Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 140 of 147
Found at i:25741417 original size:12 final size:12
Alignment explanation
Indices: 25741400--25741425 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25741390 CTTACTTACC
25741400 TTTATATATATA
1 TTTATATATATA
25741412 TTTATATATATA
1 TTTATATATATA
25741424 TT
1 TT
25741426 ATTTAGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATATATATA
Found at i:25742336 original size:2 final size:2
Alignment explanation
Indices: 25742329--25742370 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
25742319 TACTTACCTT
25742329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25742371 CTTAATTTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25742889 original size:47 final size:47
Alignment explanation
Indices: 25742837--25742928 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
25742827 ACCTCTAACC
* *
25742837 TTTATATGTGTGTACATTTTAGTGATACTTAATTGTATTATGGTATA
1 TTTATATGTGTGTACATTTTAGTGACACTTAATTATATTATGGTATA
*
25742884 TTTATATGTGTGTACATTTTGGTGACACTTAATTATATTATGGTA
1 TTTATATGTGTGTACATTTTAGTGACACTTAATTATATTATGGTA
25742929 GGATTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.50
Consensus pattern (47 bp):
TTTATATGTGTGTACATTTTAGTGACACTTAATTATATTATGGTATA
Found at i:25750125 original size:24 final size:24
Alignment explanation
Indices: 25750085--25750133 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
25750075 AAACTATATC
* *
25750085 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
25750108 ATATTAATAATTAAAAATATAATTA
1 ATATT-ATAATTAAAAATATAATTA
25750133 A
1 A
25750134 AACAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:25756312 original size:2 final size:2
Alignment explanation
Indices: 25756305--25756338 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25756295 TTTCTTTACG
25756305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25756339 AGGAAAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25766006 original size:22 final size:20
Alignment explanation
Indices: 25765975--25766014 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25765965 GATTTAAAAT
25765975 TTTAACAAAAATTATAAATAAA
1 TTTAAC-AAAATTA-AAATAAA
*
25765997 TTTAATAAAATTAAAATA
1 TTTAACAAAATTAAAATA
25766015 TATATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTAACAAAATTAAAATAAA
Found at i:25767344 original size:101 final size:101
Alignment explanation
Indices: 25767226--25767431 Score: 376
Period size: 101 Copynumber: 2.0 Consensus size: 101
25767216 TGTTGTCATA
* *
25767226 TTCATAAACATTTTATATATGTTTGATTTTCTTAGGATGAGTTAATATGTCAAATATTGATTATT
1 TTCATAAACATTTTATATATGTTTGATTTTCTTAGGACGAGTCAATATGTCAAATATTGATTATT
25767291 CTAATTCAACATGTATTTCTTTGAGTTTTTGTGTTT
66 CTAATTCAACATGTATTTCTTTGAGTTTTTGTGTTT
25767327 TTCATAAACATTTTATATATGTTTGATTTTCTTAGGACGAGTCAATATGTCAAATATTGATTATT
1 TTCATAAACATTTTATATATGTTTGATTTTCTTAGGACGAGTCAATATGTCAAATATTGATTATT
* *
25767392 CTAATTCAATATGTGTTTCTTTGAGTTTTTGTGTTT
66 CTAATTCAACATGTATTTCTTTGAGTTTTTGTGTTT
25767428 TTCA
1 TTCA
25767432 CTGTTCCAAT
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (101 bp):
TTCATAAACATTTTATATATGTTTGATTTTCTTAGGACGAGTCAATATGTCAAATATTGATTATT
CTAATTCAACATGTATTTCTTTGAGTTTTTGTGTTT
Found at i:25773038 original size:2 final size:2
Alignment explanation
Indices: 25773031--25773062 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25773021 CTATCAACTT
25773031 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25773063 CATTTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25776871 original size:15 final size:15
Alignment explanation
Indices: 25776826--25776872 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
25776816 AAATTTATCG
25776826 TTTTTTTAATTA-AA
1 TTTTTTTAATTATAA
*
25776840 TATTAATTTAA-TATAA
1 T-TT-TTTTAATTATAA
25776856 TTTTTTTAATTATAA
1 TTTTTTTAATTATAA
25776871 TT
1 TT
25776873 ATAATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 6 0.22
15 13 0.48
16 8 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTTTAATTATAA
Found at i:25776883 original size:23 final size:23
Alignment explanation
Indices: 25776842--25776916 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
25776832 TAATTAAATA
25776842 TTAATT-TAA-TATAAT--TTTT
1 TTAATTATAATTATAATAATTTT
25776861 TTAATTATAATTATAATAATTTT
1 TTAATTATAATTATAATAATTTT
*
25776884 TTAATTATAATTATATTAATTTT
1 TTAATTATAATTATAATAATTTT
*
25776907 TATTATTATA
1 T-TAATTATA
25776917 TTTAATTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 6 0.12
20 3 0.06
21 6 0.12
23 27 0.55
24 7 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATTATAATTATAATAATTTT
Found at i:25776914 original size:18 final size:19
Alignment explanation
Indices: 25776888--25776925 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
25776878 AATTTTTTAA
25776888 TTATAATTATA-TTAATTT
1 TTATAATTATATTTAATTT
*
25776906 TTATTATTATATTTAATTT
1 TTATAATTATATTTAATTT
25776925 T
1 T
25776926 ATCAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATAATTATATTTAATTT
Found at i:25777635 original size:14 final size:16
Alignment explanation
Indices: 25777613--25777644 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25777603 ATTATTACAA
25777613 TTATAATTAAA-AAAT
1 TTATAATTAAATAAAT
25777628 TTAT-ATTAAATAAAT
1 TTATAATTAAATAAAT
25777643 TT
1 TT
25777645 TACTAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATAATTAAATAAAT
Found at i:25779299 original size:14 final size:14
Alignment explanation
Indices: 25779280--25779308 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25779270 ATAAAATTCA
25779280 ATCAAATTTAAATC
1 ATCAAATTTAAATC
25779294 ATCAAATTTAAATC
1 ATCAAATTTAAATC
25779308 A
1 A
25779309 AACTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATCAAATTTAAATC
Found at i:25779893 original size:12 final size:12
Alignment explanation
Indices: 25779876--25779915 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
25779866 TAATATGTGT
25779876 AAATTATATTTA
1 AAATTATATTTA
25779888 AAATTATATTTA
1 AAATTATATTTA
* *
25779900 AAATTAAATTTC
1 AAATTATATTTA
25779912 AAAT
1 AAAT
25779916 ATCAAATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTATATTTA
Found at i:25780471 original size:23 final size:22
Alignment explanation
Indices: 25780430--25780472 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
25780420 AATTAGTTGG
*
25780430 TCAATGAAAAATAATTTATTAA
1 TCAATGAAAAATAAATTATTAA
25780452 TCAATGAAAAATAAAATTATT
1 TCAATGAAAAAT-AAATTATT
25780473 TTTTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (22 bp):
TCAATGAAAAATAAATTATTAA
Found at i:25780602 original size:27 final size:23
Alignment explanation
Indices: 25780569--25780737 Score: 102
Period size: 23 Copynumber: 7.5 Consensus size: 23
25780559 TTTACTTATA
*
25780569 AATAATATTATATTAATAAAATAATT
1 AATAA-ATAATATT-ATAAAAT-ATT
*
25780595 AATAAATAATATTATAATATATT
1 AATAAATAATATTATAAAATATT
*
25780618 CATAAATAATA--AT---ATATT
1 AATAAATAATATTATAAAATATT
* * * *
25780636 CATAAATAATAATATTATATATT
1 AATAAATAATATTATAAAATATT
* **
25780659 AATGAATGTTATTAT-AAATA--
1 AATAAATAATATTATAAAATATT
* * * *
25780679 AATATATACTAATATATTAATATT
1 AATAAATAATATTATA-AAATATT
*
25780703 AATAAATAATATTATAATATATT
1 AATAAATAATATTATAAAATATT
*
25780726 ACTAAATAATAT
1 AATAAATAATAT
25780738 AAAATTATTA
Statistics
Matches: 113, Mismatches: 21, Indels: 21
0.73 0.14 0.14
Matches are distributed among these distances:
18 16 0.14
20 12 0.11
21 2 0.02
22 8 0.07
23 44 0.39
24 19 0.17
25 7 0.06
26 5 0.04
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (23 bp):
AATAAATAATATTATAAAATATT
Found at i:25780628 original size:30 final size:30
Alignment explanation
Indices: 25780566--25780647 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
25780556 AATTTTACTT
* *
25780566 ATAAATAATATTATATTAATAAAATAATTA
1 ATAAATAATATTATAATAATAAAATAAATA
**
25780596 ATAAATAATATTATAAT-ATATTCATAAATA
1 ATAAATAATATTATAATAATA-AAATAAATA
25780626 AT-AAT-ATATTCATAAATAATAA
1 ATAAATAATATT-AT-AATAATAA
25780648 TATTATATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 5 0.12
29 8 0.19
30 27 0.63
31 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
ATAAATAATATTATAATAATAAAATAAATA
Found at i:25780631 original size:18 final size:18
