Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011561.1 Kokia drynarioides strain JFW-HI SEQ_126550, 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: 165996
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Warning! 29 characters in sequence are not A, C, G, or T
Found at i:4146 original size:66 final size:65
Alignment explanation
Indices: 4040--4166 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 65
4030 AGAAAAAGGA
* * *
4040 ATTAACGGCTATTTGTCAAATTAGCCCCCAATAATAATGGGTAGCTATAATTTTGTTCTATAAAA
1 ATTAACGGCTATTTATCAAATTAGACCCCAATAATAATGGGTAGCTATAATATTGTT-TATAAAA
4105 C
65 C
* *
4106 ATTAAGGGCTATTTATCAAATTAGACCCTAATAATAATGGGTAGCTATAATATTGTTTATA
1 ATTAACGGCTATTTATCAAATTAGACCCCAATAATAATGGGTAGCTATAATATTGTTTATA
4167 CAAAAATGGG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
65 4 0.07
66 52 0.93
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (65 bp):
ATTAACGGCTATTTATCAAATTAGACCCCAATAATAATGGGTAGCTATAATATTGTTTATAAAAC
Found at i:6831 original size:6 final size:6
Alignment explanation
Indices: 6822--6890 Score: 63
Period size: 6 Copynumber: 11.8 Consensus size: 6
6812 GATTTATTTC
* * **
6822 TAAATT TAAATT T-AGTT TAATTT TAAATT TAAATT T-GTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
6868 TAAATT T-AGTT TAAATT TGAAAT
1 TAAATT TAAATT TAAATT T-AAAT
6891 AATTTTGAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
5 11 0.22
6 35 0.70
7 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (6 bp):
TAAATT
Found at i:6848 original size:23 final size:24
Alignment explanation
Indices: 6808--6875 Score: 88
Period size: 23 Copynumber: 2.9 Consensus size: 24
6798 TAGATTAATT
6808 TTTAGATTT-ATTTCTAAATTTAAA
1 TTTAGATTTAATTT-TAAATTTAAA
6832 TTTAG-TTTAATTTTAAATTTAAA
1 TTTAGATTTAATTTTAAATTTAAA
* *
6855 TTT-GTTTTAAATTTAAATTTA
1 TTTAGATTTAATTTTAAATTTA
6876 GTTTAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 1 0.02
23 31 0.76
24 9 0.22
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAGATTTAATTTTAAATTTAAA
Found at i:6862 original size:17 final size:18
Alignment explanation
Indices: 6826--6890 Score: 82
Period size: 17 Copynumber: 3.7 Consensus size: 18
6816 TATTTCTAAA
* *
6826 TTTAAATTT-AGTTTAAT
1 TTTAAATTTAAATTTAGT
6843 TTTAAATTTAAATTT-GT
1 TTTAAATTTAAATTTAGT
6860 TTTAAATTTAAATTTAG-
1 TTTAAATTTAAATTTAGT
6877 TTTAAATTTGAAAT
1 TTTAAATTT-AAAT
6891 AATTTTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
17 34 0.79
18 9 0.21
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (18 bp):
TTTAAATTTAAATTTAGT
Found at i:7384 original size:14 final size:14
Alignment explanation
Indices: 7365--7398 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
7355 GAACAGAAGC
*
7365 AACTAGTATTGGTG
1 AACTAGAATTGGTG
7379 AACTAGAATTGGTG
1 AACTAGAATTGGTG
7393 AACTAG
1 AACTAG
7399 GAAGAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (14 bp):
AACTAGAATTGGTG
Found at i:7726 original size:24 final size:24
Alignment explanation
Indices: 7697--7742 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7687 TTATATATTA
7697 AATAATTTCATTAATGATAATAAT
1 AATAATTTCATTAATGATAATAAT
* *
7721 AATAATTTTATTAATTATAATA
1 AATAATTTCATTAATGATAATA
7743 TTTATTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AATAATTTCATTAATGATAATAAT
Found at i:7735 original size:18 final size:18
Alignment explanation
Indices: 7714--7762 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
7704 TCATTAATGA
7714 TAATAATAATAATTTTAT
1 TAATAATAATAATTTTAT
*
7732 TAATTATAAT-A-TTTAT
1 TAATAATAATAATTTTAT
7748 TCAATAATTAATAAT
1 T-AATAA-TAATAAT
7763 AATAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 6 0.24
17 5 0.20
18 13 0.52
19 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAATAATAATTTTAT
Found at i:7740 original size:21 final size:22
Alignment explanation
Indices: 7697--7769 Score: 78
Period size: 21 Copynumber: 3.3 Consensus size: 22
7687 TTATATATTA
7697 AATAATTTCATTAATGATAATAAT
1 AATAATTTCATTAAT--TAATAAT
*
7721 AATAATTTTATTAATT-ATAAT
1 AATAATTTCATTAATTAATAAT
* * *
7742 ATTTA-TTCAATAATTAATAAT
1 AATAATTTCATTAATTAATAAT
7763 AATAATT
1 AATAATT
7770 AATATATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
20 8 0.20
21 16 0.40
22 2 0.05
24 14 0.35
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (22 bp):
AATAATTTCATTAATTAATAAT
Found at i:7778 original size:21 final size:21
Alignment explanation
Indices: 7714--7782 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
7704 TCATTAATGA
7714 TAATAATAATAATT--T-TAT
1 TAATAATAATAATTAATATAT
*
7732 TAATTATAATATTTATTCAATA-AT
1 TAATAATAATA---ATT-AATATAT
7756 TAATAATAATAATTAATATAT
1 TAATAATAATAATTAATATAT
7777 TAATAA
1 TAATAA
7783 AAAAGAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
18 10 0.24
20 4 0.10
21 14 0.34
24 13 0.32
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATAATAATAATTAATATAT
Found at i:8856 original size:30 final size:28
Alignment explanation
Indices: 8804--8908 Score: 86
Period size: 30 Copynumber: 3.6 Consensus size: 28
8794 AAGCTGTCCA
* * * *
8804 AAAATTATATTTTGACCCCCAAACTTCTTC
1 AAAATTCTATTTTTAACACCAAACTTC--C
8834 AAAATTCTATTTTTAACACCAAAACTTCC
1 AAAATTCTATTTTTAACACC-AAACTTCC
* * *
8863 AAAATT-TACATTTTTACCTCTAAACTTCC
1 AAAATTCT--ATTTTTAACACCAAACTTCC
*
8892 AAAATTCCATTTTTAAC
1 AAAATTCTATTTTTAAC
8909 CCTAAAACTC
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
28 9 0.15
29 21 0.34
30 25 0.40
31 7 0.11
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.38
Consensus pattern (28 bp):
AAAATTCTATTTTTAACACCAAACTTCC
Found at i:8876 original size:29 final size:27
Alignment explanation
Indices: 8800--8917 Score: 74
Period size: 29 Copynumber: 4.0 Consensus size: 27
8790 CCCTAAGCTG
* * *
8800 TCCAAAAATTATATTTTGACCCCCAAACT
1 TCCAAAATTTA-ATTTT-AACCCAAAACT
*
8829 TCTTCAAAATTCTATTTTTAACACCAAAACT
1 TC--CAAAATT-TAATTTTAAC-CCAAAACT
* *
8860 TCCAAAATTTACATTTTTACCTCTAAACT
1 TCCAAAATTTA-ATTTTAACC-CAAAACT
* *
8889 TCCAAAATTCCATTTTTAACCCTAAAACT
1 TCCAAAATT-TAATTTTAACCC-AAAACT
8918 CTAAAAAATC
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
28 4 0.06
29 42 0.60
30 3 0.04
31 19 0.27
32 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (27 bp):
TCCAAAATTTAATTTTAACCCAAAACT
Found at i:8916 original size:58 final size:59
Alignment explanation
Indices: 8800--8917 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 59
8790 CCCTAAGCTG
* *
8800 TCCAAAAATTATATTTTGACCCCCAAACTTCTTCAAAATTCTATTTTTAACACCAAAACT
1 TCCAAAAATTACATTTTGACCCCCAAACTTC-TCAAAATTCCATTTTTAACACCAAAACT
* * * *
8860 TCCAAAATTTACATTTTTACCTCTAAACTTC-CAAAATTCCATTTTTAAC-CCTAAAACT
1 TCCAAAAATTACATTTTGACCCCCAAACTTCTCAAAATTCCATTTTTAACACC-AAAACT
8918 CTAAAAAATC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
57 2 0.04
58 23 0.45
60 26 0.51
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (59 bp):
TCCAAAAATTACATTTTGACCCCCAAACTTCTCAAAATTCCATTTTTAACACCAAAACT
Found at i:8923 original size:28 final size:29
Alignment explanation
Indices: 8824--8917 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 29
8814 TTTGACCCCC
*
8824 AAACTTCTTCAAAATTCTATTTTTAACACC-A
1 AAACTTC--CAAAATTCCATTTTTAAC-CCTA
*
8855 AAACTTCCAAAATTTACATTTTT-ACCTCT-
1 AAACTTCCAAAA-TTCCATTTTTAACC-CTA
8884 AAACTTCCAAAATTCCATTTTTAACCCTA
1 AAACTTCCAAAATTCCATTTTTAACCCTA
8913 AAACT
1 AAACT
8918 CTAAAAAATC
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
28 12 0.22
29 28 0.51
30 8 0.15
31 7 0.13
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.37
Consensus pattern (29 bp):
AAACTTCCAAAATTCCATTTTTAACCCTA
Found at i:13965 original size:29 final size:27
Alignment explanation
Indices: 13928--13998 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 27
13918 AAATTTTAAT
*
13928 TTAATAAAAATAAATTACATTTTAATTC
1 TTAAAAAAAATAAATTACA-TTTAATTC
**
13956 TTAAAAAAAATAAAAATTTTATTTAATTC
1 TTAAAAAAAAT--AAATTACATTTAATTC
*
13985 TTTAAAAAAATAAA
1 TTAAAAAAAATAAA
13999 AATATAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.08
28 10 0.27
29 18 0.49
30 6 0.16
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
TTAAAAAAAATAAATTACATTTAATTC
Found at i:14955 original size:27 final size:27
Alignment explanation
Indices: 14924--14981 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
14914 ATTTTTCATA
*
14924 TTTTATCATACTAATTCGATTTGAAAT
1 TTTTATCATACTAATTCAATTTGAAAT
* ** *
14951 TTTTATTATTTTAATTTAATTTGAAAT
1 TTTTATCATACTAATTCAATTTGAAAT
14978 TTTT
1 TTTT
14982 TTTAATAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (27 bp):
TTTTATCATACTAATTCAATTTGAAAT
Found at i:15739 original size:43 final size:43
Alignment explanation
Indices: 15691--15777 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
15681 GAACGAAATA
* * *
15691 AATGTTGTAATAGTATAAGAAAAAAAGTTGAAATTACCAGAGT
1 AATGTTGTAATAGCATAAGAAAAAAAGCTAAAATTACCAGAGT
* *
15734 AATGTTGTAATAGCATAAGGAAAAAAGCTAAAATTACTAGAGT
1 AATGTTGTAATAGCATAAGAAAAAAAGCTAAAATTACCAGAGT
15777 A
1 A
15778 CTCTTAGCAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.26
Consensus pattern (43 bp):
AATGTTGTAATAGCATAAGAAAAAAAGCTAAAATTACCAGAGT
Found at i:15859 original size:3 final size:3
Alignment explanation
Indices: 15853--15886 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15843 ATTAAGTATG
15853 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15887 ATAGTGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15920 original size:12 final size:12
Alignment explanation
