Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 20 of 295
Found at i:5549701 original size:39 final size:39
Alignment explanation
Indices: 5549654--5549760 Score: 178
Period size: 39 Copynumber: 2.7 Consensus size: 39
5549644 TGTGTGAGAT
*
5549654 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
5549693 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
5549732 TTATATCTGGGCTAAGTCCCGAAGACATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
5549761 TGTGTTGGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:5555904 original size:14 final size:15
Alignment explanation
Indices: 5555885--5555941 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
5555875 AATCTTTAAG
5555885 GATATG-CAATCTTA
1 GATATGACAATCTTA
5555899 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
5555916 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
5555935 GATATGA
1 GATATGA
5555942 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:5555926 original size:36 final size:38
Alignment explanation
Indices: 5555885--5555963 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
5555875 AATCTTTAAG
5555885 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
5555921 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
5555961 GAT
1 GAT
5555964 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
40 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:5555932 original size:19 final size:19
Alignment explanation
Indices: 5555885--5555963 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
5555875 AATCTTTAAG
5555885 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5555904 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5555921 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5555940 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
5555961 GAT
1 GAT
5555964 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5556437 original size:22 final size:21
Alignment explanation
Indices: 5556412--5556463 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
5556402 CTATTTATTC
*
5556412 ATTTTTTTAGTGTAT-GTCATTT
1 ATTTTTTTAGTGCATAGT--TTT
5556434 ATTTTATTT-GTGCATAGTTTT
1 ATTTT-TTTAGTGCATAGTTTT
5556455 ATTTTTTTA
1 ATTTTTTTA
5556464 TATGCTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 3 0.12
21 8 0.31
22 10 0.38
23 5 0.19
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.65
Consensus pattern (21 bp):
ATTTTTTTAGTGCATAGTTTT
Found at i:5556481 original size:25 final size:25
Alignment explanation
Indices: 5556453--5556501 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
5556443 GTGCATAGTT
5556453 TTATTT-TTTTATATGCTATGTTTAA
1 TTATTTCTTTTATATGCTAT-TTTAA
*
5556478 TTATTTCTTTTATGTGCTATTTTA
1 TTATTTCTTTTATATGCTATTTTA
5556502 TGATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.65
Consensus pattern (25 bp):
TTATTTCTTTTATATGCTATTTTAA
Found at i:5564419 original size:19 final size:18
Alignment explanation
Indices: 5564376--5564434 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
5564366 CTTCTATTTC
5564376 AAAAAAAGGAAAAAAGAA
1 AAAAAAAGGAAAAAAGAA
*
5564394 AAGAAAAAGGAAAAAATAA
1 AA-AAAAAGGAAAAAAGAA
* * *
5564413 TAAAAAAGAGCAAAAATAA
1 AAAAAAAG-GAAAAAAGAA
5564432 AAA
1 AAA
5564435 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.23
19 27 0.77
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (18 bp):
AAAAAAAGGAAAAAAGAA
Found at i:5565516 original size:88 final size:88
Alignment explanation
Indices: 5565324--5565912 Score: 461
Period size: 88 Copynumber: 6.7 Consensus size: 88
5565314 CAAAGAAATA
* * * * * *
5565324 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTT
1 AGATTTGACATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGTTT
* * **
5565389 ACAGTGAAGCAGATCGAAGATTTC
66 ATAGGGAA-CAGATCGAAGATAAC
* * *
5565413 --ATCATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGT
1 AGAT-TTGACATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGT
5565475 TTATAGGGAACAGATCGAAGATAAC
64 TTATAGGGAACAGATCGAAGATAAC
* * * * **
5565500 AGATTTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGT
1 AGATTTGACATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGT
*
5565563 TTATAGGGAACA-AGTTGAAGATAAC
64 TTATAGGGAACAGA-TCGAAGATAAC
* * * * *
5565588 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACA-CTCCTGTGCT
1 AGATTTGACATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATC-CCTGTGTT
* * * **
5565652 TACAGCGAAGCAGATCGAGGATTTC
65 TATAGGGAA-CAGATCGAAGATAAC
** *
5565677 AGCA--TGGTATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGT
1 AG-ATTTGACATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGT
*
5565739 TTATAGGGAATAGATCGAAGATAAC
64 TTATAGGGAACAGATCGAAGATAAC
* * * * * * ** *
5565764 AGATCTGACA-CTCTTGTGCTTACAGCGAAGCAGATCGAGGATTTC--ATCATGGCATCCCTGTG
1 AGATTTGACATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGAT-TTGGCATCCCTGTG
* *
5565826 TTTATAGGGAACA-AGTTGAAGATAGC
63 TTTATAGGGAACAGA-TCGAAGATAAC
* * * * * * * *
5565852 AGATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGATTTGGCATCTCTGT
1 AGATTTGACATCCCTGTGTT-TATAGGGAACAGATCGAAGATAGCAGATTTGGCATCCCTGT
5565913 ATTGGCGGAG
Statistics
Matches: 398, Mismatches: 75, Indels: 55
0.75 0.14 0.10
Matches are distributed among these distances:
86 2 0.01
87 63 0.16
88 289 0.73
89 39 0.10
90 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (88 bp):
AGATTTGACATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGTTT
ATAGGGAACAGATCGAAGATAAC
Found at i:5565561 original size:132 final size:132
Alignment explanation
Indices: 5565324--5565899 Score: 956
Period size: 132 Copynumber: 4.4 Consensus size: 132
5565314 CAAAGAAATA
* * *
5565324 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
5565389 ACAGTGAAGCAGATCGAAGATTTCATCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
5565454 GC
131 GC
* *
5565456 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATTTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
5565521 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
5565586 AC
131 GC
5565588 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
5565653 ACAGCGAAGCAGATCGAGGATTTCAGCATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
5565718 GC
131 GC
* *
5565720 AGATTTGGCATCCCTGTGTTTATAGGGAATAGATCGAAGATAACAGATCTGACACTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
5565785 ACAGCGAAGCAGATCGAGGATTTCATCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
5565850 GC
131 GC
* * * * * *
5565852 AGATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
5565900 TTGGCATCTC
Statistics
Matches: 421, Mismatches: 22, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
132 420 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:5565891 original size:44 final size:44
Alignment explanation
Indices: 5565843--5565950 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
5565833 GGAACAAGTT
*
5565843 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
* *
5565887 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
* *
5565931 AAAGACATAGCTGATTTGGC
1 GAAG--ATAGCAGATTTGGC
5565951 TTTCATGTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 44 0.79
46 12 0.21
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (44 bp):
GAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:5566380 original size:43 final size:43
Alignment explanation
Indices: 5566325--5566438 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
5566315 AAAACAAACG
*
5566325 CCGCTAAAAGTCACGTCTTTTAGCGGCGTTTGTGTGAAAAGCA
1 CCGCTAAAAGTCACGTCTTTTAGCGGCGTTTGTGGGAAAAGCA
* * *
5566368 CTGCTGAAAGTCACGTCTTTTAGCGGCGTTTGTGGGAAAAGCG
1 CCGCTAAAAGTCACGTCTTTTAGCGGCGTTTGTGGGAAAAGCA
* * *
5566411 CCGCTAAAATTCATGGCTTTTAGCGGCG
1 CCGCTAAAAGTCACGTCTTTTAGCGGCG
5566439 CTTTTCCCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (43 bp):
CCGCTAAAAGTCACGTCTTTTAGCGGCGTTTGTGGGAAAAGCA
Found at i:5567860 original size:46 final size:46
Alignment explanation
Indices: 5567810--5567979 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
5567800 AACATCCGAA
* *
5567810 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGATCGAG
* *
5567856 CTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGGCATCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G-ATC-GAG
* * **
5567903 CTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGATCGAG
5567949 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5567980 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 2 0.02
46 54 0.52
47 24 0.23
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGATCGAG
Found at i:5569585 original size:19 final size:19
Alignment explanation
Indices: 5569561--5569629 Score: 138
Period size: 19 Copynumber: 3.6 Consensus size: 19
5569551 CGGGTTTGGG
5569561 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
5569580 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
5569599 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
5569618 ACACGGGCGTGT
1 ACACGGGCGTGT
5569630 GCTCTATACC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTCCCTAGC
Found at i:5569890 original size:31 final size:31
Alignment explanation
Indices: 5569848--5569930 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
5569838 CTTCCTGCAT
* *
5569848 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* *
5569879 TAAAATGCAACCAAAAACAACAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
5569910 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
5569931 TTAATTCTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 28 0.62
33 17 0.38
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:5570214 original size:15 final size:16
Alignment explanation
Indices: 5570194--5570223 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5570184 TCGCCGCAGC
5570194 TGCTGCCTCC-CTCTT
1 TGCTGCCTCCGCTCTT
5570209 TGCTGCCTCCGCTCT
1 TGCTGCCTCCGCTCT
5570224 AAGTTGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.47, G:0.17, T:0.37
Consensus pattern (16 bp):
TGCTGCCTCCGCTCTT
Found at i:5572948 original size:20 final size:20
Alignment explanation
Indices: 5572923--5572965 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
5572913 TAAGTTTCGG
5572923 CCAAAGTATGATCATTGAGC
1 CCAAAGTATGATCATTGAGC
5572943 CCAAAGTATGATCATTGAGC
1 CCAAAGTATGATCATTGAGC
5572963 CCA
1 CCA
5572966 GCATTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
CCAAAGTATGATCATTGAGC
Found at i:5576508 original size:28 final size:28
Alignment explanation
Indices: 5576468--5576530 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
5576458 ATTTGCTAGA
* *
5576468 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCGATGTATGCAAAATGACCATT
* *
5576496 ATACCCCGATGTATGCTAAATGACCTTT
1 ATACCCCGATGTATGCAAAATGACCATT
