Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 147 of 196
Found at i:43627302 original size:9 final size:10
Alignment explanation
Indices: 43627251--43627302 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
43627241 TAGGGTTTTC
43627251 GAAAGAAGAA
1 GAAAGAAGAA
* *
43627261 AAAAGTAGAA
1 GAAAGAAGAA
*
43627271 GGAAGAAGAA
1 GAAAGAAGAA
43627281 G-AAGAAGAA
1 GAAAGAAGAA
43627290 GAAAGAA-AA
1 GAAAGAAGAA
43627299 GAAA
1 GAAA
43627303 AAAAAGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 15 0.42
10 21 0.58
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:43627662 original size:17 final size:17
Alignment explanation
Indices: 43627635--43627685 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 17
43627625 CGGCAGCAGC
43627635 AAAAGAAAAA-GAGAAAAG
1 AAAA-AAAAAGGA-AAAAG
43627653 AAAAAAAAAGGAAAAAG
1 AAAAAAAAAGGAAAAAG
43627670 AAAAAGAAAAAGGAAA
1 -AAAA-AAAAAGGAAA
43627686 GGCCCAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.33
18 10 0.33
19 10 0.33
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGGAAAAAG
Found at i:43627685 original size:7 final size:6
Alignment explanation
Indices: 43627635--43627681 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
43627625 CGGCAGCAGC
*
43627635 AAAAGA AAAAGA GAAAAGA AAAA-A AAAGGA AAAAGA AAAAGA AAAAG
1 AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG
43627682 GAAAGGCCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.73
7 6 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:43627686 original size:17 final size:18
Alignment explanation
Indices: 43627635--43627686 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
43627625 CGGCAGCAGC
43627635 AAAAGAAAAAGAGAAA-AG
1 AAAAGAAAAAG-GAAAGAG
*
43627653 AAAA-AAAAAGGAAAAAG
1 AAAAGAAAAAGGAAAGAG
43627670 AAAAAGAAAAAGGAAAG
1 -AAAAGAAAAAGGAAAG
43627687 GCCCAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.13
17 8 0.27
18 8 0.27
19 10 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGGAAAGAG
Found at i:43627687 original size:24 final size:24
Alignment explanation
Indices: 43627635--43627680 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
43627625 CGGCAGCAGC
43627635 AAAA-GAAAAAGAGAAAAGAAAAA
1 AAAAGGAAAAAGAGAAAAGAAAAA
43627658 AAAAGGAAAAAGA-AAAAGAAAAA
1 AAAAGGAAAAAGAGAAAAGAAAAA
43627681 GGAAAGGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (24 bp):
AAAAGGAAAAAGAGAAAAGAAAAA
Found at i:43628207 original size:18 final size:20
Alignment explanation
Indices: 43628179--43628217 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
43628169 GTTTCCAAAA
43628179 TTTCGGTA-TTTAAAAAATT
1 TTTCGGTATTTTAAAAAATT
*
43628198 TTTC-GTATTTTTAAAAATT
1 TTTCGGTATTTTAAAAAATT
43628217 T
1 T
43628218 CCGTGTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTCGGTATTTTAAAAAATT
Found at i:43628231 original size:18 final size:17
Alignment explanation
Indices: 43628140--43628319 Score: 120
Period size: 17 Copynumber: 10.4 Consensus size: 17
43628130 AAAAAAATCA
*
43628140 AAAAAAATTCGTGTTTC
1 AAAAAATTTCGTGTTTC
*
43628157 -AAAAATCTTTGTGTTTC
1 AAAAAAT-TTCGTGTTTC
* *
43628174 -CAAAATTTCG-GTATTT
1 AAAAAATTTCGTGT-TTC
* *
43628190 AAAAAATTTTTCGTATTTT
1 AAAAAA--TTTCGTGTTTC
*
43628209 TAAAAATTTCCGTGTTTC
1 AAAAAATTT-CGTGTTTC
*
43628227 AAAAAAAATT-GTGTTTTC
1 -AAAAAATTTCGTG-TTTC
* *
43628245 AACAATTTTCGTGTTT-
1 AAAAAATTTCGTGTTTC
43628261 AAAAAA-TTCGTGTTTC
1 AAAAAATTTCGTGTTTC
43628277 AAAAAAATTCTCGTGTTTC
1 -AAAAAATT-TCGTGTTTC
* *
43628296 ATAAATTTTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
43628314 AAAAAA
1 AAAAAA
43628320 AAATTTCCCG
Statistics
Matches: 127, Mismatches: 21, Indels: 29
0.72 0.12 0.16
Matches are distributed among these distances:
15 11 0.09
16 14 0.11
17 44 0.35
18 28 0.22
19 29 0.23
20 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:43628296 original size:51 final size:51
Alignment explanation
Indices: 43628207--43628311 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
43628197 TTTTCGTATT
*
43628207 TTTAAAAATTTCCGTGTTTCAAAAAAAATTGTGTTTTCA-ACAATTTTCGTG
1 TTTAAAAAATTCCGTGTTTCAAAAAAAATTGTGTTTTCATA-AATTTTCGTG
*
43628258 TTTAAAAAATT-CGTGTTTC-AAAAAAATTCTCGTGTTTCATAAATTTTCGTG
1 TTTAAAAAATTCCGTGTTTCAAAAAAAATTGT-GT-TTTCATAAATTTTCGTG
43628309 TTT
1 TTT
43628312 TCAAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
49 10 0.20
50 10 0.20
51 28 0.57
52 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (51 bp):
TTTAAAAAATTCCGTGTTTCAAAAAAAATTGTGTTTTCATAAATTTTCGTG
Found at i:43628342 original size:40 final size:38
Alignment explanation
Indices: 43628277--43628356 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 38
43628267 TTCGTGTTTC
* *
43628277 AAAAAAATTCTCGTGTTTCATAAATTTTCGTGTTTTCAA
1 AAAAAAATTCCCGTGCTTCATAAA-TTTCGTGTTTTCAA
43628316 AAAAAAATTTCCCGTGCTTCGA-AAATTTCGTGTTTTCAA
1 AAAAAAA-TTCCCGTGCTTC-ATAAATTTCGTGTTTTCAA
43628355 AA
1 AA
43628357 GTTTTTGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 23 0.62
40 13 0.35
41 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (38 bp):
AAAAAAATTCCCGTGCTTCATAAATTTCGTGTTTTCAA
Found at i:43628345 original size:39 final size:37
Alignment explanation
Indices: 43628262--43628356 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 37
43628252 TTCGTGTTTA
* * *
43628262 AAAAATTCGTG-TTTC--AAAAAAATTCTCGTGTTTC
1 AAAATTTCGTGTTTTCAAAAAAAAATTCCCGTGCTTC
43628296 ATAAATTTTCGTGTTTTCAAAAAAAAATTTCCCGTGCTTC
1 A-AAA-TTTCGTGTTTTCAAAAAAAAA-TTCCCGTGCTTC
43628336 GAAAATTTCGTGTTTTCAAAA
1 -AAAATTTCGTGTTTTCAAAA
43628357 GTTTTTGTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
34 1 0.02
35 3 0.06
36 6 0.12
37 4 0.08
39 23 0.45
40 13 0.25
41 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (37 bp):
AAAATTTCGTGTTTTCAAAAAAAAATTCCCGTGCTTC
Found at i:43638304 original size:114 final size:114
Alignment explanation
Indices: 43638070--43639002 Score: 927
Period size: 114 Copynumber: 8.2 Consensus size: 114
43638060 CGATTCTAAT
* * * ** ** *
43638070 AAAACGCCGCTATAGAATATCATTAGCGGCGTTTACCACACAGCGCCGCAAAAT-ATC-AAGACC
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGA-AGCGCCGC-AAATCATCTTA-ACC
* * * * * * * *
43638133 AACACGCAGCGTTCTGGTCTTGATGTA-TATTGGCATTTGTGGCGCTT-ACGAA
63 AAAACGCAGAGTTTTGGTCTTGA-GGAGTATTAGAATTAGTGGCGCTTGA-TAA
* * * * * * *
43638185 AAAACGCCGGTAATGTATAGT-ATTAGCGGCGCTTATGGGAAGCGCCGCAAA-CGATGTTAACCA
1 AAAACGCCGCTAAAGTATA-TCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATC-ATCTTAACCA
*
43638248 AAACGCAGAG-TTTGGTCTTGATGTA-TATT-GCAATTAGTGGCGCTT-ATAAA
64 AAACGCAGAGTTTTGGTCTTGA-GGAGTATTAG-AATTAGTGGCGCTTGAT-AA
* * * * ** * *
43638298 TAAAACGCCGCTAATGTATAGT-ATTAGCGGCGCATAG-CATTAAACGCCGCAAGAT-ATCCTAA
1 -AAAACGCCGCTAAAGTATA-TCATCAGCGGCG-TTTGTC-GGAAGCGCCGCAA-ATCATCTTAA
* *** * * *
43638360 TCAAAACGCTCCGTTTTGGTCTTGATGTA-TACTATAATTAGTGGCG-TT--TAA
61 CCAAAACGCAGAGTTTTGGTCTTGA-GGAGTATTAGAATTAGTGGCGCTTGATAA
* * ** * *
43638411 GGAAAACGCCAG-TAAAGGATAGTTAT-AGTAGCGTTTGGTGGGAAGCGCCTCCAAAT-ATCTTA
1 --AAAACGCC-GCTAAAGTATA-TCATCAGCGGCGTTT-GTCGGAAGCGCC-GCAAATCATCTTA
*
43638473 ACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATAA
60 ACCAAAACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
* * *
43638528 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTTTCGGATGCGCCGCAAATCATCTTACCCAAA
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAAA
* * *
43638593 ACGCAGAGTTTTGGTCTTTAGAAGTATTAGAATTAGTGGCGCTTGATTA
66 ACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
*
43638642 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTTTC-GAATGCGCCGCAAATCATCTTAACCAA
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAA-GCGCCGCAAATCATCTTAACCAA
*
43638706 AACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATAA
65 AACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
* * *
43638756 AAAACGCCGCTAAAGTATATCATCGGCGGCGTTTGTCGGATGCACCGCAAATCATCTTAACCAAA
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAAA
* * *
43638821 ACGTAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATTA
66 ACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
*
43638870 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCGCAAATCATCTTAACCAAA
1 AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAAA
* * *
43638935 ACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGTTTGATTA
66 ACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
*
43638984 AAAACGCCGCTGAAGTATA
1 AAAACGCCGCTAAAGTATA
43639003 GTATTAGCGG
Statistics
Matches: 710, Mismatches: 80, Indels: 57
0.84 0.09 0.07
Matches are distributed among these distances:
112 1 0.00
113 48 0.07
114 536 0.75
115 91 0.13
116 31 0.04
117 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (114 bp):
AAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAAA
ACGCAGAGTTTTGGTCTTGAGGAGTATTAGAATTAGTGGCGCTTGATAA
Found at i:43639014 original size:114 final size:114
Alignment explanation
Indices: 43638462--43639002 Score: 958
Period size: 114 Copynumber: 4.8 Consensus size: 114
43638452 GAAGCGCCTC
43638462 CAAAT-ATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
*
43638526 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTTTCGGATGCGCCG
66 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
* *
43638575 CAAATCATCTTACCCAAAACGCAGAGTTTTGGTCTTTAGAAGTATTAGAATTAGTGGCGCTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
* * *
43638640 TAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTTTCGAATGCGCCG
66 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
43638689 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
* *
43638754 AAAAAACGCCGCTAAAGTATATCATCGGCGGCGTTTGTCGGATGCACCG
66 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
*
43638803 CAAATCATCTTAACCAAAACGTAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
*
43638868 TAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
66 AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
*
43638917 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGTTTGAT
1 CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
* *
43638982 TAAAAACGCCGCTGAAGTATA
66 AAAAAACGCCGCTAAAGTATA
43639003 GTATTAGCGG
Statistics
Matches: 409, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
113 5 0.01
114 404 0.99
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (114 bp):
CAAATCATCTTAACCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGAT
AAAAAACGCCGCTAAAGTATATCATCAGCGGCGTTTGTCGGATGCGCCG
Found at i:43639141 original size:18 final size:18
Alignment explanation
Indices: 43639120--43639155 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
43639110 TCATTTTATA
43639120 TGTTT-TTTATATTTAATT
1 TGTTTATTTATA-TTAATT
43639138 TGTTTATTTATATTAATT
1 TGTTTATTTATATTAATT
43639156 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTATTTATATTAATT
Found at i:43640086 original size:7 final size:7
Alignment explanation
Indices: 43640065--43640144 Score: 106
Period size: 7 Copynumber: 11.3 Consensus size: 7
43640055 TTTATTGCTC
43640065 GGGGTTTT
1 GGGG-TTT
43640073 GGGGTTT
1 GGGGTTT
*
43640080 AGGGTTT
1 GGGGTTT
*
43640087 GGGATTT
1 GGGGTTT
43640094 GGGGTTT
1 GGGGTTT
*
43640101 AGGGTTT
1 GGGGTTT
43640108 GGGGTTT
1 GGGGTTT
43640115 GGGGTTT
1 GGGGTTT
43640122 GGGGTTT
1 GGGGTTT
*
43640129 GAGGTTT
1 GGGGTTT
*
43640136 GGGGATT
1 GGGGTTT
43640143 GG
1 GG
43640145 TTTTTGAGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
7 59 0.94
8 4 0.06
ACGTcount: A:0.06, C:0.00, G:0.53, T:0.41
Consensus pattern (7 bp):
GGGGTTT
Found at i:43640144 original size:21 final size:21
Alignment explanation
Indices: 43640070--43640156 Score: 106
Period size: 21 Copynumber: 4.1 Consensus size: 21
43640060 TGCTCGGGGT
43640070 TTTGGGGTTTAGGGTTTG-GG
1 TTTGGGGTTTAGGGTTTGAGG
*
43640090 ATTTGGGGTTTAGGGTTTGGGG
1 -TTTGGGGTTTAGGGTTTGAGG
*
43640112 TTTGGGGTTTGGGGTTTGAGG
1 TTTGGGGTTTAGGGTTTGAGG
* *
43640133 TTTGGGGATT-GGTTTTTGAGG