Indices: 15829--15920 Score: 53
Period size: 12 Copynumber: 7.5 Consensus size: 12
15819 TTATTAAATT
*
15829 TTAATAAGATTA
1 TTAATAATATTA
* *
15841 TTATTAAGTATGA
1 TTAATAA-TATTA
*
15854 -TAATAATAATA
1 TTAATAATATTA
* *
15865 ATAATAATAATA
1 TTAATAATATTA
* *
15877 ATAATAATAAATA
1 TTAATAAT-ATTA
*
15890 GTGTAATTATATT-
1 -T-TAATAATATTA
15903 TTAATAATATTA
1 TTAATAATATTA
15915 TTAATA
1 TTAATA
15921 TAATTTAATA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
11 12 0.19
12 37 0.58
13 7 0.11
14 2 0.03
15 6 0.09
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.42
Consensus pattern (12 bp):
TTAATAATATTA
Found at i:15954 original size:12 final size:13
Alignment explanation
Indices: 15939--15975 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
15929 TAAAAATAAA
15939 AATAT-ATTATTT
1 AATATAATTATTT
*
15951 AATATAATT-CTT
1 AATATAATTATTT
15963 AATATAATTATTT
1 AATATAATTATTT
15976 TGATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (13 bp):
AATATAATTATTT
Found at i:16021 original size:32 final size:33
Alignment explanation
Indices: 15971--16039 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 33
15961 TTAATATAAT
*
15971 TATTTTGATATTAAAATATTTTAT-TTCAAATTA
1 TATTTTGATAATAAAATATTTTATATT-AAATTA
16004 TATTTTGA-AATAAAATATTTTATATTAAATTA
1 TATTTTGATAATAAAATATTTTATATTAAATTA
16036 TATT
1 TATT
16040 AAATATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 24 0.71
33 10 0.29
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
TATTTTGATAATAAAATATTTTATATTAAATTA
Found at i:16032 original size:15 final size:16
Alignment explanation
Indices: 15971--16032 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 16
15961 TTAATATAAT
15971 TATTTTGATATTAAAA
1 TATTTTGATATTAAAA
15987 TATTTT-AT-TTCAAATTA
1 TATTTTGATATT-AAA--A
*
16004 TATTTTGA-AATAAAA
1 TATTTTGATATTAAAA
16019 TATTTT-ATATTAAA
1 TATTTTGATATTAAA
16033 TTATATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
14 3 0.08
15 17 0.45
16 6 0.16
17 10 0.26
18 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (16 bp):
TATTTTGATATTAAAA
Found at i:17525 original size:134 final size:138
Alignment explanation
Indices: 17276--17547 Score: 385
Period size: 134 Copynumber: 2.0 Consensus size: 138
17266 AATTTAATGC
* *
17276 CATATCATCTTGAAATTTAGGATTTTCATTTAGATTTGATTTTTTTTTAAAGGTAAAATGTTGAA
1 CATATCATCTTGAAATTCAGGATTTTCATTTAGATTTGATTTTTCTTTAAAGGTAAAATGTTGAA
** * * *
17341 AGTCAGGATAGAAATGCTAATGTGGCATCAAACTATTAGAAAAGAGATACAGATGACGTGATGTC
66 AGTCAGGATAGAAATGCTAATGTAACATCAAACTATTAGAAAAGAGATACAAACGACGTGATATC
17406 ATT-TTTT
131 ATTGTTTT
* *
17413 CATAT-ATCTTGGAATTCAGGATTTTCATTTAGATTTGA-TTTTCTTT-AAGGTGAAATGTTGAA
1 CATATCATCTTGAAATTCAGGATTTTCATTTAGATTTGATTTTTCTTTAAAGGTAAAATGTTGAA
* *
17475 ATTCAGGATGGAAATGCTAATGTAACATCAAACTATT-GAAAA-AGGAATACAAACGACGTGATA
66 AGTCAGGATAGAAATGCTAATGTAACATCAAACTATTAGAAAAGA-G-ATACAAACGACGTGATA
17538 TCATTGTTTT
129 TCATTGTTTT
17548 ATACAATCTT
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
132 1 0.01
133 6 0.05
134 67 0.55
135 11 0.09
136 31 0.26
137 5 0.04
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (138 bp):
CATATCATCTTGAAATTCAGGATTTTCATTTAGATTTGATTTTTCTTTAAAGGTAAAATGTTGAA
AGTCAGGATAGAAATGCTAATGTAACATCAAACTATTAGAAAAGAGATACAAACGACGTGATATC
ATTGTTTT
Found at i:17630 original size:30 final size:29
Alignment explanation
Indices: 17591--17678 Score: 72
Period size: 30 Copynumber: 3.0 Consensus size: 29
17581 CGGGGATTAC
*
17591 AAAATTAAAGTACAAGACCAAACTGATAA
1 AAAAATAAAGTACAAGACCAAACTGATAA
* * * *
17620 GAAAAATAAAGTGCAAGGATCAAATTGATTA
1 -AAAAATAAAGTACAA-GACCAAACTGATAA
* *
17651 AAAAAT--AGTACATGTACCAAAGTGATAA
1 AAAAATAAAGTACAAG-ACCAAACTGATAA
17679 TTTAATTATA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 1 0.02
28 15 0.33
30 19 0.41
31 11 0.24
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (29 bp):
AAAAATAAAGTACAAGACCAAACTGATAA
Found at i:23620 original size:5 final size:5
Alignment explanation
Indices: 23595--23638 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
23585 TTTTTAAACA
*
23595 TATTT AATTT TATTGT T-TTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATT-T TATTT TATTT TATTT TATTT TATTT TATT
23639 CTAGAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 2 0.06
5 31 0.89
6 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:23731 original size:20 final size:20
Alignment explanation
Indices: 23706--23750 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
23696 TAAAAATGAG
* *
23706 GATTAGTTTTGATGGTTAAA
1 GATTAGTTTTAATGGTCAAA
*
23726 GATTAGTTTTAATTGTCAAA
1 GATTAGTTTTAATGGTCAAA
23746 GATTA
1 GATTA
23751 TGTGTCCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.44
Consensus pattern (20 bp):
GATTAGTTTTAATGGTCAAA
Found at i:24645 original size:21 final size:22
Alignment explanation
Indices: 24621--24669 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
24611 ATACAATAAA
*
24621 ATAAAATAAAAT-AATATACAT
1 ATAAAATAAAATAAATAAACAT
*
24642 ATAAGATAAAATAAATAAACAT
1 ATAAAATAAAATAAATAAACAT
24664 -TAAAAT
1 ATAAAAT
24670 TGAGTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
ATAAAATAAAATAAATAAACAT
Found at i:24659 original size:25 final size:25
Alignment explanation
Indices: 24606--24656 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
24596 ATATATCTAC
24606 ATAATATACAATAAAATAAAATAAA
1 ATAATATACAATAAAATAAAATAAA
*
24631 ATAATATACATATAAGATAAAATAAA
1 ATAATATACA-ATAAAATAAAATAAA
24657 TAAACATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (25 bp):
ATAATATACAATAAAATAAAATAAA
Found at i:24709 original size:30 final size:29
Alignment explanation
Indices: 24676--24910 Score: 213
Period size: 30 Copynumber: 7.8 Consensus size: 29
24666 AAATTGAGTC
* *
24676 AAATTTGAATTTTTGAAAGCTTTAAGGGTC
1 AAATTTGAATTTTTGAAA-ATTTAAGGGTT
** *
24706 AAATCGGAATTTTTGGAAAATTT-GGGAGTT
1 AAATTTGAATTTTT-GAAAATTTAAGG-GTT
* *
24736 AAATTGGAATTTTTAGAAAATTTAGGGGTT
1 AAATTTGAATTTTT-GAAAATTTAAGGGTT
*
24766 AAATTTAAATTTTTGAAAAATTTAAGGGTT
1 AAATTTGAATTTTTG-AAAATTTAAGGGTT
* *
24796 AAATTGGATTTTTTAGAAAATTTAAGGGTT
1 AAATTTGAATTTTT-GAAAATTTAAGGGTT
24826 AAATTTGAATTTTTGAAAAGTTT-AGGGCTT
1 AAATTTGAATTTTTGAAAA-TTTAAGGG-TT
* * * *
24856 AAATTTAAATTTTTAAAAAATTTAAAGAGTC
1 AAATTTGAATTTTT-GAAAATTT-AAGGGTT
* *
24887 AAATTTAAATTTTTTGCAAATTTA
1 AAATTTGAA-TTTTTGAAAATTTA
24911 GGAGCTGTGT
Statistics
Matches: 173, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
29 12 0.07
30 125 0.72
31 28 0.16
32 8 0.05
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.42
Consensus pattern (29 bp):
AAATTTGAATTTTTGAAAATTTAAGGGTT
Found at i:24777 original size:60 final size:60
Alignment explanation
Indices: 24676--24910 Score: 235
Period size: 60 Copynumber: 3.9 Consensus size: 60
24666 AAATTGAGTC
* * * *** *
24676 AAATTTGAATTTTT-GAAAGCTTTAAGGGTCAAATCGGAATTTTTGGAAAATTT-GGGAGTT
1 AAATTGGAATTTTTAGAAA-ATTTAAGGGTTAAATTTAAATTTTTGGAAAATTTAAGG-GTT
* *
24736 AAATTGGAATTTTTAGAAAATTTAGGGGTTAAATTTAAATTTTTGAAAAATTTAAGGGTT
1 AAATTGGAATTTTTAGAAAATTTAAGGGTTAAATTTAAATTTTTGGAAAATTTAAGGGTT
* *
24796 AAATTGGATTTTTTAGAAAATTTAAGGGTTAAATTTGAATTTTT-GAAAAGTTT-AGGGCTT
1 AAATTGGAATTTTTAGAAAATTTAAGGGTTAAATTTAAATTTTTGGAAAA-TTTAAGGG-TT
** * * * * *
24856 AAATTTAAATTTTTAAAAAATTTAAAGAGTCAAATTTAAATTTTTTGCAAATTTA
1 AAATTGGAATTTTTAGAAAATTT-AAGGGTTAAATTTAAATTTTTGGAAAATTTA
24911 GGAGCTGTGT
Statistics
Matches: 147, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
59 8 0.05
60 108 0.73
61 27 0.18
62 4 0.03
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.42
Consensus pattern (60 bp):
AAATTGGAATTTTTAGAAAATTTAAGGGTTAAATTTAAATTTTTGGAAAATTTAAGGGTT
Found at i:24829 original size:90 final size:90
Alignment explanation
Indices: 24676--24914 Score: 284
Period size: 90 Copynumber: 2.6 Consensus size: 90
24666 AAATTGAGTC
* ** * *
24676 AAATTTGAATTTTTGAAAGCTTTAAGGGTCAAATCGGAATTTTTGGAAAATTTGGGAGTTAAATT
1 AAATTTAAATTTTTGAAAAATTTAAGGGTCAAATCGGAATTTTTAGAAAATTTAGGAGTTAAATT
*
24741 GGAATTTTTAGAAAA-TTTAGGGGTT
66 GGAATTTTT-GAAAAGTTTAGGGCTT
* * *
24766 AAATTTAAATTTTTGAAAAATTTAAGGGTTAAATTGGATTTTTTAGAAAATTTAAGG-GTTAAAT
1 AAATTTAAATTTTTGAAAAATTTAAGGGTCAAATCGGAATTTTTAGAAAATTT-AGGAGTTAAAT
*
24830 TTGAATTTTTGAAAAGTTTAGGGCTT
65 TGGAATTTTTGAAAAGTTTAGGGCTT
* * *** * *
24856 AAATTTAAATTTTTAAAAAATTTAAAGAGTCAAATTTAAATTTTTTGCAAATTTAGGAG
1 AAATTTAAATTTTTGAAAAATTT-AAGGGTCAAATCGGAATTTTTAGAAAATTTAGGAG
24915 CTGTGTGGGT
Statistics
Matches: 127, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
89 5 0.04
90 96 0.76
91 26 0.20
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (90 bp):
AAATTTAAATTTTTGAAAAATTTAAGGGTCAAATCGGAATTTTTAGAAAATTTAGGAGTTAAATT
GGAATTTTTGAAAAGTTTAGGGCTT
Found at i:25544 original size:12 final size:13
Alignment explanation
Indices: 25519--25545 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25509 CCAATAAAAA
25519 TTTTGTGTATTTT
1 TTTTGTGTATTTT
25532 TTTTGTGTATTTT
1 TTTTGTGTATTTT
25545 T
1 T
25546 GTGTGTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (13 bp):
TTTTGTGTATTTT
Found at i:26442 original size:19 final size:19
Alignment explanation
Indices: 26418--26478 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
26408 AGGGATATAG
26418 AATTTGTTCTTGTAGCTTC
1 AATTTGTTCTTGTAGCTTC
*
26437 AATTTGCTCATTTGTAG----
1 AATTTGTTC--TTGTAGCTTC
26454 AATTTGTTCTTGTAGCTTC
1 AATTTGTTCTTGTAGCTTC
26473 AATTTG
1 AATTTG