5576524 ATACCCC
1 ATACCCC
5576531 TAGGGTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.30
Consensus pattern (28 bp):
ATACCCCGATGTATGCAAAATGACCATT
Found at i:5577185 original size:19 final size:19
Alignment explanation
Indices: 5577163--5577201 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
5577153 TTTTAATTAT
* *
5577163 TTTTATGGTTTTTTTTTAC
1 TTTTATGATTTTATTTTAC
*
5577182 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
5577201 T
1 T
5577202 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:5578658 original size:9 final size:9
Alignment explanation
Indices: 5578646--5578702 Score: 69
Period size: 9 Copynumber: 6.3 Consensus size: 9
5578636 TCCGTAAGTT
*
5578646 GTTATGTAC
1 GTTATGTAA
*
5578655 GTTATGTGA
1 GTTATGTAA
5578664 GTTATGTAA
1 GTTATGTAA
*
5578673 ATTATGTAA
1 GTTATGTAA
* *
5578682 GTTATCTGA
1 GTTATGTAA
5578691 GTTATGTAA
1 GTTATGTAA
5578700 GTT
1 GTT
5578703 GTTTTTTAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:5578678 original size:27 final size:27
Alignment explanation
Indices: 5578647--5578699 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
5578637 CCGTAAGTTG
* *
5578647 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATCTGAGTTATGTAAA
5578674 TTATGTAAGTTATCTGAGTTATGTAA
1 TTATGTAAGTTATCTGAGTTATGTAA
5578700 GTTGTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (27 bp):
TTATGTAAGTTATCTGAGTTATGTAAA
Found at i:5579036 original size:24 final size:24
Alignment explanation
Indices: 5578969--5579039 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
5578959 TTAACTTAAA
*
5578969 TGATAAAACGGATGATAATATTTG
1 TGATAAAACGGAAGATAATATTTG
* *
5578993 TAATAAAACAGACA-ATAATATTTG
1 TGATAAAACGGA-AGATAATATTTG
*
5579017 TGATAAAACGGAAGAGAATATTT
1 TGATAAAACGGAAGATAATATTT
5579040 CAATAATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 1 0.03
24 38 0.97
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (24 bp):
TGATAAAACGGAAGATAATATTTG
Found at i:5579194 original size:64 final size:65
Alignment explanation
Indices: 5579091--5579221 Score: 219
Period size: 64 Copynumber: 2.0 Consensus size: 65
5579081 TTTATTAAAC
* *
5579091 ATTTGTATATTAGATGGGGACATATTATATTAATAAATAAATTTATCAAAAATCGTGATAGAAAT
1 ATTTGTATATTAGATGGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAGAAAT
* *
5579156 ATTTGTATATTAGAT-GAGACATATTATATCAATAAATAAATTTATTAAAAATTGTGATAGAAAT
1 ATTTGTATATTAGATGGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAGAAAT
5579220 AT
1 AT
5579222 AGAAATATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 47 0.76
65 15 0.24
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (65 bp):
ATTTGTATATTAGATGGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAGAAAT
Found at i:5579531 original size:11 final size:11
Alignment explanation
Indices: 5579515--5579545 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
5579505 TAAAAACATG
5579515 ATCCATTAATT
1 ATCCATTAATT
5579526 ATCCATTAATT
1 ATCCATTAATT
5579537 ATCCATTAA
1 ATCCATTAA
5579546 AAAATAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (11 bp):
ATCCATTAATT
Found at i:5579603 original size:12 final size:13
Alignment explanation
Indices: 5579581--5579609 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5579571 TGGTAATTTC
5579581 AAAAAACGAAAAT
1 AAAAAACGAAAAT
5579594 AAAAAA-GAAAAT
1 AAAAAACGAAAAT
5579606 AAAA
1 AAAA
5579610 TAGTAGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAAACGAAAAT
Found at i:5581135 original size:39 final size:39
Alignment explanation
Indices: 5581092--5581169 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
5581082 CATTGACAGA
*
5581092 AGCAGATCTCAAATAATCATGCAGAATAACAAATTTAAG
1 AGCAGATCTCAAATAATCATGCAAAATAACAAATTTAAG
5581131 AGCAGATCTCAAATAATCATGCAAAATAACAAATTTAAG
1 AGCAGATCTCAAATAATCATGCAAAATAACAAATTTAAG
5581170 TTCTCTACCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (39 bp):
AGCAGATCTCAAATAATCATGCAAAATAACAAATTTAAG
Found at i:5583713 original size:15 final size:15
Alignment explanation
Indices: 5583690--5583721 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5583680 AAATAATACT
5583690 TTATATATATTTATC
1 TTATATATATTTATC
*
5583705 TTATTTATATTTATC
1 TTATATATATTTATC
5583720 TT
1 TT
5583722 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:5583774 original size:21 final size:20
Alignment explanation
Indices: 5583746--5583829 Score: 105
Period size: 21 Copynumber: 4.0 Consensus size: 20
5583736 AAATTATACT
*
5583746 CTAAACCTAAAACCCTAAAC
1 CTAAACCTTAAACCCTAAAC
*
5583766 CTGAGACCTTAAACCCTAAACC
1 CT-AAACCTTAAACCCTAAA-C
5583788 CTAAACCTTAAACCCTAAAC
1 CTAAACCTTAAACCCTAAAC
* *
5583808 TCTAAACCCTAAACCCTGAAC
1 -CTAAACCTTAAACCCTAAAC
5583829 C
1 C
5583830 ACAAACACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
20 4 0.07
21 49 0.88
22 3 0.05
ACGTcount: A:0.42, C:0.37, G:0.04, T:0.18
Consensus pattern (20 bp):
CTAAACCTTAAACCCTAAAC
Found at i:5583821 original size:7 final size:7
Alignment explanation
Indices: 5583746--5583829 Score: 91
Period size: 7 Copynumber: 12.0 Consensus size: 7
5583736 AAATTATACT
5583746 CTAAA-C
1 CTAAACC
5583752 CTAAAACC
1 CT-AAACC
5583760 CTAAA-C
1 CTAAACC
*
5583766 CTGAGACC
1 CT-AAACC
*
5583774 TTAAACC
1 CTAAACC
5583781 CTAAACC
1 CTAAACC
5583788 CTAAACC
1 CTAAACC
*
5583795 TTAAACC
1 CTAAACC
*
5583802 CTAAACT
1 CTAAACC
5583809 CTAAACC
1 CTAAACC
5583816 CTAAACC
1 CTAAACC
*
5583823 CTGAACC
1 CTAAACC
5583830 ACAAACACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
6 5 0.08
7 55 0.85
8 5 0.08
ACGTcount: A:0.42, C:0.37, G:0.04, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:5585377 original size:45 final size:45
Alignment explanation
Indices: 5585303--5585411 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
5585293 TTTGCAAAGG
* * *
5585303 GCAGATTGAAGA-AGCAAATTTGGCATCTCTGTATTAGACGGGGA
1 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTAGACAGGGA
* * *
5585347 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGATAGGGA
1 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTAGACAGGGA
*
5585392 GCAGATCAAAGATAGCAGAT
1 GCAGATCGAAGATAGCAGAT
5585412 ATCGCCTTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 11 0.20
45 45 0.80
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (45 bp):
GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTAGACAGGGA
Found at i:5585790 original size:19 final size:19
Alignment explanation
Indices: 5585766--5585844 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
5585756 AATCTTTAAG
5585766 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5585785 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5585804 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5585821 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
5585842 GAT
1 GAT
5585845 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5585796 original size:36 final size:36
Alignment explanation
Indices: 5585756--5585843 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
5585746 ATGGAAATAT
5585756 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
5585792 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
5585828 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
5585844 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:5588503 original size:39 final size:39
Alignment explanation
Indices: 5588459--5588604 Score: 231
Period size: 39 Copynumber: 3.7 Consensus size: 39
5588449 TGTGTGAGAT
*
5588459 TTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGTTG
1 TTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
5588498 TTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
5588537 TTATATCC-GAGCTAAGTCCCGAAAGCATTCATGCTGGTG
1 TTATATCCAG-GCTAAGTCCCGAAGGCATTCGTGCTGGTG
**
5588576 TTATATCTGGGCTAAGTCCCGAAGGCATT
1 TTATATCCAGGCTAAGTCCCGAAGGCATT
5588605 TGTGTTGGAA
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 98 0.98
40 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (39 bp):
TTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:5591090 original size:20 final size:22
Alignment explanation
Indices: 5591065--5591104 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
5591055 TAATATTTAG
5591065 ATTTATATT-A-ATTAAAAATA
1 ATTTATATTGATATTAAAAATA
5591085 ATTTATATTGATATTAAAAA
1 ATTTATATTGATATTAAAAA
5591105 ATATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (22 bp):
ATTTATATTGATATTAAAAATA
Found at i:5591114 original size:26 final size:26
Alignment explanation
Indices: 5591057--5591114 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
5591047 GCCTATATTA
*
5591057 ATATTTAGATTTATATTAATTAAAAAT
1 ATATTTAGATTGATATTAA-TAAAAAT
*
5591084 A-ATTTATATTGATATTAA-AAAATAT
1 ATATTTAGATTGATATTAATAAAA-AT
5591109 ATATTT
1 ATATTT
5591115 TCCTCCCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 3 0.11
26 19 0.70
27 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (26 bp):
ATATTTAGATTGATATTAATAAAAAT
Found at i:5592945 original size:20 final size:18
Alignment explanation
Indices: 5592920--5592957 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
5592910 TCAAATGCAT
5592920 TTAAAACATAAAAACAAATA
1 TTAAAACA-AAAAA-AAATA
5592940 TTAAAACAAAAAAAAATA
1 TTAAAACAAAAAAAAATA
5592958 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (18 bp):
TTAAAACAAAAAAAAATA
Found at i:5595045 original size:15 final size:15
Alignment explanation
Indices: 5595027--5595075 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
5595017 TTATAAAAAT
5595027 TTAGAAAATAATAAG
1 TTAGAAAATAATAAG
* *
5595042 TTAG--AATAAAAAT
1 TTAGAAAATAATAAG
5595055 TTAGAAAATAATAAG
1 TTAGAAAATAATAAG
5595070 TTAGAA
1 TTAGAA
5595076 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 11 0.39
15 17 0.61
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (15 bp):
TTAGAAAATAATAAG
Found at i:5595050 original size:28 final size:28
Alignment explanation
Indices: 5595019--5595076 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
5595009 TCACCTAATT
5595019 ATAAAAATTTAGAAAATAATAAGTTAGA
1 ATAAAAATTTAGAAAATAATAAGTTAGA
5595047 ATAAAAATTTAGAAAATAATAAGTTAGA
1 ATAAAAATTTAGAAAATAATAAGTTAGA
5595075 AT
1 AT
5595077 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.29
Consensus pattern (28 bp):
ATAAAAATTTAGAAAATAATAAGTTAGA
Found at i:5595203 original size:8 final size:8
Alignment explanation
Indices: 5595190--5595221 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
5595180 ATTATTTTCT
5595190 TTTTAAAA
1 TTTTAAAA
5595198 TTTTAAAA
1 TTTTAAAA
5595206 TTTTAAAA
1 TTTTAAAA
*
5595214 TTCTAAAA
1 TTTTAAAA
5595222 CTCTATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (8 bp):
TTTTAAAA
Found at i:5596289 original size:3 final size:3
Alignment explanation
