Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 18 of 25
Found at i:2724399 original size:27 final size:27
Alignment explanation
Indices: 2724345--2724408 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
2724335 ATTTTAAAGA
* * *
2724345 TATTAAGAAATTATTAAAATATTTATAT
1 TATTAA-AAATTAATAAAATAATAATAT
*
2724373 TATTAAAAATTAATAAAGTAATAATAT
1 TATTAAAAATTAATAAAATAATAATAT
*
2724400 T-TTATAAAT
1 TATTAAAAAT
2724409 AGTTATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.23
27 18 0.58
28 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
TATTAAAAATTAATAAAATAATAATAT
Found at i:2726580 original size:12 final size:11
Alignment explanation
Indices: 2726558--2726629 Score: 53
Period size: 12 Copynumber: 6.5 Consensus size: 11
2726548 AGAGAAAGAA
*
2726558 GAGAGAGGAGG
1 GAGATAGGAGG
2726569 GATGATAGGAGG
1 GA-GATAGGAGG
*
2726581 AGAGACAGGA--
1 -GAGATAGGAGG
*
2726591 GAGATAGTA--
1 GAGATAGGAGG
2726600 GAGATAGGAGG
1 GAGATAGGAGG
2726611 GATGATAGGAGG
1 GA-GATAGGAGG
2726623 AGAGATA
1 -GAGATA
2726630 ATAGAGAGAG
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
9 15 0.30
11 4 0.08
12 27 0.54
13 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.47, T:0.11
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2726609 original size:42 final size:42
Alignment explanation
Indices: 2726548--2726627 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
2726538 TAGCCCTCAA
2726548 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
2726590 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGA
1 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGA
2726628 TAATAGAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.44, C:0.01, G:0.46, T:0.09
Consensus pattern (42 bp):
AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2726624 original size:33 final size:33
Alignment explanation
Indices: 2726587--2726657 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2726577 GAGGAGAGAC
* * *
2726587 AGGAGAGATAGTAGAGATAGGAGGGATGATAGG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
2726620 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
2726653 AGGAG
1 AGGAG
2726658 GAGAGAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.01, G:0.46, T:0.11
Consensus pattern (33 bp):
AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
Found at i:2726636 original size:42 final size:42
Alignment explanation
Indices: 2726548--2726636 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
2726538 TAGCCCTCAA
*
2726548 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
* * * * *
2726590 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAAT
1 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
2726632 AGAGA
1 AGAGA
2726637 GAGGAGGGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.45, C:0.01, G:0.44, T:0.10
Consensus pattern (42 bp):
AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAAG
Found at i:2731868 original size:29 final size:29
Alignment explanation
Indices: 2731803--2731877 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
2731793 TAATATTATA
* *
2731803 AATATTCTTAATATTTTACTAATAAATAT
1 AATATTTTTAATATTTTACTAATAAATAC
* * *
2731832 TATTTTTTTAATATTTATATTAATAAA-AC
1 AATATTTTTAATATTT-TACTAATAAATAC
2731861 AATATTTTCATAATATT
1 AATATTTT--TAATATT
2731878 GTTATTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
29 20 0.56
30 9 0.25
31 7 0.19
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (29 bp):
AATATTTTTAATATTTTACTAATAAATAC
Found at i:2733358 original size:16 final size:15
Alignment explanation
Indices: 2733333--2733378 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
2733323 TCTGAATTCG
*
2733333 AAAATAATCCGAATCC
1 AAAATGATCCGAA-CC
2733349 AAAATGATCCGAACC
1 AAAATGATCCGAACC
2733364 AGAAATGATCCGAAC
1 A-AAATGATCCGAAC
2733379 TTAAAGTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 3 0.11
16 25 0.89
ACGTcount: A:0.48, C:0.24, G:0.13, T:0.15
Consensus pattern (15 bp):
AAAATGATCCGAACC
Found at i:2736648 original size:3 final size:3
Alignment explanation
Indices: 2736640--2736684 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
2736630 ACCAGAATAA
* *
2736640 TTC TTC TTC ATC ATC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2736685 ATTTGGTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:2739948 original size:2 final size:2
Alignment explanation
Indices: 2739941--2739973 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2739931 CGTTGGTATT
2739941 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2739974 ACGGAGTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2743995 original size:2 final size:2
Alignment explanation
Indices: 2743988--2744012 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2743978 ATACATTACA
2743988 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2744013 AAATAAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2750839 original size:20 final size:20
Alignment explanation
Indices: 2750816--2750856 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2750806 AAAAAAAAAG
*
2750816 AGAACAAAGAAAAAAAGGAA
1 AGAAAAAAGAAAAAAAGGAA
*
2750836 AGAAAAAAGACAAAAAGGAA
1 AGAAAAAAGAAAAAAAGGAA
2750856 A
1 A
2750857 TAGCTATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.76, C:0.05, G:0.20, T:0.00
Consensus pattern (20 bp):
AGAAAAAAGAAAAAAAGGAA
Found at i:2751676 original size:59 final size:57
Alignment explanation
Indices: 2751609--2751758 Score: 169
Period size: 58 Copynumber: 2.5 Consensus size: 57
2751599 GTATTTTAAA
2751609 GCCATTTAAGTTATTTTACAAAATTTAGTGTCACTTTAGCATTTTCCATGCATGTAAGG
1 GCCATTTAAG-TATTTTACAAAATTTAG-GTCACTTTAGCATTTTCCATGCATGTAAGG
* * * * * *
2751668 GCCATTTAAG-ATTTTTACATAATCTAGGAGCACTTTAGCATTTTTCATGTATGTTAGG
1 GCCATTTAAGTA-TTTTACAAAATTTAGG-TCACTTTAGCATTTTCCATGCATGTAAGG
2751726 GCCATTTAGAGTATTTTA-AATAATTTAGAGTCA
1 GCCATTTA-AGTATTTTACAA-AATTTAG-GTCA
2751759 TTTTGGAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
57 2 0.03
58 47 0.62
59 25 0.33
60 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (57 bp):
GCCATTTAAGTATTTTACAAAATTTAGGTCACTTTAGCATTTTCCATGCATGTAAGG
Found at i:2751733 original size:29 final size:29
Alignment explanation
Indices: 2751643--2751734 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
2751633 TTAGTGTCAC
* * *
2751643 TTTAGCATTTTCCATGCATGTAAGGGCCA
1 TTTAGCATTTTTCATGAATGTTAGGGCCA
*
2751672 TTTAAG-ATTTTTACAT-AAT-CTAGGAG-CA
1 TTT-AGCATTTTT-CATGAATGTTAGG-GCCA
*
2751700 CTTTAGCATTTTTCATGTATGTTAGGGCCA
1 -TTTAGCATTTTTCATGAATGTTAGGGCCA
2751730 TTTAG
1 TTTAG
2751735 AGTATTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
28 10 0.20
29 28 0.57
30 11 0.22
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (29 bp):
TTTAGCATTTTTCATGAATGTTAGGGCCA
Found at i:2752061 original size:78 final size:78
Alignment explanation
Indices: 2751861--2752072 Score: 246
Period size: 78 Copynumber: 2.7 Consensus size: 78
2751851 AGTTTCTAAA
* * * * * *
2751861 GTCATGTGAAAACTTTCATGTTGAAACATTTTTATTAGATTTATTTAGGTAATATTGCATCAATG
1 GTCATGTGAGAACTTTCATGTCGAAACATATTTATTAGAATTATTTAAGTAATATTGCATCAATA
2751926 CCAAGTCTTTAGG
66 CCAAGTCTTTAGG
* * * ** * * * *
2751939 GTCATGTG-GAAACCTTCACGTCAAAACATATCCACTAGAATTATTTAAATAATATTGTATTAAT
1 GTCATGTGAG-AACTTTCATGTCGAAACATATTTATTAGAATTATTTAAGTAATATTGCATCAAT
2752003 ACCAAGTCTTTAGG
65 ACCAAGTCTTTAGG
* **
2752017 TTCATGTGAGAACTTTCATGTCGAAACATATTTATTAGGGTTATTTAAGTAATATT
1 GTCATGTGAGAACTTTCATGTCGAAACATATTTATTAGAATTATTTAAGTAATATT
2752073 ACATGCTATA
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
78 106 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (78 bp):
GTCATGTGAGAACTTTCATGTCGAAACATATTTATTAGAATTATTTAAGTAATATTGCATCAATA
CCAAGTCTTTAGG
Found at i:2756788 original size:29 final size:29
Alignment explanation
Indices: 2756756--2756888 Score: 153
Period size: 29 Copynumber: 4.6 Consensus size: 29
2756746 AGGGTTAATA
* *
2756756 TGTAATTTTAAAAAGTTCAAAAATCAAAG
1 TGTAATTTTGAAAAGTTCAAAAGTCAAAG
*** *
2756785 TGTAATTTTGAAAAGTTCAGGGGTCAAAA
1 TGTAATTTTGAAAAGTTCAAAAGTCAAAG
* *
2756814 CGTAATTTTGAAAAGTTCAAAGGTCAATA-
1 TGTAATTTTGAAAAGTTCAAAAGTCAA-AG
*
2756843 TGTAATTTTGAAAAGTTC-AAAGTACAATG
1 TGTAATTTTGAAAAGTTCAAAAGT-CAAAG
2756872 TGTAATTTTGAAAAGTT
1 TGTAATTTTGAAAAGTT
2756889 TAGGGACTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
28 4 0.04
29 84 0.94
30 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (29 bp):
TGTAATTTTGAAAAGTTCAAAAGTCAAAG
Found at i:2770470 original size:37 final size:37
Alignment explanation
Indices: 2770352--2770472 Score: 109
Period size: 38 Copynumber: 3.2 Consensus size: 37
2770342 AATTGGTTTC
* * * *
2770352 AAACTGTGCTACCATTTAAGAATAGTGGTTTTTATTTT
1 AAACTGTGCTACTAGTTAAAAATAGTAG-TTTTATTTT
* * * * * *
2770390 AAACCGTTCTACTAGTTTAAAATAGTGATTTTTGTTCT
1 AAACTGTGCTACTAGTTAAAAATAGT-AGTTTTATTTT
2770428 AAACTGTGCTACT-GATTAAAAATAGTAGTTTTATTTT
1 AAACTGTGCTACTAG-TTAAAAATAGTAGTTTTATTTT
*
2770465 GAACTGTG
1 AAACTGTG
2770473 TCATCAGTTA
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
37 16 0.25
38 48 0.75
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.43
Consensus pattern (37 bp):
AAACTGTGCTACTAGTTAAAAATAGTAGTTTTATTTT
Found at i:2770626 original size:17 final size:17
Alignment explanation
Indices: 2770604--2770639 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2770594 TTGATAAACC
*
2770604 TGATTTTGAAAATAATA
1 TGATTTCGAAAATAATA
*
