATACTAATTTATTAATATTTCAAAAATTAATAATAAGAGATTTAAAAAATAAATATGCTTA
CCAAACCAATTCAAATAGTTATAAATATTAGAACAATTATCAATCTT
Found at i:21758 original size:18 final size:19
Alignment explanation
Indices: 21733--21781 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
21723 ATTATTAAAC
21733 TAAA-AATAATTAAT-ATT
1 TAAATAATAATTAATAATT
** *
21750 TTTATAAT-ATTAGTAATT
1 TAAATAATAATTAATAATT
21768 TAAATAATAATTAA
1 TAAATAATAATTAA
21782 AAAATATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAAATAATAATTAATAATT
Found at i:23379 original size:43 final size:39
Alignment explanation
Indices: 23295--23379 Score: 98
Period size: 43 Copynumber: 2.1 Consensus size: 39
23285 GATTGTCAAT
* *
23295 GAGCCTTTATTTTTCAAAGTTGATGTGCCTCGTTTAGAG
1 GAGCCTTTATTTTTCAAAGTTGATGAGCCTCATTTAGAG
* *
23334 GAGCCATTTATTTTTCTCAAAGTTGTTGAGCCCTTATTTAGAG
1 GAGCC-TTTA-TTTT-TCAAAGTTGATGAG-CCTCATTTAGAG
23377 GAG
1 GAG
23380 TTTTGTTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 5 0.13
40 4 0.11
41 4 0.11
42 12 0.32
43 13 0.34
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.40
Consensus pattern (39 bp):
GAGCCTTTATTTTTCAAAGTTGATGAGCCTCATTTAGAG
Found at i:24009 original size:12 final size:12
Alignment explanation
Indices: 23992--24025 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23982 CTAGATAGAG
23992 AAAGAGAGAAAA
1 AAAGAGAGAAAA
*
24004 AAAGAGGGAAAA
1 AAAGAGAGAAAA
24016 AAGAGAGAGA
1 AA-AGAGAGA
24026 GAAGGGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AAAGAGAGAAAA
Found at i:25595 original size:36 final size:34
Alignment explanation
Indices: 25528--25595 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 34
25518 GAATAATAAA
* *
25528 TTATAAATTATTACTAATATGATTATTAATATAG
1 TTATAAATTATTAATAATATGATTATAAATATAG
25562 TTATAAATTATATATATAATATTG-TTATAAATAT
1 TTATAAATTAT-TA-ATAATA-TGATTATAAATAT
25596 TATAAGCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.38
35 2 0.07
36 14 0.48
37 2 0.07
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (34 bp):
TTATAAATTATTAATAATATGATTATAAATATAG
Found at i:25802 original size:16 final size:14
Alignment explanation
Indices: 25791--25871 Score: 53
Period size: 13 Copynumber: 5.6 Consensus size: 14
25781 TAATAATATA
25791 AATATATTATAATT
1 AATATATTATAATT
25805 AATGA-ATATATAATTT
1 AAT-ATAT-TATAA-TT
25821 AATATATTATAAGATTT
1 AATATATTAT-A-A-TT
* *
25838 AATA-AATATAGTT
1 AATATATTATAATT
*
25851 AAT-TATTATAAAT
1 AATATATTATAATT
25864 -ATATATTA
1 AATATATTA
25872 ATTTATAACA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
12 2 0.04
13 16 0.30
14 5 0.09
15 11 0.20
16 12 0.22
17 8 0.15
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (14 bp):
AATATATTATAATT
Found at i:26003 original size:15 final size:15
Alignment explanation
Indices: 25905--26045 Score: 55
Period size: 15 Copynumber: 9.3 Consensus size: 15
25895 TAGTTTAACT
25905 TTAA-TTTAATTAAA
1 TTAATTTTAATTAAA
* * *
25919 ATACAATTAAATTAATA
1 TTA-ATTTTAATTAA-A
*
25936 TTAATTAT-ATTAATTA
1 TTAATTTTAATTAA--A
25952 TTAATATTTAGTATTAAA
1 TTAAT-TTTA--ATTAAA
*
25970 -TACA-TTTAATTTAA
1 TTA-ATTTTAATTAAA
*
25984 GTAATTTTAATTAAA
1 TTAATTTTAATTAAA
* *
25999 TTAATTCT-ATT-CA
1 TTAATTTTAATTAAA
26012 TT-ATCTTTAATT-AA
1 TTAAT-TTTAATTAAA
* *
26026 TAAATATTAATTAAA
1 TTAATTTTAATTAAA
26041 TTAAT
1 TTAAT
26046 GTAACTATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
12 2 0.02
13 5 0.05
14 22 0.23
15 31 0.33
16 21 0.22
17 7 0.07
18 2 0.02
20 5 0.05
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (15 bp):
TTAATTTTAATTAAA
Found at i:26228 original size:34 final size:36
Alignment explanation
Indices: 26177--26244 Score: 97
Period size: 34 Copynumber: 1.9 Consensus size: 36
26167 TTGTTTTTGT
26177 TAATAAAATTGAAATTAATATT-AATAA-TTATTAA
1 TAATAAAATTGAAATTAATATTAAATAACTTATTAA
*
26211 TAAT-AAATTTAATATTAATATTAAATAACTTATT
1 TAATAAAATTGAA-ATTAATATTAAATAACTTATT
26245 TTGATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 7 0.23
34 13 0.43
35 5 0.17
36 5 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (36 bp):
TAATAAAATTGAAATTAATATTAAATAACTTATTAA
Found at i:27495 original size:25 final size:25
Alignment explanation
Indices: 27462--27531 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
27452 TATATGAATT
**
27462 TATTCAAATATT-TTATATAATTATAG