Indices: 5596241--5596277 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
5596231 TATAAAAATA
*
5596241 AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5596278 GACAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5598012 original size:44 final size:44
Alignment explanation
Indices: 5597938--5598048 Score: 109
Period size: 44 Copynumber: 2.5 Consensus size: 44
5597928 CTCCTCTTCA
* * * * *
5597938 AGTAGCTTCATTCTAAC-CCATTGCAACTTCAAGGAGATTAGACTT
1 AGTAGCTTCAATCT-ACTCCACTGTACCTTCAAGGAGATAAGA-TT
* *
5597983 -GTAGCTTTAATCTACTCCACTGTACCTTCAGGGAGATAAGATT
1 AGTAGCTTCAATCTACTCCACTGTACCTTCAAGGAGATAAGATT
* *
5598026 AGTGGCTTCAATCTGCTCCACTG
1 AGTAGCTTCAATCTACTCCACTG
5598049 CAACTTCAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
43 4 0.07
44 50 0.93
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
AGTAGCTTCAATCTACTCCACTGTACCTTCAAGGAGATAAGATT
Found at i:5598056 original size:44 final size:44
Alignment explanation
Indices: 5597959--5598069 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 44
5597949 TCTAACCCAT
* * * * *
5597959 TGCAACTTCAAGGAGATTAGACTT-GTAGCTTTAATCTACTCCAC
1 TGCAACTTCAGGGAGATAAGA-TTAGTAACTTCAATCTGCTCCAC
* * **
5598003 TGTACCTTCAGGGAGATAAGATTAGTGGCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTAGTAACTTCAATCTGCTCCAC
**
5598047 TGCAACTTCAGAAAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
5598070 TTCCATAGTG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 2 0.04
44 53 0.96
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTAGTAACTTCAATCTGCTCCAC
Found at i:5598236 original size:44 final size:44
Alignment explanation
Indices: 5598125--5598627 Score: 387
Period size: 44 Copynumber: 11.1 Consensus size: 44
5598115 GGACTTGTGG
* * * * ** *
5598125 TTTGTAGCTTTAATCTGCTCTACTGTAACTTCAAAGAGACAAGA
1 TTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
5598169 TTTGCTATCTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGA
1 TTTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
5598214 CTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGG
1 TTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * **
5598258 TTTATAGCTTTAATCTGCTCTACTGCAACTCCAGATAGATAAGA
1 TTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
5598302 TTTGCTATCTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGA
1 TTTG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * **
5598347 TCTATAACTTCAATTTTCTCCTCTGCAACTTCAAAGAGATAAGA
1 TTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
5598391 TTTGTAACCTTCATTCTGCTCCACTACAACTTTAGGGAGATAAGA
1 TTTGTAA-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
5598436 CTTGTAACCTCAA-CATGCTCCACTGCAACTTCAGGGAGATAAGGTT
1 TTTGTAACTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAA-G-A
* * *
5598482 TGTCATGATAACTTCAATCTGCTCCTCAGCAACTTCAGGAAGATAAGA
1 T-T--TG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * * *
5598530 TTCACCGTGATAATTTTAATCTGCTTCACTGCGACTTTAGAGAGATGAGA
1 TT-----TG-TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* ** * * *
5598580 TTAGTGGCTTCAATTTGCTCCATTGCAACTTCAGGGAGATGAGA
1 TTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
5598624 TTTG
1 TTTG
5598628 CTATTATAGC
Statistics
Matches: 357, Mismatches: 88, Indels: 28
0.75 0.19 0.06
Matches are distributed among these distances:
43 1 0.00
44 176 0.49
45 105 0.29
47 2 0.01
48 1 0.00
49 3 0.01
50 68 0.19
51 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
TTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
Found at i:5598329 original size:89 final size:88
Alignment explanation
Indices: 5598177--5598624 Score: 325
Period size: 89 Copynumber: 4.9 Consensus size: 88
5598167 GATTTGCTAT
* * * * *
5598177 CTTCAGTCTGTTCC-ACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCA
1 CTTCAATCTGCTCCTACTGCAACTTCAGAGAGATAAGATTTGTAACTTC-ATCTGCTCCACTGCA
* * *
5598241 ACTTCAGGGAGATAAGGTTTATAG
65 ACTTCAGGGAGATAAGATCTATAA
* * * * *
5598265 CTTTAATCTGCT-CTACTGCAACTCCAGATAGATAAGATTTGCTATCTTCGATCTACTCCACTGC
1 CTTCAATCTGCTCCTACTGCAACTTCAGAGAGATAAGATTTG-TAACTTC-ATCTGCTCCACTGC
5598329 AACTTCAGGGAGATAAGATCTATAA
64 AACTTCAGGGAGATAAGATCTATAA
* * * *
5598354 CTTCAATTTTCTCCT-CTGCAACTTCAAAGAGATAAGATTTGTAACCTTCATTCTGCTCCACTAC
1 CTTCAATCTGCTCCTACTGCAACTTCAGAGAGATAAGATTTGTAA-CTTCA-TCTGCTCCACTGC
* *
5598418 AACTTTAGGGAGATAAGA-CTTGTAA
64 AACTTCAGGGAGATAAGATC-TATAA
* * *
5598443 CCTCAA-CATGCTCC-ACTGCAACTTCAGGGAGATAAGGTTTGTCATGATAACTTCAATCTGCTC
1 CTTCAATC-TGCTCCTACTGCAACTTCAGAGAGATAA-G-AT-T--TG-TAACTTC-ATCTGCTC
* * *
5598506 CTCAGCAACTTCAGGAAGATAAGATTCACCGTGATAA
58 CACTGCAACTTCAGGGAGATAAGA-T---C-T-ATAA
* * * * * * * ** * *
5598543 TTTTAATCTGCTTC-ACTGCGACTTTAGAGAGATGAGATTAGTGGCTTCAATTTGCTCCATTGCA
1 CTTCAATCTGCTCCTACTGCAACTTCAGAGAGATAAGATTTGTAACTTC-ATCTGCTCCACTGCA
*
5598607 ACTTCAGGGAGATGAGAT
65 ACTTCAGGGAGATAAGAT
5598625 TTGCTATTAT
Statistics
Matches: 282, Mismatches: 56, Indels: 39
0.75 0.15 0.10
Matches are distributed among these distances:
87 1 0.00
88 36 0.13
89 136 0.48
90 3 0.01
91 1 0.00
92 1 0.00
93 1 0.00
94 64 0.23
95 5 0.02
97 1 0.00
98 1 0.00
99 3 0.01
100 28 0.10
101 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (88 bp):
CTTCAATCTGCTCCTACTGCAACTTCAGAGAGATAAGATTTGTAACTTCATCTGCTCCACTGCAA
CTTCAGGGAGATAAGATCTATAA
Found at i:5598373 original size:133 final size:133
Alignment explanation
Indices: 5598123--5598528 Score: 431
Period size: 133 Copynumber: 3.0 Consensus size: 133
5598113 TAGGACTTGT
* * * *
5598123 GGTTTGTAGCTTTAATCTGCTCTACTGTAACTTCAAAGAGACAAGATTTGCTATCTTCAGTCTGT
1 GGTTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCA-TCTGC
* * * *
5598188 TCCACTGCAACTTCAGGGAGATAAGA-CTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG
65 TCCACTGCAACTTCAGGGAGATAAGATCATATAACTTCAATCTGCTCCTCTGCAACTTCAGGGAG
5598252 ATAA
130 ATAA
* * * *
5598256 GGTTTATAGCTTTAATCTGCTCTACTGCAACTCCAGATAGATAAGATTTGCTATCTTCGATCTAC
1 GGTTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTC-ATCTGC
* * **
5598321 TCCACTGCAACTTCAGGGAGATAAGATC-TATAACTTCAATTTTCTCCTCTGCAACTTCAAAGAG
65 TCCACTGCAACTTCAGGGAGATAAGATCATATAACTTCAATCTGCTCCTCTGCAACTTCAGGGAG
5598385 ATAA
130 ATAA
* * * * * * * * * * * *
5598389 GATTTGTAACCTTCATTCTGCTCCACTACAACTTTAGGGAGATAAGACTTG-TAACCTCAACATG
1 GGTTTGT-AGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCATC-TG
* *
5598453 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATGATAACTTCAATCTGCTCCTCAGCAACTTC
64 CTCCACTGCAACTTCAGGGAGATAA-G---ATCAT-ATAACTTCAATCTGCTCCTCTGCAACTTC
*
5598518 AGGAAGATAA
124 AGGGAGATAA
5598528 G
1 G
5598529 ATTCACCGTG
Statistics
Matches: 225, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
132 2 0.01
133 150 0.67
134 36 0.16
137 2 0.01
138 1 0.00
139 34 0.15
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (133 bp):
GGTTTGTAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCATCTGCT
CCACTGCAACTTCAGGGAGATAAGATCATATAACTTCAATCTGCTCCTCTGCAACTTCAGGGAGA
TAA
Found at i:5598541 original size:50 final size:50
Alignment explanation
Indices: 5598451--5598554 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 50
5598441 AACCTCAACA
* * * ***
5598451 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATGATAACTTCAATC
1 TGCTCCACAGCAACTTCAGGAAGATAAGATTCACCATGATAACTTCAATC
* * * *
5598501 TGCTCCTCAGCAACTTCAGGAAGATAAGATTCACCGTGATAATTTTAATC
1 TGCTCCACAGCAACTTCAGGAAGATAAGATTCACCATGATAACTTCAATC
5598551 TGCT
1 TGCT
5598555 TCACTGCGAC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (50 bp):
TGCTCCACAGCAACTTCAGGAAGATAAGATTCACCATGATAACTTCAATC
Found at i:5600062 original size:16 final size:16
Alignment explanation
Indices: 5600035--5600073 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
5600025 CCCACGATCT
* *
5600035 TTTTTTATTTTTTTGTA
1 TTTTTTCTTTTTTT-CA
5600052 TTTTTTCTTTTTTTCA
1 TTTTTTCTTTTTTTCA
5600068 TTTTTT
1 TTTTTT
5600074 TGGCTGCCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTTTTTCA
Found at i:5600238 original size:3 final size:3
Alignment explanation
Indices: 5600223--5600291 Score: 111
Period size: 3 Copynumber: 22.7 Consensus size: 3
5600213 ATGATCTATT
* *
5600223 TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
5600269 TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TT
5600292 TTGAGGGAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:5605863 original size:17 final size:17
Alignment explanation
Indices: 5605841--5605873 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5605831 GATATGATAC
5605841 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
5605858 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
5605874 AATAAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:5605874 original size:18 final size:17
Alignment explanation
Indices: 5605841--5605874 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5605831 GATATGATAC
*
5605841 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
5605858 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
5605875 ATAAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:5606165 original size:22 final size:21
Alignment explanation
Indices: 5606130--5606205 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
5606120 AAAAGGTATC
* *
5606130 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
5606151 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
5606174 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
5606193 TGC-AATCATATCT
1 TACAAATCATATCT
5606206 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:5606190 original size:19 final size:19
Alignment explanation
Indices: 5606166--5606256 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
5606156 AATCATATCT
5606166 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
5606185 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
5606203 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
5606220 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
5606239 TCTAAGATTGCAAATCAT
1 TCTAAGATTGCATATCAT
5606257 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:5606222 original size:35 final size:37
Alignment explanation
Indices: 5606166--5606248 Score: 134
Period size: 35 Copynumber: 2.3 Consensus size: 37
5606156 AATCATATCT
*
5606166 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
5606203 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
5606239 TCTAAGATTG
1 TCTAAGATTG
5606249 CAAATCATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
35 19 0.43
36 15 0.34
37 10 0.23
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:5606235 original size:14 final size:15
Alignment explanation
Indices: 5606180--5606235 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
5606170 AGATTGCATA
5606180 TCATATCTAAGATTG
1 TCATATCTAAGATTG