2770621 TGATTTCGAAAGTAATA
1 TGATTTCGAAAATAATA
2770638 TG
1 TG
2770640 TTTATTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.39
Consensus pattern (17 bp):
TGATTTCGAAAATAATA
Found at i:2776807 original size:88 final size:88
Alignment explanation
Indices: 2776691--2776891 Score: 393
Period size: 88 Copynumber: 2.3 Consensus size: 88
2776681 TAAGCAATAA
2776691 AAACTAGGAGATCCTGTTGTTGGAGCAATAAAAAGAGAAATAGAAACTACACAATTCAATTGGTA
1 AAACTAGGAGATCCTGTTGTTGGAGCAATAAAAAGAGAAATAGAAACTACACAATTCAATTGGTA
2776756 ATGAGCAGAGGGATTCAAATCCG
66 ATGAGCAGAGGGATTCAAATCCG
2776779 AAACTAGGAGATCCTGTTGTTGGAGCAATAAAAAGAGAAATAGAAACTACACAATTCAATTGGTA
1 AAACTAGGAGATCCTGTTGTTGGAGCAATAAAAAGAGAAATAGAAACTACACAATTCAATTGGTA
2776844 ATGAGCAGAGGGATTCAAATCCG
66 ATGAGCAGAGGGATTCAAATCCG
*
2776867 AAACTAGGAGATCCTGTGGTTGGAG
1 AAACTAGGAGATCCTGTTGTTGGAG
2776892 TGATTTGATC
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 112 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (88 bp):
AAACTAGGAGATCCTGTTGTTGGAGCAATAAAAAGAGAAATAGAAACTACACAATTCAATTGGTA
ATGAGCAGAGGGATTCAAATCCG
Found at i:2786406 original size:16 final size:16
Alignment explanation
Indices: 2786363--2786434 Score: 67
Period size: 16 Copynumber: 4.4 Consensus size: 16
2786353 TTATTATAAA
2786363 AAAATATTTAAAAA-AGT
1 AAAA-ATTTAAAAATA-T
*
2786380 TAAAATGTTAAAAATAT
1 AAAAAT-TTAAAAATAT
* *
2786397 ATATATTT-AAAATAAT
1 AAAAATTTAAAAAT-AT
2786413 AAAAATTTAAAAATAT
1 AAAAATTTAAAAATAT
2786429 AAAAAT
1 AAAAAT
2786435 AATATAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 5 0.11
16 20 0.44
17 19 0.42
18 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAAATTTAAAAATAT
Found at i:2786423 original size:32 final size:33
Alignment explanation
Indices: 2786366--2786429 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2786356 TTATAAAAAA
*
2786366 ATATTTAAAAAAGTTAAAATGTTAAAAATATAT
1 ATATTTAAAAAAGTAAAAATGTTAAAAATATAT
2786399 ATATTTAAAATAA-TAAAAAT-TTAAAAATATA
1 ATATTTAAAA-AAGTAAAAATGTTAAAAATATA
2786430 AAAATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 11 0.38
33 16 0.55
34 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (33 bp):
ATATTTAAAAAAGTAAAAATGTTAAAAATATAT
Found at i:2786537 original size:20 final size:20
Alignment explanation
Indices: 2786477--2786594 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 20
2786467 AAATCATAAA
*
2786477 AATTTAAATTTTAAAACTTTAT
1 AATTTAAATTGTAAAA--TTAT
*
2786499 AATTTAAGTTGTAAAATTAT
1 AATTTAAATTGTAAAATTAT
*
2786519 ATTTTAAATT-TAAATATTACAT
1 AATTTAAATTGTAAA-ATT--AT
* ** *
2786541 AAATTTAAAGTTTTTAACTTTGT
1 -AATTTAAA--TTGTAAAATTAT
*
2786564 AATTTAAATTGTCAAATTAT
1 AATTTAAATTGTAAAATTAT
2786584 AATTTTAAATT
1 AA-TTTAAATT
2786595 AAAAATTAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
19 4 0.05
20 24 0.32
21 8 0.11
22 24 0.32
23 8 0.11
25 4 0.05
26 3 0.04
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (20 bp):
AATTTAAATTGTAAAATTAT
Found at i:2786560 original size:65 final size:65
Alignment explanation
Indices: 2786476--2786602 Score: 177
Period size: 65 Copynumber: 2.0 Consensus size: 65
2786466 TAAATCATAA
* *
2786476 AAATTTAAATTTTAAAACTTTATAATTTAAGTTGTAAAATTAT-ATTTTAAATTTAAATATTACA
1 AAATTTAAATTTTAAAACTTTATAATTTAAATTGTAAAATTATAATTTTAAA-TTAAAAATTACA
2786540 T
65 T
* * *
2786541 AAATTTAAAGTTTT-TAACTTTGTAATTTAAATTGTCAAATTATAATTTTAAATTAAAAATTA
1 AAATTTAAA-TTTTAAAACTTTATAATTTAAATTGTAAAATTATAATTTTAAATTAAAAATTA
2786603 AAAATTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 43 0.78
66 12 0.22
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (65 bp):
AAATTTAAATTTTAAAACTTTATAATTTAAATTGTAAAATTATAATTTTAAATTAAAAATTACAT
Found at i:2788867 original size:2 final size:2
Alignment explanation
Indices: 2788860--2788891 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2788850 TTAAAAGGCA
2788860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2788892 GCAAGCACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2789827 original size:25 final size:25
Alignment explanation
Indices: 2789770--2789828 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
2789760 AGTCATATTT
* *
2789770 AATTAAAATTTTATTGAAATATAAA
1 AATTAAAATATTATTAAAATATAAA
**
2789795 AACAAAAATATT-TTAAATATATAAA
1 AATTAAAATATTATTAAA-ATATAAA
2789820 AATTAAAAT
1 AATTAAAAT
2789829 TAAACATATC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
AATTAAAATATTATTAAAATATAAA
Found at i:2790779 original size:17 final size:16
Alignment explanation
Indices: 2790738--2790811 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
2790728 TTTCGAATCC
* *
2790738 AGATTATTTTGGGTTT
1 AGATCATTTCGGGTTT
*
2790754 AGGTCATTTCGGGTTT
1 AGATCATTTCGGGTTT
* *
2790770 AAGATCATTTCGGATTC
1 -AGATCATTTCGGGTTT
* *
2790787 AGGTCAATTT-GAGTTT
1 AGATC-ATTTCGGGTTT
2790803 AGATCATTT
1 AGATCATTT
2790812 TAGATGCAAG
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
15 4 0.09
16 24 0.53
17 17 0.38
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (16 bp):
AGATCATTTCGGGTTT
Found at i:2791229 original size:17 final size:17
Alignment explanation
Indices: 2791209--2791242 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2791199 TTTTTTAATT
2791209 TATTATTCCTTTTAAAA
1 TATTATTCCTTTTAAAA
**
2791226 TATTATTTTTTTTAAAA
1 TATTATTCCTTTTAAAA
2791243 AAAATCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTCCTTTTAAAA
Found at i:2791981 original size:38 final size:35
Alignment explanation
Indices: 2791929--2792003 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 35
2791919 TAATTAGTAT
* *
2791929 TTAATAAGTTTATAAATGTTACGTAAGTTCTTTTTTAG
1 TTAATAAGTCTATAAATCTTACGTAA--T-TTTTTTAG
*
2791967 TTAATAAGTCTATAAATCTTATGTAATTTTTTTAG
1 TTAATAAGTCTATAAATCTTACGTAATTTTTTTAG
2792002 TT
1 TT
2792004 TTTAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 10 0.29
36 1 0.03
38 23 0.68
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (35 bp):
TTAATAAGTCTATAAATCTTACGTAATTTTTTTAG
Found at i:2792891 original size:46 final size:46
Alignment explanation
Indices: 2792802--2792901 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 46
2792792 AATCATTAAC
* * * *
2792802 TTTTCAAAAATTATATCAGCTTAGGTATCAAAATATAATTTTTATT
1 TTTTCAAAAATTATACCAACTTAGGTATCAAAATAGAACTTTTATT
* * * *
2792848 TTTTCAAAAATTATACCAACTTAGGTATCCAATTGGACCTTTTATT
1 TTTTCAAAAATTATACCAACTTAGGTATCAAAATAGAACTTTTATT
2792894 TTTATCAA
1 TTT-TCAA
2792902 TATTCATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 41 0.91
47 4 0.09
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (46 bp):
TTTTCAAAAATTATACCAACTTAGGTATCAAAATAGAACTTTTATT
Found at i:2794880 original size:16 final size:16
Alignment explanation
Indices: 2794861--2794906 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
2794851 ACCCGAACCT
*
2794861 AAAATGACTCAAACTC
1 AAAATGACCCAAACTC
*
2794877 AAAATGACCCAAATTC
1 AAAATGACCCAAACTC
* *
2794893 GAAATGATCCAAAC
1 AAAATGACCCAAAC
2794907 CCGAACTAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (16 bp):
AAAATGACCCAAACTC
Found at i:2794911 original size:16 final size:16
Alignment explanation
Indices: 2794840--2794911 Score: 54
Period size: 16 Copynumber: 4.5 Consensus size: 16
2794830 AAATAACTTG
* *
2794840 AACCCGAAATAACCCG
1 AACCCGAAATGACCCA
** *
2794856 AACCTAAAATGACTCA
1 AACCCGAAATGACCCA
* *
2794872 AACTCAAAATGACCCA
1 AACCCGAAATGACCCA
** *
2794888 AATTCGAAATGATCCA
1 AACCCGAAATGACCCA
2794904 AACCCGAA
1 AACCCGAA
2794912 CTAGTTCGAA
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.47, C:0.29, G:0.10, T:0.14
Consensus pattern (16 bp):
AACCCGAAATGACCCA
Found at i:2796056 original size:19 final size:18
Alignment explanation
Indices: 2796032--2796093 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
2796022 TGTATCGATA
*
2796032 CATTGTATCAATACATGC
1 CATTGTATCGATACATGC
2796050 TCATTGTATCGATACATAGAC
1 -CATTGTATCGATACAT-G-C
*
2796071 AATTGTATCGATACATGC
1 CATTGTATCGATACATGC
*
2796089 GATTG
1 CATTG
2796094 GCAATAGCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 5 0.13
19 16 0.42
20 16 0.42
21 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (18 bp):
CATTGTATCGATACATGC
Found at i:2796155 original size:13 final size:13
Alignment explanation
Indices: 2796137--2796198 Score: 80
Period size: 13 Copynumber: 5.2 Consensus size: 13
2796127 CATGGGACAA
*
2796137 TGTATCAATACAT
1 TGTATCGATACAT
2796150 TGTATCGATACAT
1 TGTATCGATACAT
2796163 TGTATCGATACA-
1 TGTATCGATACAT
2796175 TG-AT-GA-A-AT
1 TGTATCGATACAT
2796184 TGTATCGATACAT
1 TGTATCGATACAT
2796197 TG
1 TG
2796199 CTTATAACGG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
8 1 0.02
9 3 0.07
10 4 0.09
11 4 0.09
12 3 0.07
13 28 0.65
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2797765 original size:3 final size:3
Alignment explanation
Indices: 2797759--2797789 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2797749 TGAAGAAGAA
2797759 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
2797790 GTGACTCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:2798414 original size:20 final size:21
Alignment explanation
Indices: 2798378--2798416 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2798368 GATATTAAAA
*
2798378 AATTGGCTAATGAAAATAATG
1 AATTAGCTAATGAAAATAATG
2798399 AATTAGCTAA-GAAAATAA
1 AATTAGCTAATGAAAATAA
2798417 AACTTGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (21 bp):
AATTAGCTAATGAAAATAATG
Found at i:2800201 original size:13 final size:13
Alignment explanation