26479 CTCATTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 6 0.18
17 8 0.24
19 14 0.41
21 6 0.18
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (19 bp):
AATTTGTTCTTGTAGCTTC
Found at i:26453 original size:21 final size:21
Alignment explanation
Indices: 26427--26488 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
26417 GAATTTGTTC
26427 TTGTAGCTTCAATTTGCTCAT
1 TTGTAGCTTCAATTTGCTCAT
*
26448 TTGTAG----AATTTGTTC--
1 TTGTAGCTTCAATTTGCTCAT
26463 TTGTAGCTTCAATTTGCTCAT
1 TTGTAGCTTCAATTTGCTCAT
26484 TTGTA
1 TTGTA
26489 ACCTTAGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 6 0.18
17 8 0.24
19 8 0.24
21 11 0.33
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.50
Consensus pattern (21 bp):
TTGTAGCTTCAATTTGCTCAT
Found at i:26462 original size:36 final size:36
Alignment explanation
Indices: 26415--26488 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
26405 TTCAGGGATA
26415 TAGAATTTGTTCTTGTAGCTTCAATTTGCTCATTTG
1 TAGAATTTGTTCTTGTAGCTTCAATTTGCTCATTTG
26451 TAGAATTTGTTCTTGTAGCTTCAATTTGCTCATTTG
1 TAGAATTTGTTCTTGTAGCTTCAATTTGCTCATTTG
26487 TA
1 TA
26489 ACCTTAGGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (36 bp):
TAGAATTTGTTCTTGTAGCTTCAATTTGCTCATTTG
Found at i:26539 original size:39 final size:38
Alignment explanation
Indices: 26496--26787 Score: 278
Period size: 39 Copynumber: 7.4 Consensus size: 38
26486 GTAACCTTAG
26496 GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCA
1 GGGTAAAAGATTGGATTGCTTCAATCTG-CCCATGGTCA
* * * * * *
26535 GGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTAGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-ATGGTCA
* *
26575 GCGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCG
1 GGGTAAAAGATTGGATTGCTTCAATCTG-CCCATGGTCA
* * * * * *
26614 GGGTAAGAGATCGAATAGTCTTCAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-ATGGTCA
* * *
26654 GGGTAAAAGATTAGATTGCTTCAATCTACCGCATGGTCG
1 GGGTAAAAGATTGGATTGCTTCAATCTGCC-CATGGTCA
* * * * *
26693 GGGTAAAAGATTGGATGGTCTTCAATTTGCCCTCTAGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-ATGGTCA
*
26733 GGGTAAAAGATTGGATTGCTTCAATCTGCACCATGGTCG
1 GGGTAAAAGATTGGATTGCTTCAATCTGC-CCATGGTCA
*
26772 GGGTAAAAGTTTGGAT
1 GGGTAAAAGATTGGAT
26788 AGTTTTTGCT
Statistics
Matches: 198, Mismatches: 46, Indels: 18
0.76 0.18 0.07
Matches are distributed among these distances:
39 107 0.54
40 91 0.46
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (38 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCATGGTCA
Found at i:26589 original size:79 final size:79
Alignment explanation
Indices: 26496--26777 Score: 442
Period size: 79 Copynumber: 3.6 Consensus size: 79
26486 GTAACCTTAG
*
26496 GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCAGGGTAAGAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
26561 CTGCCCTCTAGTTA
66 CTGCCCTCTAGTTA
* * *
26575 GCGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCGGGGTAAGAGATCGAATAGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
*
26640 CTGCCCTCTGGTTA
66 CTGCCCTCTAGTTA
* * * *
26654 GGGTAAAAGATTAGATTGCTTCAATCT-ACCGCATGGTCGGGGTAAAAGATTGGATGGTCTTCAA
1 GGGTAAAAGATTGGATTGCTTCAATCTGTCC-CATGGTCGGGGTAAGAGATCGGATGGTCTTCAA
*
26718 TTTGCCCTCTAGTTA
65 TCTGCCCTCTAGTTA
26733 GGGTAAAAGATTGGATTGCTTCAATCTG-CACCATGGTCGGGGTAA
1 GGGTAAAAGATTGGATTGCTTCAATCTGTC-CCATGGTCGGGGTAA
26778 AAGTTTGGAT
Statistics
Matches: 185, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
78 2 0.01
79 182 0.98
80 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (79 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
CTGCCCTCTAGTTA
Found at i:26944 original size:50 final size:50
Alignment explanation
Indices: 26837--26978 Score: 160
Period size: 50 Copynumber: 2.8 Consensus size: 50
26827 TCTTTGCGAG
* * *** * *
26837 TTCAATCTGCCCCTCTACAGCTTTAGGTGAATGAGATTCACCTTTGCAAC
1 TTCAATCTGCTCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTACAAC
*
26887 TTCAATCTGCTCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTACGAC
1 TTCAATCTGCTCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTACAAC
* * * *
26937 TTTAATCTGTTCCTCTACATCTTTAGGGGTAT-AGGATTTGTC
1 TTCAATCTGCTCCTCTACAGCTTTAGGTGTATGA-GATTTGTC
26979 GTTCTATCGC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 1 0.01
50 78 0.99
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.38
Consensus pattern (50 bp):
TTCAATCTGCTCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTACAAC
Found at i:30199 original size:44 final size:44
Alignment explanation
Indices: 30149--30232 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
30139 TGAGAAGACG
*
30149 GAAGATAGGATCACATTTTTCAGTTAGTTGTTGTAACACCTCAA
1 GAAGATAGGATCACATTTCTCAGTTAGTTGTTGTAACACCTCAA
30193 GAAGATAGGATCACATTTCTCAGTTAGTTGTTGTAACACC
1 GAAGATAGGATCACATTTCTCAGTTAGTTGTTGTAACACC
30233 AAAAATCCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (44 bp):
GAAGATAGGATCACATTTCTCAGTTAGTTGTTGTAACACCTCAA
Found at i:31299 original size:24 final size:24
Alignment explanation
Indices: 31272--31354 Score: 121
Period size: 24 Copynumber: 3.5 Consensus size: 24
31262 TTTAGCCCAC
*
31272 ACGAGCCCAAAATGGTTAGCTCTT
1 ACGAGCCCAGAATGGTTAGCTCTT
* *
31296 ACGAGCCTAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGGTTAGCTCTT
* *
31320 ACGAGCCTAGAATGGTTAGCTCTA
1 ACGAGCCCAGAATGGTTAGCTCTT
31344 ACGAGCCCAGA
1 ACGAGCCCAGA
31355 CAAAGTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (24 bp):
ACGAGCCCAGAATGGTTAGCTCTT
Found at i:33056 original size:38 final size:38
Alignment explanation
Indices: 33005--33081 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
32995 GGGAAATTAT
*
33005 CTTTTGGACTAGCCTTGTTTAAGTCCCGATAGTCCACG
1 CTTTTGAACTAGCCTTGTTTAAGTCCCGATAGTCCACG
33043 CTTTTGAACTAGCCTTGTTTAAGTCCCGATAGTCCACG
1 CTTTTGAACTAGCCTTGTTTAAGTCCCGATAGTCCACG
33081 C
1 C
33082 ACATACGTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (38 bp):
CTTTTGAACTAGCCTTGTTTAAGTCCCGATAGTCCACG
Found at i:40729 original size:21 final size:21
Alignment explanation
Indices: 40695--40751 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
40685 CACATGATTT
*
40695 ACAAATATACATAATAA-AAA
1 ACAAATAAACATAATAATAAA
40715 ACAATATAAACATAA-AATAAA
1 ACAA-ATAAACATAATAATAAA
*
40736 ATAAAATAAA-ATAATA
1 A-CAAATAAACATAATA
40752 TACATATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 10 0.32
21 19 0.61
22 2 0.06
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (21 bp):
ACAAATAAACATAATAATAAA
Found at i:40736 original size:5 final size:5
Alignment explanation
Indices: 40720--40783 Score: 62
Period size: 5 Copynumber: 13.0 Consensus size: 5
40710 AAAAAACAAT
* * *
40720 ATAAA CATAAA ATAAA ATAAA ATAAA ATAAT ATACAT ATAAG ATAAA AT-AA
1 ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA
40771 AT-AA AT-AA ATAAA
1 ATAAA ATAAA ATAAA
40784 CATTAAAATC
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
4 12 0.23
5 31 0.58
6 10 0.19
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:40739 original size:16 final size:15
Alignment explanation
Indices: 40720--40783 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
40710 AAAAAACAAT
40720 ATAAACATAAAATAAA
1 ATAAA-ATAAAATAAA
*
40736 ATAAAATAAAATAAT
1 ATAAAATAAAATAAA
* *
40751 ATACATATAAGATAAA
1 ATA-AAATAAAATAAA
40767 AT-AAAT-AAAT-AA
1 ATAAAATAAAATAAA
40779 ATAAA
1 ATAAA
40784 CATTAAAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 4 0.10
13 5 0.12
14 3 0.08
15 12 0.30
16 16 0.40
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (15 bp):
ATAAAATAAAATAAA
Found at i:40749 original size:26 final size:28
Alignment explanation
Indices: 40721--40792 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 28
40711 AAAAACAATA
40721 TAAACATAAAATAAAATAAAATAAA-ATAA
1 TAAACATAAAATAAAAT-AAATAAATA-AA
*
40750 TATACATATAAGATAAAATAAATAAATAAA
1 TAAACATA-AA-ATAAAATAAATAAATAAA
40780 TAAACATTAAAAT
1 TAAACA-TAAAAT
40793 CGGGTCAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 9 0.24
30 18 0.49
31 10 0.27
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (28 bp):
TAAACATAAAATAAAATAAATAAATAAA
Found at i:40766 original size:31 final size:30
Alignment explanation
Indices: 40712--40792 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
40702 TACATAATAA
40712 AAAACAATATAAACATAAAATAAAATAAAAT
1 AAAACAATATAAACATAAAATAAAAT-AAAT
* * * *
40743 AAAATAATATACATATAAGATAAAATAAAT
1 AAAACAATATAAACATAAAATAAAATAAAT
*
40773 -AAATAA-ATAAACATTAAAAT
1 AAAACAATATAAACA-TAAAAT
40793 CGGGTCAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.12
29 11 0.26
30 4 0.10
31 22 0.52
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.23
Consensus pattern (30 bp):
AAAACAATATAAACATAAAATAAAATAAAT
Found at i:40989 original size:121 final size:121
Alignment explanation
Indices: 40808--41027 Score: 291
Period size: 121 Copynumber: 1.8 Consensus size: 121
40798 CAAATTTGAA
* * * * *
40808 TTTTTGGAAGCTTTAGGGGTTAAATAGGAATTTTTGAAAATTTTAGGGTCAAATTGGAATTTTTG
1 TTTTTGGAAACTTTAGGGGTCAAATAGGAATTTTGGAAAATTTTAGGGTCAAATTGGAATTTCTA
* **
40873 GAAAATTT-GGTGGTCATTTTTAAATTTTTGGAAATTTTGAGGGTGGAATTCAAGTT
66 GAAAATTTATG-GGTCAAATTTAAATTTTTGGAAATTTTGAGGGTGGAATTCAAGTT
* * * *
40929 TTTTTGGAAATTTTAGGGGTCAAATTGGAATTTTAGGAAAA-TTTGGGGTCAAATTTGAATTTCT
1 TTTTTGGAAACTTTAGGGGTCAAATAGGAATTTT-GGAAAATTTTAGGGTCAAATTGGAATTTCT
*
40993 AGAAAGTTTATGGGTCAAATTTAAATTTTTGGAAA
65 AGAAAATTTATGGGTCAAATTTAAATTTTTGGAAA