5606195 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
5606213 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
5606230 -CATATC
1 TCATATC
5606236 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:5606404 original size:21 final size:20
Alignment explanation
Indices: 5606375--5606414 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
5606365 TTGGACTTTG
*
5606375 TTTTTTTTTTGGATTTATTA
1 TTTTTTTTTTGGACTTATTA
5606395 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
5606415 TCTGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:5606562 original size:3 final size:3
Alignment explanation
Indices: 5606556--5606594 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
5606546 ATAATAATAA
5606556 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
5606595 GAATGATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:5607408 original size:19 final size:17
Alignment explanation
Indices: 5607375--5607410 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
5607365 GATATGATAC
5607375 TAAAATTATTAAAAAAT
1 TAAAATTATTAAAAAAT
5607392 TAAAATATATATAAAAAAT
1 TAAAAT-TAT-TAAAAAAT
5607411 CAAGGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATTATTAAAAAAT
Found at i:5607699 original size:22 final size:21
Alignment explanation
Indices: 5607664--5607739 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
5607654 AAAAGGTATC
* *
5607664 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
5607685 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
5607708 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
5607727 TGC-AATCATATCT
1 TACAAATCATATCT
5607740 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:5607756 original size:35 final size:37
Alignment explanation
Indices: 5607700--5607790 Score: 132
Period size: 35 Copynumber: 2.5 Consensus size: 37
5607690 AATCATATCT
*
5607700 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
5607737 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
*
5607773 TCCAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
5607791 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
35 19 0.39
36 14 0.29
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:5607769 original size:14 final size:15
Alignment explanation
Indices: 5607714--5607769 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
5607704 AGATTGCATA
5607714 TCATATCTAAGATTG
1 TCATATCTAAGATTG
5607729 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
5607747 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
5607764 -CATATC
1 TCATATC
5607770 ACATCCAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:5607798 original size:17 final size:19
Alignment explanation
Indices: 5607700--5607790 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
5607690 AATCATATCT
5607700 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
5607719 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
5607737 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
5607754 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
5607773 TCCAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
5607791 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:5608212 original size:45 final size:45
Alignment explanation
Indices: 5608150--5608315 Score: 192
Period size: 45 Copynumber: 3.7 Consensus size: 45
5608140 ATCTTTGATC
* *
5608150 TGCTTCCCGTTTAATACAGAGACGCCAAATCTGTTATCCTCGATT
1 TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCCTCGATT
* * * * * * *
5608195 TGCTCCCCATCTAATACAGAGACGCCAATTTTGCT-TCTTCAATC
1 TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCCTCGATT
* *
5608239 TGCTCCCCGTATAATACAGAGATGCCAAATCTGTTAT-CTCTGATT
1 TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCCTC-GATT
* *
5608284 TGCTCCCCGTCTAATACAAAGATGCCAAATCT
1 TGCTCCCCGTCTAATACAGAGACGCCAAATCT
5608316 ATCATCTTGG
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
44 37 0.37
45 62 0.63
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (45 bp):
TGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCCTCGATT
Found at i:5608298 original size:89 final size:89
Alignment explanation
Indices: 5608147--5608311 Score: 260
Period size: 89 Copynumber: 1.9 Consensus size: 89
5608137 GCTATCTTTG
* *
5608147 ATCTGCTTCCCGTTTAATACAGAGACGCCAAATCTGTTATCCTCGATTTGCTCCCCATCTAATAC
1 ATCTGCTCCCCGTATAATACAGAGACGCCAAATCTGTTATCCTCGATTTGCTCCCCATCTAATAC
*
5608212 AGAGACGCCAATTTTGCTTCTTCA
66 AAAGACGCCAATTTTGCTTCTTCA
* *
5608236 ATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTAT-CTCTGATTTGCTCCCCGTCTAATA
1 ATCTGCTCCCCGTATAATACAGAGACGCCAAATCTGTTATCCTC-GATTTGCTCCCCATCTAATA
*
5608300 CAAAGATGCCAA
65 CAAAGACGCCAA
5608312 ATCTATCATC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
88 3 0.04
89 66 0.96
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCCCGTATAATACAGAGACGCCAAATCTGTTATCCTCGATTTGCTCCCCATCTAATAC
AAAGACGCCAATTTTGCTTCTTCA
Found at i:5608475 original size:78 final size:78
Alignment explanation
Indices: 5608346--5608638 Score: 444
Period size: 78 Copynumber: 3.8 Consensus size: 78
5608336 ATGTAAACAC
* *
5608346 ATGAAGGTCAGATCTGCTATGTCTTCGATTTGCTCCCCTTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
5608411 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
5608424 ATGAAGGTTCA-ATCTGTTATGTCTTCGATCTTCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGG-TCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
5608488 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
5608502 ATGAAGATCAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
5608567 TGGATATGCTTCA
66 TGGATCTGCTTCA
* * * * **
5608580 ATGAAGGTCAGATCTACTATGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAA
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
5608639 CTGTTTCTTC
Statistics
Matches: 196, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 3 0.02
78 190 0.97
79 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:5608755 original size:78 final size:78
Alignment explanation
Indices: 5608666--5608838 Score: 301
Period size: 78 Copynumber: 2.2 Consensus size: 78
5608656 TCTCTGACAG
* *
5608666 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGCTATGTCTTCGATCT
5608731 ACTCCCCATCTAA
66 ACTCCCCATCTAA
*
5608744 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGCTATGTCTTCGATCT
* *
5608809 GCTCCCCGTCTAA
66 ACTCCCCATCTAA
5608822 TACAGAGATGCCAAATC
1 TACAGAGATGCCAAATC
5608839 TGTTTCTTCG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 90 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (78 bp):
TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGCTATGTCTTCGATCT
ACTCCCCATCTAA
Found at i:5608810 original size:198 final size:199
Alignment explanation
Indices: 5608468--5608898 Score: 686
Period size: 198 Copynumber: 2.2 Consensus size: 199
5608458 CCCCGTCTAA
* *
5608468 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTTGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTATGTCTTCGATCT
* * *
5608533 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATATGCTTCAATGAAGGTCAGATCTACT
66 ACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATATGCTTCAATGAAGGTCAAATCTACT
* * **
5608598 ATGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAA-CTGTTTCTTCGATTTGTTCTCTG
131 ATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
5608662 ACAG
196 ACAG
* *
5608666 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTCGATC
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGAT-CAGATCTGCTATGTCTTCGATC
* *
5608730 TACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGC
65 TACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATATGCTTCAATGAAGGTCAAATCTAC
* *
5608795 TGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCT
130 TATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCT
5608860 GACAG
195 GACAG
* *
5608865 TACAAAGATGCCAAATCATCTTAGATCTGCTTCA
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCA
5608899 GTGTAAACAC
Statistics
Matches: 214, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
198 153 0.71
199 61 0.29
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (199 bp):
TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTATGTCTTCGATCT
ACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATATGCTTCAATGAAGGTCAAATCTACT
ATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG
ACAG
Found at i:5608972 original size:276 final size:278
Alignment explanation
Indices: 5608230--5608965 Score: 716
Period size: 276 Copynumber: 2.6 Consensus size: 278
5608220 CAATTTTGCT
* * * * * *
5608230 TCTTCAATCTGCTCCCCGTATAATACAGAGATGCCAAATCTGTTATC-TCTGATTTGCTCCCCGT
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTT-TCTTC-GATTTGTTCACTGA
* * * * * * *
5608294 CTAATACAAAGATGCCAAATCTATCATCTTGGATCTACTTCGATGTAAACACATGAAGGTCAGAT
64 C-AGTACAAAGATGCC-AA---ATCATCTTAGATCTGCTTCG-TGTAAACACGTGAAAGCCAAAT
* *
5608359 CTGCTATGTCTTCGATTTGCTCCCCT-TCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTC
123 CTGCTATGTCTTCGATTTGCT-CTCTGAC-AATACAGAGATGCC-AA-CA---T--ATCTGCTTC
* * *
5608423 AATGAAGGTTCAATCTGTTATGTCTTCGATCTTCTCCCCGTCTAATACAGAGATGCCAAATCATC
179 AATGAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATC
*
5608488 TTGGATCTGCTTCAATGAAGATCAGATCTGCTGTG
244 TTGGATCTGCTTCAATGAAGATCAAATCTGCTGTG
* * * * *
5608523 TCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC---ATCTTGGATATGCTTCAATGA-
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTTCTTCGATTTG-TTCACTGAC
* * * * * * *
5608584 AGGT-C--AGAT-CTACTAT-GTCTTTGATCTGCTCTCCGTCG--AATATG-GAGATGCCAAA-C
65 A-GTACAAAGATGCCA-AATCATCTTAGATCTGCT-T-CGT-GTAAACACGTGA-AAGCCAAATC
* *
5608640 TG-T-T-TCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAAT
124 TGCTATGTCTTCGATTTGCTCTCTGACAATACAGAGATGCC-AA-CA---T--ATCTGCTTCAAT
5608702 GAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTG
182 GAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTG
*
5608767 GATCTGCTTCAATGAAGGTCAAATCTGCTGTG
247 GATCTGCTTCAATGAAGATCAAATCTGCTGTG
*
5608799 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCACTGACA
*
5608864 GTACAAAGATGCCAAATCATCTTAGATCTGCTTCAGTGTAAACACGTGAAAACCAAATCTGCTAT
66 GTACAAAGATGCCAAATCATCTTAGATCTGCTTC-GTGTAAACACGTGAAAGCCAAATCTGCTAT
* *
5608929 GTCTTTGATTTGCTCTCTGACAATACAGAGATACCAA
130 GTCTTCGATTTGCTCTCTGACAATACAGAGATGCCAA
5608966 ATCTGCTATC
Statistics
Matches: 367, Mismatches: 50, Indels: 60
0.77 0.10 0.13
Matches are distributed among these distances:
276 171 0.47
277 13 0.04
278 9 0.02
279 12 0.03
280 7 0.02
281 28 0.08
282 28 0.08
283 8 0.02
284 2 0.01
285 4 0.01
286 34 0.09
288 2 0.01
289 8 0.02
290 4 0.01
293 37 0.10
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (278 bp):
TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCACTGACA
GTACAAAGATGCCAAATCATCTTAGATCTGCTTCGTGTAAACACGTGAAAGCCAAATCTGCTATG
TCTTCGATTTGCTCTCTGACAATACAGAGATGCCAACATATCTGCTTCAATGAAGGTCCAATCTG
TTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATG
AAGATCAAATCTGCTGTG
Found at i:5609020 original size:131 final size:131
Alignment explanation
Indices: 5608820--5610323 Score: 2149
Period size: 131 Copynumber: 11.5 Consensus size: 131
5608810 CTCCCCGTCT
* * * * * *
5608820 AATACAGAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGACAGTACAAAGATGCCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* * * **
5608884 CTTAGATCTGCTTCAGTGTAAACACGTGAAAACCAAATCTGCTATGTCTTTGATTTGCTCTCTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5608949 C
131 C
* * * *
5608950 AATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACACCAAATTAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* * *
5609015 CTTAGATCCGTTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTTAATTTGCTCTCTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5609080 C
131 C
* * * * *
5609081 AATACAAAGATGCCGAATCTACTATCTTCAATCTGCTCTCTGACAATACAGAGACACCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* * * *
5609146 CTTAGATCTACTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCGATTTGCTCTTTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5609211 C
131 C
*
5609212 AATACAGAGATGCCAAATGTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* * *
5609277 CTTAGATCCGCTTCAGCGTAAACATGTGAAAGCCAAATCTGTTATATCTTCAATTTGCTCTCTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5609342 C
131 C
*
5609343 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* *
5609408 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATATGCTATATCTTCAATTTGCTCTCTAA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5609473 C
131 C
* * *
5609474 AATACAGAGATGCCAAATCTGCTATCTTCAATTTGCTCTCTGACAATACAGAGATGCCAAATCTG
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAA--T-
** * * * * *
5609539 CTATCTTCTATCTGCTCTCTAAC--AATACA-GAG-ATGCCAAATCTGC--TATCTTCGATCTGC
63 C-ATCTTAGATCTGCT-TC-AGCGTAA-ACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGC
*
5609598 CCTCTGAC
124 TCTCTGAC
* *
5609606 AATACAGAGATGTCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* *
5609671 CTTAGATCCGCTTCAGCGTAAACACGTGAAAGCCAAATTTGCTATATCTTCAATTTGCTCTCTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5609736 C
131 C
* * * * * *
5609737 AATACAAAGATGCCGAATCTACTATCTTCAATCTGCTCTCTGACAATATAGAGACACCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* * * * *
5609802 CTTAGATCTGCTTCAGCGTAAACACGTGAAAACTAAATTTGCTATATCTTCGATTTGCTCTTTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5609867 C
131 C
* *
5609868 AATATAGAGATGCCAAATGTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
** *
5609933 CTTAGATCCACTTCAGCGTAAACACGTGAAAGTCAAATCTGCTATATCTTCAATTTGCTCTCTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5609998 C
131 C
*
5609999 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* * ** *
5610064 CTTAGATCTACTTCAGCGTAAGCACGTGAAAGCCAAATCTATTATATCTTCAATTTGCTTTCTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5610129 C
131 C
* * *
5610130 AATACAGAGATGACAAATCTGCTATCTTCGATCTGCTCTGTAACAATACAGAGACGCCAAATCAT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* * * *
5610195 CTTAGATCTACTTCAGCGTAAACAGGCGAAAGCCAAATCTGCTATATCTTCAATTTGCTTTCTGA
66 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
5610260 C
131 C
* * * * *
5610261 AATACAGAGATGCCAAATCTGCTATCTTCAATTTGCTCTTTGACAATACAGAGATGCAAAATC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
5610324 TGCGATCTTC
Statistics
Matches: 1229, Mismatches: 131, Indels: 27
0.89 0.09 0.02
Matches are distributed among these distances:
126 2 0.00
127 5 0.00
128 15 0.01
129 12 0.01
130 21 0.02
131 1064 0.87
132 74 0.06
133 1 0.00
134 12 0.01
135 16 0.01
136 5 0.00
137 2 0.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (131 bp):
AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTCAATTTGCTCTCTGA
C
Found at i:5609251 original size:175 final size:173
Alignment explanation
Indices: 5609046--5610367 Score: 574
Period size: 175 Copynumber: 7.6 Consensus size: 173
5609036 ACACGTGAAA
** * * *
5609046 GCCAAATCTGCTATATCTTTAATTTGCTCTCTGACAATACAAAGATGCCGAATCTACTATCTTCA
1 GCCAAATCTGC--TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTATCTTCA
*
5609111 ATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATCTACTTCAGCGTAAACACGTGAA
64 ATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATCTACTTCAGCGTAAACACGAGAA
* * * *
5609176 AACCAAATCTGCTATATCTTCGATTTGCTCTTTGACAATACAGAGAT
129 AGCCAAATCTGC--TATCTTCGATCTGCTCTCTAACAATACAGAGAT
* *
5609223 GCCAAATGTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAA--T-C-ATCTT-AGA
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTATCTTCA-A
* * * * * * * * *
5609283 TCCGCT-TCAG-CGTAA-ACATGTGAAAGCCAAATC-TGTTATATCTTCAATTTGC-TCTCTGAC
65 TCTGCTCTCTGAC--AATACA-GAGACA-CCAAATCATCTTAGATC-T--ACTT-CAGC-GT-A-
* * *
5609343 AATAC-AGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGAC
119 AACACGAGA-AAGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGAT
* * * *
5609398 GCCAAA--T-C-ATCTTAGATCTGCT-TCAG-CGTAA-ACACGTGAAAGCCAAATATGCTA-TAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGAC--AATACA-GAG-ATGCC-AA-AT-CTACTAT
* * ** * * *
5609455 CTTCAATTTGCTCTCTAACAATACAGAGATGCCAAATCTGCTATCTTCA-ATTTGCTCTCTGAC-
59 CTTCAATCTGCTCTCTGACAATACAGAGACACCAAA--T-C-ATCTT-AGATCTACT-TCAG-CG
* *
5609518 -AATACA-GAG-ATGCCAAATCTGCTATCTTCTATCTGCTCTCTAACAATACAGAGAT
117 TAA-ACACGAGAAAGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGAT
* * * **
5609573 GCCAAATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGATGTCAAATCTGCTATCTTTGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTATCTTCAAT
* ** *
5609638 CTGCTCTCTGACAATACAGAGACGCCAAATCATCTTAGATCCGCTTCAGCGTAAACACGTGAAAG
66 CTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATCTACTTCAGCGTAAACACGAGAAAG
* * * * *
5609703 CCAAATTTGCTATATCTTCAATTTGCTCTCTGACAATACAAAGAT
131 CCAAATCTGC--TATCTTCGATCTGCTCTCTAACAATACAGAGAT
* * * * **
5609748 GCCGAATCTACTATCTTCAATCTGCTCTCTGACAATATAGAGACACCAAA--T-C-ATCTT-AGA
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTATCTTCA-A
* * * * * * * **
5609808 TCTGCT-TCAG-CGTAA-ACACGTGAAAACTAAATTTGCTATATCTTCGATTTGCTCTTTGAC--
65 TCTGCTCTCTGAC--AATACA-GAG-ACACCAAA--T-C---ATCTTAGATCTACT-TCAG-CGT
* * * * *
5609868 AATATA-GAG-ATGCCAAATGTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
118 AA-ACACGAGAAAGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGAT
* ** * * * * *
5609923 GCCAAA--T-C-ATCTTAGATCCACT-TCAG-CGTAA-ACACGTGAAAGTCAAATCTGCTATATC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGAC--AATACA-GAG-ATGCCAAATCTAC--TATC
* ** * * *
5609981 TTCAATTTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAAC--A
60 TTCAATCTGCTCTCTGACAATACAGAGACACCAAA--T-C-ATCTTAGATCTACT-TC-AGCGTA
* * * * * * *
5610044 ATACA-GAG-ACGCCAAA--T-C-ATCTTAGATCTACT-TC-AGCGTAA-GCACGTGAAA
119 A-ACACGAGAAAGCCAAATCTGCTATCTTCGATCTGCTCTCTAAC--AATACA-GAG-AT
** * * * * * *
5610095 GCCAAATCTATTATATCTTCAATTTGCTTTCTGACAATACAGAGATGACAAATCTGCTATCTTCG
1 GCCAAATC--TGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTATCTTCA
* * * * *
5610160 ATCTGCTCTGTAACAATACAGAGACGCCAAATCATCTTAGATCTACTTCAGCGTAAACAGGCGAA
64 ATCTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATCTACTTCAGCGTAAACACGAGAA
* * * *
5610225 AGCCAAATCTGCTATATCTTCAATTTGCTTTCTGACAATACAGAGAT
129 AGCCAAATCTGC--TATCTTCGATCTGCTCTCTAACAATACAGAGAT
* * * * * * *
5610272 GCCAAATCTGCTATCTTCAATTTGCTCTTTGACAATACAGAGATGCAAAATCTGCGATCTTCGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTATCTTCAAT
* **
5610337 CTGCCCTCTGACAATACAGAGATGCCAAATC
66 CTGCTCTCTGACAATACAGAGACACCAAATC
5610368 TGCTATCTTT
Statistics
Matches: 873, Mismatches: 163, Indels: 220
0.70 0.13 0.18
Matches are distributed among these distances:
169 7 0.01
170 34 0.04
171 110 0.13
172 56 0.06
173 20 0.02
174 9 0.01
175 373 0.43
176 41 0.05
177 79 0.09
178 76 0.09
179 46 0.05
180 13 0.01
181 3 0.00
182 5 0.01
183 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (173 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTATCTTCAAT
CTGCTCTCTGACAATACAGAGACACCAAATCATCTTAGATCTACTTCAGCGTAAACACGAGAAAG
CCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGAT
Found at i:5610312 original size:787 final size:786
Alignment explanation
Indices: 5608820--5610411 Score: 2563
Period size: 787 Copynumber: 2.0 Consensus size: 786
5608810 CTCCCCGTCT
* * * * *
5608820 AATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAGTACAAAGATGCCAAATCATC
1 AATACAGAGATGCCAAATCTGTATCTTCGATCTGCTCTCTGACAATACAAAGACGCCAAATCATC
* * * **
5608885 TTAGATCTGCTTCAGTGTAAACACGTGAAAACCAAATCTGCTATGTCTTTGATTTGCTCTCTGAC
66 TTAGATCCGCTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCTGAC
* * * *
5608950 AATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACACCAAATTAT
131 AATACAAAGATACCAAATCTACTATCTTCAATCTGCTCTCTAACAATACAGAGACACCAAATCAT
* * *
5609015 CTTAGATCCGTTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATATCTTTAATTTGCTCTCTGA
196 CTTAGATCCGCTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCTGA
*
5609080 CAATACAAAGATGCCGAATCTACTATCTTCAATCTGCTCTCTGACAATACAGAGACACCAAATCA
261 CAATACAAAGATGCCAAATCTACTATCTTCAATCTGCTCTCTGACAATACAGAGACACCAAATCA
* * *
5609145 TCTTAGATCTACTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCGATTTGCTCTTTG
326 TCTTAGATCCACTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCTG
* *
5609210 ACAATACAGAGATGCCAAATGTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
391 ACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATC
* * *
5609275 ATCTTAGATCCGCTTCAGCGTAAACATGTGAAAGCCAAATCTGTTATATCTTCAATTTGCTCTCT
456 ATCTTAGATCCACTTCAGCGTAAACACGTGAAAGCCAAATCTATTATATCTTCAATTTGCTCTCT
*
5609340 GACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAAT
521 GACAATACAGAGATGACAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAAT
* *
5609405 CATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATATGCTATATCTTCAATTTGCTCTC
586 CATCTTAGATCTACTTCAGCGTAAACACGCGAAAGCCAAATATGCTATATCTTCAATTTGCTCTC
*
5609470 TAACAATACAGAGATGCCAAATCTGCTATCTTCAATTTGCTCTCTGACAATACAGAGATGCCAAA
651 TAACAATACAGAGATGCCAAATCTGCTATCTTCAATTTGCTCTCTGACAATACAGAGATGCAAAA
* * *
5609535 TCTGCTATCTTCTATCTGCTCTCTAACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCCC
716 TCTGCGATCTTCGATCTGCCCTCTAACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCCC
5609600 TCTGAC
781 TCTGAC
* * *
5609606 AATACAGAGATGTCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
1 AATACAGAGATGCCAAATCTG-TATCTTCGATCTGCTCTCTGACAATACAAAGACGCCAAATCAT
