Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 37 of 144
Found at i:9528946 original size:37 final size:37
Alignment explanation
Indices: 9528903--9528993 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
9528893 AGGGTTAGCT
*
9528903 GAGTTAAGCTCATAACCTTAATCTCTTAGAGTTAGTA
1 GAGTTAAGCTCATAACATTAATCTCTTAGAGTTAGTA
* *
9528940 GAGTTAAGCTCACAACATTAATCTCTTTGAGTTAGTA
1 GAGTTAAGCTCATAACATTAATCTCTTAGAGTTAGTA
* *
9528977 GAGCTAAGCTCGTAACA
1 GAGTTAAGCTCATAACA
9528994 CCTACACAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (37 bp):
GAGTTAAGCTCATAACATTAATCTCTTAGAGTTAGTA
Found at i:9529169 original size:241 final size:244
Alignment explanation
Indices: 9528697--9529175 Score: 581
Period size: 241 Copynumber: 2.0 Consensus size: 244
9528687 AGCGTTAGCT
** * * * *
9528697 GAGTTAAGCTTGCAACCTGAATCTCTTAGAGTTAGTAGAGTTAAAGCTCATAACTCCCACATAGC
1 GAGTTAAGCTCACAACATGAATCTCTTAGAGTTAGTAGAGCTAAAGCTCATAACACCCACACAGC
* * * *
9528762 TCGTGAACCTATATTCTCAACTGATGTTTAAAGGTTCACTAATTTAAGATCACAACCTAAATTCT
66 TCGCGAACCTACATTCTCAACTGATGTTTAAAGGTTCACTAATTTAAGATCACAACCCAAATTAT
* * * * * **
9528827 AAGTTTGCTGATTTAAGATCGCAACTCCTACACAATTCACAGACATACGTTCCTAGTTAACGTTT
131 AAGTTTGCTGATTTAAGATCACAAATCCCACACAACTCACAGACATACGTTCCCAACTAACGTTT
* * *
9528892 AAGGGTTAGCTGAGTTAAGCTCATAACCTTAATCTCTT-AGAGTTAGTA
196 AAGGGTTAGCTAAGTTAAGCTCACAACCTAAATCTCTTGAGAGTTAGTA
* * * *
9528940 GAGTTAAGCTCACAACATTAATCTCTTTGAGTTAGTAGAGCT-AAGCTCGTAACACCTACACAGC
1 GAGTTAAGCTCACAACATGAATCTCTTAGAGTTAGTAGAGCTAAAGCTCATAACACCCACACAGC
* * * *
9529004 TCGCGAACCTACGTTC-CAACTGATGTTTAAAGGTT-AGCTAATTTAATATCATAACCCGAATTA
66 TCGCGAACCTACATTCTCAACTGATGTTTAAAGGTTCA-CTAATTTAAGATCACAACCCAAATTA
* * * * *
9529067 TGAGTTTGCTGATTT-AGTATCACAAATCCCACACAACTCCCAGACCTACTTTCCCAACTAATGT
130 TAAGTTTGCTGATTTAAG-ATCACAAATCCCACACAACTCACAGACATACGTTCCCAACTAACGT
* **
9529131 TTATGGGTTAGCTAAGTTAAGCTTGCAACCTAAATCTCTTGAGAG
194 TTAAGGGTTAGCTAAGTTAAGCTCACAACCTAAATCTCTTGAGAG
9529176 CTCATAACTC
Statistics
Matches: 197, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
240 3 0.02
241 123 0.62
242 35 0.18
243 36 0.18
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (244 bp):
GAGTTAAGCTCACAACATGAATCTCTTAGAGTTAGTAGAGCTAAAGCTCATAACACCCACACAGC
TCGCGAACCTACATTCTCAACTGATGTTTAAAGGTTCACTAATTTAAGATCACAACCCAAATTAT
AAGTTTGCTGATTTAAGATCACAAATCCCACACAACTCACAGACATACGTTCCCAACTAACGTTT
AAGGGTTAGCTAAGTTAAGCTCACAACCTAAATCTCTTGAGAGTTAGTA
Found at i:9533872 original size:46 final size:47
Alignment explanation
Indices: 9533780--9533873 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 47
9533770 TTAAACACTT
* * **
9533780 CTTGGAACCCACTGGGGGGCCTATATTGTTATGGTATTTTTTATTAC
1 CTTGGAACCCACTGGGGGGACTATACTGTTATGGTATTTTCGATTAC
9533827 CTTGGAACCCACT-GGGGGACTATACTGTTATGGTATTTTCGATTAC
1 CTTGGAACCCACTGGGGGGACTATACTGTTATGGTATTTTCGATTAC
9533873 C
1 C
9533874 AACCCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 30 0.70
47 13 0.30
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (47 bp):
CTTGGAACCCACTGGGGGGACTATACTGTTATGGTATTTTCGATTAC
Found at i:9538617 original size:22 final size:23
Alignment explanation
Indices: 9538586--9538628 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
9538576 CTAGACAAAG
9538586 AATATAAATTATA-AAAAAATAAA
1 AATATAAATT-TACAAAAAATAAA
9538609 AATA-AAATTTACAAAAAATA
1 AATATAAATTTACAAAAAATA
9538629 CATAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (23 bp):
AATATAAATTTACAAAAAATAAA
Found at i:9538703 original size:21 final size:20
Alignment explanation
Indices: 9538666--9538709 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9538656 TAATAATATT
*
9538666 ATTACAAAAAATGTAAAAAA
1 ATTAAAAAAAATGTAAAAAA
* *
9538686 ATTAAAAAAATATTTAAAACA
1 ATTAAAAAAA-ATGTAAAAAA
9538707 ATT
1 ATT
9538710 TTTTTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (20 bp):
ATTAAAAAAAATGTAAAAAA
Found at i:9538759 original size:21 final size:22
Alignment explanation
Indices: 9538713--9538759 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
9538703 AACAATTTTT
*
9538713 TTATAAAATTCTAAAATGTATAG
1 TTATAAAATTCTAAAAAG-ATAG
9538736 TTATAAAATTCTAAAAAG-TAG
1 TTATAAAATTCTAAAAAGATAG
9538757 TTA
1 TTA
9538760 AATTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
23 17 0.74
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (22 bp):
TTATAAAATTCTAAAAAGATAG
Found at i:9539079 original size:19 final size:19
Alignment explanation
Indices: 9539043--9539078 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9539033 ATATTTAAAT
9539043 ATTTAATATTATATTTTTA
1 ATTTAATATTATATTTTTA
*
9539062 ATTTAATTTTA-ATTTTT
1 ATTTAATATTATATTTTT
9539079 TTATTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTAATATTATATTTTTA
Found at i:9539084 original size:19 final size:19
Alignment explanation
Indices: 9539042--9539084 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9539032 AATATTTAAA
9539042 TATTTAATATTATATTTTT
1 TATTTAATATTATATTTTT
* *
9539061 AATTTAATTTTA-ATTTTTT
1 TATTTAATATTATA-TTTTT
9539080 TATTT
1 TATTT
9539085 GAAAGAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTAATATTATATTTTT
Found at i:9545845 original size:24 final size:24
Alignment explanation
Indices: 9545791--9545847 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
9545781 GGTGGCCAAT
9545791 TGTTAAATTTTTATTTGAATTTTA
1 TGTTAAATTTTTATTTGAATTTTA
*
9545815 TAATTAAATTTTTATTT-AATTTTAA
1 T-GTTAAATTTTTATTTGAATTTT-A
9545840 TGTTAAAT
1 TGTTAAAT
9545848 AGAATAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (24 bp):
TGTTAAATTTTTATTTGAATTTTA
Found at i:9550876 original size:54 final size:54
Alignment explanation
Indices: 9550794--9550903 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
9550784 ATAAGAGAGC
* * *
9550794 CATAGCTTGGAGTATTGCTGATATTAGAGGCATTAGTCCTTGTTTTTGCATGCA
1 CATAGCTTGGAGCATTGCTAATATTAGAGCCATTAGTCCTTGTTTTTGCATGCA
9550848 CATAGCTTGGAGCATTGCTAATATTAGAGCCATTAGTCCTTGTTTTTGCATGCA
1 CATAGCTTGGAGCATTGCTAATATTAGAGCCATTAGTCCTTGTTTTTGCATGCA
9550902 CA
1 CA
9550904 AGATTAGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (54 bp):
CATAGCTTGGAGCATTGCTAATATTAGAGCCATTAGTCCTTGTTTTTGCATGCA
Found at i:9556477 original size:15 final size:16
Alignment explanation
Indices: 9556451--9556481 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9556441 AAAAAAAATG
9556451 AGAAAAAGGAAGAAAA
1 AGAAAAAGGAAGAAAA
9556467 AGAAAAA-GAAGAAAA
1 AGAAAAAGGAAGAAAA
9556482 TAAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAAAAAGGAAGAAAA
Found at i:9557842 original size:30 final size:30
Alignment explanation
Indices: 9557810--9558086 Score: 201
Period size: 30 Copynumber: 9.5 Consensus size: 30
9557800 ACTGAGGCTA
*
9557810 AAAATGG-AATTTTGGAAAGTTTGGGGGTT
1 AAAATGGTAATTTTGGAAAGTTTAGGGGTT
* *
9557839 AAAATGGTAATTTTTGGTAAA--ATCGGGGTT
1 AAAATGGTAA-TTTTGG-AAAGTTTAGGGGTT
*
9557869 AAAAATGG-AATTTTGGAAAGTTCAGGGG-T
1 -AAAATGGTAATTTTGGAAAGTTTAGGGGTT
* *
9557898 AAAATGGTAATTTTTGGTAAA-ATTA-GGATT
1 AAAATGGTAA-TTTTGG-AAAGTTTAGGGGTT
* * *
9557928 AAAAATGG-AATTTTAGAAAG-TTCGGGGGT
1 -AAAATGGTAATTTTGGAAAGTTTAGGGGTT
**
9557957 AAAATGGTAATTTTTGGTAAA-ACT-GGGGTT
1 AAAATGGTAA-TTTTGG-AAAGTTTAGGGGTT
9557987 AAAATGG-AATTTTGGAAAGTTTAGGGG-T
1 AAAATGGTAATTTTGGAAAGTTTAGGGGTT
* * * * *
9558015 AAAATGGTAGTTTTAGTAAA--ATCGAGGTT
1 AAAATGGTAATTTT-GGAAAGTTTAGGGGTT
9558044 AAAAATGG-AATTTTGGAAAGTTTAGGGG-T
1 -AAAATGGTAATTTTGGAAAGTTTAGGGGTT
9558073 AAAATGGTAATTTT
1 AAAATGGTAATTTT
9558087 TAGACAGTCC
Statistics
Matches: 195, Mismatches: 27, Indels: 52
0.71 0.10 0.19
Matches are distributed among these distances:
27 3 0.02
28 52 0.27
29 52 0.27
30 58 0.30
31 27 0.14
32 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTGGAAAGTTTAGGGGTT
Found at i:9558019 original size:58 final size:58
Alignment explanation
Indices: 9557808--9558087 Score: 411
Period size: 59 Copynumber: 4.8 Consensus size: 58
9557798 AAACTGAGGC
*
9557808 TAAAAATGGAATTTTGGAAAGTTTGGGGGTTAAAATGGTAATTTTTGGTAAAATCGGGGT
1 TAAAAATGGAATTTTGGAAAGTTTAGGGG-TAAAATGGTAATTTTTGGTAAAAT-GGGGT
* * *
9557868 TAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTAAAATTAGGAT
1 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAA-TGGGGT
* **
9557927 TAAAAATGGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTAAAACTGGGGT
1 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAA-TGGGGT
* * *
9557986 T-AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGT-AGTTTTAGTAAAATCGAGGT
1 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAAT-GGGGT
9558043 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTT
1 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTT
9558088 AGACAGTCCA
Statistics
Matches: 200, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
56 1 0.00
57 16 0.08
58 69 0.34
59 86 0.43
60 28 0.14
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (58 bp):
TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATGGGGT
Found at i:9558337 original size:162 final size:162
Alignment explanation
Indices: 9558160--9558497 Score: 622
Period size: 162 Copynumber: 2.1 Consensus size: 162
9558150 GGTACCCAGA
9558160 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTT
9558225 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAG
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAG
*
9558290 GTGACACGTGGCAGCCTCTAGTGCAGTCAAAC
131 GTGACACGTGGCAGCCTCTAGTGCAGGCAAAC
* *
9558322 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAGAGTT
1 AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTT
* * *
9558387 GATTTAAGGATTAAATTAAGACAAATTAAAAATGATAGGGACTTGATACATAAATAAGCCAAAAG
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAG
9558452 GTGACACGTGGCAGCCTCTAGTGCAGGCAAAC
131 GTGACACGTGGCAGCCTCTAGTGCAGGCAAAC
9558484 AGTCAAAGGACTAA
1 AGTCAAAGGACTAA
9558498 ATTGAAAACC
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 170 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (162 bp):
AGTCAAAGGACTAATTTATAAATCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTT
GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAG
GTGACACGTGGCAGCCTCTAGTGCAGGCAAAC
Found at i:9559899 original size:6 final size:6
