Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168009.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_264, 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: 41062
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Found at i:438 original size:13 final size:13
Alignment explanation
Indices: 417--455 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
407 GAATAAGTAC
*
417 TTTAATTTAATTA
1 TTTATTTTAATTA
*
430 TTTATTTTAAATTC
1 TTTATTTT-AATTA
444 TTTATTTTAATT
1 TTTATTTTAATT
456 TATTATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATTTTAATTA
Found at i:3741 original size:10 final size:10
Alignment explanation
Indices: 3699--3760 Score: 69
Period size: 10 Copynumber: 6.5 Consensus size: 10
3689 ATTATTGATA
3699 ATAATAATAT
1 ATAATAATAT
3709 ATCAAT-AT-T
1 AT-AATAATAT
*
3718 ACAATAAT-T
1 ATAATAATAT
3727 ATAATAATAT
1 ATAATAATAT
3737 ATAATAATAT
1 ATAATAATAT
*
3747 TTAATAATAT
1 ATAATAATAT
3757 -TAAT
1 ATAAT
3761 TTAATTAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
8 3 0.07
9 16 0.35
10 24 0.52
11 3 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAATAATAT
Found at i:3764 original size:14 final size:13
Alignment explanation
Indices: 3737--3779 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
3727 ATAATAATAT
3737 ATAATAATATTTA
1 ATAATAATATTTA
*
3750 ATAATATTAATTTA
1 ATAATAAT-ATTTA
3764 ATTAATAATATTTA
1 A-TAATAATATTTA
3778 AT
1 AT
3780 CTTCATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 8 0.31
14 12 0.46
15 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATAATAATATTTA
Found at i:3768 original size:18 final size:19
Alignment explanation
Indices: 3664--3775 Score: 72
Period size: 19 Copynumber: 5.9 Consensus size: 19
3654 TTAATATACT
3664 ATAA-AATTAATGAATATTA
1 ATAATAATTAAT-AATATTA
* * *
3683 A-AATTAATTATTGATAATA
1 ATAA-TAATTAATAATATTA
* * *
3702 ATAATATATCAATATTA-CA
1 ATAATA-ATTAATAATATTA
*
3721 ATAATTA-TAATAATATATA
1 ATAATAATTAATAATAT-TA
*
3740 ATAATATTTAATAATATTA
1 ATAATAATTAATAATATTA
*
3759 AT-TTAATTAATAATATT
1 ATAATAATTAATAATATT
3776 TAATCTTCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
17 6 0.09
18 16 0.23
19 25 0.36
20 23 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATAATAATTAATAATATTA
Found at i:4068 original size:15 final size:15
Alignment explanation
Indices: 4050--4079 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4040 ATTCTAATCT
4050 ATTATAATTATAATA
1 ATTATAATTATAATA
4065 ATTATAATTATAATA
1 ATTATAATTATAATA
4080 TTACAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATAATTATAATA
Found at i:4633 original size:179 final size:180
Alignment explanation
Indices: 4430--4877 Score: 492
Period size: 182 Copynumber: 2.5 Consensus size: 180
4420 TTTATAACTT
* * * * *
4430 TTTTGTTTTGTCATAAAACAATTGTTTCTGTCCATACGAGCTTATTCGGATTAAAATAATATTGA
1 TTTTGTTTTGTCATAAAACAATTGTTTCTATCCATACGAGCTTATTCGAAATAAAATAATACTAA
* * * * *
4495 TTTATTAATATTTCAATAATTAATAAGTAAAAGATTTAAAAAAA-ATAA-GTTTACCATACAAGT
66 TTTATTAATATTCCAAAAATTAAAAAGTAAAAGAATTAAAAAAATA-AATGTTTACCAAACAAGT
* **
4558 TCAAATAGTCATGACTAT-TTGAATAATTATCTACTTCAAATCATTGTAACA
130 TCAAATAGTCATGACTATCTT-AATAATTATCTACTTCAAAACATTACAACA
* * * *** *
4609 TTTTGTTTTGTAATAAAACAATTGTTTCAATTCATGTTAGCTTATTTGAAATAAAATAATACTAA
1 TTTTGTTTTGTCATAAAACAATTGTTTCTATCCATACGAGCTTATTCGAAATAAAATAATACTAA
* *
4674 TTTATTAATATTCCAAAAATTAAAAAGTAAGAGAATTAAAAAAATAAATCTGTTTATCAAACAAG
66 TTTATTAATATTCCAAAAATTAAAAAGTAAAAGAATTAAAAAAATAAA--TGTTTACCAAACAAG
* * *
4739 TTCAAATAGTTATGACTATCTTAATAATTATCTATTTCAAAACATTACAACC
129 TTCAAATAGTCATGACTATCTTAATAATTATCTACTTCAAAACATTACAACA
* * * * ** *
4791 TTTTGTTTTGTCATAAAATAATTGGTTCTATTCATACAAAATTATT-TAGAAT-AAATAATACTA
1 TTTTGTTTTGTCATAAAACAATTGTTTCTATCCATACGAGCTTATTCGA-AATAAAATAATACTA
* * **
4854 TTTTATTACTATTTTAAAAATTAA
65 ATTTATTAATATTCCAAAAATTAA
4878 TAAGAGATTT
Statistics
Matches: 224, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
179 94 0.42
180 1 0.00
181 32 0.14
182 95 0.42
183 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
TTTTGTTTTGTCATAAAACAATTGTTTCTATCCATACGAGCTTATTCGAAATAAAATAATACTAA
TTTATTAATATTCCAAAAATTAAAAAGTAAAAGAATTAAAAAAATAAATGTTTACCAAACAAGTT
CAAATAGTCATGACTATCTTAATAATTATCTACTTCAAAACATTACAACA
Found at i:4946 original size:176 final size:180
Alignment explanation
Indices: 4338--4949 Score: 521
Period size: 179 Copynumber: 3.4 Consensus size: 180
4328 GACAATTAAT
* * * ** * * * *
4338 AAGTAAAAG-ATTTAAAAAATAAATCTATTTATTGAACAAATTCAAATCGTT-TGGACTATCTAA
1 AAGTAAGAGAATTAAAAAAATAAATCTGTTTATCAAACAAGTTCAAATAGTTAT-GACTATTTGA
* ** * * * * ** *
4401 ATAATTATTTATTTC-AAATTTTATAACTTTTTTGTTTTGTCATAAAACAATTGTTTCTGTCCAT
65 ATAATTATCTATTTCAAAACATTACAAC-ATTTTGTTTTGTAATAAAACAATTGGTTCAATTCAT
* ** * * * * * * *
4465 ACGAGCTTATTCGGATTAAAATAATATTGATTTATTAATATTTCAATAATTAA
129 ACAAAATTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATT-A
* * * * *
4518 TAAGTAAAAGATTTAAAAAAA-ATAA---GTTTACCATACAAGTTCAAATAGTCATGACTATTTG
1 -AAGTAAGAGAATTAAAAAAATA-AATCTGTTTATCAAACAAGTTCAAATAGTTATGACTATTTG
* * ** *
4579 AATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTGTAATAAAACAATTGTTTCAATTCAT
64 AATAATTATCTATTTCAAAACATTACAACATTTTGTTTTGTAATAAAACAATTGGTTCAATTCAT
*** **
4644 GTTAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAAA
129 ACAAAATTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATT--A
4698 AAGTAAGAGAATTAAAAAAATAAATCTGTTTATCAAACAAGTTCAAATAGTTATGACTATCTT-A
1 AAGTAAGAGAATTAAAAAAATAAATCTGTTTATCAAACAAGTTCAAATAGTTATGACTAT-TTGA
* * * *
4762 ATAATTATCTATTTCAAAACATTACAACCTTTTGTTTTGTCATAAAATAATTGGTTCTATTCATA
65 ATAATTATCTATTTCAAAACATTACAACATTTTGTTTTGTAATAAAACAATTGGTTCAATTCATA
* * **
4827 CAAAATTATTT-AGAAT-AAATAATACTATTTTATTACTATTTTAAAAATT-
130 CAAAATTATTTGA-AATAAAATAATACTAATTTATTAATATTCCAAAAATTA
* * * * * *
4876 AA-TAAGAG-ATTTAAAAACTAAATCTTTTTATCGAACTAGTTCAAATAGTTATAACTATTTGAA
1 AAGTAAGAGAATTAAAAAAATAAATCTGTTTATCAAACAAGTTCAAATAGTTATGACTATTTGAA
*
4939 CAATTATCTAT
66 TAATTATCTAT
4950 CTCCAATTGT
Statistics
Matches: 356, Mismatches: 63, Indels: 29
0.79 0.14 0.06
Matches are distributed among these distances:
175 2 0.01
176 56 0.16
177 6 0.02
178 2 0.01
179 130 0.37
180 12 0.03
181 40 0.11
182 106 0.30
183 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
AAGTAAGAGAATTAAAAAAATAAATCTGTTTATCAAACAAGTTCAAATAGTTATGACTATTTGAA
TAATTATCTATTTCAAAACATTACAACATTTTGTTTTGTAATAAAACAATTGGTTCAATTCATAC
AAAATTATTTGAAATAAAATAATACTAATTTATTAATATTCCAAAAATTA
Found at i:5203 original size:15 final size:15
Alignment explanation
Indices: 5185--5216 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5175 TGATTTATCT
*
5185 ATTTATTAATTATTA
1 ATTTATTAATAATTA
5200 ATTTATTAATAATTA
1 ATTTATTAATAATTA
5215 AT
1 AT
5217 AACTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTAATAATTA
Found at i:5247 original size:14 final size:15
Alignment explanation
Indices: 5223--5251 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5213 TAATAACTAT
5223 ATATCATAATAAAAA
1 ATATCATAATAAAAA
5238 ATAT-ATAATAAAAA
1 ATATCATAATAAAAA
5252 TTAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCATAATAAAAA
Found at i:5685 original size:15 final size:16
Alignment explanation
Indices: 5665--5724 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 16
5655 TTTATATAAA
5665 ATAATTATAA-TTATT
1 ATAATTATAATTTATT
5680 ATAATTATAATTTATT
1 ATAATTATAATTTATT
*
5696 AGTAATATCAATAATTTAAT
1 A-TAAT-T--ATAATTTATT
5716 ATTAATTAT
1 A-TAATTAT
5725 TTATTTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 10 0.26
16 6 0.16
17 6 0.16
18 1 0.03
19 1 0.03
20 14 0.37
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
ATAATTATAATTTATT
Found at i:5748 original size:17 final size:18
Alignment explanation
Indices: 5726--5764 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
5716 ATTAATTATT
5726 TATTTAATT-AATTAA-AA
1 TATTTAATTGAA-TAATAA
5743 TATTTAATTGAATAATAA
1 TATTTAATTGAATAATAA
5761 TATT
1 TATT
5765 ATATTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTTAATTGAATAATAA
Found at i:5804 original size:24 final size:23
Alignment explanation
Indices: 5755--5808 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
5745 TTTAATTGAA
*
5755 TAATAATATTATATTGTATATTAT
1 TAATAA-ATTATATTGTATATAAT
5779 TAATAAATTAATATT-TATAATAAT
1 TAATAAATT-ATATTGTAT-ATAAT
5803 T-ATAAA
1 TAATAAA
5809 AGTTGGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATAAATTATATTGTATATAAT
Found at i:5965 original size:15 final size:15
Alignment explanation
Indices: 5928--5974 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
5918 AATTATATTT
*
5928 ATTAATAATTTAAT-
1 ATTAATTATTTAATA
5942 -TTAAATTATTTAATA
1 ATT-AATTATTTAATA
5957 ATTAATTATTTAATA
1 ATTAATTATTTAATA
5972 ATT
1 ATT
5975 TATATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 2 0.07
14 10 0.34
15 15 0.52
16 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTAATTATTTAATA
Found at i:6024 original size:15 final size:16
Alignment explanation
Indices: 5986--6029 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
5976 ATATTAATAA
5986 AGTT-ATTAATATATAT
1 AGTTAATTAA-ATATAT
*
6002 AGTTAATTAAATATTT
1 AGTTAATTAAATATAT
6018 A-TTAATTAAATA
1 AGTTAATTAAATA
6030 AGAATTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
AGTTAATTAAATATAT
Found at i:6290 original size:57 final size:54
Alignment explanation
Indices: 6172--6290 Score: 123
Period size: 57 Copynumber: 2.1 Consensus size: 54
6162 ATTAAAGGTT
* * * *
6172 ATTAATAATTAAATATAAGATATTTAATTGATTATTTAAAATTATATATTAAAA
1 ATTAATAATTAAATATAAGATATATAATTGATTACTTAAAATTATAAATAAAAA