Alignment explanation
Indices: 25780566--25780650 Score: 88
Period size: 18 Copynumber: 4.8 Consensus size: 18
25780556 AATTTTACTT
* *
25780566 ATAAATAATATTATATTA
1 ATAAATAATAATATATTC
25780584 ATAAAATAATTAATA-A---
1 AT-AAATAA-TAATATATTC
*
25780600 ATAATATTATAATATATTC
1 ATAA-ATAATAATATATTC
25780619 ATAAATAATAATATATTC
1 ATAAATAATAATATATTC
25780637 ATAAATAATAATAT
1 ATAAATAATAATAT
25780651 TATATATTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
15 7 0.12
16 6 0.11
18 29 0.51
19 11 0.19
20 4 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATAATAATATATTC
Found at i:25780843 original size:15 final size:15
Alignment explanation
Indices: 25780823--25780863 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
25780813 TATAATTATT
*
25780823 TTTTAATATTAATAA
1 TTTTAATATAAATAA
25780838 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
25780854 TTTCAATATA
1 TTTTAATATA
25780864 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:25780861 original size:25 final size:26
Alignment explanation
Indices: 25780833--25780896 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
25780823 TTTTAATATT
25780833 AATAATTTTAATAATAAAT-AATTTC
1 AATAATTTTAATAATAAATAAATTTC
*
25780858 AATATATTTTAATAATAAATAAATTTT
1 AATA-ATTTTAATAATAAATAAATTTC
25780885 AAT-ATTTTAATA
1 AATAATTTTAATA
25780897 GTTATATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
25 13 0.36
26 15 0.42
27 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAAATTTC
Found at i:25780888 original size:10 final size:9
Alignment explanation
Indices: 25780826--25780896 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
25780816 AATTATTTTT
*
25780826 TAATATTAA
1 TAATTTTAA
25780835 TAATTTTAA
1 TAATTTTAA
*
25780844 TAA--TAAA
1 TAATTTTAA
*
25780851 TAATTTCAA
1 TAATTTTAA
25780860 TATATTTTAA
1 TA-ATTTTAA
*
25780870 TAA--TAAA
1 TAATTTTAA
25780877 TAAATTTTAA
1 T-AATTTTAA
25780887 T-ATTTTAA
1 TAATTTTAA
25780895 TA
1 TA
25780897 GTTATATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
7 10 0.20
8 10 0.20
9 17 0.35
10 12 0.24
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (9 bp):
TAATTTTAA
Found at i:25781058 original size:15 final size:14
Alignment explanation
Indices: 25781019--25781058 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
25781009 ATATAACTTT
*
25781019 TTTTCAAAAAATCA
1 TTTTCTAAAAATCA
*
25781033 TTTTTTAAAAATCA
1 TTTTCTAAAAATCA
25781047 TTTTCTACAAAA
1 TTTTCTA-AAAA
25781059 CAAATGAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTTCTAAAAATCA
Found at i:25782174 original size:6 final size:6
Alignment explanation
Indices: 25782165--25782191 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25782155 AATTATGCTT
25782165 ATTAAA ATTAAA ATTAAA ATTAAA ATT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATT
25782192 TTAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATTAAA
Found at i:25782883 original size:27 final size:28
Alignment explanation
Indices: 25782839--25782892 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
25782829 TAATTTTAAT
**
25782839 AAATTATTATTAATAAAACTTAAATTTA
1 AAATTATTATTAATAAAAAATAAATTTA
25782867 AAATTATT-TT-ATAAAAAAATAAATTT
1 AAATTATTATTAAT-AAAAAATAAATTT
25782893 TAATTAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.09
27 13 0.57
28 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
AAATTATTATTAATAAAAAATAAATTTA
Found at i:25790016 original size:183 final size:181
Alignment explanation
Indices: 25789710--25790075 Score: 606
Period size: 183 Copynumber: 2.0 Consensus size: 181
25789700 CAATACTACT
** *
25789710 TAAGGGAAACAACCAAACCAAATGATTAACCAGAACTCATGTTAAATAACTGGGGTATTCTGTTT
1 TAAGGGAAACAACCAAACCAAATGATTAACCAGAACTCATGTTAAATAAAAGGGGTATTCCGTTT
** *
25789775 TTGTACATCTGCACGTATAACCTCAGTGTGCTCCCCAGTTAAACTTCCTTCTTCTTTACACCGTA
66 TTGTACATCTAAACGCATAACCTCAGTGTGCTCCCCAGTTAAACTTCCTTCTTCTTTACACCGTA
25789840 ACCACACTATCTTATACTGAGCATAATCAATGTATTTCCATTGGCTAAACC
131 ACCACACTATCTTATACTGAGCATAATCAATGTATTTCCATTGGCTAAACC
* *
25789891 TAAGGGAAACAACCAAACTAAATGATTAATCAGAACTCATGTTAAATTAGAAAGGGGTATTCCGT
1 TAAGGGAAACAACCAAACCAAATGATTAACCAGAACTCATGTTAAA-TA-AAAGGGGTATTCCGT
* * *
25789956 TTTTGTACATCTAAATGCATAACCTCAGTGTGCTCTCCAGTTAAACTTCCTTCTTCTTTACACTG
64 TTTTGTACATCTAAACGCATAACCTCAGTGTGCTCCCCAGTTAAACTTCCTTCTTCTTTACACCG
*
25790021 TAACCACACTATCTTATACTGAGCATAATTAATGTATTTCCATTGGCTAAACC
129 TAACCACACTATCTTATACTGAGCATAATCAATGTATTTCCATTGGCTAAACC
25790074 TA
1 TA
25790076 CTAATTCCTT
Statistics
Matches: 171, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
181 44 0.26
182 2 0.01
183 125 0.73
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (181 bp):
TAAGGGAAACAACCAAACCAAATGATTAACCAGAACTCATGTTAAATAAAAGGGGTATTCCGTTT
TTGTACATCTAAACGCATAACCTCAGTGTGCTCCCCAGTTAAACTTCCTTCTTCTTTACACCGTA
ACCACACTATCTTATACTGAGCATAATCAATGTATTTCCATTGGCTAAACC
Found at i:25795438 original size:20 final size:21
Alignment explanation
Indices: 25795415--25795466 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
25795405 TAAAATATAT
25795415 TAATTTTA-ATTAATTTAA-AA
1 TAATTTTATATT-ATTTAATAA
25795435 TAATAATTTATATTATTTAATAA
1 TAAT--TTTATATTATTTAATAA
*
25795458 AAATTTTAT
1 TAATTTTAT
25795467 TCACTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 10 0.37
23 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATTTTATATTATTTAATAA
Found at i:25795449 original size:23 final size:24
Alignment explanation
Indices: 25795405--25795454 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 24
25795395 CATTTTTTAA
25795405 TAAAATATATTAATTTTAATTAATT
1 TAAAATATATTAATTTTAATT-ATT
25795430 TAAAATA-A-TAA-TTTATATTATT
1 TAAAATATATTAATTTTA-ATTATT
25795452 TAA
1 TAA
25795455 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 1 0.04
25 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAAAATATATTAATTTTAATTATT
Found at i:25799575 original size:12 final size:12
Alignment explanation
Indices: 25799558--25799583 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25799548 AATTAATATA
25799558 ATATATATACGT
1 ATATATATACGT
25799570 ATATATATACGT
1 ATATATATACGT
25799582 AT
1 AT
25799584 CCATAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATATATATACGT
Found at i:25813685 original size:27 final size:27
Alignment explanation
Indices: 25813655--25813737 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
25813645 TACAAAAATG
25813655 TTAAAAATTATTTATTATTAAAATATA
1 TTAAAAATTATTTATTATTAAAATATA
*
25813682 TTAAAAATTATTTATTTTTAAAATATA
1 TTAAAAATTATTTATTATTAAAATATA
* * *
25813709 TT-GAAAGTAGTTATTATTAAAAT-TA
1 TTAAAAATTATTTATTATTAAAATATA
25813734 TTAA
1 TTAA
25813738 TATTAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
25 4 0.08
26 17 0.35
27 28 0.57
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
TTAAAAATTATTTATTATTAAAATATA
Found at i:25813754 original size:20 final size:19
Alignment explanation
Indices: 25813732--25813804 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 19
25813722 TTATTAAAAT
25813732 TATTAATATTAAAAAAT-A
1 TATTAATATTAAAAAATAA
* *
25813750 -ATT-ATATTTTAATAATAA
1 TATTAATA-TTAAAAAATAA
* *
25813768 TATTTAATATTAAAATATTA
1 TA-TTAATATTAAAAAATAA
*
25813788 TGTTAATA-TAAAAAATA
1 TATTAATATTAAAAAATA
25813805 CTTAAAATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
16 3 0.07
17 10 0.24
18 8 0.20
19 7 0.17
20 10 0.24
21 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (19 bp):
TATTAATATTAAAAAATAA
Found at i:25813793 original size:19 final size:18
Alignment explanation
Indices: 25813723--25813809 Score: 69
Period size: 18 Copynumber: 5.0 Consensus size: 18
25813713 AAGTAGTTAT
25813723 TATTAAAAT--TA-TTAA
1 TATTAAAATAATATTTAA
*
25813738 TATTAAAA-AATAATTATA
1 TATTAAAATAATATTTA-A
*
25813756 TTTTAATAATAATATTTAA
1 TATTAA-AATAATATTTAA
*
25813775 TATTAAAATATTATGTTAA
1 TATTAAAATAATAT-TTAA
*
25813794 TA-TAAAA-AATACTTAA
1 TATTAAAATAATATTTAA
25813810 AATAAAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
15 8 0.14
16 6 0.10
17 6 0.10
18 18 0.31
19 14 0.24
20 7 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (18 bp):
TATTAAAATAATATTTAA
Found at i:25813939 original size:44 final size:44
Alignment explanation