Alignment explanation
Indices: 9559852--9559959 Score: 82
Period size: 6 Copynumber: 18.7 Consensus size: 6
9559842 TTTTGGGCTT
* * * *
9559852 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* ** *
9559898 TTTAAA -ATAAA TTTAAA TTTAAA AATGAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
9559945 -GTAAA TTTAAT TTTA
1 TTTAAA TTTAAA TTTA
9559960 GAAATAAATT
Statistics
Matches: 80, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
4 3 0.04
5 12 0.15
6 61 0.76
7 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:9559933 original size:41 final size:41
Alignment explanation
Indices: 9559888--9559970 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
9559878 AAATTTAAAC
*
9559888 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATGAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
* * *
9559929 TAAATTTAAATTTAAAGTAAATTTAATTTTAGAAATAAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
9559970 T
1 T
9559971 TTAAAAAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (41 bp):
TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
Found at i:9559954 original size:17 final size:17
Alignment explanation
Indices: 9559858--9559938 Score: 101
Period size: 17 Copynumber: 4.7 Consensus size: 17
9559848 GCTTTTTAAT
* *
9559858 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
9559874 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
9559892 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
9559909 TTTAAATTTAAAAATGAA
1 TTTAAATTT-AAAATAAA
9559927 TTTAAATTTAAA
1 TTTAAATTTAAA
9559939 TTTAAAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.05
17 34 0.60
18 20 0.35
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:9559959 original size:17 final size:18
Alignment explanation
Indices: 9559929--9559970 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
9559919 AAAATGAATT
*
9559929 TAAATTTAAATTTA-AAG
1 TAAATTTAAATTTAGAAA
*
9559946 TAAATTTAATTTTAGAAA
1 TAAATTTAAATTTAGAAA
9559964 TAAATTT
1 TAAATTT
9559971 TTAAAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
TAAATTTAAATTTAGAAA
Found at i:9560398 original size:76 final size:76
Alignment explanation
Indices: 9560271--9560716 Score: 784
Period size: 76 Copynumber: 5.8 Consensus size: 76
9560261 AGGCTTCATC
* * *
9560271 TTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGG
1 TTGCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
*
9560336 ATAGGAAATGATC
64 ATAGGAAATGATG
* *
9560349 TTGCTCTTACTTTAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGCAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
9560414 AGGAAATGATG
66 AGGAAATGATG
*
9560425 TTGCTCCTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
9560490 AGGAAATGATG
66 AGGAAATGATG
9560501 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
9560566 AGGAAATGATG
66 AGGAAATGATG
*
9560577 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGTAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
9560642 AGGAAATGATG
66 AGGAAATGATG
* *
9560653 TTGCTCTTACTTCGATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGA
9560717 CGAAGGCTTG
Statistics
Matches: 354, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
76 337 0.95
77 3 0.01
78 14 0.04
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (76 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
AGGAAATGATG
Found at i:9560855 original size:92 final size:92
Alignment explanation
Indices: 9560698--9561142 Score: 847
Period size: 92 Copynumber: 4.8 Consensus size: 92
9560688 TATCCAACTC
*
9560698 TACTTCAATTTC-AAGAGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGA
1 TACTTCAATTTCTGAG-GGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGA
9560762 AAATGATGTTGGTGCTTCATTTTACCCT
65 AAATGATGTTGGTGCTTCATTTTACCCT
*
9560790 TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGAATAGGAA
1 TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
9560855 AATGATGTTGGTGCTTCATTTTACCCT
66 AATGATGTTGGTGCTTCATTTTACCCT
9560882 TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
1 TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
9560947 AATGATGTTGGTGCTTCATTTTACCCT
66 AATGATGTTGGTGCTTCATTTTACCCT
9560974 TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
1 TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
*
9561039 AATGATGTTGGTGCTTCATTTTACTCT
66 AATGATGTTGGTGCTTCATTTTACCCT
9561066 TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
1 TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
9561131 AATGATGTTGGT
66 AATGATGTTGGT
9561143 TTGATGTGAT
Statistics
Matches: 348, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 346 0.99
93 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (92 bp):
TACTTCAATTTCTGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
AATGATGTTGGTGCTTCATTTTACCCT
Found at i:9569844 original size:28 final size:28
Alignment explanation
Indices: 9569812--9569871 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
9569802 GAAAACAGAC
*
9569812 TTTTGGATACGCGAGGGCAAAATGGTAA
1 TTTTGGATACGCGAGGGCAAAACGGTAA
** *
9569840 TTTTGGATGTGCGGGGGCAAAACGGTAA
1 TTTTGGATACGCGAGGGCAAAACGGTAA
9569868 TTTT
1 TTTT
9569872 TGGTGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.33, T:0.30
Consensus pattern (28 bp):
TTTTGGATACGCGAGGGCAAAACGGTAA
Found at i:9569929 original size:38 final size:37
Alignment explanation
Indices: 9569870--9569943 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
9569860 AACGGTAATT
*
9569870 TTTGGTGAAACTGAGGTTAAAAATGGAATTTTGGAAAC
1 TTTGGTGAAACTGAGGCT-AAAATGGAATTTTGGAAAC
*
9569908 TTTGGTGAAA-TCGGGGCTAAAATGGAATTTTGGAAA
1 TTTGGTGAAACT-GAGGCTAAAATGGAATTTTGGAAA
9569944 GTTCGGGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 19 0.58
38 14 0.42
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.31
Consensus pattern (37 bp):
TTTGGTGAAACTGAGGCTAAAATGGAATTTTGGAAAC
Found at i:9570017 original size:59 final size:59
Alignment explanation
Indices: 9569908--9570145 Score: 363
Period size: 59 Copynumber: 4.0 Consensus size: 59
9569898 TTTTGGAAAC
* * * * *
9569908 TTTGGTGAAATCGGGGCT-AAAATGGAATTTTGGAAAG-TTCGGGAGATAAAATAGTAATT
1 TTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGG-G-TAAAATGGTAATT
*
9569967 TTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATT
1 TTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
*
9570026 TTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAGTT
1 TTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
* *
9570085 TTTGGTAAAACCGGGGTTAAAAATAGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATT
1 TTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
9570144 TT
1 TT
9570146 CGGATAGTCC
Statistics
Matches: 167, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
59 142 0.85
60 20 0.12
61 5 0.03
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
TTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
Found at i:9570075 original size:29 final size:30
Alignment explanation
Indices: 9569920--9570145 Score: 111
Period size: 29 Copynumber: 7.7 Consensus size: 30
9569910 TGGTGAAATC
* *
9569920 GGGGCTAAAATGG-AATTTTGGAAAG-TTC
1 GGGGTTAAAATGGTAATTTTGGAAAGTTTA
* * ***
9569948 GGGAGATAAAATAGTAATTTTTGGTAAA--ACC
1 GGG-GTTAAAATGGTAA-TTTTGG-AAAGTTTA
9569979 GGGGTTAAAAATGG-AATTTTGGAAAGTTT-
1 GGGGTT-AAAATGGTAATTTTGGAAAGTTTA
* ***
9570008 GGGGGTAAAATGGTAATTTTTGGTAAA--ACC
1 GGGGTTAAAATGGTAA-TTTTGG-AAAGTTTA
9570038 GGGGTTAAAAATGG-AATTTTGGAAAGTTTA
1 GGGGTT-AAAATGGTAATTTTGGAAAGTTTA
* ***
9570068 GGGG-TAAAATGGTAGTTTTTGGTAAA--ACC
1 GGGGTTAAAATGGTA-ATTTTGG-AAAGTTTA
*
9570097 GGGGTTAAAAATAG-AATTTTGGAAAGTTTA
1 GGGGTT-AAAATGGTAATTTTGGAAAGTTTA
*
9570127 AGGG-TAAAATGGTAATTTT
1 GGGGTTAAAATGGTAATTTT
9570146 CGGATAGTCC
Statistics
Matches: 150, Mismatches: 26, Indels: 43
0.68 0.12 0.20
Matches are distributed among these distances:
28 32 0.21
29 46 0.31
30 34 0.23
31 35 0.23
32 3 0.02
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (30 bp):
GGGGTTAAAATGGTAATTTTGGAAAGTTTA
Found at i:9570401 original size:162 final size:162
Alignment explanation
Indices: 9570221--9570559 Score: 570
Period size: 162 Copynumber: 2.1 Consensus size: 162
9570211 TACCCAGAAG
*
9570221 TCAAAGGACTAATTTATAAATCTTGAAAAATTCTCAGGCCAATTTTGTAATTAAATAAAAGTTGA
1 TCAAAGGACTAATTTATAAATCTTAAAAAATTCTCAGGCCAATTTTGTAATTAAATAAAAGTTGA
* *
9570286 TTTAAGGATTAAATTAAAACAAATTAGAAATGACAGGGACTAGATATATAAATAAGCCAAAAGGT
66 TTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAGGT
* * *
9570351 GACACGTGGCAGTCTCTGGTGCTGTCAAACAA
131 GACACGTGGCAGCCTCTGATGCAGTCAAACAA
** *
9570383 TCAAAGGACTAATTTATAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAATAAGAGTTGA
1 TCAAAGGACTAATTTATAAATCTTAAAAAATTCTCAGGCCAATTTTGTAATTAAATAAAAGTTGA
* *
9570448 TTTAAGGATTAAATTAAGACAAATTAAAAATGATAGGGACTAGATACATAAATAAGCCAAAAGGT
66 TTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAGGT
*
9570513 GACACGTGGCAGCCTCTGATGCAGTCAAACAG
131 GACACGTGGCAGCCTCTGATGCAGTCAAACAA
9570545 TCAAAGGACTAATTT
1 TCAAAGGACTAATTT
9570560 TTAATTGTTC
Statistics
Matches: 165, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 165 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (162 bp):
TCAAAGGACTAATTTATAAATCTTAAAAAATTCTCAGGCCAATTTTGTAATTAAATAAAAGTTGA
TTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAAGGT
GACACGTGGCAGCCTCTGATGCAGTCAAACAA
Found at i:9575756 original size:35 final size:35
Alignment explanation
Indices: 9575694--9575765 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
9575684 ATGGTTATTG
* * *
9575694 ATTGGTCCTTCAAAGCAACATCGTGTAAATGGTAT
1 ATTGGTCCTTCAAAGCAACACCATGTAAATGATAT
* * *
9575729 ATTGGTCCTTCAAGGCGATACCATGTAAATGATAT
1 ATTGGTCCTTCAAAGCAACACCATGTAAATGATAT
9575764 AT
1 AT
9575766 AGCTTCTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (35 bp):
ATTGGTCCTTCAAAGCAACACCATGTAAATGATAT
Found at i:9575791 original size:35 final size:35
Alignment explanation
Indices: 9575699--9575792 Score: 89
Period size: 35 Copynumber: 2.7 Consensus size: 35
9575689 TATTGATTGG
* * * * *
9575699 TCCTTCAAAGCAACATCGTGTAAATGGTATATTGG
1 TCCTTCAAGGCGACATCGTGTAAATGATATATAGC