1 TATT-AAATATTATTA-ATAAAAATAG
27488 TATTAAATATTATTAATAAAAATAG
1 TATTAAATATTATTAATAAAAATAG
*
27513 TAATAATATATTACTTAAT
1 TATTAA-ATATTA-TTAAT
27532 TAATATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 20 0.53
26 13 0.34
27 5 0.13
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (25 bp):
TATTAAATATTATTAATAAAAATAG
Found at i:27540 original size:21 final size:20
Alignment explanation
Indices: 27515--27553 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27505 AAAAATAGTA
27515 ATAATATATTACTTAATTAAT
1 ATAATATA-TACTTAATTAAT
*
27536 ATAATATATATTTAATTA
1 ATAATATATACTTAATTA
27554 TAACATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATATATACTTAATTAAT
Found at i:27837 original size:8 final size:7
Alignment explanation
Indices: 27807--27920 Score: 64
Period size: 6 Copynumber: 16.4 Consensus size: 7
27797 CCAATTGACT
27807 TTTATT-
1 TTTATTA
27813 TTTATT-
1 TTTATTA
27819 TTTATTA
1 TTTATTA
27826 TTTATCTA
1 TTTAT-TA
27834 TTTATTA
1 TTTATTA
*
27841 -ATA-TA
1 TTTATTA
27846 TTTATT-
1 TTTATTA
*
27852 TTTATTTT
1 TTTA-TTA
27860 TTTATTA
1 TTTATTA
*
27867 -TTAATA
1 TTTATTA
27873 GTTTTATTA
1 --TTTATTA
*
27882 TTTATCTG
1 TTTAT-TA
27890 TTT-TTA
1 TTTATTA
*
27896 TTT-TTT
1 TTTATTA
27902 TATTATTA
1 T-TTATTA
27910 TTTATCTA
1 TTTAT-TA
27918 TTT
1 TTT
27921 CTTTTAAATT
Statistics
Matches: 86, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
5 2 0.02
6 32 0.37
7 24 0.28
8 23 0.27
9 5 0.06
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:27853 original size:33 final size:29
Alignment explanation
Indices: 27812--27897 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
27802 TGACTTTTAT
27812 TTTTATTTTTATTATTTATCTATTTATTAATA-
1 TTTTATTTTTATT-TTT-T-TA-TTATTAATAG
27844 TATTTATTTTTATTTTTTTATTATTAATAG
1 T-TTTATTTTTATTTTTTTATTATTAATAG
27874 TTTTATTATTTATCTGTTTTTATT
1 TTTTATT-TTTAT-T-TTTTTATT
27898 TTTTTATTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
29 15 0.31
30 8 0.16
31 2 0.04
32 12 0.24
33 12 0.24
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTTATTTTTATTTTTTTATTATTAATAG
Found at i:28334 original size:18 final size:19
Alignment explanation
Indices: 28300--28335 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28290 AATTTGATGA
*
28300 AATTTTTCGGTGAAGTTTG
1 AATTTTTCGATGAAGTTTG
28319 AATTTTTCGATG-AGTTT
1 AATTTTTCGATGAAGTTT
28336 TTCGACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (19 bp):
AATTTTTCGATGAAGTTTG
Found at i:28741 original size:18 final size:18
Alignment explanation
Indices: 28718--28766 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
28708 TGGTATTTTC
28718 TTATTTATTTTATT-TTAT
1 TTATTTATTTTATTGTT-T
*
28736 TTATTTGTTTTACTTGTTT
1 TTATTTATTTTA-TTGTTT
28755 TT-TTTATTTTAT
1 TTATTTATTTTAT
28767 CAAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 19 0.70
19 5 0.19
20 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (18 bp):
TTATTTATTTTATTGTTT
Found at i:37360 original size:83 final size:81
Alignment explanation
Indices: 37216--37475 Score: 219
Period size: 83 Copynumber: 3.2 Consensus size: 81
37206 ATTTTATTTT
* * * * *
37216 ATTT-TTTTTCAAAGTTCTGGTGCCTCTGTTTAGAGGATCAATTTATTTTCCAAACTCGTGGCTC
1 ATTTATTTTTCAAAGTTCTGGTCCCTCTATTTAGAAGAGCAATTTATTTTCCAAACTCGTGGCAC
*
37280 TTCTGTTTAGAGGAGC
66 CTCTGTTTAGAGGAGC
* * *
37296 AATTTATTTTTCAAAGTT-TGGGTTCCCTCTATTTAGAAGAGCAATTTACTTTT-TAAAGTTGTG
1 -ATTTATTTTTCAAAGTTCT-GG-TCCCTCTATTTAGAAGAGCAATTTA-TTTTCCAAACTCGTG
37359 GCACCTCTGTTTAGAGGAGC
62 GCACCTCTGTTTAGAGGAGC
* * ** *** * * *
37379 ATTTATTTTT-AAAG-TCATGGTGCTTCTGCTTAG-AGAATTTATTTATTTTCCAAAGTTGTTG-
1 ATTTATTTTTCAAAGTTC-TGGTCCCTCTATTTAGAAG-AGCAATTTATTTTCCAAACTCGTGGC
*
37440 AGCCTCTGATTAGAGGAGCC
64 A-CCTCTGTTTAGAGGAG-C
37460 ATTTATTTTTCAAAGT
1 ATTTATTTTTCAAAGT
37476 CATTGAGCCT
Statistics
Matches: 148, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
79 7 0.05
80 40 0.27
81 22 0.15
82 29 0.20
83 46 0.31
84 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (81 bp):
ATTTATTTTTCAAAGTTCTGGTCCCTCTATTTAGAAGAGCAATTTATTTTCCAAACTCGTGGCAC
CTCTGTTTAGAGGAGC
Found at i:37482 original size:41 final size:40
Alignment explanation
Indices: 37216--37535 Score: 192
Period size: 41 Copynumber: 7.9 Consensus size: 40
37206 ATTTTATTTT
* * *
37216 ATTT-TTTTTCAAAGTTCTGGTGCCTCTGTTTAGAGGATCA