1 TTTGGGGTTTAGG-GTTTGAGG
43640154 TTT
1 TTT
43640157 AAGGATTAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.03
21 56 0.93
22 2 0.03
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.46
Consensus pattern (21 bp):
TTTGGGGTTTAGGGTTTGAGG
Found at i:43641761 original size:16 final size:16
Alignment explanation
Indices: 43641740--43641776 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
43641730 GTATTTAGGG
*
43641740 TTTATCGATTTGCAAT
1 TTTATCGATTTACAAT
43641756 TTTATCGATTTACAAT
1 TTTATCGATTTACAAT
43641772 TTTAT
1 TTTAT
43641777 TTCAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (16 bp):
TTTATCGATTTACAAT
Found at i:43641913 original size:67 final size:67
Alignment explanation
Indices: 43641836--43641974 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
43641826 ATTAATTGAT
*
43641836 TGAATGTCAATGAATTATCAATTTTGGTTA-TGTAATTGATTGAATGTTTTATAAATTCATTATA
1 TGAATGTCAATGAATTATCAATTTTGGTTAGT-TAATTGATTGAATGTTTAATAAATTCATTATA
43641900 TAA
65 TAA
43641903 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
43641968 AA
66 AA
43641970 TGAAT
1 TGAAT
43641975 TCTCAACAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
AA
Found at i:43642192 original size:76 final size:76
Alignment explanation
Indices: 43642098--43642555 Score: 877
Period size: 76 Copynumber: 6.1 Consensus size: 76
43642088 ATTTCATTTA
43642098 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
43642163 TATTTTACATG
66 TATTTTACATG
43642174 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
43642239 TATTTTACATG
66 TATTTTACATG
43642250 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
43642315 TATTTTACATG
66 TATTTTACATG
43642326 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
*
43642391 TATTTTACACG
66 TATTTTACATG
43642402 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
43642467 TATTTTACATG
66 TATTTTACATG
43642478 ACTTATTAAT--ATAT-TATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
1 ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
*
43642540 CATTTTACATG
66 TATTTTACATG
43642551 ACTTA
1 ACTTA
43642556 CATTACTTAC
Statistics
Matches: 379, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
73 63 0.17
74 4 0.01
76 312 0.82
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (76 bp):
ACTTATTAATGAATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTATTAAGTA
TATTTTACATG
Found at i:43642664 original size:16 final size:16
Alignment explanation
Indices: 43642643--43642685 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
43642633 ACACTTATTA
43642643 AACTTACATAATACAT
1 AACTTACATAATACAT
43642659 AACTTACATAATACAT
1 AACTTACATAATACAT
* *
43642675 GACTTATATAA
1 AACTTACATAA
43642686 AATTCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:43642785 original size:9 final size:9
Alignment explanation
Indices: 43642726--43642933 Score: 130
Period size: 9 Copynumber: 23.8 Consensus size: 9
43642716 AGTTACATAT
*
43642726 TAACTTATA
1 TAACTTACA
43642735 TAAGCTTACA
1 TAA-CTTACA
*
43642745 TAA-TACACA
1 TAACT-TACA
*
43642754 TTACTTACA
1 TAACTTACA
* * *
43642763 TAGCATCCA
1 TAACTTACA
43642772 TAACTTACA
1 TAACTTACA
* *
43642781 CAACTTAAA
1 TAACTTACA
43642790 TAA--TACA
1 TAACTTACA
*
43642797 AAACTTACA
1 TAACTTACA
43642806 TAACTTACA
1 TAACTTACA
*
43642815 TAACCTACA
1 TAACTTACA
*
43642824 TAATACATA-A
1 T-A-ACTTACA
43642834 TAACTTAC-
1 TAACTTACA
43642842 -AACTTACA
1 TAACTTACA
*
43642850 TAACATACA
1 TAACTTACA
* **
43642859 TTACTTTGA
1 TAACTTACA
*
43642868 AAACTTACA
1 TAACTTACA
43642877 TAACTTACA
1 TAACTTACA
43642886 T-AC-TACA
1 TAACTTACA
* *
43642893 CAACTTAAA
1 TAACTTACA
* *
43642902 TAGCTTACT
1 TAACTTACA
43642911 TAA--TACA
1 TAACTTACA
43642918 TAACTTACA
1 TAACTTACA
43642927 TAACTTA
1 TAACTTA
43642934 TACACGTACA
Statistics
Matches: 147, Mismatches: 38, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
7 22 0.15
8 9 0.06
9 100 0.68
10 12 0.08
11 4 0.03
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
TAACTTACA
Found at i:43642858 original size:62 final size:61
Alignment explanation
Indices: 43642771--43642892 Score: 138
Period size: 62 Copynumber: 2.0 Consensus size: 61
43642761 CATAGCATCC
*
43642771 ATAACTTACACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATACATA
1 ATAACTTA-ACAACTTAAATAATACAAAACTTACAAAACTTACATAACCTACATAATACATA
* ** ** * *
43642833 ATAACTT-ACAACTTACATAACATACATTACTTTGAAAACTTACATAACTTACATACTACA
1 ATAACTTAACAACTTAAAT-A-ATACAAAACTTACAAAACTTACATAACCTACATAATACA
43642893 CAACTTAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 10 0.20
61 1 0.02
62 39 0.78
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (61 bp):
ATAACTTAACAACTTAAATAATACAAAACTTACAAAACTTACATAACCTACATAATACATA
Found at i:43642908 original size:25 final size:25
Alignment explanation
Indices: 43642793--43642933 Score: 88
Period size: 25 Copynumber: 5.4 Consensus size: 25
43642783 ACTTAAATAA
* * *
43642793 TACAAAACTTACATAACTTACATAACC
1 TACATAACTTACATAA--TACACAACT
43642820 TACATAA--TACATAATAACTTACAACT
1 TACATAACTTACATAAT-AC--ACAACT
* * ** *
43642846 TACATAACATACATTACTTTGAAAACT
1 TACATAACTTACA-TA-ATACACAACT
*
43642873 TACATAACTTACATACTACACAACT
1 TACATAACTTACATAATACACAACT
* * * *
43642898 TAAATAGCTTACTTAATACATAACT
1 TACATAACTTACATAATACACAACT
43642923 TACATAACTTA
1 TACATAACTTA
43642934 TACACGTACA
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 42 0.48
26 13 0.15
27 23 0.26
28 4 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:43648494 original size:21 final size:21
Alignment explanation
Indices: 43648468--43648537 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
43648458 CAACAACTTA
* *
43648468 AAGCAGAGGCGACAGCGCGAG
1 AAGCAGAAGCGACAGCGAGAG
*
43648489 AAGCAGAAGCTACAGCGAGAG
1 AAGCAGAAGCGACAGCGAGAG
*
43648510 AAGCAGAAGCTG-CAGCAAGAG
1 AAGCAGAAGC-GACAGCGAGAG
43648531 AAGCAGA
1 AAGCAGA
43648538 GCAGGCCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.41, C:0.20, G:0.36, T:0.03
Consensus pattern (21 bp):
AAGCAGAAGCGACAGCGAGAG
Found at i:43649125 original size:42 final size:42
Alignment explanation
Indices: 43648899--43649183 Score: 394
Period size: 43 Copynumber: 6.7 Consensus size: 42
43648889 AAGAATAAAT
*
43648899 GCCGCTAAAAGAGCAT-TGTCTTTAGCGGCGTTTCTTTTCTAAGC
1 GCCGCT-AAAGAACATGT-TCTTTAGCGGCGTTTC-TTTCTAAGC
* *
43648943 GTCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTTTAAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCT-AAGC
* * *
43648986 GCCGCTAAAGAACATTTTCTTTAGTGGCGTTTCTTTTTAAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCT-AAGC
* *
43649029 ACCGCTAAAGAACATTTTCTTTAGCGGCGTTTCTTTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTC-TTTCTAAGC
*
43649072 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCGTTCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAGC
*
43649114 GCCGCTGAAGAACATGTTCTTTAGCGGCGTTT-TTTCCTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTT-CTAAGC
*
43649156 GCCGCTAAAGAACATGGTCTTTAGCGGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGC
43649184 ACTTTTATTT
Statistics
Matches: 221, Mismatches: 16, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
41 2 0.01
42 75 0.34
43 134 0.61
44 10 0.05
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAGC
Found at i:43653578 original size:89 final size:89
Alignment explanation
Indices: 43653371--43653600 Score: 277
Period size: 92 Copynumber: 2.6 Consensus size: 89
43653361 AAGCCCTTTT
* * *
43653371 TTTTTGTTTGCACTCAATTGGGTATTTGAACTTTCAAAATGCATCAAAAAAGCCCTCAAACTATT
1 TTTTT-TTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCAT-TAAAAAGCCCGCAAAC--TT
*
43653436 TTAAAAAAAAAAGCAATTAAGCCCCTAC
62 TTAAAAAAAAAAGCAATTAAGCCACTAC
* *
43653464 TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAGCTCGCAAGC-TTTAA
1 TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAGCCCGCAAACTTTTAA
* *
43653528 AAAATAAAA-CAATTAAGCCATTGAG
66 AAAA-AAAAGCAATTAAGCCACT-AC
* ** *
43653553 TTTTTTTGGCACTCAATTTAGTACTTGAACTGT-AAAATGCATTAAAAA
1 TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAA
43653601 TACTCTCTGA
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
88 35 0.28
89 34 0.28
91 12 0.10
92 37 0.30
93 5 0.04
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (89 bp):
TTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAAGCCCGCAAACTTTTAA
AAAAAAAAGCAATTAAGCCACTAC
Found at i:43654215 original size:77 final size:77
Alignment explanation
Indices: 43654088--43654240 Score: 279
Period size: 77 Copynumber: 2.0 Consensus size: 77
43654078 TTTAGAGGAG
*
43654088 TTTGAAAGTGTTTCAAATTAGAGGTGTTGAGAGATTTGGGGAGTAGAATTAGGGGTGTAGTAGTA
1 TTTGAAAGTGTTTCAAATTAGAGGTGTTGAGAGATTTGGGGAGTAGAATTAAGGGTGTAGTAGTA
43654153 GTTGGCTGAAAT
66 GTTGGCTGAAAT
* *
43654165 TTTGAAAGTGTTTCAAATTAGGGGTGTTGAGAGATTTGGGGAGTGGAATTAAGGGTGTAGTAGTA
1 TTTGAAAGTGTTTCAAATTAGAGGTGTTGAGAGATTTGGGGAGTAGAATTAAGGGTGTAGTAGTA
43654230 GTTGGCTGAAA
66 GTTGGCTGAAA
43654241 GTAGGTTTCC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.28, C:0.03, G:0.36, T:0.33
Consensus pattern (77 bp):
TTTGAAAGTGTTTCAAATTAGAGGTGTTGAGAGATTTGGGGAGTAGAATTAAGGGTGTAGTAGTA
GTTGGCTGAAAT
Found at i:43655623 original size:27 final size:27
Alignment explanation
Indices: 43655572--43656096 Score: 586
Period size: 27 Copynumber: 19.5 Consensus size: 27
43655562 AAAGGTTATT
* *
43655572 AAATGACCATAATGTCCCTTGTAGGGTA
1 AAATGACCGTAATG-CCCCTGTAGGGTA
* * * * *
43655600 AAATTATCGTAATACCCCTATAGGGAA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* **
43655627 AAATGACCGTAATACCCCCATAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * * * **
43655654 AAATAACCGTAATACTCCTATAGAATA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
43655681 AAATGACCGTAATACCCC-ATAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
43655707 AAATAACCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * ** * * *
43655734 AATTAATTGTAATACCTCTATAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * * *
43655761 AAATGATCGTAATACCCTTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
43655788 AAATGACCGTAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
43655815 AAATGACCGTAATGCCCCTGTAGGGT-
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
43655841 AAATGTCCGTAATGCCTCTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
43655868 AAATGACCGTAATGCCTCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
43655895 AAATAATCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
43655922 AAATGACCGTAATGCCCTTATAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
43655949 AAATGACCATAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
43655976 AAATGACCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
43656003 AAATGATCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
43656030 AAATGATCGTAATGCCCTTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
43656057 AAATGACCGTAATGCCCCTGTAAGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
43656084 AAATGATCGTAAT
1 AAATGACCGTAAT
43656097 ACCCTCGAGG
Statistics
Matches: 429, Mismatches: 66, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
26 45 0.10
27 374 0.87
28 10 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGGGTA
Found at i:43656161 original size:24 final size:24
Alignment explanation
Indices: 43656133--43656191 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
43656123 TCTACAGTTA
* *
43656133 AATGACTGATTTTTTTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
* *
43656157 TATGATTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
43656181 AATGACTGATT
1 AATGACTGATT
43656192 CTGAGCATGG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:43656345 original size:26 final size:26
Alignment explanation
Indices: 43656316--43656366 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
43656306 TATACTATAT
*
43656316 TGGCAGCTTTGCTGCGATACTACTGC
1 TGGCAACTTTGCTGCGATACTACTGC
* *