41028 ATTTAAAGGT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
121 78 0.93
122 6 0.07
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.42
Consensus pattern (121 bp):
TTTTTGGAAACTTTAGGGGTCAAATAGGAATTTTGGAAAATTTTAGGGTCAAATTGGAATTTCTA
GAAAATTTATGGGTCAAATTTAAATTTTTGGAAATTTTGAGGGTGGAATTCAAGTT
Found at i:41043 original size:30 final size:30
Alignment explanation
Indices: 40794--41112 Score: 238
Period size: 30 Copynumber: 10.6 Consensus size: 30
40784 CATTAAAATC
**
40794 GGGTCAAATTTGAATTTTTGGAAGCTTTAG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* **
40824 GGGTTAAATAGGAATTTTT-GAAAATTTTA-
1 GGGTCAAATTTGAATTTTTGGAAAA-TTTAG
*
40853 GGGTCAAATTGGAATTTTTGGAAAATTT-G
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
** * *
40882 GTGGTCATTTTTAAATTTTTGG-AAATTTTG
1 G-GGTCAAATTTGAATTTTTGGAAAATTTAG
** * *
40912 AGGGTGGAA-TTCAAGTTTTTTTGGAAATTTTAG
1 -GGGTCAAATTTGAA---TTTTTGGAAAATTTAG
* *
40945 GGGTCAAATTGGAATTTTAGGAAAATTT-G
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* * * *
40974 GGGTCAAATTTGAATTTCTAGAAAGTTTAT
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* *
41004 GGGTCAAATTTAAATTTTTGGAAAATTTAA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* * *
41034 AGGTCAAATTTTAATTTTTGGCAAATTT-G
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* * ** *
41063 GGTGTGAAATTTGAATATTTCAAAAATTTAA
1 GG-GTCAAATTTGAATTTTTGGAAAATTTAG
**
41094 GGGTCAAATTCAAATTTTT
1 GGGTCAAATTTGAATTTTT
41113 CGATAGTTTG
Statistics
Matches: 224, Mismatches: 51, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
29 59 0.26
30 140 0.62
31 3 0.01
32 13 0.06
33 9 0.04
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAATTTAG
Found at i:41052 original size:121 final size:121
Alignment explanation
Indices: 40795--41052 Score: 274
Period size: 121 Copynumber: 2.1 Consensus size: 121
40785 ATTAAAATCG
* * * *
40795 GGTCAAATTTGAA--TTTTTGGAAGCTTTAGGGGTTAAATAGGAATTTTTGAAAATTTTAGGGTC
1 GGTCAAATTTCAATTTTTTTGGAAACTTTAGGGGTCAAATAGGAATTTTGGAAAATTTTAGGGTC
* * ** * * *
40858 AAATTGGAATTTTTGGAAAATTTGGTGGTCATTTTTAAATTTTTGGAAATTTTGAG
66 AAATTGGAATTTCTAGAAAATTTGGTGGTCAAATTTAAATTTTTGGAAAATTTAAA
** * * *
40914 GGTGGAA-TTCAAGTTTTTTTGGAAATTTTAGGGGTCAAATTGGAATTTTAGGAAAA-TTTGGGG
1 GGTCAAATTTCAA-TTTTTTTGGAAACTTTAGGGGTCAAATAGGAATTTT-GGAAAATTTTAGGG
* * *
40977 TCAAATTTGAATTTCTAGAAAGTTT-ATGGGTCAAATTTAAATTTTTGGAAAATTTAAA
64 TCAAATTGGAATTTCTAGAAAATTTGGT-GGTCAAATTTAAATTTTTGGAAAATTTAAA
*
41035 GGTCAAATTTTAATTTTT
1 GGTCAAATTTCAATTTTT
41053 GGCAAATTTG
Statistics
Matches: 111, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
118 4 0.04
119 5 0.05
120 1 0.01
121 92 0.83
122 9 0.08
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (121 bp):
GGTCAAATTTCAATTTTTTTGGAAACTTTAGGGGTCAAATAGGAATTTTGGAAAATTTTAGGGTC
AAATTGGAATTTCTAGAAAATTTGGTGGTCAAATTTAAATTTTTGGAAAATTTAAA
Found at i:41109 original size:90 final size:89
Alignment explanation
Indices: 40794--41112 Score: 266
Period size: 89 Copynumber: 3.6 Consensus size: 89
40784 CATTAAAATC
* * ** * * *** * *
40794 GGGTCAAATTTGAATTTTTGGAAGCTTTAGGGGTTAAATAGGAATTTTT-GAAAATTTTAGGGTC
1 GGGTCAAATTTGAATTTCTAGAAAATTTAAGGGTCAAATTCAAATTTTTGGAAAATTTAAAGGTC
*
40858 AAATTGGAATTTTTGGAAAATTTG
66 AAATTGGAATTTTAGGAAAATTTG
** * * * * * ** * * **
40882 GTGGTCATTTTTAAATTTTTGGAAATTTTGAGGGTGGAATTCAAGTTTTTTTGGAAATTTTAGGG
1 G-GGTCAAATTTGAATTTCTAGAAAATTTAAGGGTCAAATTCAA--ATTTTTGGAAAATTTAAAG
40947 GTCAAATTGGAATTTTAGGAAAATTTG
63 GTCAAATTGGAATTTTAGGAAAATTTG
* * *
40974 GGGTCAAATTTGAATTTCTAGAAAGTTTATGGGTCAAATTTAAATTTTTGGAAAATTTAAAGGTC
1 GGGTCAAATTTGAATTTCTAGAAAATTTAAGGGTCAAATTCAAATTTTTGGAAAATTTAAAGGTC
** * *
41039 AAATTTTAATTTTTGGCAAATTTG
66 AAATTGGAATTTTAGGAAAATTTG
*
41063 GGTGTGAAATTTGAATATT-TCA-AAAATTTAAGGGTCAAATTCAAATTTTT
1 GG-GTCAAATTTGAAT-TTCT-AGAAAATTTAAGGGTCAAATTCAAATTTTT
41113 CGATAGTTTG
Statistics
Matches: 184, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
88 1 0.01
89 70 0.38
90 38 0.21
91 39 0.21
92 36 0.20
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (89 bp):
GGGTCAAATTTGAATTTCTAGAAAATTTAAGGGTCAAATTCAAATTTTTGGAAAATTTAAAGGTC
AAATTGGAATTTTAGGAAAATTTG
Found at i:44249 original size:21 final size:21
Alignment explanation
Indices: 44202--44291 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 21
44192 CATGATTTAC
* * * *
44202 AAATATACATAATAAAAAACA
1 AAATAAACATAATATACAATA
*
44223 ATATAAACATAATATACAATA
1 AAATAAACATAATATACAATA
44244 AAATAAA-ATAATATACATATA
1 AAATAAACATAATATACA-ATA
*
44265 AGATAAA-ATAA-ATA-AAT-
1 AAATAAACATAATATACAATA
44282 AAATAAACAT
1 AAATAAACAT
44292 TAAAATAGGG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
17 6 0.10
18 4 0.07
19 1 0.02
20 13 0.22
21 35 0.59
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.24
Consensus pattern (21 bp):
AAATAAACATAATATACAATA
Found at i:44254 original size:26 final size:26
Alignment explanation
Indices: 44225--44298 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
44215 AAAAAACAAT
*
44225 ATAAACATAATATACAATAAAATAAA
1 ATAAATATAATATACAATAAAATAAA
44251 AT-AATATACATATA-AGATAAAAT-AA
1 ATAAATATA-ATATACA-ATAAAATAAA
* *
44276 ATAAATA-AATAAACATTAAAATA
1 ATAAATATAATATACAATAAAATA
44299 GGGTCAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
24 10 0.25
25 12 0.30
26 18 0.45
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (26 bp):
ATAAATATAATATACAATAAAATAAA
Found at i:44275 original size:31 final size:30
Alignment explanation
Indices: 44217--44280 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
44207 TACATAATAA
* *
44217 AAAACAATATAAACATAATATACAATAAAAT
1 AAAACAATATAAACATAAGATAAAAT-AAAT
* * *
44248 AAAATAATATACATATAAGATAAAATAAAT
1 AAAACAATATAAACATAAGATAAAATAAAT
44278 AAA
1 AAA
44281 TAAATAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (30 bp):
AAAACAATATAAACATAAGATAAAATAAAT
Found at i:44333 original size:30 final size:30
Alignment explanation
Indices: 44299--44616 Score: 277
Period size: 30 Copynumber: 10.6 Consensus size: 30
44289 CATTAAAATA
**
44299 GGGTCAAATTTGAATTTTTGGAAGCTTTAG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
** ** *
44329 GGGTCAAATAGGAATTTTTGGAAGCTTTGG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* *
44359 GGGTCAAATTGGAATTTATGGAAAATTTAG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* * *
44389 TGGTCAAATTTAAATTTTTGG-AAATTTCG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
** ** *
44418 AGGGTGGAATTCAAGATTTTT-GAAAATTTTG
1 -GGGTCAAATTTGA-ATTTTTGGAAAATTTAG
* * *
44449 GGGTCAAATTGGAATTTTAGAAAAATTT-G
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* * *
44478 GGGTCAAATTTGAATTTCT-AAAAAGTTTAT
1 GGGTCAAATTTGAATTTTTGGAAAA-TTTAG
* *
44508 GGGTCAAATTTAAATTTTTAGAAAATTTAG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
*
44538 GGGTCAAATTTGAATTTTTGGCAAATTT-G
1 GGGTCAAATTTGAATTTTTGGAAAATTTAG
* * *
44567 GGTGTGAAATTTGAATATTTGGAAAATTTAA
1 GG-GTCAAATTTGAATTTTTGGAAAATTTAG
* **
44598 AGGTCAAATTCAAATTTTT
1 GGGTCAAATTTGAATTTTT
44617 CGATAGTTTG
Statistics
Matches: 235, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
28 5 0.02
29 35 0.15
30 177 0.75
31 18 0.08
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAATTTAG
Found at i:44631 original size:90 final size:89
Alignment explanation
Indices: 44301--44631 Score: 310
Period size: 90 Copynumber: 3.7 Consensus size: 89
44291 TTAAAATAGG
** * *** **
44301 GTCAAATTTGAATTTTTGGAAGCTTTAGGGGTCAAATAGGAATTTTTGGAAGCTTTGGGGGTCAA
1 GTCAAATTTGAATTTTTGGAAAATTTAAGGGTCAAATTCAAATTTTT-GAAAATTTGGGGGTCAA
* *
44366 ATTGGAATTTATGGAAAATTT-AGT
65 ATTGGAATTTTTGGAAAATTTGGGT
* * ** *
44390 GGTCAAATTTAAATTTTTGG-AAATTTCGAGGGTGGAATTCAAGATTTTTGAAAATTTTGGGGTC
1 -GTCAAATTTGAATTTTTGGAAAATTT-AAGGGTCAAATTCAA-ATTTTTGAAAATTTGGGGGTC
* *
44454 AAATTGGAATTTTAGAAAAATTTGGG-
63 AAATTGGAATTTTTGGAAAATTTGGGT
* * * * *
44480 GTCAAATTTGAATTTCT-AAAAAGTTTATGGGTCAAATTTAAATTTTTAGAAAATTTAGGGGTCA
1 GTCAAATTTGAATTTTTGGAAAA-TTTAAGGGTCAAATTCAAATTTTT-GAAAATTTGGGGGTCA
* *
44544 AATTTGAATTTTTGGCAAATTTGGGT
64 AATTGGAATTTTTGGAAAATTTGGGT
* * * * *
44570 GTGAAATTTGAATATTTGGAAAATTTAAAGGTCAAATTCAAATTTTTCGATAGTTTGGGGGT
1 GTCAAATTTGAATTTTTGGAAAATTTAAGGGTCAAATTCAAATTTTT-GAAAATTTGGGGGT
44632 TGAAAAATAA
Statistics
Matches: 192, Mismatches: 41, Indels: 16
0.77 0.16 0.06
Matches are distributed among these distances:
88 6 0.03
89 68 0.35
90 107 0.56
91 11 0.06
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (89 bp):
GTCAAATTTGAATTTTTGGAAAATTTAAGGGTCAAATTCAAATTTTTGAAAATTTGGGGGTCAAA
TTGGAATTTTTGGAAAATTTGGGT
Found at i:54690 original size:29 final size:30
Alignment explanation
Indices: 54633--54711 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 30
54623 CTTAATTCTA
54633 AAAAATTAAATAAAAATACATAAATATTTTT
1 AAAAATTAAATAAAAATA-ATAAATATTTTT
54664 AAAAATTATAATAATAAAT-ATAAAT-TTTATAT
1 AAAAATTA-AATAA-AAATAATAAATATTT-T-T
* *
54696 TAATATTAAATAAAAA
1 AAAAATTAAATAAAAA
54712 CCCTTCTATC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
30 6 0.14
31 20 0.48
32 12 0.29
33 4 0.10
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAATTAAATAAAAATAATAAATATTTTT
Found at i:64971 original size:26 final size:27
Alignment explanation
Indices: 64916--64974 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
64906 AATATTAATT
* *
64916 TAATTAAGTTTTTTTTTTAACTTTTCAA
1 TAATTAAGTTTTTTTATCAAC-TTTCAA
64944 TAATTAAGTTTTTTTAATCAA-TTT-AA
1 TAATTAAGTTTTTTT-ATCAACTTTCAA
64970 TAATT
1 TAATT