Indices: 25813841--25813939 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
25813831 TTGTATTAAT
*
25813841 ATATTATTTATTAATATATTATTATAATATTATTAATTAAATTA
1 ATATTATTTATTAATATATTATTATAATAATATTAATTAAATTA
* * * * * *
25813885 ATAATGTTTATTATTATATTATTCTATTAATA-T-ATTGTAATATA
1 ATATTATTTATTAATATATTATTATAATAATATTAATT-AAAT-TA
25813929 ATATTATTTAT
1 ATATTATTTAT
25813940 AAGTAAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
42 3 0.07
43 4 0.09
44 37 0.84
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (44 bp):
ATATTATTTATTAATATATTATTATAATAATATTAATTAAATTA
Found at i:25814129 original size:13 final size:14
Alignment explanation
Indices: 25814103--25814130 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25814093 TATAAAAATA
25814103 TAAAAATTATTTTT
1 TAAAAATTATTTTT
25814117 TAAAAATTATTTTT
1 TAAAAATTATTTTT
25814131 CACCAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAAAAATTATTTTT
Found at i:25828629 original size:16 final size:16
Alignment explanation
Indices: 25828605--25828635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25828595 GTGCAACTAT
25828605 TTTCAACTAATTTTAA
1 TTTCAACTAATTTTAA
*
25828621 TTTCTACTAATTTTA
1 TTTCAACTAATTTTA
25828636 GCTAAACCTT
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:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTCAACTAATTTTAA
Found at i:25828887 original size:27 final size:26
Alignment explanation
Indices: 25828857--25828914 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
25828847 TAAAATAATA
25828857 ACTAAAGTATT-ATTTTTTTGTTTGATC
1 ACTAAAGTATTGATTTTTTT-TTT-ATC
* *
25828884 ACTAACGTTTTGATTTTTTTTTTATC
1 ACTAAAGTATTGATTTTTTTTTTATC
25828910 ACTAA
1 ACTAA
25828915 GATGTTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.29
27 12 0.43
28 8 0.29
ACGTcount: A:0.26, C:0.10, G:0.09, T:0.55
Consensus pattern (26 bp):
ACTAAAGTATTGATTTTTTTTTTATC
Found at i:25830371 original size:27 final size:27
Alignment explanation
Indices: 25830320--25830371 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
25830310 GGTGGAGGAA
* *
25830320 GTCCATAAGGTCTAAGAGATTGAGGGG
1 GTCCATAAGGCCTAAGAGATAGAGGGG
* *
25830347 GTCCATAAGGCCTACGAGGTAGAGG
1 GTCCATAAGGCCTAAGAGATAGAGG
25830372 AGGTTTACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.37, T:0.19
Consensus pattern (27 bp):
GTCCATAAGGCCTAAGAGATAGAGGGG
Found at i:25834426 original size:11 final size:10
Alignment explanation
Indices: 25834410--25834469 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 10
25834400 GCTCTTCTTT
25834410 TTTTATTTCGA
1 TTTTATTT-GA
*
25834421 TTTTATTTTAA
1 TTTTA-TTTGA
25834432 TTTTATTT-A
1 TTTTATTTGA
25834441 TTTT-TTTGAA
1 TTTTATTTG-A
*
25834451 TTTTATTTTA
1 TTTTATTTGA
25834461 TTATTATTT
1 TT-TTATTT
25834470 TATTATATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 3 0.07
9 5 0.12
10 11 0.26
11 20 0.48
12 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTATTTGA
Found at i:25834430 original size:5 final size:5
Alignment explanation
Indices: 25834410--25834478 Score: 61
Period size: 5 Copynumber: 13.4 Consensus size: 5
25834400 GCTCTTCTTT
* *
25834410 TTTTA TTTCGA TTTTA TTTTAA TTTTA -TTTA TTTT- TTTGAA TTTTA
1 TTTTA TTT-TA TTTTA TTTT-A TTTTA TTTTA TTTTA TTT-TA TTTTA
*
25834456 TTTTA TTATTA TTTTA TTATA TT
1 TTTTA TT-TTA TTTTA TTTTA TT
25834479 ATTTTACTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 7 0.13
5 29 0.55
6 17 0.32
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:25834458 original size:24 final size:24
Alignment explanation
Indices: 25834425--25834470 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
25834415 TTTCGATTTT
*
25834425 ATTTTAATTTTATTTATTTTTTTGA
1 ATTTTAATTTTA-TTATTATTTTGA
25834450 ATTTT-ATTTTATTATTATTTT
1 ATTTTAATTTTATTATTATTTT
25834471 ATTATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTTTAATTTTATTATTATTTTGA
Found at i:25834470 original size:11 final size:12
Alignment explanation
Indices: 25834420--25834489 Score: 65
Period size: 11 Copynumber: 5.9 Consensus size: 12
25834410 TTTTATTTCG
*
25834420 ATTTTATTT-TA
1 ATTTTATTTATT
25834431 ATTTTATTTATT
1 ATTTTATTTATT
* *
25834443 TTTTTGAATT-TT
1 ATTTT-ATTTATT
25834455 ATTTTA-TTATT
1 ATTTTATTTATT
25834466 ATTTTATTATATT
1 ATTTTATT-TATT
*
25834479 ATTTTACTTAT
1 ATTTTATTTAT
25834490 CAATTTAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
10 2 0.04
11 18 0.37
12 15 0.31
13 14 0.29
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (12 bp):
ATTTTATTTATT
Found at i:25834479 original size:16 final size:16
Alignment explanation
Indices: 25834450--25834481 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25834440 ATTTTTTTGA
*
25834450 ATTTTATTTTATTATT
1 ATTTTATTATATTATT
25834466 ATTTTATTATATTATT
1 ATTTTATTATATTATT
25834482 TTACTTATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTATTATATTATT
Found at i:25834884 original size:13 final size:13
Alignment explanation
Indices: 25834866--25834890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25834856 ATTAGAGTAA
25834866 TTTTAATATTAAT
1 TTTTAATATTAAT
25834879 TTTTAATATTAA
1 TTTTAATATTAA
25834891 ATATTTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATATTAAT
Found at i:25838274 original size:15 final size:16
Alignment explanation
Indices: 25838254--25838283 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25838244 ATGGAGTATG
25838254 CAAAAAAAAA-AAAAC
1 CAAAAAAAAAGAAAAC
25838269 CAAAAAAAAAGAAAA
1 CAAAAAAAAAGAAAA
25838284 AAAAAGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAGAAAAC
Found at i:25839365 original size:22 final size:22
Alignment explanation
Indices: 25839340--25839466 Score: 73
Period size: 22 Copynumber: 5.8 Consensus size: 22
25839330 TAAAAAATTT
*
25839340 TGAATATTTAAAATTTTATATG
1 TGAATATTTAAAATTTTAGATG
* * ** *
25839362 TGAATCTCTAATTTTTTGGATG
1 TGAATATTTAAAATTTTAGATG
* *
25839384 TGAA-ACTTTGAAATTTTGGATG
1 TGAATA-TTTAAAATTTTAGATG
* * * *
25839406 TGAATATCT-AATTTTTTGAATT
1 TGAATATTTAAAATTTTAG-ATG
*
25839428 TGAATAATTAAAACTTTT-GATG
1 TGAATATTTAAAA-TTTTAGATG
25839450 TGAAT-TTCTAAAATTTT
1 TGAATATT-TAAAATTTT
25839467 TCAAATGGGA
Statistics
Matches: 79, Mismatches: 20, Indels: 13
0.71 0.18 0.12
Matches are distributed among these distances:
21 12 0.15
22 59 0.75
23 4 0.05
24 4 0.05
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (22 bp):
TGAATATTTAAAATTTTAGATG
Found at i:25839450 original size:44 final size:44
Alignment explanation
Indices: 25839338--25839460 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
25839328 TCTAAAAAAT
* * *
25839338 TTTGAATATTTAAAATTTTATATGTGAATCTCTAATTTTTTGGA
1 TTTGAATATTTAAAATTTTAGATGTGAATATCTAATTTTTTGAA
* * *
25839382 TGTGAA-ACTTTGAAATTTTGGATGTGAATATCTAATTTTTTGAA
1 TTTGAATA-TTTAAAATTTTAGATGTGAATATCTAATTTTTTGAA
* *
25839426 TTTGAATAATTAAAACTTTT-GATGTGAATTTCTAA
1 TTTGAATATTTAAAA-TTTTAGATGTGAATATCTAA
25839461 AATTTTTCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
43 1 0.02
44 60 0.91
45 5 0.08
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (44 bp):
TTTGAATATTTAAAATTTTAGATGTGAATATCTAATTTTTTGAA
Found at i:25839662 original size:23 final size:23
Alignment explanation
Indices: 25839549--25839669 Score: 61
Period size: 23 Copynumber: 5.4 Consensus size: 23
25839539 TTATGAAATA
* *
25839549 TTAAAGTTTTTGAATGAAAAT-T
1 TTAAATTTTTTGAATGAGAATCT
** * *
25839571 TTAAAAAATTTTG-ATGTGAATTT
1 TT-AAATTTTTTGAATGAGAATCT
* * * *
25839594 TTAAGTTTTTCGAAGGAAAATCT
1 TTAAATTTTTTGAATGAGAATCT
* ** * *
25839617 TT-AA-GTTTTGGGTGTGAACCT
1 TTAAATTTTTTGAATGAGAATCT
25839638 TTAAATTTTTTGAATGAGAATCT
1 TTAAATTTTTTGAATGAGAATCT
*
25839661 TTGAATTTT
1 TTAAATTTT
25839670 GAAGGTGAGC
Statistics
Matches: 67, Mismatches: 27, Indels: 9
0.65 0.26 0.09
Matches are distributed among these distances:
21 11 0.16
22 17 0.25
23 39 0.58
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (23 bp):
TTAAATTTTTTGAATGAGAATCT
Found at i:25840048 original size:18 final size:19
Alignment explanation
Indices: 25840027--25840065 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
25840017 TGCAAAACTT
*
25840027 AAAATTTTTGTGAAT-TTG
1 AAAATCTTTGTGAATCTTG
25840045 AAAATCTTTGTGAATCTTG
1 AAAATCTTTGTGAATCTTG
25840064 AA
1 AA
