Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 160 of 208
Found at i:52023396 original size:39 final size:41
Alignment explanation
Indices: 52023302--52023396 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 41
52023292 GAGAATTTTG
* * **
52023302 AAACAC-AATATTTTTTGAAAACACGAAATTTTTTTTTTGA
1 AAACACGAAAATTTTTAGAAAACACGAAATTTTTTTTTAAA
*
52023342 AAACACGAGAA-TTTTAG-AAACACGAAA-TTTTTTTTAAA
1 AAACACGAAAATTTTTAGAAAACACGAAATTTTTTTTTAAA
52023380 AAAC-CTGAAAATTTTTA
1 AAACAC-GAAAATTTTTA
52023397 CAATACGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.02
38 17 0.37
39 15 0.33
40 11 0.24
41 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (41 bp):
AAACACGAAAATTTTTAGAAAACACGAAATTTTTTTTTAAA
Found at i:52023537 original size:119 final size:120
Alignment explanation
Indices: 52023341--52023574 Score: 289
Period size: 119 Copynumber: 2.0 Consensus size: 120
52023331 TTTTTTTTTG
* * *
52023341 AAAACACGAGAATTTTAGAAACACGAAATTTTTTTTAAAAAACCTGAAAATTTTTACAATACGAA
1 AAAACACGAGAATTTTAGAAACACGAAAATTTTTTTAAAAAACCGGAAAATTTTGACAATACGAA
** * * * *
52023406 AATTTGCGAAACATGACAATTTTCGAAACACGAGAATT-TTTTGAGAACACAAAAT
66 AATTTGAAAAACACGAAAATTTGCGAAACACGACAATTGTTTTGA-AACACAAAAT
* *
52023461 AAAACACG-GAAATTTGT-GAAACACGAGAAATTTTTTTAAAACA-CGGAAACTTTTGA-AATAC
1 AAAACACGAG-AATTT-TAGAAACACGA-AAATTTTTTTAAAAAACCGGAAAATTTTGACAATAC
*
52023522 GAAAATTTTAAAAACACGAAAATTTGCGAAACACGACAATTGTTTTGAAACAC
63 GAAAATTTGAAAAACACGAAAATTTGCGAAACACGACAATTGTTTTGAAACAC
52023575 GAGAAATTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
119 45 0.46
120 38 0.39
121 15 0.15
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (120 bp):
AAAACACGAGAATTTTAGAAACACGAAAATTTTTTTAAAAAACCGGAAAATTTTGACAATACGAA
AATTTGAAAAACACGAAAATTTGCGAAACACGACAATTGTTTTGAAACACAAAAT
Found at i:52023545 original size:71 final size:71
Alignment explanation
Indices: 52023461--52023733 Score: 255
Period size: 71 Copynumber: 3.8 Consensus size: 71
52023451 AACACAAAAT
* ** *
52023461 AAAACACGGAAATTTGTGAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAAA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAATTTTTGAAATACGAAA
52023526 ATTTTA
66 ATTTTA
* * * * * **
52023532 AAAACACGAAAATTTGCGAAACACGA-CAATTGTTTTGAAACACGAGAAATTTTTGTGAACGCGA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACG-GAAATTTTTG-AAATACGA
52023596 AAATTTT-
64 AAATTTTA
* ** * * *
52023603 AAAACACGGAAATTTTTAAAACACGAG-GATTTTTTTAAAGCACGGAAATTTTTGAAATACGAGA
1 AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAATTTTTGAAATACGAAA
*
52023667 ATTTAA
66 ATTTTA
* * * * * **
52023673 AAGAACATGAAAGTTTACAAAACACGAGAAGTTTTTTTTTAAAATACAAAAATTTTTGAAA
1 AA-AACACGAAAATTTGCAAAACACGAGAA--ATTTTTTTAAAACACGGAAATTTTTGAAA
52023734 CAATAGATTT
Statistics
Matches: 161, Mismatches: 33, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
69 10 0.06
70 27 0.17
71 88 0.55
72 12 0.07
74 24 0.15
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (71 bp):
AAAACACGAAAATTTGCAAAACACGAGAAATTTTTTTAAAACACGGAAATTTTTGAAATACGAAA
ATTTTA
Found at i:52023647 original size:36 final size:36
Alignment explanation
Indices: 52023460--52023670 Score: 162
Period size: 36 Copynumber: 5.9 Consensus size: 36
52023450 GAACACAAAA
* *
52023460 TAAAACACGGAAATTTGTGAAACACGAGAAATTTTTT
1 TAAAACACGGAAATTTTTAAAACACGAG-AATTTTTT
* * * *
52023497 TAAAACACGGAAACTTTTGAAATACGA-AA-ATTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* * *** * *
52023531 AAAAACACGAAAATTTGCGAAACACGACAATTGTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* ** * *
52023567 TGAAACACGAGAAATTTTTGTGAACGCGA-AA--ATTT
1 TAAAACACG-GAAATTTTT-AAAACACGAGAATTTTTT
*
52023602 TAAAACACGGAAATTTTTAAAACACGAGGATTTTTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
* * *
52023638 TAAAGCACGGAAATTTTTGAAATACGAGAATTT
1 TAAAACACGGAAATTTTTAAAACACGAGAATTT
52023671 AAAAGAACAT
Statistics
Matches: 136, Mismatches: 31, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
33 6 0.04
34 35 0.26
35 15 0.11
36 42 0.31
37 32 0.24
38 6 0.04
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (36 bp):
TAAAACACGGAAATTTTTAAAACACGAGAATTTTTT
Found at i:52023656 original size:88 final size:88
Alignment explanation
Indices: 52023462--52023667 Score: 211
Period size: 88 Copynumber: 2.3 Consensus size: 88
52023452 ACACAAAATA
* * * * *
52023462 AAACACGGAAATTTGTGAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAAAA
1 AAACACGGAAATTTTTGAAACACGAGAAATTTTTGTAAAACACGGAAAATTTTAAAACACGAAAA
*
52023527 TTTTAAAAACACGAAAATTTGCG
66 TTTTAAAAACACGAAAATTTGCT
* * *
52023550 AAACAC-GACAATTGTTTTGAAACACGAGAAATTTTTGT-GAACGC-GAAAATTTTAAAACACGG
1 AAACACGGA-AA-T-TTTTGAAACACGAGAAATTTTTGTAAAACACGGAAAATTTTAAAACACGA
* * * **
52023612 AAATTTTTAAAACACGAGGATTTTTTT
63 AAATTTTAAAAACACGA-AAATTTGCT
*
52023639 AAAGCACGGAAATTTTTGAAATACGAGAA
1 AAA-CACGGAAATTTTTGAAACACGAGAA
52023668 TTTAAAAGAA
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
87 2 0.02
88 53 0.55
89 13 0.13
90 27 0.28
91 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (88 bp):
AAACACGGAAATTTTTGAAACACGAGAAATTTTTGTAAAACACGGAAAATTTTAAAACACGAAAA
TTTTAAAAACACGAAAATTTGCT
Found at i:52023744 original size:142 final size:142
Alignment explanation
Indices: 52023401--52023699 Score: 342
Period size: 142 Copynumber: 2.1 Consensus size: 142
52023391 TTTTTACAAT
* * * ** ** *
52023401 ACGAAAATTTGCGAAACATGACAA-T-TTTCGAAACACGAGAATTTTTTGAGAACAC-AAAA---
1 ACGAAAATTTACAAAACACGACAATTGTTTTAAAACACGAGAAAATTTTGTGAACACGAAAATTT
*
52023460 TAAAACACGGAAATTTGTGAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAA
66 TAAAACACGGAAATTTGTAAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAA
*
52023525 AATTTTAAAAAC
131 AATTTAAAAAAC
* * * * *
52023537 ACGAAAATTTGCGAAACACGACAATTGTTTTGAAACACGAGAAATTTTTGTGAACGCGAAAATTT
1 ACGAAAATTTACAAAACACGACAATTGTTTTAAAACACGAGAAAATTTTGTGAACACGAAAATTT
* * * * *
52023602 TAAAACACGGAAATTTTTAAAACACGAG-GATTTTTTTAAAGCACGGAAATTTTTGAAATACGAG
66 TAAAACACGGAAATTTGTAAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAA
52023666 AATTTAAAAGAAC
131 AATTTAAAA-AAC
* *
52023679 ATGAAAGTTTACAAAACACGA
1 ACGAAAATTTACAAAACACGA
52023700 GAAGTTTTTT
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
136 23 0.16
137 1 0.01
138 26 0.19
139 4 0.03
141 40 0.29
142 46 0.33
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (142 bp):
ACGAAAATTTACAAAACACGACAATTGTTTTAAAACACGAGAAAATTTTGTGAACACGAAAATTT
TAAAACACGGAAATTTGTAAAACACGAGAAATTTTTTTAAAACACGGAAACTTTTGAAATACGAA
AATTTAAAAAAC
Found at i:52023746 original size:18 final size:19
Alignment explanation
Indices: 52023725--52023766 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
52023715 AATACAAAAA
*
52023725 TTTTTGA-AACAATAGATT
1 TTTTTGATAACAATAGAAT
*
52023743 TTTTTGATAACACTAGAAT
1 TTTTTGATAACAATAGAAT
52023762 TTTTT
1 TTTTT
52023767 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (19 bp):
TTTTTGATAACAATAGAAT
Found at i:52023850 original size:18 final size:18
Alignment explanation
Indices: 52023827--52023970 Score: 122
Period size: 18 Copynumber: 8.2 Consensus size: 18
52023817 GAAAATGTAC
52023827 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
52023845 AAAACACGATAATTTTTG
1 AAAACACGAAAATTTTTG
* *
52023863 AAAAC-CTG-GAACTTTT-
1 AAAACAC-GAAAATTTTTG
* * *
52023879 AAAATACGGGAATTTTTTG
1 AAAACAC-GAAAATTTTTG
*
52023898 -AAACACCGAAATTTTTTG
1 AAAACA-CGAAAATTTTTG
*
52023916 AAAACACGAAGA-TTTT-
1 AAAACACGAAAATTTTTG
52023932 AAAACACGCAAAA-TTTTG
1 AAAACACG-AAAATTTTTG
*
52023950 GAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
52023968 AAA
1 AAA
52023971 TACGAATTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
16 12 0.12
17 24 0.24
18 60 0.59
19 6 0.06
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:52024749 original size:4 final size:4
Alignment explanation
Indices: 52024725--52024765 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
52024715 TGTGGGCTGC
*
52024725 TTCT TTC- TTC- TTCT TTTT TTCT TTCT TTCT TTCT TT-T TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
52024766 GCTGCTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 9 0.27
4 24 0.73
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTCT
Found at i:52024779 original size:22 final size:22
Alignment explanation
Indices: 52024720--52024785 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
52024710 CTGTATGTGG
*
52024720 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTT-TTCTT-TTTTCT
*
52024744 TCT--TTCTTTCTTTCTTTTTTCT
1 GCTGCTTC-TT-TTTCTTTTTTCT
*
52024766 GCTGCTTCTTTTTCTGTTTT
1 GCTGCTTCTTTTTCTTTTTT
52024786 GGTTTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
22 19 0.56
23 9 0.26
24 6 0.18
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.70
Consensus pattern (22 bp):
GCTGCTTCTTTTTCTTTTTTCT
Found at i:52024922 original size:12 final size:11
Alignment explanation
Indices: 52024893--52024960 Score: 54
Period size: 12 Copynumber: 6.3 Consensus size: 11
52024883 ACTGTTGACT
52024893 TTTC-TTTTT-
1 TTTCTTTTTTC
52024902 TTTCTTTTTTC
1 TTTCTTTTTTC
52024913 TTTCCTTTTTTC
1 TTT-CTTTTTTC
**
52024925 TCAC-TTTTTC
1 TTTCTTTTTTC
52024935 -TTCTTCTTTTTC
1 TTTC-T-TTTTTC
*
52024947 TTTCTTTGTTC
1 TTTCTTTTTTC
52024958 TTT
1 TTT
52024961 TTCTTCGGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
9 5 0.11
10 11 0.23
11 12 0.26
12 16 0.34
13 3 0.06
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:52024949 original size:29 final size:30
Alignment explanation
Indices: 52024900--52024966 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
52024890 ACTTTTCTTT
52024900 TTTTTCTT-TTTTCTTTCCTTT-TTTCTCAC
1 TTTTTCTTCTTTTCTTTCCTTTCTTTCT-AC
* *
52024929 TTTTTCTTCTTCTT-TTT-CTTTCTTTGTTC
1 TTTTTCTTCTT-TTCTTTCCTTTCTTTCTAC
52024958 TTTTTCTTC
1 TTTTTCTTC
52024967 GGGTCGCACC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 22 0.67
30 9 0.27
31 2 0.06
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.75
Consensus pattern (30 bp):
TTTTTCTTCTTTTCTTTCCTTTCTTTCTAC
Found at i:52025566 original size:30 final size:30
Alignment explanation
Indices: 52025493--52025689 Score: 154
Period size: 30 Copynumber: 6.6 Consensus size: 30
52025483 CAAAATATTT
* * *
52025493 GGGGTAAAAATGTAA-TTTTAGGAAAATATA
1 GGGGTCAAAATGTAATTTTTA-GAAAGTTTA
* *
52025523 -GGGCCAAGATGTAATTTTTAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTTAGAAAGTTTA
* * *
52025552 GTGGTCAAAGTGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTTTAGAAAGTTTA
** ** * *
52025582 ATGGTTGAAATGTAA-TTTTAGAAAATTTT
1 GGGGTCAAAATGTAATTTTTAGAAAGTTTA
* *
52025611 GGGGTCAAAATTTAAATTTTAGAAAAGTTT-
1 GGGGTCAAAATGTAATTTTTAG-AAAGTTTA
* *
52025641 GGGGTCAAAATGTAATTTTT-GAAAAGATCA
1 GGGGTCAAAATGTAATTTTTAG-AAAGTTTA
52025671 GGGG-CTAAAATGTAATTTT
1 GGGGTC-AAAATGTAATTTT
52025690 CATTTTTTTT
Statistics
Matches: 134, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
29 47 0.35
30 81 0.60
31 6 0.04
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.36
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTTAGAAAGTTTA
Found at i:52025652 original size:59 final size:58
Alignment explanation
Indices: 52025484--52025665 Score: 170
Period size: 59 Copynumber: 3.1 Consensus size: 58
52025474 TAGAAGACAC
* * * *
52025484 AAAATATTTGGGGTAAAAATGTAATTTTAGGAAAA-TATAGGGCCAAGATGTAATTTTTAG
1 AAAAT-TTTGGGGTCAAAATGTAATTTTA-GAAAAGTTTAGGGTCAAAATGTAA-TTTTAG
* * * * * **