64975 CATTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 7 0.25
27 3 0.11
28 15 0.54
29 3 0.11
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (27 bp):
TAATTAAGTTTTTTTATCAACTTTCAA
Found at i:67438 original size:38 final size:39
Alignment explanation
Indices: 67364--67438 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 39
67354 TGATCTACCC
*
67364 TAAAAATGATAAAAATTTAATTTCATCATTTAAAAATAA
1 TAAAAATGATAAAAATTTAATTTCATCACTTAAAAATAA
*
67403 TAAAAAT-ATAAAAATTTAATTTCGATC-CTTGAAAAT
1 TAAAAATGATAAAAATTTAATTTC-ATCACTTAAAAAT
67439 TTTTCCTGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 23 0.70
39 10 0.30
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (39 bp):
TAAAAATGATAAAAATTTAATTTCATCACTTAAAAATAA
Found at i:73337 original size:4 final size:4
Alignment explanation
Indices: 73328--73399 Score: 90
Period size: 4 Copynumber: 18.0 Consensus size: 4
73318 GTGGCTAAGC
* *
73328 CACA CACA CACA CACA GACA CACA GACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
73376 TACA TACA CACA TACA TACA CACA
1 CACA CACA CACA CACA CACA CACA
73400 TATATATATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.50, C:0.42, G:0.03, T:0.06
Consensus pattern (4 bp):
CACA
Found at i:73950 original size:30 final size:30
Alignment explanation
Indices: 73914--73972 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
73904 CACACGCCCT
* **
73914 TGTGGCTCAATACAGTGCCTTACATGACCG
1 TGTGGCTCAACACAGTGCCACACATGACCG
73944 TGTGGCTCAACACAGTGCCACACATGACC
1 TGTGGCTCAACACAGTGCCACACATGACC
73973 TGTCACACGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (30 bp):
TGTGGCTCAACACAGTGCCACACATGACCG
Found at i:78561 original size:15 final size:16
Alignment explanation
Indices: 78543--78575 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78533 ATATTTAATA
78543 ATTTAAT-AATTTTTT
1 ATTTAATAAATTTTTT
*
78558 ATTTATTAAATTTTTT
1 ATTTAATAAATTTTTT
78574 AT
1 AT
78576 ATAGTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTAATAAATTTTTT
Found at i:84522 original size:33 final size:33
Alignment explanation
Indices: 84480--84544 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
84470 TGTAGCACTC
84480 TTTCTTAATGTGCCCTTTCTTCTTGCAAAAGTA
1 TTTCTTAATGTGCCCTTTCTTCTTGCAAAAGTA
*
84513 TTTCTTAATGTGCCCTTTCTTCTTGCAGAAGT
1 TTTCTTAATGTGCCCTTTCTTCTTGCAAAAGT
84545 TACAAGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (33 bp):
TTTCTTAATGTGCCCTTTCTTCTTGCAAAAGTA
Found at i:85656 original size:17 final size:18
Alignment explanation
Indices: 85618--85658 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
85608 CTTTACTTTT
* *
85618 ATTTTATTTTACCACTGA
1 ATTTTATTTTAACACAGA
85636 ATTTTATTTTAACA-AGA
1 ATTTTATTTTAACACAGA
85653 ATTTTA
1 ATTTTA
85659 ATCACCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTTTATTTTAACACAGA
Found at i:86403 original size:22 final size:22
Alignment explanation
Indices: 86378--86422 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
86368 AAAATTTAAA
*
86378 TCTTGAATTTATTCATTAGATC
1 TCTTGAATTTATTCATTAAATC
86400 TCTTGAATTTATTCATTAAATC
1 TCTTGAATTTATTCATTAAATC
86422 T
1 T
86423 ATTACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.51
Consensus pattern (22 bp):
TCTTGAATTTATTCATTAAATC
Found at i:86950 original size:21 final size:21
Alignment explanation
Indices: 86926--86965 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86916 TTAAACCTTG
86926 AACCCGAAACATGGAATCCTA
1 AACCCGAAACATGGAATCCTA
** *
86947 AACCTTAAACATTGAATCC
1 AACCCGAAACATGGAATCC
86966 CCAACCATGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (21 bp):
AACCCGAAACATGGAATCCTA
Found at i:86971 original size:21 final size:21
Alignment explanation
Indices: 86932--86971 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86922 CTTGAACCCG
*
86932 AAACATGGAATCCTAAACCTT
1 AAACATGGAATCCCAAACCTT
* *
86953 AAACATTGAATCCCCAACC
1 AAACATGGAATCCCAAACC
86972 ATGAACCATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.20
Consensus pattern (21 bp):
AAACATGGAATCCCAAACCTT
Found at i:86986 original size:35 final size:35
Alignment explanation
Indices: 86905--86974 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
86895 TTTTTATCCT
* *
86905 GAATCC-AAACCTTAAACCTTGAACCCGAAACATG
1 GAATCCTAAACCTTAAACATTGAACCCCAAACATG
*
86939 GAATCCTAAACCTTAAACATTGAATCCCCAACCATG
1 GAATCCTAAACCTTAAACATTGAA-CCCCAAACATG
86975 AACCATGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 6 0.19
35 16 0.52
36 9 0.29
ACGTcount: A:0.40, C:0.30, G:0.10, T:0.20
Consensus pattern (35 bp):
GAATCCTAAACCTTAAACATTGAACCCCAAACATG
Found at i:88186 original size:31 final size:31
Alignment explanation
Indices: 88143--88205 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
88133 ACCTGTTCGA
88143 CTTGTATAATAG-TGAAATTCTCACTCTGGCC
1 CTTGTATAATAGTTG-AATTCTCACTCTGGCC
* *
88174 CTTGTATTATAGTTGAATTCTCACTTTGGCC
1 CTTGTATAATAGTTGAATTCTCACTCTGGCC
88205 C
1 C
88206 CCCACATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
CTTGTATAATAGTTGAATTCTCACTCTGGCC
Found at i:114643 original size:23 final size:24
Alignment explanation
Indices: 114590--114643 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
114580 ACATATAATC
114590 AAGTCAACAACAAAGTGAGTGATT
1 AAGTCAACAACAAAGTGAGTGATT
*
114614 -AGCTCAACAACATAA-T-AGTTATT
1 AAG-TCAACAACA-AAGTGAGTGATT
114637 AAGTCAA
1 AAGTCAA
114644 ACACATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
23 12 0.46
24 12 0.46
25 2 0.08
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (24 bp):
AAGTCAACAACAAAGTGAGTGATT
Found at i:126626 original size:12 final size:10
Alignment explanation
Indices: 126602--126637 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
126592 CACCTCATTT
126602 ACACACTTCA
1 ACACACTTCA
126612 ACACACTTCA
1 ACACACTTCA
*
126622 AAACACTTCA
1 ACACACTTCA
*
126632 ATACAC
1 ACACAC
126638 AGAGCATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.19
Consensus pattern (10 bp):
ACACACTTCA
Found at i:128887 original size:12 final size:12
Alignment explanation
Indices: 128866--128895 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
128856 GTAAGATCTT
*
128866 ACTAACAAGTTC
1 ACTAATAAGTTC
128878 ACTAATAAGTTC
1 ACTAATAAGTTC
128890 ACTAAT
1 ACTAAT
128896 TACAATACAA
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:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (12 bp):
ACTAATAAGTTC
Found at i:132826 original size:14 final size:14
Alignment explanation
Indices: 132783--132830 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
132773 AATATTTATA
132783 TTAATAATAAATAT
1 TTAATAATAAATAT
*
132797 ATTAAAATTTATAAATAT
1 -TT--AA-TAATAAATAT
132815 TTAATAATAAATAT
1 TTAATAATAAATAT
132829 TT
1 TT
132831 TATTGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 11 0.39
15 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATAATAAATAT
Found at i:133136 original size:19 final size:19
Alignment explanation
Indices: 133109--133145 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
133099 ATTAAAACAT
* *
133109 CAAATAAAATCAATTTTTC
1 CAAAAAAAATAAATTTTTC
133128 CAAAAAAAATAAATTTTT
1 CAAAAAAAATAAATTTTT
133146 TTTTCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAAAAAAATAAATTTTTC
Found at i:133995 original size:7 final size:7
Alignment explanation
Indices: 133980--134019 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
133970 CAATAATCCA
133980 AAACCTT
1 AAACCTT
*
133987 AAACATT
1 AAACCTT
133994 AAACCTT
1 AAACCTT
*
134001 AAACCCT
1 AAACCTT
*
134008 AAACCTC
1 AAACCTT
134015 AAACC
1 AAACC
134020 CAAAACCCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCTT
Found at i:134018 original size:21 final size:21
Alignment explanation
Indices: 133977--134037 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
133967 AACCAATAAT
* * *
133977 CCAAAACCTTAAACATTAAAC
1 CCAAAACCCTAAACCTCAAAC
**
133998 CTTAAACCCTAAACCTCAAAC
1 CCAAAACCCTAAACCTCAAAC
*
134019 CCAAAACCCAAAACC-CAAA
1 CCAAAACCCTAAACCTCAAA
134038 ACATTGACCA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (21 bp):
CCAAAACCCTAAACCTCAAAC
Found at i:134025 original size:7 final size:7
Alignment explanation
Indices: 134001--134039 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
133991 ATTAAACCTT
*
134001 AAACCCT
1 AAACCCA
134008 AAACCTC-
1 AAACC-CA
134015 AAACCCA
1 AAACCCA
134022 AAACCCA
1 AAACCCA
134029 AAACCCA
1 AAACCCA
134036 AAAC
1 AAAC
134040 ATTGACCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 1 0.03
7 28 0.93
8 1 0.03
ACGTcount: A:0.54, C:0.41, G:0.00, T:0.05
Consensus pattern (7 bp):
AAACCCA
Found at i:134032 original size:14 final size:14
Alignment explanation
Indices: 133994--134039 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
133984 CTTAAACATT
* *
133994 AAACCTTAAACCCT
1 AAACCTCAAACCCA
134008 AAACCTCAAACCCA
1 AAACCTCAAACCCA
134022 AAACC-CAAAACCCA
1 AAACCTC-AAACCCA
134036 AAAC
1 AAAC
134040 ATTGACCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 1 0.03
14 28 0.97
ACGTcount: A:0.52, C:0.39, G:0.00, T:0.09
Consensus pattern (14 bp):
AAACCTCAAACCCA
Found at i:136965 original size:32 final size:33
Alignment explanation
Indices: 136929--137007 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 33
136919 TTGTTGGTTT
*
136929 TAAATTCTAAATT-CTAATTAATAATTGTAATC
1 TAAATTCTAAATTAATAATTAATAATTGTAATC
136961 TAAATTCT-AATTAATAATTAATAATTGTAATC
1 TAAATTCTAAATTAATAATTAATAATTGTAATC
136993 TAAATTCT-AATTAAT
1 TAAATTCTAAATTAAT