* * *
9575734 TCCTTCAAGGCGATACCATGTAAATGATATATAGC
1 TCCTTCAAGGCGACATCGTGTAAATGATATATAGC
* * *
9575769 TTCTTCGAGGTGACATCGTGTAAA
1 TCCTTCAAGGCGACATCGTGTAAA
9575793 CAATAAACAG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (35 bp):
TCCTTCAAGGCGACATCGTGTAAATGATATATAGC
Found at i:9580933 original size:23 final size:24
Alignment explanation
Indices: 9580879--9580933 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
9580869 AACTAATTTA
*
9580879 AAAGTAAATAAAAATAAGCAATGC
1 AAAGTAAATAAAAATAAACAATGC
* *
9580903 AAATTAAAT-CAAATAAACAAT-C
1 AAAGTAAATAAAAATAAACAATGC
9580925 AATAGTAAA
1 AA-AGTAAA
9580934 ACCCTAGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.12
23 15 0.58
24 8 0.31
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.20
Consensus pattern (24 bp):
AAAGTAAATAAAAATAAACAATGC
Found at i:9586902 original size:15 final size:15
Alignment explanation
Indices: 9586882--9586911 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9586872 ATTTAAGAAA
9586882 AACCAACAACCTATG
1 AACCAACAACCTATG
9586897 AACCAACAACCTATG
1 AACCAACAACCTATG
9586912 TATCTTAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.07, T:0.13
Consensus pattern (15 bp):
AACCAACAACCTATG
Found at i:9587319 original size:26 final size:25
Alignment explanation
Indices: 9587233--9587330 Score: 76
Period size: 26 Copynumber: 3.8 Consensus size: 25
9587223 ATAATAAAAA
* *
9587233 TATAGTTTCATTATTTTAA-TAAAT
1 TATAATTTTATTATTTTAAGTAAAT
*
9587257 TAT-ATTTTATAATTTTAAAGGATTAAAT
1 TATAATTTTATTATTTT-AA-G--TAAAT
9587285 TA-AATTTTTATTATTTTGAAGTAAAT
1 TATAA-TTTTATTATTTT-AAGTAAAT
*
9587311 TATAATTTTATCATTATTAA
1 TATAATTTTATTATT-TTAA
9587331 TTTAAATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
23 10 0.17
24 5 0.08
26 18 0.31
27 4 0.07
28 9 0.15
29 13 0.22
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (25 bp):
TATAATTTTATTATTTTAAGTAAAT
Found at i:9587326 original size:29 final size:27
Alignment explanation
Indices: 9587242--9587328 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 27
9587232 ATATAGTTTC
9587242 ATTATTTTAA-TAAATTAT-ATTTTAT
1 ATTATTTTAAGTAAATTATAATTTTAT
9587267 A--ATTTTAAAGGATTAAATTA-AATTTT-T
1 ATTATTTT-AA-G--TAAATTATAATTTTAT
9587294 ATTATTTTGAAGTAAATTATAATTTTAT
1 ATTATTTT-AAGTAAATTATAATTTTAT
9587322 CATTATT
1 -ATTATT
9587329 AATTTAAATT
Statistics
Matches: 50, Mismatches: 1, Indels: 18
0.72 0.01 0.26
Matches are distributed among these distances:
23 5 0.10
24 2 0.04
25 1 0.02
26 7 0.14
27 8 0.16
28 14 0.28
29 13 0.26
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (27 bp):
ATTATTTTAAGTAAATTATAATTTTAT
Found at i:9588703 original size:31 final size:33
Alignment explanation
Indices: 9588649--9588710 Score: 94
Period size: 31 Copynumber: 1.9 Consensus size: 33
9588639 GTATATAAGC
9588649 ATTTTTCAAATATATATATTTTTATTTTATTTT
1 ATTTTTCAAATATATATATTTTTATTTTATTTT
9588682 ATTTTT-AACATATAT-TA-TTTTATTTTATT
1 ATTTTTCAA-ATATATATATTTTTATTTTATT
9588711 GTTTAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 12 0.43
32 4 0.14
33 12 0.43
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (33 bp):
ATTTTTCAAATATATATATTTTTATTTTATTTT
Found at i:9591725 original size:131 final size:131
Alignment explanation
Indices: 9591491--9591757 Score: 507
Period size: 131 Copynumber: 2.0 Consensus size: 131
9591481 TAAAAAAGTT
*
9591491 TATCAAAATTATGTGTGAAGGACATGAAAAAAATTGTTAAAATGTCAATAAATAATTGGAAAGGG
1 TATCAAAATTATGTGTGAAGGACATGAAAAAAATTGTTAAAATGTCAATAAATAATTGAAAAGGG
9591556 ACTATGAATAATATGGTGAGAATAATTCATAAAATAATTTGTCTATGGATTATTGCATTATAATA
66 ACTATGAATAATATGGTGAGAATAATTCATAAAATAATTTGTCTATGGATTATTGCATTATAATA
9591621 A
131 A
*
9591622 TATCAAAATTATGTGTGAAGGACATGAAAAAAATTGTTAAAATGTCAATAAATAATTGAAAATGG
1 TATCAAAATTATGTGTGAAGGACATGAAAAAAATTGTTAAAATGTCAATAAATAATTGAAAAGGG
*
9591687 ACTATGAATAATGTGGTGAGAATAATTCATAAAATAATTTGTCTATGGATTATTGCATTATAATA
66 ACTATGAATAATATGGTGAGAATAATTCATAAAATAATTTGTCTATGGATTATTGCATTATAATA
9591752 A
131 A
9591753 TATCA
1 TATCA
9591758 TATCTTTAAA
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 133 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (131 bp):
TATCAAAATTATGTGTGAAGGACATGAAAAAAATTGTTAAAATGTCAATAAATAATTGAAAAGGG
ACTATGAATAATATGGTGAGAATAATTCATAAAATAATTTGTCTATGGATTATTGCATTATAATA
A
Found at i:9593361 original size:59 final size:59
Alignment explanation
Indices: 9593233--9593430 Score: 183
Period size: 59 Copynumber: 3.4 Consensus size: 59
9593223 TTTTGGGTAC
* * * * * *
9593233 CAGGGGAAAAACGATAA-TTTTGGTTGAAAT-TGGGTCAAAAAA-GGGATTTTTAG-AAGTT
1 CAGGGGTAAAATGGTAATTTTTGG-TGAAATCAGGGT-AAAAAATGAGA-TTTTAGAAAATT
* *
9593291 CAGGGGTAAAATAGTAATTTTTTGTGAAATC-GAGGTAAAAAATGAGAGTTTT-GAAAATT
1 CAGGGGTAAAATGGTAATTTTTGGTGAAATCAG-GGTAAAAAATGAGA-TTTTAGAAAATT
* * * **
9593350 CAGGGGTAAAATGGTAATTTTTGGTGTAATCAGGGTTAAAAATGGGATTTTAGAAGGTT
1 CAGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTAAAAAATGAGATTTTAGAAAATT
*
9593409 TAGGGGTAAAATGGTAATTTTT
1 CAGGGGTAAAATGGTAATTTTT
9593431 AGAAAGTTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
58 31 0.26
59 85 0.73
60 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (59 bp):
CAGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTAAAAAATGAGATTTTAGAAAATT
Found at i:9593433 original size:30 final size:29
Alignment explanation
Indices: 9593397--9593489 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 29
9593387 AAAAATGGGA
* *
9593397 TTTTAGAAGGTTTAGGGGTAAAATGGTAAT
1 TTTTAGAAAGTTTTGGGGTAAAAT-GTAAT
*
9593427 TTTTAGAAAGTTTTGGGTTCAAAATGTAAT
1 TTTTAGAAAGTTTTGGGGT-AAAATGTAAT
* *
9593457 TTTTAAAAAGTTTTGGGGTTAAAATATAAT
1 TTTTAGAAAGTTTTGGGG-TAAAATGTAAT
9593487 TTT
1 TTT
9593490 CGAACAGTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 49 0.89
31 6 0.11
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (29 bp):
TTTTAGAAAGTTTTGGGGTAAAATGTAAT
Found at i:9594681 original size:19 final size:18
Alignment explanation
Indices: 9594646--9594690 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9594636 AATTTATTAC
9594646 TATTATTAAAATAGTTAT
1 TATTATTAAAATAGTTAT
9594664 TATTATTGAAAACT-GTTAT
1 TATTATT-AAAA-TAGTTAT
*
9594683 TAATATTA
1 TATTATTA
9594691 TTAGTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 15 0.62
20 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (18 bp):
TATTATTAAAATAGTTAT
Found at i:9595446 original size:6 final size:6
Alignment explanation
Indices: 9595432--9595516 Score: 79
Period size: 6 Copynumber: 14.8 Consensus size: 6
9595422 TGGACATTGA
* * * *
9595432 TTAAAT TTAATT TTAAA- TTAAAA TTAAAT CTAAAT TTAAA- ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
9595478 TTAAAT TTAAA- ATAGAT TTAAAT TTAAA- ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
9595517 ATGGTTTGGT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
5 16 0.26
6 46 0.74
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:9595453 original size:17 final size:17
Alignment explanation
Indices: 9595443--9595516 Score: 114
Period size: 17 Copynumber: 4.4 Consensus size: 17
9595433 TAAATTTAAT
9595443 TTTAAA-TTAAAATTAAA
1 TTTAAATTTAAAA-TAAA
*
9595460 TCTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
9595477 TTTAAATTTAAAATAGA
1 TTTAAATTTAAAATAAA
9595494 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
9595511 TTTAAA
1 TTTAAA
9595517 ATGGTTTGGT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 46 0.88
18 6 0.12
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:9595457 original size:23 final size:23
Alignment explanation
Indices: 9595431--9595488 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
9595421 TTGGACATTG
* *
9595431 ATTAAATTTAATTTTAAATTAAA
1 ATTAAATTTAAATTTAAAATAAA
*
9595454 ATTAAATCTAAATTTAAAATAAA
1 ATTAAATTTAAATTTAAAATAAA
*
9595477 TTTAAATTTAAA
1 ATTAAATTTAAA
9595489 ATAGATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTAAATTTAAATTTAAAATAAA
Found at i:9595510 original size:11 final size:11
Alignment explanation
Indices: 9595443--9595518 Score: 55
Period size: 11 Copynumber: 6.7 Consensus size: 11
9595433 TAAATTTAAT
*
9595443 TTTAAATTAAA
1 TTTAAAATAAA
* *
9595454 ATTAAATCTAAA
1 TTTAAA-ATAAA
9595466 TTTAAAATAAA
1 TTTAAAATAAA
*
9595477 TTTAAATTTAAA
1 TTTAAA-ATAAA
* **
9595489 -ATAGATTTAAA
1 TTTA-AAATAAA
9595500 TTTAAAATAAA
1 TTTAAAATAAA
9595511 TTTAAAAT
1 TTTAAAAT
9595519 GGTTTGGTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
11 35 0.69
12 16 0.31
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TTTAAAATAAA
Found at i:9596673 original size:18 final size:18
Alignment explanation
Indices: 9596650--9596684 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9596640 TTTATAATTT
*
9596650 ATAAAACTTCTAATTTAG
1 ATAAAAATTCTAATTTAG
*
9596668 ATAAAAATTTTAATTTA
1 ATAAAAATTCTAATTTA
9596685 AATTGATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
ATAAAAATTCTAATTTAG
Found at i:9606195 original size:36 final size:36
Alignment explanation
Indices: 9606148--9606220 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
9606138 TAGAGTTGAG
9606148 TCAACTCCGTGGAGAAACCCAGATCCCCGATCAACA
1 TCAACTCCGTGGAGAAACCCAGATCCCCGATCAACA
9606184 TCAACTCCGTGGAGAAACCCAGATCCCCGATCAACA
1 TCAACTCCGTGGAGAAACCCAGATCCCCGATCAACA
9606220 T
1 T
9606221 GATGATCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.36, G:0.16, T:0.15
Consensus pattern (36 bp):
TCAACTCCGTGGAGAAACCCAGATCCCCGATCAACA
Found at i:9616174 original size:36 final size:36
Alignment explanation
Indices: 9616127--9616198 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
9616117 ATTGCCACAC
*
9616127 ACCTGAAATATGTTTTCCTAGGTGATAATGATACAT
1 ACCTGAAATATGTTTTCCTAGGTGACAATGATACAT
9616163 ACCTGAAATATGTTTTCCTAGGTGACAATGATACAT
1 ACCTGAAATATGTTTTCCTAGGTGACAATGATACAT
9616199 TTCCAATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (36 bp):
ACCTGAAATATGTTTTCCTAGGTGACAATGATACAT
Found at i:9621310 original size:17 final size:18
Alignment explanation
Indices: 9621272--9621310 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9621262 TGTACATTTC
9621272 TTTTAATTGTCATAGCAT
1 TTTTAATTGTCATAGCAT
*
9621290 TTTTTATTGTC-TATGCAT
1 TTTTAATTGTCATA-GCAT