* * *
6226 ATATAATAATTAAATGA-AATTATTATATAATTTATTACTTATAATTATAAATAATAAA
1 AT-TAATAATTAAAT-ATAA-GA-TATATAATTGATTACTTAAAATTATAAATAA-AAA
6284 ATTAATA
1 ATTAATA
6291 TATCAATTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
54 2 0.04
55 14 0.26
56 2 0.04
57 30 0.57
58 5 0.09
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (54 bp):
ATTAATAATTAAATATAAGATATATAATTGATTACTTAAAATTATAAATAAAAA
Found at i:7800 original size:21 final size:21
Alignment explanation
Indices: 7776--7825 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
7766 AGTATAACTA
*
7776 ATAATATTACTAATTATATAT
1 ATAATATTACTAATTATAAAT
* * *
7797 ATAATAATATTTATTATAAAT
1 ATAATATTACTAATTATAAAT
*
7818 TTAATATT
1 ATAATATT
7826 TAATAGTTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATATTACTAATTATAAAT
Found at i:7801 original size:24 final size:25
Alignment explanation
Indices: 7761--7807 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
7751 TTATTTAACT
7761 TAATTAGTATAACTAATAATATTAC
1 TAATTAGTATAACTAATAATATTAC
7786 TAATTA-TATATA-TAATAATATT
1 TAATTAGTATA-ACTAATAATATT
7808 TATTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (25 bp):
TAATTAGTATAACTAATAATATTAC
Found at i:8453 original size:12 final size:12
Alignment explanation
Indices: 8436--8460 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8426 CTAATTTAAT
8436 ATTAATATTATA
1 ATTAATATTATA
8448 ATTAATATTATA
1 ATTAATATTATA
8460 A
1 A
8461 ATTATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAATATTATA
Found at i:9166 original size:19 final size:22
Alignment explanation
Indices: 9142--9189 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
9132 AATACTAATT
*
9142 TAATAAT-AGTAATTATT-TA-
1 TAATAATAAATAATTATTATAC
9161 TAATAATAAATAATTATTATAC
1 TAATAATAAATAATTATTATAC
9183 TAATAAT
1 TAATAAT
9190 TTAATAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 2 0.08
22 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATAATAAATAATTATTATAC
Found at i:11258 original size:15 final size:13
Alignment explanation
Indices: 11225--11263 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
11215 AACTACATAA
11225 TATAATTATAAAT
1 TATAATTATAAAT
11238 TATAATTATGATAAT
1 TATAATTAT-A-AAT
*
11253 TGTAATTATAA
1 TATAATTATAA
11264 GTTTTTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 10 0.43
14 2 0.09
15 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (13 bp):
TATAATTATAAAT
Found at i:11406 original size:19 final size:18
Alignment explanation
Indices: 11377--11412 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11367 ATGATATTAT
*
11377 TATAGTATATAATATAAA
1 TATAGTATATAAGATAAA
11395 TATAGTTATATAAGATAA
1 TATAG-TATATAAGATAA
11413 CCAATTAATT
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:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TATAGTATATAAGATAAA
Found at i:11670 original size:14 final size:14
Alignment explanation
Indices: 11653--11694 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
11643 AATACAATTA
11653 TAATAATTTAAGAT
1 TAATAATTTAAGAT
*
11667 TAATTA-TTAA-AT
1 TAATAATTTAAGAT
11679 TAATAAGTTTAAGAT
1 TAATAA-TTTAAGAT
11694 T
1 T
11695 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 9 0.39
15 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TAATAATTTAAGAT
Found at i:12319 original size:30 final size:31
Alignment explanation
Indices: 12277--12370 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 31
12267 TTAAGTTATA
* *
12277 TATAATTATTAAATTAATTA-AACTATT-GTT
1 TATAA-TATTAAATTAATTATAACAATTATTT
*
12307 TATTAATATTAAAGTAA-TATAACAATTATTT
1 TA-TAATATTAAATTAATTATAACAATTATTT
*
12338 TATAATATATAAATTATATTATATATAATTATT
1 TATAATAT-TAAATTA-ATTATA-ACAATTATT
12371 AATAAATTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
29 2 0.04
30 24 0.46
31 13 0.25
32 1 0.02
33 4 0.08
34 8 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (31 bp):
TATAATATTAAATTAATTATAACAATTATTT
Found at i:12345 original size:19 final size:18
Alignment explanation
Indices: 12321--12365 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
12311 AATATTAAAG
*
12321 TAATATAACAATTATTTTA
1 TAATATAA-AATTATATTA
12340 TAATATATAAATTATATTA
1 TAATATA-AAATTATATTA
12359 T-ATATAA
1 TAATATAA
12366 TTATTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.21
19 17 0.71
20 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATATAAAATTATATTA
Found at i:12522 original size:16 final size:16
Alignment explanation
Indices: 12498--12532 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12488 TTTTAATAGT
* *
12498 TATATTAATATTGTTA
1 TATAATAATATTATTA
12514 TATAATAATATTATTA
1 TATAATAATATTATTA
12530 TAT
1 TAT
12533 TGAAATAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TATAATAATATTATTA
Found at i:14991 original size:177 final size:180
Alignment explanation
Indices: 14059--15029 Score: 550
Period size: 182 Copynumber: 5.4 Consensus size: 180
14049 CTATTAACCG
* * * * *
14059 AAACAATTGTTTTATGACAAATCAAAAGGTTATAATAATTTTAAATAGACAATTGTTCAAATAG-
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGT
* * * * * * * ** * *
14123 TGATAACTGTTTGAACTTG-TTCGATAAATAGATTTATTTTTTTAAATCTCTTTCTTATTAATTT
66 TAAAAAC--TTTGAAATGGCTT-GGTAAACAGAATTAACTTTTTAAATCTCTTACTGA-TAATTT
* * ** * * * *
14187 T-TCAAATGTTAATAAATTACTATTAATT-TATTTTAAATAAGCTTTGTATGAACTGA
127 TCT-AAATATTAATAAATTAGTATT-ATTCTATTTCGAACAAAC-TTATATGAA-TAA
* * * * * * * * *
14243 AAACAATTGTTTTATGACTAAACAAAAGGTTAGAACGATTTCAAGTAAATAATTGCTCTAATAGT
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAG-
** ** ** * * *
14308 CTTAATTA-TTT-AAATTGAATTTGGTAAACA-AATTTATTTTTTTAAATCTTTTGCTTATTAAT
65 -TTAAAAACTTTGAAA-TG-GCTTGGTAAACAGAA-TTAACTTTTTAAATCTCTTACTGA-TAAT
* * * * *
14370 TTT-TGAAATATTATTAAATTAGTATTATTCTA-ATCAGAATAAGCTTGTATG--TACA
125 TTTCT-AAATATTAATAAATTAGTATTATTCTATTTC-GAACAAACTTATATGAATA-A
* * * * * * *
14425 AAATAATTGTTTTACGACAAAAGAAAAGGTTATAACGATTTGAAATAGATAATCGTTCATATAAC
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAAT-A-
* ** * * * * ** * * * * * ** * *
14490 CTTAACTA-TTTGAATTGGTTTAGCAATTAG-ATTTATTTTTTAATTTTTTTGGTTATTAAGTTT
64 GTTAAAAACTTTGAAATGGCTTGGTAAACAGAATTAACTTTTTAAATCTCTTACTGA-TAATTTT
* * * * ** *
14553 CAAAATATTATTAAATTAATATTATT-T-TTTCCAA-ATAAAATAGTATGAACAA
128 CTAAATATTAATAAATTAGTATTATTCTATTTCGAACA-AACTTA-TATGAATAA
* * * *
14605 AACCAATTGTTTGATGACAAAATAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGT
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGT
*
14670 TAAAAACTATTTGAAATGGCTTGGTAAACAGATTTAACTTTTTAAATCTCTTACTGATTAATTTT
66 TAAAAAC--TTTGAAATGGCTTGGTAAACAGAATTAACTTTTTAAATCTCTTACTGA-TAATTTT
* * *
14735 CTAAATATTAATAAATTAGTATTATTTTATTTTGAACAAACTTATATTAATAA
128 CTAAATATTAATAAATTAGTATTATTCTATTTCGAACAAACTTATATGAATAA
* * ** *
14788 AAACAATTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGCTCAAATAGT
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGT
* *
14853 TATAATAAC-TT-AAACTGGTTTGGTAAATAGAATT-A-TTTTCTAAATCTCTTA-T-A-AATTT
66 TA-AA-AACTTTGAAA-TGGCTTGGTAAACAGAATTAACTTTT-TAAATCTCTTACTGATAATTT
* * * * * * *
14911 TTTAAATATTAATAAATTAGTTTTATTCTATTTCGAATACACTTGTATGAGCT-G
127 TCTAAATATTAATAAATTAGTATTATTCTATTTCGAACAAACTTATATGA-ATAA
* * * * *
14965 AAATAATTATTTTATGACAAAACAAAAGGTCATAACAAATTGAAATAAATAATTGTTCATATAGT
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGT
15030 ATTAACTATT
Statistics
Matches: 621, Mismatches: 134, Indels: 71
0.75 0.16 0.09
Matches are distributed among these distances:
177 103 0.17
178 10 0.02
179 9 0.01
180 107 0.17
181 41 0.07
182 126 0.20
183 71 0.11
184 80 0.13
185 68 0.11
186 2 0.00
187 4 0.01
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGT
TAAAAACTTTGAAATGGCTTGGTAAACAGAATTAACTTTTTAAATCTCTTACTGATAATTTTCTA
AATATTAATAAATTAGTATTATTCTATTTCGAACAAACTTATATGAATAA
Found at i:16016 original size:176 final size:177
Alignment explanation
Indices: 15668--16130 Score: 413
Period size: 176 Copynumber: 2.6 Consensus size: 177
15658 ATAAGTGTTT
* * * * *
15668 TATGACTAAACAAAATG-TCAGAACAATTTGAAATAGATAATTGTTCTAATAGTCTTAACTATTT
1 TATGACAAAACAAAA-GATCATAACAATTTGAGATAGATAATTGTTCAAATAGTCATAACTATTT
* * * *** *
15732 GAACTGCTTCGACAAACACATTTATTTTTTAAATCTCTTATTATTTTTTGGAATTTTATTAAATT
65 AAACTACTTCGACAAACACATTTAGTTTTTAAATCTCTTATTATTTTCAAGAATTTGATTAAATT
* *
15797 AGTGTTATTTTAATTCAAATAAGCTTGAATGAAAAAAAACAATTGTTC
130 AGTATTATTTTAATTCAAATAAGCTTGAATGAAAAAAAACAATTATTC
* ** *
15845 TATGACAAAA-TAAAGATCATAATGATTTGAGATAGATAATTATTCAAATAGTCATAACTATTTA
1 TATGACAAAACAAAAGATCATAACAATTTGAGATAGATAATTGTTCAAATAGTCATAACTATTTA
* * * *
15909 AACTATTTCAGA-AAACAGATTTAGTTTTTAAATCTCTTGTTAATTTTCAAG-ATATTGA-TAGA
66 AACTACTTC-GACAAACACATTTAGTTTTTAAATCTCTTATT-ATTTTCAAGAAT-TTGATTAAA
* ** * * * ** *
15971 TTAGTATTATTTTATTTTGAATAA-TTTTACATGAATAGTAACAATTATTT
128 TTAGTATTATTTTAATTCAAATAAGCTTGA-ATGAAAAAAAACAATTATTC
* * * *
16021 TATGACAAAACAAAAGGTCATAACAATTTAAAGA-AGATAATTGTTCAAATGGAT-ATGACTATT
1 TATGACAAAACAAAAGATCATAACAATTT-GAGATAGATAATTGTTCAAATAG-TCATAACTATT
** * * * *
16084 TAAACTTGTTTGATAAACATATTT-GCTTTTTAAATCCCTTATCTATT
64 TAAACTACTTCGACAAACACATTTAG-TTTTTAAATCTCTTAT-TATT
16131 AATTTTTAGA
Statistics
Matches: 230, Mismatches: 45, Indels: 22
0.77 0.15 0.07
Matches are distributed among these distances:
175 4 0.02
176 129 0.56
177 92 0.40
178 5 0.02
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (177 bp):
TATGACAAAACAAAAGATCATAACAATTTGAGATAGATAATTGTTCAAATAGTCATAACTATTTA
AACTACTTCGACAAACACATTTAGTTTTTAAATCTCTTATTATTTTCAAGAATTTGATTAAATTA
GTATTATTTTAATTCAAATAAGCTTGAATGAAAAAAAACAATTATTC
Found at i:16510 original size:155 final size:155