25840066 TTTTTACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
AAAATCTTTGTGAATCTTG
Found at i:25840137 original size:31 final size:30
Alignment explanation
Indices: 25840100--25840158 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
25840090 TGGAGTGTTA
*
25840100 GAATCTTTCAATTTTTATAATGAAACCTTGC
1 GAATCTTTCAAGTTTTATAATG-AACCTTGC
* *
25840131 GAATCTTTGAAGTTTTATGATGAACCTT
1 GAATCTTTCAAGTTTTATAATGAACCTT
25840159 TGAATTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (30 bp):
GAATCTTTCAAGTTTTATAATGAACCTTGC
Found at i:25840344 original size:67 final size:66
Alignment explanation
Indices: 25840262--25840423 Score: 173
Period size: 67 Copynumber: 2.4 Consensus size: 66
25840252 CCTCAGCTTA
* * *
25840262 ATCCAAGTCATTTTATTTTTCTGACCTACAATTCAATACCCAGTAATTCACCTTTGACCTTGGCT
1 ATCCAGGTCATTTTATTTTTCTGACCTACAATTCAAT-CCCAGTAATTCACCTTCGACCTCGGCT
25840327 CG
65 CG
* * * * * ** * *
25840329 ATCTAGGTC-TCTTTATTTTTATGACTTGCGATTCAATTTCAGTCATTCATCTTCGACCTCGGCT
1 ATCCAGGTCAT-TTTATTTTTCTGACCTACAATTCAATCCCAGTAATTCACCTTCGACCTCGGCT
25840393 CG
65 CG
*
25840395 GTCCAGGTCATTTTAGTTTTTCTGACCTA
1 ATCCAGGTCATTTTA-TTTTTCTGACCTA
25840424 TGGTTCAATC
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
66 35 0.47
67 40 0.53
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (66 bp):
ATCCAGGTCATTTTATTTTTCTGACCTACAATTCAATCCCAGTAATTCACCTTCGACCTCGGCTC
G
Found at i:25840616 original size:66 final size:66
Alignment explanation
Indices: 25840472--25840619 Score: 188
Period size: 66 Copynumber: 2.2 Consensus size: 66
25840462 ATTTAGGTTG
* * * ** * * *
25840472 TTTTAATTTTTTAACTCGTTGTTCAATCTCGATCACTCATTTTTTATCTTGGCTTAGTACATATC
1 TTTTATTTTTTTGACTCGTAGTTCAATCTCGATCACTCATTTTCAATCTTAGCTCAGTACAGATC
25840537 A
66 A
* * * *
25840538 TTTTATTTTTTTGACTCGTAGTTCATTTTCGATCACTCGTTTTCAATCTTAGCTCAGTCCAGATC
1 TTTTATTTTTTTGACTCGTAGTTCAATCTCGATCACTCATTTTCAATCTTAGCTCAGTACAGATC
25840603 A
66 A
25840604 TTTTATTTTTTTGACT
1 TTTTATTTTTTTGACT
25840620 TGCAATTCAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.20, C:0.18, G:0.10, T:0.51
Consensus pattern (66 bp):
TTTTATTTTTTTGACTCGTAGTTCAATCTCGATCACTCATTTTCAATCTTAGCTCAGTACAGATC
A
Found at i:25841170 original size:3 final size:3
Alignment explanation
Indices: 25841154--25841229 Score: 134
Period size: 3 Copynumber: 24.7 Consensus size: 3
25841144 CTTTGGCCCA
25841154 ATT ATT ACTGT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT A-T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25841201 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25841230 GTTCATTTAT
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 67 0.94
4 2 0.03
5 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:25845890 original size:76 final size:76
Alignment explanation
Indices: 25845798--25845946 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
25845788 AAACCCCAAA
* *
25845798 TCACAAAAATCTCAAACCTTTAAATTTGTTATGGACTAATTTGGGTTATTTTAGCTTACGTAGGT
1 TCACAAAAATCCCAAACCCTTAAATTTGTTATGGACTAATTTGGGTTATTTTAGCTTACGTAGGT
25845863 ACCATCTGGGT
66 ACCATCTGGGT
25845874 TCACAAAAATCCCAAACCCTTAAATTTGTTATGGACTAATTTGGGTTATTTTAGCTTACGTAGGT
1 TCACAAAAATCCCAAACCCTTAAATTTGTTATGGACTAATTTGGGTTATTTTAGCTTACGTAGGT
*
25845939 ACTATCTG
66 ACCATCTG
25845947 AGTTATTTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (76 bp):
TCACAAAAATCCCAAACCCTTAAATTTGTTATGGACTAATTTGGGTTATTTTAGCTTACGTAGGT
ACCATCTGGGT
Found at i:25864674 original size:2 final size:2
Alignment explanation
Indices: 25864661--25864700 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
25864651 ATCTTTGCAC
*
25864661 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25864701 GAGTCAGCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25870648 original size:23 final size:23
Alignment explanation
Indices: 25870622--25870673 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
25870612 TATATTGTTG
*
25870622 ATTGTTAT-TATTATTATGTATTT
1 ATTGTGATATATTATTATGT-TTT
* *
25870645 ATTGCGATATATTATTTTGTTTT
1 ATTGTGATATATTATTATGTTTT
25870668 ATTGTG
1 ATTGTG
25870674 TTGTTGCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.23, C:0.02, G:0.13, T:0.62
Consensus pattern (23 bp):
ATTGTGATATATTATTATGTTTT
Found at i:25878416 original size:14 final size:14
Alignment explanation
Indices: 25878399--25878429 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25878389 TTTTTCAAAA
25878399 AAATATATTTAAAG
1 AAATATATTTAAAG
*
25878413 AAATATTTTTAAAG
1 AAATATATTTAAAG
25878427 AAA
1 AAA
25878430 AGTTGAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (14 bp):
AAATATATTTAAAG
Found at i:25878586 original size:132 final size:132
Alignment explanation
Indices: 25878329--25878593 Score: 383
Period size: 133 Copynumber: 2.0 Consensus size: 132
25878319 TAACTTCACT
* * *
25878329 AATAAAAAAAGAGTTTTTAAGGAAAAGTTGAAAGTTTCAATTTTTCTTAGAAAATAAAATTTTTT
1 AATAAAAAAAGAGTTTTTAAGGAAAAATTAAAAGTATCAATTTTTCTTAGAAAATAAAATTTTTT
* * *
25878394 CAAAAAAATATATTTAAAGAAATATTTTTAAAGAAAAGTTGAAAGTATTAATTTTTCTTAAATAA
66 C-AAAAAATATATTTAAAAAAATATTTTTAAAGAAAAGTTAAAAGTATTAATTTTCCTTAAATAA
25878459 AAA
130 AAA
* * *
25878462 AATAAAAAAGGGGTTTTTAAGGAAAAATTAAAAGTATCAATTTTTCTTAGAAAATAAATTTGTTT
1 AATAAAAAAAGAGTTTTTAAGGAAAAATTAAAAGTATCAATTTTTCTTAGAAAATAAAATT-TTT
*
25878527 TC-AAATATATATTTAAAAAAA-AGTTTTTTAAA-AAAAGTTAAAAGTATTAATTTTCCTTAAAT
65 TCAAAAAATATATTTAAAAAAATA--TTTTTAAAGAAAAGTTAAAAGTATTAATTTTCCTTAAAT
25878589 AAAAA
128 AAAAA
25878594 TCTTTCCAAT
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
131 1 0.01
132 50 0.42
133 63 0.53
134 5 0.04
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.37
Consensus pattern (132 bp):
AATAAAAAAAGAGTTTTTAAGGAAAAATTAAAAGTATCAATTTTTCTTAGAAAATAAAATTTTTT
CAAAAAATATATTTAAAAAAATATTTTTAAAGAAAAGTTAAAAGTATTAATTTTCCTTAAATAAA
AA
Found at i:25879381 original size:19 final size:19
Alignment explanation
Indices: 25879359--25879396 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25879349 TCTATGCTTT
25879359 CATGAGGTTTTAATGCCTC
1 CATGAGGTTTTAATGCCTC
25879378 CATGAGGTTTTAATGCCTC
1 CATGAGGTTTTAATGCCTC
25879397 TGTAGTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
CATGAGGTTTTAATGCCTC
Found at i:25879823 original size:15 final size:15
Alignment explanation
Indices: 25879782--25879830 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
25879772 TTTCAAAGTC
*
25879782 TTACAAATATTTGAA
1 TTACAAATCTTTGAA
* *
25879797 TCTTGCATATCTTTGAA
1 --TTACAAATCTTTGAA
25879814 TTACAAATCTTTGAA
1 TTACAAATCTTTGAA
25879829 TT
1 TT
25879831 TTAAAATTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.56
17 12 0.44
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (15 bp):
TTACAAATCTTTGAA
Found at i:25881703 original size:59 final size:58
Alignment explanation
Indices: 25881640--25881791 Score: 207
Period size: 59 Copynumber: 2.6 Consensus size: 58
25881630 CAAGAAACAT
*
25881640 TTTTAAAGAAAAGTTGAAAGTGTCAATTTTTCTTAAATAAAAAATAACAAAAAAGAAAG
1 TTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAATAAAAAA-AACAAAAAAGAAAG
* * **
25881699 TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAATAAAAAAAATAAAAAAGAGGG
1 TTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAATAAAAAAAACAAAAAAGAAAG
* * *
25881757 TTTT-AAGTAAAAATTGAAAATATCAATTTTCCTTA
1 TTTTAAAG-AAAAGTTGAAAGTATCAATTTTTCTTA
25881792 GAAAATAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
57 2 0.02
58 39 0.47
59 42 0.51
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (58 bp):
TTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAATAAAAAAAACAAAAAAGAAAG
Found at i:25881774 original size:58 final size:58
Alignment explanation
Indices: 25881640--25881791 Score: 207
Period size: 58 Copynumber: 2.6 Consensus size: 58
25881630 CAAGAAACAT
*
25881640 TTTTAAAGAAAAGTTGAAAGTGTCAATTTTTCTTAAATAAAAAATAACAAAAAAGAAAG
1 TTTT-AAGAAAAGTTGAAAGTATCAATTTTTCTTAAATAAAAAATAACAAAAAAGAAAG
* **
25881699 TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAATAAAAAA-AATAAAAAAGAGGG
1 TTTTAA-GAAAAGTTGAAAGTATCAATTTTTCTTAAATAAAAAATAACAAAAAAGAAAG
* * *
25881757 TTTTAAGTAAAAATTGAAAATATCAATTTTCCTTA
1 TTTTAAG-AAAAGTTGAAAGTATCAATTTTTCTTA
25881792 GAAAATAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
57 1 0.01
58 43 0.51