1 ATTTATTTTTCAAAG-TCTGGAGCCTCTGATTAGAGGAGCA
* * ** * *
37256 ATTTATTTTCCAAACTCGTGGCTCTTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAGTC-TGGAGCCTCTGATTAGAGGAGCA
* *
37297 ATTTATTTTTCAAAGTTTGG-GTTCCCTCT-ATTTAGAAGAGCA
1 ATTTATTTTTCAAAGTCTGGAG---CCTCTGA-TTAGAGGAGCA
* *
37339 ATTTACTTTTT-AAAGTTGTGGCA-CCTCTGTTTAGAGGAGC-
1 ATTTA-TTTTTCAAAG-TCTGG-AGCCTCTGATTAGAGGAGCA
* * * * ***
37379 ATTTATTTTT-AAAGTCATGGTGCTTCTGCTTAGAGAATTT
1 ATTTATTTTTCAAAGTC-TGGAGCCTCTGATTAGAGGAGCA
* *
37419 ATTTATTTTCCAAAGT-TGTTGAGCCTCTGATTAGAGGAGCC
1 ATTTATTTTTCAAAGTCTG--GAGCCTCTGATTAGAGGAGCA
* * *
37460 ATTTATTTTTCAAAGTCATTGAGCCTCTGATTAGGGGAGCC
1 ATTTATTTTTCAAAGTC-TGGAGCCTCTGATTAGAGGAGCA
* *
37501 ATCTA-TTTTCAAGGTCGTGGAGCCTCT-ATTTAGAG
1 ATTTATTTTTCAAAGTC-TGGAGCCTCTGA-TTAGAG
37536 AAGCTTTATT
Statistics
Matches: 221, Mismatches: 39, Indels: 40
0.74 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 27 0.12
40 47 0.21
41 113 0.51
42 23 0.10
43 10 0.05
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (40 bp):
ATTTATTTTTCAAAGTCTGGAGCCTCTGATTAGAGGAGCA
Found at i:37524 original size:81 final size:80
Alignment explanation
Indices: 37362--37546 Score: 187
Period size: 81 Copynumber: 2.3 Consensus size: 80
37352 AGTTGTGGCA
* * * * *** *
37362 CCTCTGTTTAGAGGAGCATTTATTTTTAAAGTCATGGTGCTTCTGCTTAGAGAATTTATTTATTT
1 CCTCTGATTAGAGGAGCATTTATTTTTAAAGTCATGGAGCCTCTGATTAGAGAAGCCATCTATTT
* *
37427 TCCAAAGTTGTTGAG
66 TCCAAAGTCGTGGAG
* * *
37442 CCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGAGCCTCTGATTAGGGGAGCCATCTAT
1 CCTCTGATTAGAGGAG-CATTTATTTTT-AAAGTCATGGAGCCTCTGATTAGAGAAGCCATCTAT
*
37507 TTT-CAAGGTCGTGGAG
64 TTTCCAAAGTCGTGGAG
*
37523 CCTCT-ATTTAGAGAAGC-TTTATTT
1 CCTCTGA-TTAGAGGAGCATTTATTT
37547 ATTTTTTTTT
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 7 0.08
80 17 0.20
81 34 0.39
82 29 0.33
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (80 bp):
CCTCTGATTAGAGGAGCATTTATTTTTAAAGTCATGGAGCCTCTGATTAGAGAAGCCATCTATTT
TCCAAAGTCGTGGAG
Found at i:37813 original size:5 final size:6
Alignment explanation
Indices: 37799--37823 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37789 CCTAATTGGC
37799 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
37824 ATTTGTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:37884 original size:33 final size:32
Alignment explanation
Indices: 37813--37938 Score: 80
Period size: 33 Copynumber: 3.7 Consensus size: 32
37803 ATTTTTATTT
* *
37813 TTATTTTTATTATTTGTCTATTTATTAATA-TATA
1 TTATTTTTATT-TTT-T-TATCTATTAATATTTTA
37847 -TATTTTTATTTTTTTATCTATTAATAGTTTTA
1 TTATTTTTATTTTTTTATCTATTAATA-TTTTA
*
37879 TTATTTATCTACTTTTATTTAT-TATTATTATTATTTA
1 TTATTT-T-TA-TTTT-TTTATCTATTAATA-T-TTTA
* *
37916 TCTATTTCT-TTTATTTATCTATT
1 T-TATTTTTATTTTTTTATCTATT
37939 TTTTTTGTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
30 11 0.14
31 1 0.01
32 6 0.08
33 20 0.26
34 8 0.11
35 2 0.03
36 13 0.17
37 10 0.13
38 5 0.07
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (32 bp):
TTATTTTTATTTTTTTATCTATTAATATTTTA
Found at i:37894 original size:17 final size:16
Alignment explanation
Indices: 37874--37975 Score: 88
Period size: 16 Copynumber: 6.4 Consensus size: 16
37864 CTATTAATAG
37874 TTTTATTATTTATCTA
1 TTTTATTATTTATCTA
*
37890 -CTT-TTATTTAT-TA
1 TTTTATTATTTATCTA
37903 TTATTATTATTTATCTA
1 TT-TTATTATTTATCTA
*
37920 TTTCTTTTATTTATCTA
1 TTT-TATTATTTATCTA
*
37937 TTTT-TTTTGTTATCTA
1 TTTTATTAT-TTATCTA
* *
37953 -TTAATATATTTATCTT
1 TTTTAT-TATTTATCTA
37969 TTTTATT
1 TTTTATT
37976 TTGATTAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.03
14 8 0.12
15 9 0.13
16 25 0.36
17 25 0.36
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.70
Consensus pattern (16 bp):
TTTTATTATTTATCTA
Found at i:37912 original size:30 final size:32
Alignment explanation
Indices: 37876--37938 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
37866 ATTAATAGTT
37876 TTATTATTTATCTA-CTTTTATTTAT-TATTA
1 TTATTATTTATCTATCTTTTATTTATCTATTA
37906 TTATTATTTATCTATTTCTTTTATTTATCTATT
1 TTATTATTTATCTA--TCTTTTATTTATCTATT
37939 TTTTTTGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 14 0.48
33 11 0.38
34 4 0.14
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (32 bp):
TTATTATTTATCTATCTTTTATTTATCTATTA