43656342 TGGCAACTTTGTTGCGATGCTACTG
1 TGGCAACTTTGCTGCGATACTACTG
43656367 ATGCCTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (26 bp):
TGGCAACTTTGCTGCGATACTACTGC
Found at i:43656407 original size:32 final size:31
Alignment explanation
Indices: 43656362--43656550 Score: 189
Period size: 32 Copynumber: 5.9 Consensus size: 31
43656352 GTTGCGATGC
* *
43656362 TACTGATGCCTTTGTGCCGATCATATTATCAT
1 TACTGATG-CTTTGTGCCGATCATATTACCGT
* *
43656394 CACTGATAGCTTTGTGCCAATCATATTACCGT
1 TACTGAT-GCTTTGTGCCGATCATATTACCGT
* *
43656426 TATTGATGATTTTGTGCCGATCATATTACCGT
1 TACTGATG-CTTTGTGCCGATCATATTACCGT
*
43656458 TACTGATGGCTTTGTACCGATCATATTACCGT
1 TACTGAT-GCTTTGTGCCGATCATATTACCGT
* * * * *
43656490 TATTGATGGCTGTGTGCCGATCATATCACTGC
1 TACTGAT-GCTTTGTGCCGATCATATTACCGT
* * *
43656522 TATTGATGGCTTTGTGCCAAACATATTAC
1 TACTGAT-GCTTTGTGCCGATCATATTAC
43656551 TGTACTTATG
Statistics
Matches: 133, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.01
32 130 0.98
33 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (31 bp):
TACTGATGCTTTGTGCCGATCATATTACCGT
Found at i:43656470 original size:64 final size:64
Alignment explanation
Indices: 43656365--43656550 Score: 237
Period size: 64 Copynumber: 2.9 Consensus size: 64
43656355 GCGATGCTAC
* * * * *
43656365 TGATGCCTTTGTGCCGATCATATTATCATCACTGATAGCTTTGTGCCAATCATATTACCGTTAT
1 TGATGACTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGCCAATCATATTACCGTTAT
* * *
43656429 TGATGATTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTACCGATCATATTACCGTTAT
1 TGATGACTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGCCAATCATATTACCGTTAT
* * * * * * *
43656493 TGATGGCTGTGTGCCGATCATATCACTGCTATTGATGGCTTTGTGCCAAACATATTAC
1 TGATGACTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGCCAATCATATTAC
43656551 TGTACTTATG
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 104 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (64 bp):
TGATGACTTTGTGCCGATCATATTACCGTTACTGATGGCTTTGTGCCAATCATATTACCGTTAT
Found at i:43656526 original size:96 final size:95
Alignment explanation
Indices: 43656362--43656564 Score: 235
Period size: 96 Copynumber: 2.1 Consensus size: 95
43656352 GTTGCGATGC
* * * * * *
43656362 TACTGATGCCTTTGTGCCGATCATATTATCATCACTGATAGCTTTGTGCCAATCATATTACCGTT
1 TACTGATGGCTTTGTACCGATCATATTACCATCACTGATAGCTGTGTGCCAATCATATCACCGCT
* * *
43656427 ATTGATGATTTTGTGCCGATCATATTACCG
66 ATTGATGACTTTGTGCCAAACATATTACCG
* * * * * *
43656457 TTACTGATGGCTTTGTACCGATCATATTACCGTTATTGATGGCTGTGTGCCGATCATATCACTGC
1 -TACTGATGGCTTTGTACCGATCATATTACCATCACTGATAGCTGTGTGCCAATCATATCACCGC
* *
43656522 TATTGATGGCTTTGTGCCAAACATATTACTG
65 TATTGATGACTTTGTGCCAAACATATTACCG
*
43656553 TACTTATGGCTT
1 TACTGATGGCTT
43656565 GTAGCCATTC
Statistics
Matches: 89, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
95 11 0.12
96 78 0.88
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (95 bp):
TACTGATGGCTTTGTACCGATCATATTACCATCACTGATAGCTGTGTGCCAATCATATCACCGCT
ATTGATGACTTTGTGCCAAACATATTACCG
Found at i:43656581 original size:22 final size:22
Alignment explanation
Indices: 43656556--43656602 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
43656546 ATTACTGTAC
* * *
43656556 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
*
43656578 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
43656600 TTA
1 TTA
43656603 CGACTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:43657578 original size:9 final size:9
Alignment explanation
Indices: 43657566--43657637 Score: 63
Period size: 9 Copynumber: 7.4 Consensus size: 9
43657556 AAATTAGGAA
43657566 AAAAATTAT
1 AAAAATTAT
*
43657575 AAAAATCGTAA
1 AAAAAT--TAT
43657586 AAGAAATTAT
1 AA-AAATTAT
*
43657596 AAAATATTGT
1 AAAA-ATTAT
43657606 AAAAATTTAT
1 AAAAA-TTAT
* *
43657616 AAAAGTCAT
1 AAAAATTAT
43657625 AAAAATTAT
1 AAAAATTAT
43657634 AAAA
1 AAAA
43657638 GGCATCAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
9 23 0.46
10 19 0.38
11 4 0.08
12 4 0.08
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:43657592 original size:21 final size:21
Alignment explanation
Indices: 43657542--43657619 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
43657532 AATACAAATA
* *
43657542 TAAAAATATTATTAAAAT-TAG
1 TAAAAAAATTA-TAAAATATCG
*
43657563 GAAAAAAATTATAAAA-ATCG
1 TAAAAAAATTATAAAATATCG
*
43657583 TAAAAGAAATTATAAAATATTG
1 TAAAA-AAATTATAAAATATCG
*
43657605 T-AAAAATTTATAAAA
1 TAAAAAAATTATAAAA
43657620 GTCATAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 21 0.44
21 23 0.48
22 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (21 bp):
TAAAAAAATTATAAAATATCG
Found at i:43657615 original size:20 final size:20
Alignment explanation
Indices: 43657564--43657637 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
43657554 TAAAATTAGG
43657564 AAAAAAATTATAAAAATCGT
1 AAAAAAATTATAAAAATCGT
*
43657584 AAAAGAAATTATAAAATATTGT
1 AAAA-AAATTATAAAA-ATCGT
* *
43657606 -AAAAATTTATAAAAGTC--
1 AAAAAAATTATAAAAATCGT
*
43657623 ATAAAAATTATAAAA
1 AAAAAAATTATAAAA
43657638 GGCATCAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 12 0.27
19 1 0.02
20 14 0.31
21 14 0.31
22 4 0.09
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAAAATTATAAAAATCGT
Found at i:43657638 original size:18 final size:19
Alignment explanation
Indices: 43657605--43657648 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
43657595 TAAAATATTG
*
43657605 TAAAAATTTATAAAAGTCA
1 TAAAAATTTATAAAAGGCA
43657624 TAAAAA-TTATAAAAGGCA
1 TAAAAATTTATAAAAGGCA
43657642 TCAAAAA
1 T-AAAAA
43657649 GACTAACGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (19 bp):
TAAAAATTTATAAAAGGCA
Found at i:43657820 original size:9 final size:10
Alignment explanation
Indices: 43657789--43657964 Score: 72
Period size: 9 Copynumber: 18.3 Consensus size: 10
43657779 AGTACGATAA
43657789 TTTTATAATT
1 TTTTATAATT
43657799 TTTTATGAA--
1 TTTTAT-AATT
43657808 TTTTAT-ATT
1 TTTTATAATT
43657817 TTTTATAATT
1 TTTTATAATT
*
43657827 TTCTTACAA--
1 TT-TTATAATT
* **
43657836 CTTTATAAAA
1 TTTTATAATT
43657846 TTTTATAATT
1 TTTTATAATT
43657856 TTTT-T-ATAT
1 TTTTATAAT-T
* *
43657865 TTCTAT-ATA
1 TTTTATAATT
*
43657874 TTTTCTAA-T
1 TTTTATAATT
*
43657883 TTTTATGA-T
1 TTTTATAATT
**
43657892 TTTTATAAAA
1 TTTTATAATT
*
43657902 TTTTACAA-T
1 TTTTATAATT
43657911 TTTTATATATT
1 TTTTATA-ATT
43657922 TTTTA-AGA-T
1 TTTTATA-ATT
*
43657931 TTTCATAACTT
1 TTTTATAA-TT
* *
43657942 TTTTGTAATA
1 TTTTATAATT
*
43657952 TTTAATAATT
1 TTTTATAATT
43657962 TTT
1 TTT
43657965 AAATATTATT
Statistics
Matches: 124, Mismatches: 26, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.01
8 7 0.06
9 48 0.39
10 48 0.39
11 20 0.16
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:43657822 original size:28 final size:28
Alignment explanation
Indices: 43657788--43657914 Score: 109
Period size: 28 Copynumber: 4.5 Consensus size: 28
43657778 TAGTACGATA
43657788 ATTTTATAATTTTTTATGAATTTTATAT
1 ATTTTATAATTTTTTATGAATTTTATAT
* * * *
43657816 TTTTTATAATTTTCTTA-CAACTTTATAAA
1 ATTTTATAATTTT-TTATGAATTTTAT-AT
43657845 ATTTTATAATTTTTT-T-ATATTTCTATAT
1 ATTTTATAATTTTTTATGA-ATTT-TATAT
* * *
43657873 ATTTTCTAA-TTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTATGAATTTTAT-AT
*
43657901 ATTTTACAATTTTT
1 ATTTTATAATTTTT
43657915 ATATATTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
27 9 0.12
28 45 0.58
29 24 0.31
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
ATTTTATAATTTTTTATGAATTTTATAT
Found at i:43657915 original size:28 final size:27
Alignment explanation
Indices: 43657837--43657933 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 27
43657827 TTCTTACAAC
*
43657837 TTTATAAAATTTTATAATTTTTTTATATT
1 TTTATAAAATTTTACAA--TTTTTATATT
* *
43657866 TCTAT-ATATTTT-CTAATTTTTATGATT
1 TTTATAAAATTTTAC-AATTTTTAT-ATT
43657893 TTTATAAAATTTTACAATTTTTATATAT
1 TTTATAAAATTTTACAATTTTTATAT-T
* *
43657921 TTTTTAAGATTTT
1 TTTATAAAATTTT
43657934 CATAACTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
26 7 0.12
27 9 0.16
28 35 0.62
29 5 0.09
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTATAAAATTTTACAATTTTTATATT
Found at i:43657924 original size:19 final size:19
Alignment explanation
Indices: 43657789--43657924 Score: 84
Period size: 19 Copynumber: 7.2 Consensus size: 19
43657779 AGTACGATAA
*
43657789 TTTTATAATTTTT-TATGAA
1 TTTTATAATTTTTATAT-AT
*
43657808 TTTTATATTTTTTATA-AT
1 TTTTATAATTTTTATATAT
** * *
43657826 TTTCT-TACAACTTTATAAAA
1 TTT-TATA-ATTTTTATATAT
*
43657846 TTTTATAATTTTTTTATAT
1 TTTTATAATTTTTATATAT
* *
43657865 TTCTAT-ATATTTTCTA-AT
1 TTTTATAAT-TTTTATATAT
* * *
43657883 TTTTATGATTTTTATAAAA
1 TTTTATAATTTTTATATAT
*
43657902 TTTTACAATTTTTATATAT
1 TTTTATAATTTTTATATAT
43657921 TTTT
1 TTTT
43657925 TAAGATTTTC
Statistics
Matches: 89, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
18 21 0.24
19 60 0.67
20 8 0.09
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTATATAT
Found at i:43657933 original size:56 final size:58
Alignment explanation
Indices: 43657837--43657944 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 58
43657827 TTCTTACAAC
* * *
43657837 TTTATAAAATTTTATAATTTTTTTATATTTCTATATATTTTC-TAA-TTTTTATGATT
1 TTTATAAAATTTTACAATTTTTATATATTTCTATAGATTTTCATAACTTTTTATGATT
*
43657893 TTTATAAAATTTTACAATTTTTATATATTT-TTTAAGATTTTCATAACTTTTT
1 TTTATAAAATTTTACAATTTTTATATATTTCTAT-AGATTTTCATAACTTTTT
43657945 TGTAATATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 2 0.04
56 35 0.78
57 3 0.07
58 5 0.11
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (58 bp):
TTTATAAAATTTTACAATTTTTATATATTTCTATAGATTTTCATAACTTTTTATGATT
Found at i:43658010 original size:19 final size:19
Alignment explanation
Indices: 43657981--43658026 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
43657971 TATTATATTT
43657981 TTTTTATTAAAATTTAATCA
1 TTTTTA-TAAAATTTAATCA
* * *
43658001 TTTTTATAAATTTTATTGA
1 TTTTTATAAAATTTAATCA
43658020 TTTTTAT
1 TTTTTAT
43658027 TTTTTATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTATAAAATTTAATCA
Found at i:43661320 original size:13 final size:13
Alignment explanation
Indices: 43661297--43661321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43661287 TTTATTTTAG
43661297 TATTTTATTTACT
1 TATTTTATTTACT
43661310 TATTTTATTTAC
1 TATTTTATTTAC
43661322 ATTTATACTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTTACT
Found at i:43661422 original size:16 final size:16
Alignment explanation
Indices: 43661397--43661431 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43661387 TAATTCTCAT
*
43661397 TTTATTTATTTACGTA
1 TTTATCTATTTACGTA
*
43661413 TTTATCTATTTACTTA
1 TTTATCTATTTACGTA
43661429 TTT
1 TTT
43661432 TTACAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTATCTATTTACGTA
Found at i:43663780 original size:31 final size:31
Alignment explanation
Indices: 43663744--43663805 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
43663734 AATCAAACTA
43663744 TATGTATATTAGCTAGTGTAGGTGAATCATG
1 TATGTATATTAGCTAGTGTAGGTGAATCATG
43663775 TATGTATATTAGCTAGTGTAGGTGAATCATG
1 TATGTATATTAGCTAGTGTAGGTGAATCATG
43663806 AAAGGTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (31 bp):
TATGTATATTAGCTAGTGTAGGTGAATCATG
Found at i:43675710 original size:60 final size:61
Alignment explanation
Indices: 43675644--43675763 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
43675634 CGTGAGATTT
* *
43675644 AAATGCTATATGA-TTTTTTTTATTCTGATCGTAATATTTAACACTTCATTTATGTAAATA
1 AAATGCTATATGATTTTTTTTTATTCTGATCATAATATTGAACACTTCATTTATGTAAATA
43675704 AAATGCTATATGATTTTTTTTTATTCTGATCATAATATTGAACACTTCATTTATGTAAAT
1 AAATGCTATATGATTTTTTTTTATTCTGATCATAATATTGAACACTTCATTTATGTAAAT
43675764 CGTGTTTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 13 0.23
61 44 0.77
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (61 bp):
AAATGCTATATGATTTTTTTTTATTCTGATCATAATATTGAACACTTCATTTATGTAAATA
Found at i:43680413 original size:82 final size:82