52025544 AAAGTTTAGTGGTCAAAGTGTAATTTT-GAGAAAGTTTAATGGTTGAAATGTAATTTTAG
1 AAAATTTTGGGGTCAAAATGTAATTTTAGA-AAAGTTT-AGGGTCAAAATGTAATTTTAG
* * *
52025603 AAAATTTTGGGGTCAAAATTTAAATTTTAGAAAAGTTTGGGGTCAAAATGTAATTTTTG
1 AAAATTTTGGGGTCAAAATGT-AATTTTAGAAAAGTTTAGGGTCAAAATGTAATTTTAG
52025662 AAAA
1 AAAA
52025666 GATCAGGGGC
Statistics
Matches: 96, Mismatches: 21, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
57 2 0.02
58 3 0.03
59 62 0.65
60 27 0.28
61 2 0.02
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (58 bp):
AAAATTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGTCAAAATGTAATTTTAG
Found at i:52025682 original size:89 final size:89
Alignment explanation
Indices: 52025499--52025689 Score: 208
Period size: 89 Copynumber: 2.1 Consensus size: 89
52025489 ATTTGGGGTA
* * * *
52025499 AAAATGTAATTTTAGGAAAATATAGGGCCAAGATGTAATTTTTAGAAAGTTTAGTGGTCAAAGTG
1 AAAATGTAATTTTAGGAAAATATAGGGCCAAAATGTAAATTTTAGAAAGTTTAGGGGTCAAAATG
* * * *
52025564 TAATTTTGAGAAAGTTTAATGGTT
66 TAATTTTGAGAAAGATCAAGGGCT
* * * * *
52025588 GAAATGTAATTTTA-GAAAATTTTGGGGTCAAAATTTAAATTTTAGAAAAGTTT-GGGGTCAAAA
1 AAAATGTAATTTTAGGAAAA-TATAGGGCCAAAATGTAAATTTTAG-AAAGTTTAGGGGTCAAAA
*
52025651 TGTAATTTTTGA-AAAGATCAGGGGCT
64 TGTAA-TTTTGAGAAAGATCAAGGGCT
52025677 AAAATGTAATTTT
1 AAAATGTAATTTT
52025690 CATTTTTTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
88 5 0.06
89 66 0.79
90 13 0.15
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (89 bp):
AAAATGTAATTTTAGGAAAATATAGGGCCAAAATGTAAATTTTAGAAAGTTTAGGGGTCAAAATG
TAATTTTGAGAAAGATCAAGGGCT
Found at i:52025949 original size:50 final size:50
Alignment explanation
Indices: 52025873--52026021 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 50
52025863 AGTTATTACA
52025873 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGAC
* * *
52025923 GTGGCGTTGGCACCGAGATGAGAGGTCCCTTGTAAGACCATGTCTGGGAC
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGAC
* * * **
52025973 ATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGA
52026022 TATGACATTG
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.21
Consensus pattern (50 bp):
ATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGAC
Found at i:52026790 original size:21 final size:22
Alignment explanation
Indices: 52026760--52026800 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
52026750 TTCGTGTAAC
* *
52026760 TTGAATTATAT-TCTTAGATGA
1 TTGAAATATATATATTAGATGA
52026781 TTGAAATATATATATTAGAT
1 TTGAAATATATATATTAGAT
52026801 TGAGAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (22 bp):
TTGAAATATATATATTAGATGA
Found at i:52027718 original size:14 final size:16
Alignment explanation
Indices: 52027696--52027727 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
52027686 TATATTTAAA
52027696 AATATAAATAA-TTTT
1 AATATAAATAAGTTTT
52027711 AATA-AAATAAGTTTT
1 AATATAAATAAGTTTT
52027726 AA
1 AA
52027728 ATTTTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AATATAAATAAGTTTT
Found at i:52028065 original size:19 final size:19
Alignment explanation
Indices: 52028011--52028067 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
52028001 AGATTCTTGA
52028011 AATTATACAAATTAAA-AATT
1 AATTATA-AAA-TAAATAATT
52028031 AATTATAAAA-AGAATAATT
1 AATTATAAAATA-AATAATT
52028050 ATATTA-AAAATAAATAAT
1 A-ATTATAAAATAAATAAT
52028068 ATAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 18 0.55
20 12 0.36
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATTATAAAATAAATAATT
Found at i:52028072 original size:15 final size:14
Alignment explanation
Indices: 52028023--52028078 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
52028013 TTATACAAAT
52028023 TAAAAATTAATTATA
1 TAAAAA-TAATTATA
*
52028038 AAAAGAATAATTATA
1 TAAA-AATAATTATA
*
52028053 TTAAAAATAAATAATA
1 -TAAAAAT-AATTATA
52028069 TAAAAA-AATT
1 TAAAAATAATT
52028079 CAATATAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.09
15 20 0.59
16 11 0.32
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
TAAAAATAATTATA
Found at i:52030426 original size:35 final size:35
Alignment explanation
Indices: 52030387--52030455 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
52030377 ACTTGCCTCT
52030387 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
52030422 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
52030456 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:52030482 original size:34 final size:35
Alignment explanation
Indices: 52030404--52030483 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
52030394 CTCCCATGCT
* * * * *
52030404 GTCTGCCACCAGCACCACTCCCACTCTCCCATGCT
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
52030439 GTCTGCCACCAGCACCA-TCACACACCCCCATACC
1 GTCTGCCACCAGCACCACTCACACACCCCCATACC
*
52030473 GTCTACCACCA
1 GTCTGCCACCA
52030484 CCATGCCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.23, C:0.51, G:0.10, T:0.16
Consensus pattern (35 bp):
GTCTGCCACCAGCACCACTCACACACCCCCATACC
Found at i:52031656 original size:3 final size:3
Alignment explanation
Indices: 52031648--52031903 Score: 66
Period size: 3 Copynumber: 85.0 Consensus size: 3
52031638 ATTTGCCATT
** * *
52031648 TTA TTA TTA AAA TTGA TTAA TTA -TA TTTA TTTA TTA TTT TTA TTA TTT
1 TTA TTA TTA TTA TT-A TT-A TTA TTA T-TA T-TA TTA TTA TTA TTA TTA
* * * * * *
52031696 TTG CTA TTA TTA TTA TTA TCA TTA TTT TTA TT- CTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
52031743 TT- TCTC TTG TTG TT- TTCA TTA TTA TT- TATA TTA TTG TTA GTA CTA
1 TTA T-TA TTA TTA TTA TT-A TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * ** * *
52031788 TTA GTA CTCT- TTA GT- TTA TTA TTA TTA TTA TT- TCG TCA TTA TTT
1 TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
52031832 TCTA TTA TTG TTA TTA ATA -TA CTA TTA TTA TTC TTA TTAA TGTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
* * *
52031879 CTA TTA TT- TTT TTA CT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
52031904 CATTACTACT
Statistics
Matches: 186, Mismatches: 46, Indels: 42
0.68 0.17 0.15
Matches are distributed among these distances:
2 15 0.08
3 146 0.78
4 23 0.12
5 2 0.01
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:52031868 original size:23 final size:23
Alignment explanation
Indices: 52031833--52031886 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
52031823 TCATTATTTT
*
52031833 CTATTATTGTTATTAATATACTA
1 CTATTATTCTTATTAATATACTA
* * *
52031856 TTATTATTCTTATTAATGTATTA
1 CTATTATTCTTATTAATATACTA
52031879 CTATTATT
1 CTATTATT
52031887 TTTTTACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
CTATTATTCTTATTAATATACTA
Found at i:52032003 original size:3 final size:3
Alignment explanation
Indices: 52031995--52032034 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
52031985 ATATATTTAC
** *
52031995 ATT ATT ATT GCT ATT ACT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
52032035 GACATAACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:52039952 original size:86 final size:87
Alignment explanation
Indices: 52039807--52039987 Score: 283
Period size: 86 Copynumber: 2.1 Consensus size: 87
52039797 ATCAGTAAAA
* * *
52039807 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGTTGGTTGAAGATAGCAAATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTACCTT
52039872 CCTGCA-TTGACAGCGAAGCAG
66 CCTGCATTTGACAGCGAAGCAG
* * *
52039893 ATCGAAGACAAACCTTGCCTCTCTTGTTTGTAGCAGAGCTGGTTGAAGATAATAGATCTTACCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTACCTT
* *
52039958 CCTGTATTTGGCAGCGAAGCAG
66 CCTGCATTTGACAGCGAAGCAG
52039980 ATCGAAGA
1 ATCGAAGA
52039988 TGGCCGATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 64 0.74
87 22 0.26
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (87 bp):
ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTACCTT
CCTGCATTTGACAGCGAAGCAG
Found at i:52040176 original size:134 final size:134
Alignment explanation
Indices: 52039946--52041011 Score: 1868
Period size: 134 Copynumber: 8.0 Consensus size: 134
52039936 TGAAGATAAT
* * *
52039946 AGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCCGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
52040011 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
52040076 TTGC
131 TTGC
*
52040080 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCATATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
* **
52040145 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAAAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
52040210 TTGC
131 TTGC
*
52040214 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
52040279 ACAGTGGAGTACATTGAAGCCGAT-ATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
52040343 TTGC
131 TTGC
*
52040347 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCTCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
* *
52040412 ACAGTGGAGTATATTGAAGCCGATAATTCTACCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
52040477 TTGC
131 TTGC
52040481 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
52040546 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
52040611 TTGC
131 TTGC
52040615 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
52040680 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGTAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
52040745 TTGC
131 TTGC
*
52040749 AGATCTTGCCTTCCTGTATTTGGCAGCGAAACAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
52040814 ACAGTGGAGTACATTGAAACCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
*
52040879 TTAC
131 TTGC
** * **** * * * *
52040883 AGATCTTATC-TCC-CTAAGCAGTAGTGGAGTAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
52040946 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
52041011 T
131 T
52041012 CGAAGATGGC
Statistics
Matches: 893, Mismatches: 38, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
132 104 0.12
133 130 0.15
134 659 0.74
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
TTGC
Found at i:52041024 original size:95 final size:95
Alignment explanation
Indices: 52040913--52041488 Score: 1053
Period size: 95 Copynumber: 6.0 Consensus size: 95
52040903 GTAGTGGAGT
*
52040913 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
52040978 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
52041008 AGATCGAAGATGGCAGATTTTACCTTCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
52041073 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
52041103 AGATCGAAGATGGCAGATTTTACCTTCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
52041168 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
52041198 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
52041263 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
52041295 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
52041360 CTTCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
52041390 AGATCGAAGATGGCAGAGTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
52041455 CTCTCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
52041485 AGAT
1 AGAT
52041489 TACAGATCTT
Statistics
Matches: 467, Mismatches: 12, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
95 374 0.80
97 93 0.20
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (95 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:52041344 original size:50 final size:50
Alignment explanation
Indices: 52041279--52041441 Score: 126