Found at i:38260 original size:21 final size:22
Alignment explanation
Indices: 38227--38269 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
38217 GCAGTATAGG
*
38227 ATTTTTAGAAGTTTTTTTTTTA
1 ATTTTTAGAAGTTCTTTTTTTA
38249 ATTTTTAG-AGTTCTTTTTTTA
1 ATTTTTAGAAGTTCTTTTTTTA
38270 GAAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (22 bp):
ATTTTTAGAAGTTCTTTTTTTA
Found at i:38720 original size:9 final size:9
Alignment explanation
Indices: 38708--38755 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
38698 TGATATTTTC
38708 TTATTTATT
1 TTATTTATT
38717 TTATTT-TAT
1 TTATTTAT-T
*
38726 TTATTTGTT
1 TTATTTATT
*
38735 TTACTTATT
1 TTATTTATT
38744 TT-TTTATT
1 TTATTTATT
38752 TTAT
1 TTAT
38756 CAAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 8 0.24
9 24 0.73
10 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TTATTTATT
Found at i:38721 original size:17 final size:17
Alignment explanation
Indices: 38701--38753 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 17
38691 GAATTTTTGA
38701 TATTTTCTTATTTATTT
1 TATTTTCTTATTTATTT
38718 TA--TT-TTATTTATTT
1 TATTTTCTTATTTATTT
*
38732 GT-TTTACTTATTT-TTT
1 -TATTTTCTTATTTATTT
38748 TATTTT
1 TATTTT
38754 ATCAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
14 10 0.34
15 4 0.14
16 7 0.24
17 8 0.28
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
TATTTTCTTATTTATTT
Found at i:39908 original size:21 final size:22
Alignment explanation
Indices: 39866--39914 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
39856 TATAGTTAAT
* * *
39866 TAATAATTGATTAATTTTATTA
1 TAATATTTGATTAACTTAATTA
39888 TAATATTTG-TTAACTTAATTA
1 TAATATTTGATTAACTTAATTA
*
39909 GAATAT
1 TAATAT
39915 AATTAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (22 bp):
TAATATTTGATTAACTTAATTA
Found at i:40024 original size:25 final size:25
Alignment explanation
Indices: 39995--40087 Score: 84
Period size: 25 Copynumber: 3.6 Consensus size: 25
39985 ACTATTATAC
39995 TTAAATATAATATATT-GTTATTTA
1 TTAAATATAATATATTAGTTATTTA
* *
40019 TCTAAATATATTATAATTATTTATTTA
1 T-TAAATATAATAT-ATTAGTTATTTA
* *
40046 -TATATATAATTATATTATTTATTTAA
1 TTAAATATAA-TATATTAGTTATTT-A
40072 TT-AATAATAATATATT
1 TTAAAT-ATAATATATT
40088 GATACTATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
24 1 0.02
25 29 0.51
26 15 0.26
27 12 0.21
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
TTAAATATAATATATTAGTTATTTA
Found at i:40050 original size:21 final size:21
Alignment explanation
Indices: 40024--40067 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
40014 ATTTATCTAA
40024 ATATATTATAATTAT-TTATTT
1 ATATA-TATAATTATATTATTT
40045 ATATATATAATTATATTATTT
1 ATATATATAATTATATTATTT
40066 AT
1 AT
40068 TTAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATATATAATTATATTATTT
Found at i:40072 original size:17 final size:17
Alignment explanation
Indices: 40012--40074 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
40002 TAATATATTG
* *
40012 TTATTTATCTAAATATA
1 TTATTTATTTAATTATA
* *
40029 TTA--TAATTATTTAT-
1 TTATTTATTTAATTATA
* *
40043 TTATATATATAATTATA
1 TTATTTATTTAATTATA
40060 TTATTTATTTAATTA
1 TTATTTATTTAATTA
40075 ATAATAATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
14 3 0.09
15 7 0.21
16 8 0.24
17 16 0.47
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTTATTTAATTATA
Found at i:40453 original size:16 final size:18
Alignment explanation
Indices: 40432--40466 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
40422 GTTAATTTAC
40432 AATAATA-TTAT-ATTGT
1 AATAATATTTATAATTGT
40448 AATAATATTTATAATTGT
1 AATAATATTTATAATTGT
40466 A
1 A
40467 TACAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AATAATATTTATAATTGT
Found at i:41119 original size:31 final size:30
Alignment explanation
Indices: 41084--41153 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 30
41074 TCCAATTTGT
41084 TATTTATAATTTATAA-TAAATATATAATTAA
1 TATTTAT-ATTTATAATTAAATA-ATAATTAA
*
41115 TATTTATATTAATAATTTAAATAATAATTAA
1 TATTTATATTTATAA-TTAAATAATAATTAA
41146 TA-TTATAT
1 TATTTATAT
41154 GATTTTTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 13 0.36
31 17 0.47
32 6 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTTATATTTATAATTAAATAATAATTAA
Found at i:41139 original size:12 final size:13
Alignment explanation