* *
5609671 CTTAGATCCGCTTCAGCGTAAACACGTGAAAGCCAAATTTGCTATATCTTCAATTTGCTCTCTGA
65 CTTAGATCCGCTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCTGA
* * * *
5609736 CAATACAAAGATGCCGAATCTACTATCTTCAATCTGCTCTCTGACAATATAGAGACACCAAATCA
130 CAATACAAAGATACCAAATCTACTATCTTCAATCTGCTCTCTAACAATACAGAGACACCAAATCA
* * * * *
5609801 TCTTAGATCTGCTTCAGCGTAAACACGTGAAAACTAAATTTGCTATATCTTCGATTTGCTCTTTG
195 TCTTAGATCCGCTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCTG
* * * * * *
5609866 ACAATATAGAGATGCCAAATGTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
260 ACAATACAAAGATGCCAAATCTACTATCTTCAATCTGCTCTCTGACAATACAGAGACACCAAATC
**
5609931 ATCTTAGATCCACTTCAGCGTAAACACGTGAAAGTCAAATCTGCTATATCTTCAATTTGCTCTCT
325 ATCTTAGATCCACTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCT
5609996 GACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAAT
390 GACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAAT
* * *
5610061 CATCTTAGATCTACTTCAGCGTAAGCACGTGAAAGCCAAATCTATTATATCTTCAATTTGCTTTC
455 CATCTTAGATCCACTTCAGCGTAAACACGTGAAAGCCAAATCTATTATATCTTCAATTTGCTCTC
*
5610126 TGACAATACAGAGATGACAAATCTGCTATCTTCGATCTGCTCTGTAACAATACAGAGACGCCAAA
520 TGACAATACAGAGATGACAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAA
* * *
5610191 TCATCTTAGATCTACTTCAGCGTAAACAGGCGAAAGCCAAATCTGCTATATCTTCAATTTGCTTT
585 TCATCTTAGATCTACTTCAGCGTAAACACGCGAAAGCCAAATATGCTATATCTTCAATTTGCTCT
* *
5610256 CTGACAATACAGAGATGCCAAATCTGCTATCTTCAATTTGCTCTTTGACAATACAGAGATGCAAA
650 CTAACAATACAGAGATGCCAAATCTGCTATCTTCAATTTGCTCTCTGACAATACAGAGATGCAAA
* * *
5610321 ATCTGCGATCTTCGATCTGCCCTCTGACAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCT
715 ATCTGCGATCTTCGATCTGCCCTCTAACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCC
5610386 CTCTGAC
780 CTCTGAC
*
5610393 AATGCAGAGATGCCAAATC
1 AATACAGAGATGCCAAATC
5610412 ATCTTAGATC
Statistics
Matches: 736, Mismatches: 69, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
786 20 0.03
787 716 0.97
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (786 bp):
AATACAGAGATGCCAAATCTGTATCTTCGATCTGCTCTCTGACAATACAAAGACGCCAAATCATC
TTAGATCCGCTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCTGAC
AATACAAAGATACCAAATCTACTATCTTCAATCTGCTCTCTAACAATACAGAGACACCAAATCAT
CTTAGATCCGCTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCTGA
CAATACAAAGATGCCAAATCTACTATCTTCAATCTGCTCTCTGACAATACAGAGACACCAAATCA
TCTTAGATCCACTTCAGCGTAAACACGTGAAAACCAAATCTGCTATATCTTCAATTTGCTCTCTG
ACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATC
ATCTTAGATCCACTTCAGCGTAAACACGTGAAAGCCAAATCTATTATATCTTCAATTTGCTCTCT
GACAATACAGAGATGACAAATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAAT
CATCTTAGATCTACTTCAGCGTAAACACGCGAAAGCCAAATATGCTATATCTTCAATTTGCTCTC
TAACAATACAGAGATGCCAAATCTGCTATCTTCAATTTGCTCTCTGACAATACAGAGATGCAAAA
TCTGCGATCTTCGATCTGCCCTCTAACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCCC
TCTGAC
Found at i:5611383 original size:10 final size:9
Alignment explanation
Indices: 5611367--5611392 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5611357 TAGCCTCTCC
5611367 ATTTTTTTT
1 ATTTTTTTT
5611376 ATTTTTTTT
1 ATTTTTTTT
5611385 ATTTTTTT
1 ATTTTTTT
5611393 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:5614889 original size:27 final size:27
Alignment explanation
Indices: 5614843--5615177 Score: 447
Period size: 27 Copynumber: 12.4 Consensus size: 27
5614833 ATTACTAAAA
* * * ***
5614843 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
* *
5614870 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
5614897 TACCCTCGATTTATAGGATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
5614924 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
5614951 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
5614978 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
5615005 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
5615032 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
5615059 TACTCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
5615086 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * **
5615113 TACCCTCAATTTACAAAATTATTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
5615140 TACCCTC-AGTTTACAAAATTACCTTTT
1 TACCCTCGA-TTTATAGAATTACCATTT
5615167 TACCCTCGATT
1 TACCCTCGATT
5615178 GTGAAATTAC
Statistics
Matches: 276, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 274 0.99
28 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:5615199 original size:27 final size:26
Alignment explanation
Indices: 5615169--5615278 Score: 85
Period size: 27 Copynumber: 4.1 Consensus size: 26
5615159 TACCTTTTTA
* *
5615169 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* **
5615196 CCCTAAAGGATAAAATTACCAAAATAC
1 CCCTGATTG-TAAAATTACCAAAATAC
*
5615223 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * * *
5615250 CACTGGTTTGTGAAATTATCGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
5615277 CC
1 CC
5615279 TCAACACCAC
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
26 2 0.03
27 63 0.95
28 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:5615295 original size:36 final size:36
Alignment explanation
Indices: 5615248--5615318 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
5615238 TTACCAAAAT
*
5615248 ACCACTGGTTTGTGAAATTATCGAAATACCCTCAAC
1 ACCACTGGTTTGTGAAATTACCGAAATACCCTCAAC
5615284 ACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 ACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
5615319 TGTGTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (36 bp):
ACCACTGGTTTGTGAAATTACCGAAATACCCTCAAC
Found at i:5615419 original size:27 final size:27
Alignment explanation
Indices: 5615380--5615431 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
5615370 TGACTTTCTA
5615380 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
5615407 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
5615432 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:5615541 original size:26 final size:27
Alignment explanation
Indices: 5615484--5615575 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
5615474 TACCCCTAAT
**
5615484 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
*
5615511 AGGTAAAGTGACTGTAAA-CCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
* *
5615537 GGGTAAAGTGACCGTAAAGCCCTTGTA
1 AGGTAAAGTGACCGTAAAGCCCCTGTA
* *
5615564 TGGTAAAATGAC
1 AGGTAAAGTGAC
5615576 GAATACGCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.43
27 32 0.57
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
AGGTAAAGTGACCGTAAAGCCCCTGTA
Found at i:5616445 original size:25 final size:25
Alignment explanation
Indices: 5616378--5616447 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
5616368 AGGAAGTGCT
* * *
5616378 AAAAGGGCTCTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
*
5616403 AAAAGGGCTTCGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
5616429 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
5616448 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 37 0.95
26 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:5616460 original size:24 final size:23
Alignment explanation
Indices: 5616403--5616474 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 23
5616393 CAATTTACCG
5616403 AAAAGGGCTTCGCCCCAGTTTATC
1 AAAAGGGCTTCGCCCCAG-TTATC
* *
5616427 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTCGCCCCAGTTATC
**
5616451 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTCGCC-CCAGTTAT
5616475 ATGACAAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.32
25 24 0.59
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTCGCCCCAGTTATC
Found at i:5616654 original size:42 final size:42
Alignment explanation
Indices: 5616595--5616686 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
5616585 TAGTCTCCCC
** ** *
5616595 AAATGGGCTTGCATACATTGATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTGCATGTGATATTG
5616637 AAATGGGCTTGCATACATCCATTGACATTGCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTGCATGTGATATTG
5616679 AAATGGGC
1 AAATGGGC
5616687 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTGCATGTGATATTG
Found at i:5619041 original size:22 final size:21
Alignment explanation
Indices: 5619016--5619081 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 21
5619006 TGCAAATTAA
5619016 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTAC-AAATCAT
* *
5619038 ATCTTCTAAGATTGCATATCAT
1 ATC-TCTAAGATTACAAATCAT
*
5619060 A--TCTAAGATTGC-AATCAT
1 ATCTCTAAGATTACAAATCAT
5619078 ATCT
1 ATCT
5619082 AAGATTGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 6 0.16
19 11 0.29
20 1 0.03
22 10 0.26
23 10 0.26
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (21 bp):
ATCTCTAAGATTACAAATCAT
Found at i:5619049 original size:23 final size:22
Alignment explanation
Indices: 5619019--5619063 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5619009 AAATTAAATC
5619019 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
5619042 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
5619064 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:5619098 original size:35 final size:37
Alignment explanation
Indices: 5619042--5619132 Score: 132
Period size: 35 Copynumber: 2.5 Consensus size: 37
5619032 AATCATATCT
*
5619042 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
5619079 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
*
5619115 TCCAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
5619133 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
35 19 0.39
36 14 0.29
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:5619111 original size:14 final size:15
Alignment explanation
Indices: 5619056--5619111 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
5619046 AGATTGCATA
5619056 TCATATCTAAGATTG
1 TCATATCTAAGATTG
5619071 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
5619089 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
5619106 -CATATC
1 TCATATC
5619112 ACATCCAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:5619140 original size:17 final size:19
Alignment explanation
Indices: 5619042--5619132 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
5619032 AATCATATCT
5619042 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
5619061 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
5619079 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
5619096 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
5619115 TCCAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
5619133 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:5626496 original size:50 final size:51
Alignment explanation
Indices: 5626421--5626543 Score: 176