Period size: 50 Copynumber: 3.4 Consensus size: 50
52041269 CTGTATTTGG
* *
52041279 CAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAATACATTGAAGATCGAAGATGGCAGACTTTACCTCCCTGACTA
* * * * * * *
52041329 CAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTTCCTGTATTTGG
1 CAGTGGAATACATTGAAGATCGAAGATGGCAGACTTTACCTCCCTG-A-CT-A
* * *
52041374 CAGTGGAATAGATTGAAGATCGAAGATGGCAGAGTTTACCTCCCTAACTA
1 CAGTGGAATACATTGAAGATCGAAGATGGCAGACTTTACCTCCCTGACTA
*
52041424 CAGTGGAGTACATTGAAG
1 CAGTGGAATACATTGAAG
52041442 CCGATAACTC
Statistics
Matches: 81, Mismatches: 21, Indels: 22
0.65 0.17 0.18
Matches are distributed among these distances:
42 10 0.12
43 2 0.02
44 1 0.01
45 16 0.20
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
50 32 0.40
51 1 0.01
52 2 0.02
53 9 0.11
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (50 bp):
CAGTGGAATACATTGAAGATCGAAGATGGCAGACTTTACCTCCCTGACTA
Found at i:52041457 original size:287 final size:285
Alignment explanation
Indices: 52040913--52041488 Score: 1071
Period size: 287 Copynumber: 2.0 Consensus size: 285
52040903 GTAGTGGAGT
52040913 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
52040978 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTTCCTGACTAC
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTGACTAC
52041043 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATC
131 AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATC
* * *
52041108 GAAGATGGCAGATTTTACCTTCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCC
196 GAAGATGGCAGAGTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCC
52041173 TGTATTTGGCAGTGGAATAGATTGA
261 TGTATTTGGCAGTGGAATAGATTGA
*
52041198 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
52041263 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTGACT
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTGACT
*
52041328 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTTCCTGTATTTGGCAGTGGAATAGATTGAAGA
129 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
52041393 TCGAAGATGGCAGAGTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
194 TCGAAGATGGCAGAGTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
*
52041458 TCTGTATTTGGCAGTGGAATAGATTGA
259 CCTGTATTTGGCAGTGGAATAGATTGA
52041485 AGAT
1 AGAT
52041489 TACAGATCTT
Statistics
Matches: 282, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
285 27 0.10
287 255 0.90
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (285 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTGACTAC
AGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATC
GAAGATGGCAGAGTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCC
TGTATTTGGCAGTGGAATAGATTGA
Found at i:52041574 original size:132 final size:130
Alignment explanation
Indices: 52041393--52042009 Score: 865
Period size: 130 Copynumber: 4.7 Consensus size: 130
52041383 AGATTGAAGA
* * * * *
52041393 TCGAAGATGGCAGAGTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
1 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
* ***** *
52041458 TCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
66 CCTG--GGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
52041523 GG
129 GG
* * * * **
52041525 TTGAAGACGGCGGATTTTACCTCCCTAATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
52041590 CCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
66 CCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
* * *
52041655 TCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
1 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
***** *
52041720 CCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
66 CCTG--GGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
52041785 GG
129 GG
* * * **
52041787 TCGAAGACGACGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
52041852 CCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
66 CCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
* * **
52041917 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
*
52041982 CCTGGACAACAGTGGAATAGATCGAAGA
66 CCTGGGCAACAGTGGAATAGATCGAAGA
52042010 AAACAACATT
Statistics
Matches: 436, Mismatches: 47, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
130 261 0.60
132 175 0.40
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (130 bp):
TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
CCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
Found at i:52041646 original size:130 final size:130
Alignment explanation
Indices: 52041469--52042009 Score: 902
Period size: 130 Copynumber: 4.1 Consensus size: 130
52041459 CTGTATTTGG
* *
52041469 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTTGAAGACG
1 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
*
52041534 GCGGATTTTACCTCCCTAATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
66 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
*
52041599 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATG
1 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
* * * * ** ***
52041664 GCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTT
66 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTG--GGC
**
52041729 GG
129 AA
*
52041731 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
1 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
*
52041796 ACGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
66 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
52041861 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
1 CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
*
52041926 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGACAA
66 GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
52041991 CAGTGGAATAGATCGAAGA
1 CAGTGGAATAGATCGAAGA
52042010 AAACAACATT
Statistics
Matches: 377, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
130 261 0.69
132 116 0.31
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (130 bp):
CAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGACG
GCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAA
Found at i:52041858 original size:262 final size:262
Alignment explanation
Indices: 52041393--52041985 Score: 1069
Period size: 262 Copynumber: 2.3 Consensus size: 262
52041383 AGATTGAAGA
* *
52041393 TCGAAGATGGCAGAGTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
1 TCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
*
52041458 TCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
66 CCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
* *
52041523 GGTTGAAGACGGCGGATTTTACCTCCCTAATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATC
131 GGTCGAAGACGACGGATTTTACCTCCCTAATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATC
52041588 TCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
196 TCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
52041653 GG
261 GG
52041655 TCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
1 TCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
52041720 CCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
66 CCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
*
52041785 GGTCGAAGACGACGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATC
131 GGTCGAAGACGACGGATTTTACCTCCCTAATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATC
52041850 TCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
196 TCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
52041915 GG
261 GG
* * * * * **
52041917 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
52041982 CCTG
66 CCTG
52041986 GACAACAGTG
Statistics
Matches: 318, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
262 318 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (262 bp):
TCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTC
CCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
GGTCGAAGACGACGGATTTTACCTCCCTAATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATC
TCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
GG
Found at i:52041864 original size:43 final size:43
Alignment explanation
Indices: 52041817--52042008 Score: 120
Period size: 43 Copynumber: 4.4 Consensus size: 43
52041807 CTCCCTGATT
* * *
52041817 ACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTACATCGAAGCTGGCAGTTCTATCTCCCTGGACA
* * * ** * *
52041860 ACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCT-AAGCA
1 ACAGTGGAGTACATCGAAGCTGGCAGTTC-TATCTCCCTGGA-CA
* * ** * * * **
52041904 ATAGTGGAGCAGGTCGAAGAC-GGCGGATTTTACCTCCCT-GATT
1 ACAGTGGAGTACATCGAAG-CTGGCAG-TTCTATCTCCCTGGACA
* *
52041947 ACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGACA
1 ACAGTGGAGTACATCGAAGCTGGCAGTTCTATCTCCCTGGACA
* *
52041990 ACAGTGGAATAGATCGAAG
1 ACAGTGGAGTACATCGAAG
52042009 AAAACAACAT
Statistics
Matches: 105, Mismatches: 38, Indels: 12
0.68 0.25 0.08
Matches are distributed among these distances:
42 11 0.10
43 56 0.53
44 37 0.35
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
ACAGTGGAGTACATCGAAGCTGGCAGTTCTATCTCCCTGGACA
Found at i:52041941 original size:44 final size:44
Alignment explanation
Indices: 52041763--52041942 Score: 107
Period size: 44 Copynumber: 4.1 Consensus size: 44
52041753 CAGATCTTAT
* *
52041763 CTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGACGGATTTTAC
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGACGACGGATTTTAC
* ** * * * * * *
52041807 CTCCCTGA-TTACAGTGGAGTACATTGAAG-CTG--GTAGTTCTAT
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGAC-GACGGA-TTTTAC
** ** ** * * *
52041849 CTCCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTAT
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGACGACGGATTTTAC
* * *
52041893 CTCCCTAAGCAATAGTGGAGCAGGTCGAAGACGGCGGATTTTAC
1 CTCCCTAAGCAACAGTGGAGCAGATCGAAGACGACGGATTTTAC
52041937 CTCCCT
1 CTCCCT
52041943 GATTACAGTG
Statistics
Matches: 95, Mismatches: 35, Indels: 12
0.67 0.25 0.08
Matches are distributed among these distances:
41 2 0.02
42 12 0.13
43 31 0.33
44 49 0.52
45 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (44 bp):
CTCCCTAAGCAACAGTGGAGCAGATCGAAGACGACGGATTTTAC
Found at i:52042491 original size:35 final size:35
Alignment explanation
Indices: 52042452--52042520 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
52042442 ACTTGCCTCT
52042452 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
*
52042487 TCCCACTCTCCCATGCTGTTTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
52042521 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:52043723 original size:3 final size:3
Alignment explanation
Indices: 52043715--52043986 Score: 64
Period size: 3 Copynumber: 90.7 Consensus size: 3
52043705 ATTTGCCATT
** * *
52043715 TTA TTA TTA AAA TTGA TTAA TTA -TA TTTA TTTA TTA TTT TTA TTA TTT
1 TTA TTA TTA TTA TT-A TT-A TTA TTA T-TA T-TA TTA TTA TTA TTA TTA
* * * * * * *
52043763 TTG CTA TTA TTA TTA TTA TCA TTA TTT TTA TT- CTG TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
52043810 TT- TCTC TTG TTG TT- TTCA TTA TTA TT- TATA TTA TTG TTA GTA CTA
1 TTA T-TA TTA TTA TTA TT-A TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * ** *
52043855 TTA GTA CTCT- TTA GT- TTA TTA TTA TTA TTA TTA TT- TCG TCA TTA
1 TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
52043899 TTT TCTA TTA TTG TTA TTA ATA -TA CTA TTA TTA TTC TTA TTAA TGTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA
* * * * *
52043946 TTA CTA TTA TT- TTT TTA CT- TTA TTA TTA -CA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52043987 GCTATCATCA
Statistics
Matches: 196, Mismatches: 51, Indels: 44
0.67 0.18 0.15
Matches are distributed among these distances:
2 16 0.08
3 155 0.79
4 23 0.12
5 2 0.01
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:52043938 original size:23 final size:23
Alignment explanation
Indices: 52043903--52043956 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
52043893 TCATTATTTT
*
52043903 CTATTATTGTTATTAATATACTA
1 CTATTATTCTTATTAATATACTA
* * *
52043926 TTATTATTCTTATTAATGTATTA
1 CTATTATTCTTATTAATATACTA
52043949 CTATTATT
1 CTATTATT
52043957 TTTTTACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
CTATTATTCTTATTAATATACTA
Found at i:52044004 original size:3 final size:3
Alignment explanation
Indices: 52043745--52043986 Score: 65
Period size: 3 Copynumber: 81.7 Consensus size: 3
52043735 TTATATTTAT
* * * * * *
52043745 TTA TTA TTT TTA TTA TTT TTG CTA TTA TTA TTA TTA TCA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
52043793 TT- CTG TTA TTG TTA TTA TT- TCTC TTG TTG TT- TTCA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TTA TTA
* * * * *
52043836 TATA TTA TTG TTA GTA CTA TTA GTA CTCT- TTA GT- TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA
** * * * * *
52043882 TTA TTA TT- TCG TCA TTA TTT TCTA TTA TTG TTA TTA ATA -TA CTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * * *
52043926 TTA TTA TTC TTA TTAA TGTA TTA CTA TTA TT- TTT TTA CT- TTA TTA
1 TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
52043971 TTA -CA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TT
52043987 GCTATCATCA
Statistics
Matches: 174, Mismatches: 46, Indels: 38
0.67 0.18 0.15
Matches are distributed among these distances:
2 14 0.08
3 148 0.85
4 10 0.06
5 2 0.01
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:52044090 original size:3 final size:3
Alignment explanation
Indices: 52044076--52044113 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
52044066 TTATCATTGC
*
52044076 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
52044114 GACATAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:52049850 original size:32 final size:32
Alignment explanation
Indices: 52049809--52049877 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
52049799 GTACATGTCA
** *
52049809 CATGTTCCATACTCTAGTGTAGTGGGATCTCT
1 CATGTTCCATACTCTAGTCCAATGGGATCTCT
*
52049841 CATGTTCCATACTCTAGTCCAATGGGATCTTT
1 CATGTTCCATACTCTAGTCCAATGGGATCTCT
52049873 CATGT
1 CATGT
52049878 ATGCTATGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (32 bp):
CATGTTCCATACTCTAGTCCAATGGGATCTCT
Found at i:52058026 original size:30 final size:30
Alignment explanation
Indices: 52057980--52058103 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
52057970 TTTTATTATG
*
52057980 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
52058011 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
52058041 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
52058071 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
52058101 CCA
1 CCA
52058104 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:52058035 original size:15 final size:15
Alignment explanation
Indices: 52057990--52058097 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
52057980 CCAATATCTC
52057990 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
52058005 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
52058020 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
52058035 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
52058050 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
52058065 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
52058080 GATACCCATATCTTT
1 GATACCCATATCTTT
52058095 GAT
1 GAT
52058098 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:52062709 original size:30 final size:30
Alignment explanation
Indices: 52062663--52062786 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
52062653 TTTTATTATG
*
52062663 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
52062694 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
52062724 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
52062754 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
52062784 CCA
1 CCA
52062787 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:52062718 original size:15 final size:15
Alignment explanation
Indices: 52062673--52062780 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
52062663 CCAATATCTC
52062673 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
52062688 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
52062703 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
52062718 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
52062733 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
52062748 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
52062763 GATACCCATATCTTT
1 GATACCCATATCTTT
52062778 GAT
1 GAT
52062781 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:52068031 original size:12 final size:12
Alignment explanation
Indices: 52068016--52068045 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52068006 ACAATAATAC
52068016 TATATATAAATG
1 TATATATAAATG
*
52068028 TATATATATATG
1 TATATATAAATG
52068040 TATATA
1 TATATA
52068046 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:52068153 original size:17 final size:15
Alignment explanation
Indices: 52068131--52068171 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
52068121 AAAGTAATAA
52068131 AAAATAATACTATATAT
1 AAAAT-ATA-TATATAT
52068148 AAAATATATATATAT
1 AAAATATATATATAT
52068163 AAAA-ATATA
1 AAAATATATA
52068172 CACTAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.21
15 11 0.46
16 3 0.12
17 5 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATATATATATAT
Found at i:52068169 original size:16 final size:17
Alignment explanation
Indices: 52068130--52068181 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
52068120 TAAAGTAATA
52068130 AAAAATA-ATACTATAT
1 AAAAATATATACTATAT
52068146 ATAAAATATATA-TATAT
1 A-AAAATATATACTATAT
*
52068163 AAAAATATACACTAATAT
1 AAAAATATATACT-ATAT
52068181 A
1 A
52068182 TAATAGTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 10 0.32
17 13 0.42
18 8 0.26
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATATATACTATAT
Found at i:52068402 original size:3 final size:3
Alignment explanation
Indices: 52068389--52068473 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
52068379 GAGGGCATAT
*
52068389 ATA AT- ATA ATA ATA AT- ATA AAA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
52068435 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
52068474 AACAAAGCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
2 9 0.14
3 48 0.73
4 7 0.11
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:52068405 original size:11 final size:11
Alignment explanation
Indices: 52068389--52068473 Score: 66
Period size: 11 Copynumber: 7.4 Consensus size: 11
52068379 GAGGGCATAT
52068389 ATAATATAATA
1 ATAATATAATA
*
52068400 ATAATATAAAA
1 ATAATATAATA
52068411 ATAATAT-ATA
1 ATAATATAATA
*
52068421 CATGAGAAATAATA
1 -AT-A-ATATAATA
52068435 ATAATA-ATATAA
1 ATAATATA-AT-A
*
52068447 ATAATAGTAAAA
1 ATAATA-TAATA
*
52068459 ATAATAAAATA
1 ATAATATAATA
52068470 ATAA
1 ATAA
52068474 AACAAAGCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
10 3 0.05
11 30 0.51
12 16 0.27
13 6 0.10
14 4 0.07
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (11 bp):
ATAATATAATA
Found at i:52068461 original size:24 final size:23
Alignment explanation
Indices: 52068389--52068470 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
52068379 GAGGGCATAT
52068389 ATAATATAATAATAATATAAAAATA
1 ATAATAT-A-AATAATATAAAAATA
* * *
52068414 AT-ATATACATGAGAAATAATAATA
1 ATAATATAAAT-A-ATATAAAAATA
52068438 ATAATATAAATAATAGTAAAAATA
1 ATAATATAAATAATA-TAAAAATA
*
52068462 ATAAAATAA
1 ATAATATAA
52068471 TAAAACAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
22 2 0.04
23 4 0.09
24 31 0.67
25 9 0.20
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (23 bp):
ATAATATAAATAATATAAAAATA
Found at i:52068469 original size:38 final size:36
Alignment explanation
Indices: 52068389--52068473 Score: 91
Period size: 35 Copynumber: 2.3 Consensus size: 36
52068379 GAGGGCATAT
* * * *
52068389 ATAATATAATAATAATATAAAAATAATATATACATG
1 ATAAAATAATAATAATATAAAAATAATATAAAAATA
* *
52068425 A-GAAATAATAATAATAATATAAATAATAGTAAAAATA
1 ATAAAATAATAATAAT-ATAAAAATAATA-TAAAAATA
52068462 ATAAAATAATAA
1 ATAAAATAATAA
52068474 AACAAAGCTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 12 0.31
36 12 0.31
37 6 0.15
38 9 0.23
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (36 bp):
ATAAAATAATAATAATATAAAAATAATATAAAAATA
Found at i:52068836 original size:23 final size:23
Alignment explanation
Indices: 52068801--52068873 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
52068791 CCTTTTTTAC
*
52068801 AAAAAAA-CACCTCCAAAAAACA
1 AAAAAAACCTCCTCCAAAAAACA
52068823 AAAAAAACCTCCTCC--AAAACA
1 AAAAAAACCTCCTCCAAAAAACA
* * *
52068844 AAGAACAATCCTTCTCCAAAAAACC
1 AA-AA-AAACCTCCTCCAAAAAACA
52068869 AAAAA
1 AAAAA
52068874 CCCACCCCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 8 0.19
22 9 0.21
23 16 0.38
24 2 0.05
25 7 0.17
ACGTcount: A:0.60, C:0.29, G:0.01, T:0.10
Consensus pattern (23 bp):
AAAAAAACCTCCTCCAAAAAACA
Found at i:52068841 original size:21 final size:21
Alignment explanation
Indices: 52068799--52068864 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
52068789 AACCTTTTTT
**
52068799 ACAAAAAAACACCTCC-AAAAA
1 ACAAAAAAA-ACCTCCTCCAAA
52068820 ACAAAAAAAACCTCCTCCAAA
1 ACAAAAAAAACCTCCTCCAAA
* *
52068841 ACAAAGAACAATCCTTCTCCAAA
1 ACAAA-AA-AAACCTCCTCCAAA
52068864 A
1 A
52068865 AACCAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 17 0.45
22 2 0.05
23 13 0.34
ACGTcount: A:0.58, C:0.30, G:0.02, T:0.11
Consensus pattern (21 bp):
ACAAAAAAAACCTCCTCCAAA
Found at i:52069375 original size:40 final size:40
Alignment explanation
Indices: 52069331--52069482 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
52069321 GTGTTTTTAG
*
52069331 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* * * * ***
52069371 TCTGCTTCACTATTGCTTAGGGAAATAAGATCTGTGGTTTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGCGA
*
52069413 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
*
52069453 TCTACTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
52069483 TTGTAATCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
40 58 0.62
41 4 0.04
42 31 0.33
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:52069422 original size:82 final size:83
Alignment explanation
Indices: 52069315--52069483 Score: 259
Period size: 82 Copynumber: 2.0 Consensus size: 83
52069305 CATGGGGATG
* * * * *
52069315 AGATTTGTGTTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTTCA
1 AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
*
52069380 CTATTGCTTAGGGAAATA
66 CTACTGCTTAGGGAAATA
*
52069398 AGATCTGTGGTTTTA-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCA
1 AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
*
52069462 CTACTGCTTAGGGAGATA
66 CTACTGCTTAGGGAAATA
52069480 AGAT
1 AGAT