Indices: 2800183--2800208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2800173 CAATTTTTTA
2800183 TGTATCGATACAT
1 TGTATCGATACAT
2800196 TGTATCGATACAT
1 TGTATCGATACAT
2800209 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2802780 original size:13 final size:13
Alignment explanation
Indices: 2802762--2802800 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2802752 ATAATCCTCC
*
2802762 TGTATCGATACAG
1 TGTATCGATACAA
2802775 TGTATCGATACAA
1 TGTATCGATACAA
2802788 TGTATCGATACAA
1 TGTATCGATACAA
2802801 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2812276 original size:13 final size:13
Alignment explanation
Indices: 2812258--2812285 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2812248 ACAACATTCC
2812258 TTGTATCGATACA
1 TTGTATCGATACA
2812271 TTGTATCGATACA
1 TTGTATCGATACA
2812284 TT
1 TT
2812286 AGGTACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2814834 original size:20 final size:19
Alignment explanation
Indices: 2814790--2814920 Score: 76
Period size: 20 Copynumber: 6.8 Consensus size: 19
2814780 GTATCAATAC
*
2814790 ATTGTATCGATACATG-CTC
1 ATTGTATCGATACATGAC-A
2814809 ATTGTATCGATACATAGACA
1 ATTGTATCGATACAT-GACA
* *
2814829 ATTGTATTGATACATGA-G
1 ATTGTATCGATACATGACA
* * *
2814847 ATTG--GC-AGTATATCACTA
1 ATTGTATCGA-TACATGAC-A
*
2814865 TTTGTATCGATACATGGGACA
1 ATTGTATCGATACAT--GACA
*
2814886 A-TGTATCGATACATGATGAA
1 ATTGTATCGATACATGA--CA
2814906 ATTGTATCGATACAT
1 ATTGTATCGATACAT
2814921 ATTGCTTATA
Statistics
Matches: 85, Mismatches: 14, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
15 1 0.01
16 5 0.06
18 9 0.11
19 17 0.20
20 35 0.41
21 16 0.19
22 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:2814913 original size:21 final size:21
Alignment explanation
Indices: 2814866--2814920 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
2814856 ATATCACTAT
2814866 TTGTATCGATACATGGGACAA
1 TTGTATCGATACATGGGACAA
*
2814887 -TGTATCGATACATGATGA-AA
1 TTGTATCGATACATG-GGACAA
2814907 TTGTATCGATACAT
1 TTGTATCGATACAT
2814921 ATTGCTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATGGGACAA
Found at i:2815180 original size:60 final size:60
Alignment explanation
Indices: 2815087--2815207 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
2815077 CAGCATTCAA
2815087 ACCTATAAATATGAGTTTCCAACAGCTGAAATGAAAGAGAATCAACCAAGAGACACAAAG
1 ACCTATAAATATGAGTTTCCAACAGCTGAAATGAAAGAGAATCAACCAAGAGACACAAAG
*
2815147 ACCTATAAATATGAGTTTCCAACAGTTGAAATGAAAGAGAATCAACCAAGAGACACAAAG
1 ACCTATAAATATGAGTTTCCAACAGCTGAAATGAAAGAGAATCAACCAAGAGACACAAAG
2815207 A
1 A
2815208 GTTCAAGCTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (60 bp):
ACCTATAAATATGAGTTTCCAACAGCTGAAATGAAAGAGAATCAACCAAGAGACACAAAG
Found at i:2816427 original size:20 final size:20
Alignment explanation
Indices: 2816402--2816455 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2816392 GGTAGAAGCA
* *
2816402 ATGTATCGATACAAT-TCATC
1 ATGTATCAATACAATAT-ACC
*
2816422 ATGTATCTATACAATATACC
1 ATGTATCAATACAATATACC
2816442 ATGTATCAATACAA
1 ATGTATCAATACAA
2816456 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (20 bp):
ATGTATCAATACAATATACC
Found at i:2816528 original size:19 final size:20
Alignment explanation
Indices: 2816485--2816534 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
2816475 TACCAATTTT
**
2816485 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAATTGAAC
2816505 ATGTATCGATACAA-TGAAC
1 ATGTATCGATACAATTGAAC
2816524 ATGTATCGATA
1 ATGTATCGATA
2816535 TCGATACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTGAAC
Found at i:2825155 original size:13 final size:13
Alignment explanation
Indices: 2825137--2825161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2825127 ATTCATCATG
2825137 TATCGATACAATT
1 TATCGATACAATT
2825150 TATCGATACAAT
1 TATCGATACAAT
2825162 ATACCATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TATCGATACAATT
Found at i:2825165 original size:20 final size:20
Alignment explanation
Indices: 2825142--2825180 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2825132 TCATGTATCG
* *
2825142 ATACAATTTATCGATACAAT
1 ATACAATGTATCAATACAAT
*
2825162 ATACCATGTATCAATACAA
1 ATACAATGTATCAATACAA
2825181 ATAGTGGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (20 bp):
ATACAATGTATCAATACAAT
Found at i:2825252 original size:18 final size:20
Alignment explanation
Indices: 2825209--2825258 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
2825199 CTGCCAGTTT
* *
2825209 CATGTATTGATACAATTATC
1 CATGTATCGATACAATTATA
2825229 CATGTATCGATA-AATTA-A
1 CATGTATCGATACAATTATA
2825247 CATGTATCGATA
1 CATGTATCGATA
2825259 TAATGTATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.43
19 5 0.18
20 11 0.39
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACAATTATA
Found at i:2825731 original size:16 final size:16
Alignment explanation
Indices: 2825686--2825753 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
2825676 GCCTAAACTC
* * *
2825686 GAAATGACTCAAACCC
1 GAAATGACCCGAACCT
**
2825702 GAAATGATTCGAACCT
1 GAAATGACCCGAACCT
* *
2825718 GAAGTGACCTGAACCT
1 GAAATGACCCGAACCT
*
2825734 AAAATGACCCGAACCT
1 GAAATGACCCGAACCT
2825750 GAAA
1 GAAA
2825754 ATAACTTGAA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (16 bp):
GAAATGACCCGAACCT
Found at i:2830493 original size:22 final size:23
Alignment explanation
Indices: 2830465--2830520 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
2830455 TGGACATGTT
2830465 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
2830487 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
2830510 AAAAATGCATG
1 AAAAATGCATG
2830521 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:2831478 original size:20 final size:20
Alignment explanation
Indices: 2831431--2831505 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2831421 AAAAAGACAT
*
2831431 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2831450 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2831471 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
2831491 AATGTATCGATACAT
1 AATGTATCGATACAT
2831506 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2831499 original size:40 final size:39
Alignment explanation
Indices: 2831428--2831505 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2831418 GGTAAAAAGA
* *
2831428 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2831467 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2831506 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2832037 original size:32 final size:32
Alignment explanation
Indices: 2831988--2833549 Score: 2667
Period size: 32 Copynumber: 48.8 Consensus size: 32
2831978 AAAATGGTGA
* * ** *
2831988 TTTGAAAAGGGTTGCCACTGACTTGCATAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2832020 TTTTAAATGGGTTGCCACCGACTTGTGTGCGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2832052 TTTGAAATGAGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2832084 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2832116 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2832148 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2832180 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2832212 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832244 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832276 TTTGAAATGGGTTGCCACCGGCTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2832308 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832340 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832372 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832404 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832436 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832468 TTTGAAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2832500 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832532 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832564 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2832596 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832628 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832660 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832692 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832724 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2832756 TTTGAAATAGGTTGCCACCGCCTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2832788 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832820 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832852 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832884 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832916 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2832948 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2832980 TTTGAAATAGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2833012 TTTGAAATAGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2833044 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833076 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2833108 TTTGGAATGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2833140 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833172 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833204 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2833236 TTTGGAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833268 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833300 TTTGAAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2833332 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833364 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833396 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833428 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