9621308 TTT
1 TTT
9621311 ATTTGTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (18 bp):
TTTTAATTGTCATAGCAT
Found at i:9621312 original size:16 final size:17
Alignment explanation
Indices: 9621284--9621326 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9621274 TTAATTGTCA
*
9621284 TAGCATTTTTTATTG-TC
1 TAGCATTTTAT-TTGTTC
9621301 TATGCATTTTATTTGTTC
1 TA-GCATTTTATTTGTTC
9621319 TAGCATTT
1 TAGCATTT
9621327 GCATTGTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (17 bp):
TAGCATTTTATTTGTTC
Found at i:9621316 original size:17 final size:17
Alignment explanation
Indices: 9621272--9621326 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
9621262 TGTACATTTC
*
9621272 TTTTAATTGTC-ATAGCA
1 TTTTATTTGTCTAT-GCA
*
9621289 TTTTTTATTGTCTATGCA
1 TTTTAT-TTGTCTATGCA
9621307 TTTTATTTGTTCTA-GCA
1 TTTTATTTG-TCTATGCA
9621324 TTT
1 TTT
9621327 GCATTGTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.41
18 17 0.53
19 2 0.06
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.58
Consensus pattern (17 bp):
TTTTATTTGTCTATGCA
Found at i:9623626 original size:22 final size:22
Alignment explanation
Indices: 9623601--9623657 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
9623591 CCAAAAGTCG
*
9623601 ATGTCGCGATATACCAGGTCTT
1 ATGTCGCGACATACCAGGTCTT
*
9623623 ATGTCGCAACATACCAGGTCTT
1 ATGTCGCGACATACCAGGTCTT
9623645 ATGTCGCGACATA
1 ATGTCGCGACATA
9623658 GACATGCTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (22 bp):
ATGTCGCGACATACCAGGTCTT
Found at i:9623697 original size:40 final size:41
Alignment explanation
Indices: 9623646--9623724 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
9623636 CCAGGTCTTA
* * *
9623646 TGTCGCGACATAGACA-TGCTGTGTTGCGACATAGGGGGCT
1 TGTCACGACATAGACATTCCTATGTTGCGACATAGGGGGCT
*
9623686 TGTCACGACATAGACATTCCTATGTTGCGATATAGGGGG
1 TGTCACGACATAGACATTCCTATGTTGCGACATAGGGGG
9623725 TTGGTTGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 15 0.44
41 19 0.56
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (41 bp):
TGTCACGACATAGACATTCCTATGTTGCGACATAGGGGGCT
Found at i:9623751 original size:41 final size:41
Alignment explanation
Indices: 9623653--9623744 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 41
9623643 TTATGTCGCG
* * *
9623653 ACATAGACA-TGCTGTGTTGCGACATAGGGGGCTTGTCACG
1 ACATAGACATTCCTATGTTGCGACATAGGGGGCTTGTCACA
* **
9623693 ACATAGACATTCCTATGTTGCGATATAGGGGG-TTGGTTGCA
1 ACATAGACATTCCTATGTTGCGACATAGGGGGCTT-GTCACA
9623734 ACATAGACATT
1 ACATAGACATT
9623745 TTTATGTCGC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 11 0.25
41 33 0.75
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (41 bp):
ACATAGACATTCCTATGTTGCGACATAGGGGGCTTGTCACA
Found at i:9628930 original size:40 final size:40
Alignment explanation
Indices: 9628860--9628968 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
9628850 ATAATCTTCA
* * * *
9628860 GGGTTGGTCGTGACATAGACATGCTGTGTTGTGACATAAG
1 GGGTTGGTCGCGACATAGACATTCTATGTTGCGACATAAG
*
9628900 GGGTT-GTCGCGACATAGACATTCTTATGTTGCGACATAGG
1 GGGTTGGTCGCGACATAGACATTC-TATGTTGCGACATAAG
* *
9628940 GGGTTGGTTGCAACATAGACATTTCTATG
1 GGGTTGGTCGCGACATAGACA-TTCTATG
9628969 CCACGATGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 16 0.27
40 23 0.39
41 17 0.29
42 3 0.05
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (40 bp):
GGGTTGGTCGCGACATAGACATTCTATGTTGCGACATAAG
Found at i:9639094 original size:31 final size:31
Alignment explanation
Indices: 9639034--9639095 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
9639024 TATGTCAAAA
* *
9639034 AAATAAAGTATAAAAATTAAATGTCAAATTT
1 AAATAAAGTATAAAAATAAAATGTAAAATTT
9639065 AAATGAAA-TATAAAAATCAAAAT-TAAAATTT
1 AAAT-AAAGTATAAAAAT-AAAATGTAAAATTT
9639096 CACCATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (31 bp):
AAATAAAGTATAAAAATAAAATGTAAAATTT
Found at i:9639216 original size:16 final size:15
Alignment explanation
Indices: 9639191--9639221 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
9639181 GAGGTGATCA
9639191 TGGGTCGGGTCGGGT
1 TGGGTCGGGTCGGGT
9639206 TGGGTTCGGGTCGGGT
1 TGGG-TCGGGTCGGGT
9639222 CGGATTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.00, C:0.13, G:0.58, T:0.29
Consensus pattern (15 bp):
TGGGTCGGGTCGGGT
Found at i:9639471 original size:41 final size:41
Alignment explanation
Indices: 9639418--9639498 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
9639408 TACACTTAAA
* *
9639418 AATATTAAAACAAATATTAAAACAACAAACTAATTAAAAAC
1 AATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAAC
* * * *
9639459 AATATTAAAACAATTCGTAAAATAACAAACAAATTGAAAA
1 AATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAA
9639499 TATAATAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.22
Consensus pattern (41 bp):
AATATTAAAACAAATAGTAAAACAACAAACAAATTAAAAAC
Found at i:9639472 original size:11 final size:12
Alignment explanation
Indices: 9639417--9639442 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9639407 ATACACTTAA
9639417 AAATATTAAAAC
1 AAATATTAAAAC
9639429 AAATATTAAAAC
1 AAATATTAAAAC
9639441 AA
1 AA
9639443 CAAACTAATT
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:9640870 original size:24 final size:25
Alignment explanation
Indices: 9640820--9640870 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
9640810 AAATTTGATT
* *
9640820 TAATCCATTAAAAATTATACAAATA
1 TAATCCATTAAAAATGATAAAAATA
* *
9640845 TAATCTATT-AAAATGATAAAATTA
1 TAATCCATTAAAAATGATAAAAATA
9640869 TA
1 TA
9640871 TTTTTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (25 bp):
TAATCCATTAAAAATGATAAAAATA
Found at i:9645538 original size:16 final size:17
Alignment explanation
Indices: 9645517--9645551 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9645507 CATATTCTAT
9645517 TTCTCAAA-ATTATAAA
1 TTCTCAAATATTATAAA
*
9645533 TTCTCAAATATTGTAAA
1 TTCTCAAATATTATAAA
9645550 TT
1 TT
9645552 AGTCCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (17 bp):
TTCTCAAATATTATAAA
Found at i:9646699 original size:9 final size:9
Alignment explanation
Indices: 9646685--9646715 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
9646675 TTTTATTTTC
9646685 TTTTTATAT
1 TTTTTATAT
9646694 TTTTTATAT
1 TTTTTATAT
9646703 TTTTTATAT
1 TTTTTATAT
9646712 TTTT
1 TTTT
9646716 CAATGTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTATAT
Found at i:9647771 original size:256 final size:256
Alignment explanation
Indices: 9647316--9647804 Score: 951
Period size: 256 Copynumber: 1.9 Consensus size: 256
9647306 ATATTTCATT
* *
9647316 TTTATTTTGTTTGGGCTGGTTAAAATTGGGCCTCTATATACGAAATTAACAGTTAAGCTTAATTA
1 TTTATTTTGTTTGGGCTGGTAAAAATTGGGCCTCTACATACGAAATTAACAGTTAAGCTTAATTA
9647381 AGTAAATTAAGATTAATTAAAATTAAAACATGAATAAGTAAAATATAAATAAGTTTTATGAAATA
66 AGTAAATTAAGATTAATTAAAATTAAAACATGAATAAGTAAAATATAAATAAGTTTTATGAAATA
*
9647446 AATTCAATTAAACAATGAAAAGATAATAAAATCTCAAATGTATGTTTGTTTCATTGAAAACAACT
131 AACTCAATTAAACAATGAAAAGATAATAAAATCTCAAATGTATGTTTGTTTCATTGAAAACAACT
9647511 TTTATGAAATATTTTCAGGAAATTTGCCAAACAACAAATAGAGTTTTATGAAATAAATAAG
196 TTTATGAAATATTTTCAGGAAATTTGCCAAACAACAAATAGAGTTTTATGAAATAAATAAG
9647572 TTTATTTTGTTTGGGCTGGTAAAAATTGGGCCTCTACATACGAAATTAACAGTTAAGCTTAATTA
1 TTTATTTTGTTTGGGCTGGTAAAAATTGGGCCTCTACATACGAAATTAACAGTTAAGCTTAATTA
9647637 AGTAAATTAAGATTAATTAAAATTAAAACATGAATAAGTAAAATATAAATAAGTTTTATGAAATA
66 AGTAAATTAAGATTAATTAAAATTAAAACATGAATAAGTAAAATATAAATAAGTTTTATGAAATA
9647702 AACTCAATTAAACAATGAAAAGATAATAAAATCTCAAATGTATGTTTGTTTCATTGAAAACAACT
131 AACTCAATTAAACAATGAAAAGATAATAAAATCTCAAATGTATGTTTGTTTCATTGAAAACAACT
9647767 TTTATGAAATATTTTCAGGAAATTTGCCAAACAACAAA
196 TTTATGAAATATTTTCAGGAAATTTGCCAAACAACAAA
9647805 AAATATTTTA
Statistics
Matches: 230, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
256 230 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (256 bp):
TTTATTTTGTTTGGGCTGGTAAAAATTGGGCCTCTACATACGAAATTAACAGTTAAGCTTAATTA
AGTAAATTAAGATTAATTAAAATTAAAACATGAATAAGTAAAATATAAATAAGTTTTATGAAATA
AACTCAATTAAACAATGAAAAGATAATAAAATCTCAAATGTATGTTTGTTTCATTGAAAACAACT
TTTATGAAATATTTTCAGGAAATTTGCCAAACAACAAATAGAGTTTTATGAAATAAATAAG
Found at i:9655437 original size:56 final size:56
Alignment explanation
Indices: 9655351--9655462 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
9655341 AAAATTTCCA
*
9655351 TAATTTTTCAAATGCTTCCACACAATTCTTATCAAACACAAAAGGAACATCTTTTT
1 TAATTTTTCAAATGCTGCCACACAATTCTTATCAAACACAAAAGGAACATCTTTTT
9655407 TAATTTTTCAAATGCTGCCACACAATTCTTATCAAACACAAAAGGAACATCTTTTT
1 TAATTTTTCAAATGCTGCCACACAATTCTTATCAAACACAAAAGGAACATCTTTTT
9655463 CTAACAACAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (56 bp):
TAATTTTTCAAATGCTGCCACACAATTCTTATCAAACACAAAAGGAACATCTTTTT
Found at i:9657745 original size:3 final size:3
Alignment explanation
Indices: 9657737--9657762 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9657727 TTTGATTTTT
9657737 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
9657763 CTCAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:9664569 original size:21 final size:19
Alignment explanation
Indices: 9664545--9664597 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
9664535 CTGTAGTTAG
9664545 ATTGCATTCATTTTTATTATC
1 ATTGCATTC-TTTTT-TTATC
* *
9664566 ATTGCATT-TTATTTTGTC
1 ATTGCATTCTTTTTTTATC
9664584 ATTGCATTCCTTTT
1 ATTGCATT-CTTTT
9664598 GTTAACTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 12 0.44
19 4 0.15
20 3 0.11
21 8 0.30
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (19 bp):
ATTGCATTCTTTTTTTATC
Found at i:9674732 original size:23 final size:21
Alignment explanation
Indices: 9674688--9674743 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
9674678 TTCTGTGTCA
* *
9674688 TTTTAAATTTTAAAATTTAAT
1 TTTTAATTTTTAAAATTAAAT
9674709 TTTTAATTTTTGAGAAATTAAAT
1 TTTTAATTTTT-A-AAATTAAAT
*
9674732 TTATTTATTTTT
1 TT-TTAATTTTT
9674744 TATTTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 10 0.34
24 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTTAATTTTTAAAATTAAAT
Found at i:9675836 original size:20 final size:20
Alignment explanation
Indices: 9675783--9675824 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