59 40 0.48
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (58 bp):
TTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAATAAAAAATAACAAAAAAGAAAG
Found at i:25881941 original size:24 final size:24
Alignment explanation
Indices: 25881914--25881966 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
25881904 GGAAAAAAGT
*
25881914 TAAAAGTATCAATTTTTTCTTAA-A
1 TAAAAGCATCAATTTTTT-TTAATA
* *
25881938 TAAAGGCATTAATTTTTTTTAATA
1 TAAAAGCATCAATTTTTTTTAATA
25881962 TAAAA
1 TAAAA
25881967 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (24 bp):
TAAAAGCATCAATTTTTTTTAATA
Found at i:25883654 original size:31 final size:31
Alignment explanation
Indices: 25883601--25883669 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
25883591 ATATTATTTG
* *
25883601 TAAATCAGATAATGATAATTTATTAATGAAA-
1 TAAATTAGATAATAATAATTTATTAAT-AAAT
* *
25883632 TAAATTAGATGATAATATTTTATTAATAAAT
1 TAAATTAGATAATAATAATTTATTAATAAAT
25883663 TAAATTA
1 TAAATTA
25883670 TTTTAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (31 bp):
TAAATTAGATAATAATAATTTATTAATAAAT
Found at i:25884522 original size:6 final size:7
Alignment explanation
Indices: 25884508--25884532 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25884498 AAATAGGCTA
25884508 TTAATTT
1 TTAATTT
25884515 TTAATTT
1 TTAATTT
25884522 TTAATTT
1 TTAATTT
25884529 TTAA
1 TTAA
25884533 GGAAAGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:25892288 original size:29 final size:30
Alignment explanation
Indices: 25892256--25892340 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 30
25892246 AACTTTTAAG
*
25892256 ATAAATATAAAATA-AAGATTTATTTGAAT
1 ATAAATATAAAATACAAGATTTATTTAAAT
* *
25892285 ATAAAT-TAAAAAAATAAGAATTTATTTAAAT
1 ATAAATAT-AAAATACAAG-ATTTATTTAAAT
*
25892316 AT-AATA-AAAGTACATAGATTTATTT
1 ATAAATATAAAATACA-AGATTTATTT
25892341 TTAAAAAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
28 1 0.02
29 24 0.52
30 8 0.17
31 13 0.28
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (30 bp):
ATAAATATAAAATACAAGATTTATTTAAAT
Found at i:25892815 original size:24 final size:23
Alignment explanation
Indices: 25892749--25892817 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
25892739 TTAAAAAACA
*
25892749 AAAAAATAAAAAAAT-TAATTTT
1 AAAATATAAAAAAATATAATTTT
*
25892771 AAAATATAAAAAGAA-AGAATTTT
1 AAAATATAAAAA-AATATAATTTT
*
25892794 AAATATTTAAAAAAATATAATTTT
1 AAA-ATATAAAAAAATATAATTTT
25892818 GGAACATCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 11 0.28
23 13 0.33
24 15 0.38
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (23 bp):
AAAATATAAAAAAATATAATTTT
Found at i:25893151 original size:32 final size:31
Alignment explanation
Indices: 25893114--25893180 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
25893104 ATTGTAGTTC
25893114 TCATCAATT-TCAAATTATATATGGCTTTGATT
1 TCATCAATTGT-AAATTA-ATATGGCTTTGATT
** *
25893146 TCATCAATTGTAGTTTAATCTGGCTTTGATT
1 TCATCAATTGTAAATTAATATGGCTTTGATT
25893177 TCAT
1 TCAT
25893181 ATGGATGCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 17 0.55
32 13 0.42
33 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (31 bp):
TCATCAATTGTAAATTAATATGGCTTTGATT
Found at i:25894102 original size:18 final size:18
Alignment explanation
Indices: 25894071--25894127 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 18
25894061 TACTTTTGAG
25894071 AATAAT-TT-TATTAATA
1 AATAATATTATATTAATA
25894087 AATAATATTATATTAATA
1 AATAATATTATATTAATA
*
25894105 AAT--CA-TATATTAATA
1 AATAATATTATATTAATA
25894120 AATAATAT
1 AATAATAT
25894128 AAAGAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 13 0.38
16 7 0.21
17 3 0.09
18 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAATATTATATTAATA
Found at i:25894206 original size:34 final size:33
Alignment explanation
Indices: 25894135--25894215 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 33
25894125 TATAAAGAGT
* * *
25894135 AATA-AATAGTTTTATTTTAAGTATTATTATATT
1 AATATAATA-TTTTATATTAAATATTATTATATA
25894168 AATATAATATTTTAATATTAAATATTATTAT-TAA
1 AATATAATATTTT-ATATTAAATATTATTATAT-A
25894202 AATATAATTATTTT
1 AATATAA-TATTTT
25894216 TTAATTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 9 0.22
34 26 0.63
35 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (33 bp):
AATATAATATTTTATATTAAATATTATTATATA
Found at i:25897756 original size:38 final size:39
Alignment explanation
Indices: 25897680--25897757 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
25897670 TTTATGAATT
* * **
25897680 TCATCTTTGATATAATTTTTATTTATTTTCAAAATTTTA
1 TCATCTTTAAAATAATAATTATTTATTTTCAAAATTTTA
25897719 TCATCTTTAAAATAATAATTATTT-TTTTCAAAATTTTA
1 TCATCTTTAAAATAATAATTATTTATTTTCAAAATTTTA
25897757 T
1 T
25897758 TACATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 15 0.43
39 20 0.57
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (39 bp):
TCATCTTTAAAATAATAATTATTTATTTTCAAAATTTTA
Found at i:25897907 original size:15 final size:16
Alignment explanation
Indices: 25897887--25897916 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25897877 ACTATTCGTG
25897887 ATTATTAAAA-ATTTC
1 ATTATTAAAATATTTC
25897902 ATTATTAAAATATTT
1 ATTATTAAAATATTT
25897917 TTATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATTAAAATATTTC
Found at i:25899298 original size:14 final size:14
Alignment explanation
Indices: 25899279--25899305 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25899269 AAACAAGAAA
25899279 TAAATAATAAAAAT
1 TAAATAATAAAAAT
25899293 TAAATAATAAAAA
1 TAAATAATAAAAA
25899306 AGCTTACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAATAAAAAT
Found at i:25906096 original size:19 final size:22
Alignment explanation
Indices: 25906055--25906098 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
25906045 TTTTTTTTTA
*
25906055 TTTTATTAAATTTATTTATAAT
1 TTTTATTAAATATATTTATAAT
25906077 TTTTATTAAA-AT-TTTA-AAT
1 TTTTATTAAATATATTTATAAT
25906096 TTT
1 TTT
25906099 ATCATTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 4 0.19
21 1 0.05
22 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATTAAATATATTTATAAT
Found at i:25906143 original size:25 final size:24
Alignment explanation
Indices: 25906098--25906144 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25906088 TTTTAAATTT
* *
25906098 TATCATTTTCAATTTTTTTATTCG
1 TATCATTTTCAATTATATTATTCG
*
25906122 TATCATTTTTATATTATATTATT
1 TATCATTTTCA-ATTATATTATT
25906145 ATATCGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (24 bp):
TATCATTTTCAATTATATTATTCG
Found at i:25906254 original size:3 final size:3
Alignment explanation
Indices: 25906240--25906271 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
25906230 GTTTTCTAAG
25906240 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25906272 ACCCTAGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:25907926 original size:17 final size:18
Alignment explanation
Indices: 25907900--25907933 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25907890 ATAGACATCT
25907900 TTTAA-ATTTTATTTGAG
1 TTTAATATTTTATTTGAG
*
25907917 TTTAATTTTTTATTTGA
1 TTTAATATTTTATTTGA
25907934 AACGATTTTA
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:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (18 bp):
TTTAATATTTTATTTGAG
Found at i:25911210 original size:23 final size:25
Alignment explanation
Indices: 25911180--25911225 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
25911170 TGTTGCGCCT
*
25911180 GAAGCAATA-ATCACAA-CAATACA
1 GAAGCAATAGATAACAATCAATACA
25911203 GAAGCAATAGATAACAATCAATA
1 GAAGCAATAGATAACAATCAATA
25911226 ATCAAATGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (25 bp):
GAAGCAATAGATAACAATCAATACA
Found at i:25918429 original size:92 final size:94
Alignment explanation
Indices: 25918254--25918430 Score: 234
Period size: 92 Copynumber: 1.9 Consensus size: 94
25918244 ACATTTTGAT
* * * *
25918254 TAAGTTTTAAATTACTTTAAAATTCATAAATATATATATACAATGTTTCTCAAGATAATTTACCA
1 TAAGCTTTAAATTACTTTAAAATTCATAAATATACATATA-AATGCTACTCAAGATAATTTACCA
*
25918319 AAATCACTACCACCTCATAACCAGTTTCAG
65 AAATCACTACCACATCATAACCAGTTTCAG
** *
25918349 TAAGCTTTAAATTACTTTCCAATTCATAAA-ATACATAT-AATGCTACTCCAA-ATAATTTATCA
1 TAAGCTTTAAATTACTTTAAAATTCATAAATATACATATAAATGCTACT-CAAGATAATTTACCA