2833460 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
2833492 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
2833524 TTTGAAATGGG-TGCCACGGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
2833550 GATTTAAAAG
Statistics
Matches: 1460, Mismatches: 70, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
31 13 0.01
32 1447 0.99
ACGTcount: A:0.15, C:0.19, G:0.35, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:2833566 original size:27 final size:27
Alignment explanation
Indices: 2833532--2834242 Score: 1120
Period size: 27 Copynumber: 26.0 Consensus size: 27
2833522 GCTTTGAAAT
*
2833532 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2833559 GGATGCCACGGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
*
2833587 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2833614 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
2833642 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2833669 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2833696 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2833723 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2833750 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
2833777 GGGTGCCACAAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2833804 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2833831 GAGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
2833859 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
2833887 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2833914 GGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
2833942 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
2833970 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2833997 GGGTGCCACGGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
2834025 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2834051 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* **
2834079 GAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2834106 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
2834133 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
2834161 GAGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
2834189 GAGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
2834216 GGGTGCCACAGAGTTGT-GACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
2834243 AGAAATGCCA
Statistics
Matches: 635, Mismatches: 38, Indels: 22
0.91 0.05 0.03
Matches are distributed among these distances:
26 9 0.01
27 392 0.62
28 229 0.36
29 5 0.01
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:2833916 original size:110 final size:109
Alignment explanation
Indices: 2833534--2834242 Score: 1131
Period size: 110 Copynumber: 6.5 Consensus size: 109
2833524 TTTGAAATGG
* *
2833534 GTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGGGTGCCACGGA
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGA
* * *
2833599 GTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGAC-TTAAAAGG
65 GTTGTGGACTTAAAAGAG-TGCCACGGAGTTGTGGACTTTAAAAGA
*
2833644 GTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2833709 TTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAG-
66 TTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGA
**
2833752 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
2833817 TTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGAC-TTAAAAGG
66 TTGTGGACTTAAAAGAG-TGCCACGGAGTTGTGGACTTTAAAAGA
2833861 GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
1 G-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
*
2833926 GTTGTGGACTTAAAGAGGGTGCCACGGAGTTGTGGACTTTAAAAGA
65 GTTGTGGACTTAAA-AGAGTGCCACGGAGTTGTGGACTTTAAAAGA
* * * *
2833972 GCGCTACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGA
*
2834036 GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGA
65 GTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGA
**
2834081 GTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
2834146 TTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGA
66 TTGTGGAC-TTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGA
* *
2834191 GTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACAGAGTTGT-GACTTCAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAA
2834243 AGAAATGCCA
Statistics
Matches: 560, Mismatches: 29, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
108 108 0.19
109 154 0.28
110 282 0.50
111 16 0.03
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.23
Consensus pattern (109 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
TTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGA
Found at i:2833921 original size:137 final size:135
Alignment explanation
Indices: 2833532--2834242 Score: 1115
Period size: 137 Copynumber: 5.2 Consensus size: 135
2833522 GCTTTGAAAT
*
2833532 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
* *
2833597 GAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGA
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
2833662 CTTAAAA
129 CTTAAAA
* *
2833669 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* **
2833734 AGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGACT
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
2833799 TAAAA
131 TAAAA
2833804 GGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCAC
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGTGGACTTAAAAGGG-TGCCAC
2833869 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
2833934 CTTAAAGA
129 CTTAAA-A
2833942 GGGTGCCACGGAGTTGTGGACTTTAAAA-GA-GCGCTACGGAGTTGTGGACTTAAAAGGGTGCCA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGC-C-ACGGAGTTGTGGACTTAAAAGGGTGCCA
* *
2834005 CGGAGTTGTGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
63 CGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
2834069 GACTTTAAAA
127 GAC-TTAAAA
* ** *
2834079 GAGTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
2834144 AGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGA
66 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGA
*
2834209 TTTAAAA
129 CTTAAAA
*
2834216 GGGTGCCACAGAGTTGT-GACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
2834243 AGAAATGCCA
Statistics
Matches: 535, Mismatches: 26, Indels: 26
0.91 0.04 0.04
Matches are distributed among these distances:
135 78 0.15
136 116 0.22
137 253 0.47
138 82 0.15
139 6 0.01
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.23
Consensus pattern (135 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TAAAA
Found at i:2841788 original size:22 final size:23
Alignment explanation
Indices: 2841760--2841815 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
2841750 TGGACATGTT
2841760 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
2841782 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
2841805 AAAAATGCATG
1 AAAAATGCATG
2841816 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:2842773 original size:20 final size:20
Alignment explanation
Indices: 2842726--2842800 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2842716 AAAAAGACAT
*
2842726 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2842745 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2842766 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
2842786 AATGTATCGATACAT
1 AATGTATCGATACAT
2842801 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2842794 original size:40 final size:39
Alignment explanation
Indices: 2842723--2842800 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2842713 GGTAAAAAGA
* *
2842723 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2842762 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2842801 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2847769 original size:20 final size:21
Alignment explanation
Indices: 2847746--2847787 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2847736 CCTTTTTTCT
2847746 TTTTTTTTGTTTCCT-TTTAA
1 TTTTTTTTGTTTCCTATTTAA
* *
2847766 TTTTTTTTTTTTGCTATTTAA
1 TTTTTTTTGTTTCCTATTTAA
2847787 T
1 T
2847788 GATTAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTTTTTGTTTCCTATTTAA
Found at i:2847769 original size:21 final size:21
Alignment explanation
Indices: 2847745--2847787 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2847735 CCCTTTTTTC
2847745 TTTTTTTTTGTTTCCT-TTTAA
1 TTTTTTTTT-TTTCCTATTTAA
*
2847766 TTTTTTTTTTTTGCTATTTAA
1 TTTTTTTTTTTTCCTATTTAA
2847787 T
1 T
2847788 GATTAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTTTCCTATTTAA
Found at i:2848340 original size:28 final size:28
Alignment explanation
Indices: 2848306--2848860 Score: 480
Period size: 28 Copynumber: 19.5 Consensus size: 28
2848296 TCAACTTGTA
* *
2848306 TGGGCTTTGAAAGGATGCCACTAACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
** *
2848334 TGGGCTTTGAAAATATGCCACTTACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
2848362 TAGACTTT-AAAAGAGTGCCACTGACATG
1 TGGGCTTTGAAAGGA-TGCCACTGACTTG
* * * * *
2848390 TGGGCTTTAAAAAGATACCACTAACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
2848418 TGGGCTTTGAAAAGG-TGCCTCTAACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTG
* **
2848446 TGGGCTTTGAAAAGGGTTGCCACCAACTTG
1 TGGGCTTTG-AAA-GGATGCCACTGACTTG
* *
2848476 TGGGCTTTGAAAAGGGTTGCCACTGATTTG
1 TGGGCTTTG-AAA-GGATGCCACTGACTTG
* **
2848506 TGGGCATTGAAAAAATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
2848534 TGGGCTTTGAGAATG-TGCCACTAACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
* * * *
2848562 TGGGTTTTGAGAAAG-TGCCACTGACCTA
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
*
2848590 TGGGCTTTGAAAAGTGTTGCCACTGACTTG
1 TGGGCTTTG-AAAG-GATGCCACTGACTTG
* * *
2848620 TGGGCTTTGAGAA-AATGCTATTGACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
*
2848648 TGCGCTTTGAGAAGG-TGCCACTGACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
2848676 TGGGCTTTGAGAAGG-TGCCACTGACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
* * *
2848704 TGGGCTTTGAAAAGGGTTGCCACTAACTTA
1 TGGGCTTTG-AAA-GGATGCCACTGACTTG
*
2848734 TGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
2848762 TGGGCTTTGAAAAGATACCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
2848790 TGGGTTTTGAAATGG-TGCCACTAACTTG
1 TGGGCTTTGAAA-GGATGCCACTGACTTG
*
2848818 TGGGCTTTGAAAAGGGTTGCCACTGA-TTG
1 TGGGCTTTG-AAA-GGATGCCACTGACTTG
2848847 TGGGCTTTGGAAAG
1 TGGGCTTT-GAAAG
2848861 AAGTCGCATT
Statistics
Matches: 443, Mismatches: 66, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
27 5 0.01
28 295 0.67
29 46 0.10
30 97 0.22
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:2848394 original size:56 final size:57
Alignment explanation
Indices: 2848306--2848861 Score: 572
Period size: 56 Copynumber: 9.8 Consensus size: 57
2848296 TCAACTTGTA
* * * * *
2848306 TGGGCTTTG-AAAGGATGCCACTAACTTATGGGCTTTGAAAATATGCCACTTACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
* * * * * * *
2848362 TAGACTTT-AAAAGAGTGCCACTGACATGTGGGCTTTAAAAAGATACCACTAACTTA
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
* * * *
2848418 TGGGCTTTGAAAA-GGTGCCTCTAACTTGTGGGCTTTGAAAAGGGTTGCCACCAACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA--GATGCCACTAACTTG
* * * *
2848476 TGGGCTTTGAAAAGGGTTGCCACTGATTTGTGGGCATTGAAAAAATGCCACTGACTTG
1 TGGGCTTTGAAAAGGG-TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
* * * * * * *
2848534 TGGGCTTTGAGAA-TGTGCCACTAACTTGTGGGTTTTGAGAAAG-TGCCACTGACCTA
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA-AAAGATGCCACTAACTTG
* * * *
2848590 TGGGCTTTGAAAAGTGTTGCCACTGACTTGTGGGCTTTGAGAAA-ATGCTATTGACTTG
1 TGGGCTTTGAAAAG-GGTGCCACTGACTTGTGGGCTTTGA-AAAGATGCCACTAACTTG
* * * * *
2848648 TGCGCTTTGAGAA-GGTGCCACTGACTTGTGGGCTTTGAGAAGGTGCCACTGACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
* * *
2848704 TGGGCTTTGAAAAGGGTTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAAGGG-TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
* * * * *
2848762 TGGGCTTTGAAAA-GATACCACTGACTTGTGGGTTTTGAAATGGTGCCACTAACTTG
1 TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
*
2848818 TGGGCTTTGAAAAGGGTTGCCACTGA-TTGTGGGCTTTGGAAAGA
1 TGGGCTTTGAAAAGGG-TGCCACTGACTTGTGGGCTTTGAAAAGA
2848862 AGTCGCATTG
Statistics
Matches: 408, Mismatches: 77, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
55 2 0.00
56 208 0.51
57 26 0.06
58 148 0.36
59 2 0.00
60 22 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (57 bp):
TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
Found at i:2848860 original size:114 final size:113
Alignment explanation
Indices: 2848306--2848861 Score: 627
Period size: 114 Copynumber: 4.9 Consensus size: 113
2848296 TCAACTTGTA
* * ** * * *
2848306 TGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAATATGCCACTTACTTGTAGACTTT-
1 TGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTG-AAAGGTGCCACTAACTTGTGGGCTTTG
* * * * *
2848370 AAAAGAG-TGCCACTGACATGTGGGCTTTAAAAAGATACCACTAACTTA
65 AAAAGGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
* * *
2848418 TGGGCTTTGAAAAGGTGCCTCTAACTTGTGGGCTTTGAAAAGGGTTGCCACCAACTTGTGGGCTT
1 TGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTG-AAA-GG-TGCCACTAACTTGTGGGCTT
* * * *
2848483 TGAAAAGGGTTGCCACTGATTTGTGGGCATTGAAAAAATGCCACTGACTTG
63 TGAAAAGGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
* * * * * *
2848534 TGGGCTTTGAGAATG-TGCCACTAACTTGTGGGTTTTGAGAAAGTGCCACTGACCTATGGGCTTT
1 TGGGCTTTGA-AAAGATGCCACTAACTTGTGGGCTTTGA-AAGGTGCCACTAACTTGTGGGCTTT
* * * *
2848598 GAAAAGTGTTGCCACTGACTTGTGGGCTTTGAGAAA-ATGCTATTGACTTG
64 GAAAAGGGTTGCCACTGACTTGTGGGCTTTGA-AAAGATGCCACTAACTTG
* * * * *
2848648 TGCGCTTTGAGAAGGTGCCACTGACTTGTGGGCTTTGAGAAGGTGCCACTGACTTGTGGGCTTTG
1 TGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGA-AAGGTGCCACTAACTTGTGGGCTTTG
* * *
2848713 AAAAGGGTTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTTG
65 AAAAGGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
* * *
2848762 TGGGCTTTGAAAAGATACCACTGACTTGTGGGTTTTGAAATGGTGCCACTAACTTGTGGGCTTTG
1 TGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAA-GGTGCCACTAACTTGTGGGCTTTG
*
2848827 AAAAGGGTTGCCACTGA-TTGTGGGCTTTGGAAAGA
65 AAAAGGGTTGCCACTGACTTGTGGGCTTTGAAAAGA
2848862 AGTCGCATTG
Statistics
Matches: 377, Mismatches: 57, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
112 37 0.10
113 21 0.06
114 240 0.64
115 11 0.03
116 65 0.17
117 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (113 bp):
TGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGTGCCACTAACTTGTGGGCTTTGA
AAAGGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTG
Found at i:2848888 original size:14 final size:13
Alignment explanation
Indices: 2848869--2848956 Score: 61
Period size: 14 Copynumber: 6.6 Consensus size: 13
2848859 AGAAGTCGCA
2848869 TTGACAAAAATTTC
1 TTGAC-AAAATTTC
*
2848883 TTGACAACATTT-
1 TTGACAAAATTTC
* * *
2848895 TTAACGAAAGTTC
1 TTGACAAAATTTC
* *
2848908 TCGACAAAAGTTC
1 TTGACAAAATTTC
*
2848921 TTGACGACAATTTC
1 TTGAC-AAAATTTC
* *
2848935 TTAACAACCATTTC
1 TTGACAA-AATTTC
2848949 TTGACAAA
1 TTGACAAA
2848957 TGGAATTTTG
Statistics
Matches: 55, Mismatches: 16, Indels: 7
0.71 0.21 0.09
Matches are distributed among these distances:
12 8 0.15
13 21 0.38
14 26 0.47
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:2850187 original size:20 final size:20
Alignment explanation
Indices: 2850150--2850185 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
2850140 AACCTCTCTC
2850150 TTTTTGTATTATTTTTTTGG
1 TTTTTGTATTATTTTTTTGG
2850170 TTTTTGT-TT-TTTTTTT
1 TTTTTGTATTATTTTTTT
2850186 TTTTACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (20 bp):
TTTTTGTATTATTTTTTTGG
Found at i:2853085 original size:22 final size:22
Alignment explanation
Indices: 2853055--2853098 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2853045 CTTCGATGAA
*
2853055 CCCTGCATCAAACTATTTCTTG
1 CCCTACATCAAACTATTTCTTG
*
2853077 CCCTACATCAAACTGTTTCTTG
1 CCCTACATCAAACTATTTCTTG
2853099 ACTTCCTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (22 bp):
CCCTACATCAAACTATTTCTTG
Found at i:2854356 original size:22 final size:22
Alignment explanation
Indices: 2854331--2854392 Score: 124
Period size: 22 Copynumber: 2.8 Consensus size: 22
2854321 TCAGTGGCAG
2854331 CGGTGGCAATCATTTTCTTCTT
1 CGGTGGCAATCATTTTCTTCTT
2854353 CGGTGGCAATCATTTTCTTCTT
1 CGGTGGCAATCATTTTCTTCTT
2854375 CGGTGGCAATCATTTTCT
1 CGGTGGCAATCATTTTCT
2854393 ACCTCGATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (22 bp):
CGGTGGCAATCATTTTCTTCTT
Found at i:2858828 original size:79 final size:78
Alignment explanation
Indices: 2858453--2858832 Score: 316
Period size: 79 Copynumber: 4.8 Consensus size: 78
2858443 ACAACGGGGC
* * * ** *
2858453 TGGAGTATCCCCTGATTATGGAAAATCGATGTTTTGGAAATAAAATCAGGGTTGGAGTAAGCCTT
1 TGGAGTATCCCC-GATTATGAAAAATCGATATTTTGGAAATAAAACCAGGGTTGGAGTATCCCCT
2858518 CGAAAATAACAGGGT
65 CGAAAATAAC-GGGT
* ** * * ** * *
2858533 TGGAGCATCCCTAATTAT-AGAAAATC-AGTGTTTTGAAAATAAAATTAGGGTTAGAGTATCTCC
1 TGGAGTATCCCCGATTATGA-AAAATCGA-TATTTTGGAAATAAAACCAGGGTTGGAGTATCCCC
*
2858596 TCGAAGATAACGAGGT
64 TCGAAAATAACG-GGT
* * * * * * ** * * *
2858612 TAGAGTATCCACGATTGTGGAAAATCGA-AGCTTTAGAAATAAGGCCGGGGTTGGAGTATCTCCG
1 TGGAGTATCCCCGATTATGAAAAATCGATA-TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCT
* *
2858676 CCAAAATAACGGGGC
65 CGAAAATAAC-GGGT
* * * * * *
2858691 TGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCAGGGCTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTC
*
2858756 AAAAATAACGGGAT
66 GAAAATAACGGG-T
* * *
2858770 TGGAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAACCAAGGTTAGAGTATCCCC
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAACCAGGGTTGGAGTATCCCC
2858833 GAGATGAAAA
Statistics
Matches: 234, Mismatches: 57, Indels: 19
0.75 0.18 0.06
Matches are distributed among these distances:
78 5 0.02
79 216 0.92
80 13 0.06
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATGAAAAATCGATATTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTC
GAAAATAACGGGT
Found at i:2858851 original size:50 final size:50
Alignment explanation
Indices: 2858772--2858897 Score: 171
Period size: 50 Copynumber: 2.5 Consensus size: 50
2858762 AACGGGATTG
* ** *
2858772 GAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAACCAAGGTTA
1 GAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCAAGGTTA
* ***
2858823 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAGCTGGGGTTA
1 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAAGGTTA
2858873 GAGTATCCCCGAGATGAAAAATCAA
1 GAGTATCCCCGAGATGAAAAATCAA