Indices: 41089--41143 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 13
41079 TTTGTTATTT
41089 ATAATTTATAAT-
1 ATAATTTATAATA
*
41101 A-AATATATAATTA
1 ATAATTTATAA-TA
*
41114 AT-ATTTATATTA
1 ATAATTTATAATA
41126 ATAATTTA-AATA
1 ATAATTTATAATA
41138 ATAATT
1 ATAATT
41144 AATATTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 8 0.23
12 15 0.43
13 12 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATTTATAATA
Found at i:41650 original size:14 final size:14
Alignment explanation
Indices: 41631--41695 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
41621 AGAAAAATTA
41631 TAATATATT-TATAT
1 TAATATATTATA-AT
41645 TAATATATTATAAT
1 TAATATATTATAAT
*
41659 TAATAAAATTATTAATAT
1 TAAT-ATATTA-T-A-AT
41677 TAA-ATA-TATAAT
1 TAATATATTATAAT
41689 TAATATA
1 TAATATA
41696 AATTAACAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 5 0.12
13 4 0.09
14 16 0.37
15 9 0.21
16 3 0.07
17 1 0.02
18 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAATATATTATAAT
Found at i:41762 original size:15 final size:16
Alignment explanation
Indices: 41737--41767 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
41727 AATATATTTA
41737 TTAATATTTATTAATT
1 TTAATATTTATTAATT
41753 TTAA-ATTTATTAATT
1 TTAATATTTATTAATT
41768 AATTATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATATTTATTAATT
Found at i:42344 original size:15 final size:16
Alignment explanation
Indices: 42324--42354 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
42314 GTATATAATT
42324 AATTAATAAAT-TTAA
1 AATTAATAAATATTAA
42339 AATTAATAAATATTAA
1 AATTAATAAATATTAA
42355 TAAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAATAAATATTAA
Found at i:42799 original size:26 final size:24
Alignment explanation
Indices: 42769--42836 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
42759 TAATTAAACA
42769 TTAATTAAATATAAATTAAATAATAG
1 TTAATTAAATATAAATTAAAT-A-AG
* * * *
42795 TTAATTAGATATTAGTTTAATAAG
1 TTAATTAAATATAAATTAAATAAG
*
42819 TTAATTAATTATATAATT
1 TTAATTAAATATA-AATT
42837 GTTATATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
24 12 0.36
25 4 0.12
26 17 0.52
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
TTAATTAAATATAAATTAAATAAG
Found at i:42897 original size:22 final size:21
Alignment explanation
Indices: 42866--42914 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
42856 ACAAAACTAT
42866 TTAATATATAATAATTATAATA
1 TTAATATATAATAATTA-AATA
* * *
42888 TTAATTTATAATTATTAACTA
1 TTAATATATAATAATTAAATA
42909 TTAATA
1 TTAATA
42915 CTGATAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATATATAATAATTAAATA
Found at i:43011 original size:22 final size:22
Alignment explanation
Indices: 42979--43021 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42969 TATAAACAAT
*
42979 TATTATTGTATTAATTT-AATAA
1 TATTATAGTATT-ATTTGAATAA
43001 TATTATAGTATTATTTGAATA
1 TATTATAGTATTATTTGAATA
43022 TAACTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTATAGTATTATTTGAATAA
Found at i:43201 original size:12 final size:12
Alignment explanation
Indices: 43184--43241 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
43174 TATTATTAAT
43184 TTATTAAAATAA
1 TTATTAAAATAA
* *
43196 TAATTAATAAATTGA
1 TTATT-A-AAA-TAA
43211 TTATTAAAAT-A
1 TTATTAAAATAA
43222 TTCATTAAAATAA
1 TT-ATTAAAATAA
43235 TTATTAA
1 TTATTAA
43242 TATTTATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
11 3 0.08
12 18 0.47
13 7 0.18
14 4 0.11
15 6 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (12 bp):
TTATTAAAATAA
Found at i:43229 original size:39 final size:35
Alignment explanation
Indices: 43155--43243 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 35
43145 TGTTATTAGT
43155 AATAATAATATAATAATATTATTATTAATTTATTAA
1 AATAATAAT-TAATAATATTATTATTAATTTATTAA
43191 AATAATAATTAATAA-ATTGATTATTAAAATATTCATTAA
1 AATAATAATTAATAATATT-ATTATT--AAT-TT-ATTAA
*
43230 AATAATTATTAATA
1 AATAATAATTAATA
43244 TTTATAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
34 3 0.06
35 12 0.26
36 9 0.19
37 3 0.06
38 2 0.04
39 18 0.38
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (35 bp):
AATAATAATTAATAATATTATTATTAATTTATTAA
Found at i:43240 original size:27 final size:27
Alignment explanation
Indices: 43184--43240 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
43174 TATTATTAAT
*