Alignment explanation
Indices: 16315--16613 Score: 404
Period size: 155 Copynumber: 1.9 Consensus size: 155
16305 AATGAACTAG
* * * * *
16315 TATTATTTTATTTTGAATACGGTTGAATGAACAGAAACAATTGGTTTATAACAAAACAAAATGTC
1 TATTATTTTATTTGGAATAAGCTTGAATGAACAGAAACAATTAGTTTACAACAAAACAAAATGTC
* *
16380 ATAACT-ATTTGAAATAGATAATTGCTCAAATAGTTATAACTATTTGAACATGTTC-AGCAAATA
66 ATAA-TGATTTGAAATAGAAAATTGCTCAAATAGTCATAACTATTTGAACATGTTCGA-CAAATA
16443 GATTTATTTTTAAAATTAATAAATTTA
129 GATTTATTTTTAAAATTAATAAATTTA
* ** *
16470 TATTATTTTATTTGGAATAAGCTTGTATGAATTGAAACAATTATTTTACAACAAAACAAAATGTC
1 TATTATTTTATTTGGAATAAGCTTGAATGAACAGAAACAATTAGTTTACAACAAAACAAAATGTC
* * * ** *
16535 ATAATGATTTGAAATGGAAAATTGTTCGAATAGTCATAACTATTTGAATTTGTTCGATAAATAGA
66 ATAATGATTTGAAATAGAAAATTGCTCAAATAGTCATAACTATTTGAACATGTTCGACAAATAGA
*
16600 TTTATTTTTTAAAT
131 TTTATTTTTAAAAT
16614 CTCTTACTCA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
154 1 0.01
155 122 0.98
156 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (155 bp):
TATTATTTTATTTGGAATAAGCTTGAATGAACAGAAACAATTAGTTTACAACAAAACAAAATGTC
ATAATGATTTGAAATAGAAAATTGCTCAAATAGTCATAACTATTTGAACATGTTCGACAAATAGA
TTTATTTTTAAAATTAATAAATTTA
Found at i:16657 original size:181 final size:180
Alignment explanation
Indices: 16448--18350 Score: 1533
Period size: 181 Copynumber: 10.7 Consensus size: 180
16438 AAATAGATTT
* *
16448 ATTTTT-AAA-ATTAATAAATTTA-TATTATTTTATTTGGAATAAGCTTGTATGAATTGAAACAA
1 ATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTT-AAATAAGCTTGTATGAATAGAAACAA
** * * * * * *
16510 TTATTTTACAACAAAACAAAATGTCATAATGATTTGAAATGGAAAATTGTTCGAATAGTCATAAC
64 TTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAAC
* * *
16575 TATTTGAATTTGTTCGATAAATAGATTTATTTTTTAAATCTCTTACTCATTA
129 TATTTGAACTTGTTCGATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
* * * *
16627 ATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAACCTATATGAACT-GATACAA
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATTT-AAATAAGCTTGTATGAA-TAGAAACAA
* ** * * *
16691 TTGTTTTATGATGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATGGTTATGAC
64 TTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAAC
* * * * *
16756 TGTTTGAACTTATTC-AGTAAACATATTTA-TTTTTAAATTTTTTTACTTATTA
129 TATTTGAACTTGTTCGA-TAAACAGATTTATTTTTTAAA-TCTCTTACTTATTA
* * * * ** *
16808 ATTGTCGAAATATTAATAAATTAATATTAGTTTAAACTAAATAAGCTTGTATGAAT-GAAAATAA
1 ATTTTTGAAATATTAATAAATTAGTATTA-TTTTATTTAAATAAGCTTGTATGAATAG-AAACAA
* * *
16872 TTGTTTTATGAC-AAA-AAAA-GTCATAACGATTTGAAATAAATAACTATTCAAATAGTCATAA-
64 TTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAAC
* * * * * * * *
16933 TGATTAGAACTTATTTGGTAATCAAAGTTATTTTGTAAATCT-TTACTTATTA
129 T-ATTTGAACTTGTTCGATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
* * ** * *
16985 ATTGTCTG-AATAATAATAAATTTTTATTATTTTAATTGAAATAAGCTTGTATGAATAGAAAAAA
1 ATT-TTTGAAATATTAATAAATTAGTATTATTTT-ATTTAAATAAGCTTGTATGAATAGAAACAA
* * * * * *
17049 TTATTTTATGACAAAACAAAAGGTTATAGCGATTTGATATAGGTAATTGTTGAAATAGTCATAAC
64 TTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAAC
* * * * * *
17114 TATTTGAACTTATTCGATAAACATATTCAGTTTTTAGATCTCTCACTTATTA
129 TATTTGAACTTGTTCGATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
* ** * * * * *
17166 ATTTTTGGAATATTAATAAATTAAAATTATGTTATTCCT-AGTAAGCTTGTATGAACAAAAATAA
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATT--TAAATAAGCTTGTATGAATAGAAACAA
* * * * * * *
17230 TTTTTTTGTGACAAAATAAAGGGTTATAACAATTTAAAATAGATAATTATTCAAATAGTCATAAC
64 TTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAAC
* * *** * * **
17295 TATTTGTA-TTGGTTAGGCCAACCGATTCATTTTTTAAATC-CATTACACATTA
129 TATTTGAACTT-GTTCGATAAACAGATTTATTTTTTAAATCTC-TTACTTATTA
* * *
17347 ATTTTT-AGAATATTAATAAATTAGCATTATTTTATTCTAAATAAGAC-TATATCAATAGAAACA
1 ATTTTTGA-AATATTAATAAATTAGTATTATTTTATT-TAAATAAG-CTTGTATGAATAGAAACA
* * * *
17410 ATTATTTTATGACAAAACAAATGGTCATAATGATTTGAAAT-GAATAACTT-TTCAAATTGTTAT
63 ATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAG-ATAA-TTATTCAAATAGTCAT
* * * * * * *
17473 AACTAATTGAACTAGTTTGGTAAATAGATTTATTTTTCAAA--TC-T-CTTATTG
126 AACTATTTGAACTTGTTCGATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
** * * * * * * * *
17524 ATTTTCAAAATATTAATCAATTAATATTATTATATTCTAAACAAACTTATATGAACA-AAACATT
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATT-TAAATAAGCTTGTATGAATAGAAACAAT
* * * * * *
17588 TGTTTTACGACAAAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCATATATTTATAACT
65 TATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACT
* * * * *
17653 ATTTAAAACTAGATCGATAAACAGATTTAGTTTTTAAAT-AC---CTTATTA
130 ATTT-GAACTTGTTCGATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
* * ** * *
17701 ATTTTTGAAATATCAATAAATTAGTATTATTTTATTCTGAATAATTTTGTATGAACAAAAACAAT
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATT-TAAATAAGCTTGTATGAATAGAAACAAT
* * * * *
17766 TATTTTACGACAAAACAAAATGTCATAACAATTTGAAATAGATAA-TAGTTCAAATAGACATAAG
65 TATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTA-TTCAAATAGTCATAAC
* ** *
17830 TATTTGAACCTGTT---T----AG---TAAATTTT-CA--TC-T-C--ATTA
129 TATTTGAACTTGTTCGATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
**
17865 ATTTTAT--AATATTAATAAATTAGTATTATTTTATTGTAAATAAAATTGTATGAATAGAAACAA
1 ATTTT-TGAAATATTAATAAATTAGTATTATTTTATT-TAAATAAGCTTGTATGAATAGAAACAA
* ** * * *
17928 TTATTTTATGACCAAACAAAATATCATAACAATTTGAAATAAATAATTGTTCAAATAGTCA-AAC
64 TTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAAC
*** * * *
17992 TATTTGAACTCACTCGTTAAACATATTTATTTTTTAAATCTTTTACTTATTA
129 TATTTGAACTTGTTCGATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
* * * * * *
18044 ATTTTTGGAATA--AATAAATTAGTATTATTTTATTCCAAATAAGATTATATGAACATAAACAAT
1 ATTTTTGAAATATTAATAAATTAGTATTATTTTATT-TAAATAAGCTTGTATGAATAGAAACAAT
* * * * * *
18107 TAGTTTATGACAAAAAAAAAGGTCATAACAATTTGAAATAGATAATTATTTATATAGTTATAACT
65 TATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACT
* * * * *
18172 ATTTGAACATGTTCAGA-AAACATATTTATTTTTAAAAT-TTTTACTTTTTA
130 ATTTGAACTTGTTC-GATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
* * * *
18222 ATTTCT-AGAATATTAATAAATTTA-TATTATTTTATTTGAAATAAGCTTGCATGATTAGAACCA
1 ATTTTTGA-AATATTAATAAA-TTAGTATTATTTTATTT-AAATAAGCTTGTATGAATAGAAACA
* * * * *
18285 ATTATTTTATGACAAAACAAAAGGTCATAATGTTTTGAAATAGATAATTGTTCAGATAATCATAA
63 ATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAA
18350 C
128 C
18351 AAAAGATTCT
Statistics
Matches: 1380, Mismatches: 276, Indels: 135
0.77 0.15 0.08
Matches are distributed among these distances:
162 12 0.01
163 102 0.07
164 10 0.01
165 3 0.00
166 2 0.00
167 6 0.00
169 1 0.00
170 2 0.00
172 6 0.00
173 1 0.00
174 1 0.00
175 3 0.00
176 67 0.05
177 201 0.15
178 246 0.18
179 64 0.05
180 194 0.14
181 449 0.33
182 10 0.01
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (180 bp):
ATTTTTGAAATATTAATAAATTAGTATTATTTTATTTAAATAAGCTTGTATGAATAGAAACAATT
ATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATAACTA
TTTGAACTTGTTCGATAAACAGATTTATTTTTTAAATCTCTTACTTATTA
Found at i:16790 original size:336 final size:335
Alignment explanation
Indices: 15812--18209 Score: 1046
Period size: 358 Copynumber: 6.9 Consensus size: 335
15802 TATTTTAATT
* * * * * * ** * *
15812 CAAATAAGCTTGAATGAAAAAAAACAATTGTTCTATGACAAAA-TAAAGATCATAATGATTTGAG
1 CAAATAAACTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAAGATCATAATGATTTGAA
* * * * * *
15876 ATAGATAATTATTCAAATAGTCATAACTATTTAAACTAT-TTCAGA-AAACAGATTTAGTTTTTA
66 AT-GAAAATTGTTCAAATAGTCATAACTATTTGAA-TTTGTTC-GATAAATAGATTTATTTTTTA
* * * * **
15939 AATCTC-T-TGTTAA-TTTTCAAGATATTGATAGATTAGTATTATTTTATTTTGAATAATTTTAC
128 AATCTCTTCTATTAATTTTTGAA-ATATTAATAAATTAGTATTATTTTATTTTGAATAAACTTA-
* *
16001 ATGAA-T-AGTAACAATTATTTTATGACAAAACAAAAGGTCATAACAATTT-AAAGAAGATAATT
191 ATGAACTGA-T-ACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAA-TAGATAATT
* * * * *
16063 GTTCAAATGGATATGACTATTTAAACTTGTT-TGATAAACATATTTGCTTTTT-AAATCCCTTAT
253 GTTCAAATGGTTATGACTATTTGAACTTGTTCAG-TAAACATATTT-ATTTTTAAAAT--CTAAT
** *
16126 CTATTAATTTTTAGAATATTTC
314 AAATTAATTATTAGAATATTTC
* ** *
16148 CAAATAAACTTGTATGAATAGAAACAATTGTTTTATGATAAAACAAAAGATCATAACTG-TTTGA
1 CAAATAAACTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAAGATCATAA-TGATTTGA
* * *
16212 AAT-AACTAATTGTTCAAATTGTCATAACTATTTGAACTTGCTC-AGTAAATAGATTTATTTTTT
65 AATGAA--AATTGTTCAAATAGTCATAACTATTTGAATTTGTTCGA-TAAATAGATTTATTTTTT
* * * * * * * ***
16275 AAATATTTTCTTACTAATTTTTGGAATATGAATGAACTAGTATTATTTTATTTTGAATACGGTTG
127 AAATCTCTTC-TATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAACTT-
* * * * * * *
16340 AATGAACAGAAACAATTGGTTTATAACAAAACAAAATGTCATAACTATTTGAAATAGATAATTGC
190 AATGAACTGATACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGT
* * * * * * *
16405 TCAAATAGTTATAACTATTTGAACATGTTCAGCAAATAGATTTATTTTTAAAAT-TAATAAATTT
255 TCAAATGGTTATGACTATTTGAACTTGTTCAGTAAACATATTTATTTTTAAAATCTAATAAATTA
***
16469 A-TATTATTTTATTT-
320 ATTATTAGAATATTTC
** * *
16483 GGAATAAGCTTGTATGAATTGAAACAATTATTTTACAACAAAACAAAATG-TCATAATGATTTGA
1 CAAATAAACTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAA-GATCATAATGATTTGA
*
16547 AATGGAAAATTGTTCGAATAGTCATAACTATTTGAATTTGTTCGATAAATAGATTTATTTTTTAA
65 AAT-GAAAATTGTTCAAATAGTCATAACTATTTGAATTTGTTCGATAAATAGATTTATTTTTTAA
** *
16612 ATCTCTTACTCATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAACCTAT
129 ATCTCTT-CT-ATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAACTTA-
** * *
16677 ATGAACTGATACAATTGTTTTATGATGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATT
191 ATGAACTGATACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTT
* * *
16742 CAAATGGTTATGACTGTTTGAACTTATTCAGTAAACATATTTATTTTTAAATTTTTTTACTTATT
256 CAAATGGTTATGACTATTTGAACTTGTTCAGTAAACATATTTATTTTTAAA-------A--T-CT
*
16807 AATTGTCGAAATATTAATAAATTA-ATATTAGTTTAAAC
311 AA---T---AA-ATTAAT-TATTAGA-A-TA-TTT---C
* * * * ** *
16845 TAAATAAGCTTGTATGAAT-GAAAATAATTGTTTTATGAC-AAA-AAAAG-TCATAACGATTTGA
1 CAAATAAACTTGTATGAATAG-AAACAATTATTTTACAACAAAACAAAAGATCATAATGATTTGA
* * * * * * * * * * *
16906 AATAAATAACTATTCAAATAGTCATAA-TGATTAGAACTTATTTGGT-AATCAAAGTTATTTTGT
65 AATGAA-AATTGTTCAAATAGTCATAACT-ATTTGAATTTGTTCGATAAAT-AGATTTATTTTTT
* * ** * *
16969 AAATCT-TTACTTATTAATTGTCTG-AATAATAATAAATTTTTATTATTTTA-ATTGAAATAAGC
127 AAATCTCTT-C-TATTAATT-TTTGAAATATTAATAAATTAGTATTATTTTATTTTG-AATAAAC
* * * * * * * * *
17031 TTGTATGAA-TAGAAAAAATTATTTTATGACAAAACAAAAGGTTATAGCGATTTGATATAGGTAA
188 TT-AATGAACT-GATACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAA
* * * * * *
17095 TTGTTGAAATAGTCATAACTATTTGAACTTATTC-GATAAACATATTCAGTTTTTAGATCTCTCA
251 TTGTTCAAATGGTTATGACTATTTGAACTTGTTCAG-TAAACATATTTA-TTTTTA-A------A
* *
17159 CTTAT-TAATTTTTGGAATATTAATAAATTAAAATTATGTTATTC
307 ---ATCTAA----T--AA-ATTAAT-TATTAGAA-TA---T-TTC
* * * * * * * *** * * * * ** *
17203 CTAGTAAGCTTGTATGAACAAAAATAATTTTTTTGTGACAAAATAAAGGGTTATAACAATTTAAA
1 CAAATAAACTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAAGATCATAATGATTTGAA
* * * * * *** ** *
17268 ATAGATAATTATTCAAATAGTCATAACTATTTGTATTGGTTAGGCCAACCGATTCATTTTTTAAA
66 AT-GAAAATTGTTCAAATAGTCATAACTATTTGAATTTGTTCGATAAATAGATTTATTTTTTAAA
* * * *
17333 TC-CATTACACATTAATTTTT-AGAATATTAATAAATTAGCATTATTTTATTCTAAATAAGAC-T
130 TCTC-TT-C-TATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAA-ACTT
* * * * **
17395 ATATCAA-TAGAAACAATTATTTTATGACAAAACAAATGGTCATAATGATTTGAAAT-GAATAAC
190 A-ATGAACT-GATACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAG-ATAA-
* * * * ** * * *
17458 TT-TTCAAATTGTTATAACTAATTGAACTAGTTTGGTAAATAGATTTATTTTTCAAATCTCTTAT
251 TTGTTCAAATGGTTATGACTATTTGAACTTGTTCAGTAAACATATTTATTTTT-AAA-ATC-TA-
* *
17522 TGATTTTCAAAATATTAATCAATTAATATTATTATATTC
312 --A---T---AA-ATTAAT-TATT-AGA--A-TAT-TTC
* * * * * * * * *
17561 TAAACAAACTTATATGAACA-AAACATTTGTTTTACGACAAAACAAAAGGTCATAACGATTTGAA
1 CAAATAAACTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAAGATCATAATGATTTGAA
* * * * * * * * * * *
17625 ATAAATAATTATTCATATATTTATAACTATTTAAAACTAGATCGATAAACAGATTTAGTTTTTAA
66 ATGAA-AATTGTTCAAATAGTCATAACTATTT-GAATTTGTTCGATAAATAGATTTATTTTTTAA
* * ** *
17690 ATAC-C-T-TATTAATTTTTGAAATATCAATAAATTAGTATTATTTTATTCTGAATAATTTTGTA
129 AT-CTCTTCTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAACTT-AA
** * * * * *
17752 TGAACAAAAACAATTATTTTACGACAAAACAAAATGTCATAACAATTTGAAATAGATAATAGTTC
192 TGAACTGATACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTC
* ** * * * * * *
17817 AAATAGACATAAGTATTTGAACCTGTTTAGTAAATTTTCATCTCATTAATTTTATAATAT-TAAT
257 AAATGGTTATGACTATTTGAACTTGTTCAGTAAA----CA--T-ATTTATTTT-TAAAATCTAAT
* ***
17881 AAATT-AGTATTATTTTATTGT-
314 AAATTAATTATTAGAATATT-TC
* ** * * **
17902 -AAATAAAATTGTATGAATAGAAACAATTATTTTATGACCAAACAAAATATCATAACAATTTGAA
1 CAAATAAACTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAAGATCATAATGATTTGAA
* * *** * * *
17966 ATAAATAATTGTTCAAATAGTCA-AACTATTTGAACTCACTCGTTAAACATATTTATTTTTTAAA
66 ATGAA-AATTGTTCAAATAGTCATAACTATTTGAATTTGTTCGATAAATAGATTTATTTTTTAAA
* * ***
18030 TCTTTTACTTATTAATTTTTGGAATA--AATAAATTAGTATTATTTTATTCCAAATAAGA-TTAT
130 TCTCTT-C-TATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAA-ACTTA-
* * *
18092 ATGAACAT-AAACAATTAG-TTTATGACAAAAAAAAAGGTCATAACAATTTGAAATAGATAATTA
191 ATGAAC-TGATACAATT-GTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTG
* * * * * *
18155 TTTATATAGTTATAACTATTTGAACATGTTCAGAAAACATATTTATTTTTAAAAT
254 TTCAAATGGTTATGACTATTTGAACTTGTTCAGTAAACATATTTATTTTTAAAAT
18210 TTTTACTTTT
Statistics
Matches: 1605, Mismatches: 327, Indels: 263
0.73 0.15 0.12
Matches are distributed among these distances:
333 5 0.00
334 10 0.01
335 116 0.07
336 189 0.12
337 77 0.05
338 4 0.00
339 32 0.02
340 143 0.09
341 180 0.11
342 5 0.00
343 17 0.01
345 3 0.00
346 3 0.00
347 4 0.00
348 3 0.00
349 2 0.00
350 1 0.00
352 1 0.00
353 5 0.00
354 126 0.08
355 6 0.00
356 5 0.00
357 69 0.04
358 251 0.16
359 83 0.05
360 12 0.01
361 85 0.05
362 162 0.10
363 5 0.00
366 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.40
Consensus pattern (335 bp):
CAAATAAACTTGTATGAATAGAAACAATTATTTTACAACAAAACAAAAGATCATAATGATTTGAA
ATGAAAATTGTTCAAATAGTCATAACTATTTGAATTTGTTCGATAAATAGATTTATTTTTTAAAT
CTCTTCTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAACTTAATGAA
CTGATACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAAT
GGTTATGACTATTTGAACTTGTTCAGTAAACATATTTATTTTTAAAATCTAATAAATTAATTATT
AGAATATTTC
Found at i:17122 original size:358 final size:353
Alignment explanation
Indices: 16457--18350 Score: 1495
Period size: 358 Copynumber: 5.3 Consensus size: 353
16447 TATTTTTAAA
* * * **
16457 ATTAATAAATTTATATTATTTTATT-TGGAATAAGCTTGTATGAATTGAAACAATTATTTTACAA
1 ATTAATAAATTAATATTA-TTTATTCT-AAATAAGCTTGTATGAA-TAAAACAATTATTTTATGA
* * * * * * *
16521 CAAAACAAAATGTCATAATGATTTGAAATGGAA-AATTGTTCGAATAGTCATAACTATTTGAATT
63 C-AAACAAAAGGTCATAACGATTTGAAAT-AAATAATTATTCAAATAGTCATAACTATTAGAACT
* * * * *
16585 TGTTCGATAAATAGATTTATTTTTTAAATCTCTTACTCATTAATTTTTGAAATATTAATAAATTA
126 TATTCGGTAAACAGATTTATTTTTTAAATCT-TTACTTATTAATTTTTG-AATAATAATAAATTA
* * * * * **
16650 GTATTATTTTATTTCAAATAAACCTATATGAACT-GATACAATTGTTTTATGATGAAACAAAAGG
189 GTATTATTTTAATTCAAATAAGCTTATATGAA-TAGAAACAATTATTTTATGACAAAACAAAAGG
* * *
16714 TCATAACGATTTGAAATAGATAATTATTCAAATGGTTATGACTGTTTGAACTTATTCAGTAAACA
253 TCATAACGATTTGAAATAGATAATTATTCAAATAGTTATAACTATTTGAAC-TATTC-GTAAACA
16779 TATTTATTTTTAAATTTTTTTACTTATTAATTGTCGAAAT
316 TATTTATTTTTAAA-TTTTTTACTTATTAATT-TCGAAAT
** * *
16819 ATTAATAAATTAATATTAGTTTAAACTAAATAAGCTTGTATGAATGAAAATAATTGTTTTATGAC
1 ATTAATAAATTAATATTA-TTTATTCTAAATAAGCTTGTATGAAT-AAAACAATTATTTTATGAC
*
16884 AAA-AAAA-GTCATAACGATTTGAAATAAATAACTATTCAAATAGTCATAA-TGATTAGAACTTA
64 AAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATAACT-ATTAGAACTTA
* * * * * * **
16946 TTTGGTAATCAAAGTTATTTTGTAAATCTTTACTTATTAATTGTCTGAATAATAATAAATTTTTA
128 TTCGGTAAACAGATTTATTTTTTAAATCTTTACTTATTAATT-TTTGAATAATAATAAATTAGTA
* * * *
17011 TTATTTTAATTGAAATAAGCTTGTATGAATAGAAAAAATTATTTTATGACAAAACAAAAGGTTAT
192 TTATTTTAATTCAAATAAGCTTATATGAATAGAAACAATTATTTTATGACAAAACAAAAGGTCAT
* * * * * *
17076 AGCGATTTGATATAGGTAATTGTTGAAATAGTCATAACTATTTGAACTTATTCGATAAACATATT
257 AACGATTTGAAATAGATAATTATTCAAATAGTTATAACTATTTGAAC-TATTCG-TAAACATATT
* * * * * * *
17141 CAGTTTTTAGATCTCTCACTTATTAATTTTTGGAAT
320 TA-TTTTTAAATTTTTTACTTATTAA-TTTCGAAAT
* * * * * *
17177 ATTAATAAATTAAAATTATGTTATTCCT-AGTAAGCTTGTATGAACAAAAATAATTTTTTTGTGA
1 ATTAATAAATTAATATTAT-TTATT-CTAAATAAGCTTGTATGAA-TAAAACAATTATTTTATGA
* * * * * *
17241 CAAA-ATAAAGGGTTATAACAATTTAAAATAGATAATTATTCAAATAGTCATAACTATTTGTA-T
63 CAAACA-AAA-GGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTAGAACT
* * ** * * * ** *
17304 TGGTTAGGCCAACCGATTCATTTTTTAAATCCATTACACATTAATTTTTAGAATATTAATAAATT
126 T-ATTCGGTAAACAGATTTATTTTTTAAAT-CTTTACTTATTAATTTTT-GAATAATAATAAATT
* * *
17369 AGCATTATTTT-ATTCTAAATAAGAC-TATATCAATAGAAACAATTATTTTATGACAAAACAAAT
188 AGTATTATTTTAATTC-AAATAAG-CTTATATGAATAGAAACAATTATTTTATGACAAAACAAAA
* * * *
17432 GGTCATAATGATTTGAAAT-GAATAACTT-TTCAAATTGTTATAACTAATTGAACTAGTTTGGTA
251 GGTCATAACGATTTGAAATAG-ATAA-TTATTCAAATAGTTATAACTATTTGAACTA--TTCGTA
* * * * *
17495 AATAGATTTATTTTTCAAA---TCT-CTTATTGATTTTCAAAAT
312 AACATATTTATTTTT-AAATTTTTTACTTATT-AATTTCGAAAT
* * * * * * * *
17535 ATTAATCAATTAATATTATTATATTCTAAACAAACTTATATGAACAAAACATTTGTTTTACGACA
1 ATTAATAAATTAATATTATT-TATTCTAAATAAGCTTGTATGAATAAAACAATTATTTTATGAC-
* * * *
17600 AAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCATATATTTATAACTATTTAAAAC-TA
64 AAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATAACTA-TTAGAACTTA
* * *
17664 GATCGATAAACAGATTTAGTTTTTAAA----TACCTTATTAATTTTTGAA-ATATCAATAAATTA
128 -TTCGGTAAACAGATTTATTTTTTAAATCTTTA-CTTATTAATTTTTGAATA-AT-AATAAATTA
* ** * * * * *
17724 GTATTATTTT-ATTCTGAATAATTTTGTATGAACAAAAACAATTATTTTACGACAAAACAAAATG
189 GTATTATTTTAATTC-AAATAAGCTTATATGAATAGAAACAATTATTTTATGACAAAACAAAAGG
* * * *
17788 TCATAACAATTTGAAATAGATAA-TAGTTCAAATAG-----AC-A--T-AAGTATT--TGAACCT
253 TCATAACGATTTGAAATAGATAATTA-TTCAAATAGTTATAACTATTTGAACTATTCGTAAACAT
* * * * *
17841 GTTTA---GTAAA-TTTTCATCTCATTAATTT-TATAAT
317 ATTTATTTTTAAATTTTTTA-CTTATTAATTTCGA-AAT
* * **
17875 ATTAATAAATTAGTATTATTTTATTGTAAATAAAATTGTATGAATAGAAACAATTATTTTATGAC
1 ATTAATAAATTAATATTA-TTTATTCTAAATAAGCTTGTATGAATA-AAACAATTATTTTATGA-
** * * * *
17940 CAAACAAAATATCATAACAATTTGAAATAAATAATTGTTCAAATAGTCA-AACTATTTGAACTCA
63 CAAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTAGAACTTA
* * *
18004 CTCGTTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTTTTGGAAT-A-AATAAATTAGT
128 TTCGGTAAACAGATTTATTTTTTAAATC-TTTACTTATTAATTTTT-GAATAATAATAAATTAGT
* * * * *
18067 ATTATTTT-ATTCCAAATAAGATTATATGAACATAAACAATTAGTTTATGACAAAAAAAAAGGTC
191 ATTATTTTAATT-CAAATAAGCTTATATGAATAGAAACAATTATTTTATGACAAAACAAAAGGTC
* * * * *
18131 ATAACAATTTGAAATAGATAATTATTTATATAGTTATAACTATTTGAACATGTTCAGAAAACATA
255 ATAACGATTTGAAATAGATAATTATTCAAATAGTTATAACTATTTGAAC-TATTC-GTAAACATA
* * *
18196 TTTATTTTTAAAATTTTTACTTTTTAATTTCTAGAAT
318 TTTATTTTTAAATTTTTTACTTATTAATTTCGA-AAT
* * * *
18233 ATTAATAAATTTATATTATTTTATT-TGAAATAAGCTTGCATGATTAGAACCAATTATTTTATGA