9675773 GTTGGGTTCG
9675783 TTCTATAGGTAGAAGCTCTC
1 TTCTATAGGTAGAAGCTCTC
*
9675803 TTCTATAAGTAGAAGCTCTC
1 TTCTATAGGTAGAAGCTCTC
9675823 TT
1 TT
9675825 GTACTGGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (20 bp):
TTCTATAGGTAGAAGCTCTC
Found at i:9684665 original size:17 final size:17
Alignment explanation
Indices: 9684643--9684681 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9684633 CTCCACCTTG
* * *
9684643 ACAAGAATTCTCTATGA
1 ACAAGAACTCTCAACGA
9684660 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
9684677 ACAAG
1 ACAAG
9684682 TTCTCCACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:9687846 original size:30 final size:30
Alignment explanation
Indices: 9687810--9687874 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
9687800 TTAGTACATG
*
9687810 AATTTGACACTTTTCTTAATTTCGTAC-TAA
1 AATTTGACACTTTT-TTAAGTTCGTACTTAA
*
9687840 AATTTGACACTTTTTTAAGTTGGTACTTAA
1 AATTTGACACTTTTTTAAGTTCGTACTTAA
9687870 AATTT
1 AATTT
9687875 TTTTGGATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (30 bp):
AATTTGACACTTTTTTAAGTTCGTACTTAA
Found at i:9692770 original size:21 final size:21
Alignment explanation
Indices: 9692723--9692763 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9692713 GATAAACTGT
9692723 CACATAATTGTCAAAAATGGA
1 CACATAATTGTCAAAAATGGA
*
9692744 CACATAATTGTCAATAATGG
1 CACATAATTGTCAAAAATGG
9692764 CCGCATATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (21 bp):
CACATAATTGTCAAAAATGGA
Found at i:9692959 original size:16 final size:15
Alignment explanation
Indices: 9692933--9692962 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9692923 ATCTTGATAA
9692933 TCACATATTCACATT
1 TCACATATTCACATT
9692948 TCACATTATTCACAT
1 TCACA-TATTCACAT
9692963 GCTCAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
TCACATATTCACATT
Found at i:9699770 original size:13 final size:13
Alignment explanation
Indices: 9699752--9699817 Score: 82
Period size: 13 Copynumber: 5.1 Consensus size: 13
9699742 TTTCACCTAA
9699752 AAAAAGAAAGAAG
1 AAAAAGAAAGAAG
*
9699765 AAAAAGAAGAGAAA
1 AAAAAGAA-AGAAG
9699779 AAAAAGAAAGAAG
1 AAAAAGAAAGAAG
9699792 AAAGAA-AAAG-AG
1 AAA-AAGAAAGAAG
*
9699804 AAAAAGAAAAAAG
1 AAAAAGAAAGAAG
9699817 A
1 A
9699818 GTGGTCGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.04
12 8 0.17
13 22 0.48
14 14 0.30
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAG
Found at i:9699788 original size:18 final size:18
Alignment explanation
Indices: 9699762--9699815 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
9699752 AAAAAGAAAG
*
9699762 AAGAAAAAGAAGAGAAAAA
1 AAGAGAAAGAAGA-AAAAA
9699781 AA-AGAAAGAAGAAAGAAA
1 AAGAGAAAGAAGAAA-AAA
9699799 AAGAGAAA-AAGAAAAAA
1 AAGAGAAAGAAGAAAAAA
9699816 GAGTGGTCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.16
18 20 0.62
19 7 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAGAGAAAGAAGAAAAAA
Found at i:9699788 original size:27 final size:28
Alignment explanation
Indices: 9699750--9699817 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
9699740 AATTTCACCT
*
9699750 AAAAAAAGAAAGAAGAAA-AAGAAGAGA
1 AAAAAAAGAAAGAAGAAAGAAAAAGAGA
9699777 AAAAAAAGAAAGAAGAAAGAAAAAGAGA
1 AAAAAAAGAAAGAAGAAAGAAAAAGAGA
9699805 AAAAGAAA-AAAGA
1 AAAA-AAAGAAAGA
9699818 GTGGTCGAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 18 0.47
28 17 0.45
29 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAGAAGAAAGAAAAAGAGA
Found at i:9699797 original size:31 final size:28
Alignment explanation
Indices: 9699750--9699817 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 28
9699740 AATTTCACCT
9699750 AAAAAAAGAAAGAAGAAAAAGAAGAGAAAA
1 AAAAAAAGAAAGAAGAAAAAG-AGA-AAAA
9699780 AAAAGAAAG-AAGAAAGAAAAAGAGAAAAA
1 AAAA-AAAGAAAG-AAGAAAAAGAGAAAAA
*
9699809 GAAAAAAGA
1 AAAAAAAGA
9699818 GTGGTCGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 4 0.12
29 7 0.21
30 10 0.29
31 13 0.38
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAGAAGAAAAAGAGAAAAA
Found at i:9699811 original size:14 final size:14
Alignment explanation
Indices: 9699750--9699815 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 14
9699740 AATTTCACCT
9699750 AAAAAAAGAAAGAAG
1 AAAAAAAGAAA-AAG
9699765 AAAAAGAAGAGAAAA-
1 AAAAA-AAGA-AAAAG
9699780 AAAAGAAAGAAGAAAG
1 AAAA-AAAGAA-AAAG
*
9699796 AAAAAGAGAAAAAG
1 AAAAAAAGAAAAAG
9699810 AAAAAA
1 AAAAAA
9699816 GAGTGGTCGA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
14 10 0.23
15 21 0.48
16 11 0.25
17 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:9701283 original size:49 final size:48
Alignment explanation
Indices: 9701167--9701835 Score: 500
Period size: 49 Copynumber: 13.7 Consensus size: 48
9701157 TACAGGTTTG
* * * **
9701167 GAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAGACAT
1 GAGGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * * * *
9701215 -ATGGAAAAGATTGAAGCCGCAACGGCGAATCTTGTACCATGGAGATAT
1 GA-GGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * *
9701263 AGAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCTTTGAGATGT
1 -GAGGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
** * * * * * *
9701312 GATGGGAAATATTAAAGCCGTAACGGTGAATCTTGTACCATGGAGATAT
1 GA-GGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * * * * *
9701361 GGAAGGAAAGGTTGAAGCCGCAATGACGAACCTTGTACCTTTGAGATAT
1 -GAGGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * * * * *
9701410 GATGGGAAAGATT-ATATCCACAACAGCGAATCTTGTACCATAGAGTTGT
1 GA-GGGAAAGGTTGA-AGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * * * * * *
9701459 GGAGGGAAAGCTTAAAGCCGCCACGGTGAACCTTGTACCTTAAAAATGT
1 -GAGGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * * *
9701508 GATGGGAAAGATTGAAGCCGTAACGGCGAATCTTGTACCATAGAGTTGT
1 GA-GGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * * * * *
9701557 GGAGGGAAAGGTTGAAGCCACGACAGCAAACCTTGTACCTTTGAGATGT
1 -GAGGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
** * * *
9701606 GATGGG-AAGGATTGAAGCCGCAACTACGAACCTTATACCTTAGAAATGT
1 GA-GGGAAAGG-TTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * * * *
9701655 GATGGGAAAGATTGAAGCCGTAACGGTGAATCTTGTACCATAGAGTTGT
1 GA-GGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
* * * * * * *
9701704 GGAGGGAAAAGTTGAAACCTCAACGACGAATCTTGTACCATGGAGATAT
1 -GAGGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
** * *
9701753 AGAGGGAAAGGTTGAAGCCTTAACAGC-AATCCTTATACCTTAGAGATGT
1 -GAGGGAAAGGTTGAAGCCGCAACGGCGAAT-CTTGTACCTTAGAGATGT
* * *
9701802 GAAGGGAAAGATTAAAGCCACAACGGCGAATCTT
1 G-AGGGAAAGGTTGAAGCCGCAACGGCGAATCTT
9701836 ACATCCTGAA
Statistics
Matches: 481, Mismatches: 122, Indels: 35
0.75 0.19 0.05
Matches are distributed among these distances:
47 1 0.00
48 55 0.11
49 409 0.85
50 16 0.03
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (48 bp):
GAGGGAAAGGTTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT
Found at i:9701369 original size:98 final size:98
Alignment explanation
Indices: 9701165--9701835 Score: 649
Period size: 98 Copynumber: 6.9 Consensus size: 98
9701155 TCTACAGGTT
* * * ** * *
9701165 TGGAGGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAGACAT-ATGGAAAAGATTGA
1 TGGAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTAA
9701229 AGCCGCAACGGCGAATCTTGTACCATGGAGATA
66 AGCCGCAACGGCGAATCTTGTACCATGGAGATA
* * *
9701262 TAGAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCTTTGAGATGTGATGGGAAATATTAA
1 TGGAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTAA
* *
9701327 AGCCGTAACGGTGAATCTTGTACCATGGAGATA
66 AGCCGCAACGGCGAATCTTGTACCATGGAGATA
* * * * *
9701360 TGGAAGGAAAGGTTGAAGCCGCAATGACGAACCTTGTACCTTTGAGATATGATGGGAAAGATTAT
1 TGGAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTAA
* * * * * *
9701425 ATCCACAACAGCGAATCTTGTACCATAGAGTTG
66 AGCCGCAACGGCGAATCTTGTACCATGGAGATA
* * * ** * * *
9701458 TGGAGGGAAAGCTTAAAGCCGCCACGGTGAACCTTGTACCTTAAAAATGTGATGGGAAAGATTGA
1 TGGAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTAA
* * * *
9701523 AGCCGTAACGGCGAATCTTGTACCATAGAGTTG
66 AGCCGCAACGGCGAATCTTGTACCATGGAGATA
* * * * * *
9701556 TGGAGGGAAAGGTTGAAGCCACGAC-AGCAAACCTTGTACCTTTGAGATGTGATGGGAAGGATTG
1 TGGAGGGAAAGGTTGAAGCCGCAACGA-CGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTA
** * * * *
9701620 AAGCCGCAACTACGAACCTTATACC-T-TAGAAA
65 AAGCCGCAACGGCGAATCTTGTACCATGGAGATA
* * ** * * *
9701652 TGTGATGGGAAAGATTGAAGCCGTAACGGTGAATCTTGTACCATAGAGTTGTGGA-GGGAAA-AG
1 TG-GA-GGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCTTAGAGATGT-GATGGGAAAGA-
* *
9701715 TTGAAA-CCTCAACGACGAATCTTGTACCATGGAGATA
62 TT-AAAGCCGCAACGGCGAATCTTGTACCATGGAGATA
* ** * *
9701752 TAGAGGGAAAGGTTGAAGCCTTAAC-A-GCAATCCTTATACCTTAGAGATGTGAAGGGAAAGATT
1 TGGAGGGAAAGGTTGAAGCCGCAACGACG-AA-CCTTGTACCTTAGAGATGTGATGGGAAAGATT
*
9701815 AAAGCCACAACGGCGAATCTT
64 AAAGCCGCAACGGCGAATCTT
9701836 ACATCCTGAA
Statistics
Matches: 467, Mismatches: 92, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
96 5 0.01
97 54 0.12
98 395 0.85
99 8 0.02
100 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (98 bp):
TGGAGGGAAAGGTTGAAGCCGCAACGACGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTAA
AGCCGCAACGGCGAATCTTGTACCATGGAGATA
Found at i:9701624 original size:147 final size:147
Alignment explanation
Indices: 9701169--9701835 Score: 589
Period size: 147 Copynumber: 4.5 Consensus size: 147
9701159 CAGGTTTGGA
* * * * * * ** *
9701169 GGGAAAGGTTGAAGCCACAACGGCGAACCTTATACCTTAGAGACAT-ATGGAAAAGATTGAAGCC
1 GGGAAAGATTAAAGCCGCAACGGTGAACCTTGTACCTTAGAAATGTGATGGGAAAGATTGAAGCC
* * *
9701233 GCAACGGCGAATCTTGTACCATGGAGATATAGAGGGAAAGGTTGAAGCCGCAAC-GACGAACCTT
66 GCAACGGCGAATCTTGTACCATAGAGATATGGAGGGAAAGGTTGAAGCCACAACAG-CGAACCTT
9701297 GTACCTTTGAGATGTGAT
130 GTACCTTTGAGATGTGAT
* * * * * * *
9701315 GGGAAATATTAAAGCCGTAACGGTGAATCTTGTACCATGGAGATATG-GA-AGGAAAGGTTGAAG
1 GGGAAAGATTAAAGCCGCAACGGTGAACCTTGTACC-T-TAGAAATGTGATGGGAAAGATTGAAG
* * * * * * * *
9701378 CCGCAATGACGAACCTTGTACCTTTGAGATAT-GATGGGAAAGATT-ATATCCACAACAGCGAAT
64 CCGCAACGGCGAATCTTGTACCATAGAGATATGGA-GGGAAAGGTTGA-AGCCACAACAGCGAAC
* * *
9701441 CTTGTACCATAGAGTTGTGGA-
127 CTTGTACCTTTGAGATGT-GAT
* * *