2858898 GAAATTTAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 55 0.82
51 12 0.18
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.25
Consensus pattern (50 bp):
GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAAGGTTA
Found at i:2867403 original size:6 final size:6
Alignment explanation
Indices: 2867388--2867431 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
2867378 CCATGTTATA
*
2867388 TTTT-T TTTTCT TTTTCT TTTTCT TCTTCT TTTTCCT TTCTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT TT-TTCT T
2867432 CTTCCTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 4 0.12
6 21 0.62
7 7 0.21
8 2 0.06
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:2867419 original size:17 final size:17
Alignment explanation
Indices: 2867395--2867434 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
2867385 ATATTTTTTT
*
2867395 TTCTTTTTCTTTTTCTTC
1 TTCTTTTTC-CTTTCTTC
2867413 TTCTTTTTCCTTTCTTC
1 TTCTTTTTCCTTTCTTC
2867430 TTCTT
1 TTCTT
2867435 CCTTCTTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTTTTTCCTTTCTTC
Found at i:2868728 original size:28 final size:28
Alignment explanation
Indices: 2868693--2869048 Score: 369
Period size: 28 Copynumber: 12.4 Consensus size: 28
2868683 TTAACTTGTT
2868693 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
2868721 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
2868749 TGGGCTTTGAAAAGATGCCACTGACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
2868777 TGGACTTTAAAATGG-TGCCACT-AGCTTG
1 TGGGCTTTGAAA-GGATGCCACTGA-CTTG
* * * *
2868805 TGGGCTTTAAAAAGATACCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
*
2868833 TGGGCTTTGAAAAGG-TGTCACTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTG
* *
2868861 TGGGCTTTGAAAATGGTTGCCACTAACTTG
1 TGGGCTTTG-AAA-GGATGCCACTGACTTG
*
2868891 TGGGCTTTGAAAAGAGTTGCCACTGACTTG
1 TGGGCTTTG-AAAG-GATGCCACTGACTTG
* * *
2868921 TAGGCTTTGAAAAGATGCCACTGACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
2868949 TGGGTTTTGAGAAGG-TGCCACTGACTTA
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
* * *
2868977 TGGGCTTTAAAAAGGGTTGCCATTGACTTG
1 TGGGCTTT-GAAA-GGATGCCACTGACTTG
* *
2869007 TAGGCTTTGAAAAGGGTTGCCACTGACTTG
1 TGGGCTTTG-AAA-GGATGCCACTGACTTG
*
2869037 TGGGTTTTGAAA
1 TGGGCTTTGAAA
2869049 AGAAGTCGTA
Statistics
Matches: 282, Mismatches: 33, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.01
28 169 0.60
29 21 0.07
30 90 0.32
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:2868774 original size:56 final size:56
Alignment explanation
Indices: 2868693--2869051 Score: 427
Period size: 56 Copynumber: 6.3 Consensus size: 56
2868683 TTAACTTGTT
*
2868693 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTG
* *
2868749 TGGGCTTTGAAAAGATGCCACTGACTTATGGACTTT-AAAATGGTGCCACT-AGCTTG
1 TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGA-CTTG
* * * *
2868805 TGGGCTTTAAAAAGATACCACTAACTTGTGGGCTTTGAAAAGGTGTCACTGACTTG
1 TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTG
* *
2868861 TGGGCTTTGAAAATGGTTGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTG
1 TGGGCTTTGAAAA--GATGCCACTGACTTGTGGGCTTTGAAAAG-G-TGCCACTGACTTG
* * * * *
2868921 TAGGCTTTGAAAAGATGCCACTGACTTATGGGTTTTGAGAAGGTGCCACTGACTTA
1 TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTG
* * * *
2868977 TGGGCTTTAAAAAGGGTTGCCATTGACTTGTAGGCTTTGAAAAGGGTTGCCACTGACTTG
1 TGGGCTTTGAAAA--GATGCCACTGACTTGTGGGCTTTGAAAA-GG-TGCCACTGACTTG
*
2869037 TGGGTTTTGAAAAGA
1 TGGGCTTTGAAAAGA
2869052 AGTCGTATTG
Statistics
Matches: 258, Mismatches: 32, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
55 1 0.00
56 125 0.48
57 8 0.03
58 74 0.29
59 3 0.01
60 47 0.18
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (56 bp):
TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTG
Found at i:2868958 original size:116 final size:114
Alignment explanation
Indices: 2868693--2869051 Score: 458
Period size: 116 Copynumber: 3.1 Consensus size: 114
2868683 TTAACTTGTT
*
2868693 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTT
* * *
2868757 GAAAA-GATGCCACTGACTTATGGACTTT-AAAATGG-TGCCACT-AGCTTG
65 GAAAAGGTTGCCACTGACTTGTGGGCTTTGAAAA-GGTTGCCACTGA-CTTG
* * * *
2868805 TGGGCTTTAAAAAGATACCACTAACTTGTGGGCTTTGAAAAGGTGTCACTGACTTGTGGGCTTTG
1 TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
*
2868870 AAAATGGTTGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTG
66 AAAA-GGTTGCCACTGACTTGTGGGCTTTGAAAAG-GTTGCCACTGACTTG
* * * * * *
2868921 TAGGCTTTGAAAAGATGCCACTGACTTATGGGTTTTGAGAAGGTGCCACTGACTTATGGGCTTTA
1 TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
* *
2868986 AAAAGGGTTGCCATTGACTTGTAGGCTTTGAAAAGGGTTGCCACTGACTTG
66 AAAA-GGTTGCCACTGACTTGTGGGCTTTGAAAA-GGTTGCCACTGACTTG
*
2869037 TGGGTTTTGAAAAGA
1 TGGGCTTTGAAAAGA
2869052 AGTCGTATTG
Statistics
Matches: 214, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
112 58 0.27
113 5 0.02
114 20 0.09
115 5 0.02
116 124 0.58
117 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (114 bp):
TGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
AAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTTGCCACTGACTTG
Found at i:2876585 original size:13 final size:13
Alignment explanation
Indices: 2876567--2876600 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2876557 ATGATCCTAA
*
2876567 TATCGATACATTG
1 TATCGATACAATG
2876580 TATCGATACAATG
1 TATCGATACAATG
2876593 TATCGATA
1 TATCGATA
2876601 TAAAGGCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:2879293 original size:13 final size:13
Alignment explanation
Indices: 2879275--2879311 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2879265 AACTTACTCA
2879275 GTATCGATACAGT
1 GTATCGATACAGT
*
2879288 GTATCGATACATT
1 GTATCGATACAGT
*
2879301 GGATCGATACA
1 GTATCGATACA
2879312 TGGTGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (13 bp):
GTATCGATACAGT
Found at i:2884524 original size:20 final size:20
Alignment explanation
Indices: 2884489--2884529 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
2884479 CAAATTTCTT
2884489 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
2884511 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
2884530 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:2884831 original size:20 final size:21
Alignment explanation
Indices: 2884791--2884842 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
2884781 CCCCTAGGCA
*
2884791 GCACCCACCAAGTCGCGACC-G
1 GCACCC-CCAAGTCGCAACCGG
*
2884812 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAAGTCGCAACCGG
2884833 GCAGCCCCCA
1 GCA-CCCCCA
2884843 CACTAGCAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.21, C:0.50, G:0.25, T:0.04
Consensus pattern (21 bp):
GCACCCCCAAGTCGCAACCGG
Found at i:2886206 original size:19 final size:19
Alignment explanation
Indices: 2886182--2886220 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2886172 TGATTAAGGG
2886182 GGAGAAAGAAATTGTTAAT
1 GGAGAAAGAAATTGTTAAT
2886201 GGAGAAAGAAATTGTTAAT
1 GGAGAAAGAAATTGTTAAT
2886220 G
1 G
2886221 TGCGAAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (19 bp):
GGAGAAAGAAATTGTTAAT
Found at i:2886258 original size:21 final size:21
Alignment explanation
Indices: 2886233--2886272 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2886223 CGAAAGTGTT
2886233 AAATTATTTT-ACTAAGGGGAG
1 AAATT-TTTTGACTAAGGGGAG
*
2886254 AAATTTTTTGATTAAGGGG
1 AAATTTTTTGACTAAGGGG
2886273 GAGAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (21 bp):
AAATTTTTTGACTAAGGGGAG
Found at i:2886830 original size:13 final size:13
Alignment explanation
Indices: 2886812--2886836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2886802 AAATTGCACA
2886812 GTATCGATACATT
1 GTATCGATACATT
2886825 GTATCGATACAT
1 GTATCGATACAT
2886837 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2888281 original size:21 final size:21
Alignment explanation
Indices: 2888242--2888281 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2888232 AAATTTTAAC
* *
2888242 AATAATAACATTATAAATTCA
1 AATAATAAAAATATAAATTCA
*
2888263 AATAATAAAAATATTAATT
1 AATAATAAAAATATAAATT
2888282 TACCTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAATAAAAATATAAATTCA
Found at i:2891029 original size:22 final size:22
Alignment explanation
Indices: 2890986--2891033 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
2890976 TAAGTTTTTA
*
2890986 AAATGTTTTTTAAGCAATAAAT
1 AAATGTTTTTCAAGCAATAAAT
*
2891008 CAAATGTTTTTCAAGTAA-AAAT
1 -AAATGTTTTTCAAGCAATAAAT
2891030 AAAT
1 AAAT
2891034 CAAAATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 15 0.65
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (22 bp):
AAATGTTTTTCAAGCAATAAAT
Found at i:2891324 original size:22 final size:22
Alignment explanation
Indices: 2891281--2891328 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
2891271 GATAAGTTTA
* *
2891281 AAATATTTTTTAAGCAATAAAT
1 AAATATTTTTCAAGCAAAAAAT
2891303 CAAATATTTTTCAAG-AAAAAAT
1 -AAATATTTTTCAAGCAAAAAAT
2891325 AAAT
1 AAAT
2891329 CAAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 6 0.26
23 13 0.57
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATATTTTTCAAGCAAAAAAT
Found at i:2892635 original size:2 final size:2
Alignment explanation
Indices: 2892628--2892658 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2892618 AAAGGTTCCA
*
2892628 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2892659 CACACATATG