*
25918411 AAATCACTTCCACATCATAA
65 AAATCACTACCACATCATAA
25918431 AAAAATTGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 35 0.49
93 3 0.04
94 7 0.10
95 27 0.38
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (94 bp):
TAAGCTTTAAATTACTTTAAAATTCATAAATATACATATAAATGCTACTCAAGATAATTTACCAA
AATCACTACCACATCATAACCAGTTTCAG
Found at i:25921197 original size:71 final size:70
Alignment explanation
Indices: 25921110--25921246 Score: 166
Period size: 70 Copynumber: 1.9 Consensus size: 70
25921100 TTTAAAAATA
* * * *** * *
25921110 TTTCAACTATATAAGAAATATAAATAATAGTCGTTGTTATTGTTTAATGTTAATTTAATCTATTC
1 TTTCAACTATACAAGAAATATAAAAAATAATCG-CCATATTATTTAATGTTAATTCAATCTATTC
25921175 ATTTTC
65 ATTTTC
* * *
25921181 TTTCAACTCTACAAGAAATGTAAAAAATAATTGCCATATTATTTAATGTTAATTCAATCTATTCA
1 TTTCAACTATACAAGAAATATAAAAAATAATCGCCATATTATTTAATGTTAATTCAATCTATTCA
25921246 T
66 T
25921247 ATTTAAATTA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
70 28 0.51
71 27 0.49
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (70 bp):
TTTCAACTATACAAGAAATATAAAAAATAATCGCCATATTATTTAATGTTAATTCAATCTATTCA
TTTTC
Found at i:25922694 original size:52 final size:52
Alignment explanation
Indices: 25922632--25922736 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
25922622 GTCGTAACTG
25922632 ATGTAACTATATTAACGATAAATATCAAACTCTCTTACAAGATTTTTCCTTA
1 ATGTAACTATATTAACGATAAATATCAAACTCTCTTACAAGATTTTTCCTTA
** *
25922684 ATGTAACTATATTAACGATAAATATCAAACTCTCTTACTGGATTTTTCTTTA
1 ATGTAACTATATTAACGATAAATATCAAACTCTCTTACAAGATTTTTCCTTA
25922736 A
1 A
25922737 CATTATAAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (52 bp):
ATGTAACTATATTAACGATAAATATCAAACTCTCTTACAAGATTTTTCCTTA
Found at i:25923550 original size:33 final size:33
Alignment explanation
Indices: 25923513--25923578 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
25923503 AAATAAAAAT
25923513 CATTCATATAAATCTTAATATAATTATATAATA
1 CATTCATATAAATCTTAATATAATTATATAATA
*
25923546 CATTCATATAAATCTTAATATACTTATATAATA
1 CATTCATATAAATCTTAATATAATTATATAATA
25923579 TTATAATTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (33 bp):
CATTCATATAAATCTTAATATAATTATATAATA
Found at i:25924492 original size:32 final size:32
Alignment explanation
Indices: 25924436--25924520 Score: 100
Period size: 32 Copynumber: 2.6 Consensus size: 32
25924426 ACTATTACAC
* * *
25924436 ATTCACAACTTTCAAAT-TAGCAAATTTCACCAA
1 ATTCACAAC-TTCAAATCCA-CAAATTACAACAA
25924469 ATTCACAACTTCAAATCCACAAATTACAACAA
1 ATTCACAACTTCAAATCCACAAATTACAACAA
* *
25924501 TTTCACAACTTGAAATCCAC
1 ATTCACAACTTCAAATCCAC
25924521 TAACTTCATG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 36 0.78
33 10 0.22
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (32 bp):
ATTCACAACTTCAAATCCACAAATTACAACAA
Found at i:25924561 original size:156 final size:155
Alignment explanation
Indices: 25924269--25924752 Score: 680
Period size: 156 Copynumber: 3.1 Consensus size: 155
25924259 AAAAAAAAAA
* * * * * * *
25924269 AACAATTACACATTCAAAAATTTTAAATTAACAAACTCCACCAAATTTATAACTTCAAATCTATA
1 AACAATTACACATTCACAAATTTCAAATTAACAAATTTCACCAAATTCACAACTTCAAATCCATA
* * * *
25924334 AATTTCAACAATTTCACAACCTGAAATCTACAAATTTCATGCAAATTTCACAATTCCCATAATAA
66 AATTACAACAATTTCACAACTTGAAATCCACAAA-TTCATGCAAATTTCACAATTTCCATAATAA
* *
25924399 TTACACAACAATTTCATAAATTCAAC
130 TAACACATCAATTTCATAAATTCAAC
* * * *
25924425 AACTATTACACATTCACAACTTTCAAATTAGCAAATTTCACCAAATTCACAACTTCAAATCCACA
1 AACAATTACACATTCACAAATTTCAAATTAACAAATTTCACCAAATTCACAACTTCAAATCCATA
* * * *
25924490 AATTACAACAATTTCACAACTTGAAATCCACTAACTTCATGTAAATTTCACAATTTTCACAATAA
66 AATTACAACAATTTCACAACTTGAAATCCAC-AAATTCATGCAAATTTCACAATTTCCATAATAA
*
25924555 TAACACATCAATTTTATAAATTCAAC
130 TAACACATCAATTTCATAAATTCAAC
*
25924581 AACAATTACACATTCACAAATTTCAATTTAACAAATTTCACCAAATTCACAACTTCAAATCCATA
1 AACAATTACACATTCACAAATTTCAAATTAACAAATTTCACCAAATTCACAACTTCAAATCCATA
* * *
25924646 AATTCCAACAATTTCACAACTTAAAATCCACAAAATCTATGCAAATTTCACAATTTCCATAATAA
66 AATTACAACAATTTCACAACTTGAAATCCACAAATTC-ATGCAAATTTCACAATTTCCATAATAA
* * *
25924711 TAACACATCAATTCCATAAACTCAAT
130 TAACACATCAATTTCATAAATTCAAC
25924737 AACAATTACACATTCA
1 AACAATTACACATTCA
25924753 TAACTTGTAA
Statistics
Matches: 288, Mismatches: 38, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
155 4 0.01
156 282 0.98
157 2 0.01
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.30
Consensus pattern (155 bp):
AACAATTACACATTCACAAATTTCAAATTAACAAATTTCACCAAATTCACAACTTCAAATCCATA
AATTACAACAATTTCACAACTTGAAATCCACAAATTCATGCAAATTTCACAATTTCCATAATAAT
AACACATCAATTTCATAAATTCAAC
Found at i:25924649 original size:32 final size:32
Alignment explanation
Indices: 25924613--25924675 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
25924603 TCAATTTAAC
* * *
25924613 AAATTTCACCAAATTCACAACTTCAAATCCAT
1 AAATTCCAACAAATTCACAACTTAAAATCCAT
*
25924645 AAATTCCAACAATTTCACAACTTAAAATCCA
1 AAATTCCAACAAATTCACAACTTAAAATCCA
25924676 CAAAATCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (32 bp):
AAATTCCAACAAATTCACAACTTAAAATCCAT
Found at i:25924898 original size:11 final size:11
Alignment explanation
Indices: 25924884--25924931 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
25924874 AAATAATAAT
25924884 AAATTAATAGA
1 AAATTAATAGA
*
25924895 AAATTAATAAA
1 AAATTAATAGA
*
25924906 AAAATAATAGA
1 AAATTAATAGA
* *
25924917 ACTATTAATACA
1 A-AATTAATAGA
25924929 AAA
1 AAA
25924932 AAAATCCTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (11 bp):
AAATTAATAGA
Found at i:25924923 original size:23 final size:22
Alignment explanation
Indices: 25924873--25924933 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
25924863 CAAAACCTGC
* *
25924873 AAAA-TAATAATAAATTAATAG
1 AAAATTAATAAAAAAATAATAG
25924894 AAAATTAATAAAAAAATAATAG
1 AAAATTAATAAAAAAATAATAG
*
25924916 AACTATTAATACAAAAAA
1 AA-AATTAATA-AAAAAA
25924934 AATCCTACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 17 0.50
23 7 0.21
24 6 0.18
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAATTAATAAAAAAATAATAG
Found at i:25927168 original size:3 final size:3
Alignment explanation
Indices: 25927156--25927197 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
25927146 TTTGATTTTG
25927156 ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
25927198 TATATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25938196 original size:13 final size:13
Alignment explanation
Indices: 25938180--25938208 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25938170 TGGCAATCAC
25938180 TAATTTTTGTTAA
1 TAATTTTTGTTAA
25938193 TAATTTTTGTTAA
1 TAATTTTTGTTAA
25938206 TAA
1 TAA
25938209 ATAAAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
TAATTTTTGTTAA
Found at i:25938408 original size:13 final size:14
Alignment explanation
Indices: 25938355--25938409 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
25938345 ATTAAAATTA
**
25938355 TAAATATTAAAATT
1 TAAATATTAATTTT
25938369 TAAATCA-TAATCTTAT
1 TAAAT-ATTAAT-TT-T
25938385 TAAATATTAATTTT
1 TAAATATTAATTTT
25938399 TAAA-ATTAATT
1 TAAATATTAATT
25938410 GAAGACATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.20
14 13 0.37
15 5 0.14
16 10 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAATATTAATTTT
Found at i:25940193 original size:33 final size:31
Alignment explanation
Indices: 25940156--25940251 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 31
25940146 TTTTTTAGAT
25940156 TTAATAATTTACATATTTATATAATATAAAATA
1 TTAATAATTTACATA-TTATATAATATAAAA-A
* * *
25940189 TTAATAATTTATATATTATTTTATATAAAAA
1 TTAATAATTTACATATTATATAATATAAAAA
*
25940220 TT-ATATATGCTA-AT-TTATATCAATATAAAAA
1 TTAATA-AT-TTACATATTATAT-AATATAAAAA
25940251 T
1 T
25940252 ATAAAATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 8 0.15
31 17 0.31
32 15 0.28
33 14 0.26
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
TTAATAATTTACATATTATATAATATAAAAA
Found at i:25940331 original size:16 final size:16
Alignment explanation
Indices: 25940280--25940331 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
25940270 TTTATTATAT
*
25940280 TTATTTATAATTTTTA
1 TTATTTTTAATTTTTA
* * *
25940296 TTAAAATTTTAAATTATA
1 TT--ATTTTTAATTTTTA
25940314 TTATTTTTAATTTTTA