Alignment explanation
Indices: 43680264--43680419 Score: 267
Period size: 82 Copynumber: 1.9 Consensus size: 82
43680254 CCACCTAATT
* *
43680264 TGGAGTAGAAGTTGAGATTTCTTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATCTGTTCCAAA
1 TGGAGTAGAAGTTGAGATTTATTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATCTATTCCAAA
43680329 ATGCGTTTTTTAGTCCC
66 ATGCGTTTTTTAGTCCC
* *
43680346 TGGAGTAGAAGTTGAGATTTATTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATTTATTCCGAA
1 TGGAGTAGAAGTTGAGATTTATTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATCTATTCCAAA
*
43680411 ATGGGTTTT
66 ATGCGTTTT
43680420 AATTCTTCTA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.49
Consensus pattern (82 bp):
TGGAGTAGAAGTTGAGATTTATTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATCTATTCCAAA
ATGCGTTTTTTAGTCCC
Found at i:43684194 original size:22 final size:21
Alignment explanation
Indices: 43684151--43684198 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
43684141 TGATTTTTTT
43684151 AATTTTAATTTTATTAATATA
1 AATTTTAATTTTATTAATATA
43684172 ATATTTTATATTATT-TTAA-ATA
1 A-ATTTTA-ATT-TTATTAATATA
43684194 AATTT
1 AATTT
43684199 GGATGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 5 0.21
22 10 0.42
23 7 0.29
24 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
AATTTTAATTTTATTAATATA
Found at i:43685439 original size:19 final size:19
Alignment explanation
Indices: 43685410--43685451 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
43685400 TAGAAAATAA
43685410 TTTTTGAAAAATGATTTACT
1 TTTTTGAAAAATGATTTA-T
43685430 TTTTTG-AAAATGATTTAT
1 TTTTTGAAAAATGATTTAT
43685448 TTTT
1 TTTT
43685452 CTAATGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTTTGAAAAATGATTTAT
Found at i:43691367 original size:22 final size:22
Alignment explanation
Indices: 43691324--43691370 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
43691314 TTCAATAAAT
* *
43691324 ATTAATATATATAATATTTTAG
1 ATTAATATATATAAGATATTAG
43691346 ATTAATATA-ATAGAGATATTAG
1 ATTAATATATATA-AGATATTAG
43691368 ATT
1 ATT
43691371 GGTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
ATTAATATATATAAGATATTAG
Found at i:43694055 original size:6 final size:6
Alignment explanation
Indices: 43694044--43694069 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43694034 AGATCAATGT
43694044 TCATAA TCATAA TCATAA TCATAA TC
1 TCATAA TCATAA TCATAA TCATAA TC
43694070 CTGAATCCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (6 bp):
TCATAA
Found at i:43698443 original size:23 final size:23
Alignment explanation
Indices: 43698417--43698461 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
43698407 TGGAAAGAAA
* *
43698417 TGTAATATCTCGAAAATTACTAT
1 TGTAATACCCCGAAAATTACTAT
43698440 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
43698462 CAATAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAT
Found at i:43700984 original size:16 final size:16
Alignment explanation
Indices: 43700963--43700994 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43700953 CCCTTAGATG
43700963 GATCCTTGAGGCCCAA
1 GATCCTTGAGGCCCAA
43700979 GATCCTTGAGGCCCAA
1 GATCCTTGAGGCCCAA
43700995 TATTCACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (16 bp):
GATCCTTGAGGCCCAA
Found at i:43705064 original size:43 final size:43
Alignment explanation
Indices: 43705016--43705099 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
43705006 ATTTTCGATA
*
43705016 TGTGTTTTCATGTAAGACCATG-TCTGGGAC-GTTGGCATCGACT
1 TGTGTTTACATGTAAGACCATGTTC-GGGACAG-TGGCATCGACT
* *
43705059 TGTGTTTACGTGTAAGACCCTGTTCGGGACAGTGGCATCGA
1 TGTGTTTACATGTAAGACCATGTTCGGGACAGTGGCATCGA
43705100 TCTAAGAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 33 0.92
44 3 0.08
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (43 bp):
TGTGTTTACATGTAAGACCATGTTCGGGACAGTGGCATCGACT
Found at i:43705880 original size:15 final size:16
Alignment explanation
Indices: 43705862--43705899 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43705852 ATGGTTAAAT
*
43705862 TTTATATGG-ATAGTA
1 TTTATATGGTAAAGTA
43705877 TTTATATGGTAAAGTA
1 TTTATATGGTAAAGTA
*
43705893 TATATAT
1 TTTATAT
43705900 ATATGTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (16 bp):
TTTATATGGTAAAGTA
Found at i:43714816 original size:64 final size:64
Alignment explanation
Indices: 43714715--43714845 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
43714705 GAATTATAAT
43714715 TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
1 TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
43714779 TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
1 TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
43714843 TCA
1 TCA
43714846 TATGAAATTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (64 bp):
TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
Found at i:43719228 original size:25 final size:25
Alignment explanation
Indices: 43719200--43719289 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
43719190 CCTGATAATA
*
43719200 AGCTCTCATGAGCTTCTCGTTATTT
1 AGCTCTCATGAGCTTCTCGTTATGT
* * *
43719225 AGCTCTTATAAG-TATCCCGTTATGT
1 AGCTCTCATGAGCT-TCTCGTTATGT
* *
43719250 GGCTCTCACGAGCTTCTCGATTAATG-
1 AGCTCTCATGAGCTTCTCG-TT-ATGT
*
43719276 -GCTCTCTTGAGCTT
1 AGCTCTCATGAGCTT
43719290 TCCGTTTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
24 1 0.02
25 43 0.86
26 3 0.06
27 3 0.06
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCTCGTTATGT
Found at i:43719386 original size:25 final size:25
Alignment explanation
Indices: 43719249--43719438 Score: 117
Period size: 25 Copynumber: 7.7 Consensus size: 25
43719239 TCCCGTTATG
** *
43719249 TGGCTCTCACGAGCTTCTCGATTAA
1 TGGCTCTCTTGAGCTTCCCGATTAA
* *
43719274 TGGCTCTCTTGAGCTTTCCG-TTTA
1 TGGCTCTCTTGAGCTTCCCGATTAA
* *
43719298 TGGCT-TGTATGAGCTTTCCGA-TAA
1 TGGCTCTCT-TGAGCTTCCCGATTAA
** *
43719322 TTGGCTCTCCAGAGCTTCTCGA-TAA
1 -TGGCTCTCTTGAGCTTCCCGATTAA
43719347 TTGGCTCT-TATGAGCTTCCCGATTAA
1 -TGGCTCTCT-TGAGCTTCCCGATTAA
* * *
43719373 TGGCTCTCTGGAGCTTCCC-AATAT
1 TGGCTCTCTTGAGCTTCCCGATTAA
* * * *
43719397 TAGCTCGCATGAGCTTCCCGGTT-A
1 TGGCTCTCTTGAGCTTCCCGATTAA
*
43719421 CGGCTCT-TATGAGCTTCC
1 TGGCTCTCT-TGAGCTTCC
43719439 TGTTACATGG
Statistics
Matches: 127, Mismatches: 29, Indels: 19
0.73 0.17 0.11
Matches are distributed among these distances:
23 2 0.02
24 52 0.41
25 68 0.54
26 5 0.04
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (25 bp):
TGGCTCTCTTGAGCTTCCCGATTAA
Found at i:43719484 original size:25 final size:25
Alignment explanation
Indices: 43719431--43719485 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
43719421 CGGCTCTTAT
* * * *
43719431 GAGCTTCCTGTTACATGGCTTACAT
1 GAGCTTCATGTTACATGGCTCAAAA
*
43719456 GAGCTTCATGTTATATGGCTCAAAA
1 GAGCTTCATGTTACATGGCTCAAAA
43719481 GAGCT
1 GAGCT
43719486 ACCCATTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCATGTTACATGGCTCAAAA
Found at i:43720380 original size:23 final size:23
Alignment explanation
Indices: 43720329--43720383 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
43720319 GCCCGGCCCG
43720329 ATTTTTAATAAACACAAAAAAATT
1 ATTTTTAA-AAACACAAAAAAATT
* *
43720353 A-TTTTAAAAATA-AAAAATATAT
1 ATTTTTAAAAACACAAAAAAAT-T
43720375 ATTTTTAAA
1 ATTTTTAAA
43720384 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.26
22 6 0.22
23 13 0.48
24 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTTTAAAAACACAAAAAAATT
Found at i:43722287 original size:28 final size:28
Alignment explanation
Indices: 43722247--43722306 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
43722237 CCATGACATC
* *
43722247 CACAAAAATAGTCTA-TTGGGATAGTAAA
1 CACAAAAATAGTCTACCT-GGACAGTAAA
43722275 CACAAATAA-AGTCTACCTGGACAGTAAA
1 CACAAA-AATAGTCTACCTGGACAGTAAA
43722303 CACA
1 CACA
43722307 GGGTAAGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (28 bp):
CACAAAAATAGTCTACCTGGACAGTAAA
Found at i:43728400 original size:25 final size:25
Alignment explanation
Indices: 43728364--43728416 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
43728354 ATGACAATCT
*
43728364 AATCCTTCTTCAATCTATATCCTTA
1 AATCCTTATTCAATCTATATCCTTA
43728389 AATCCTTATTCAATCTATATCCTTA
1 AATCCTTATTCAATCTATATCCTTA
43728414 AAT
1 AAT
43728417 ATGGAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (25 bp):
AATCCTTATTCAATCTATATCCTTA
Found at i:43732921 original size:20 final size:22
Alignment explanation
Indices: 43732878--43732921 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
43732868 AAAAAATTTA
*
43732878 TTCTTTTGAAAAATTTTCGTAC
1 TTCTTTTGAAAAATTTTCGAAC
*
43732900 TTCTTTT-AAAAGTTTT-GAAC
1 TTCTTTTGAAAAATTTTCGAAC
43732920 TT
1 TT
43732922 TTTATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 7 0.35
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.52
Consensus pattern (22 bp):
TTCTTTTGAAAAATTTTCGAAC
Found at i:43735693 original size:18 final size:19
Alignment explanation
Indices: 43735656--43735695 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
43735646 TATTTTGTAT
43735656 AAATTAAATATAAGATTAA
1 AAATTAAATATAAGATTAA
43735675 AAATTGAAA-ATAA-ATTAA
1 AAATT-AAATATAAGATTAA
43735693 AAA
1 AAA
43735696 CATATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 9 0.45
20 3 0.15
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
AAATTAAATATAAGATTAA
Found at i:43754368 original size:15 final size:16
Alignment explanation
Indices: 43754340--43754370 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
43754330 AGGGGTTAAG
43754340 GGTTTAATGATTTTGA
1 GGTTTAATGATTTTGA
43754356 GGTTTAA-GATTTTGA
1 GGTTTAATGATTTTGA
43754371 TTTCAAGTTT
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:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (16 bp):
GGTTTAATGATTTTGA
Found at i:43754462 original size:62 final size:61
Alignment explanation
Indices: 43754342--43754470 Score: 143
Period size: 61 Copynumber: 2.1 Consensus size: 61
43754332 GGGTTAAGGG
* ** * * * *
43754342 TTTAATGATTTTGAGGTTTAAGATTTTGATTTCAAGTTTAGGAATGGTAATTAGGTTTAATA
1 TTTAATGATTTTAAGGTTTAAGAGGTTGATTTCAAGGTTAGGAACGATAATTAAGTTT-ATA
* *
43754404 TTTAATGATTTTAAGGTTTAAG-GGTTGATTTCGAGGTTAGGGACGATAATGTAAGTTTATA
1 TTTAATGATTTTAAGGTTTAAGAGGTTGATTTCAAGGTTAGGAACGATAAT-TAAGTTTATA
*
43754465 ATTAAT
1 TTTAAT
43754471 TTTTTAAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
61 29 0.52
62 27 0.48
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (61 bp):
TTTAATGATTTTAAGGTTTAAGAGGTTGATTTCAAGGTTAGGAACGATAATTAAGTTTATA
Found at i:43755662 original size:18 final size:18
Alignment explanation
Indices: 43755641--43755675 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43755631 TTATATTATT
43755641 TATATGTATTTT-ATAATA
1 TATATGT-TTTTAATAATA
43755659 TATATGTTTTTAATAAT
1 TATATGTTTTTAATAAT
43755676 TTTTTCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TATATGTTTTTAATAATA
Found at i:43760212 original size:22 final size:22
Alignment explanation
Indices: 43760184--43760233 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
43760174 ACAAATCCTA
43760184 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
43760206 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
43760228 TCTCAA
1 TCTCAA
43760234 ATCCATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:43760382 original size:24 final size:23
Alignment explanation
Indices: 43760337--43760394 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
43760327 TTAAATTTAA
* * *
43760337 ATTTAAATATTATTTAAGAATTTT
1 ATTTATATATT-TTTAAAAATTAT
43760361 ATTTATATATTTTTAGAAAATTAT
1 ATTTATATATTTTTA-AAAATTAT
43760385 -TTTAT-TATTT
1 ATTTATATATTT
43760395 GTTATAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (23 bp):
ATTTATATATTTTTAAAAATTAT
Found at i:43762556 original size:91 final size:97
Alignment explanation
Indices: 43762397--43762586 Score: 306
Period size: 91 Copynumber: 2.0 Consensus size: 97