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2893098 original size:28 final size:28
Alignment explanation
Indices: 2893052--2893130 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 28
2893042 TTAAAGATGT
* * * * *
2893052 TTAATATATTATGAAATTTATTTTATAA
1 TTAATTTATTATTATATTTATTTAAGAA
2893080 TTAATTTATTATTATATTTTATTTAAGAA
1 TTAATTTATTATTATA-TTTATTTAAGAA
*
2893109 ATAATTT-TTAATTAATATTTAT
1 TTAATTTATT-ATT-ATATTTAT
2893131 ATTTCATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
28 15 0.36
29 24 0.57
30 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TTAATTTATTATTATATTTATTTAAGAA
Found at i:2898322 original size:13 final size:13
Alignment explanation
Indices: 2898304--2898328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2898294 CATTTTATGG
2898304 TGTATCGATACAA
1 TGTATCGATACAA
2898317 TGTATCGATACA
1 TGTATCGATACA
2898329 TACTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2898344 original size:32 final size:33
Alignment explanation
Indices: 2898281--2898348 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2898271 CGTTACAAGC
**
2898281 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
2898314 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2898346 CAA
1 CAA
2898349 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:2900434 original size:21 final size:21
Alignment explanation
Indices: 2900404--2900454 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
2900394 GCTGCTAGTG
* *
2900404 TGGGGCTGCCCGGTTGCGACC
1 TGGGGGTGCCCGGTCGCGACC
2900425 TGGGGGTG-CCGGTCGCGACC
1 TGGGGGTGCCCGGTCGCGACC
2900445 TGGTGGGTGC
1 TGG-GGGTGC
2900455 TGCCTAGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.04, C:0.27, G:0.49, T:0.20
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:2900745 original size:20 final size:21
Alignment explanation
Indices: 2900716--2900756 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2900706 TATTTTTGAT
2900716 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
2900735 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
2900757 AAGAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:2900906 original size:13 final size:13
Alignment explanation
Indices: 2900888--2900925 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2900878 ATAATCTCCT
* *
2900888 TGTATCGATATAG
1 TGTATCGATACAA
2900901 TGTATCGATACAA
1 TGTATCGATACAA
2900914 TGTATCGATACA
1 TGTATCGATACA
2900926 GAGAATACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2906384 original size:13 final size:13
Alignment explanation
Indices: 2906366--2906391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2906356 ACATTTTATG
2906366 ATGTATCGATACA
1 ATGTATCGATACA
2906379 ATGTATCGATACA
1 ATGTATCGATACA
2906392 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2906386 original size:33 final size:32
Alignment explanation
Indices: 2906344--2906411 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
2906334 CATTACAAGC
**
2906344 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
2906377 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
2906409 CAA
1 CAA
2906412 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:2906490 original size:20 final size:21
Alignment explanation
Indices: 2906443--2906495 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2906433 GCCAATGACT
**
2906443 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
2906464 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
2906484 TGTATCGATACA
1 TGTATCGATACA
2906496 ATTTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:2906504 original size:13 final size:13
Alignment explanation
Indices: 2906486--2906510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2906476 TTTGGTCATG
2906486 TATCGATACAATT
1 TATCGATACAATT
2906499 TATCGATACAAT
1 TATCGATACAAT
2906511 GCAATCTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TATCGATACAATT
Found at i:2906524 original size:20 final size:20
Alignment explanation
Indices: 2906499--2906547 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2906489 CGATACAATT
*
2906499 TATCGATACAATGCAATCTG
1 TATCGATACAATGAAATCTG
* * *
2906519 TATCGATACATTTAAATGTG
1 TATCGATACAATGAAATCTG
2906539 TATCGATAC
1 TATCGATAC
2906548 TTTTCAGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACAATGAAATCTG
Found at i:2909787 original size:21 final size:21
Alignment explanation
Indices: 2909761--2909819 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
2909751 AAAGATATAT
2909761 TTGGATGAAATG-ATGCATTGG
1 TTGGATGAAA-GAATGCATTGG
**
2909782 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAGAATGCATTGG
*
2909803 TTGGATGAAAAAATGCA
1 TTGGATGAAAGAATGCA
2909820 ACTTTTAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGGATGAAAGAATGCATTGG
Found at i:2909825 original size:21 final size:21
Alignment explanation
Indices: 2909782--2909825 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2909772 GATGCATTGG
* **
2909782 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAAAATGCAACTT
2909803 TTGGATGAAAAAATGCAACTT
1 TTGGATGAAAAAATGCAACTT
2909824 TT
1 TT
2909826 AACAACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (21 bp):
TTGGATGAAAAAATGCAACTT
Found at i:2913884 original size:15 final size:15
Alignment explanation
Indices: 2913851--2913883 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2913841 TAATGATATC
2913851 TTTTGTTTTTTTTGT
1 TTTTGTTTTTTTTGT
2913866 TTTTGTTTTTTTT-T
1 TTTTGTTTTTTTTGT
2913880 TTTT
1 TTTT
2913884 TTGAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (15 bp):
TTTTGTTTTTTTTGT
Found at i:2915703 original size:18 final size:18
Alignment explanation
Indices: 2915669--2915704 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2915659 TAAATTGAAT
*
2915669 TGATATTCTATTTTGTAA
1 TGATATTCTATTGTGTAA
*
2915687 TGATATTCTGTTGTGTAA
1 TGATATTCTATTGTGTAA
2915705 AACTTTGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.53
Consensus pattern (18 bp):
TGATATTCTATTGTGTAA
Found at i:2917431 original size:2 final size:2
Alignment explanation
Indices: 2917424--2917474 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2917414 CAAATATAAC
2917424 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2917466 AT AT AT AT A
1 AT AT AT AT A
2917475 GAAAAGAGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2917484 original size:2 final size:2
Alignment explanation
Indices: 2917479--2917506 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2917469 TATATAGAAA
2917479 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2917507 TTATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2920360 original size:28 final size:28
Alignment explanation
Indices: 2920270--2920488 Score: 83
Period size: 29 Copynumber: 7.8 Consensus size: 28
2920260 AAGCCACCTT
*
2920270 TGCCAAAAGTACCTATGTTAA-AGTACTTG
1 TGCC-AAAGTACCTATGTCAAGA-TACTTG
* * * * *
2920299 TGCCAAAAGTACCCATGCCAAAAGTACCTA
1 TGCC-AAAGTACCTATGTCAAGA-TACTTG
2920329 TGCC-AAGTACCTATGTCAACGATACTTG
1 TGCCAAAGTACCTATGTCAA-GATACTTG
* * *
2920357 TGCCAAAGTA-CT-TGTGCTAGGTACTTA
1 TGCCAAAGTACCTATGT-CAAGATACTTG
* * * * *
2920384 TGCCAAAGTGCTTGTGCCAAAGATACCTG
1 TGCCAAAGTACCTATGTC-AAGATACTTG
* * *
2920413 TGCC-AAGTACTTATGCCAA-AGTACCTG
1 TGCCAAAGTACCTATGTCAAGA-TACTTG
* * * * *
2920440 TG-CTAGGTACCTATGCCAAAATACTTA
1 TGCCAAAGTACCTATGTCAAGATACTTG
** *
2920467 TTTCAAAGATACCTATGCCAAG
1 TGCCAAAG-TACCTATGTCAAG
2920489 TATCTACCTA
Statistics
Matches: 148, Mismatches: 30, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
26 2 0.01
27 46 0.31
28 42 0.28
29 48 0.32
30 10 0.07
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (28 bp):
TGCCAAAGTACCTATGTCAAGATACTTG
Found at i:2920370 original size:14 final size:14
Alignment explanation
Indices: 2920289--2920596 Score: 164
Period size: 14 Copynumber: 21.9 Consensus size: 14
2920279 TACCTATGTT
2920289 AAAGTACTTGTGCC
1 AAAGTACTTGTGCC
***
2920303 AAAAGTACCCATGCC
1 -AAAGTACTTGTGCC
* *
2920318 AAAAGTACCTATGCC
1 -AAAGTACTTGTGCC
* * *
2920333 -AAGTACCTATGTC
1 AAAGTACTTGTGCC
*
2920346 AACGATACTTGTGCC
1 AAAG-TACTTGTGCC
2920361 AAAGTACTTGTG-C
1 AAAGTACTTGTGCC
* * *
2920374 TAGGTACTTATGCC
1 AAAGTACTTGTGCC
*
2920388 AAAGTGCTTGTGCC
1 AAAGTACTTGTGCC
*
2920402 AAAGATACCTGTGCC
1 AAAG-TACTTGTGCC
*
2920417 -AAGTACTTATGCC
1 AAAGTACTTGTGCC
*
2920430 AAAGTACCTGTG-C
1 AAAGTACTTGTGCC
* * * *
2920443 TAGGTACCTATGCC
1 AAAGTACTTGTGCC
* * **
2920457 AAAATACTTATTTC
1 AAAGTACTTGTGCC
* *
2920471 AAAGATACCTATGCC
1 AAAG-TACTTGTGCC
*
2920486 -AAGTATCTACCTATGCC
1 AAAGTA-CT---TGTGCC
*
2920503 AAAGTACTTGTGTC
1 AAAGTACTTGTGCC
2920517 AAAGTACCTT-TGCC
1 AAAGTA-CTTGTGCC
*
2920531 -AGGTACTTGTGCC
1 AAAGTACTTGTGCC
2920544 AAAGTACTTGTGCC
1 AAAGTACTTGTGCC
* *
2920558 AAAGTGCTTGTACC
1 AAAGTACTTGTGCC
* *
2920572 -AGGTACTTGTGCT
1 AAAGTACTTGTGCC
*
2920585 AAAGTACCTGTG
1 AAAGTACTTGTG
2920597 GCAACGAGTA
Statistics
Matches: 227, Mismatches: 50, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
12 3 0.01
13 59 0.26
14 99 0.44
15 53 0.23
17 8 0.04
18 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (14 bp):
AAAGTACTTGTGCC
Found at i:2920424 original size:69 final size:69
Alignment explanation
Indices: 2920351--2920585 Score: 226
Period size: 69 Copynumber: 3.4 Consensus size: 69
2920341 ATGTCAACGA
* *
2920351 TACTTGTGCCAAAGTACTTGTGCTAGGTACTTATGCCAAAGTGCTTGTGCCAAAGATACCTGTGC
1 TACTTATGCCAAAGTACTTGTGCTAGGTACTTATGCCAAAGTACTTGTGCCAAAGATACCTGTGC