1 ATTAATAAATTAATATTA-TTTATTCT-AAATAAGCTTGTATGAATA-AAACAATTATTTTATGA
* * * * * *
18297 CAAAACAAAAGGTCATAATGTTTTGAAATAGATAATTGTTCAGATAATCATAAC
63 C-AAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATAAC
18351 AAAAGATTCT
Statistics
Matches: 1216, Mismatches: 236, Indels: 163
0.75 0.15 0.10
Matches are distributed among these distances:
337 3 0.00
338 1 0.00
339 29 0.02
340 49 0.04
341 161 0.13
342 4 0.00
343 16 0.01
344 5 0.00
345 4 0.00
346 3 0.00
347 1 0.00
348 1 0.00
349 3 0.00
350 2 0.00
351 3 0.00
352 2 0.00
353 6 0.00
354 107 0.09
355 1 0.00
357 74 0.06
358 388 0.32
359 86 0.07
360 6 0.00
361 77 0.06
362 177 0.15
363 7 0.01
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.40
Consensus pattern (353 bp):
ATTAATAAATTAATATTATTTATTCTAAATAAGCTTGTATGAATAAAACAATTATTTTATGACAA
ACAAAAGGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATAACTATTAGAACTTATTC
GGTAAACAGATTTATTTTTTAAATCTTTACTTATTAATTTTTGAATAATAATAAATTAGTATTAT
TTTAATTCAAATAAGCTTATATGAATAGAAACAATTATTTTATGACAAAACAAAAGGTCATAACG
ATTTGAAATAGATAATTATTCAAATAGTTATAACTATTTGAACTATTCGTAAACATATTTATTTT
TAAATTTTTTACTTATTAATTTCGAAAT
Found at i:17554 original size:539 final size:536
Alignment explanation
Indices: 16457--18350 Score: 1444
Period size: 539 Copynumber: 3.6 Consensus size: 536
16447 TATTTTTAAA
* * * *
16457 ATTAATAAATTTATATTATTTTATTTGGAATAAGCTTGTATGAATTGAAACAATTATTTTACAAC
1 ATTAATAAATTTATATTATTTTAATTGAAATAAGCTTGTATGAATAGAAACAATTATTTTACGAC
* * * *
16522 AAAACAAAATGTCATAATGATTTGAAAT-GGAAAATTGTTCG-AATAGTCATAACTATTTGAATT
66 AAAACAAAAGGTCATAACGATTTGAAATAGG-TAATTGTT-GAAATAGTCATAACTATTTGAACT
* * * * *
16585 TGTTCGATAAATAGATTTATTTTTTAAATCTCTTACTCATTAATTTTTGAAATATTAATAAATTA
129 TATTCGATAAACAGATTTAGTTTTT-AATCTCTCACTTATTAATTTTTGAAATATTAATAAATTA
* * * ** * * **
16650 GTATTATTTTATTTCAAATAAACCTATATGAACTGATACAATTGTTTTATGATGAAACAAAAGGT
193 GTATTATTTTA-TTCTAATAAACTTGTATGAACAAAAACAATTATTTTATGACAAAACAAAAGGT
* * * * * * *
16715 CATAACGATTTGAAATAGATAATTATTCAAATGGTTATGACTGTTTGAACTTATTCAGTAAACAT
257 CATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTATTCAGCAAACAG
* *** ** * *
16780 ATTTATTTTTAAATTTTTTTACTTATTAATTGTCGAAATATTAATAAATTAATATTAGTTTAAAC
322 ATTCATTTTTAAATTCCATTACACATTAATTGTAGAAATATTAATAAATTAACATTAGTTTAAAC
* * * *
16845 TAAATAAGCTTGTATGAATGAAAATAATTGTTTTATGACAAAAAAAGTCATAACGATTTGAAATA
387 TAAATAAGCTTATATCAATGAAAACAATTATTTTATGACAAAAAAAGTCATAACGATTTGAAATA
*
16910 AATAACTATTCAAATAGTCATAATGATTAGAACTTATTTGGTAATCAAAGTTATTTTGTAAATCT
452 AATAACTATTCAAATAGTCATAATAATTAGAACTTATTTGGTAATCAAAGTTATTTTGTAAATC-
**
16975 TTACTTATTAATTGTCTGAAT
516 TTACTTATTAATTGTCAAAAT
* * * *
16996 AATAATAAATTTTTATTATTTTAATTGAAATAAGCTTGTATGAATAGAAAAAATTATTTTATGAC
1 ATTAATAAATTTATATTATTTTAATTGAAATAAGCTTGTATGAATAGAAACAATTATTTTACGAC
* * *
17061 AAAACAAAAGGTTATAGCGATTTGATATAGGTAATTGTTGAAATAGTCATAACTATTTGAACTTA
66 AAAACAAAAGGTCATAACGATTTGAAATAGGTAATTGTTGAAATAGTCATAACTATTTGAACTTA
* * * **
17126 TTCGATAAACATATTCAGTTTTTAGATCTCTCACTTATTAATTTTTGGAATATTAATAAATTAAA
131 TTCGATAAACAGATTTAGTTTTTA-ATCTCTCACTTATTAATTTTTGAAATATTAATAAATTAGT
* * * * * * * * *
17191 ATTATGTTATTCCTAGTAAGCTTGTATGAACAAAAATAATTTTTTTGTGACAAAATAAAGGGTTA
195 ATTATTTTATT-CTAATAAACTTGTATGAACAAAAACAATTATTTTATGACAAAACAAAAGGTCA
* * * * *
17256 TAACAATTTAAAATAGATAATTATTCAAATAGTCATAACTATTTGTA-TTGGTT-AGGCCAACCG
259 TAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTT-ATTCA-GCAAACAG
* * * *
17319 ATTCATTTTTTAAA-TCCATTACACATTAATTTTTAG-AATATTAATAAATTAGCATTATTTTAT
322 ATTCA-TTTTTAAATTCCATTACACATTAA-TTGTAGAAATATTAATAAATTAACATTAGTTTAA
* *
17382 TCTAAATAAGAC-TATATCAAT-AGAAACAATTATTTTATGACAAAACAAATGGTCATAATGATT
385 ACTAAATAAG-CTTATATCAATGA-AAACAATTATTTTATGACAAAA-AAA--GTCATAACGATT
* * * * * *
17445 TGAAATGAATAACTTTTCAAATTGTTATAACTAATT-GAAC-TAGTTTGGTAAAT-AGATTTATT
445 TGAAATAAATAACTATTCAAATAGTCATAA-TAATTAGAACTTA-TTTGGT-AATCAAAGTTATT
* *
17507 TT-TCAAATC-T-CTTATTGATTTTCAAAAT
507 TTGT-AAATCTTACTTATTAATTGTCAAAAT
* * * * * * * * * *
17535 ATTAATCAATTAATATTATTAT-ATTCTAAACAAACTTATATGAACA-AAACATTTGTTTTACGA
1 ATTAATAAATTTATATTATTTTAATT-GAAATAAGCTTGTATGAATAGAAACAATTATTTTACGA
** * * * * * *
17598 CAAAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCATATATTTATAACTATTTAAAAC-
65 CAAAACAAAAGGTCATAACGATTTGAAATAGGTAATTGTTGAAATAGTCATAACTATTT-GAACT
* * * *
17662 TAGATCGATAAACAGATTTAGTTTTTAA-AT-AC-CTTATTAATTTTTGAAATATCAATAAATTA
129 TA-TTCGATAAACAGATTTAGTTTTTAATCTCTCACTTATTAATTTTTGAAATATTAATAAATTA
** * *
17724 GTATTATTTTATTCTGAATAATTTTGTATGAACAAAAACAATTATTTTACGACAAAACAAAATGT
193 GTATTATTTTATTCT-AATAAACTTGTATGAACAAAAACAATTATTTTATGACAAAACAAAAGGT
* * * * * *
17789 CATAACAATTTGAAATAGATAA-TAGTTCAAATAGACATAAGTATTTGAACCTGTTTAG----TA
257 CATAACAATTTGAAATAGATAATTA-TTCAAATAGTCATAACTATTTGAACTTATTCAGCAAACA
* * * ** * **
17849 -A---A---TT---TT-CA-T-CTCATTAATTTTA-TAATATTAATAAATTAGTATTATTTTATT
321 GATTCATTTTTAAATTCCATTACACATTAATTGTAGAAATATTAATAAATTAACATTAGTTTAAA
* ** * * * *
17900 GTAAATAAAATTGTATGAAT-AGAAACAATTATTTTATGACCAAACAAAATATCATAACAATTTG
386 CTAAATAAGCTTATATCAATGA-AAACAATTATTTTATGA-CAAA-AAAA-GTCATAACGATTTG
* * * * * * * * * * *
17964 AAATAAATAATTGTTCAAATAGTCA-AACT-ATTTGAACTCACTCGTTAAACATATTTATTTTTT
447 AAATAAATAACTATTCAAATAGTCATAA-TAATTAGAACTTATTTGGTAATCAAAGTTATTTTGT
* ***
18027 AAATCTTTTACTTATTAATTTTTGGAAT
511 AAATC--TTACTTATTAATTGTCAAAAT
* * * * * * *
18055 A--AATAAA-TTAGTATTATTTT-ATTCCAAATAAGATTATATGAACATAAACAATTAGTTTATG
1 ATTAATAAATTTA-TATTATTTTAATT-GAAATAAGCTTGTATGAATAGAAACAATTATTTTACG
* * * * * * * *
18116 ACAAAAAAAAAGGTCATAACAATTTGAAATAGATAATTATTTATATAGTTATAACTATTTGAACA
64 ACAAAACAAAAGGTCATAACGATTTGAAATAGGTAATTGTTGAAATAGTCATAACTATTTGAACT
* * * * * *
18181 TGTTCAGA-AAACATATTTA-TTTTTAAAAT-TTTTACTTTTTAATTTCT-AGAATATTAATAAA
129 TATTC-GATAAACAGATTTAGTTTTT--AATCTCTCACTTATTAATTTTTGA-AATATTAATAAA
* * ** * *
18242 TTTA-TATTATTTTATT-TGAAATAAGCTTGCATGATTAGAACCAATTATTTTATGACAAAACAA
190 -TTAGTATTATTTTATTCT--AATAAACTTGTATGAACAAAAACAATTATTTTATGACAAAACAA
*** * * *
18305 AAGGTCATAATGTTTTGAAATAGATAATTGTTCAGATAATCATAAC
252 AAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAAC
18351 AAAAGATTCT
Statistics
Matches: 1100, Mismatches: 205, Indels: 118
0.77 0.14 0.08
Matches are distributed among these distances:
515 5 0.00
516 26 0.02
517 105 0.10
518 62 0.06
519 76 0.07
520 19 0.02
521 106 0.10
522 4 0.00
523 2 0.00
527 1 0.00
530 1 0.00
534 4 0.00
535 122 0.11
536 3 0.00
537 1 0.00
538 76 0.07
539 397 0.36
540 19 0.02
541 3 0.00
542 61 0.06
543 7 0.01
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.40
Consensus pattern (536 bp):
ATTAATAAATTTATATTATTTTAATTGAAATAAGCTTGTATGAATAGAAACAATTATTTTACGAC
AAAACAAAAGGTCATAACGATTTGAAATAGGTAATTGTTGAAATAGTCATAACTATTTGAACTTA
TTCGATAAACAGATTTAGTTTTTAATCTCTCACTTATTAATTTTTGAAATATTAATAAATTAGTA
TTATTTTATTCTAATAAACTTGTATGAACAAAAACAATTATTTTATGACAAAACAAAAGGTCATA
ACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTATTCAGCAAACAGATTC
ATTTTTAAATTCCATTACACATTAATTGTAGAAATATTAATAAATTAACATTAGTTTAAACTAAA
TAAGCTTATATCAATGAAAACAATTATTTTATGACAAAAAAAGTCATAACGATTTGAAATAAATA
ACTATTCAAATAGTCATAATAATTAGAACTTATTTGGTAATCAAAGTTATTTTGTAAATCTTACT
TATTAATTGTCAAAAT
Found at i:18296 original size:180 final size:179
Alignment explanation
Indices: 17861--18338 Score: 565
Period size: 178 Copynumber: 2.7 Consensus size: 179
17851 TTTTCATCTC
* *
17861 ATTAATTTTATAATATTAATAAATTAGTATTATTTTA-TTGTAAATAAAATTGTATGAATAGAAA
1 ATTAATTTTAGAATATTAATAAATTAGTATTATTTTATTTG-AAATAAGATTGTATGAATAGAAA
* ** * *
17925 CAATTATTTTATGACCAAACAAAATATCATAACAATTTGAAATAAATAATTGTTCAAATAGTCAA
65 CAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCAA
* *
17990 ACTATTTGAACTCACTCGTTAAACATATTTATTTTTTAAATCTTTTACTT
130 ACTATTTGAACTCACTCGTAAAACATATTTATTTTTAAAATCTTTTACTT
* ** * * *
18040 ATTAATTTTTGGAATA--AATAAATTAGTATTATTTTATTCCAAATAAGATTATATGAACATAAA
1 ATTAA-TTTTAGAATATTAATAAATTAGTATTATTTTATTTGAAATAAGATTGTATGAATAGAAA
* * * * *
18103 CAATTAGTTTATGACAAAAAAAAAGGTCATAACAATTTGAAATAGATAATTATTTATATAGTTAT
65 CAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCA-
**
18168 AACTATTTGAACAT-GTTCAG-AAAACATATTTATTTTTAAAAT-TTTTACTT
129 AACTATTTGAAC-TCACTC-GTAAAACATATTTATTTTTAAAATCTTTTACTT
* * * *
18218 TTTAATTTCTAGAATATTAATAAATTTA-TATTATTTTATTTGAAATAAGCTTGCATGATTAGAA
1 ATTAATTT-TAGAATATTAATAAA-TTAGTATTATTTTATTTGAAATAAGATTGTATGAATAGAA
* *** *
18282 CCAATTATTTTATGACAAAACAAAAGGTCATAATGTTTTGAAATAGATAATTGTTCA
64 ACAATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCA
18339 GATAATCATA
Statistics
Matches: 250, Mismatches: 40, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
177 3 0.01
178 111 0.44
179 40 0.16
180 93 0.37
181 3 0.01
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (179 bp):
ATTAATTTTAGAATATTAATAAATTAGTATTATTTTATTTGAAATAAGATTGTATGAATAGAAAC
AATTATTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCAAA
CTATTTGAACTCACTCGTAAAACATATTTATTTTTAAAATCTTTTACTT
Found at i:18506 original size:20 final size:20
Alignment explanation
Indices: 18464--18523 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
18454 CTATAAATCA
*
18464 TATACTTAAATTAA-TAA-AT
1 TATA-TTAAAATAATTAATAT
*
18483 TATA-TAATAATAATTATTAT
1 TATATTAA-AATAATTAATAT
18503 TATATTAAAATAATTAATAT
1 TATATTAAAATAATTAATAT
18523 T
1 T
18524 TAATAATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 4 0.12
19 6 0.18
20 18 0.53
21 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTAAAATAATTAATAT
Found at i:19228 original size:18 final size:19
Alignment explanation