43762387 TACCGTATTA
43762397 AAATTTATTATTTGATTTAATGAAATAGAAGTGTACATGATCTAATACGCATAGAAATTTTCCCG
1 AAATTTATTATTTGATTTAATGAAATAGAAGTGTACATGATCTAATACGCATAGAAATTTTCCCG
43762462 AGTTATTTTGATATTATTTGATATAATAAAATAG
66 AGTTATTTTGATATTATTTGATAT-A-AAAATAG
43762496 AAATTTATTATTTGATTTAATGAAA-A-AAGT-TA-AT-AT-TAATAC-CATA-AAATTTTCCCG
1 AAATTTATTATTTGATTTAATGAAATAGAAGTGTACATGATCTAATACGCATAGAAATTTTCCCG
43762553 AGTTATTTTGATATTATTTGATATAAAAATAG
66 AGTTATTTTGATATTATTTGATATAAAAATAG
43762585 AA
1 AA
43762587 GTTCTATTTG
Statistics
Matches: 91, Mismatches: 0, Indels: 10
0.90 0.00 0.10
Matches are distributed among these distances:
89 9 0.10
90 1 0.01
91 35 0.38
92 4 0.04
93 6 0.07
94 2 0.02
95 2 0.02
96 2 0.02
97 4 0.04
98 1 0.01
99 25 0.27
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (97 bp):
AAATTTATTATTTGATTTAATGAAATAGAAGTGTACATGATCTAATACGCATAGAAATTTTCCCG
AGTTATTTTGATATTATTTGATATAAAAATAG
Found at i:43762653 original size:29 final size:29
Alignment explanation
Indices: 43762611--43763178 Score: 942
Period size: 29 Copynumber: 19.7 Consensus size: 29
43762601 AATAAAATCG
43762611 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
43762640 TAATTAAAAACCCTAACATTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
43762669 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
* *
43762698 TAATTAAAAACCCTAACCCTACCCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
43762727 TAATTAAAAACCCTAACCTTAACC--ATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
43762754 TAATTAAAAACCCTAACCTTAACGTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
43762783 TAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
* *
43762812 TAATTAAAAACCCTAACCCTACCCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
* *
43762841 TAATTAAAAACTCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
* * * *
43762870 TTATTAAAAATCCTAACCCTACCCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
43762899 TAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
43762928 TAATTAAAAACCCTAACCTTAACCTAGTT
1 TAATTAAAAACCCTAACCTTAACCTAATT
43762957 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
43762986 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
* *
43763015 TAATTAAAAACCCTAACCCTACCCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
43763044 TAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
43763073 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
43763102 TAATTAAAAACCCTAACTTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
43763131 TAATTAAAAACCCTAACTTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
43763160 TAATTAAAAACCCTAACCT
1 TAATTAAAAACCCTAACCT
43763179 AATTTATTTA
Statistics
Matches: 509, Mismatches: 28, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
27 26 0.05
29 483 0.95
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.30
Consensus pattern (29 bp):
TAATTAAAAACCCTAACCTTAACCTAATT
Found at i:43763283 original size:56 final size:56
Alignment explanation
Indices: 43763223--43763347 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
43763213 AAATCATAAC
* * * * *
43763223 ATAATTTTACCTAATTTGAT-AATCTTACTAACCATTAACACAATTTTTTGGGCTTA
1 ATAATTTTACATAATTTAATAAAT-TTACTAACCATTAACAAAAGTTATTGGGCTTA
43763279 ATAATTTTACATAATTTAATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
1 ATAATTTTACATAATTTAATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
43763335 ATAATTTTACATA
1 ATAATTTTACATA
43763348 GTTTTTACAT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 60 0.95
57 3 0.05
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (56 bp):
ATAATTTTACATAATTTAATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
Found at i:43764948 original size:2 final size:2
Alignment explanation
Indices: 43764941--43764971 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
43764931 TCTAAAAATG
*
43764941 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43764972 GAAAATTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43765212 original size:29 final size:28
Alignment explanation
Indices: 43765165--43765220 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
43765155 CGTATGTACA
*
43765165 AATAAAAAATAATAATAAT-AATGATGT
1 AATAAAAAATAACAATAATAAATGATGT
43765192 AATAAATAATATAACAATAATAAATGATG
1 AATAAA-AA-ATAACAATAATAAATGATG
43765221 GGAGTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 6 0.24
28 2 0.08
29 10 0.40
30 7 0.28
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (28 bp):
AATAAAAAATAACAATAATAAATGATGT
Found at i:43766859 original size:44 final size:44
Alignment explanation
Indices: 43766761--43767195 Score: 474
Period size: 44 Copynumber: 10.2 Consensus size: 44
43766751 AAGACTTGTA
** ** *
43766761 TCTTCGATCTACTTCATCACCCGTATGGGAAGACAAGATCTGCTC
1 TCTTCGATCTACTTCA-CACCAATATATGAAGACAAGATCTGCTT
* * * *
43766806 TCTTTGATCTACTTCATACCAATATATGAAAACAAGATCTGTTT
1 TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
* *
43766850 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
* * **
43766894 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TT
1 TCTTCGATCTACTTC-ACACCAATATATGAAGACAAGATCTGCTT
*
43766938 TC--CGATCTACTT--CGCC-A-ATATGAAGACAAGATCTG-TT
1 TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
*
43766975 TC--CGATCTACTTCAC-CC-A-ATATGAAGATAAGATCTGC-T
1 TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
43767013 T-TTCGATCTACTTCAC-CC-A-ATATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
** *
43767053 TCTTCGATCTACTTCACGTCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
* * * * *
43767097 TCTTCGATCTACTTCACGCCAGTACATGAAGACAATATCTGTTT
1 TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
* * *
43767141 TCTTCGATCTACTTCACCCCAATACATGAAGACAAGATTTGCTT
1 TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
43767185 TCTTCGATCTA
1 TCTTCGATCTA
43767196 TTCCACTGCC
Statistics
Matches: 341, Mismatches: 38, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
37 30 0.09
38 22 0.06
39 38 0.11
40 2 0.01
41 15 0.04
42 11 0.03
43 1 0.00
44 187 0.55
45 35 0.10
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTACTTCACACCAATATATGAAGACAAGATCTGCTT
Found at i:43767269 original size:132 final size:131
Alignment explanation
Indices: 43767141--43767540 Score: 435
Period size: 132 Copynumber: 3.0 Consensus size: 131
43767131 ATATCTGTTT
* * * * * *
43767141 TCTTCGATCTACTTCACCCCAATAC-ATGAAGACAAGATTTGCT-TTCTTCGATCTATTCCACTG
1 TCTTCGATCTAC-TC-CACCAATACTAGGAAGACAAGATCT-ATAATCTTCAATCTATTCCACTG
* *
43767204 CCAACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACTTCAGGGAGGTAAAATCT
63 CCAACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCT
43767269 GCCA
128 GCCA
* * * * * * * *
43767273 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
1 TCTTCGATCTACTCCACCAATAC-TAGGAAGACAAGATCTATAATCTTCAATCTATTCCACTGCC
**
43767338 GCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGC
65 AACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGC
43767403 CA
130 CA
* * ** * * * * * * * **
43767405 TCTTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTATTCCAATGTT
1 TCTTCGATCTACTCCACCAATAC-TAGGAAGACAAGATCTATAATCTTCAATCTATTCCACTGCC
** *
43767470 GCCCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGC
65 AACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGC
43767535 CA
130 CA
43767537 TCTT
1 TCTT
43767541 TAATCTGCTC
Statistics
Matches: 241, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
130 5 0.02
131 3 0.01
132 233 0.97
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (131 bp):
TCTTCGATCTACTCCACCAATACTAGGAAGACAAGATCTATAATCTTCAATCTATTCCACTGCCA
ACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCC
A
Found at i:43767302 original size:44 final size:44
Alignment explanation
Indices: 43767252--43767562 Score: 149
Period size: 44 Copynumber: 7.1 Consensus size: 44
43767242 CACTGTAACT
* ** *
43767252 TCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * *** * *
43767296 TTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * * *** * * **
43767340 CCAGGGAGATAGAAT-TACTGGCTTCAATATACTCCACTGCAACC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTAC-TGC
* ** * *
43767384 TCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCATTACTGC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * ** * * * **
43767428 TTAGGGAGATAAGATCTGTAATCTTCAGTCTATTCCAATGTTGC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * ***** * * **
43767472 CCAGGGAGATAGAAT-TATTGGCTTCAATATACTCCACTGCAACC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTAC-TGC
* * *
43767516 TCAGGGAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTGC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
43767560 TCA
1 TCA
43767563 ATCTATTCCA
Statistics
Matches: 183, Mismatches: 80, Indels: 8
0.68 0.30 0.03
Matches are distributed among these distances:
43 35 0.19
44 117 0.64
45 31 0.17
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
Found at i:43767541 original size:132 final size:132
Alignment explanation
Indices: 43767185--43767560 Score: 626
Period size: 132 Copynumber: 2.8 Consensus size: 132
43767175 AGATTTGCTT
* * *** *
43767185 TCTTCGATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAA
1 TCTTCAATCTATTCCAATGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAA
*
43767250 CTTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
66 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
43767315 AA
131 AA
*
43767317 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAA
1 TCTTCAATCTATTCCAATGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAA
* *
43767382 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
43767447 AA
131 AA
* * *
43767449 TCTTCAGTCTATTCCAATGTTGCCCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGCAA
1 TCTTCAATCTATTCCAATGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAA
*
43767514 CCTCAGGGAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTGCT
66 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
43767561 CAATCTATTC
Statistics
Matches: 230, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 230 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
TCTTCAATCTATTCCAATGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAA
CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
AA
Found at i:43767645 original size:108 final size:108
Alignment explanation
Indices: 43767456--43767657 Score: 307
Period size: 108 Copynumber: 1.9 Consensus size: 108
43767446 TAATCTTCAG
* *
43767456 TCTATTCCAATGTTGCCCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGCAACCTCAGG
1 TCTATTCCAATGTTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCACAGG
*
43767521 GAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTGCTCAA
66 GAGGTAAAATCCGCCATCTTTAATCTGCTCCACTACTGCTCAA
* * * * *
43767564 TCTATTCCATTGTTGCCTAGGGAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCAC-GA
1 TCTATTCCAATGTTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCACAG-
*
43767628 GGAGGTAAAATCCGCCATCTTTGATCTGCT
65 GGAGGTAAAATCCGCCATCTTTAATCTGCT
43767658 TCGCTGTCTA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
107 1 0.01
108 83 0.99
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (108 bp):
TCTATTCCAATGTTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCACAGG
GAGGTAAAATCCGCCATCTTTAATCTGCTCCACTACTGCTCAA
Found at i:43767732 original size:44 final size:44
Alignment explanation
Indices: 43767673--43768015 Score: 329
Period size: 44 Copynumber: 7.8 Consensus size: 44
43767663 GTCTATGCAG
* *
43767673 GAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * ***
43767717 GAAGACAAGATCTGCTTTC-TTAATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACAT
*
43767761 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * ***
43767805 GAAGACAAGATCTACT-T-TTTCAATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTT-GATCTACTTCA-CGCCAGTACAT