137008 TTTAAATTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 4 0.09
32 41 0.91
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (33 bp):
TAAATTCTAAATTAATAATTAATAATTGTAATC
Found at i:136995 original size:25 final size:25
Alignment explanation
Indices: 136934--136985 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
136924 GGTTTTAAAT
*
136934 TCTAAATTCTAATTAATAATTGTAA
1 TCTAAATTCTAATTAATAATTATAA
136959 TCTAAATTCTAATTAATAATTAATAA
1 TCTAAATTCTAATTAATAATT-ATAA
136985 T
1 T
136986 TGTAATCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (25 bp):
TCTAAATTCTAATTAATAATTATAA
Found at i:139445 original size:30 final size:30
Alignment explanation
Indices: 139395--139581 Score: 195
Period size: 30 Copynumber: 6.3 Consensus size: 30
139385 TTTAAATAAT
*
139395 ATTTTGACCC--AAAATTTTCCAAAATCAC
1 ATTTTGACCCTTAAACTTTTCCAAAATCAC
*
139423 ATTTTGACCCTTAAATTTTTCCAAAATCAC
1 ATTTTGACCCTTAAACTTTTCCAAAATCAC
* *
139453 ATTTTAACCCTGAAAC-TTTCCAAAAGTCAC
1 ATTTTGACCCTTAAACTTTTCCAAAA-TCAC
* * *
139483 ATTTTGA-CCTCTAAACTATTCCAAAATTAT
1 ATTTTGACCCT-TAAACTTTTCCAAAATCAC
* * * *
139513 ATTTTGGCCCTCAAACTTCTCCAAAATTAC
1 ATTTTGACCCTTAAACTTTTCCAAAATCAC
* *
139543 ATTTTTACCCCTT-AACTTTTCCAAAATTAC
1 ATTTTGA-CCCTTAAACTTTTCCAAAATCAC
139573 ATTTTGACC
1 ATTTTGACC
139582 TTGTATTCTC
Statistics
Matches: 133, Mismatches: 19, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
28 10 0.08
29 14 0.11
30 94 0.71
31 15 0.11
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (30 bp):
ATTTTGACCCTTAAACTTTTCCAAAATCAC
Found at i:139575 original size:90 final size:89
Alignment explanation
Indices: 139395--139582 Score: 220
Period size: 90 Copynumber: 2.1 Consensus size: 89
139385 TTTAAATAAT
* * * *
139395 ATTTTGACC-CAAAATTTTCCAAAATCACATTTTGACCCTTAAATTTTTCCAAAATCACATTTTA
1 ATTTTGACCTCAAAATATTCCAAAATCACATTTTGACCCTCAAACTTCTCCAAAATCACATTTTA
139459 ACCCTGAAACTTTCCAAAAGTCAC
66 ACCCTGAAACTTTCCAAAAGTCAC
* * * * *
139483 ATTTTGACCTCTAAACTATTCCAAAATTATATTTTGGCCCTCAAACTTCTCCAAAATTACATTTT
1 ATTTTGACCTC-AAAATATTCCAAAATCACATTTTGACCCTCAAACTTCTCCAAAATCACA-TTT
* * *
139548 TACCCCT-TAACTTTTCCAAAA-TTAC
64 TAACCCTGAAAC-TTTCCAAAAGTCAC
139573 ATTTTGACCT
1 ATTTTGACCT
139583 TGTATTCTCC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
88 9 0.11
89 1 0.01
90 56 0.67
91 18 0.21
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (89 bp):
ATTTTGACCTCAAAATATTCCAAAATCACATTTTGACCCTCAAACTTCTCCAAAATCACATTTTA
ACCCTGAAACTTTCCAAAAGTCAC
Found at i:139578 original size:60 final size:59
Alignment explanation
Indices: 139395--139581 Score: 216
Period size: 60 Copynumber: 3.2 Consensus size: 59
139385 TTTAAATAAT
* * * *
139395 ATTTTGACCC-AAAATTTTCCAAAATCACATTTTGA-CCCTTAAATTTTTCCAAAATCAC
1 ATTTTGACCCTCAAACTTTCCAAAATCACATTTTGACCCCTT-AACTTTTCCAAAATTAC
* * * * * *
139453 ATTTTAACCCTGAAACTTTCCAAAAGTCACATTTTGACCTCTAAACTATTCCAAAATTAT
1 ATTTTGACCCTCAAACTTTCCAAAA-TCACATTTTGACCCCTTAACTTTTCCAAAATTAC
* * *
139513 ATTTTGGCCCTCAAACTTCTCCAAAATTACATTTTTACCCCTTAACTTTTCCAAAATTAC
1 ATTTTGACCCTCAAACTT-TCCAAAATCACATTTTGACCCCTTAACTTTTCCAAAATTAC
139573 ATTTTGACC
1 ATTTTGACC
139582 TTGTATTCTC
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
58 9 0.08
59 12 0.11
60 75 0.71
61 10 0.09
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (59 bp):
ATTTTGACCCTCAAACTTTCCAAAATCACATTTTGACCCCTTAACTTTTCCAAAATTAC
Found at i:139594 original size:28 final size:28
Alignment explanation
Indices: 139412--139610 Score: 118
Period size: 30 Copynumber: 6.7 Consensus size: 28
139402 CCCAAAATTT
* * *
139412 TCCAAAATCACATTTTGACCCTTAAATTTT
1 TCCAAAATTACATTTTGA-CCTT-AACTTC
* * *
139442 TCCAAAATCACATTTTAACCCTGAAACTT-
1 TCCAAAATTACATTTTGA-CCT-TAACTTC
*
139471 TCCAAAAGTCACATTTTGACCTCTAAACTAT-
1 TCCAAAA-TTACATTTTGACCT-T-AACT-TC
* * *
139502 TCCAAAATTATATTTTGGCCCTCAAACTTC
1 TCCAAAATTACATTTT-GACCT-TAACTTC
* *
139532 TCCAAAATTACATTTTTACCCCTTAACTTT
1 TCCAAAATTACATTTTGA--CCTTAACTTC
*
139562 TCCAAAATTACATTTTGACCTTGTA-TTC
1 TCCAAAATTACATTTTGACCTT-AACTTC
139590 TCCAAAACTT-CATTTATGACC
1 TCCAAAA-TTACATTT-TGACC
139611 CCCTTTTTTT
Statistics
Matches: 140, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
28 18 0.13
29 19 0.14
30 87 0.62
31 16 0.11
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (28 bp):
TCCAAAATTACATTTTGACCTTAACTTC
Found at i:144957 original size:14 final size:14
Alignment explanation
Indices: 144938--145012 Score: 100
Period size: 14 Copynumber: 5.4 Consensus size: 14
144928 AAAAATAAAT
*
144938 AAAAAAAGAGAAAG
1 AAAAAAAGAAAAAG
144952 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
144966 AAAAAGAA-AAAAAG
1 AAAAA-AAGAAAAAG
144980 AAAAAGAA-AAAAAG
1 AAAAA-AAGAAAAAG
*
144994 AAAAAAGGAAAAAG
1 AAAAAAAGAAAAAG
145008 AAAAA
1 AAAAA
145013 GAGAGGTTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
13 1 0.02
14 54 0.95
15 2 0.04
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:144961 original size:8 final size:8
Alignment explanation
Indices: 144948--145006 Score: 67
Period size: 8 Copynumber: 8.1 Consensus size: 8
144938 AAAAAAAGAG
144948 AAAGAAAA
1 AAAGAAAA
144956 AAAG--AA
1 AAAGAAAA
144962 AAAG--AA
1 AAAGAAAA
144968 AAAGAAAA
1 AAAGAAAA
144976 AAAG--AA
1 AAAGAAAA
144982 AAAGAAAA
1 AAAGAAAA
144990 AAAGAAAA
1 AAAGAAAA
*
144998 AAGGAAAA
1 AAAGAAAA
145006 A
1 A
145007 GAAAAAGAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
6 18 0.39
8 28 0.61
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:144963 original size:6 final size:6
Alignment explanation
Indices: 144925--145014 Score: 78
Period size: 6 Copynumber: 14.7 Consensus size: 6
144915 GGATTCGATG
* *
144925 AAGAAA AATAAA TAA-AAA AAGAGAA AGAAAAA AAGAAA AAGAAA AAGAAAAA
1 AAGAAA AAGAAA -AAGAAA AAGA-AA A-AGAAA AAGAAA AAGAAA AAG--AAA
* *
144977 AAGAAA AAGAAA AA-AAG AA-AAA AGGAAA AAGAAA AAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA
145015 GAGGTTGAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
5 9 0.13
6 45 0.64
7 8 0.11
8 8 0.11
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:144963 original size:20 final size:20
Alignment explanation
Indices: 144940--145014 Score: 114
Period size: 20 Copynumber: 3.6 Consensus size: 20
144930 AAATAAATAA
*
144940 AAAAAGAGAAAGAAAAAAAG
1 AAAAAGAAAAAGAAAAAAAG
144960 AAAAAGAAAAAGAAAAAAAG
1 AAAAAGAAAAAGAAAAAAAG
*
144980 AAAAAGAAAAAAAGAAAAAAGG
1 AAAAAG--AAAAAGAAAAAAAG
145002 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
145015 GAGGTTGAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 32 0.63
22 19 0.37
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAGAAAAAAAG
Found at i:146008 original size:48 final size:49
Alignment explanation
Indices: 145829--146214 Score: 357
Period size: 49 Copynumber: 7.9 Consensus size: 49
145819 TAAGAAAAAA
* * * *
145829 CATGAAGATTTGAAGAGAAAGGTTGAGGTCGCAACGGTGAACCCGATAC
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * * ** * ** * *
145878 CTTAAAAGATGTGACGAAAAAGGTTGAGGCCGTAACGGCAAATCCAGTAC
1 CAT-GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* *
145928 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCTGGTAC
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * * * *
145977 CATGAA-ATGTGATGGGAAAGGTTGAGACCGCAACAGTGAGCCCGATAC
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * **
146025 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCAATAC
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * * * * **
146074 CTTAGAAGATGTGATGGG-AAGGACTGAGGCTGCAACGGCGAATTCGGTAC
1 CAT-GAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTAC
* **
146124 CATGAA-ATGTGATGGGAAAGGTTGAGGCCGCAACGGCAAACCCGGTAC
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * * *
146172 CATGAAGA-GTTGAAGGAAAAGGTTGAGGTCGCAAAGATGAACC
1 CATGAAGATG-TGAAGGGAAAGGTTGAGGCCGCAACGGTGAACC
146215 TAGTACCTTA
Statistics
Matches: 268, Mismatches: 62, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
48 80 0.30
49 118 0.44
50 70 0.26
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (49 bp):
CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
Found at i:146123 original size:147 final size:146
Alignment explanation
Indices: 145845--146205 Score: 438
Period size: 147 Copynumber: 2.5 Consensus size: 146
145835 GATTTGAAGA
* * * * * *
145845 GAAAGGTTGAGGTCGCAACGGTGAACCCGATACCTTAAAAGATGTGACGAAAAAGGTTGAGGCCG
1 GAAAGGTTGAGGCCGCAACGGTGAACCCGATACCAT-GAAGATTTGAAGGAAAAGGTTGAGGCCG
* * * * * *
145910 TAACGGCAAATCCAGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCTGGT
65 CAACGGCAAACCCAATACCATGAAGATGTGAAGGGAAAGGCTGAGGCCGCAACGGCGAACCTGGT
145975 ACCATGAAATGTGATGG
130 ACCATGAAATGTGATGG
* * * *
145992 GAAAGGTTGAGACCGCAACAGTGAGCCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGC
1 GAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATTTGAAGGAAAAGGTTGAGGCCGC
* * * * *
146057 AACGGTAAACCCAATACCTTAGAAGATGTGATGGG-AAGGACTGAGGCTGCAACGGCGAA-TTCG
66 AACGGCAAACCCAATACCAT-GAAGATGTGAAGGGAAAGG-CTGAGGCCGCAACGGCGAACCT-G
146120 GTACCATGAAATGTGATGG
128 GTACCATGAAATGTGATGG
** * * *
146139 GAAAGGTTGAGGCCGCAACGGCAAACCCGGTACCATGAAGAGTTGAAGGAAAAGGTTGAGGTCGC
1 GAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATTTGAAGGAAAAGGTTGAGGCCGC
146204 AA
66 AA
146206 AGATGAACCT
Statistics
Matches: 181, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
146 44 0.24
147 137 0.76
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.17