1 TTATTTTTAATTTTTA
25940330 TT
1 TT
25940332 CGTATTATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
16 15 0.56
18 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTTTAATTTTTA
Found at i:25941291 original size:16 final size:16
Alignment explanation
Indices: 25941261--25941305 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
25941251 TAATCAAACG
25941261 AATTTGAAT-ATTTTA
1 AATTTGAATAATTTTA
*
25941276 ATTTTGAATAATTTTA
1 AATTTGAATAATTTTA
25941292 AATTT-AATTAATTT
1 AATTTGAA-TAATTT
25941306 ACCAATAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (16 bp):
AATTTGAATAATTTTA
Found at i:25947061 original size:2 final size:2
Alignment explanation
Indices: 25947056--25947087 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25947046 TTCTCAGGTT
25947056 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25947088 CAGAAAGGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25963498 original size:32 final size:32
Alignment explanation
Indices: 25963462--25963526 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
25963452 AGCTAACAAG
* *
25963462 AAAGTTTTTTCATTTGAAATTACACTGAATTT
1 AAAGTTTTCTCATTTGAAATTACACTCAATTT
25963494 AAAGTTTTCTCATTTGAAATTACACTCAATTT
1 AAAGTTTTCTCATTTGAAATTACACTCAATTT
25963526 A
1 A
25963527 GTATTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (32 bp):
AAAGTTTTCTCATTTGAAATTACACTCAATTT
Found at i:25968302 original size:12 final size:12
Alignment explanation
Indices: 25968284--25968313 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25968274 AGAGGTCTTG
25968284 ATGATCGTGATC
1 ATGATCGTGATC
*
25968296 GTGATCGTGATC
1 ATGATCGTGATC
25968308 ATGATC
1 ATGATC
25968314 ATCTCGGTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (12 bp):
ATGATCGTGATC
Found at i:25968769 original size:15 final size:15
Alignment explanation
Indices: 25968751--25968779 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25968741 TAAAAATTTT
25968751 TTCTTTTTCTTTCCG
1 TTCTTTTTCTTTCCG
25968766 TTCTTTTTCTTTCC
1 TTCTTTTTCTTTCC
25968780 TACCTTTTAT
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:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (15 bp):
TTCTTTTTCTTTCCG
Found at i:25969061 original size:23 final size:22
Alignment explanation
Indices: 25969035--25969083 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
25969025 CTCGAGCGAT
25969035 TTTAAGATTTGAATA-TATATTTA
1 TTTAAGATTT-AATATTA-ATTTA
* *
25969058 TTTAATATTTTATATTAATTTA
1 TTTAAGATTTAATATTAATTTA
25969080 TTTA
1 TTTA
25969084 TCGTGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTAAGATTTAATATTAATTTA
Found at i:25975692 original size:25 final size:23
Alignment explanation
Indices: 25975663--25975712 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
25975653 TTTTTATGTC
25975663 TTAAAATTATATATATTTCTTAAAA
1 TTAAAATTATATATA-TT-TTAAAA
* *
25975688 TTAAAATTTTTTATATTTTAAAA
1 TTAAAATTATATATATTTTAAAA
25975711 TT
1 TT
25975713 TTCTTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 2 0.09
25 13 0.57
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAAAATTATATATATTTTAAAA
Found at i:25975720 original size:16 final size:17
Alignment explanation
Indices: 25975688--25975720 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25975678 TTTCTTAAAA
*
25975688 TTAAAATTTTTTATATT
1 TTAAAATTTTCTATATT
25975705 TTAAAATTTTCT-TATT
1 TTAAAATTTTCTATATT
25975721 AATTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAAAATTTTCTATATT
Found at i:25975731 original size:20 final size:17
Alignment explanation
Indices: 25975689--25975734 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
25975679 TTCTTAAAAT
*
25975689 TAAAATTTTTTATATTT
1 TAAAATTTTTTATATTA
25975706 TAAAATTTTCTTATTAATTA
1 TAAAATTTT-TTA-T-ATTA
25975726 TAAAATTTT
1 TAAAATTTT
25975735 AATTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 1 0.04
20 12 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAAATTTTTTATATTA
Found at i:25975744 original size:16 final size:17
Alignment explanation
Indices: 25975723--25975758 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
25975713 TTCTTATTAA
*
25975723 TTAT-AAAATTTTAATT
1 TTATAAAAAATTTAATT
25975739 TTATAAAAAATTTAATT
1 TTATAAAAAATTTAATT
25975756 TTA
1 TTA
25975759 ATATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAAAAAATTTAATT
Found at i:25977095 original size:15 final size:15
Alignment explanation
Indices: 25977075--25977104 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25977065 TATAAATGGT
25977075 ATAATTTAATAAATA
1 ATAATTTAATAAATA
*
25977090 ATAATTTTATAAATA
1 ATAATTTAATAAATA
25977105 TCTATTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTTAATAAATA
Found at i:25978931 original size:22 final size:21
Alignment explanation
Indices: 25978882--25978924 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25978872 CTCATGATAT
* * *
25978882 TCAATTTTTTATTTGAAATTA
1 TCAAATTTTAATTTCAAATTA
25978903 TCAAATTTTAATTTCAAATTA
1 TCAAATTTTAATTTCAAATTA
25978924 T
1 T
25978925 TATAATTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (21 bp):
TCAAATTTTAATTTCAAATTA
Found at i:25981933 original size:11 final size:10
Alignment explanation
Indices: 25981902--25981936 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
25981892 CTTCTGAAAA
25981902 TTAAAAGTTT
1 TTAAAAGTTT
*
25981912 TTTAAAGTTT
1 TTAAAAGTTT
*
25981922 TTAAAAGCTT
1 TTAAAAGTTT
25981932 TTAAA
1 TTAAA
25981937 CATTCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (10 bp):
TTAAAAGTTT
Found at i:25984026 original size:24 final size:25
Alignment explanation
Indices: 25983972--25984026 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
25983962 TTATATTTAT
* * * *
25983972 TTAAATTTGATATACTGTTAGTATA
1 TTAAATTTGATACACTGTCAATAAA
*
25983997 TAAAATTT-ATACACTGTCAATAAA
1 TTAAATTTGATACACTGTCAATAAA
25984021 TTAAAT
1 TTAAAT
25984027 AATAACTCCT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (25 bp):
TTAAATTTGATACACTGTCAATAAA
Found at i:25986259 original size:24 final size:25
Alignment explanation
Indices: 25986222--25986269 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
25986212 TTTAAAATTA
25986222 ATTTATTATAATTACTTAAAAAATC
1 ATTTATTATAATTACTTAAAAAATC
* * *
25986247 ATTTA-TATTATTATTTAATAAAT
1 ATTTATTATAATTACTTAAAAAAT
25986270 AAATTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTATTATAATTACTTAAAAAATC
Found at i:25986460 original size:13 final size:14
Alignment explanation
Indices: 25986442--25986475 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
25986432 TATTATTTTG
25986442 AAATATAAAGAA-A
1 AAATATAAAGAATA
*
25986455 AAATATAAATAATA
1 AAATATAAAGAATA
25986469 AAATATA
1 AAATATA
25986476 TTATCAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATATAAAGAATA
Found at i:25999867 original size:123 final size:123
Alignment explanation
Indices: 25999699--25999938 Score: 444
Period size: 123 Copynumber: 2.0 Consensus size: 123
25999689 AATTAAATCA
*
25999699 AATACGAATCAAATGTGAACAATTTACTATTTAAATAAACTAAACACGAACGAATAGAGTAATTT
1 AATACGAATCAAATGTGAACAATTTACTATTTAAATAAACCAAACACGAACGAATAGAGTAATTT
* *
25999764 TCTTAATGAATATGAACTGAATATAAACACCTCTAAAAATAAACGAACAAATAAATTG
66 TCTTAATAAATATGAACTGAATACAAACACCTCTAAAAATAAACGAACAAATAAATTG
25999822 AATACGAATCAAATGTGAACAATTTACTATTTAAATAAACCAAACACGAACGAATAGAGTAATTT
1 AATACGAATCAAATGTGAACAATTTACTATTTAAATAAACCAAACACGAACGAATAGAGTAATTT
*
25999887 TCTTAGTAAATATGAACTGAATACAAACACCTCTAAAAATAAACGAACAAAT
66 TCTTAATAAATATGAACTGAATACAAACACCTCTAAAAATAAACGAACAAAT
25999939 CACATAAATA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (123 bp):
AATACGAATCAAATGTGAACAATTTACTATTTAAATAAACCAAACACGAACGAATAGAGTAATTT
TCTTAATAAATATGAACTGAATACAAACACCTCTAAAAATAAACGAACAAATAAATTG
Found at i:26000132 original size:27 final size:27
Alignment explanation
Indices: 26000073--26000138 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
26000063 AAATTATAGC
* * *
26000073 TAAATGTTCAATGTTATATCTAAATTA
1 TAAATTTTTAATGTGATATCTAAATTA
* *
26000100 AAAATTTTTAATGTGATATTTAAATTA
1 TAAATTTTTAATGTGATATCTAAATTA
*
26000127 TAAATTATTAAT
1 TAAATTTTTAAT
26000139 TAATGTAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (27 bp):
TAAATTTTTAATGTGATATCTAAATTA