43184 TTATTAAAATAATAATTAATAAATTGA
1 TTATTAAAATAATAATTAAAAAATTGA
* *
43211 TTATTAAAATATTCATTAAAATAATT-A
1 TTATTAAAATAATAATTAAAA-AATTGA
43238 TTA
1 TTA
43241 ATATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TTATTAAAATAATAATTAAAAAATTGA
Found at i:43515 original size:16 final size:16
Alignment explanation
Indices: 43490--43525 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
43480 TAAGACAATT
43490 TTTAAATTAATTATAA
1 TTTAAATTAATTATAA
*
43506 TTTAATTTAATTATAA
1 TTTAAATTAATTATAA
43522 TTTA
1 TTTA
43526 TATAATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAATTAATTATAA
Found at i:43538 original size:12 final size:12
Alignment explanation
Indices: 43508--43554 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
43498 AATTATAATT
*
43508 TAATTTA-ATTA
1 TAATTTATATAA
43519 TAATTTATATAA
1 TAATTTATATAA
* *
43531 TCATTTATATTA
1 TAATTTATATAA
43543 TAATATTATATA
1 TAAT-TTATATA
43555 TTTGAACAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
11 7 0.24
12 16 0.55
13 6 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
TAATTTATATAA
Found at i:43682 original size:22 final size:21
Alignment explanation
Indices: 43640--43682 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
43630 TATAATATAA
*
43640 TTAAATTAAATAGTTATAATT
1 TTAAATTAAATAGTTAAAATT
43661 TTAATATTAAATTA-TTAAAATT
1 TTAA-ATTAAA-TAGTTAAAATT
43683 ATTTATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 13 0.68
23 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAAATTAAATAGTTAAAATT
Found at i:43700 original size:15 final size:15
Alignment explanation
Indices: 43680--43712 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
43670 AATTATTAAA
43680 ATTATTTATCT-ATTT
1 ATTATTTAT-TAATTT
43695 ATTATTTATTAATTT
1 ATTATTTATTAATTT
43710 ATT
1 ATT
43713 TAATAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTATTTATTAATTT
Found at i:43825 original size:4 final size:4
Alignment explanation
Indices: 43816--43854 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
43806 ATAATAACTA
*
43816 AATT AATT AATAT AATT AATT -ATT AATT TATT AATT AAT
1 AATT AATT AAT-T AATT AATT AATT AATT AATT AATT AAT
43855 AGTTTATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.10
4 24 0.77
5 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:45053 original size:11 final size:10
Alignment explanation
Indices: 45037--45088 Score: 72
Period size: 11 Copynumber: 5.2 Consensus size: 10
45027 TGTTTATATA
45037 AATAATTTATT
1 AATAA-TTATT
45048 AATAATTTATT
1 AATAA-TTATT
45059 AATAATTATT
1 AATAATTATT
45069 AAT-ATT-TT
1 AATAATTATT
45077 AATAATTATT
1 AATAATTATT
45087 AA
1 AA
45089 AAAGTCATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
8 5 0.13
9 6 0.15
10 12 0.31
11 16 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATAATTATT
Found at i:45071 original size:18 final size:18
Alignment explanation
Indices: 45037--45088 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 18
45027 TGTTTATATA
45037 AATAATTTATTAATAATTTATT
1 AATAA-TTATTAAT-A-TT-TT
45059 AATAATTATTAATATTTT
1 AATAATTATTAATATTTT
45077 AATAATTATTAA
1 AATAATTATTAA
45089 AAAGTCATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 14 0.47
19 2 0.07
20 1 0.03
21 8 0.27
22 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATAATTATTAATATTTT
Found at i:45806 original size:18 final size:17
Alignment explanation
Indices: 45766--45806 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
45756 AAATTAACTT
45766 ATTTATTAAATATTTAA
1 ATTTATTAAATATTTAA
*
45783 AATTATTAAATATATTAA
1 ATTTATTAAATAT-TTAA
*
45801 TTTTAT
1 ATTTAT
45807 AGTGATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATTAAATATTTAA
Found at i:45913 original size:13 final size:13
Alignment explanation
Indices: 45897--45943 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
45887 ATAATAAACA
45897 AATTTATTAAATT
1 AATTTATTAAATT
*
45910 AATTTA-TAAAAT
1 AATTTATTAAATT
*
45922 AATTAATATAAATT
1 AATTTAT-TAAATT
45936 AATATTAT
1 AAT-TTAT
45944 AGATAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 8 0.30
15 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTATTAAATT
Found at i:45965 original size:21 final size:20
Alignment explanation
Indices: 45901--45974 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 20
45891 TAAACAAATT