Indices: 19204--19253 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
19194 ATAATCATTA
19204 ATATATTATAATTTAT-AT
1 ATATATTATAATTTATAAT
*
19222 TTATATTAATAA-TTATAAT
1 ATATATT-ATAATTTATAAT
*
19241 ATAAATTATAATT
1 ATATATTATAATT
19254 ACAAAATATC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATATTATAATTTATAAT
Found at i:19525 original size:15 final size:15
Alignment explanation
Indices: 19507--19546 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19497 TAAAATGAAT
*
19507 AATAATATTATTATC
1 AATAATATAATTATC
*
19522 AATAATATAATTATT
1 AATAATATAATTATC
19537 AA-AATATAAT
1 AATAATATAAT
19547 ATATAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATATAATTATC
Found at i:19624 original size:29 final size:27
Alignment explanation
Indices: 19571--19640 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 27
19561 TTGCTTTATT
* * *
19571 AACAAATT-AT-TAATTTATTATTATA
1 AACAAATTAATATTATTTAATAATATA
19596 AACAATATTAATAATTATTTAATAATATA
1 AACAA-ATTAAT-ATTATTTAATAATATA
*
19625 AATAAATTAATATTAT
1 AACAAATTAATATTAT
19641 AATATACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 5 0.14
26 3 0.08
27 7 0.19
28 6 0.16
29 16 0.43
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (27 bp):
AACAAATTAATATTATTTAATAATATA
Found at i:19628 original size:20 final size:20
Alignment explanation
Indices: 19599--19661 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
19589 TATTATAAAC
*
19599 AATATTAATAATTATTTAAT
1 AATATAAATAATTATTTAAT
19619 AATATAAATAAATTAATATT-AT
1 AATATAAAT-AATT-AT-TTAAT
*
19641 AATATACAAT-ATTATATAAT
1 AATATA-AATAATTATTTAAT
19661 A
1 A
19662 TAATAATTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
19 1 0.03
20 13 0.36
21 7 0.19
22 10 0.28
23 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AATATAAATAATTATTTAAT
Found at i:19663 original size:22 final size:21
Alignment explanation
Indices: 19599--19666 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
19589 TATTATAAAC
* * *
19599 AATATTAATAATTATTTA-AT
1 AATATAAATAATTAATAATAT
*
19619 AATATAAATAAATTAATATTAT
1 AATATAAAT-AATTAATAATAT
19641 AATATACAAT-ATTATATAATAT
1 AATATA-AATAATTA-ATAATAT
19663 AATA
1 AATA
19667 ATTGTCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 8 0.21
21 10 0.26
22 18 0.46
23 3 0.08
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATAAATAATTAATAATAT
Found at i:19693 original size:26 final size:29
Alignment explanation
Indices: 19650--19706 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 29
19640 TAATATACAA
*
19650 TATTATATAATATAAT-AATTGTCATAATT
1 TATTATATAATATAATAAATT-TAATAATT
19679 TATTAT-TAAT-T-ATAAATTTAATAATT
1 TATTATATAATATAATAAATTTAATAATT
19705 TA
1 TA
19707 AATAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 11 0.42
27 5 0.19
28 4 0.15
29 6 0.23
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
TATTATATAATATAATAAATTTAATAATT
Found at i:20330 original size:15 final size:14
Alignment explanation
Indices: 20304--20334 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
20294 TAATAAGCTA
20304 ATATTTTATATATT
1 ATATTTTATATATT
20318 ATATTTATATATATT
1 ATATTT-TATATATT
20333 AT
1 AT
20335 TATATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTTTATATATT
Found at i:20821 original size:14 final size:14
Alignment explanation
Indices: 20774--20814 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
20764 TGAATAAGTA
*
20774 CTTTAATTT-AATT
1 CTTTATTTTAAATT
*
20787 ATTTATTTTAAATT
1 CTTTATTTTAAATT
20801 CTTTATTTTAAATT
1 CTTTATTTTAAATT
20815 TATTATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (14 bp):
CTTTATTTTAAATT
Found at i:25109 original size:25 final size:25
Alignment explanation
Indices: 25060--25109 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
25050 ATAATTAATG
* *
25060 TTAATATATATAATTATTTATATAA
1 TTAATATATAAAATTATATATATAA
25085 TTAATATATTAAAATTATATA-ATAA
1 TTAATATA-TAAAATTATATATATAA
25110 ATTGATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATATATAAAATTATATATATAA
Found at i:25941 original size:20 final size:20
Alignment explanation
Indices: 25918--25958 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
25908 ATACAACTAT
25918 TAATA-TATTATTAAATATAA
1 TAATATTATT-TTAAATATAA
*
25938 TAATATTATTTTTAATATAA
1 TAATATTATTTTAAATATAA
25958 T
1 T
25959 TGTATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATATTATTTTAAATATAA
Found at i:26136 original size:33 final size:32
Alignment explanation
Indices: 26099--26164 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
26089 TTTATATAGT
26099 AATTA-TAATACTTATAATTATTAATTATTATAA
1 AATTAGTAATACTTA-AATTATTAA-TATTATAA
* *
26132 AATTAGTTACTATTTAAATTATTAATATTATAA
1 AATTAG-TAATACTTAAATTATTAATATTATAA
26165 TCTCTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 13 0.45
34 9 0.31
35 7 0.24
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (32 bp):
AATTAGTAATACTTAAATTATTAATATTATAA
Found at i:26297 original size:21 final size:23
Alignment explanation
Indices: 26271--26328 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 23
26261 AATTATAAAC
*
26271 AATTATTAAAT-TTATATTAT-T
1 AATTATTAAATAATATATTATAT
26292 AATTATT-AATAATATATTATAT
1 AATTATTAAATAATATATTATAT
26314 AATTATTAATATAAT
1 AATTATTAA-ATAAT
26329 TATGCTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.09
21 15 0.47
22 8 0.25
23 1 0.03
24 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTATTAAATAATATATTATAT
Found at i:26329 original size:12 final size:11
Alignment explanation
Indices: 26285--26331 Score: 62
Period size: 12 Copynumber: 4.3 Consensus size: 11
26275 ATTAAATTTA
26285 TATTAT-TAAT
1 TATTATATAAT
26295 TATTA-ATAAT
1 TATTATATAAT
26305 ATATTATATAAT
1 -TATTATATAAT
26317 TATTAATATAAT
1 TATT-ATATAAT
26329 TAT
1 TAT
26332 GCTATTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.27
11 9 0.27
12 15 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATTATATAAT
Found at i:27083 original size:33 final size:32
Alignment explanation
Indices: 27045--27108 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
27035 TAGTACATAA
27045 TAATATACT-TAATTATAATTAAATAACTATTAG
1 TAATAT-CTATAATTATAATTAAA-AACTATTAG
* * *
27078 TAATATTTATAATTATATTTATAAACTATTA
1 TAATATCTATAATTATAATTAAAAACTATTA
27109 ATTATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (32 bp):
TAATATCTATAATTATAATTAAAAACTATTAG
Found at i:27116 original size:32 final size:33
Alignment explanation
Indices: 27054--27116 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
27044 ATAATATACT
*
27054 TAATTATAATTAAATAACTATTAGTAATATTTA
1 TAATTATAATTAAATAACTATTAATAATATTTA
* * *
27087 TAATTATATTTATA-AACTATTAATTATATT
1 TAATTATAATTAAATAACTATTAATAATATT
27117 ATCAATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (33 bp):
TAATTATAATTAAATAACTATTAATAATATTTA
Found at i:27157 original size:15 final size:15
Alignment explanation
Indices: 27137--27190 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
27127 ATTTAACAAT
27137 TTAATATATTTAATA
1 TTAATATATTTAATA
*
27152 TTAATATAATTAATA
1 TTAATATATTTAATA
*
27167 TT-ATATTTTTTAATA
1 TTAATA-TATTTAATA
27182 -TAATA-ATTT
1 TTAATATATTT
27191 TAAATAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.09
14 4 0.12
15 26 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAATATATTTAATA
Found at i:27275 original size:17 final size:17
Alignment explanation
Indices: 27212--27303 Score: 55
Period size: 17 Copynumber: 5.2 Consensus size: 17
27202 TTAAATATCT
*
27212 TATATTTAATTATT-AA
1 TATAATTAATTATTAAA
*
27228 -ATAATTGATTTACTTAAA
1 TATAATT-AATTA-TTAAA
*
27246 GTATTATTTAATTATTAAA
1 -TA-TAATTAATTATTAAA
27265 TATAATTAATTCAATTAAA
1 TATAATTAATT--ATTAAA
* *
27284 T-TAAATATTCTATTAAA
1 TATAATTAAT-TATTAAA
27301 TAT
1 TAT
27304 TTAATAATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
15 5 0.08
16 4 0.07
17 17 0.29
18 11 0.19
19 13 0.22
20 5 0.08
21 4 0.07
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (17 bp):
TATAATTAATTATTAAA
Found at i:27375 original size:15 final size:16
Alignment explanation
Indices: 27357--27396 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
27347 TCTTAATTCT
27357 TATTTAATTAA-TAAA
1 TATTTAATTAACTAAA
*
27372 TATTTAATTAACTATA
1 TATTTAATTAACTAAA
27388 TATATTAAT
1 TAT-TTAAT
27397 AAATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 6 0.27
17 5 0.23
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTAATTAACTAAA
Found at i:27442 original size:17 final size:17
Alignment explanation
Indices: 27389--27463 Score: 55
Period size: 17 Copynumber: 4.3 Consensus size: 17
27379 TTAACTATAT
*
27389 ATATTAATAAATTTATTA
1 ATATAAATAAA-TTATTA
* *
27407 ATATAAAT-TATTAAATA
1 ATATAAATAAATT-ATTA
*
27424 ATTTAAATAAATTATTA
1 ATATAAATAAATTATTA
*
27441 ATA-AATATAATTTATTA
1 ATATAA-ATAAATTATTA
27458 TATATA
1 -ATATA
27464 TGACATTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
16 4 0.09
17 26 0.59
18 13 0.30
19 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAAATAAATTATTA
Found at i:27647 original size:13 final size:14
Alignment explanation
Indices: 27631--27727 Score: 55
Period size: 13 Copynumber: 7.1 Consensus size: 14
27621 GTTAAATATT
*
27631 TTAATTAATTAA-A
1 TTAAATAATTAATA
27644 TTAAAT-ATTAATA
1 TTAAATAATTAATA
*
27657 TTAAATAATTATTA
1 TTAAATAATTAATA
*
27671 TT-ACTAA-TAA-A
1 TTAAATAATTAATA
*
27682 TTATAATTA-TAATAA
1 TTA-AATAATTAAT-A
* *
27697 TT-ATTAATTATTTA
1 TTAAATAATTA-ATA
27711 TGTAAATAATTAATA
1 T-TAAATAATTAATA
27726 TT
1 TT
27728 TGATAATATA
Statistics
Matches: 63, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
11 3 0.05
12 7 0.11
13 25 0.40
14 13 0.21
15 8 0.13