Period size: 50 Copynumber: 2.4 Consensus size: 51
5626411 GGCTATTACA
* * * * *
5626421 GATAAGTAATAGTTTCGGCTACACTTATTTGATCAAGGACAAGTGA-AAGT
1 GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGACAAGT
5626471 GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGACAAGT
1 GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGACAAGT
* *
5626522 GAAAAGTGGTAGCTTCAGCTAC
1 GATAAGTGATAGCTTCAGCTAC
5626544 CTAATCAGTG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 41 0.63
51 24 0.37
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (51 bp):
GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGACAAGT
Found at i:5626557 original size:31 final size:31
Alignment explanation
Indices: 5626519--5626659 Score: 203
Period size: 31 Copynumber: 4.5 Consensus size: 31
5626509 ACAAATGACA
*
5626519 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
5626550 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
5626581 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
5626612 AGTGAAAAATGGTAGCTTC-GACCACCTGATC
1 AGTGAAAAGTGGTAGCTTCAG-CTACCTGATC
*
5626643 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
5626660 CCGACTACAA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
30 1 0.01
31 100 0.99
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:5626755 original size:47 final size:46
Alignment explanation
Indices: 5626685--5626808 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 46
5626675 AAGTGATTTC
* *
5626685 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
5626731 CTGTATAAGACCATATCTGGGATATGGAATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * **
5626778 CGTGTAAGACCATAGCTGGGCCATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
5626809 ATATATGAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 25 0.38
47 40 0.62
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:5626891 original size:42 final size:42
Alignment explanation
Indices: 5626779--5626876 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
5626769 TATGTGATTC
*
5626779 GTGTAAGACCATAGCTGGGCCATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCCATGGCATCGATATATGAAGAT
* *
5626821 GTGTAAGACCATAGCTGGGCCGTGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCCATGGCATCGA-TATATGAAGAT
5626863 GTGTAAGACCATAG
1 GTGTAAGACCATAG
5626877 TTGAACTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCCATGGCATCGATATATGAAGAT
Found at i:5627237 original size:11 final size:11
Alignment explanation
Indices: 5627217--5627248 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
5627207 TATATGAATA
5627217 TTGA-AAATGT
1 TTGATAAATGT
5627227 TTGATAAATGT
1 TTGATAAATGT
5627238 TTGATAAATGT
1 TTGATAAATGT
5627249 GTTTATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (11 bp):
TTGATAAATGT
Found at i:5628318 original size:22 final size:23
Alignment explanation
Indices: 5628293--5628338 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
5628283 CAACCAAGCC
5628293 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
5628315 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
5628338 A
1 A
5628339 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:5631760 original size:26 final size:25
Alignment explanation
Indices: 5631694--5631884 Score: 126
Period size: 26 Copynumber: 7.6 Consensus size: 25
5631684 TGAACTTTCC
5631694 ATATATTATTTATTTTAAAATATTTTT
1 ATATATTATTTATTTT-AAATA-TTTT
* *
5631721 ATATACTCTTTATTTTAAACTATTTT
1 ATATATTATTTATTTTAAA-TATTTT
* **
5631747 ATATATTATCTATTCGAAAT-TTTCAT
1 ATATATTATTTATTTTAAATATTT--T
* * *
5631773 ATATAGTATTTAATTTAAACAGTTTT
1 ATATATTATTTATTTTAAATA-TTTT
* * *
5631799 ATATGTTATTCATGTTAAA-ATTTT
1 ATATATTATTTATTTTAAATATTTT
*
5631823 -TATATTATTTATTTT-AA-GTTTT
1 ATATATTATTTATTTTAAATATTTT
* * *
5631845 ATACATTATTCATTTGAAACCT-TTTT
1 ATATATTATTTATTTTAAA--TATTTT
5631871 AT-TATTATTTATTT
1 ATATATTATTTATTT
5631885 ATAGTTGTTT
Statistics
Matches: 127, Mismatches: 27, Indels: 22
0.72 0.15 0.12
Matches are distributed among these distances:
22 6 0.05
23 24 0.19
24 9 0.07
25 12 0.09
26 57 0.45
27 16 0.13
28 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
ATATATTATTTATTTTAAATATTTT
Found at i:5631854 original size:46 final size:48
Alignment explanation
Indices: 5631793--5631884 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 48
5631783 TAATTTAAAC
**
5631793 AGTTTTATATGTTATTCATGTT-AAA-ATTTTTA-TATTATTTATTTTA
1 AGTTTTATACATTATTCAT-TTGAAACATTTTTATTATTATTTATTTTA
*
5631839 AGTTTTATACATTATTCATTTGAAACCTTTTTATTATTATTTATTT
1 AGTTTTATACATTATTCATTTGAAACATTTTTATTATTATTTATTT
5631885 ATAGTTGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
45 2 0.05
46 20 0.50
47 6 0.15
48 12 0.30
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (48 bp):
AGTTTTATACATTATTCATTTGAAACATTTTTATTATTATTTATTTTA
Found at i:5637151 original size:51 final size:51
Alignment explanation
Indices: 5637080--5637240 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
5637070 CTGATCACAT
*
5637080 TTATCAATTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
5637131 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
5637182 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
5637233 TTGTCACT
1 TTATCACT
5637241 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:5644087 original size:49 final size:50
Alignment explanation
Indices: 5644020--5644266 Score: 264
Period size: 49 Copynumber: 5.0 Consensus size: 50
5644010 AGCTATTGTG
* *
5644020 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * ** * *
5644070 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * * * *
5644120 CGATCACGTGTGTAGTATTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
5644170 AGGTCACGTGTGTATTACTAAATGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
5644220 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
5644267 CTTCGACTAC
Statistics
Matches: 157, Mismatches: 38, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
49 78 0.50
50 44 0.28
51 35 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:5645134 original size:19 final size:19
Alignment explanation
Indices: 5645109--5645199 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
5645099 ATAATCTTCA
*
5645109 ATGATATGCAATCTTGGAT
1 ATGATATGCAATCTTAGAT
*
5645128 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
5645147 AT--TATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5645164 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5645182 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5645200 AGATATGATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 16 0.25
18 17 0.27
19 31 0.48
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5645178 original size:35 final size:37
Alignment explanation
Indices: 5645112--5645206 Score: 117
Period size: 36 Copynumber: 2.6 Consensus size: 37
5645102 ATCTTCAATG
* * *
5645112 ATATGCAATCTTGGATGTGATATGCAATCTTAGATAT
1 ATATACAATCTTAGATATGATATGCAATCTTAGATAT
5645149 -TATACAATCTTAGATATGAT-TGCAATCTTAGATAT
1 ATATACAATCTTAGATATGATATGCAATCTTAGATAT
*
5645184 GATATGCAATCTTAGA-A-GATATG
1 -ATATACAATCTTAGATATGATATG
5645207 ATTTTGTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
35 18 0.35
36 20 0.39
37 13 0.25
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (37 bp):
ATATACAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:5645225 original size:22 final size:22
Alignment explanation
Indices: 5645109--5645222 Score: 78
Period size: 19 Copynumber: 5.8 Consensus size: 22
5645099 ATAATCTTCA
5645109 ATGATATGCAATCTT-G--GAT
1 ATGATATGCAATCTTAGAAGAT
*
5645128 GTGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
5645147 AT--TATACAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5645164 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5645182 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
5645204 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
5645223 GATTTAACTT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.20
18 17 0.21
19 28 0.35
22 8 0.10
23 12 0.15
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:5645523 original size:17 final size:19
Alignment explanation
Indices: 5645491--5645525 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5645481 TTTCCCTGAT
5645491 TTTTTTATATATATTTTAA
1 TTTTTTATATATATTTTAA
5645510 TTTTTTA-ATA-ATTTTA
1 TTTTTTATATATATTTTA
5645526 GTATTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTATATATATTTTAA
Found at i:5653636 original size:131 final size:131
Alignment explanation
Indices: 5653451--5654205 Score: 1118
Period size: 131 Copynumber: 5.8 Consensus size: 131
5653441 AGGCTAAAGC
* * *
5653451 ATAGTAGATTTGGTTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCGTCTCTGTAT
1 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTCTGTAT
* *
5653516 TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGCCAGTGAGCAAATTGAAGA
66 TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGA
5653581 T
131 T
* *
5653582 ATAGCAGATTTGGCTTTCATGTGTTTACGGTGAAGCAGATCTAAGATGATTTGGCGTCTCTGTAT
1 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTCTGTAT
* *
5653647 TGTCAGAGAGCAGATCGAAGATAGCAGATTCGGCATCTCTATATTGTCAGAGAGCAAATTGAAGA
66 TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGA
5653712 T
131 T
*
5653713 ATAGCAGATTTGGCTTTCACGTGTTTATGCTGAAGC-GAATCTAAGATGATTTGGCGTCTCTGTA
1 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAG-ATCTAAGATGATTTGGCGTCTCTGTA
* * * * **
5653777 TTGTTAGAAAGTAGATCGAAAATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAG
65 TTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAG
*
5653842 AC
130 AT
* * *
5653844 ATAGCAGATTTGGTTTTCACGTGTTTACACTGAAGCAGATCTAAGATGATTTGGCGTCTTTGTAT
1 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTCTGTAT
*
5653909 TGTCAGAGAGCAGATCGAAGATAGCAGATTCGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGA
66 TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGA
5653974 T
131 T
* *
5653975 ATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCGGATCTAAGATGATTTGGCGTCTCTGTAT
1 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTCTGTAT
**
5654040 TGTC--AGAG-AG--C--AGAT--CAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGA
66 TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGA
*
5654096 C
131 T
* * * * *
5654097 ATAGCAGATTTGGTTTTCACGTGTTTACACTGAAGCGGATCTAAGATGATTTGGCATCTCTGTAC
1 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTCTGTAT
* * *
5654162 TGTCAGAGAACAAATCGAAGA-AACAGATTTGGCATCTCTGTATT
66 TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATT
5654206 AGACGGGGAG
Statistics
Matches: 564, Mismatches: 49, Indels: 23
0.89 0.08 0.04
Matches are distributed among these distances:
122 102 0.18
124 7 0.01
125 1 0.00