9701462 GGGAAAGCTTAAAGCCGCCACGGTGAACCTTGTACCTTAAAAATGTGATGGGAAAGATTGAAGCC
1 GGGAAAGATTAAAGCCGCAACGGTGAACCTTGTACCTTAGAAATGTGATGGGAAAGATTGAAGCC
* * * * *
9701527 GTAACGGCGAATCTTGTACCATAGAGTTGTGGAGGGAAAGGTTGAAGCCACGACAGCAAACCTTG
66 GCAACGGCGAATCTTGTACCATAGAGATATGGAGGGAAAGGTTGAAGCCACAACAGCGAACCTTG
9701592 TACCTTTGAGATGTGAT
131 TACCTTTGAGATGTGAT
* * *** *
9701609 GGGAAGGATTGAAGCCGCAACTACGAACCTTATACCTTAGAAATGTGATGGGAAAGATTGAAGCC
1 GGGAAAGATTAAAGCCGCAACGGTGAACCTTGTACCTTAGAAATGTGATGGGAAAGATTGAAGCC
* * * * * * * *
9701674 GTAACGGTGAATCTTGTACCATAGAGTTGTGGAGGGAAAAGTTGAAACCTCAAC-GACGAATCTT
66 GCAACGGCGAATCTTGTACCATAGAGATATGGAGGGAAAGGTTGAAGCCACAACAG-CGAACCTT
* * *
9701738 GTACCATGGAGATATAGA-
130 GTACCTTTGAGATGT-GAT
* * ** * * * * * *
9701756 GGGAAAGGTTGAAGCCTTAACAG-CAATCCTTATACCTTAGAGATGTGAAGGGAAAGATTAAAGC
1 GGGAAAGATTAAAGCCGCAACGGTGAA-CCTTGTACCTTAGAAATGTGATGGGAAAGATTGAAGC
*
9701820 CACAACGGCGAATCTT
65 CGCAACGGCGAATCTT
9701836 ACATCCTGAA
Statistics
Matches: 421, Mismatches: 85, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
145 5 0.01
146 39 0.09
147 364 0.86
148 13 0.03
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (147 bp):
GGGAAAGATTAAAGCCGCAACGGTGAACCTTGTACCTTAGAAATGTGATGGGAAAGATTGAAGCC
GCAACGGCGAATCTTGTACCATAGAGATATGGAGGGAAAGGTTGAAGCCACAACAGCGAACCTTG
TACCTTTGAGATGTGAT
Found at i:9703738 original size:29 final size:30
Alignment explanation
Indices: 9703705--9703800 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
9703695 CGAACTTTCC
*
9703705 AAAAATTACGTTTTGACCCCTAAACTTTTT
1 AAAAATTATGTTTTGACCCCTAAACTTTTT
* *
9703735 AAAAATTATGTTTTGACTCTTAAA-TTTTT
1 AAAAATTATGTTTTGACCCCTAAACTTTTT
* * **
9703764 CAAAAA-AATATTTTGACCCCTAAACTTTCC
1 -AAAAATTATGTTTTGACCCCTAAACTTTTT
9703794 AAAAATT
1 AAAAATT
9703801 CTAATTTAGC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 24 0.45
30 29 0.55
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAAATTATGTTTTGACCCCTAAACTTTTT
Found at i:9703827 original size:59 final size:60
Alignment explanation
Indices: 9703696--9703827 Score: 135
Period size: 59 Copynumber: 2.2 Consensus size: 60
9703686 TTTTGGCCTC
* ** * * *
9703696 GAACTTTCC-AAAAATTACGTTTTGACCCCTAAACTTTTTAAAAATTATGTTTTGACTCTT
1 GAACTTTCCAAAAAAATAC-TTTTGACCCCTAAACTTTCCAAAAATTATATTTAGACCCTT
* * * *
9703756 AAATTTTTCAAAAAAATA-TTTTGACCCCTAAACTTTCCAAAAATTCTAATTTAG-CCCTT
1 GAACTTTCCAAAAAAATACTTTTGACCCCTAAACTTTCCAAAAATTAT-ATTTAGACCCTT
9703815 GAACTTTCCAAAA
1 GAACTTTCCAAAA
9703828 TTTTGTTTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
59 40 0.70
60 10 0.18
61 7 0.12
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (60 bp):
GAACTTTCCAAAAAAATACTTTTGACCCCTAAACTTTCCAAAAATTATATTTAGACCCTT
Found at i:9708168 original size:13 final size:13
Alignment explanation
Indices: 9708150--9708175 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9708140 GGATTTTCTT
9708150 TCCTCACTTAATC
1 TCCTCACTTAATC
9708163 TCCTCACTTAATC
1 TCCTCACTTAATC
9708176 ACGGCTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
TCCTCACTTAATC
Found at i:9716578 original size:23 final size:23
Alignment explanation
Indices: 9716548--9716674 Score: 148
Period size: 23 Copynumber: 5.4 Consensus size: 23
9716538 ACACTAGCGC
*
9716548 GCTCTCTGTTTAGCA-TGTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
*
9716571 GCTCTCTGTTATTAGCATTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* *
9716596 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* * *
9716619 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
9716642 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
9716665 GCTCTCTGTT
1 GCTCTCTGTT
9716675 ACCCAGCACT
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
23 70 0.77
24 1 0.01
25 16 0.18
26 4 0.04
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:9716713 original size:69 final size:71
Alignment explanation
Indices: 9716572--9716718 Score: 198
Period size: 69 Copynumber: 2.1 Consensus size: 71
9716562 ATGTCTCGTG
* *
9716572 CTCTCTGTTATTAGCATTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTT
1 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTT
9716637 TGTGTA
66 TGTGTA
9716643 CTCTCTG-T-TTAGCACTGTGTGTGCTCTCTG-TTACCCAGCAC-TTATGTGCTCTCTG-TTAGT
1 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATT----AGCACTTTATGTGCTCTCTGATTAGT
9716703 ACTTTG-GTA
62 ACTTTGTGTA
9716712 CTCTCTG
1 CTCTCTG
9716719 CTTGTTCCGT
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
68 2 0.03
69 31 0.44
70 12 0.17
71 20 0.29
72 5 0.07
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (71 bp):
CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTT
TGTGTA
Found at i:9727634 original size:12 final size:13
Alignment explanation
Indices: 9727593--9727634 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
9727583 AATAAAGTAT
*
9727593 AATTGTAAAATAAA
1 AATTGTAATA-AAA
*
9727607 AATTGTAATAAGA
1 AATTGTAATAAAA
9727620 AATTGT-ATAAAA
1 AATTGTAATAAAA
9727632 AAT
1 AAT
9727635 AACATAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 8 0.32
13 8 0.32
14 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (13 bp):
AATTGTAATAAAA
Found at i:9728106 original size:18 final size:16
Alignment explanation
Indices: 9728083--9728123 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
9728073 CCAGCCCGAA
*
9728083 TAAAAAATATTAAAAAT
1 TAAAAAATAAT-AAAAT
9728100 CTAAAAAATAATAAAAT
1 -TAAAAAATAATAAAAT
9728117 TAAAAAA
1 TAAAAAA
9728124 AATCCCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 10 0.45
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAAATAATAAAAT
Found at i:9736029 original size:21 final size:21
Alignment explanation
Indices: 9735996--9736035 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9735986 ACTTGATTCG
*
9735996 ATTTGACTCGACTCGAATTTC
1 ATTTCACTCGACTCGAATTTC
* *
9736017 ATTTCACTTGACTTGAATT
1 ATTTCACTCGACTCGAATT
9736036 AAAAAAATTT
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:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (21 bp):
ATTTCACTCGACTCGAATTTC
Found at i:9736438 original size:6 final size:6
Alignment explanation
Indices: 9736429--9736486 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
9736419 AATATAATAA
* *
9736429 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAATAT TAATAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
*
9736477 TAATAT TAAA
1 TAAAAT TAAA
9736487 TAAAAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAAAT
Found at i:9737785 original size:29 final size:29
Alignment explanation
Indices: 9737753--9737815 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
9737743 AAAATGAGAC
9737753 TTTTTGGA-TACTCGAGGGCAAAATGGTAA
1 TTTTTGGACT-CTCGAGGGCAAAATGGTAA
* * *
9737782 -TTTTGGACTCTTGGGGGTAAAATGGTAA
1 TTTTTGGACTCTCGAGGGCAAAATGGTAA
9737810 TTTTTG
1 TTTTTG
9737816 AAAGTTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.25, C:0.08, G:0.29, T:0.38
Consensus pattern (29 bp):
TTTTTGGACTCTCGAGGGCAAAATGGTAA
Found at i:9737827 original size:29 final size:30
Alignment explanation
Indices: 9737795--9738258 Score: 287
Period size: 29 Copynumber: 15.9 Consensus size: 30
9737785 TGGACTCTTG
9737795 GGGGT-AAAATGGTAATTTTTGAAAGTTTT
1 GGGGTCAAAATGGTAATTTTTGAAAGTTTT
* *
9737824 GGGGTCAAAAATGG-AGTTTTTGGACA--TTT
1 GGGGTC-AAAATGGTAATTTTT-GAAAGTTTT
* *
9737853 GGGGTCAAAATGGTAACTTTTAAAAGTTTT
1 GGGGTCAAAATGGTAATTTTTGAAAGTTTT
* **
9737883 AGGGTCAAAATGG-AATTTTTGAACA-TTCA
1 GGGGTCAAAATGGTAATTTTTGAA-AGTTTT
* *
9737912 AGGGT-AAAATGGTAAATTTTGAAAGTTTT
1 GGGGTCAAAATGGTAATTTTTGAAAGTTTT
* * *
9737941 GGGGTCAAAAT-GAAATTTTTGGACA--TTC
1 GGGGTCAAAATGGTAATTTTT-GAAAGTTTT
* *
9737969 GGGGTCAAAAATGG-AATTTTTGGAA-TTTC
1 GGGGTC-AAAATGGTAATTTTTGAAAGTTTT
* *
9737998 GGGGGCAAAAT-GTAATTTTTGGAAGTTTT
1 GGGGTCAAAATGGTAATTTTTGAAAGTTTT
** *
9738027 AAGGTCAAAAT-GTAATTTTTGGAAGTTTT
1 GGGGTCAAAATGGTAATTTTTGAAAGTTTT
* * **
9738056 GGGGTCAAAAAT-GAAATTTTTGAAA-ATCC
1 GGGGTC-AAAATGGTAATTTTTGAAAGTTTT
** * *
9738085 AAGATCAAAAATGG-AATTTTTGGAAGTTTT
1 GGGGTC-AAAATGGTAATTTTTGAAAGTTTT
*
9738115 AGGGTCAAAAT-GTAATTTTTGGAAA-TTTT
1 GGGGTCAAAATGGTAATTTTT-GAAAGTTTT
* * * * * *
9738144 GGGGTTAAAAATTG-AATTTATGGAAGTCTG
1 GGGG-TCAAAATGGTAATTTTTGAAAGTTTT
* *
9738174 GGGGTAAAAAT-GTATTTTTTGAAAGTTTT
1 GGGGTCAAAATGGTAATTTTTGAAAGTTTT
*
9738203 GGGGTTAAAATTGG-AATTTTT-AGAAG-TTT
1 GGGGTCAAAA-TGGTAATTTTTGA-AAGTTTT
*
9738232 GTGGGT-AAAAT-ATAATTTTTGGAAAGT
1 G-GGGTCAAAATGGTAATTTTT-GAAAGT
9738259 GTAGGGACCT
Statistics
Matches: 345, Mismatches: 57, Indels: 65
0.74 0.12 0.14
Matches are distributed among these distances:
27 1 0.00
28 53 0.15
29 190 0.55
30 89 0.26
31 12 0.03
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (30 bp):
GGGGTCAAAATGGTAATTTTTGAAAGTTTT
Found at i:9737902 original size:58 final size:58
Alignment explanation
Indices: 9737771--9738153 Score: 334
Period size: 58 Copynumber: 6.6 Consensus size: 58
9737761 TACTCGAGGG
9737771 CAAAATGGTAA-TTTTGGAC-TCTTGGGGGT-AAAATGGTAATTTTTGAAAGTTTTGGGGT
1 CAAAATGG-AATTTTTGGACAT-TT-GGGGTCAAAATGGTAATTTTTGAAAGTTTTGGGGT
* * * *
9737829 CAAAAATGGAGTTTTTGGACATTTGGGGTCAAAATGGTAACTTTTAAAAGTTTTAGGGT
1 C-AAAATGGAATTTTTGGACATTTGGGGTCAAAATGGTAATTTTTGAAAGTTTTGGGGT
* ** *
9737888 CAAAATGGAATTTTTGAACATTCAAGGGT-AAAATGGTAAATTTTGAAAGTTTTGGGGT
1 CAAAATGGAATTTTTGGACATT-TGGGGTCAAAATGGTAATTTTTGAAAGTTTTGGGGT
* * * * *
9737946 CAAAATGAAATTTTTGGACATTCGGGGTCAAAAATGG-AATTTTTGGAA-TTTCGGGGG
1 CAAAATGGAATTTTTGGACATTTGGGGTC-AAAATGGTAATTTTTGAAAGTTTTGGGGT
* ** *
9738003 CAAAATGTAATTTTTGGA-AGTTTTAAGGTCAAAAT-GTAATTTTTGGAAGTTTTGGGGT
1 CAAAATGGAATTTTTGGACA--TTTGGGGTCAAAATGGTAATTTTTGAAAGTTTTGGGGT
* * * **** * * *
9738061 CAAAAATGAAATTTTTGAAAATCCAAGATCAAAAATGG-AATTTTTGGAAGTTTTAGGGT
1 C-AAAATGGAATTTTTGGACATTTGGGGTC-AAAATGGTAATTTTTGAAAGTTTTGGGGT
* * *
9738120 CAAAATGTAATTTTTGGAAATTTTGGGGTTAAAA
1 CAAAATGGAATTTTTGGACA-TTTGGGGTCAAAA
9738154 ATTGAATTTA
Statistics
Matches: 270, Mismatches: 39, Indels: 32
0.79 0.11 0.09
Matches are distributed among these distances:
56 2 0.01
57 44 0.16
58 122 0.45
59 99 0.37
60 3 0.01
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (58 bp):