52069484 TGTAATCTTC
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 65 0.83
83 13 0.17
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (83 bp):
AGATCTGTGGTTTTAGTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCA
CTACTGCTTAGGGAAATA
Found at i:52069946 original size:134 final size:135
Alignment explanation
Indices: 52069645--52069947 Score: 527
Period size: 136 Copynumber: 2.2 Consensus size: 135
52069635 ACTTCCTACC
* * *
52069645 AATATAGGAAGGCAGGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCCATTCCACTGCCAGATACAGGGAGATAGAGTT
52069710 ATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
66 ATCGGCTTCAATGTACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
*
52069775 CTGCCT
130 CTGCCA
*
52069781 AATACAGGAAGGCAAGATCTGCAATCTTCAATCCATTCCACTGCCAGATACAGTGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCCATTCCACTGCCAGATACAGGGAGATAGAGTT
* *
52069846 ATCGGCTTCAATGTACTCCACTGTGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGC
66 ATCGGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGC
52069910 TGCCA
131 TGCCA
52069915 AATACAGGAAGGCAAGATCTGCAATCTTCAATC
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATC
52069948 TACTTCACCA
Statistics
Matches: 160, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
134 73 0.46
136 87 0.54
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (135 bp):
AATACAGGAAGGCAAGATCTGCAATCTTCAATCCATTCCACTGCCAGATACAGGGAGATAGAGTT
ATCGGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGC
TGCCA
Found at i:52070030 original size:44 final size:45
Alignment explanation
Indices: 52069885--52070462 Score: 444
Period size: 44 Copynumber: 13.1 Consensus size: 45
52069875 GGGAGGTAAA
* * * * * * *
52069885 ATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTCACTACC-AATATAGGAAGACAAG
* * * * * *
52069931 ATCTGCAATCTTCAATCTACTTCACCACCAGTGTGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
52069976 ATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
52070019 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
52070063 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
52070108 ATCTGC-ATATTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * *
52070151 A-CTTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATC-TGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
52070195 ATCTGTTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
52070240 ATCTG-TATCTTCGATCCATTTC-CTACCAATATAGAAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
52070283 ATCTGCTACCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
52070327 ATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
52070372 ATCTGC-ATCCTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
52070415 ACCTGCTATCTTCGATCTGCTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
52070459 ATCT
1 ATCT
52070463 ACTTTAATGA
Statistics
Matches: 405, Mismatches: 114, Indels: 28
0.74 0.21 0.05
Matches are distributed among these distances:
42 1 0.00
43 81 0.20
44 217 0.54
45 84 0.21
46 22 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
Found at i:52070152 original size:132 final size:132
Alignment explanation
Indices: 52069887--52070467 Score: 901
Period size: 132 Copynumber: 4.4 Consensus size: 132
52069877 GAGGTAAAAT
* * * * * * ** * *
52069887 CTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACT
1 CTGCTATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACT
* * *
52069952 TCACCACCAGTGTGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATA
64 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATA
52070017 GGAC
129 GGAC
52070021 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
*
52070086 GCCACCAATATGGGAAGACAAGATCTGCATATTGGATCCACTTCCTATCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
52070151 AC
131 AC
* *
52070153 TTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* * * * *
52070218 GCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCATTTCCTACCAATATAGAAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
*
52070283 AT
131 AC
* *
52070285 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTACGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
*
52070350 GCCACCAATATGGGAAGACAAGATCTGCATCCTGGATCCACTTCCTATCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
52070415 AC
131 AC
* *
52070417 CTGCTATCTTCGATCTGCTTCACGCCAATACATGAAGACAAGATCTACTTT
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
52070468 AATGACTTCA
Statistics
Matches: 410, Mismatches: 37, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
132 388 0.95
133 3 0.01
134 19 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGG
AC
Found at i:52075152 original size:12 final size:12
Alignment explanation
Indices: 52075137--52075166 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52075127 ACAATAATAC
52075137 TATATATAAATG
1 TATATATAAATG
*
52075149 TATATATATATG
1 TATATATAAATG
52075161 TATATA
1 TATATA
52075167 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:52075272 original size:19 final size:17
Alignment explanation
Indices: 52075248--52075294 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
52075238 AATTAAAGTA
*
52075248 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
52075267 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
52075284 AT-AAAAATATA
1 ATAAAAAATATA
52075295 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:52075290 original size:18 final size:19
Alignment explanation
Indices: 52075251--52075299 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
52075241 TAAAGTAATA
*
52075251 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
52075269 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
52075286 AAAAATATACACTA
1 AAAAATATATACTA
52075300 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:52088251 original size:12 final size:12
Alignment explanation
Indices: 52088236--52088265 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52088226 ACAATAATAC
52088236 TATATATAAATG
1 TATATATAAATG
*
52088248 TATATATATATG
1 TATATATAAATG
52088260 TATATA
1 TATATA
52088266 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TATATATAAATG
Found at i:52088371 original size:19 final size:17
Alignment explanation
Indices: 52088347--52088393 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
52088337 AATTAAAGTA
*
52088347 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
52088366 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
52088383 AT-AAAAATATA
1 ATAAAAAATATA
52088394 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:52088389 original size:18 final size:19
Alignment explanation
Indices: 52088350--52088398 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
52088340 TAAAGTAATA
*
52088350 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
52088368 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
52088385 AAAAATATACACTA
1 AAAAATATATACTA
52088399 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:52088625 original size:3 final size:3
Alignment explanation
Indices: 52088612--52088693 Score: 57
Period size: 3 Copynumber: 27.3 Consensus size: 3
52088602 GAGGGCATAT
*
52088612 ATA AT- ATA ATA ATA AT- ATA AAA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
52088658 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
52088694 AACAAAGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
2 9 0.14
3 45 0.71
4 7 0.11
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:52088628 original size:11 final size:11
Alignment explanation
Indices: 52088612--52088693 Score: 71
Period size: 11 Copynumber: 7.4 Consensus size: 11
52088602 GAGGGCATAT
52088612 ATAATATAATA
1 ATAATATAATA
*
52088623 ATAATATAAAA
1 ATAATATAATA
52088634 ATAATAT-ATA
1 ATAATATAATA
*
52088644 CATGAGAAATAATA
1 -AT-A-ATATAATA
52088658 ATAATAT-A-A
1 ATAATATAATA
*
52088667 ATAATAGTAAAA
1 ATAATA-TAATA
*
52088679 ATAATAAAATA
1 ATAATATAATA
52088690 ATAA
1 ATAA
52088694 AACAAAGCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
9 7 0.12
10 4 0.07
11 30 0.52
12 9 0.16
13 5 0.09
14 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (11 bp):
ATAATATAATA
Found at i:52088658 original size:27 final size:28
Alignment explanation
Indices: 52088628--52088694 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
52088618 TAATAATAAT
* *
52088628 ATAAAAATAATATATACAT-G-AGAAATA
1 ATAAAAATAATAAATA-ATAGTAAAAATA
*
52088655 ATAATAAT-ATAAATAATAGTAAAAATA
1 ATAAAAATAATAAATAATAGTAAAAATA
52088682 AT-AAAATAATAAA
1 ATAAAAATAATAAA
52088695 ACAAAGCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.06
26 11 0.33
27 20 0.61
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (28 bp):
ATAAAAATAATAAATAATAGTAAAAATA
Found at i:52088681 original size:24 final size:24
Alignment explanation
Indices: 52088612--52088690 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
52088602 GAGGGCATAT
52088612 ATAATATAATAATAATA-TAAAAATA
1 ATAATAT-A-AATAATAGTAAAAATA
* *
52088637 AT-ATATACAT--GAG-AAATAATA
1 ATAATATAAATAATAGTAAA-AATA
52088658 ATAATATAAATAATAGTAAAAATA
1 ATAATATAAATAATAGTAAAAATA
*
52088682 ATAAAATAA
1 ATAATATAA
52088691 TAAAACAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
20 4 0.09
21 6 0.14
22 9 0.21
23 1 0.02
24 18 0.42
25 5 0.12
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (24 bp):
ATAATATAAATAATAGTAAAAATA
Found at i:52089058 original size:23 final size:23
Alignment explanation
Indices: 52089023--52089095 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
52089013 CCTTTTTTAC
*
52089023 AAAAAAA-CACCTCCAAAAAACA
1 AAAAAAACCTCCTCCAAAAAACA
52089045 AAAAAAACCTCCTCC--AAAACA
1 AAAAAAACCTCCTCCAAAAAACA
* * *
52089066 AAGAACAATCCTTCTCCAAAAAACC
1 AA-AA-AAACCTCCTCCAAAAAACA
52089091 AAAAA
1 AAAAA
52089096 CCCACCCCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 8 0.19
22 9 0.21
23 16 0.38
24 2 0.05
25 7 0.17
ACGTcount: A:0.60, C:0.29, G:0.01, T:0.10
Consensus pattern (23 bp):
AAAAAAACCTCCTCCAAAAAACA
Found at i:52089063 original size:21 final size:21
Alignment explanation
Indices: 52089021--52089086 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
52089011 AACCTTTTTT
**
52089021 ACAAAAAAACACCTCC-AAAAA
1 ACAAAAAAA-ACCTCCTCCAAA
52089042 ACAAAAAAAACCTCCTCCAAA
1 ACAAAAAAAACCTCCTCCAAA
* *
52089063 ACAAAGAACAATCCTTCTCCAAA
1 ACAAA-AA-AAACCTCCTCCAAA
52089086 A
1 A
52089087 AACCAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 17 0.45
22 2 0.05
23 13 0.34
ACGTcount: A:0.58, C:0.30, G:0.02, T:0.11
Consensus pattern (21 bp):
ACAAAAAAAACCTCCTCCAAA
Found at i:52094947 original size:16 final size:17
Alignment explanation
Indices: 52094917--52094960 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
52094907 TTAAAGATAC
52094917 ATAAAAT-AAACCTAA-A
1 ATAAAATGAAA-CTAATA
52094933 ATAAAATGAAACTAATA
1 ATAAAATGAAACTAATA
52094950 A-AAAATGAAAC
1 ATAAAATGAAAC
52094961 AATGTTATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.68, C:0.09, G:0.05, T:0.18
Consensus pattern (17 bp):
ATAAAATGAAACTAATA
Found at i:52095599 original size:24 final size:23
Alignment explanation
Indices: 52095572--52095617 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
52095562 TTTAATTGAA
*
52095572 GGGAAAAGTAAATTATAAATTTTT
1 GGGAAAAGTAAAATAT-AATTTTT
*
52095596 GGGAAAATTAAAATATAATTTT
1 GGGAAAAGTAAAATATAATTTT
52095618 ATTGTGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (23 bp):