*
43767849 GAAGACAAGATCTAG-TATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCT-GCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * *
43767893 GAAGACAAGATCTACTTTCTTTGATCTGCTT--CGCCACTAGTAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTA-CAT
* * * *
43767936 GGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGTCAGTACAT
1 --GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * *
43767982 GAAGACAATATCTGCTTTCTTTGATCTGCTTCAC
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCAC
43768016 CACCAGTATG
Statistics
Matches: 237, Mismatches: 49, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
42 10 0.04
43 25 0.11
44 143 0.60
45 48 0.20
46 5 0.02
47 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:43767981 original size:89 final size:89
Alignment explanation
Indices: 43767672--43768053 Score: 563
Period size: 88 Copynumber: 4.3 Consensus size: 89
43767662 TGTCTATGCA
* *
43767672 GGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC-
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
43767736 TTAATCTACTTCACCACCAGTATG
66 TTAATCTACTTCACCACCAGTATG
* *
43767760 GGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTT-T
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
*
43767824 TCAATCTACTTCACCACCAGTATG
66 TTAATCTACTTCACCACCAGTATG
* *
43767848 GGAAGACAAGATCTAGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
* * * *
43767913 TTGATCTGCTTCGCCACTAGTATG
66 TTAATCTACTTCACCACCAGTATG
* * * * *
43767937 GGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGTCAGTACATGAAGACAATATCTGCTTTCT
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
* *
43768002 TTGATCTGCTTCACCACCAGTATG
66 TTAATCTACTTCACCACCAGTATG
*
43768026 GGAAGGCAATATCTGGTAT-TTCTGATCT
1 GGAAGGCAAGATCTGGTATCTT-TGATCT
43768054 GTTCTCTGGG
Statistics
Matches: 268, Mismatches: 23, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
88 144 0.54
89 124 0.46
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
TTAATCTACTTCACCACCAGTATG
Found at i:43769166 original size:21 final size:21
Alignment explanation
Indices: 43769146--43769228 Score: 125
Period size: 21 Copynumber: 4.0 Consensus size: 21
43769136 TTAGCCTCTC
* *
43769146 CATTTT-ATTTTTTCATTTCT
1 CATTTTCATCTTTTCATTTTT
43769166 CATTTCTCAT-TTTTCATTTTT
1 CATTT-TCATCTTTTCATTTTT
43769187 CATTTTCATCTTTTCATTTTT
1 CATTTTCATCTTTTCATTTTT
43769208 CATTTTCATCTTTTCATTTTT
1 CATTTTCATCTTTTCATTTTT
43769229 TCACATCACT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
20 9 0.15
21 48 0.81
22 2 0.03
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.67
Consensus pattern (21 bp):
CATTTTCATCTTTTCATTTTT
Found at i:43769168 original size:7 final size:7
Alignment explanation
Indices: 43769154--43769228 Score: 100
Period size: 7 Copynumber: 10.7 Consensus size: 7
43769144 TCCATTTTAT
43769154 TTTTTCA
1 TTTTTCA
*
43769161 TTTCTCA
1 TTTTTCA
*
43769168 TTTCTCA
1 TTTTTCA
43769175 TTTTTCA
1 TTTTTCA
43769182 TTTTTCA
1 TTTTTCA
43769189 -TTTTCA
1 TTTTTCA
43769195 TCTTTTCA
1 T-TTTTCA
43769203 TTTTTCA
1 TTTTTCA
43769210 -TTTTCA
1 TTTTTCA
43769216 TCTTTTCA
1 T-TTTTCA
43769224 TTTTT
1 TTTTT
43769229 TCACATCACT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
6 12 0.19
7 36 0.58
8 14 0.23
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTTCA
Found at i:43772116 original size:19 final size:20
Alignment explanation
Indices: 43772092--43772135 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
43772082 TAAAGGTTTT
* *
43772092 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
43772111 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
43772131 -AATGC
1 TAATGC
43772136 GAAAAGAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:43774008 original size:18 final size:18
Alignment explanation
Indices: 43773968--43774009 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43773958 ACAAGCATAC
* *
43773968 ATATAAAAAAAAGATAGT
1 ATATAAAAAAAAGAAACT
43773986 ATATAAAACAAAAGAAACT
1 ATATAAAA-AAAAGAAACT
43774005 -TATAA
1 ATATAA
43774010 TAATTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (18 bp):
ATATAAAAAAAAGAAACT
Found at i:43780500 original size:29 final size:28
Alignment explanation
Indices: 43780429--43780500 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
43780419 AAGAACTAGA
* *
43780429 TAAAATATATATAGTTTTTGATGAATTGG
1 TAAAATATA-ATATTTTTTGATGAAATGG
* * *
43780458 TAAAAT-CACTATTTTTTTATGAAATGG
1 TAAAATATAATATTTTTTGATGAAATGG
43780485 TAAAAATATAATATTT
1 T-AAAATATAATATTT
43780501 GAGTTTGTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
27 16 0.47
28 6 0.18
29 12 0.35
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (28 bp):
TAAAATATAATATTTTTTGATGAAATGG
Found at i:43781176 original size:43 final size:43
Alignment explanation
Indices: 43781071--43781195 Score: 169
Period size: 44 Copynumber: 2.9 Consensus size: 43
43781061 TTTAAGAAAA
* * * *
43781071 AAACGCCGCTATAGATCAGGGTCTTTTGCGGCGTTTGTGGGGG
1 AAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTGGGCG
* * *
43781114 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCG
1 AAA-CGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTGGGCG
*
43781158 AAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTGT
1 AAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGT
43781196 CCCTAAAATG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 35 0.49
44 36 0.51
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTGGGCG
Found at i:43781258 original size:43 final size:43
Alignment explanation
Indices: 43781211--43781386 Score: 201
Period size: 43 Copynumber: 4.1 Consensus size: 43
43781201 AAATGCCGAA
* * * *
43781211 AAAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACT
1 AAAGAACCTGATCTTTAGCGGCGCTTTTACCACAAACGCCACG
* *** *
43781254 AAAGAACCTAATCTTTAGCGGCGCTTACCCCACAAACGCCGCG
1 AAAGAACCTGATCTTTAGCGGCGCTTTTACCACAAACGCCACG
* * *
43781297 AAAG-ACCATGATCTTTAGGGGCGCTTTTTCCACAAACGCCGCG
1 AAAGAACC-TGATCTTTAGCGGCGCTTTTACCACAAACGCCACG
* * *
43781340 AAAGAACCTTATCTTTAGCGGCGCTTTTACCAAAAACGCCACT
1 AAAGAACCTGATCTTTAGCGGCGCTTTTACCACAAACGCCACG
43781383 AAAG
1 AAAG
43781387 GCCAACAAAA
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 3 0.03
43 106 0.95
44 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (43 bp):
AAAGAACCTGATCTTTAGCGGCGCTTTTACCACAAACGCCACG
Found at i:43781377 original size:86 final size:86
Alignment explanation
Indices: 43781179--43781379 Score: 249
Period size: 86 Copynumber: 2.3 Consensus size: 86
43781169 AAGATTAGGG
* * * *
43781179 TCTTTAGCGGCGCTTGTCCCTAAAATGCCGAAAAAGACCCTGATCTATAGCGGCGCTTTGACCAC
1 TCTTTAGCGGCGCTTATCCCAAAAACGCCGAAAAAGACCATGATCTATAGCGGCGCTTTGACCAC
*
43781244 AAACGCCACTAAAGAACCTAA
66 AAACGCCACGAAAGAACCTAA
* * ** * * **
43781265 TCTTTAGCGGCGCTTACCCCACAAACGCCGCGAAAGACCATGATCTTTAGGGGCGCTTTTTCCAC
1 TCTTTAGCGGCGCTTATCCCAAAAACGCCGAAAAAGACCATGATCTATAGCGGCGCTTTGACCAC
* *
43781330 AAACGCCGCGAAAGAACCTTA
66 AAACGCCACGAAAGAACCTAA
* *
43781351 TCTTTAGCGGCGCTTTTACCAAAAACGCC
1 TCTTTAGCGGCGCTTATCCCAAAAACGCC
43781380 ACTAAAGGCC
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 96 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.22
Consensus pattern (86 bp):
TCTTTAGCGGCGCTTATCCCAAAAACGCCGAAAAAGACCATGATCTATAGCGGCGCTTTGACCAC
AAACGCCACGAAAGAACCTAA
Found at i:43781781 original size:21 final size:21
Alignment explanation
Indices: 43781737--43781798 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
43781727 CTCGTTGCAG
* **
43781737 CCTCTGCTTCTCTCGCTGTAA
1 CCTCTACTTCTCTCGCTGCCA
*
43781758 CCTGTACTTCTCTCGCTGCCA
1 CCTCTACTTCTCTCGCTGCCA
* *
43781779 CCTCTGCTTCTCTTGCTGCC
1 CCTCTACTTCTCTCGCTGCC
43781799 GCATCTGCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.06, C:0.42, G:0.15, T:0.37
Consensus pattern (21 bp):
CCTCTACTTCTCTCGCTGCCA
Found at i:43781805 original size:21 final size:21
Alignment explanation
Indices: 43781739--43781808 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
43781729 CGTTGCAGCC
** *
43781739 TCTGCTTCTCTCGCTGTAACC
1 TCTGCTTCTCTCGCTGCCACA
* * *
43781760 TGTACTTCTCTCGCTGCCACC
1 TCTGCTTCTCTCGCTGCCACA
* *
43781781 TCTGCTTCTCTTGCTGCCGCA
1 TCTGCTTCTCTCGCTGCCACA
43781802 TCTGCTT
1 TCTGCTT
43781809 TAAGCTACTG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.07, C:0.39, G:0.16, T:0.39
Consensus pattern (21 bp):
TCTGCTTCTCTCGCTGCCACA
Found at i:43781863 original size:66 final size:66
Alignment explanation
Indices: 43781785--43781925 Score: 169
Period size: 66 Copynumber: 2.1 Consensus size: 66
43781775 GCCACCTCTG
* *
43781785 CTTCTCTTGCTGCCGCATCTGCTTTAAGCTACT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 CTTCTCTCGCTGCCGCATCTGCTTTAAG-TACTAGCTGGAGTTCTTCATATCTTT-GTTGAACCC
43781848 CAA
64 CAA
* * * ** *
43781851 CTTCTCTCGCTGCTGCATTTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCCCA
1 CTTCTCTCGCTGCCGCATCTGCTTTAAGTACTAGCTGGAGTTCTTCATATCTTTGTTGAACCCCA
*
43781916 G
66 A
43781917 CTTCTCTCG
1 CTTCTCTCG
43781926 ATGTTGCCTC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.03
66 58 0.91
67 4 0.06
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.40
Consensus pattern (66 bp):
CTTCTCTCGCTGCCGCATCTGCTTTAAGTACTAGCTGGAGTTCTTCATATCTTTGTTGAACCCCA
A
Found at i:43781941 original size:66 final size:66
Alignment explanation
Indices: 43781818--43781948 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
43781808 TTAAGCTACT
* * ** *
43781818 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAACTTCTCTCGCTGCTGCATTTGCTTTCAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCCCAACTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
43781883 A
66 A
* * * *
43781884 GCTGGAGTTCTTCATATCTTT-TTTGAACCCCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCCCAACTTCTCTCGATGCTGCATCCGCTTTAAGTTG
43781948 T
65 T
43781949 GTGATTTGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 51 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCCCAACTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:43785659 original size:9 final size:9
Alignment explanation
Indices: 43785642--43785992 Score: 100
Period size: 9 Copynumber: 41.2 Consensus size: 9
43785632 TAAGTATAAT
*
43785642 TAAGCTATG
1 TAAGTTATG
43785651 TAAGTTATG
1 TAAGTTATG
43785660 T-A-TTATG
1 TAAGTTATG
*
43785667 TAAGTTGTG
1 TAAGTTATG
43785676 T-A-TTATG
1 TAAGTTATG
*
43785683 -AA--AAT-
1 TAAGTTATG
* *
43785688 TATGCTATG
1 TAAGTTATG
*
43785697 TAAGATATG
1 TAAGTTATG
* *
43785706 TAAGTCATA
1 TAAGTTATG
43785715 TAAGTTATG
1 TAAGTTATG
43785724 T-A-TTATG
1 TAAGTTATG
43785731 TAAGTTATG
1 TAAGTTATG
43785740 TAAGTTAT-
1 TAAGTTATG
*
43785748 TTA-TTATG
1 TAAGTTATG
* * *
43785756 AAAATTAAG
1 TAAGTTATG
43785765 TAAGTTATG
1 TAAGTTATG
* *
43785774 TAATTTACG
1 TAAGTTATG
*
43785783 -AA-TAAT-
1 TAAGTTATG
***
43785789 TAAAAAAATG
1 T-AAGTTATG
43785799 TAAGTTATG
1 TAAGTTATG
43785808 TAAG-T-TG
1 TAAGTTATG
43785815 TAAGTTATG
1 TAAGTTATG
43785824 TAAGTTATG
1 TAAGTTATG
*
43785833 TATA-ATAT-
1 TA-AGTTATG
**
43785841 TAA-TTAAC
1 TAAGTTATG
43785849 TAAGTTATG
1 TAAGTTATG
*
43785858 TAATTTATG
1 TAAGTTATG
*
43785867 TATA-ATAT-
1 TA-AGTTATG
43785875 TAA-TTAAT-
1 TAAGTT-ATG
43785883 TAAGTTATG
1 TAAGTTATG
* *
43785892 TAATTTATATA
1 TAA-GT-TATG
*
43785903 TAATATTAATG
1 TAA-GTT-ATG
43785914 TAAGTTATG
1 TAAGTTATG
*
43785923 TATA-ATAT-
1 TA-AGTTATG
43785931 TAA-TTAAT-
1 TAAGTT-ATG
43785939 TAAGTTATG
1 TAAGTTATG
*
43785948 TAATTTATG
1 TAAGTTATG
*
43785957 TATA-ATAT-
1 TA-AGTTATG
43785965 TAA-TTAAT-
1 TAAGTT-ATG
43785973 TAAGTTATG
1 TAAGTTATG
*
43785982 TAATTTATG
1 TAAGTTATG
43785991 TA
1 TA
43785993 TAATATTAAT
Statistics
Matches: 260, Mismatches: 47, Indels: 70
0.69 0.12 0.19
Matches are distributed among these distances:
6 3 0.01
7 38 0.15
8 48 0.18
9 149 0.57
10 9 0.03
11 13 0.05
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43785668 original size:16 final size:16