CAAAATGGAATTTTTGGACATTTGGGGTCAAAATGGTAATTTTTGAAAGTTTTGGGGT
Found at i:9738154 original size:59 final size:59
Alignment explanation
Indices: 9737771--9738256 Score: 363
Period size: 59 Copynumber: 8.3 Consensus size: 59
9737761 TACTCGAGGG
* * * *
9737771 CAAAATGGTAA-TTTTGG-ACTCTTGGGGGT-AAAATGGTAATTTTTGAAAGTTTTGGGGT
1 CAAAAT-GTAATTTTTGGAAATTTTGGGGTTAAAAATGG-AATTTTTGGAAGTTTTGGGGT
* * * * * ** *
9737829 CAAAAATGGAGTTTTTGGACA-TTTGGGG-TCAAAATGGTAACTTTTAAAAGTTTTAGGGT
1 C-AAAATGTAATTTTTGGAAATTTTGGGGTTAAAAATGG-AATTTTTGGAAGTTTTGGGGT
* *** * *
9737888 CAAAATGGAATTTTT-GAACATTCAAGGG-T-AAAATGGTAAATTTTGAAAGTTTTGGGGT
1 CAAAATGTAATTTTTGGAA-ATTTTGGGGTTAAAAATGG-AATTTTTGGAAGTTTTGGGGT
* * * * * *
9737946 CAAAATGAAATTTTTGGACA-TTCGGGGTCAAAAATGGAATTTTTGGAA-TTTCGGGGG
1 CAAAATGTAATTTTTGGAAATTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTTGGGGT
* ** * *
9738003 CAAAATGTAATTTTTGGAAGTTTTAAGG-TCAAAATGTAATTTTTGGAAGTTTTGGGGT
1 CAAAATGTAATTTTTGGAAATTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTTGGGGT
* * **** * * *
9738061 CAAAAATGAAATTTTT-GAAAATCCAAGATCAAAAATGGAATTTTTGGAAGTTTTAGGGT
1 C-AAAATGTAATTTTTGGAAATTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTTGGGGT
* * * *
9738120 CAAAATGTAATTTTTGGAAATTTTGGGGTTAAAAATTGAATTTATGGAAGTCTGGGGGT
1 CAAAATGTAATTTTTGGAAATTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTTGGGGT
* * * *
9738179 AAAAATGT-ATTTTTTGAAAGTTTTGGGGTTAAAATTGGAATTTTTAGAAG-TTTGTGGGT
1 CAAAATGTAATTTTTGGAAA-TTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTTG-GGGT
*
9738238 -AAAATATAATTTTTGGAAA
1 CAAAATGTAATTTTTGGAAA
9738257 GTGTAGGGAC
Statistics
Matches: 341, Mismatches: 70, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
57 47 0.14
58 118 0.35
59 176 0.52
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (59 bp):
CAAAATGTAATTTTTGGAAATTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTTGGGGT
Found at i:9738183 original size:88 final size:87
Alignment explanation
Indices: 9737913--9738255 Score: 299
Period size: 88 Copynumber: 3.9 Consensus size: 87
9737903 GAACATTCAA
* * * * *
9737913 GGGT-AAAATGGTAAATTTTGAAAGTTTTGGGGTCAAAATGAAATTTTTGGACA-TTCGGGGTCA
1 GGGTAAAAATGG-AATTTTTGAAAGTTTTAGGGTCAAAATGTAATTTTTGGAAATTTTGGGGTCA
* *
9737976 AAAATGGAATTTTTGGAATTTCGG
65 AAAATTGAATTTTTGGAATCT-GG
* * * * *
9738000 GGG-CAAAATGTAATTTTTGGAAGTTTTAAGGTCAAAATGTAATTTTTGGAAGTTTTGGGGTCAA
1 GGGTAAAAATGGAATTTTTGAAAGTTTTAGGGTCAAAATGTAATTTTTGGAAATTTTGGGGTCAA
* **
9738064 AAA-TGAAATTTTTGAAAATC-CA
66 AAATTG-AATTTTTG-GAATCTGG
* * * *
9738086 AGATCAAAAATGGAATTTTTGGAAGTTTTAGGGTCAAAATGTAATTTTTGGAAATTTTGGGGTTA
1 GGGT-AAAAATGGAATTTTTGAAAGTTTTAGGGTCAAAATGTAATTTTTGGAAATTTTGGGGTCA
*
9738151 AAAATTGAATTTATGGAAGTCTGG
65 AAAATTGAATTTTTGGAA-TCTGG
* * * * * * *
9738175 GGGTAAAAATGTATTTTTTGAAAGTTTTGGGGTTAAAATTGGAATTTTTAG-AAGTTTGTGGGT-
1 GGGTAAAAATGGAATTTTTGAAAGTTTTAGGGTCAAAA-TGTAATTTTTGGAAATTTTG-GGGTC
9738238 -AAAATAT-AATTTTTGGAA
64 AAAAAT-TGAATTTTTGGAA
9738256 AGTGTAGGGA
Statistics
Matches: 208, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
86 36 0.17
87 47 0.23
88 107 0.51
89 18 0.09
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (87 bp):
GGGTAAAAATGGAATTTTTGAAAGTTTTAGGGTCAAAATGTAATTTTTGGAAATTTTGGGGTCAA
AAATTGAATTTTTGGAATCTGG
Found at i:9738867 original size:24 final size:24
Alignment explanation
Indices: 9738840--9738886 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
9738830 TTTTTTTCCA
*
9738840 TTTCTCTT-TTTTCTTTTAAAAACC
1 TTTCCCTTCTTTT-TTTTAAAAACC
9738864 TTTCCCTTCCTTTTTTTTAAAAA
1 TTTCCCTT-CTTTTTTTTAAAAA
9738887 AAATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 9 0.45
26 4 0.20
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTCCCTTCTTTTTTTTAAAAACC
Found at i:9739232 original size:16 final size:15
Alignment explanation
Indices: 9739189--9739235 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
9739179 AATACTCTAT
*
9739189 TAATATTATTTAATAC
1 TAATATTA-TTATTAC
9739205 TAATATTTATTATTAC
1 TAATA-TTATTATTAC
9739221 TAATTATTATTATTA
1 TAA-TATTATTATTA
9739236 TTATAACAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATATTATTATTAC
Found at i:9739934 original size:11 final size:11
Alignment explanation
Indices: 9739901--9739966 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
9739891 AATATTACAT
9739901 TTAAA-TTAAA
1 TTAAATTTAAA
*
9739911 TTCAAACTTAAA
1 TT-AAATTTAAA
9739923 TTAAATTTAAA
1 TTAAATTTAAA
*** *
9739934 TTAAAAACATAT
1 TTAAATTTA-AA
9739946 TTAAATTTAAA
1 TTAAATTTAAA
9739957 TTAAATTTAA
1 TTAAATTTAA
9739967 TTTCAAAGCA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
10 2 0.05
11 28 0.64
12 14 0.32
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:9739949 original size:28 final size:28
Alignment explanation
Indices: 9739894--9739963 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
9739884 TTACAATAAT
* **
9739894 ATTACATTTAAATTAAATTCAAACTTAA
1 ATTAAATTTAAATTAAAAACAAACTTAA
* *
9739922 ATTAAATTTAAATTAAAAACATATTTAA
1 ATTAAATTTAAATTAAAAACAAACTTAA
9739950 ATTTAAA-TTAAATT
1 A-TTAAATTTAAATT
9739964 TAATTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (28 bp):
ATTAAATTTAAATTAAAAACAAACTTAA
Found at i:9739956 original size:34 final size:34
Alignment explanation
Indices: 9739908--9739984 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
9739898 CATTTAAATT
* *
9739908 AAATTCAAACTTAAATTAAATTTAAATTAAAAAC
1 AAATTTAAATTTAAATTAAATTTAAATTAAAAAC
* * * *
9739942 ATATTTAAATTTAAATTAAATTTAATTTCAAAGC
1 AAATTTAAATTTAAATTAAATTTAAATTAAAAAC
9739976 AAATTTAAA
1 AAATTTAAA
9739985 ATGGTTAGGG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (34 bp):
AAATTTAAATTTAAATTAAATTTAAATTAAAAAC
Found at i:9739964 original size:17 final size:17
Alignment explanation
Indices: 9739878--9739984 Score: 85
Period size: 17 Copynumber: 6.3 Consensus size: 17
9739868 TAAATGGACA
9739878 TTAAATTTACAA-T-AAT
1 TTAAATTTA-AATTAAAT
*
9739894 ATTACATTTAAATTAAAT
1 -TTAAATTTAAATTAAAT
* *
9739912 TCAAACTTAAATTAAAT
1 TTAAATTTAAATTAAAT
* ** *
9739929 TTAAATTAAAAACATAT
1 TTAAATTTAAATTAAAT
9739946 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
**
9739963 TT-AATTTCAAAGCAAAT
1 TTAAATTT-AAATTAAAT
9739980 TTAAA
1 TTAAA
9739985 ATGGTTAGGG
Statistics
Matches: 70, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
16 7 0.10
17 58 0.83
18 5 0.07
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:9739969 original size:5 final size:6
Alignment explanation
Indices: 9739899--9739966 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
9739889 ATAATATTAC
* * *** *
9739899 ATTTAA A-TTAA ATTCAA ACTTAA A-TTAA ATTTAA A-TTAA AAACAT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
9739944 ATTTAA ATTTAA A-TTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA
9739967 TTTCAAAGCA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
5 20 0.42
6 28 0.58
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (6 bp):
ATTTAA
Found at i:9740667 original size:206 final size:206
Alignment explanation
Indices: 9740313--9740698 Score: 664
Period size: 206 Copynumber: 1.9 Consensus size: 206
9740303 TCATTAACTC
* * *
9740313 GGTCTTCTTCTTAGTATCTCATCAAGAAGATGACCGCATCACTTATTTTGATTCACTTCTCTGTG
1 GGTCTTCTTCTCAGTATCTCATCAAGAAGACGACCGCATCACTTATTTTGATCCACTTCTCTGTG
*
9740378 TTTCATCAAGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTTATTG
66 TTTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTTATTG
*
9740443 CTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCATATCGAGCGT
131 CTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCATATCGAGCGT
9740508 GAGTTTGATTT
196 GAGTTTGATTT
* * * *
9740519 GGTCTTCTTCTCAGTATCTCATCAGGAAGACGACTGCATCACTTGTTTTGATCCACTTCTGTGTG
1 GGTCTTCTTCTCAGTATCTCATCAAGAAGACGACCGCATCACTTATTTTGATCCACTTCTCTGTG
* *
9740584 TTTCATTAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTTATTG
66 TTTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTTATTG
*
9740649 CTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTT
131 CTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTT
9740699 ACTCGCATTG
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
206 168 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (206 bp):
GGTCTTCTTCTCAGTATCTCATCAAGAAGACGACCGCATCACTTATTTTGATCCACTTCTCTGTG
TTTCATCAAGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTTATTG
CTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCATATCGAGCGT
GAGTTTGATTT
Found at i:9752795 original size:58 final size:58
Alignment explanation
Indices: 9752733--9752844 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
9752723 GCAAAATGGT
* *
9752733 AATTTT-AAACTCTTGGGGGCAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATAA
1 AATTTTGAAACTCTAGGGGGAAAAAT-GTAATTTTTGAAAGTTTCGAGGTCAAAAATAA
* ** * *
9752791 AATTTTGGATGTCTAGGGGTAAAAATGTAATTTTTGAAAGTTTCGGGGTCAAAA
1 AATTTTGAAACTCTAGGGGGAAAAATGTAATTTTTGAAAGTTTCGAGGTCAAAA
9752845 TTGGAATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 33 0.72
59 13 0.28
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (58 bp):
AATTTTGAAACTCTAGGGGGAAAAATGTAATTTTTGAAAGTTTCGAGGTCAAAAATAA
Found at i:9752825 original size:29 final size:30
Alignment explanation
Indices: 9752753--9752860 Score: 85
Period size: 29 Copynumber: 3.6 Consensus size: 30
9752743 TCTTGGGGGC
* * * *
9752753 AAAATGGTAATTTTTGAAAGTTTCGAGGTCA
1 AAAATGG-AATTTTTGGAAGTCTAGGGGTCA
* * *
9752784 AAAAT-AAAATTTTGGATGTCTAGGGGT-A
1 AAAATGGAATTTTTGGAAGTCTAGGGGTCA
* * * *
9752812 AAAATGTAATTTTTGAAAGTTTCGGGGTCA
1 AAAATGGAATTTTTGGAAGTCTAGGGGTCA
*
9752842 AAATTGGAATTTTTGGAAG
1 AAAATGGAATTTTTGGAAG
9752861 CGAGGTTAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 6 0.10
29 31 0.53
30 17 0.29
31 5 0.08
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAGTCTAGGGGTCA
Found at i:9753643 original size:29 final size:28
Alignment explanation
Indices: 9753611--9753665 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
9753601 TTTCTTTCTT
* * *
9753611 TTTCATTTCTCTTTTTTCTTTTAAAAACC
1 TTTCACTTCCCTTTTTT-TTTAAAAAACC
*
9753640 TTTCCCTTCCCTTTTTTTTTAAAAAA
1 TTTCACTTCCCTTTTTTTTTAAAAAA