Found at i:26000251 original size:28 final size:28
Alignment explanation
Indices: 26000219--26000285 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
26000209 TACCAAATTA
*
26000219 ATTAATAA-ATTTATAATTCAAATAACAC
1 ATTAA-AATATTTAAAATTCAAATAACAC
* * *
26000247 ATTAAAATTTTTAAAATTCAAATGACAT
1 ATTAAAATATTTAAAATTCAAATAACAC
26000275 ATT-AAATATTT
1 ATTAAAATATTT
26000286 CATTATATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (28 bp):
ATTAAAATATTTAAAATTCAAATAACAC
Found at i:26001853 original size:14 final size:13
Alignment explanation
Indices: 26001834--26001876 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
26001824 TGATACTTTC
26001834 AATTTTTTCTTAAA
1 AATTTTTT-TTAAA
*
26001848 AATTTTTTTCAAA
1 AATTTTTTTTAAA
*
26001861 ATTTTTTTTTTAAA
1 A-ATTTTTTTTAAA
26001875 AA
1 AA
26001877 AATTGATACT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTTTTTTTAAA
Found at i:26001856 original size:15 final size:15
Alignment explanation
Indices: 26001836--26001876 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 15
26001826 ATACTTTCAA
26001836 TTTTTTCTTAAAAAT
1 TTTTTTCTTAAAAAT
26001851 TTTTTTC---AAAAT
1 TTTTTTCTTAAAAAT
*
26001863 TTTTTTTTTAAAAA
1 TTTTTTCTTAAAAA
26001877 AATTGATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
12 11 0.50
15 11 0.50
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTTCTTAAAAAT
Found at i:26001884 original size:56 final size:60
Alignment explanation
Indices: 26001818--26002046 Score: 180
Period size: 68 Copynumber: 3.6 Consensus size: 60
26001808 TTTACACAAG
* * * *
26001818 AAAAATTGATACTTTCAATTTTTTCT-TAAAA-AT-T-TTTTTCAAAATTTTTTTTTTAA
1 AAAAATTGATACTTTCAACTTTTCCTAAAAAATATATATTTTTAAAAATTTTTTTTTTAA
26001874 AAAAATTGATACTTTCAACTTTTCCTAAAAAATATATATTTTTAAAAATTTTTTTTTTATTTTCA
1 AAAAATTGATACTTTCAACTTTTCCTAAAAAATATATATTTTTAAAAA----TTTTTT-TTTT-A
26001939 A
60 A
* * *
26001940 GAAAAATTGAATACTTTCAACTTTTTCTCAAAAATA-ATTTTTTTTGAAAATTTTTAATTTTTTA
1 -AAAAATTG-ATACTTTCAACTTTTCCTAAAAAATATA-TATTTTT--AAA-----AA-TTTTT-
26002004 TTTTTAA
54 TTTTTAA
*
26002011 AGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
1 A-AAAATTGATACTTTCAACTTTTCCTAAAAAATAT
26002047 TTTTTAGAAA
Statistics
Matches: 142, Mismatches: 8, Indels: 31
0.78 0.04 0.17
Matches are distributed among these distances:
56 24 0.17
57 4 0.03
58 2 0.01
59 1 0.01
60 9 0.06
64 6 0.04
65 4 0.03
66 2 0.01
67 9 0.06
68 30 0.21
70 29 0.20
71 9 0.06
72 10 0.07
73 1 0.01
75 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (60 bp):
AAAAATTGATACTTTCAACTTTTCCTAAAAAATATATATTTTTAAAAATTTTTTTTTTAA
Found at i:26001915 original size:76 final size:73
Alignment explanation
Indices: 26001835--26002208 Score: 360
Period size: 76 Copynumber: 5.1 Consensus size: 73
26001825 GATACTTTCA
* * * *
26001835 ATTTTTTCTTAAAAATTTTTTTCAAAATTTTTTTTTTAAAAAAATTGATACTTTCAACTTTTCCT
1 ATTTTTTTTTGAAAATTTTTTT-AAAATTTTATTTTCAAAAAAATTGATACTTTCAACTTTTCCT
26001900 -AAAAA-AT
65 CAAAAATAT
* * * *
26001907 ATATATTTTT-AAAAATTTTTT----TTTTATTTTCAAGAAAAATTGAATACTTTCAACTTTTTC
1 ATTTTTTTTTGAAAATTTTTTTAAAATTTTATTTTCAA-AAAAATTG-ATACTTTCAACTTTTCC
26001967 TCAAAAATA-
64 TCAAAAATAT
** *
26001976 A-TTTTTTTTGAAAA--TTTTTAATTTTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTCCT
1 ATTTTTTTTTGAAAATTTTTTTAAAATTTTATTTTCAAA-AAAATTGATACTTTCAACTTTTCCT
26002038 CAAAAATAT
65 CAAAAATAT
** * *
26002047 -TTTTTAGAAATTGAAAATATTTTTTAGAAATTTTATTTTCAAAGAAAATTGATACTTTTATCTT
1 ATTTTT---TTTTGAAAAT-TTTTTTA-AAATTTTATTTTCAAA-AAAATTGATACTTTCAACTT
26002111 TTCCTCAAAAATAT
60 TTCCTCAAAAATAT
** *
26002125 -TTTTTAGATTGAAAATATTTTTTAAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTT
1 ATTTTT-TTTTGAAAAT-TTTTTT-AAAATTTTATTTTCAA-AAAAATTGATACTTTCAACTTTT
*
26002189 TCTCAAAAATAT
62 CCTCAAAAATAT
26002201 ATTTTTTT
1 ATTTTTTT
26002209 AAATTTTATT
Statistics
Matches: 255, Mismatches: 25, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
66 10 0.04
67 13 0.05
68 23 0.09
69 10 0.04
70 27 0.11
71 32 0.13
72 7 0.03
74 7 0.03
76 63 0.25
77 12 0.05
78 51 0.20
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.50
Consensus pattern (73 bp):
ATTTTTTTTTGAAAATTTTTTTAAAATTTTATTTTCAAAAAAATTGATACTTTCAACTTTTCCTC
AAAAATAT
Found at i:26002070 original size:21 final size:20
Alignment explanation
Indices: 26002040--26002078 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
26002030 CTTTTCCTCA
26002040 AAAATATTTTTTAGAAATTG
1 AAAATATTTTTTAGAAATTG
26002060 AAAATATTTTTTAGAAATT
1 AAAATATTTTTTAGAAATT
26002079 TTATTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
AAAATATTTTTTAGAAATTG
Found at i:26003301 original size:2 final size:2
Alignment explanation
Indices: 26003294--26003321 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26003284 CCAAAGAGAT
26003294 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26003322 AGTAAGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26003342 original size:24 final size:24
Alignment explanation
Indices: 26003310--26003403 Score: 145
Period size: 24 Copynumber: 3.9 Consensus size: 24
26003300 TATATATATA
26003310 TATATATATATAAGTAAGAATTTGT
1 TATA-ATATATAAGTAAGAATTTGT
*
26003335 TATAATATATAAGTAAGAATTTAT
1 TATAATATATAAGTAAGAATTTGT
*
26003359 TATAATATATAAGTAAGAATCTGT
1 TATAATATATAAGTAAGAATTTGT
*
26003383 CATAATATAT-AGTAAGAATTT
1 TATAATATATAAGTAAGAATTT
26003404 AAACCTAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 10 0.16
24 50 0.78
25 4 0.06
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (24 bp):
TATAATATATAAGTAAGAATTTGT
Found at i:26010432 original size:2 final size:2
Alignment explanation
Indices: 26010425--26010459 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
26010415 ATATACCATC
* *
26010425 AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26010460 GGAAAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26010826 original size:111 final size:110
Alignment explanation
Indices: 26010675--26010875 Score: 314
Period size: 111 Copynumber: 1.8 Consensus size: 110
26010665 ACCCATGGGA
* *
26010675 TCCAATTTCCCATATAAGTTTATAGAAATGAATTGACAATCAGACAAATAACAGCCA-AATTCTC
1 TCCAATTTCCAATATAAGTTTATAGAAATGAACTGACAATCAGACAAATAACAGCCACAATTCTC
* * *
26010739 TGATATCGATCCATTTTCCCATATTGCAGTATAACCATGGGATGC
66 TGATAACCATCCAGTTTCCCATATTGCAGTATAACCATGGGATGC
* *
26010784 TCCAATTTCCAATATAAGTATATTTAGAAATGAACTGACAATCAGACAAATGACAGCCACAATTC
1 TCCAATTTCCAATATAAGT-T-TATAGAAATGAACTGACAATCAGACAAATAACAGCCACAATTC
26010849 TCTGATAACCATCCAGTTTCCCATATT
64 TCTGATAACCATCCAGTTTCCCATATT
26010876 ACCGTATATA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
109 18 0.22
110 1 0.01
111 34 0.41
112 29 0.35
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (110 bp):
TCCAATTTCCAATATAAGTTTATAGAAATGAACTGACAATCAGACAAATAACAGCCACAATTCTC
TGATAACCATCCAGTTTCCCATATTGCAGTATAACCATGGGATGC
Found at i:26010883 original size:112 final size:109
Alignment explanation
Indices: 26010675--26010883 Score: 310
Period size: 112 Copynumber: 1.9 Consensus size: 109
26010665 ACCCATGGGA
* *
26010675 TCCAATTTCCCATATAAGTTTATAGAAATGAATTGACAATCAGACAAATAACAGCCAAATTCTCT
1 TCCAATTTCCAATATAAGTTTATAGAAATGAACTGACAATCAGACAAATAACAGCCAAATTCTCT
* * * *
26010740 GATATCGATCCATTTTCCCATATTGCAGTATAACCATGGGATGC
66 GATAACCATCCAGTTTCCCATATTACAGTATAACCATGGGATGC
* *
26010784 TCCAATTTCCAATATAAGTATATTTAGAAATGAACTGACAATCAGACAAATGACAGCCACAATTC
1 TCCAATTTCCAATATAAGT-T-TATAGAAATGAACTGACAATCAGACAAATAACAGCCA-AATTC
*
26010849 TCTGATAACCATCCAGTTTCCCATATTACCGTATA
63 TCTGATAACCATCCAGTTTCCCATATTACAGTATA
26010884 TACTATTATA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
109 18 0.20
110 1 0.01
111 34 0.39
112 35 0.40
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (109 bp):
TCCAATTTCCAATATAAGTTTATAGAAATGAACTGACAATCAGACAAATAACAGCCAAATTCTCT
GATAACCATCCAGTTTCCCATATTACAGTATAACCATGGGATGC
Found at i:26012573 original size:11 final size:11
Alignment explanation
Indices: 26012559--26012594 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
26012549 TTAAAAAAAT
26012559 TTTAATATACA
1 TTTAATATACA
*
26012570 TTTAATATGCA
1 TTTAATATACA
*
26012581 TTTAATATATA
1 TTTAATATACA
26012592 TTT
1 TTT
26012595 TTATTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (11 bp):
TTTAATATACA
Done.