45901 TATTA-AATTAAT-TTATAA
1 TATTATAATTAATATTATAA
*
45919 -A--ATAATTAATATAAATTAA
1 TATTATAATTAATAT-TA-TAA
45938 TATTATAGA-TAATATTATAA
1 TATTATA-ATTAATATTATAA
45958 TAATTATAATTAATATT
1 T-ATTATAATTAATATT
45975 TAACCTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
15 1 0.02
16 7 0.16
17 2 0.05
18 1 0.02
19 3 0.07
20 6 0.14
21 14 0.32
22 9 0.20
23 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
TATTATAATTAATATTATAA
Found at i:46233 original size:29 final size:31
Alignment explanation
Indices: 46201--46260 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
46191 ATTATAGTAA
46201 TAAATTAAATATTAA-CAAAT-ATAATAATT
1 TAAATTAAATATTAATCAAATAATAATAATT
* * *
46230 TAAATTGATTATTAATCAAATAATCATAATT
1 TAAATTAAATATTAATCAAATAATAATAATT
46261 ATTATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 5 0.19
31 8 0.31
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (31 bp):
TAAATTAAATATTAATCAAATAATAATAATT
Found at i:46399 original size:10 final size:10
Alignment explanation
Indices: 46384--46411 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
46374 TTAATAAATA
46384 TAATTATAAC
1 TAATTATAAC
46394 TAATTATAAC
1 TAATTATAAC
46404 TAATTATA
1 TAATTATA
46412 TAATTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TAATTATAAC
Found at i:46412 original size:54 final size:52
Alignment explanation
Indices: 46349--46516 Score: 137
Period size: 54 Copynumber: 3.0 Consensus size: 52
46339 ATGATTTAGT
46349 TAATATATATAAATTATTAATATATTTAATAAATATAATTATAACTAATTATAA
1 TAAT-TATATAAATTATTAATATATTTAATAAATATAATTATAA-TAATTATAA
* *
46403 CTAATTATATAATTTATTAATTTATATTATGAATAAAAGTATAATATATAATATTTATAA
1 -TAATTATATAAATTATTAA--TATATT-T-AAT-AAA-TATAAT-TATAATAATTATAA
* *
46463 TTATTCAT-TATATTAATATAAT-T-TTTAATAAATATAAATTATAA-ATATTATAA
1 TAATT-ATATAAATT-AT-TAATATATTTAATAAATAT-AATTATAATA-ATTATAA
46516 T
1 T
46517 TTATATTTTA
Statistics
Matches: 95, Mismatches: 6, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
52 1 0.01
53 15 0.16
54 20 0.21
55 7 0.07
56 7 0.07
57 3 0.03
58 4 0.04
59 12 0.13
60 18 0.19
61 8 0.08
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (52 bp):
TAATTATATAAATTATTAATATATTTAATAAATATAATTATAATAATTATAA
Found at i:46994 original size:20 final size:18
Alignment explanation
Indices: 46959--46999 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
46949 TATATATAAA
46959 ATAATTTAAATTATTATT
1 ATAATTTAAATTATTATT
46977 ATAATTTATAACTTATTATT
1 ATAATTTA-AA-TTATTATT
46997 ATA
1 ATA
47000 TTAAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.38
19 2 0.10
20 11 0.52
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAATTTAAATTATTATT
Found at i:47031 original size:20 final size:19
Alignment explanation
Indices: 46967--47052 Score: 61
Period size: 20 Copynumber: 4.3 Consensus size: 19
46957 AAATAATTTA
*
46967 AATTATTAT-TATAATTTAT
1 AATTATTATATATAATAT-T
*
46986 AACTTATTATTATATTAAGATTTT
1 AA-TTATTA-TATA-T-A-ATATT
47010 AATTATTATATATTAATATT
1 AATTATTATATA-TAATATT
*
47030 AATTA-TAAATATAATA-T
1 AATTATTATATATAATATT
47047 AATTAT
1 AATTAT
47053 GTTATATCCC
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.10
18 5 0.09
19 7 0.12
20 15 0.26
21 2 0.03
22 8 0.14
23 7 0.12
24 4 0.07
25 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
AATTATTATATATAATATT
Found at i:47034 original size:17 final size:17
Alignment explanation
Indices: 47014--47052 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
47004 GATTTTAATT
*
47014 ATTATATAT-TAATATTA
1 ATTATAAATATAATA-TA
47031 ATTATAAATATAATATA
1 ATTATAAATATAATATA
47048 ATTAT
1 ATTAT
47053 GTTATATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATAAATATAATATA
Found at i:47224 original size:18 final size:19
Alignment explanation
Indices: 47201--47241 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
47191 AATTACAATA
*
47201 ATATCATTATAATAATT-T
1 ATATCAATATAATAATTAT
*
47219 ATATCAATATATTAATTAT
1 ATATCAATATAATAATTAT
47238 ATAT
1 ATAT
47242 TTATAAGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATCAATATAATAATTAT
Found at i:47500 original size:23 final size:24
Alignment explanation
Indices: 47472--47519 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
47462 TATTCAAAAT
*
47472 ATAAATCCA-AAATAT-TTATATTA
1 ATAAATACATAAATATATTAT-TTA
47495 ATAAATACATAAATATATTATTTA