GGGAAAAGTAAAATATAATTTTT
Found at i:52107243 original size:15 final size:14
Alignment explanation
Indices: 52107211--52107261 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 14
52107201 TTTAAGAAAT
52107211 AATTTT-AAATTAA
1 AATTTTAAAATTAA
*
52107224 AATTTTAAAACTTGA
1 AATTTTAAAA-TTAA
52107239 AATTTTAAAA-T-A
1 AATTTTAAAATTAA
*
52107251 ATTTTTAAAAT
1 AATTTTAAAAT
52107262 GCAACATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 10 0.30
13 7 0.21
14 3 0.09
15 13 0.39
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (14 bp):
AATTTTAAAATTAA
Found at i:52108588 original size:7 final size:6
Alignment explanation
Indices: 52108546--52108580 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
52108536 TCTACGATTT
* *
52108546 CTTTAG CTTTAG CTTTTG CTTTTG CTTTTG CTTTT
1 CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG CTTTT
52108581 TGCCTTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.06, C:0.17, G:0.14, T:0.63
Consensus pattern (6 bp):
CTTTTG
Found at i:52110891 original size:13 final size:13
Alignment explanation
Indices: 52110860--52110884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52110850 TTTAAAAAAT
52110860 ATAAATAAGTTTA
1 ATAAATAAGTTTA
52110873 ATAAATAAGTTT
1 ATAAATAAGTTT
52110885 TGAAAATTAT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
ATAAATAAGTTTA
Found at i:52111557 original size:25 final size:24
Alignment explanation
Indices: 52111516--52111564 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
52111506 AAGTAAATTT
52111516 ATTTTTAAAATTTAAAAAACCTTG
1 ATTTTTAAAATTTAAAAAACCTTG
52111540 ATTTTTAAAATTTAAAAAACCTTG
1 ATTTTTAAAATTTAAAAAACCTTG
52111564 A
1 A
52111565 CTCTTCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTTTTAAAATTTAAAAAACCTTG
Found at i:52116967 original size:14 final size:15
Alignment explanation
Indices: 52116943--52116972 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52116933 AAAATTATTT
52116943 TTAATTATAATTTTA
1 TTAATTATAATTTTA
52116958 TTAA-TATAATTTTA
1 TTAATTATAATTTTA
52116972 T
1 T
52116973 ATTATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTATAATTTTA
Found at i:52136070 original size:21 final size:20
Alignment explanation
Indices: 52136052--52136095 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 20
52136042 AATTTTAATT
52136052 TTATTAGTTTTAATATTAAAAA
1 TTATTA-TTTTAATATT-AAAA
52136074 TTATTATTTTAATAATTAAAA
1 TTATTATTTTAAT-ATTAAAA
52136095 T
1 T
52136096 ATAAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATTATTTTAATATTAAAA
Found at i:52136091 original size:22 final size:22
Alignment explanation
Indices: 52136052--52136094 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
52136042 AATTTTAATT
52136052 TTATTAGTTTTAATATTAAAAA
1 TTATTAGTTTTAATATTAAAAA
52136074 TTATTA-TTTTAATAATTAAAA
1 TTATTAGTTTTAAT-ATTAAAA
52136095 TATAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTATTAGTTTTAATATTAAAAA
Found at i:52136788 original size:17 final size:17
Alignment explanation
Indices: 52136766--52136829 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
52136756 AATCTTAGAG
52136766 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAAC
* *
52136783 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--A-AC
*
52136802 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAAC
*
52136819 TTTTAATTGTA
1 TTCTAATTGTA
52136830 GCCATTCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 2 0.05
19 12 0.32
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAAC
Found at i:52136805 original size:36 final size:36
Alignment explanation
Indices: 52136758--52136828 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
52136748 GATTATGTAA
52136758 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
* *
52136794 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
52136829 AGCCATTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:52136807 original size:19 final size:19
Alignment explanation
Indices: 52136757--52136813 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
52136747 TGATTATGTA
52136757 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
52136776 ATAC--A-ACTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
52136793 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
52136812 AT
1 AT
52136814 ACAGCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 2 0.07
19 14 0.47
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:52137119 original size:49 final size:49
Alignment explanation
Indices: 52137022--52137117 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
52137012 TGAGGGAATT
* * *
52137022 CTGTTGAATCCTTTATCATTGCGAGATTAAGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCGAGATTAAGCTAACTTAGGCGTTTTTA
*
52137071 CTGTTGAATCCGTTATCATTGCGAG-TTAGGCTAACTTAGGCGTTTTT
1 CTGTTGAATCCGTTATCATTGCGAGATTAAGCTAACTTAGGCGTTTTT
52137118 TAAGCAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 19 0.44
49 24 0.56
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.42
Consensus pattern (49 bp):
CTGTTGAATCCGTTATCATTGCGAGATTAAGCTAACTTAGGCGTTTTTA
Found at i:52140366 original size:119 final size:120
Alignment explanation
Indices: 52140147--52140367 Score: 284
Period size: 119 Copynumber: 1.8 Consensus size: 120
52140137 TTTACTAATA
* * **
52140147 AGTATACTTGTGTGTCTTTTGATATCCGTTTTCTTTCGTAAGTTTAGGAACAGATATGAGTTTCT
1 AGTATACTTGTGTATCATTTGATATCCGTTTTCTTTCG-AAGTTTAGGAACAGATACAAGTTTCT
* * *
52140212 AATGCATCTATGTGTACTTTGTTAAGGTGTCTCGATTAGCCTTTCTTTGTCTTGTG
65 AATGCATCTATGTATACATTGTTAAGATGTCTCGATTAGCCTTTCTTTGTCTTGTG
* * * * *
52140268 AGTATACTTGTGTATCATTTGGTTTCC-TCTTTCTTTCG-AGTTTAGGAACTGATGCAAGTTTTT
1 AGTATACTTGTGTATCATTTGATATCCGT-TTTCTTTCGAAGTTTAGGAACAGATACAAGTTTCT
* *
52140331 AATGCATCTATGTATGCATTGTTAAGATGTTTCGATT
65 AATGCATCTATGTATACATTGTTAAGATGTCTCGATT
52140368 GCTTTGGAAG
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
119 52 0.61
120 1 0.01
121 32 0.38
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (120 bp):
AGTATACTTGTGTATCATTTGATATCCGTTTTCTTTCGAAGTTTAGGAACAGATACAAGTTTCTA
ATGCATCTATGTATACATTGTTAAGATGTCTCGATTAGCCTTTCTTTGTCTTGTG
Found at i:52141974 original size:26 final size:25
Alignment explanation
Indices: 52141945--52142014 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 25
52141935 TGAATTTAAT
**
52141945 TTTATAATAAATTTTAATTTTAAATA
1 TTTATAATAAATTTTAATAATAAA-A
* *
52141971 TTTAGATTAAATATTTAATAATAAAA
1 TTTATAATAAAT-TTTAATAATAAAA
52141997 TTTAATTAAT-AATTTTAA
1 TTT-A-TAATAAATTTTAA
52142015 AATTTATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
26 19 0.54
27 14 0.40
28 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (25 bp):
TTTATAATAAATTTTAATAATAAAA
Found at i:52142023 original size:15 final size:15
Alignment explanation
Indices: 52142000--52142029 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52141990 AATAAAATTT
52142000 AATTAATAATTTTAA
1 AATTAATAATTTTAA
*
52142015 AATTTATAATTTTAA
1 AATTAATAATTTTAA
52142030 TTGAAAGCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTAATAATTTTAA
Found at i:52147733 original size:17 final size:17
Alignment explanation
Indices: 52147711--52147745 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52147701 ATTGTAATTT
**
52147711 AATTTTTACTAATTTAA
1 AATTTTTAAAAATTTAA
52147728 AATTTTTAAAAATTTAA
1 AATTTTTAAAAATTTAA
52147745 A
1 A
52147746 GAATCTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTTAAAAATTTAA
Found at i:52152271 original size:3 final size:3
Alignment explanation
Indices: 52152263--52152292 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
52152253 TCACTTTTCC
52152263 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
52152293 GAAACTACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:52157386 original size:29 final size:30
Alignment explanation
Indices: 52157329--52157387 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
52157319 GTATTAACTT
* *
52157329 AAATATTTATAATTTTTAAAGGGTTAATTA
1 AAATATTTATAATTTTTAAAGAGTCAATTA
* *
52157359 AAAT-TTTATCATTTTTAATGAGTCAATTA
1 AAATATTTATAATTTTTAAAGAGTCAATTA
52157388 TTATTTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (30 bp):
AAATATTTATAATTTTTAAAGAGTCAATTA
Found at i:52158288 original size:11 final size:11
Alignment explanation
Indices: 52158272--52158298 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
52158262 TATAATATGA
52158272 TATATTAAGTT
1 TATATTAAGTT
52158283 TATATTAAGTT
1 TATATTAAGTT
52158294 TATAT
1 TATAT
52158299 AATATATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATTAAGTT
Found at i:52161547 original size:12 final size:12
Alignment explanation
Indices: 52161530--52161556 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
52161520 AATCAATTTG
52161530 CAACCAATATAA
1 CAACCAATATAA
52161542 CAACCAATATAA
1 CAACCAATATAA
52161554 CAA
1 CAA
52161557 AGAACCCGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (12 bp):
CAACCAATATAA
Found at i:52162998 original size:17 final size:18
Alignment explanation
Indices: 52162966--52162999 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
52162956 AATTTCTTTT
52162966 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
52162984 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
52163000 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:52163431 original size:18 final size:19
Alignment explanation
Indices: 52163408--52163452 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
52163398 CCTTCATTTC
52163408 TTTCTTT-TATTCTTTTA-G
1 TTTCTTTAT-TTCTTTTATG
52163426 TTTCTTTATTTCTTTTATG
1 TTTCTTTATTTCTTTTATG
*
52163445 TTTATTTA
1 TTTCTTTA
52163453 CTTTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTCTTTATTTCTTTTATG
Found at i:52167193 original size:14 final size:14
Alignment explanation
Indices: 52167170--52167199 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52167160 ATGGAATCCC
52167170 TACATACATACATA
1 TACATACATACATA
*
52167184 TACATGCATACATA
1 TACATACATACATA
52167198 TA
1 TA
52167200 TATAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (14 bp):
TACATACATACATA
Found at i:52168707 original size:31 final size:31
Alignment explanation
Indices: 52168664--52168733 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
52168654 TAATGCAATG
*
52168664 TTTGGTAATTGAGTTT-ATTTTCAAAGTTCAA
1 TTTGGTATTTGAGTTTGATTTT-AAAGTTCAA
* *
52168695 TTTGGTATTTGAGTTTGATTTTAATGTTTAA
1 TTTGGTATTTGAGTTTGATTTTAAAGTTCAA
52168726 TTTGGTAT
1 TTTGGTAT
52168734 CCAGATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 30 0.86
32 5 0.14
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (31 bp):
TTTGGTATTTGAGTTTGATTTTAAAGTTCAA
Found at i:52176497 original size:24 final size:23
Alignment explanation
Indices: 52176460--52176508 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
52176450 CTTTTGCAGC
*
52176460 ATACTTATGCAGACACACTTAAG
1 ATACTTATACAGACACACTTAAG
52176483 ATACTATATACAGACACACTTAAG
1 ATACT-TATACAGACACACTTAAG
52176507 AT
1 AT
52176509 GCTCGTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (23 bp):
ATACTTATACAGACACACTTAAG
Found at i:52177835 original size:29 final size:30
Alignment explanation
Indices: 52177802--52177861 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52177792 TAATTTTAGT
* * *
52177802 ATTTAGTCCATATA-TTTTTATTTTTCAAA
1 ATTTAATCCATATACTTTTCAATTTTCAAA
*
52177831 ATTTAATCCATTTACTTTTCAATTTTCAAA