2920416 CAAG
66 CAAG
* * * * ** *
2920420 TACTTATGCCAAAGTACCTGTGCTAGGTACCTATGCCAAAATACTTATTTCAAAGATACCTATGC
1 TACTTATGCCAAAGTACTTGTGCTAGGTACTTATGCCAAAGTACTTGTGCCAAAGATACCTGTGC
2920485 CAAG
66 CAAG
* * *
2920489 TATCTACCTATGCCAAAGTACTTGTGTCAAAGTACCTT-TGCC-AGGTACTTGTGCCAAAG-TAC
1 TA-CT---TATGCCAAAGTACTTGTG-CTAGGTA-CTTATGCCAAAGTACTTGTGCCAAAGATAC
*
2920551 TTGTGCCAAAG
60 CTGTGCC-AAG
* * * *
2920562 TGCTTGTACC-AGGTACTTGTGCTA
1 TACTTATGCCAAAGTACTTGTGCTA
2920586 AAGTACCTGT
Statistics
Matches: 134, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
67 2 0.01
68 10 0.07
69 66 0.49
70 2 0.01
72 10 0.07
73 33 0.25
74 9 0.07
75 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (69 bp):
TACTTATGCCAAAGTACTTGTGCTAGGTACTTATGCCAAAGTACTTGTGCCAAAGATACCTGTGC
CAAG
Found at i:2920439 original size:27 final size:27
Alignment explanation
Indices: 2920289--2920559 Score: 130
Period size: 27 Copynumber: 9.6 Consensus size: 27
2920279 TACCTATGTT
* **
2920289 AAAGTACTTGTGCCAAAAGTACCCATGCC
1 AAAGTACCTGTGCC--AAGTACTTATGCC
* * *
2920318 AAAAGTACCTATGCCAAGTACCTATGTC
1 -AAAGTACCTGTGCCAAGTACTTATGCC
* * *
2920346 AACGATACTTGTGCCAAAGTACTTGTG-C
1 AAAG-TACCTGTGCC-AAGTACTTATGCC
* * * * * *
2920374 TAGGTACTTATGCCAAAGTGCTTGTGCC
1 AAAGTACCTGTGCC-AAGTACTTATGCC
2920402 AAAGATACCTGTGCCAAGTACTTATGCC
1 AAAG-TACCTGTGCCAAGTACTTATGCC
* * *
2920430 AAAGTACCTGTGCTAGGTACCTATGCC
1 AAAGTACCTGTGCCAAGTACTTATGCC
* * * * * *
2920457 AAAATACTTATTTCAAAGATACCTATGCC
1 AAAGTACCT-GTGCCAAG-TACTTATGCC
* * * *
2920486 AAGTATCTACCTATGCCAAAGTACTTGTGTC
1 AA--A-GTACCTGTGCC-AAGTACTTATGCC
* * *
2920517 AAAGTACCTTTGCCAGGTACTTGTGCC
1 AAAGTACCTGTGCCAAGTACTTATGCC
*
2920544 AAAGTACTTGTGCCAA
1 AAAGTACCTGTGCCAA
2920560 AGTGCTTGTA
Statistics
Matches: 188, Mismatches: 43, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
27 74 0.39
28 53 0.28
29 30 0.16
30 12 0.06
31 12 0.06
32 7 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (27 bp):
AAAGTACCTGTGCCAAGTACTTATGCC
Found at i:2920549 original size:41 final size:41
Alignment explanation
Indices: 2920411--2920596 Score: 151
Period size: 41 Copynumber: 4.4 Consensus size: 41
2920401 CAAAGATACC
* * * *
2920411 TGTGCC-AAGTACTTATGCCAAAGTACCTGTGCTAGGTACC
1 TGTGCCAAAGTACTTGTGCCAAAGTACCTTTGCCAGGTACT
* * * ** * *
2920451 TATGCCAAAATACTTATTTCAAAGATACCTATGCCAAGTATCT
1 TGTGCCAAAGTACTTGTGCCAAAG-TACCTTTGCCAGGTA-CT
* *
2920494 ACCTATGCCAAAGTACTTGTGTCAAAGTACCTTTGCCAGGTACT
1 ---TGTGCCAAAGTACTTGTGCCAAAGTACCTTTGCCAGGTACT
* *
2920538 TGTGCCAAAGTACTTGTGCCAAAGT-GCTTGTACCAGGTACT
1 TGTGCCAAAGTACTTGTGCCAAAGTACCTT-TGCCAGGTACT
* *
2920579 TGTGCTAAAGTACCTGTG
1 TGTGCCAAAGTACTTGTG
2920597 GCAACGAGTA
Statistics
Matches: 120, Mismatches: 19, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
40 8 0.07
41 63 0.52
42 12 0.10
43 1 0.01
44 2 0.02
45 13 0.11
46 21 0.17
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (41 bp):
TGTGCCAAAGTACTTGTGCCAAAGTACCTTTGCCAGGTACT
Found at i:2922392 original size:13 final size:13
Alignment explanation
Indices: 2922374--2922399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2922364 CAATTTTTTG
2922374 TGTATCGATACAT
1 TGTATCGATACAT
2922387 TGTATCGATACAT
1 TGTATCGATACAT
2922400 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2923569 original size:13 final size:13
Alignment explanation
Indices: 2923551--2923576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2923541 CAATTTTTTG
2923551 TGTATCGATACAT
1 TGTATCGATACAT
2923564 TGTATCGATACAT
1 TGTATCGATACAT
2923577 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2925963 original size:21 final size:21
Alignment explanation
Indices: 2925939--2925985 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2925929 TTTGATGCTG
2925939 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
2925959 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
2925980 ATTTTG
1 ATTTTG
2925986 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:2926124 original size:13 final size:13
Alignment explanation
Indices: 2926106--2926144 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2926096 ATAATCACCC
*
2926106 TGTATCGATACAG
1 TGTATCGATACAA
2926119 TGTATCGATACAA
1 TGTATCGATACAA
2926132 TGTATCGATACAA
1 TGTATCGATACAA
2926145 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2926155 original size:20 final size:20
Alignment explanation
Indices: 2926130--2926208 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
2926120 GTATCGATAC
2926130 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2926150 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
2926175 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
2926195 CATGTATCGATACA
1 AATGTATCGATACA
2926209 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2930084 original size:21 final size:21
Alignment explanation
Indices: 2930055--2930099 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2930045 AAGTTTTCAT
*
2930055 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2930075 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2930097 TTT
1 TTT
2930100 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2932335 original size:13 final size:13
Alignment explanation
Indices: 2932317--2932342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2932307 CAATTTTTTG
2932317 TGTATCGATACAT
1 TGTATCGATACAT
2932330 TGTATCGATACAT
1 TGTATCGATACAT
2932343 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2932975 original size:14 final size:14
Alignment explanation
Indices: 2932956--2932982 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2932946 TTCTCCCTTA
2932956 AACAAAATAATTTT
1 AACAAAATAATTTT
2932970 AACAAAATAATTT
1 AACAAAATAATTT
2932983 CTCCCTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AACAAAATAATTTT
Found at i:2933124 original size:12 final size:12
Alignment explanation
Indices: 2933107--2933132 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2933097 TAATTCACAC
2933107 ATATCAAAATTT
1 ATATCAAAATTT
2933119 ATATCAAAATTT
1 ATATCAAAATTT
2933131 AT
1 AT
2933133 TTGCATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATCAAAATTT
Found at i:2934935 original size:13 final size:13
Alignment explanation
Indices: 2934919--2934955 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2934909 AATCCTCCTA
*
2934919 TATCGATACAGTG
1 TATCGATACAATG
2934932 TATCGATACAATG
1 TATCGATACAATG
2934945 TATCGATACAA
1 TATCGATACAA
2934956 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:2940403 original size:13 final size:13
Alignment explanation
Indices: 2940385--2940410 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2940375 CAATTTTTTG
2940385 TGTATCGATACAT
1 TGTATCGATACAT
2940398 TGTATCGATACAT
1 TGTATCGATACAT
2940411 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2945345 original size:20 final size:20
Alignment explanation
Indices: 2945277--2945349 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
2945267 AAAAACCCAG
* * *
2945277 AATGTATCGATATAATGAGA
1 AATGTATCGATACAATTAGC
*
2945297 AATGTATCGATACGATTGTAAGC
1 AATGTATCGATAC-AAT-T-AGC
2945320 -ATGTATCGATACAATTAGC
1 AATGTATCGATACAATTAGC
2945339 AATGTATCGAT
1 AATGTATCGAT
2945350 GCATTTCCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.07
20 23 0.52
21 4 0.09
22 12 0.27
23 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACAATTAGC
Found at i:2949435 original size:14 final size:14
Alignment explanation
Indices: 2949416--2949452 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
2949406 TTAGATTTAC
2949416 CTTTCAAGAA-TTTT
1 CTTTCAA-AAGTTTT
2949430 CTTTCAAAAGTTTT
1 CTTTCAAAAGTTTT
2949444 CTTTCAAAA
1 CTTTCAAAA
2949453 TAGGCTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (14 bp):
CTTTCAAAAGTTTT
Found at i:2962929 original size:111 final size:111
Alignment explanation
Indices: 2962730--2962930 Score: 251
Period size: 111 Copynumber: 1.8 Consensus size: 111
2962720 GAATTAAATG
* * ** **
2962730 AGAGTCAAGCCTAATGTAGCTAGCCATATAGTAAGTTTAATGAAGTTAGCTCATGCCAAGTGCAA
1 AGAGTCAAGCCAAATGTAGCTAGCCATATAATAAGCCTAATGAAGTTAGCTCATGCCAAAAGCAA
* * **
2962795 GTCTAGTGACGTTGGTAGGCTAGTTTTGGCTAATTAGCCTATGCTA
66 GCCTAATGACGTTGGTAAACTAGTTTTGGCTAATTAGCCTATGCTA
* * * *
2962841 AGAGTTAAGCCAAATGTAGCTAGCCATGTAATAAGCCTAGTGAAGTTAGC-CTATGCCAAAAGTA
1 AGAGTCAAGCCAAATGTAGCTAGCCATATAATAAGCCTAATGAAGTTAGCTC-ATGCCAAAAGCA
*
2962905 AGCCTAATGATGTTGGTAAACTAGTT
65 AGCCTAATGACGTTGGTAAACTAGTT
2962931 CCAACAAAGA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
110 1 0.01
111 73 0.99
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (111 bp):
AGAGTCAAGCCAAATGTAGCTAGCCATATAATAAGCCTAATGAAGTTAGCTCATGCCAAAAGCAA
GCCTAATGACGTTGGTAAACTAGTTTTGGCTAATTAGCCTATGCTA
Found at i:2963129 original size:60 final size:58
Alignment explanation
Indices: 2963034--2963159 Score: 155
Period size: 58 Copynumber: 2.1 Consensus size: 58
2963024 AGTTTCGGCT
* *
2963034 AATTGGCTTATATAAAAAATTAAGCCCAATATAGCTATAGCCATATGGTAAGCCTAGTGA
1 AATTGGCTTATATAAAAAATCAAGCCCAATATAGC--TAGCCATATGGTAAGCCTAATGA
* * * * *
2963094 AGTTGGCTTATACT-AAAAGTCAAGCCTAATGTAGCTAGCTATATGGTAAGCCTAATGA
1 AATTGGCTTATA-TAAAAAATCAAGCCCAATATAGCTAGCCATATGGTAAGCCTAATGA
2963152 AATTGGCT
1 AATTGGCT
2963160 CATTCCCAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
58 28 0.49
60 28 0.49
61 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (58 bp):
AATTGGCTTATATAAAAAATCAAGCCCAATATAGCTAGCCATATGGTAAGCCTAATGA
Done.