Alignment explanation
Indices: 43785647--43785741 Score: 95
Period size: 16 Copynumber: 5.9 Consensus size: 16
43785637 ATAATTAAGC
43785647 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
43785663 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
43785679 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
*
43785693 TATGTAAGATATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
43785711 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
43785727 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
43785742 AGTTATTTAT
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
14 10 0.16
16 39 0.64
17 1 0.02
18 11 0.18
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:43785689 original size:25 final size:25
Alignment explanation
Indices: 43785661--43785775 Score: 101
Period size: 25 Copynumber: 4.7 Consensus size: 25
43785651 TAAGTTATGT
*
43785661 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
43785686 ATTATGCTATG-TAAG-A-TATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
43785709 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
43785734 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
43785759 ATTAAGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
43785776 ATTTACGAAT
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
22 3 0.04
23 12 0.17
24 2 0.03
25 50 0.71
26 3 0.04
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.43
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:43785818 original size:16 final size:16
Alignment explanation
Indices: 43785797--43785829 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43785787 ATTAAAAAAA
43785797 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
43785813 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
43785829 T
1 T
43785830 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:43785834 original size:34 final size:33
Alignment explanation
Indices: 43785693--43785834 Score: 87
Period size: 34 Copynumber: 4.2 Consensus size: 33
43785683 AAAATTATGC
*
43785693 TATGTAAGATATGTAAGTCATATAAGTTATGT--AT
1 TATGTAAGTTATGTAAGT--T-TAAGTTATGTAAAT
* *
43785727 TATGTAAGTTATGTAAGTTATTTA-TTATGAAAAT
1 TATGTAAGTTATGTAAG-T-TTAAGTTATGTAAAT
* * * *
43785761 TAAGTAAGTTATGTAA-TTTACGAATAAT-TAAAAA
1 TATGTAAGTTATGTAAGTTTA--AGTTATGT-AAAT
* *
43785795 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGTT-TAAGTTATGTAAAT
43785829 TATGTA
1 TATGTA
43785835 TAATATTAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
31 2 0.02
32 6 0.07
33 3 0.04
34 66 0.80
35 4 0.05
36 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.42
Consensus pattern (33 bp):
TATGTAAGTTATGTAAGTTTAAGTTATGTAAAT
Found at i:43785853 original size:34 final size:34
Alignment explanation
Indices: 43785815--43786459 Score: 198
Period size: 34 Copynumber: 19.0 Consensus size: 34
43785805 ATGTAAGTTG
* *
43785815 TAAGTTATGTAAGTTATGTATAATATTAATTAAC
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
43785849 TAAGTTATGTAATTTATGTATAATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
* *
43785883 TAAGTTATGTAATTTATATATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
* *
43785914 TAAGTTATGT-A--TA-ATATTA-ATTAATTAAGT
1 TAAGTTATGTAATTTATGTATAATATTAATTAA-T
* * * *
43785944 TATGTAAT-TTATGTA--T--AATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
*
43785973 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
* * *
43786004 TAAGTTATGT-ATAATAT-TA-ATTAATTACGTT-AT
1 TAAGTTATGTAAT-TTATGTATAAT-ATTA-ATTAAT
* * *
43786037 GTAATTTATGT-ATAATAT-TA-ATTAATTAATTAA-
1 -TAAGTTATGTAAT-TTATGTATAAT-ATTAATTAAT
*
43786070 ---GTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
* ** *
43786098 TAAGTTATGT-ATAATATCCATAAT-TTAAGTT-GT
1 TAAGTTATGTAAT-TTATGTATAATATTAA-TTAAT
* * *
43786131 GTAATTTATGT-A--TA-ATATTA-ATTAATTAAT
1 -TAAGTTATGTAATTTATGTATAATATTAATTAAT
*
43786161 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
* *
43786192 TAAGTTATGTATAATATTAAT-TA-AGTTATGTAATTTATGT
1 TAAGTTATG--TAAT-TT-ATGTATA-ATAT-TAA-TTA-AT
* * *
43786232 ATAATATTAATGTAAGTTATGTA-ATTTATGTATATTAAT
1 -TAA-GTT-ATGTAATTTATGTATA-ATAT-TA-ATTAAT
43786271 TAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
1 TA----AGTTATGTAATTTATGTATAATATTAAT-TAA-T
* * * * *
43786311 TATGTATAATATTAATTAAT-TA-AGTTATGTAATTTAT
1 TAAGT-T-AT-GTAATTTATGTATA-ATAT-TAATTAAT
*
43786348 GTATA-ATAT-TAATGTAAGTTATGTATAATATTAATTAAT
1 -TA-AGTTATGTAA--T---TTATGTATAATATTAATTAAT
*
43786387 TACGTTATGTAATTTATGTATAATATTAATTAATTAAT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAAT
43786425 TAAGTTATGTAATTTATGTATAATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
43786459 T
1 T
43786460 GAAAATAACT
Statistics
Matches: 471, Mismatches: 58, Indels: 164
0.68 0.08 0.24
Matches are distributed among these distances:
26 5 0.01
27 6 0.01
28 2 0.00
29 32 0.07
30 54 0.11
31 52 0.11
32 7 0.01
33 14 0.03
34 139 0.30
35 7 0.01
36 7 0.01
37 8 0.02
38 50 0.11
39 32 0.07
40 39 0.08
41 11 0.02
42 3 0.01
43 3 0.01
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (34 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAAT
Found at i:43785921 original size:22 final size:22
Alignment explanation
Indices: 43785889--43785934 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
43785879 TAATTAAGTT
*
43785889 ATGTAATTTATATATAATATTA
1 ATGTAAGTTATATATAATATTA
*
43785911 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATATATAATATTA
43785933 AT
1 AT
43785935 TAATTAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATATATAATATTA
Found at i:43785927 original size:56 final size:57
Alignment explanation
Indices: 43785855--43786454 Score: 337
Period size: 56 Copynumber: 10.0 Consensus size: 57
43785845 TAACTAAGTT
* *
43785855 ATGTAATTTATGTATA-ATATTAATTAATTAAGTTATGTAATTTATATATAATATTA
1 ATGTAAGTTATGTATATATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
43785911 ATGTAAGTTATGTATA-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATATATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
* * * *
43785967 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-ATAATAT-TAATTAATT
1 A-T--GTAAGTTATGT-A--TATATATTA-ATTAAT-TAAGTTATGTAAT-TTATGT-A-TAA-T
* *
43786030 ACGTT
54 A-TTA
*
43786035 ATGTAATTTATGTATA-ATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATATATATT-A---ATTAATTAAGTTATGTAATTTATGTATAATATTA
** *
43786095 ATGTAAGTTATGTATA-ATATCCA-TAATTTAAGTTGTGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATATATATTAATTAA-TTAAGTTATGTAATTTATGTATAATATTA
* * *
43786151 AT-TAA-TTAAT-TA-AGT-TATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTA
1 ATGTAAGTT-ATGTATA-TATAT-TAA-TTA-AT-TAA-GTT-ATGTAATTTATGTATAATATTA
* * *
43786211 AT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATTA
1 ATGTAAGTTATGT-A--TATATATTA-ATTAAT-TAAGTTATGTAATTTATGTATAAT-ATTA
* *
43786273 AT-TAAGTTATGTA-ATTTATGT-A-TAA-T-A-TTAATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATATATAT-TAATTAATTAAGTT-ATGTAATTTATGTATAATATTA
* * * *
43786325 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-ATAATAT-TAATTAATT
1 A-T--GTAAGTTATGT-A--TATATATTA-ATTAAT-TAAGTTATGTAAT-TTATGT-A-TAA-T
* *
43786388 ACGTT
54 A-TTA
*
43786393 ATGTAATTTATGTATA-ATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATATATATT-A---ATTAATTAAGTTATGTAATTTATGTATAATATTA
43786453 AT
1 AT
43786455 TAATTGAAAA
Statistics
Matches: 428, Mismatches: 50, Indels: 128
0.71 0.08 0.21
Matches are distributed among these distances:
52 7 0.02
53 19 0.04
54 8 0.02
55 9 0.02
56 99 0.23
57 6 0.01
58 8 0.02
59 12 0.03
60 56 0.13
61 31 0.07
62 36 0.08
63 36 0.08
64 37 0.09
65 46 0.11
66 8 0.02
67 6 0.01
68 4 0.01
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.49
Consensus pattern (57 bp):
ATGTAAGTTATGTATATATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:43785936 original size:90 final size:90
Alignment explanation
Indices: 43785821--43786454 Score: 911
Period size: 94 Copynumber: 7.0 Consensus size: 90
43785811 GTTGTAAGTT
*
43785821 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
*
43785886 GTTATGTAATTTATATATAATATTA
66 GTTATGTAATTTATGTATAATATTA
43785911 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
43785976 GTTATGTAATTTATGTATAATATTA
66 GTTATGTAATTTATGTATAATATTA
*
43786001 ATGTAAGTTATGTATAATATTAATTAATTACGTTATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAA
43786066 TTAAGTTATGTAATTTATGTATAATATTA
62 TTAAGTTATGTAATTTATGTATAATATTA
** *
43786095 ATGTAAGTTATGTATAATATCCA-TAATTTAAGTTGTGTAATTTATGTATAATATTAATTAATTA
1 ATGTAAGTTATGTATAATATTAATTAA-TTAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTA
43786159 ATTAAGTTATGTAATTTATGTATAATATTA
61 ATTAAGTTATGTAATTTATGTATAATATTA
*
43786189 ATGTAAGTTATGTAT-A-A-T-ATTAATTAAGTTATGTAATTTATGTATAATATTAA-T--GTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
*
43786247 GTTATGTAATTTATGTATATTAATTA
66 GTTATGTAATTTATGTATAAT-ATTA
* *
43786273 AT-TAAGTTATG--TAAT-TT-ATGT-A-TAATATTAATGTAAGTTATGTATAATATTAATTAAT
1 ATGTAAGTTATGTATAATATTAAT-TAATTAA-GTT-ATGTAATTTATGTATAATATTAATTAAT
43786331 TAAGTTATGTAATTTATGTATAATATTA
63 TAAGTTATGTAATTTATGTATAATATTA
*
43786359 ATGTAAGTTATGTATAATATTAATTAATTACGTTATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAA
43786424 TTAAGTTATGTAATTTATGTATAATATTA
62 TTAAGTTATGTAATTTATGTATAATATTA
43786453 AT
1 AT
43786455 TAATTGAAAA
Statistics
Matches: 499, Mismatches: 18, Indels: 50
0.88 0.03 0.09
Matches are distributed among these distances:
81 1 0.00
82 4 0.01
83 38 0.08
84 29 0.06
85 2 0.00
86 11 0.02
87 33 0.07
88 1 0.00
89 5 0.01
90 175 0.35
91 10 0.02
92 5 0.01
93 6 0.01
94 179 0.36
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.49
Consensus pattern (90 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
GTTATGTAATTTATGTATAATATTA
Found at i:43786011 original size:22 final size:22
Alignment explanation
Indices: 43785979--43786024 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
43785969 TAATTAAGTT
* *
43785979 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATATATAATATTA
*
43786001 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATATATAATATTA
43786023 AT
1 AT
43786025 TAATTACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATATATAATATTA
Found at i:43786244 original size:22 final size:22
Alignment explanation
Indices: 43786219--43786331 Score: 107
Period size: 22 Copynumber: 5.4 Consensus size: 22
43786209 TAATTAAGTT
43786219 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
43786241 ATGTAAGTTATG--TAAT-TT-
1 ATGTAATTTATGTATAATATTA
* *
43786259 ATGTATATTAAT-TAATTAA-GTT-
1 ATGTA-ATTTATGT-A-TAATATTA
43786281 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
43786303 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
43786325 AT-TAATT
1 ATGTAATT
43786332 AAGTTATGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
18 5 0.07
19 6 0.08
20 7 0.09
21 12 0.16
22 45 0.60
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:43786362 original size:22 final size:22
Alignment explanation
Indices: 43786337--43786387 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
43786327 TAATTAAGTT
43786337 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
43786359 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
43786381 AT-TAATT
1 ATGTAATT
43786388 ACGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:43786723 original size:14 final size:14
Alignment explanation
Indices: 43786704--43786733 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43786694 AACAAAGCAA
43786704 AACAGACATGTAGG
1 AACAGACATGTAGG
43786718 AACAGACATGTAGG
1 AACAGACATGTAGG
43786732 AA
1 AA
43786734 ATCGTGTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.27, T:0.13
Consensus pattern (14 bp):
AACAGACATGTAGG
Found at i:43787051 original size:134 final size:134
Alignment explanation
Indices: 43786811--43787055 Score: 463