16 7 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
TTAAATAATTAATA
Found at i:27659 original size:22 final size:23
Alignment explanation
Indices: 27569--27727 Score: 72
Period size: 22 Copynumber: 7.0 Consensus size: 23
27559 CCAATTTTTA
* *
27569 TAATTATTA-TAAATATTAGT-T
1 TAATTATAATTAAATATTAATAT
27590 T-ATTAATAATATACAATA-TAATAT
1 TAATT-ATAAT-TA-AATATTAATAT
* *
27614 T-ATTATAGTTAAATATT-TTAAT
1 TAATTATAATTAAATATTAAT-AT
27636 TAATTA-AATTAAATATTAATAT
1 TAATTATAATTAAATATTAATAT
* *
27658 TAA--ATAATT-ATTATTACTAAT
1 TAATTATAATTAAATATTAAT-AT
* *
27679 AAATTATAATTATAATA--ATTAT
1 TAATTATAATTA-AATATTAATAT
*
27701 TAATTATTTATGTAAATAATTAATAT
1 TAATTA-TAAT-TAAAT-ATTAATAT
27727 T
1 T
27728 TGATAATATA
Statistics
Matches: 104, Mismatches: 14, Indels: 35
0.68 0.09 0.23
Matches are distributed among these distances:
20 11 0.11
21 17 0.16
22 28 0.27
23 28 0.27
24 12 0.12
25 3 0.03
26 5 0.05
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATTATAATTAAATATTAATAT
Found at i:27694 original size:16 final size:15
Alignment explanation
Indices: 27636--27707 Score: 64
Period size: 16 Copynumber: 4.9 Consensus size: 15
27626 ATATTTTAAT
27636 TAATTA-AATTA-AA
1 TAATTATAATTATAA
27649 T-ATTA-ATATTA-AA
1 TAATTATA-ATTATAA
*
27662 TAATTATTATTACTAA
1 TAATTATAATTA-TAA
27678 TAAATTATAATTATAA
1 T-AATTATAATTATAA
27694 TAATTATTAATTAT
1 TAATTA-TAATTAT
27708 TTATGTAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
12 5 0.10
13 8 0.16
14 8 0.16
15 5 0.10
16 14 0.28
17 10 0.20
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATAATTATAA
Found at i:28240 original size:18 final size:16
Alignment explanation
Indices: 28216--28257 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
28206 CATTTTTATT
28216 AATTAATAAATAACTTA
1 AATTAATAAATAAC-TA
28233 ATATTAAT-AATAACTA
1 A-ATTAATAAATAACTA
28249 AATTAATAA
1 AATTAATAA
28258 CTAAATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.26
16 4 0.17
17 7 0.30
18 6 0.26
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTAATAAATAACTA
Found at i:28245 original size:21 final size:22
Alignment explanation
Indices: 28212--28256 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
28202 TAATCATTTT
*
28212 TATTAATTAATAAATAACTTAA
1 TATTAATTAATAAATAAATTAA
*
28234 TATTAA-TAATAACTAAATTAA
1 TATTAATTAATAAATAAATTAA
28255 TA
1 TA
28257 ACTAAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTAATTAATAAATAAATTAA
Found at i:28257 original size:12 final size:12
Alignment explanation
Indices: 28240--28269 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
28230 TTAATATTAA
28240 TAATAACTAAAT
1 TAATAACTAAAT
28252 TAATAACTAAAT
1 TAATAACTAAAT
*
28264 TGATAA
1 TAATAA
28270 TATTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (12 bp):
TAATAACTAAAT
Found at i:28690 original size:182 final size:180
Alignment explanation
Indices: 28327--28981 Score: 656
Period size: 182 Copynumber: 3.7 Consensus size: 180
28317 TAAAATTTAA
* ** * * *
28327 TGTTTTATGACAAAACAAAAA-TCATAACAATTGGAGATAGATAATTGTTCAAATAGTCATAACT
1 TGTTTTATGACAAAACAAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACT
* * * * *
28391 ATTTGAACTGGTTCGATAAAAAGATTTA-GTTTTTAAATCTCTTA---TTAATTTTTAAAATAGT
66 ATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAAATCTCTTACTTTTAATTTTTGAAATATT
* ** * *
28452 AATAAAATAGTATTATTTTA-TTCTAAATAATTTTGTATGAATAGAACCAAT
131 AATAAATTAGTATTATTTTATTTC-AAATAAGCTAGTATGAAT-GAAACAAT
* * *
28503 TGTTTTATGACAAAACAAAAGGTTGTAATGTTTTGAAATAGATAATTATT-AAGATAGTCATAAC
1 TGTTTTATGACAAAACAAAAAGTTATAATGATTTGAAATAGATAATTATTCAA-ATAGTCATAAC
* * *
28567 TATTTGAACTTGTTCGATAAACATATTTATTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATA
65 TATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAAATCTCTTAC-TTTTAATTTTTGAAATA
**
28632 TTAATAAATTAGTATTATTTTATTTCAAATAAGCTAACATGAATTGAAACAAT
129 TTAATAAATTAGTATTATTTTATTTCAAATAAGCTAGTATGAA-TGAAACAAT
* * * * *
28685 TGTTTTATTACAAAACAAAATGTTACAATGATTTGAAGTAGATAATTATTCAAATAGTCATGACT
1 TGTTTTATGACAAAACAAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACT
* ** * * *
28750 ATTTGAACTTGTTTGGCAAAC----TTATTTTTTAAAATCTTTTACTTATTAATTATTGAAATAT
66 ATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAAATCTCTTACTT-TTAATTTTTGAAATAT
* * * *
28811 TAATAAATCAATATTATTTTATTT-GAATAAGCTCGTATAGACA-GAAACAAT
130 TAATAAATTAGTATTATTTTATTTCAAATAAGCTAGTAT-GA-ATGAAACAAT
* * * * * *
28862 TGTTTTATGACAAAATAAAAAAGTCATAA-GAATTTAAAATAAATAATTATTCAGATAGTCAAAA
1 TGTTTTATGACAAAA-CAAAAAGTTATAATG-ATTTGAAATAGATAATTATTCAAATAGTCATAA
* * * * *
28926 CGATTTGAATTTGTTCGATAAATAGATTTA-TTTTTTAAATCTTTTATTTATTAATT
64 CTATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAAATCTCTTACTT-TTAATT
28982 GTCTTATTAA
Statistics
Matches: 396, Mismatches: 64, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
176 22 0.06
177 92 0.23
178 123 0.31
179 1 0.00
181 24 0.06
182 128 0.32
183 6 0.02
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
TGTTTTATGACAAAACAAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACT
ATTTGAACTTGTTCGATAAACAGATTTATTTTTTTAAATCTCTTACTTTTAATTTTTGAAATATT
AATAAATTAGTATTATTTTATTTCAAATAAGCTAGTATGAATGAAACAAT
Found at i:28992 original size:178 final size:173
Alignment explanation
Indices: 28327--28994 Score: 589
Period size: 178 Copynumber: 3.8 Consensus size: 173
28317 TAAAATTTAA
** * * *
28327 TGTTTTATGACAAAACAAAAA-TCATAACAATTGGAGATAGATAATTGTTCAAATAGTCATAACT
1 TGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACT
* * * * ** *
28391 ATTTGAACTGGTTCGATAAAAAGATTTAGTTTTTAAATCTCTTATTAATT-TTTAAAATAGTAAT
66 ATTTGAACTTGTTCGAT-AAAAGATTTATTTTTTAAATCTCTTATTTATTAATTATTATATTAAT
** * *
28455 AAAATAGTATTATTTTATTCTAAATAATTTTGTATGAATAGAACCAAT
130 -AAATAGTATTATTTTATT-TAAATAAGCTAGTATG-A-AGAAACAAT
* ** *
28503 TGTTTTATGACAAAACAAAAGGTTGTAATGTTTTGAAATAGATAATTATT-AAGATAGTCATAAC
1 TGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAGATAATTATTCAA-ATAGTCATAAC
* * *
28567 TATTTGAACTTGTTCGATAAACATATTTATTTTTTTAATTCTCTTACTTT-TTAATTTTTGGAAT
65 TATTTGAACTTGTTCGATAAA-AGATTTA-TTTTTTAAATCTCTTA-TTTATTAATTATT---AT
**
28631 ATTAATAAATTAGTATTATTTTATTTCAAATAAGCTAACATGAATTGAAACAAT
124 ATTAATAAA-TAGTATTATTTTATTT-AAATAAGCTAGTATGAA--GAAACAAT
* * * * * *
28685 TGTTTTATTACAAAACAAAATGTTACAATGATTTGAAGTAGATAATTATTCAAATAGTCATGACT
1 TGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACT
* ** * * *
28750 ATTTGAACTTGTTTG--GCAA-ACTTATTTTTTAAAATCTTTTACTTATTAATTATTGAAATATT
66 ATTTGAACTTGTTCGATAAAAGATTTATTTTTT-AAATCTCTTATTTATTAATTATT---ATATT
* * *
28812 AATAAATCAATATTATTTTATTTGAATAAGCTCGTATAGACAGAAACAAT
127 AATAAAT-AGTATTATTTTATTTAAATAAGCTAGTAT-GA-AGAAACAAT
* * * * *
28862 TGTTTTATGACAAAATAAAAAAGTCATAA-GAATTTAAAATAAATAATTATTCAGATAGTCAAAA
1 TGTTTTATGACAAAA-CAAAAAGTCATAATG-ATTTGAAATAGATAATTATTCAAATAGTCATAA
* * * *
28926 CGATTTGAATTTGTTCGATAAATAGATTTATTTTTTAAATCTTTTATTTATTAATTGTCT-TATT
64 CTATTTGAACTTGTTCGATAAA-AGATTTATTTTTTAAATCTCTTATTTATTAATTAT-TATATT
28990 AATAA
127 AATAA
28995 CTATTTATAA
Statistics
Matches: 401, Mismatches: 65, Indels: 50
0.78 0.13 0.10
Matches are distributed among these distances:
176 25 0.06
177 96 0.24
178 124 0.31
179 6 0.01
180 3 0.01
181 26 0.06
182 119 0.30
183 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (173 bp):
TGTTTTATGACAAAACAAAAAGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACT
ATTTGAACTTGTTCGATAAAAGATTTATTTTTTAAATCTCTTATTTATTAATTATTATATTAATA
AATAGTATTATTTTATTTAAATAAGCTAGTATGAAGAAACAAT
Found at i:29589 original size:13 final size:13
Alignment explanation
Indices: 29568--29598 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
29558 ATAAATAAAG
*
29568 ATTAAATATTATT
1 ATTATATATTATT
29581 ATTATATATTATT
1 ATTATATATTATT
29594 ATTAT
1 ATTAT
29599 CAATAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTATATATTATT
Found at i:29904 original size:19 final size:19
Alignment explanation
Indices: 29865--29904 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29855 ATTTTATAGT
* *
29865 TTGTATATAAATATTTGAA
1 TTGTATATAAATAATTAAA
*
29884 TTGTATATAATTAATTAAA
1 TTGTATATAAATAATTAAA
29903 TT
1 TT
29905 AATTAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTGTATATAAATAATTAAA
Found at i:30359 original size:21 final size:19
Alignment explanation
Indices: 30324--30374 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
30314 TAATAATATA
30324 ATTAT-ATAG-TATTTAGTAT
1 ATTATAATAGATATTTA--AT
30343 ATTATAATAGATATTTAAT
1 ATTATAATAGATATTTAAT
30362 -TTATAATA-ATATT
1 ATTATAATAGATATT
30375 ATATAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
19 7 0.23
20 4 0.13
21 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (19 bp):
ATTATAATAGATATTTAAT
Found at i:30454 original size:26 final size:25
Alignment explanation
Indices: 30421--30475 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
30411 AATATTAAGT
30421 AATT-ATTAATATTAATTAAATTATA
1 AATTAATTAATATTAATTAAA-TATA
* * *
30446 AATTAATTACTTTTAATTAAATATT
1 AATTAATTAATATTAATTAAATATA
30471 AATTA
1 AATTA
30476 CTATAAGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTAATTAATATTAATTAAATATA
Found at i:30558 original size:20 final size:19
Alignment explanation
Indices: 30507--30570 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
30497 AAATATTAGT
*
30507 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
30525 TA-TATAAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
30546 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
30566 TATTA
1 TATTA
30571 GTTAGAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 4 0.11
20 19 0.50
21 8 0.21
22 3 0.08