Consensus pattern (146 bp):
GAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATTTGAAGGAAAAGGTTGAGGCCGC
AACGGCAAACCCAATACCATGAAGATGTGAAGGGAAAGGCTGAGGCCGCAACGGCGAACCTGGTA
CCATGAAATGTGATGG
Found at i:146195 original size:196 final size:196
Alignment explanation
Indices: 145829--146198 Score: 503
Period size: 196 Copynumber: 1.9 Consensus size: 196
145819 TAAGAAAAAA
* * *
145829 CATGAAGATTTGAAGAGAAAGGTTGAGGTCGCAACGGTGAACCCGATACCTTAAAAGATGTGACG
1 CATGAAGATTTGAAGAGAAAGGTTGAGGCCGCAACGGTAAACCCAATACCTTAAAAGATGTGACG
* * *
145894 AAAAAGGTTGAGGCCGTAACGGCAAATCCAGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCCG
66 AAAAAGGCTGAGGCCGCAACGGCAAATCCAGTACCATGAAGATGTGAAGGGAAAGGTTGAGGCCG
** * * *
145959 CAACGGTGAACCTGGTACCATGAAATGTGATGGGAAAGGTTGAGACCGCAACAGTGAGCCCGATA
131 CAACGGCAAACCCGGTACCATGAAATGTGAAGGAAAAGGTTGAGACCGCAACAGTGAGCCCGATA
146024 C
196 C
* * *
146025 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCAATACCTTAGAAGATGTGATG
1 CATGAAGATTTGAAGAGAAAGGTTGAGGCCGCAACGGTAAACCCAATACCTTAAAAGATGTGACG
** * * * * *
146090 -GGAAGGACTGAGGCTGCAACGGCGAATTCGGTACCATGAA-ATGTGATGGGAAAGGTTGAGGCC
66 AAAAAGG-CTGAGGCCGCAACGGCAAATCCAGTACCATGAAGATGTGAAGGGAAAGGTTGAGGCC
146153 GCAACGGCAAACCCGGTACCATGAAGA-GTTGAAGGAAAAGGTTGAG
130 GCAACGGCAAACCCGGTACCATGAA-ATG-TGAAGGAAAAGGTTGAG
146199 GTCGCAAAGA
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
195 48 0.32
196 102 0.68
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.18
Consensus pattern (196 bp):
CATGAAGATTTGAAGAGAAAGGTTGAGGCCGCAACGGTAAACCCAATACCTTAAAAGATGTGACG
AAAAAGGCTGAGGCCGCAACGGCAAATCCAGTACCATGAAGATGTGAAGGGAAAGGTTGAGGCCG
CAACGGCAAACCCGGTACCATGAAATGTGAAGGAAAAGGTTGAGACCGCAACAGTGAGCCCGATA
C
Found at i:146515 original size:41 final size:41
Alignment explanation
Indices: 146454--146612 Score: 185
Period size: 41 Copynumber: 3.9 Consensus size: 41
146444 TTGAAACTGC
* *
146454 AGATTGAAGACTCTAATCTTTTACCCCTAATCAAGAGGGGA
1 AGATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGGGA
* * *
146495 AGATTGAAGATTCTAGTCTTTTACCCCAAATCAAGAGGGGCA
1 AGATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGGG-A
* * * * * *
146537 A-ATTAAATATTCCAGTTTTTTACCCCTAATCAAGGGGGGT
1 AGATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGGGA
* *
146577 AGATTGAAGATTCCAATCTTTTACCCTTAATTAAGA
1 AGATTGAAGATTCCAATCTTTTACCCCTAATCAAGA
146613 AGGACAGATT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 96 0.97
42 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (41 bp):
AGATTGAAGATTCCAATCTTTTACCCCTAATCAAGAGGGGA
Found at i:146716 original size:39 final size:38
Alignment explanation
Indices: 146640--146735 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 38
146630 CATCATCTTT
*
146640 TCGATCATGGGCAGATTGCAACCATCCAATCTCTTACC
1 TCGATCATGGGCAGATTGCAACCACCCAATCTCTTACC
* * *
146678 TCGATCATGGG-ACGAATTGCAGCCACCCGATCTTTTACC
1 TCGATCATGGGCA-G-ATTGCAACCACCCAATCTCTTACC
*
146717 CCGATCATGGGGCAGATTG
1 TCGATCAT-GGGCAGATTG
146736 TAGTCATCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
37 1 0.02
38 12 0.24
39 31 0.63
40 4 0.08
41 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (38 bp):
TCGATCATGGGCAGATTGCAACCACCCAATCTCTTACC
Found at i:147020 original size:37 final size:37
Alignment explanation
Indices: 146970--147042 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
146960 TAAGTGGTCA
* *
146970 TCTTCCTGATGAGATGCAGAGAAGT-GAACCAAATCTG
1 TCTTCCTAATGAGATACAGAGAAGTAG-ACCAAATCTG
147007 TCTTCCTAATGAGATACAGAGAAGTAGACCAAATCT
1 TCTTCCTAATGAGATACAGAGAAGTAGACCAAATCT
147043 ATGAAGCGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (37 bp):
TCTTCCTAATGAGATACAGAGAAGTAGACCAAATCTG
Found at i:147160 original size:159 final size:159
Alignment explanation
Indices: 146848--147190 Score: 471
Period size: 159 Copynumber: 2.2 Consensus size: 159
146838 AAGGCAGTCA
* * *
146848 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCATTGAAGCGCGACTCGATGTGAGTGAAAGT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCATTGAAGCGAGACTCAATGTGAGTGAAACT
* * *
146913 TCAAACCCTATCTTCCTGATGAGATATAAAGAAGTGGGTCGAACCAATAAGTGGTCATCTTCCTG
66 TCAAACCCCATCTTCCTGATGAGATATAAAGAAGTGGGTCAAACCAATAAGAGGTCATCTTCCTG
* *
146978 ATGAGATGCAGAGAAGTGAACCAAATCTG
131 ATGAGATACAGAGAAGTGAACCAAATCCG
* *
147007 TCTTCCTAATGAGATACAGAGAAGTAGACCAAATC-TATGAAGCGA-AGCTCAATTTGAGTGAAA
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAT-TGAAGCGAGA-CTCAATGTGAGTGAAA
* * *
147070 CTTTAAACCCCCATCTTCTTGATGAGATA-AAGAGAAGTGGGTCAAAGCAATGAAGAGGTCATCT
64 CTTCAAA-CCCCATCTTCCTGATGAGATATAA-AGAAGTGGGTCAAACCAAT-AAGAGGTCATCT
*
147134 TCTTGATGAGATACAGAGAAG-G-ACCAAATCCG
126 TCCTGATGAGATACAGAGAAGTGAACCAAATCCG
*
147166 TCTGCCTGATGAGATACAGAGAAGT
1 TCTTCCTGATGAGATACAGAGAAGT
147191 GGATTAAATC
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
158 2 0.01
159 94 0.58
160 37 0.23
161 30 0.18
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (159 bp):
TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCATTGAAGCGAGACTCAATGTGAGTGAAACT
TCAAACCCCATCTTCCTGATGAGATATAAAGAAGTGGGTCAAACCAATAAGAGGTCATCTTCCTG
ATGAGATACAGAGAAGTGAACCAAATCCG
Found at i:148376 original size:29 final size:30
Alignment explanation
Indices: 148262--148687 Score: 345
Period size: 30 Copynumber: 14.4 Consensus size: 30
148252 CCAAAATCAT
* * *
148262 ATTTTGACCCTTAAACTTTTCCAAAATCAC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* * * * *
148292 ATTTTGACCCCTAAACTTTCCCAAAATCAC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* * *
148322 ATTTTGACCTTTAAACTTTTCCAAAATTAC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
*
148352 ATTTTGA-CCTTAAACTTTTCTAAAATTAC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* *
148381 ATTTTAACCTTTAAAC-TTTC-AAAATTGC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* *
148409 ATTTTAACCCTTAAACTTTTTTAAAATTGC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* * * *
148439 ATTTTGACCCTCAAACTTCTCTAAAACTAC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* * * *
148469 ATTTTAACCCTTGAA-TTTTTTTAAATTAT
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* **
148498 A-TTTAACCCTCT-ATCTTTT-TAAAAATTTT
1 ATTTTAACCCT-TAAACTTTTCT-AAAATTAC
* * * * *
148527 GTTTTGA-CCTCTAAACTTCTCCAAAATCAC
1 ATTTTAACCCT-TAAACTTTTCTAAAATTAC
* * * *
148557 ATTTCAACCCCTAAAC-CTTCTCAAAATCAC
1 ATTTTAACCCTTAAACTTTTCT-AAAATTAC
** *
148587 ATTTTAACCCCCAAACTTCTT-TAAAATTAA
1 ATTTTAACCCTTAAACTT-TTCTAAAATTAC
148617 ATTTTAACCC-TAAACTTTTCTAAAATTAC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* *
148646 ATTTTTACACTTAAACTTTT-TCAAAATTAC
1 ATTTTAACCCTTAAACTTTTCT-AAAATTAC
148676 ATTTTAACCCTT
1 ATTTTAACCCTT
148688 TATGCTACAA
Statistics
Matches: 324, Mismatches: 56, Indels: 32
0.79 0.14 0.08
Matches are distributed among these distances:
28 35 0.11
29 84 0.26
30 200 0.62
31 3 0.01
32 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.41
Consensus pattern (30 bp):
ATTTTAACCCTTAAACTTTTCTAAAATTAC
Found at i:148394 original size:59 final size:60
Alignment explanation
Indices: 148227--148689 Score: 315
Period size: 59 Copynumber: 7.8 Consensus size: 60
148217 GTTTTCTTTA
* * * * * * *
148227 AAAATCACATTTTGACCC--AAAC-TTCCCAAAATCATATTTTGACCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCTTAAACTTTTCTAAAATTACATTTTAACCTTTAAACTTTTCC
* * * * * *
148284 AAAATCACATTTTGACCCCTAAACTTTCCCAAAATCACATTTTGACCTTTAAACTTTTCC
1 AAAATTACATTTTGACCCTTAAACTTTTCTAAAATTACATTTTAACCTTTAAACTTTTCC
148344 AAAATTACATTTTGA-CCTTAAACTTTTCTAAAATTACATTTTAACCTTTAAAC-TTT-C
1 AAAATTACATTTTGACCCTTAAACTTTTCTAAAATTACATTTTAACCTTTAAACTTTTCC
* * * * * * * * *
148401 AAAATTGCATTTTAACCCTTAAACTTTTTTAAAATTGCATTTTGACCCTCAAACTTCTCT
1 AAAATTACATTTTGACCCTTAAACTTTTCTAAAATTACATTTTAACCTTTAAACTTTTCC
* * * * * * * * **
148461 AAAACTACATTTTAACCCTTGAA-TTTTTTTAAATTATA-TTTAACCCTCT-ATCTTTTTA
1 AAAATTACATTTTGACCCTTAAACTTTTCTAAAATTACATTTTAA-CCTTTAAACTTTTCC
*** * * * * ** *
148519 AAAATTTTGTTTTGA-CCTCTAAACTTCTCCAAAATCACATTTCAACCCCTAAAC-CTTCTC
1 AAAATTACATTTTGACCCT-TAAACTTTTCTAAAATTACATTTTAACCTTTAAACTTTTC-C
* * ** * * *
148579 AAAATCACATTTTAACCCCCAAACTTCTT-TAAAATTAAATTTTAACC-CTAAACTTTTCT
1 AAAATTACATTTTGACCCTTAAACTT-TTCTAAAATTACATTTTAACCTTTAAACTTTTCC
* *
148638 AAAATTACATTTTTACACTTAAACTTTT-TCAAAATTACATTTTAACCCTTTA
1 AAAATTACATTTTGACCCTTAAACTTTTCT-AAAATTACATTTTAA-CCTTTA
148690 TGCTACAAAA
Statistics
Matches: 318, Mismatches: 70, Indels: 32
0.76 0.17 0.08
Matches are distributed among these distances:
57 35 0.11
58 61 0.19
59 109 0.34
60 108 0.34
61 5 0.02
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (60 bp):
AAAATTACATTTTGACCCTTAAACTTTTCTAAAATTACATTTTAACCTTTAAACTTTTCC
Found at i:148435 original size:117 final size:117
Alignment explanation
Indices: 148227--148478 Score: 265
Period size: 117 Copynumber: 2.2 Consensus size: 117
148217 GTTTTCTTTA
* * *
148227 AAAATCACATTTTGACCCAAACTTCCCAAAATCATATTTTGACCCTTAAACTTTTCCAAAATCAC
1 AAAATTACATTTTGACCCAAACTTCCCAAAATCACATTTTAACCCTTAAACTTTTCCAAAATCAC
* * * *
148292 ATTTTGACCCCTAAACTTTCCCAAAATCACATTTTGACCTTTAAACTTTTCC
66 ATTTTAACCCCTAAACTTTCCCAAAATCACATTTTGACCCTCAAACTTCTCC
* * * * * *
148344 AAAATTACATTTTGACCTTAAACTTTTCTAAAATTACATTTTAACCTTTAAAC-TTT-CAAAATT
1 AAAATTACATTTTGACC-CAAAC-TTCCCAAAATCACATTTTAACCCTTAAACTTTTCCAAAATC
* * *** ** *
148407 GCATTTTAACCCTTAAACTTTTTTAAAATTGCATTTTGACCCTCAAACTTCTCT
64 ACATTTTAACCCCTAAACTTTCCCAAAATCACATTTTGACCCTCAAACTTCTCC