1 ATTTAATCCATATACTTTTCAATTTTCAAA
52177861 A
1 A
52177862 ATCAGATCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTAATCCATATACTTTTCAATTTTCAAA
Found at i:52184124 original size:21 final size:21
Alignment explanation
Indices: 52184098--52184138 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
52184088 ATCTGCTCAA
* *
52184098 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
52184119 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
52184139 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:52200854 original size:19 final size:19
Alignment explanation
Indices: 52200830--52200867 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
52200820 ATAAGAGAGA
52200830 GTAGCTATAAGATTTTTTT
1 GTAGCTATAAGATTTTTTT
52200849 GTAGCTATAAGATTTTTTT
1 GTAGCTATAAGATTTTTTT
52200868 TTCTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (19 bp):
GTAGCTATAAGATTTTTTT
Found at i:52209493 original size:21 final size:22
Alignment explanation
Indices: 52209467--52209513 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
52209457 CTCTGCTCAA
*
52209467 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
52209488 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
52209510 ACTC
1 ACTC
52209514 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:52218044 original size:11 final size:11
Alignment explanation
Indices: 52218025--52218056 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
52218015 GCTCATTTAT
52218025 TTATT-TATTA
1 TTATTATATTA
52218035 TTATTATATTA
1 TTATTATATTA
52218046 TTATTAT-TTA
1 TTATTATATTA
52218056 T
1 T
52218057 ATATATGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATATTA
Found at i:52230676 original size:43 final size:42
Alignment explanation
Indices: 52230524--52230883 Score: 267
Period size: 43 Copynumber: 8.5 Consensus size: 42
52230514 ATTATACAGG
* *
52230524 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-A--T-AGA
* * ** *
52230570 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG--ATAGA
*
52230614 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAG-A
* * * * *
52230657 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG---GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGA
* * * *
52230696 TCTTATCTCTCTGAG-TTACAGTAGAGAAGATC--ACATCAG-
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAT-AGA
*
52230735 TC-TAT-TCCCTGAG-TTACAGTGGAGCAGACCAAAGAATCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AT-AGA
* * * *
52230776 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-GA
* * *
52230819 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT--AGA
* *
52230862 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
52230884 CAGAGTAGAT
Statistics
Matches: 249, Mismatches: 47, Indels: 39
0.74 0.14 0.12
Matches are distributed among these distances:
36 1 0.00
37 21 0.08
38 15 0.06
39 16 0.06
40 7 0.03
41 2 0.01
42 9 0.04
43 90 0.36
44 56 0.22
46 31 0.12
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGA
Found at i:52230852 original size:162 final size:169
Alignment explanation
Indices: 52230611--52230934 Score: 457
Period size: 162 Copynumber: 1.9 Consensus size: 169
52230601 TTGAAGCCAG
* * *
52230611 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTATCCTATCTCCTTGAGATTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCTGAGATTA
* *
52230676 CAATGGAGCGGATT-A-AAGGATCTTATCTCTCTGA-GTTACAGTAGAGAAGATCACATC-AGTC
66 CAATGGAGCGGATTAATAAAGATCTTATCTCTCTGAGGTTACAGCAGAGAAGATCACATCAAGTC
* *
52230737 -TA-TTCCCTG-AGTTACAGTGGAGCAGACCAAAGAATC
131 TTATTTCCCTGAAGATACAGTGGAACAGACCAAAGAATC
*
52230773 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA-AGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCTGAGA-TT
* * *
52230837 ACAGTGGAGCGGATTAAAATAAAGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAA
65 ACAATGGAGCGGATT--AATAAAGATCTTATCTCTCTGAGGTTACAGCAGAGAAGATCACATCAA
*
52230902 GTCTTATTTCCCTGAAGATGCAGTGGAACAGAC
128 GTCTTATTTCCCTGAAGATACAGTGGAACAGAC
52230935 TGAAAACAAG
Statistics
Matches: 140, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
161 1 0.01
162 72 0.51
165 1 0.01
166 18 0.13
167 20 0.14
168 4 0.03
169 2 0.01
170 7 0.05
171 15 0.11
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (169 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCTGAGATTA
CAATGGAGCGGATTAATAAAGATCTTATCTCTCTGAGGTTACAGCAGAGAAGATCACATCAAGTC
TTATTTCCCTGAAGATACAGTGGAACAGACCAAAGAATC
Found at i:52231446 original size:12 final size:12
Alignment explanation
Indices: 52231431--52231455 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52231421 ACACCAAACC
52231431 CGAGCCCAAATT
1 CGAGCCCAAATT
52231443 CGAGCCCAAATT
1 CGAGCCCAAATT
52231455 C
1 C
52231456 AAAAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (12 bp):
CGAGCCCAAATT
Found at i:52250537 original size:88 final size:88
Alignment explanation
Indices: 52249696--52250526 Score: 1221
Period size: 88 Copynumber: 9.4 Consensus size: 88
52249686 AACAGACCAG
*
52249696 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
52249761 CCTGCATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
* *
52249784 CGAAGACACAAACCTTGCCTTTCTCGGTTGTAGCGGAGCTGGTTAAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
52249849 CCTGCATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
*
52249872 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTAAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * *
52249937 CTTGCATTGACAGTGAATCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
* *
52249960 TGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
*
52250025 CCTACATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
* *
52250048 CGAAGACACAAACCTTGCCTCTCTTGGTTGTAGCGGAGCTGGTTGAAGACAATAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
52250113 CCTGCATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
*
52250136 CGAAGACACAAACCTTGCCTCTCTCTGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
*
52250201 CCTACATTGACAGCGAAGCAGAT
66 CCTGCATTGACAGCGAAGCAGAT
* * * *
52250224 TGAAGACACAAACCTTGCCTCTCTCAGTTGTAGCGGAGCTAGTTGAAGACAACAGATCTTGCCTA
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* ** *
52250289 CCTGAATCAACAGCGAAGCGGAT
66 CCTGCATTGACAGCGAAGCAGAT
* * * **
52250312 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGACAGTAGATCTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * *
52250377 CCTGCATCGGCAGCGAAGCGGAT
66 CCTGCATTGACAGCGAAGCAGAT
* * * * * * * * *
52250400 CGAAGACACAAGCCTTGCCTCCCTCCGTTGTAGTGGATCTAGTTGAAGATAGCAGATTTTGCCTT
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
* * * *
52250465 CCTGCATCGATAGGGAAGCTGAT
66 CCTGCATTGACAGCGAAGCAGAT
* * * * **
52250488 CGAAGACACAAGCCTTACCTCCCTCAGCAGTAGCGGAGC
1 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGC
52250527 AGATCGAAGA
Statistics
Matches: 683, Mismatches: 60, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 683 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (88 bp):
CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCGGAGCTGGTTGAAGACAACAGATCTTGCCTT
CCTGCATTGACAGCGAAGCAGAT
Found at i:52250750 original size:132 final size:131
Alignment explanation
Indices: 52250507--52250794 Score: 461
Period size: 132 Copynumber: 2.2 Consensus size: 131
52250497 AAGCCTTACC
* *
52250507 TCCCTCAGCAGTAGCGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGACAGTGGAGAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGACAGTGGAGAAGC
* * ** *
52250572 AGATTTAAGCCATTAGTTCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAGGATTGCAGATTCTG
66 AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAATAGGTCAAAGATT-CAGATTCTG
52250637 TCA
130 T-A
*
52250640 -CCCTAAGCAGTAGTGAAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGACAGTGGAGAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGACAGTGGAGAAGC
*
52250704 AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAATAGGTCAAAGATTTAGATTCTGT
66 AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAATAGGTCAAAGATTCAGATTCTGT
52250769 A
131 A
*
52250770 TCCCTAAGCAGTAATGGAGCAGATC
1 TCCCTAAGCAGTAGTGGAGCAGATC
52250795 AACAACGGCG
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
130 1 0.01
131 31 0.22
132 111 0.78
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (131 bp):
TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGACAGTGGAGAAGC
AGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAATAGGTCAAAGATTCAGATTCTGT
A
Found at i:52250974 original size:99 final size:99
Alignment explanation
Indices: 52250811--52250995 Score: 280
Period size: 99 Copynumber: 1.9 Consensus size: 99
52250801 GGCGAATCTT
* * * * *
52250811 ACTTCCAAGCGATGCAGCGAAACAGATTGAAGTCACAACGGCGAATCTTGCGTCTCCGACATTGC
1 ACTTCCAAGCAATGCAACGAAACAGATTGAAGTCACAACGACGAATCTTGCGTCCCCAACATTGC
52250876 AATTCAAAAGATTGAAGCCACCACGACGAATATA
66 AATTCAAAAGATTGAAGCCACCACGACGAATATA
* * * *
52250910 ACTTGCAAGCAATGCAACGGAATAGATTGAAGTCACAACGACGAATCTTGCGTCCCCAATATTGC
1 ACTTCCAAGCAATGCAACGAAACAGATTGAAGTCACAACGACGAATCTTGCGTCCCCAACATTGC
*
52250975 AATTCAAAAGATTGAGGCCAC
66 AATTCAAAAGATTGAAGCCAC
52250996 AACGGCAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 76 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (99 bp):
ACTTCCAAGCAATGCAACGAAACAGATTGAAGTCACAACGACGAATCTTGCGTCCCCAACATTGC
AATTCAAAAGATTGAAGCCACCACGACGAATATA
Found at i:52250997 original size:50 final size:50
Alignment explanation
Indices: 52250834--52250999 Score: 156
Period size: 50 Copynumber: 3.3 Consensus size: 50
52250824 GCAGCGAAAC
* * *
52250834 AGATTGAAGTCACAACGGCGAATCTTGCGTCTCCGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGACGAATCTTGCGTCTCCAACATTGCAATTCAAA
* * ** * * *** *
52250884 AGATTGAAGCCACCACGACGAATATAAC-T-TGCAAGCAATGCAACGGAAT
1 AGATTGAAGCCACAACGACGAATCTTGCGTCTCCAA-CATTGCAATTCAAA
* * *
52250933 AGATTGAAGTCACAACGACGAATCTTGCGTCCCCAATATTGCAATTCAAA
1 AGATTGAAGCCACAACGACGAATCTTGCGTCTCCAACATTGCAATTCAAA
*
52250983 AGATTGAGGCCACAACG
1 AGATTGAAGCCACAACG
52251000 GCAAATCTCA
Statistics
Matches: 85, Mismatches: 28, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
48 3 0.04
49 33 0.39
50 46 0.54
51 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (50 bp):
AGATTGAAGCCACAACGACGAATCTTGCGTCTCCAACATTGCAATTCAAA
Found at i:52251066 original size:100 final size:100
Alignment explanation
Indices: 52250852--52251213 Score: 311
Period size: 100 Copynumber: 3.6 Consensus size: 100
52250842 GTCACAACGG
* * * * * * * * * *
52250852 CGAATCTTGCGTCTCCGACATTGCAATTCAAAAGATTGAAGCCACCACGACGAATATAACTT-GC
1 CGAATCTTGCTTCCCCAACATTGCAACTCAAAAGATTGAAGCCACAACGGCGAATCTCATTTCCC
* * * * * * *
52250916 AAGCAATGCAACGGAATAGATTGAAG-TCACAACGA
66 TAGCGATACAATGGAACAGATTGAAGCT-ACGATGA
* * * * *
52250951 CGAATCTTGCGTCCCCAATATTGCAATTCAAAAGATTGAGGCCACAACGGCAAATCTCATTTCCC
1 CGAATCTTGCTTCCCCAACATTGCAACTCAAAAGATTGAAGCCACAACGGCGAATCTCATTTCCC
* ** *
52251016 TAGCGGTGTAATGGAATAGATTGAAGCTACGAT-A
66 TAGCGATACAATGGAACAGATTGAAGCTACGATGA
* * * * **
52251050 GCGAATCTCGCTTCCCCAACATTGC-AGTCAAATAGATTGAAGCTACAACAGCGAATCTCACCTC
1 -CGAATCTTGCTTCCCCAACATTGCAACTCAAA-AGATTGAAGCCACAACGGCGAATCTCATTTC
* * *
52251114 CTTGGCGATACAGTGGAACAGATTGAAGCTACGATGA
64 CCTAGCGATACAATGGAACAGATTGAAGCTACGATGA
* * * *
52251151 CGAATCTTGCTTTCCCAACATTGCAGCT-AAAAGATTGAAGCCGCAACGGCGAATCTTATTTCC
1 CGAATCTTGCTTCCCCAACATTGCAACTCAAAAGATTGAAGCCACAACGGCGAATCTCATTTCC