Period size: 134 Copynumber: 1.8 Consensus size: 134
43786801 TACGTGGAGA
43786811 AAAATTACTTTCAACAATTTTTACTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
1 AAAATTACTTTCAACAATTTTTACTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
43786876 AGCAGCTAAAGCATTTACCTGTAGATGCAGTTTTATACTAAATTACAGAGCTAATTACATAGTTC
66 AGCAGCTAAAGCATTTACCTGTAGATGCAGTTTTATACTAAATTACAGAGCTAATTACATAGTTC
43786941 TAAG
131 TAAG
* *
43786945 AAAATTACTTTCAACAATTTTTATTGCAACATGGAGAAAATTTTAAAAATATATAAAGAAGGAAG
1 AAAATTACTTTCAACAATTTTTACTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
*
43787010 AGCAGCTAAAGCATTTCCCTGTAGATGCAGTTTTATACTAAATTAC
66 AGCAGCTAAAGCATTTACCTGTAGATGCAGTTTTATACTAAATTAC
43787056 TCCAAAGCCT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 108 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (134 bp):
AAAATTACTTTCAACAATTTTTACTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
AGCAGCTAAAGCATTTACCTGTAGATGCAGTTTTATACTAAATTACAGAGCTAATTACATAGTTC
TAAG
Found at i:43789556 original size:15 final size:15
Alignment explanation
Indices: 43789536--43789574 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
43789526 ACCGTTGAAA
43789536 CCCTAAATTTCAAAC
1 CCCTAAATTTCAAAC
** *
43789551 CCCTAAACCTCTAAC
1 CCCTAAATTTCAAAC
43789566 CCCTAAATT
1 CCCTAAATT
43789575 AACCTTAAAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (15 bp):
CCCTAAATTTCAAAC
Found at i:43790171 original size:41 final size:41
Alignment explanation
Indices: 43790126--43790322 Score: 200
Period size: 41 Copynumber: 4.8 Consensus size: 41
43790116 AGGTAAATAC
* * *
43790126 ATTAGCGGCGCTTAGCTACAAACGCCGCTGAAGA-CAAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATC-AGAGA
* * * * *
43790167 ATTAGTGGCGCTAAGTTAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCAGAGA
* * ** *
43790208 ATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCAGAGA
* * * *
43790249 ATTAGTGTCG-TTCAGATAAAAACGCCGCGAAAGATCCGAGA
1 ATTAGCGGCGCTT-AGATAAAAACGCCGCTAAAGATCAGAGA
*
43790290 ATTAGCGGCGCTTATATAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG
43790323 GTTTAAAAAA
Statistics
Matches: 126, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
40 2 0.02
41 121 0.96
42 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCAGAGA
Found at i:43790323 original size:82 final size:82
Alignment explanation
Indices: 43790126--43790323 Score: 270
Period size: 82 Copynumber: 2.4 Consensus size: 82
43790116 AGGTAAATAC
** * * * *
43790126 ATTAGCGGCGCTTAGCTACAAACGCCGCTGAAGACAAGAGAATTAGTGGCGCTAAGTTAAAAACG
1 ATTAGCGGCGCTTATATAAAAACGCCGCTAAAGGCAAGAGAATTAGTGGCGCTAAGATAAAAACG
* *
43790191 CCGCTAAAGATCCGAGC
66 CCGCGAAAGATCCGAGA
* * * * * *
43790208 ATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAGCATTAGTGTCGTTCAGATAAAAACG
1 ATTAGCGGCGCTTATATAAAAACGCCGCTAAAGGCAAGAGAATTAGTGGCGCTAAGATAAAAACG
43790273 CCGCGAAAGATCCGAGA
66 CCGCGAAAGATCCGAGA
43790290 ATTAGCGGCGCTTATATAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTTATATAAAAACGCCGCTAAAGG
43790324 TTTAAAAAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 101 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (82 bp):
ATTAGCGGCGCTTATATAAAAACGCCGCTAAAGGCAAGAGAATTAGTGGCGCTAAGATAAAAACG
CCGCGAAAGATCCGAGA
Found at i:43790448 original size:40 final size:40
Alignment explanation
Indices: 43790381--43790476 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
43790371 CGCTTTATAT
* * *
43790381 AAAA-CGCCGCTAATTC-CTACTTTTAGCGGTGCTTCCGG-
1 AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTT-CGGC
* *
43790419 AAAATCGCCGCTGATGCTCTACCTTTAGCGGCGCTTTGGC
1 AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCGGC
*
43790459 TAAATCGCCGCTAATGCT
1 AAAATCGCCGCTAATGCT
43790477 TGATTTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 4 0.08
39 12 0.25
40 32 0.67
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (40 bp):
AAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCGGC
Found at i:43791460 original size:13 final size:13
Alignment explanation
Indices: 43791442--43791466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43791432 CCCAATTGGT
43791442 AATTGAACTTGAA
1 AATTGAACTTGAA
43791455 AATTGAACTTGA
1 AATTGAACTTGA
43791467 GATCGTAAAT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:43791740 original size:26 final size:26
Alignment explanation
Indices: 43791704--43791755 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
43791694 TTGATGATTG
43791704 AGTGGTGGAAGAATTACACTCCTACT
1 AGTGGTGGAAGAATTACACTCCTACT
43791730 AGTGGTGGAAGAATTACACTCCTACT
1 AGTGGTGGAAGAATTACACTCCTACT
43791756 TGGACTCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (26 bp):
AGTGGTGGAAGAATTACACTCCTACT
Found at i:43795885 original size:44 final size:44
Alignment explanation
Indices: 43795726--43796021 Score: 129
Period size: 44 Copynumber: 6.9 Consensus size: 44
43795716 CCCTGGGCAG
* * *
43795726 CAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCC----T-A
1 CAGTGGAATAGATTGAAGATTTCAAATTTTATCTCCCTGGTTGA
** *
43795765 -AGTGGAGA-AGATTGAAGATGGCAAATTTTACCTCCCTGTGATT-A
1 CAGTGGA-ATAGATTGAAGATTTCAAATTTTATCTCCCTG-G-TTGA
* * * * *
43795809 CAGTGGAGTACATTGAAG---CCAATAATTCTATCTCCCTGGTTGG
1 CAGTGGAATAGATTGAAGATTTC-A-AATTTTATCTCCCTGGTTGA
* **
43795852 CAGTGGAATAGATTGAAGATTTCAAATTTTATCTCCCTAAG-CAA
1 CAGTGGAATAGATTGAAGATTTCAAATTTTATCTCCCT-GGTTGA
* ** * ** * *
43795896 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTT-A
1 CAGTGGAATAGATTGAAGATTTCAAATTTTATCTCCC--TGGTTGA
* * * ** *
43795941 CAGTGGAGTACATTGAAG---CCAATAATTCCATCTCCCTGGTTGG
1 CAGTGGAATAGATTGAAGATTTC-A-AATTTTATCTCCCTGGTTGA
*
43795984 CAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCT
1 CAGTGGAATAGATTGAAGATTTCAAATTTTATCTCCCT
43796022 AAGCAGTAGT
Statistics
Matches: 186, Mismatches: 46, Indels: 45
0.67 0.17 0.16
Matches are distributed among these distances:
38 28 0.15
39 1 0.01
42 9 0.05
43 35 0.19
44 77 0.41
45 33 0.18
46 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (44 bp):
CAGTGGAATAGATTGAAGATTTCAAATTTTATCTCCCTGGTTGA
Found at i:43795960 original size:132 final size:132
Alignment explanation
Indices: 43795703--43796504 Score: 1204
Period size: 132 Copynumber: 6.1 Consensus size: 132
43795693 CTGGGAAGAT
* *
43795703 AATAATTCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCT----
1 AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* * * *
43795764 -A-AGTGGAGAAGATTGAAGATGGCAAATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
43795827 CC
131 CC
*** *
43795829 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAAATTTTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
43795894 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
43795959 CC
131 CC
* ***
43795961 AATAATTCCATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
*
43796026 AGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
43796091 CC
131 CC
* * * *
43796093 AATAATTCCATCTCCCTGGGCAGCAGTGGAATAGAATGAAGATTACAGATTTTATCTTCCTAAGC
1 AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* * *
43796158 AGTAGTGGAGCAGATCGAAGATAGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
43796223 CC
131 CC
* *
43796225 AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* *
43796290 AATAGTGGAACAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
43796355 CC
131 CC
* * *** *
43796357 AGTAATTCTATCTCACTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* * * **
43796422 AGTAGTGGAGTAGATCGAAGATGG-AGAATTTTACCTCCCTATGACTACAGTGGAGTACATTGAA
66 AATAGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
43796486 GCC
130 GCC
*
43796489 AGTAATTCTATCTCCC
1 AATAATTCTATCTCCC
43796505 CGACATTGCG
Statistics
Matches: 624, Mismatches: 45, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
126 55 0.09
131 3 0.00
132 566 0.91
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
CC
Found at i:43796033 original size:44 final size:44
Alignment explanation
Indices: 43795853--43796443 Score: 180
Period size: 44 Copynumber: 13.4 Consensus size: 44
43795843 CCTGGTTGGC
* * *
43795853 AGTGGAATAGATTGAAGATTTCAAATTTTATCTCCCTAAGCAAT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
* * ** * **
43795897 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCT--GTGGTT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAG-T
* * ** * ** *
43795940 ACAGTGGAGTACATTGAAGCCA-AT-A-ATTCCATCTCCCT-GGTTGGC
1 --AGTGGAGTAGATTGAAG--ATTTCAGATTTTATCTCCCTAAG-CAGT
*
43795985 AGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
* * ** * **
43796029 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCT--GTGGTT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAG-T
* * ** ** *
43796072 ACAGTGGAGTACATTGAAGCCA-AT-A-ATTCCATCTCCCTGGGCAGC
1 --AGTGGAGTAGATTGAAG--ATTTCAGATTTTATCTCCCTAAGCAGT
* * * *
43796117 AGTGGAATAGAATGAAGATTACAGATTTTATCTTCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
* * ** * **
43796161 AGTGGAGCAGATCGAAGATAGCAGATTTTACCTCCCT--GTGGTT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAG-T
* * * ** *
43796204 ACAGTGGAGTATATTGAAGCCA-AT-A-ATTCTATCTCCCTGGGCAGC
1 --AGTGGAGTAGATTGAAG--ATTTCAGATTTTATCTCCCTAAGCAGT
* * * *
43796249 AGTGGAATAGATTGAAGATTACAGATATTATCTCCCTAAGCAAT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
** * ** * ** *
43796293 AGTGGAACAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCT-AAG-CAGT
* * * * * ** *
43796338 AGTGGAGTACATTGAAG---CCAGTAATTCTATCTCACT-GGTTGGC
1 AGTGGAGTAGATTGAAGATTTCAG--ATTTTATCTCCCTAAG-CAGT
* *
43796381 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
*
43796425 AGTGGAGTAGATCGAAGAT
1 AGTGGAGTAGATTGAAGAT
43796444 GGAGAATTTT
Statistics
Matches: 389, Mismatches: 118, Indels: 80
0.66 0.20 0.14
Matches are distributed among these distances:
41 3 0.01
42 13 0.03
43 65 0.17
44 230 0.59
45 63 0.16
46 12 0.03
47 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGT
Found at i:43800236 original size:15 final size:15
Alignment explanation
Indices: 43800218--43800248 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43800208 TTATTATTCG
*
43800218 TTTTTGTTCATATTA
1 TTTTTGTTCACATTA
43800233 TTTTTGTTCACATTA
1 TTTTTGTTCACATTA
43800248 T
1 T
43800249 CATATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATTA
Found at i:43800491 original size:109 final size:109
Alignment explanation
Indices: 43800300--43800611 Score: 522
Period size: 109 Copynumber: 2.9 Consensus size: 109
43800290 AAAAAAAAAA
*
43800300 TCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
1 TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
*
43800365 ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAATTT
66 ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATT
* * * *
43800409 TCAAAATAAGGGAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCG
1 TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
43800474 ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATT
66 ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATT
*
43800518 TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCG
1 TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
* *
43800582 A--TTTCTCGTTTAACCAAATAGCCAAATATC
66 ATTTTTCTCGTTCAACCAAATAGCTAAATATC
43800612 ATCTTGAATT
Statistics
Matches: 190, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
106 27 0.14
108 26 0.14
109 137 0.72
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATT
Found at i:43802261 original size:23 final size:22
Alignment explanation
Indices: 43802207--43802262 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
43802197 GTATATTATT
*
43802207 TATAAAAGTT-TATATATGAAA
1 TATAAAAGTTGTTTATATGAAA
43802228 TATAAAA-TTGTTTATAT-AAA
1 TATAAAAGTTGTTTATATGAAA
43802248 TAATTAAAAGTTGTT
1 T-A-TAAAAGTTGTT
43802263 ATTTAGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.20
21 14 0.47
22 5 0.17
23 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
TATAAAAGTTGTTTATATGAAA
Done.