1 ATAAATACATAAATATATTATTTA
47519 A
1 A
47520 ATATTTAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 10 0.45
25 4 0.18
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAAATACATAAATATATTATTTA
Found at i:47839 original size:23 final size:23
Alignment explanation
Indices: 47812--47861 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
47802 TGTAATTATG
47812 AATTACAAT-ATTAATTATATAAT
1 AATTACAATAATTAATTA-ATAAT
* * *
47835 AATTATAATAATTTATTAATTAT
1 AATTACAATAATTAATTAATAAT
47858 AATT
1 AATT
47862 TAAAATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTACAATAATTAATTAATAAT
Found at i:48392 original size:18 final size:19
Alignment explanation
Indices: 48347--48395 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
48337 CAAATTATAC
*
48347 TATTTAT-TAATATTAATA
1 TATTTATATAATTTTAATA
*
48365 TAATTA-ATAATTTTAAT-
1 TATTTATATAATTTTAATA
48382 TATTTATATAATTT
1 TATTTATATAATTT
48396 ACAATAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTATATAATTTTAATA
Found at i:48746 original size:25 final size:25
Alignment explanation
Indices: 48712--48784 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
48702 CATATTATAT
*
48712 TTAATATATAATTATTAAATAAAAA
1 TTAATTTATAATTATTAAATAAAAA
*
48737 TTAATTTATAATT-TTAAATTAATAA
1 TTAATTTATAATTATTAAA-TAAAAA
48762 TT-A-TTATAATTAATTATAATAAA
1 TTAATTTATAATT-ATTA-AATAAA
48785 TTAGCATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
23 8 0.20
24 6 0.15
25 25 0.61
26 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAATTTATAATTATTAAATAAAAA
Found at i:48997 original size:3 final size:3
Alignment explanation
Indices: 48991--49056 Score: 62
Period size: 3 Copynumber: 21.7 Consensus size: 3
48981 ATTGGATAAA
* ** *
48991 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT TTT AAAG ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
*
49036 ATT ATT ATTT ATT AAT ATT AT
1 ATT ATT A-TT ATT ATT ATT AT
49057 AACATTTATT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:49106 original size:14 final size:14
Alignment explanation
Indices: 49073--49125 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
49063 TATTATACTT
49073 TATAA-TAATATAAA
1 TATAATTAAT-TAAA
*
49087 T-TAATTAATTAAC
1 TATAATTAATTAAA
49100 T-TAAATTAATTAAA
1 TAT-AATTAATTAAA
49114 TATAATTAATTA
1 TATAATTAATTA
49126 TTATTCAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 8 0.24
14 25 0.74
15 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAATTAATTAAA
Found at i:49189 original size:20 final size:19
Alignment explanation
Indices: 49161--49219 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
49151 ATACATTGTA
49161 ATTAATATTTTATTAATAT
1 ATTAATATTTTATTAATAT
*
49180 ATTGAATATTATATTATAATAT
1 ATT-AATATTTTA-T-TAATAT
*
49202 ATTAATATAATTATTAAT
1 ATTAATAT-TTTATTAAT
49220 CTGAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 3 0.09
20 12 0.36
21 7 0.21
22 11 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTAATATTTTATTAATAT
Found at i:49216 original size:22 final size:22
Alignment explanation
Indices: 49174--49217 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49164 AATATTTTAT
*
49174 TAATATATTGAATATTATATTA
1 TAATATATTGAATATAATATTA
49196 TAATATATT-AATATAATTATTA
1 TAATATATTGAATATAA-TATTA
49218 ATCTGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TAATATATTGAATATAATATTA
Found at i:49492 original size:23 final size:24
Alignment explanation
Indices: 49466--49513 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
49456 ATGAACTAAG
49466 ATAATTTAATAATA-ATTA-TTATA
1 ATAATTT-ATAATATATTATTTATA
49489 ATAATTTATAATATATTATTTATA
1 ATAATTTATAATATATTATTTATA
49513 A
1 A
49514 CACATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.26
23 11 0.48
24 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATAATTTATAATATATTATTTATA
Found at i:49719 original size:19 final size:18
Alignment explanation
Indices: 49692--49744 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
49682 TATTTATTTC
*
49692 AAATCATTAAAATAATAAT
1 AAATAATTAAAATAA-AAT
49711 AAATAATTAAAAT-AAAT
1 AAATAATTAAAATAAAAT
49728 ATAATAATTATAAATAA
1 A-AATAATTA-AAATAA
49745 CTTAAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 9 0.30
19 16 0.53
20 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAATTAAAATAAAAT
Done.