52251214 TCAACGAGAC
Statistics
Matches: 212, Mismatches: 45, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
99 85 0.40
100 124 0.58
101 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
CGAATCTTGCTTCCCCAACATTGCAACTCAAAAGATTGAAGCCACAACGGCGAATCTCATTTCCC
TAGCGATACAATGGAACAGATTGAAGCTACGATGA
Found at i:52251084 original size:50 final size:50
Alignment explanation
Indices: 52251030--52251191 Score: 143
Period size: 50 Copynumber: 3.3 Consensus size: 50
52251020 GGTGTAATGG
52251030 AATAGATTGAAGCTACGATAGCGAATCTCGCTTCCCCAACATTGCAGTCA
1 AATAGATTGAAGCTACGATAGCGAATCTCGCTTCCCCAACATTGCAGTCA
* * * * **** * **
52251080 AATAGATTGAAGCTACAACAGCGAATCTCACCTCCTTGGCGA-TACAGTGG
1 AATAGATTGAAGCTACGATAGCGAATCTCGCTTCCCCAAC-ATTGCAGTCA
* * *
52251130 AACAGATTGAAGCTACGAT-GACGAATCTTGCTTTCCCAACATTGCAG-CTA
1 AATAGATTGAAGCTACGATAG-CGAATCTCGCTTCCCCAACATTGCAGTC-A
52251180 AA-AGATTGAAGC
1 AATAGATTGAAGC
52251192 CGCAACGGCG
Statistics
Matches: 83, Mismatches: 25, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
49 12 0.14
50 70 0.84
51 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (50 bp):
AATAGATTGAAGCTACGATAGCGAATCTCGCTTCCCCAACATTGCAGTCA
Found at i:52252532 original size:3 final size:3
Alignment explanation
Indices: 52252524--52252548 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
52252514 ATATTTTAGC
52252524 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
52252549 CCTACTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:52252680 original size:20 final size:21
Alignment explanation
Indices: 52252657--52252706 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
52252647 TATATATTTT
52252657 TACATATTTTACAAAT-TATA
1 TACATATTTTACAAATCTATA
* * *
52252677 TACATA-TCTATATATCTATA
1 TACATATTTTACAAATCTATA
52252697 TACATATTTT
1 TACATATTTT
52252707 TATTTTTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.25
20 16 0.67
21 2 0.08
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (21 bp):
TACATATTTTACAAATCTATA
Found at i:52252944 original size:18 final size:17
Alignment explanation
Indices: 52252907--52252949 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
52252897 AAGTGTTTTA
*
52252907 ATTT-TTTTATTTGTTT
1 ATTTCTTTTATTTGTTG
52252923 ATTTACTTTTATTTGTTG
1 ATTT-CTTTTATTTGTTG
52252941 ATTTCTTTT
1 ATTTCTTTT
52252950 CATTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (17 bp):
ATTTCTTTTATTTGTTG
Found at i:52253252 original size:110 final size:109
Alignment explanation
Indices: 52253070--52254012 Score: 1555
Period size: 110 Copynumber: 8.6 Consensus size: 109
52253060 AAAAAAATTC
*
52253070 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
* *
52253135 TTTCTCGTTTAACTAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* * * *
52253179 AAATAAGGCAATGTTTTGCGATTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTTTCAAT
1 AAATAAGGCAATGTTTTGCG-TTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGAT
52253244 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
65 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
*
52253289 AAATAAGGCAATGTTTTGCGATTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCG-TTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGAT
* *
52253354 TTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAATTTCA
65 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
*
52253399 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
*
52253464 TTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTT-AAAAATTTTA
* * *
52253509 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAAAT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
*
52253574 TTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* *
52253618 AAATAAGGCAATGTTTTGCAATTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGC-GTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGAT
*
52253683 TTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
65 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
* * *
52253728 AAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGTCCTAATGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
*
52253793 TTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTT-AAAAATTTTA
* *
52253838 AAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
*
52253903 TTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTT-AAAAATTTTA
* * * *
52253948 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGCGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
52254012 T
66 T
52254013 CTCGATTGAC
Statistics
Matches: 784, Mismatches: 46, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
109 224 0.29
110 560 0.71
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
Found at i:52253472 original size:219 final size:219
Alignment explanation
Indices: 52253070--52254012 Score: 1559
Period size: 219 Copynumber: 4.3 Consensus size: 219
52253060 AAAAAAATTC
*
52253070 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
* *
52253135 TTTCTCGTTTAACTAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCGA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCG-
* *
52253200 TTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTTTCAATTTTTCTCGTTCAACCAAATGG
130 TTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
*
52253265 CTTAATATCCTTTT-AAAAATTTTA
195 CTAAATATCCTTTTAAAAAATTTTA
*
52253289 AAATAAGGCAATGTTTTGCGATTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGAT
1 AAATAAGGCAATGTTTTGCG-TTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGAT
* *
52253354 TTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCG
65 TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCG
* * *
52253419 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
130 TTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
52253484 CTAAATATCCTTTTAAAAAATTTTA
195 CTAAATATCCTTTTAAAAAATTTTA
* * *
52253509 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAAAT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
* *
52253574 TTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCAA
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGC-G
* *
52253639 TTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
130 TTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
*
52253704 CTTAATATCCTTTT-AAAAATTTTA
195 CTAAATATCCTTTTAAAAAATTTTA
* * *
52253728 AAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGTCCTAATGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
* *
52253793 TTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGACAATGTTTTGCG
66 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTT-AAAAATTTTAAAATAAGGCAATGTTTTGCG
*
52253858 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
130 TTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGG
52253923 CTAAATATCCTTTTAAAAAATTTTA
195 CTAAATATCCTTTTAAAAAATTTTA
* * * *
52253948 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGCGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
52254012 T
66 T
52254013 CTCGATTGAC
Statistics
Matches: 676, Mismatches: 43, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
219 397 0.59
220 279 0.41
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (219 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCGT
TGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGC
TAAATATCCTTTTAAAAAATTTTA
Found at i:52253668 original size:329 final size:328
Alignment explanation
Indices: 52253061--52254012 Score: 1649
Period size: 329 Copynumber: 2.9 Consensus size: 328
52253051 AAAAATGAAA
* * *
52253061 AAAAAATTC-AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* * *
52253125 GGTGTCGATTTTTCTCGTTTAACTAAATGGCTTAATATCCTTTT-AAAAATTTTAAAATAAGGCA
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGCA
* *
52253189 ATGTTTTGCGATTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTTTCAATTTTTCTCGTT
131 ATGTTTTGCG-TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATTTTTCTCGTT
52253254 CAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCGATTGGGAAAT
195 CAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGC-ATTGGGAAAT
52253319 TCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATC
259 TCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATC
52253384 CTTTT
324 CTTTT
52253389 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
52253454 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGCA
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGCA
*
52253519 ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAAATTTTCTCGTTC
131 ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATTTTTCTCGTTC
*
52253584 AACCAAATGACTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCAATTGGGAAATT
196 AACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGC-ATTGGGAAATT
52253649 CGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCC
260 CGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCC
52253714 TTTT
325 TTTT
* * *
52253718 AAAAATTTTAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGTCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
*
52253783 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGACA
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGCA
*
52253848 ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTC
131 ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATTTTTCTCGTTC
* * *
52253913 AACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATT
196 AACCAAATGGCTTAATATCCTTTT-AAAAATTTTAAAATAAGGCAATGTTTTGCATTGGGAAATT
* * * *
52253978 CGAG-GAACGTGCCCTAATGCGCTGGGTTTCGATTT
260 CGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTT
52254013 CTCGATTGAC
Statistics
Matches: 596, Mismatches: 25, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
328 35 0.06
329 502 0.84
330 59 0.10
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (328 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTAAAATAAGGCA
ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATTTTTCTCGTTC
AACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCATTGGGAAATTC
GAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCT
TTT
Found at i:52257030 original size:15 final size:15
Alignment explanation
Indices: 52257010--52257042 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
52257000 AATCATTGGG
52257010 TTGAGCCTGAAAAGT
1 TTGAGCCTGAAAAGT
*
52257025 TTGAGCCTGAAAGGT
1 TTGAGCCTGAAAAGT
52257040 TTG
1 TTG
52257043 TCAACAGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (15 bp):
TTGAGCCTGAAAAGT
Found at i:52258915 original size:23 final size:23
Alignment explanation
Indices: 52258849--52258916 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
52258839 CCACACTAAT
*
52258849 ATGTAGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAA
*
52258872 ATGTAGCCGCAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
52258895 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
52258917 TCAATAACAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:52268728 original size:14 final size:14
Alignment explanation
Indices: 52268709--52268735 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52268699 TAATCATTGG
52268709 GTTGAGCCTGAAAA
1 GTTGAGCCTGAAAA
52268723 GTTGAGCCTGAAA
1 GTTGAGCCTGAAA
52268736 GGTTTGTCAA
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:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (14 bp):
GTTGAGCCTGAAAA
Done.