9753666 ATATTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 8 0.36
29 14 0.64
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTCACTTCCCTTTTTTTTTAAAAAACC
Found at i:9754700 original size:28 final size:28
Alignment explanation
Indices: 9754652--9754708 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
9754642 ATAATAATAT
*
9754652 TAAATTTAAATTAAATTCAAACTTAAAA
1 TAAATTTAAATTAAATGCAAACTTAAAA
* *
9754680 TAAATTTAATTTCAAA-GCAAATTTAAAA
1 TAAATTTAAATT-AAATGCAAACTTAAAA
9754708 T
1 T
9754709 GGTTTGGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (28 bp):
TAAATTTAAATTAAATGCAAACTTAAAA
Found at i:9762409 original size:23 final size:23
Alignment explanation
Indices: 9762383--9762472 Score: 96
Period size: 23 Copynumber: 4.0 Consensus size: 23
9762373 GCGCTTATTG
* *
9762383 TTTCGCACTTTGTGTGCTTACTA
1 TTTCGCACTTCGTGTGCCTACTA
* *
9762406 TTTCGCACTTCGTGTGCTTACTG
1 TTTCGCACTTCGTGTGCCTACTA
*
9762429 TTTCGCACCTCGTGTGCCTACTGA
1 TTTCGCACTTCGTGTGCCTACT-A
9762453 -TT-GCACTGT-GTGTGCCTACT
1 TTTCGCACT-TCGTGTGCCTACT
9762473 GGATTGCACT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
22 15 0.25
23 44 0.75
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.41
Consensus pattern (23 bp):
TTTCGCACTTCGTGTGCCTACTA
Found at i:9762444 original size:46 final size:45
Alignment explanation
Indices: 9762375--9762498 Score: 114
Period size: 46 Copynumber: 2.8 Consensus size: 45
9762365 ACGCTAGCGC
* *
9762375 GCTTATTGTTTCGCACTTTGTGTGCTTACTATTTCGCACT-TCGTGT
1 GCTTACTGTTTCGCAC-CTGTGTGCTTACTATTTCGCACTGT-GTGT
*
9762421 GCTTACTGTTTCGCACCTCGTGTGCCTACTGA-TT-GCACTGTGTGT
1 GCTTACTGTTTCGCACCT-GTGTGCTTACT-ATTTCGCACTGTGTGT
* * *
9762466 GCCTACTGGATT-GCA-CTGTGTGCTTACTGTTTC
1 GCTTACT-GTTTCGCACCTGTGTGCTTACTATTTC
9762499 CCCAACACTT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
43 12 0.18
44 2 0.03
45 19 0.29
46 31 0.48
47 1 0.02
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.42
Consensus pattern (45 bp):
GCTTACTGTTTCGCACCTGTGTGCTTACTATTTCGCACTGTGTGT
Found at i:9762465 original size:22 final size:23
Alignment explanation
Indices: 9762440--9762487 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
9762430 TTCGCACCTC
9762440 GTGTGCCTACT-GATTGCACTGT
1 GTGTGCCTACTGGATTGCACTGT
9762462 GTGTGCCTACTGGATTGCACTGT
1 GTGTGCCTACTGGATTGCACTGT
9762485 GTG
1 GTG
9762488 CTTACTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.12, C:0.21, G:0.31, T:0.35
Consensus pattern (23 bp):
GTGTGCCTACTGGATTGCACTGT
Found at i:9768555 original size:7 final size:7
Alignment explanation
Indices: 9768543--9768568 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9768533 AACTATTGAA
9768543 TTATAGC
1 TTATAGC
9768550 TTATAGC
1 TTATAGC
9768557 TTATAGC
1 TTATAGC
9768564 TTATA
1 TTATA
9768569 TGTGTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (7 bp):
TTATAGC
Found at i:9769570 original size:23 final size:23
Alignment explanation
Indices: 9769540--9769585 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9769530 AGGCTAGCGC
* *
9769540 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTGTTTAGCACCTCGTGT
9769563 GCTTACTGTTTAGCACCTCGTGT
1 GCTTACTGTTTAGCACCTCGTGT
9769586 ATTGATTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.41
Consensus pattern (23 bp):
GCTTACTGTTTAGCACCTCGTGT
Found at i:9769619 original size:23 final size:23
Alignment explanation
Indices: 9769589--9769634 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9769579 CTCGTGTATT
9769589 GATTGCACTGTGTGTGCCTACTG
1 GATTGCACTGTGTGTGCCTACTG
*
9769612 GATTGCACTGTGTGTGCTTACTG
1 GATTGCACTGTGTGTGCCTACTG
9769635 TTTCCCCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.13, C:0.20, G:0.30, T:0.37
Consensus pattern (23 bp):
GATTGCACTGTGTGTGCCTACTG
Found at i:9780277 original size:21 final size:21
Alignment explanation
Indices: 9780251--9780305 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
9780241 GTGTTAGCTT
9780251 TACCGATACAAGTATGATTTC
1 TACCGATACAAGTATGATTTC
9780272 TACCGATACAAGTATGATTTC
1 TACCGATACAAGTATGATTTC
9780293 TACC-ATTACAAGT
1 TACCGA-TACAAGT
9780306 CATGCATCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (21 bp):
TACCGATACAAGTATGATTTC
Found at i:9792478 original size:15 final size:15
Alignment explanation
Indices: 9792458--9792489 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9792448 GTTTTCCAAG
9792458 TTGTTTTCTTCAATA
1 TTGTTTTCTTCAATA
9792473 TTGTTTTCTTCAATA
1 TTGTTTTCTTCAATA
9792488 TT
1 TT
9792490 ATATGACGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (15 bp):
TTGTTTTCTTCAATA
Found at i:9798745 original size:3 final size:3
Alignment explanation
Indices: 9798737--9798767 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9798727 TTACATCCCA
9798737 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9798768 GAATAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9799846 original size:20 final size:20
Alignment explanation
Indices: 9799821--9799937 Score: 94
Period size: 20 Copynumber: 5.8 Consensus size: 20
9799811 AAAAAAAGTT
9799821 AACGGTCAAAGTCAACGGTC
1 AACGGTCAAAGTCAACGGTC
9799841 AACGGTCAAAGTCAACGGTC
1 AACGGTCAAAGTCAACGGTC
** * *
9799861 AGTGGTCAACGGTCAA-AGTC
1 AACGGTCAA-AGTCAACGGTC
** **
9799881 AACGGTCAGTGGTCAACGACC
1 AACGGTCA-AAGTCAACGGTC
* *
9799902 AA-AGTCAACGATCAACGGTC
1 AACGGTCAAAG-TCAACGGTC
*
9799922 AACAGTCAAAGTCAAC
1 AACGGTCAAAGTCAAC
9799938 AGTCGGTCAA
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
19 1 0.01
20 60 0.79
21 15 0.20
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (20 bp):
AACGGTCAAAGTCAACGGTC
Found at i:9799867 original size:27 final size:27
Alignment explanation
Indices: 9799837--9799937 Score: 148
Period size: 27 Copynumber: 3.7 Consensus size: 27
9799827 CAAAGTCAAC
9799837 GGTCAACGGTCAAAGTCAACGGTCAGT
1 GGTCAACGGTCAAAGTCAACGGTCAGT
9799864 GGTCAACGGTCAAAGTCAACGGTCAGT
1 GGTCAACGGTCAAAGTCAACGGTCAGT
** * **
9799891 GGTCAACGACCAAAGTCAACGATCAAC
1 GGTCAACGGTCAAAGTCAACGGTCAGT
*
9799918 GGTCAACAGTCAAAGTCAAC
1 GGTCAACGGTCAAAGTCAAC
9799938 AGTCGGTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.16
Consensus pattern (27 bp):
GGTCAACGGTCAAAGTCAACGGTCAGT
Found at i:9799941 original size:7 final size:7
Alignment explanation
Indices: 9799821--9799930 Score: 84
Period size: 7 Copynumber: 16.3 Consensus size: 7
9799811 AAAAAAAGTT
9799821 AACGGTC
1 AACGGTC
*
9799828 AA-AGTC
1 AACGGTC
9799834 AACGGTC
1 AACGGTC
9799841 AACGGTC
1 AACGGTC
*
9799848 AA-AGTC
1 AACGGTC
9799854 AACGGTC
1 AACGGTC
**
9799861 AGTGGTC
1 AACGGTC
9799868 AACGGTC
1 AACGGTC
*
9799875 AA-AGTC
1 AACGGTC
9799881 AACGGTC
1 AACGGTC
**
9799888 AGTGGTC
1 AACGGTC
**
9799895 AACGACC
1 AACGGTC
*
9799902 AA-AGTC
1 AACGGTC
*
9799908 AACGATC
1 AACGGTC
9799915 AACGGTC
1 AACGGTC
*
9799922 AACAGTC
1 AACGGTC
9799929 AA
1 AA
9799931 AGTCAACAGT
Statistics
Matches: 76, Mismatches: 23, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
6 18 0.24
7 58 0.76
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (7 bp):
AACGGTC
Found at i:9799948 original size:11 final size:11
Alignment explanation
Indices: 9799917--9799970 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
9799907 CAACGATCAA
9799917 CGGTCAACAGT
1 CGGTCAACAGT
*
9799928 CAAAGTCAACAGT
1 C--GGTCAACAGT
9799941 CGGTCAAC-GAT
1 CGGTCAACAG-T
*
9799952 CGGTCAACGGT
1 CGGTCAACAGT
9799963 CGGTCAAC
1 CGGTCAAC
9799971 GCCGGTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 1 0.03
11 25 0.68
12 1 0.03
13 10 0.27
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.17
Consensus pattern (11 bp):
CGGTCAACAGT
Found at i:9799971 original size:11 final size:11
Alignment explanation
Indices: 9799932--9799971 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
9799922 AACAGTCAAA
*
9799932 GTCAACAGTCG
1 GTCAACGGTCG
*
9799943 GTCAACGATCG
1 GTCAACGGTCG
9799954 GTCAACGGTCG
1 GTCAACGGTCG
9799965 GTCAACG
1 GTCAACG
9799972 CCGGTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (11 bp):
GTCAACGGTCG
Found at i:9800024 original size:14 final size:15
Alignment explanation
Indices: 9800005--9800039 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9799995 TGGGTTGGAC
*
9800005 TTGGTTC-AATTGGT
1 TTGGTTCAAATGGGT
9800019 TTGGTTCAAATGGGT
1 TTGGTTCAAATGGGT
9800034 TTGGTT
1 TTGGTT
9800040 AGGTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.31, T:0.49
Consensus pattern (15 bp):
TTGGTTCAAATGGGT
Found at i:9800037 original size:20 final size:20
Alignment explanation
Indices: 9800014--9800060 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9800004 CTTGGTTCAA
9800014 TTGGTTTGGTTCAAATGGGT
1 TTGGTTTGGTTCAAATGGGT
* *
9800034 TTGGTTAGGTTTAAATGGGT
1 TTGGTTTGGTTCAAATGGGT
9800054 TTGGTTT
1 TTGGTTT
9800061 AAATGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.34, T:0.49
Consensus pattern (20 bp):
TTGGTTTGGTTCAAATGGGT
Found at i:9800054 original size:15 final size:15
Alignment explanation
Indices: 9800036--9800065 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9800026 AAATGGGTTT
9800036 GGTTAGGTTTAAATG
1 GGTTAGGTTTAAATG
*
9800051 GGTTTGGTTTAAATG
1 GGTTAGGTTTAAATG
9800066 AATTTGGGTT
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:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
GGTTAGGTTTAAATG
Found at i:9800075 original size:21 final size:21
Alignment explanation
Indices: 9800049--9800116 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
9800039 TAGGTTTAAA
9800049 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
9800070 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
*
9800091 TGGGTTTGGTTTAAATGGGATT
1 TGGGTTTGGTTTAAAT-GAATT
9800113 TGGG
1 TGGG
9800117 CTTGATGGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 37 0.82
22 8 0.18
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.46
Consensus pattern (21 bp):
TGGGTTTGGTTTAAATGAATT
Found at i:9806034 original size:3 final size:3
Alignment explanation
Indices: 9806026--9806061 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
9806016 TACATCCCAA
9806026 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9806062 GAATAGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.