* *
148461 AAAACTACATTTTAACCC
1 AAAATTACATTTTGACCC
148479 TTGAATTTTT
Statistics
Matches: 109, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
117 79 0.72
118 7 0.06
119 23 0.21
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (117 bp):
AAAATTACATTTTGACCCAAACTTCCCAAAATCACATTTTAACCCTTAAACTTTTCCAAAATCAC
ATTTTAACCCCTAAACTTTCCCAAAATCACATTTTGACCCTCAAACTTCTCC
Found at i:148503 original size:88 final size:89
Alignment explanation
Indices: 148262--148687 Score: 378
Period size: 89 Copynumber: 4.8 Consensus size: 89
148252 CCAAAATCAT
* * * * * * ** *
148262 ATTTTGACCCTTAAACTTTTCCAAAATCACATTTTGACCCCTAAACTTTCCCAAAATCACATTTT
1 ATTTTGA-CCTCAAACTTCTCTAAAATTACATTTTAACCCTTAAACTTTTTCAAAATTACATTTT
* * **
148327 GACCTTTAAACTTTTCCAAAATTAC
65 AACCCTTAAACTTTTTTAAAATTAC
* * * *
148352 ATTTTGACCTTAAACTTTTCTAAAATTACATTTTAACCTTTAAAC--TTTCAAAATTGCATTTTA
1 ATTTTGACCTCAAACTTCTCTAAAATTACATTTTAACCCTTAAACTTTTTCAAAATTACATTTTA
*
148415 ACCCTTAAACTTTTTTAAAATTGC
66 ACCCTTAAACTTTTTTAAAATTAC
* * ** *
148439 ATTTTGACCCTCAAACTTCTCTAAAACTACATTTTAACCCTTGAA-TTTTTTTAAATTATA-TTT
1 ATTTTGA-CCTCAAACTTCTCTAAAATTACATTTTAACCCTTAAACTTTTTCAAAATTACATTTT
* * **
148502 AACCCTCT-ATCTTTTTAAAAATTTT
65 AACCCT-TAAACTTTTTTAAAATTAC
* * * * * * * *
148527 GTTTTGACCTCTAAACTTCTCCAAAATCACATTTCAACCCCTAAACCTTCTCAAAATCACATTTT
1 ATTTTGACCTC-AAACTTCTCTAAAATTACATTTTAACCCTTAAACTTTTTCAAAATTACATTTT
** * *
148592 AACCCCCAAACTTCTTTAAAATTAA
65 AACCCTTAAACTTTTTTAAAATTAC
* * * *
148617 ATTTTAACC-CTAAACTTTTCTAAAATTACATTTTTACACTTAAACTTTTTCAAAATTACATTTT
1 ATTTTGACCTC-AAACTTCTCTAAAATTACATTTTAACCCTTAAACTTTTTCAAAATTACATTTT
148681 AACCCTT
65 AACCCTT
148688 TATGCTACAA
Statistics
Matches: 267, Mismatches: 61, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
87 44 0.16
88 87 0.33
89 102 0.38
90 34 0.13
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.41
Consensus pattern (89 bp):
ATTTTGACCTCAAACTTCTCTAAAATTACATTTTAACCCTTAAACTTTTTCAAAATTACATTTTA
ACCCTTAAACTTTTTTAAAATTAC
Found at i:154287 original size:21 final size:21
Alignment explanation
Indices: 154263--154322 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
154253 TAATTGCATG
154263 ACTTGTATCAGTAGAAATT-A
1 ACTTGTATCAGTAGAAATTGA
* *
154283 CACTTGTATCGGTAGAACTTGA
1 -ACTTGTATCAGTAGAAATTGA
**
154305 ACAGGTATCAGTAGAAAT
1 ACTTGTATCAGTAGAAAT
154323 CTGTACAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (21 bp):
ACTTGTATCAGTAGAAATTGA
Found at i:160293 original size:17 final size:17
Alignment explanation
Indices: 160272--160374 Score: 106
Period size: 17 Copynumber: 6.3 Consensus size: 17
160262 CGTTTGCTAA
*
160272 TATATCACTAAACTATA
1 TATATCACTAAACTATT
* *
160289 TATAT-GC-GAACTATT
1 TATATCACTAAACTATT
* *
160304 TATACCACTAAACTGTT
1 TATATCACTAAACTATT
160321 TATAT-AC-AAACTATT
1 TATATCACTAAACTATT
* *
160336 TATATCACTAAATTGTT
1 TATATCACTAAACTATT
*
160353 TATATCACTAAAGTATT
1 TATATCACTAAACTATT
160370 TATAT
1 TATAT
160375 GCGAACTGTT
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
15 22 0.32
16 6 0.09
17 41 0.59
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.41
Consensus pattern (17 bp):
TATATCACTAAACTATT
Found at i:160325 original size:32 final size:32
Alignment explanation
Indices: 160272--160374 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 32
160262 CGTTTGCTAA
* * * *
160272 TATATCACTAAACTATATATATGCGAACTATT
1 TATATCACTAAACTGTTTATATACAAACTATT
*
160304 TATACCACTAAACTGTTTATATACAAACTATT
1 TATATCACTAAACTGTTTATATACAAACTATT
* *
160336 TATATCACTAAATTGTTTATATCACTAAAGTATT
1 TATATCACTAAACTGTTTATAT-AC-AAACTATT
160370 TATAT
1 TATAT
160375 GCGAACTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
32 47 0.77
33 2 0.03
34 12 0.20
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.41
Consensus pattern (32 bp):
TATATCACTAAACTGTTTATATACAAACTATT
Found at i:160375 original size:81 final size:81
Alignment explanation
Indices: 160272--160421 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
160262 CGTTTGCTAA
*
160272 TATATCACTAAACTATATATATGCGAACTATTTATACCACTAAACTGTTTATATACAAACTATTT
1 TATATCACTAAACTATATATATGCGAACTATTTATACCACTAAACTGTTTATATACAAACTACTT
160337 ATATCACTAAATTGTT
66 ATATCACTAAATTGTT
* * * ** * *
160353 TATATCACTAAAGTATTTATATGCGAACTGTTTATATGACTAAATTGTTTATATGCAAACTACTT
1 TATATCACTAAACTATATATATGCGAACTATTTATACCACTAAACTGTTTATATACAAACTACTT
160418 ATAT
66 ATAT
160422 GTGAATGGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (81 bp):
TATATCACTAAACTATATATATGCGAACTATTTATACCACTAAACTGTTTATATACAAACTACTT
ATATCACTAAATTGTT
Found at i:160385 original size:32 final size:31
Alignment explanation
Indices: 160313--160413 Score: 105
Period size: 32 Copynumber: 3.2 Consensus size: 31
160303 TTATACCACT
*
160313 AAACTGTTTATATAC-AAACTATTTATATCAC
1 AAACTGTTTATATACTAAACTATTTATAT-GC
* *
160344 TAAATTGTTTATATCACTAAAGTATTTATATGC
1 -AAACTGTTTATAT-ACTAAACTATTTATATGC
* * *
160377 GAACTGTTTATATGACTAAATTGTTTATATGC
1 AAACTGTTTATAT-ACTAAACTATTTATATGC
160409 AAACT
1 AAACT
160414 ACTTATATGT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
32 43 0.74
33 3 0.05
34 12 0.21
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (31 bp):
AAACTGTTTATATACTAAACTATTTATATGC
Found at i:160403 original size:17 final size:17
Alignment explanation
Indices: 160310--160407 Score: 96
Period size: 17 Copynumber: 6.0 Consensus size: 17
160300 TATTTATACC
160310 ACTAAACTGTTTATAT-
1 ACTAAACTGTTTATATG
* *
160326 AC-AAACTATTTATATC
1 ACTAAACTGTTTATATG
* *
160342 ACTAAATTGTTTATATC
1 ACTAAACTGTTTATATG
* *
160359 ACTAAAGTATTTATATG
1 ACTAAACTGTTTATATG
*
160376 -C-GAACTGTTTATATG
1 ACTAAACTGTTTATATG
*
160391 ACTAAATTGTTTATATG
1 ACTAAACTGTTTATATG
160408 CAAACTACTT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
15 23 0.34
16 6 0.09
17 38 0.57
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (17 bp):
ACTAAACTGTTTATATG
Found at i:160406 original size:49 final size:49
Alignment explanation
Indices: 160302--160406 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
160292 ATGCGAACTA
* *
160302 TTTATACCACTAAACTGTTTATATACAAACTATTTATATCACTAAATTG
1 TTTATATCACTAAACTATTTATATACAAACTATTTATATCACTAAATTG
* * * * *
160351 TTTATATCACTAAAGTATTTATATGCGAACTGTTTATATGACTAAATTG
1 TTTATATCACTAAACTATTTATATACAAACTATTTATATCACTAAATTG
160400 TTTATAT
1 TTTATAT
160407 GCAAACTACT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (49 bp):
TTTATATCACTAAACTATTTATATACAAACTATTTATATCACTAAATTG
Found at i:160420 original size:32 final size:32
Alignment explanation
Indices: 160352--160422 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
160342 ACTAAATTGT
* * **
160352 TTATATCACTAAAGTATTTATATGCGAACTGT
1 TTATATGACTAAAGTATTTATATGCAAACTAC
* *
160384 TTATATGACTAAATTGTTTATATGCAAACTAC
1 TTATATGACTAAAGTATTTATATGCAAACTAC
160416 TTATATG
1 TTATATG
160423 TGAATGGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (32 bp):
TTATATGACTAAAGTATTTATATGCAAACTAC
Found at i:160792 original size:36 final size:36
Alignment explanation
Indices: 160725--160845 Score: 131
Period size: 36 Copynumber: 3.4 Consensus size: 36
160715 TTAGCACAAT
* *
160725 ATATTCACTATCACATGACAT--ATAACATACCCAC
1 ATATTCACTGTCACATGGCATGAATAACATACCCAC
* * *
160759 ATATTCA-TAGTCTCATGGCATTAATATCATACCCAC
1 ATATTCACT-GTCACATGGCATGAATAACATACCCAC
* *
160795 ATATTTACTGTCACATGGCATGAATAACATACTCAC
1 ATATTCACTGTCACATGGCATGAATAACATACCCAC
* *
160831 ATATCCACTTTCACA
1 ATATTCACTGTCACA
160846 ACAGTCACCA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
33 1 0.01
34 16 0.23
36 53 0.75
37 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (36 bp):
ATATTCACTGTCACATGGCATGAATAACATACCCAC
Found at i:163164 original size:16 final size:17
Alignment explanation
Indices: 163143--163185 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
163133 TTGATTTAGC
163143 AAAAAAGAAAATAATA-
1 AAAAAAGAAAATAATAG
* *
163159 AAAAAAGCAATTAATAG
1 AAAAAAGAAAATAATAG
*
163176 AAAACAGAAA
1 AAAAAAGAAA
163186 CAAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAAGAAAATAATAG
Found at i:165764 original size:36 final size:36
Alignment explanation
Indices: 165690--165799 Score: 116
Period size: 36 Copynumber: 3.1 Consensus size: 36
165680 TTAGCACAAT
** *
165690 ATATTCATTGTCACATGGCA-T-ATAACATTCCCAC
1 ATATTCACAGTCACATGGCATTAATAACATACCCAC
* *
165724 ATATTCACAGTCTCATGGCATTAATATCATACCCAC
1 ATATTCACAGTCACATGGCATTAATAACATACCCAC
* * * * *
165760 ATATTTACTGTCACATGGCATGAAAAACATACTCAC
1 ATATTCACAGTCACATGGCATTAATAACATACCCAC
165796 ATAT
1 ATAT
165800 CCACTTTCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
34 17 0.27
35 1 0.02
36 44 0.71
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (36 bp):
ATATTCACAGTCACATGGCATTAATAACATACCCAC
Found at i:165926 original size:72 final size:72
Alignment explanation
Indices: 165820--165966 Score: 294
Period size: 72 Copynumber: 2.0 Consensus size: 72
165810 AACAGTCATA
165820 ACAAGCTGGTAACACATGCCATAACATCTCATATATGTCCACAATATCATAAATTCACAAGCAAC
1 ACAAGCTGGTAACACATGCCATAACATCTCATATATGTCCACAATATCATAAATTCACAAGCAAC
165885 ATACTTC
66 ATACTTC
165892 ACAAGCTGGTAACACATGCCATAACATCTCATATATGTCCACAATATCATAAATTCACAAGCAAC
1 ACAAGCTGGTAACACATGCCATAACATCTCATATATGTCCACAATATCATAAATTCACAAGCAAC
165957 ATACTTC
66 ATACTTC
165964 ACA
1 ACA
165967 TTTAATCATA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (72 bp):
ACAAGCTGGTAACACATGCCATAACATCTCATATATGTCCACAATATCATAAATTCACAAGCAAC
ATACTTC
Done.