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:30833 original size:22 final size:21
Alignment explanation
Indices: 30806--30861 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
30796 TCTAAAACAA
30806 AATAATTATTTTATTATAATATT
1 AATAATTATTTTATTAT--TATT
*
30829 -ATAATTATCTTAATTATTATT
1 AATAATTAT-TTTATTATTATT
*
30850 AATATTTATTTT
1 AATAATTATTTT
30862 TAATATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 6 0.21
22 15 0.54
23 7 0.25
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
AATAATTATTTTATTATTATT
Found at i:30933 original size:33 final size:32
Alignment explanation
Indices: 30839--30934 Score: 79
Period size: 33 Copynumber: 2.9 Consensus size: 32
30829 ATAATTATCT
* *
30839 TAATTATTAT-TAATATTTATTTTTAATATTAAA
1 TAATTATTATAT-TTATTTATTATTAATA-TAAA
** * *
30872 TAAAAATTA-AGTTATATTATTTAATAATATAAA
1 TAATTATTATATTTAT-TTA-TTATTAATATAAA
30905 TAATTATTATATTTATTTATCTATTAATAT
1 TAATTATTATATTTATTTAT-TATTAATAT
30935 TAATTATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
32 4 0.08
33 32 0.67
34 12 0.25
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (32 bp):
TAATTATTATATTTATTTATTATTAATATAAA
Found at i:31092 original size:16 final size:15
Alignment explanation
Indices: 31073--31151 Score: 60
Period size: 16 Copynumber: 5.3 Consensus size: 15
31063 TAATAAGAAG
31073 AATTAATTATTATAT
1 AATTAATTATTATAT
31088 CAATT-ATT-TTA-AT
1 -AATTAATTATTATAT
*
31101 AATTAATATATAAT-T
1 AATTAAT-TATTATAT
31116 AAATTAAATTATTATAT
1 -AATT-AATTATTATAT
* *
31133 AATTTATTACT-TAT
1 AATTAATTATTATAT
31147 AATTA
1 AATTA
31152 TAAAATAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
12 4 0.08
13 4 0.08
14 11 0.22
15 11 0.22
16 17 0.33
17 4 0.08
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAATTATTATAT
Found at i:31094 original size:12 final size:11
Alignment explanation
Indices: 31076--31152 Score: 59
Period size: 12 Copynumber: 6.6 Consensus size: 11
31066 TAAGAAGAAT
31076 TAATTATTATA
1 TAATTATTATA
*
31087 TCAATTATTTTAA
1 T-AATTATTAT-A
*
31100 TAATTAATATA
1 TAATTATTATA
*
31111 TAATTA-AAT-
1 TAATTATTATA
31120 TAAATTATTATA
1 T-AATTATTATA
31132 TAATTTATTACTTA
1 TAA-TTATTA--TA
31146 TAATTAT
1 TAATTAT
31153 AAAATAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
9 1 0.02
10 7 0.13
11 12 0.23
12 22 0.42
13 6 0.11
14 5 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATTATTATA
Found at i:31188 original size:41 final size:46
Alignment explanation
Indices: 31077--31189 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 46
31067 AAGAAGAATT
*
31077 AATTATTATATCAATTAT-T-TTAATAATTAATATATAATTAAATTA
1 AATTATTATATCAATTATATATT-ATAATTAATATATAATTAAATAA
31122 AATTATTATAT-AATT-TATTACTTATAATT-ATA-A-AA-T-AATAA
1 AATTATTATATCAATTATA-TA-TTATAATTAATATATAATTAAATAA
*
31163 AATTAATATATCAATTATATATTATAA
1 AATTATTATATCAATTATATATTATAA
31190 GATTATAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
41 20 0.33
42 7 0.12
43 5 0.08
44 5 0.08
45 15 0.25
46 6 0.10
47 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (46 bp):
AATTATTATATCAATTATATATTATAATTAATATATAATTAAATAA
Found at i:32236 original size:29 final size:29
Alignment explanation
Indices: 32173--32236 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
32163 GTATTTATTT
*
32173 TTAATAATTTAATAATATTGCATAATATA
1 TTAATAATTTAATAATATTACATAATATA
* **
32202 TT-ATAATTATAATTATATTATTTAA-ATA
1 TTAATAATT-TAATAATATTACATAATATA
32230 TTAATAA
1 TTAATAA
32237 ATATTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TTAATAATTTAATAATATTACATAATATA
Found at i:32567 original size:31 final size:28
Alignment explanation
Indices: 32523--32584 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 28
32513 AATTAATATT
32523 TTAATAACTAATTTTGTAATTATATATAATA
1 TTAATAACTAA-TTTGT-ATTAT-TATAATA
*
32554 TTAATAA-TAAATTTGTATTATTTTAATA
1 TTAATAACT-AATTTGTATTATTATAATA
32582 TTA
1 TTA
32585 CTAAAAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 9 0.31
29 5 0.17
30 6 0.21
31 9 0.31
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (28 bp):
TTAATAACTAATTTGTATTATTATAATA
Found at i:32655 original size:18 final size:18
Alignment explanation
Indices: 32628--32711 Score: 51
Period size: 18 Copynumber: 4.9 Consensus size: 18
32618 CTAATAATAT
*
32628 TAATAATTATATATATAA
1 TAATATTTATATATATAA
32646 TAATATTTAT-TATA-AA
1 TAATATTTATATATATAA
32662 TTTAATATTTA-ATAGT-TATA
1 --TAATATTTATATA-TATA-A
32682 TAA-ATATTA-AT-TATAA
1 TAATAT-TTATATATATAA
32698 T-A-ATTTATATATAT
1 TAATATTTATATATAT
32712 CATTATATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 22
0.71 0.01 0.28
Matches are distributed among these distances:
14 3 0.05
15 5 0.09
16 8 0.15
17 8 0.15
18 28 0.51
19 2 0.04
20 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (18 bp):
TAATATTTATATATATAA
Found at i:33519 original size:20 final size:19
Alignment explanation
Indices: 33481--33523 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
33471 TTAACAAACT
33481 TATTAATATAATAAATTAA
1 TATTAATATAATAAATTAA
33500 TATTAATATTAA-ATAATTAA
1 TATTAATA-TAATA-AATTAA
33520 TATT
1 TATT
33524 TATCTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTAATATAATAAATTAA
Found at i:35107 original size:23 final size:23
Alignment explanation
Indices: 35070--35116 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35060 AATTATTAAA
*
35070 TTAATTAAATAATAATTAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
35093 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
35116 T
1 T
35117 AAAATTACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATTAAATAATAAATAAATAT
Found at i:35722 original size:20 final size:20
Alignment explanation
Indices: 35680--35739 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
35670 CTATAAATCA
*
35680 TATACTTAAATTAA-TAA-AT
1 TATA-TTAAAATAATTAATAT
*
35699 TATA-TAATAATAATTATTAT
1 TATATTAA-AATAATTAATAT
35719 TATATTAAAATAATTAATAT
1 TATATTAAAATAATTAATAT
35739 T
1 T
35740 TAATAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 4 0.12
19 6 0.18
20 18 0.53
21 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTAAAATAATTAATAT
Found at i:35734 original size:17 final size:17
Alignment explanation
Indices: 35691--35747 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
35681 ATACTTAAAT
*
35691 TAATAAATTATATAATAA
1 TAAT-AATTATATATTAA
*
35709 TAATTATTATTATATTAA
1 TAATAATTA-TATATTAA
35727 -AATAATTA-ATATTTAA
1 TAATAATTATATA-TTAA
35743 TAATA
1 TAATA
35748 GTATATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 3 0.09
16 4 0.12
17 15 0.45
18 11 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATTATATATTAA
Found at i:35921 original size:18 final size:19
Alignment explanation
Indices: 35880--35921 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
35870 ATGATAAAAC
35880 AAATAAACTATTTTAATTA
1 AAATAAACTATTTTAATTA
*
35899 TAATAAA-TAATTTT-ATTA
1 AAATAAACT-ATTTTAATTA
35917 AAATA
1 AAATA
35922 TTGTAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATAAACTATTTTAATTA
Found at i:36432 original size:26 final size:24
Alignment explanation
Indices: 36396--36457 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 24
36386 TAAATTTAAT
36396 TAATAATAAATAATCATTAATATATTA
1 TAAT-ATAAATAAT-ATTAATA-ATTA
* *
36423 TAATTTAAATTTATATTAATAATTA
1 TAATATAAA-TAATATTAATAATTA
36448 TAATATAAAT
1 TAATATAAAT
36458 TATAATTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.03
25 12 0.39
26 11 0.35
27 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATATAAATAATATTAATAATTA
Found at i:36510 original size:18 final size:17
Alignment explanation
Indices: 36479--36512 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36469 AATATCCATA
36479 AATTAAATTAAATTTTT
1 AATTAAATTAAATTTTT
*
36496 AATTATAATTTAATTTT
1 AATTA-AATTAAATTTT
36513 ATCTATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTAAATTAAATTTTT
Found at i:36755 original size:14 final size:15
Alignment explanation
Indices: 36718--36760 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
36708 TAAAATGAAT
*
36718 AATAATATTATTATC
1 AATAATATAATTATC
*
36733 AATAATATAATTATT
1 AATAATATAATTATC
36748 AA-AATATAATTAT
1 AATAATATAATTAT
36761 AGTATTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAATATAATTATC
Found at i:36843 original size:16 final size:16
Alignment explanation
Indices: 36824--36854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36814 AAATAATTAT
36824 TTAATAATATAATAAA
1 TTAATAATATAATAAA
*
36840 TTAATATTATAATAA
1 TTAATAATATAATAA
36855 CAATATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAATAATATAATAAA
Found at i:37535 original size:16 final size:15
Alignment explanation
Indices: 37506--37538 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
37496 ATTAATAAGC
37506 TAATATTTTATATAT
1 TAATATTTTATATAT
37521 TAATATTTATATATAT
1 TAATATTT-TATATAT
37537 TA
1 TA
37539 TTATATATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATATTTTATATAT
Found at i:37547 original size:16 final size:16
Alignment explanation
Indices: 37514--37547 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37504 GCTAATATTT
*
37514 TATATATTAATATTTA
1 TATATATTAATATATA
*
37530 TATATATTATTATATA
1 TATATATTAATATATA
37546 TA
1 TA
37548 GTTAATTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATATTAATATATA
Found at i:38012 original size:15 final size:15
Alignment explanation
Indices: 37992--38020 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37982 AATTTAATTA
37992 TTTATTTTAAATTTT
1 TTTATTTTAAATTTT
38007 TTTATTTTAAATTT
1 TTTATTTTAAATTT
38021 ATTATTCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTTTAAATTTT
Done.