126 1 0.00
127 1 0.00
128 2 0.00
129 7 0.01
130 22 0.04
131 420 0.74
132 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (131 bp):
ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCGTCTCTGTAT
TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGA
T
Found at i:5654070 original size:35 final size:35
Alignment explanation
Indices: 5654022--5654091 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
5654012 GATCTAAGAT
* *
5654022 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCA
5654057 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCA
5654092 AAGACATAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (35 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCA
Found at i:5654351 original size:78 final size:79
Alignment explanation
Indices: 5654187--5654352 Score: 246
Period size: 79 Copynumber: 2.1 Consensus size: 79
5654177 CGAAGAAACA
* * **
5654187 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACACAAGCAGATCTGACCTTCATTGA
1 GATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACACAAGCAGATCTGACCTTCATTGA
*
5654252 AGCAGCTCCAAGAT
66 AGCAGATCCAAGAT
* *
5654266 GATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACATAA-CAGAT-TGGACCTTTATTG
1 GATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACACAAGCAGATCT-GACCTTCATTG
5654329 AAGCAGATCCAAGAT
65 AAGCAGATCCAAGAT
5654344 GATTTGGCA
1 GATTTGGCA
5654353 TCTCTGTACT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
77 1 0.01
78 38 0.48
79 40 0.51
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (79 bp):
GATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACACAAGCAGATCTGACCTTCATTGA
AGCAGATCCAAGAT
Found at i:5654360 original size:78 final size:79
Alignment explanation
Indices: 5654187--5654360 Score: 262
Period size: 78 Copynumber: 2.2 Consensus size: 79
5654177 CGAAGAAACA
**
5654187 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACACAAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAAGCAGATCTGACCTTCATTGA
*
5654252 AGCAGCTCCAAGAT
66 AGCAGATCCAAGAT
* * * *
5654266 GATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACATAA-CAGAT-TGGACCTTTATTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAAGCAGATCT-GACCTTCATTG
5654329 AAGCAGATCCAAGAT
65 AAGCAGATCCAAGAT
5654344 GATTTGGCATCTCTGTA
1 GATTTGGCATCTCTGTA
5654361 CTGTCAGAGA
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
77 1 0.01
78 44 0.52
79 40 0.47
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (79 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAAGCAGATCTGACCTTCATTGA
AGCAGATCCAAGAT
Found at i:5654510 original size:199 final size:200
Alignment explanation
Indices: 5654127--5654559 Score: 697
Period size: 199 Copynumber: 2.2 Consensus size: 200
5654117 GTGTTTACAC
* *
5654127 TGAAGCGGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
** * *
5654192 GGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACACAAGCAGATCTGACCTTCATTGAAGCAG
66 GGCATCTCCATATTAGACGGAGAGCAAATTGAAGACACAAGCAGATCTGACCTTCATTGAAGCAG
* *
5654257 CTCCAAGATGATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACC
131 ATCAAAGATGATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACC
*
5654322 TTTAT
196 TTCAT
*
5654327 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAGACAGATTT
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
* *
5654392 GGCATCTCCATATTCGACGGAGAGCAAATTGAAGACAC-TGCAGATCTGACCTTCATTGAAGCAG
66 GGCATCTCCATATTAGACGGAGAGCAAATTGAAGACACAAGCAGATCTGACCTTCATTGAAGCAG
* * **
5654456 ATCAAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAACAGATTGGACC
131 ATCAAAGATGATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACC
5654521 TTCAT
196 TTCAT
* *
5654526 TGAAACAGATCCAAGATGATTTGCCATCTCTGTA
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
5654560 TTAGACGGGG
Statistics
Matches: 215, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
199 120 0.56
200 95 0.44
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (200 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
GGCATCTCCATATTAGACGGAGAGCAAATTGAAGACACAAGCAGATCTGACCTTCATTGAAGCAG
ATCAAAGATGATTTGGCAACGCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACC
TTCAT
Found at i:5654521 original size:78 final size:78
Alignment explanation
Indices: 5654387--5654603 Score: 294
Period size: 78 Copynumber: 2.8 Consensus size: 78
5654377 CGAAGAGACA
** * * *
5654387 GATTTGGCATCTCCATATTCGACGGAGAGCAAATTGAAGACACT-GCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACA-TAGCAGATCTGACCTTCATTGA
*
5654451 AGCAGATCAAAGAT
65 AACAGATCAAAGAT
*
5654465 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCT-GACCTTCATTGA
*
5654529 AACAGATCCAAGAT
65 AACAGATCAAAGAT
* * * *
5654543 GATTTGCCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGTAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCAT
5654604 GTGTTTACAT
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
77 2 0.02
78 120 0.98
79 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
ACAGATCAAAGAT
Found at i:5654699 original size:45 final size:45
Alignment explanation
Indices: 5654634--5654802 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 45
5654624 CCAAGATGAC
* * *
5654634 AGATTTGGCATCTTTGTATTAGACGGGGAGCAAATTGGAGATAAT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAAT
* * * **
5654679 AGATTTGGCATCTCTATATTAGATGGGGAGTAGATTGAAGA-AGC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAAT
* * * * * *
5654723 AAAATTGGCGTCCCTGTATTAGATGGGGAGCAGATCGAAGATAAT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAAT
* *
5654768 AGATTTGGCGTCTCTGTATTAGACGGGTAGCAGAT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
5654803 CAAATATAGT
Statistics
Matches: 101, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
44 35 0.35
45 66 0.65
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (45 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGATAAT
Found at i:5655176 original size:19 final size:19
Alignment explanation
Indices: 5655151--5655241 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
5655141 ATAATCTTCA
*
5655151 ATGATATGCAATCTTGGAT
1 ATGATATGCAATCTTAGAT
*
5655170 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5655189 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5655206 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5655224 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5655242 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5655191 original size:14 final size:15
Alignment explanation
Indices: 5655172--5655227 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
5655162 TCTTGGATGT
5655172 GATATG-CAATCTTA
1 GATATGACAATCTTA
5655186 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
5655203 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
5655221 GATATGA
1 GATATGA
5655228 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:5655220 original size:35 final size:37
Alignment explanation
Indices: 5655151--5655248 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 37
5655141 ATAATCTTCA
* *
5655151 ATGATATGCAATCTTGGATGTGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
5655189 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
5655224 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
5655249 ATTTTGTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
35 22 0.40
36 17 0.31
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:5655267 original size:22 final size:22
Alignment explanation
Indices: 5655151--5655264 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
5655141 ATAATCTTCA
5655151 ATGATATGCAATCTT-G--GAT
1 ATGATATGCAATCTTAGAAGAT
*
5655170 GTGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5655189 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5655206 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5655224 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
5655246 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
5655265 GATTTAATTT
Statistics
Matches: 83, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 31 0.37
22 8 0.10
23 12 0.14
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:5657632 original size:13 final size:14
Alignment explanation
Indices: 5657616--5657649 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
5657606 TAATATAAAA
5657616 TTAATTAT-ATAAT
1 TTAATTATAATAAT
5657629 TTAATT-TAATAAT
1 TTAATTATAATAAT
5657642 TTAATTAT
1 TTAATTAT
5657650 TATCTCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 17 0.89
14 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATTATAATAAT
Found at i:5658247 original size:31 final size:31
Alignment explanation
Indices: 5658212--5658270 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
5658202 AAATTTTTAT
*
5658212 AACTATTTAAAAGTTTTCATTTAAGCCATTG
1 AACTATTCAAAAGTTTTCATTTAAGCCATTG
*
5658243 AACTATTCAAAAGTTTTTATTTAAGCCA
1 AACTATTCAAAAGTTTTCATTTAAGCCA
5658271 CTAGTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAGCCATTG
Found at i:5659674 original size:91 final size:91
Alignment explanation
Indices: 5659509--5659716 Score: 242
Period size: 91 Copynumber: 2.3 Consensus size: 91
5659499 GACACTCCAG
* * * * **
5659509 TTTGTGGATGAACCACCAATG-TTGTAGGTTAATACACTGCCAATATGTTGTGAAAACAAAACGA
1 TTTGTGGATAAACCACCAGTGTTTGCAGGTTAATACACTGCCAATAGGCGGTGAAAACAAAACGA
*
5659573 ATTTTCAGATAAAAGTAGCCAGTAAA
66 ATTTTCAGATAAAAATAGCCAGTAAA
* ** * *
5659599 TTTGTGGATAAACCACCAGTGTTTGCAGGTTAATACGCTGCCAATAGGCGGTGAATGCACAA-TA
1 TTTGTGGATAAACCACCAGTGTTTGCAGGTTAATACACTGCCAATAGGCGGTGAAAACAAAACGA
*
5659663 AGTTTAT-AGATAAAAATTGCCAGTAAA
66 A-TTT-TCAGATAAAAATAGCCAGTAAA
* *
5659690 TTTTTGGATAAACCTCCAGTGTTTGCA
1 TTTGTGGATAAACCACCAGTGTTTGCA
5659717 AATAAACTGC
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
90 21 0.21
91 78 0.78
92 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (91 bp):
TTTGTGGATAAACCACCAGTGTTTGCAGGTTAATACACTGCCAATAGGCGGTGAAAACAAAACGA
ATTTTCAGATAAAAATAGCCAGTAAA
Found at i:5659722 original size:21 final size:23
Alignment explanation
Indices: 5659697--5659747 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
5659687 AAATTTTTGG
5659697 ATAAACCT-C-CAGTGTTTGCAA
1 ATAAACCTCCACAGTGTTTGCAA
5659718 ATAAA-CTGCCAGCAGTGTTTGCAA
1 ATAAACCT-CCA-CAGTGTTTGCAA
5659742 ATAAAC
1 ATAAAC
5659748 TGCCAGTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.08
21 5 0.20
22 1 0.04
24 17 0.68
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (23 bp):
ATAAACCTCCACAGTGTTTGCAA
Found at i:5659738 original size:24 final size:24
Alignment explanation
Indices: 5659706--5659753 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
5659696 GATAAACCTC
5659706 CAGTGTTTGCAAATAAACTGCCAG
1 CAGTGTTTGCAAATAAACTGCCAG
5659730 CAGTGTTTGCAAATAAACTGCCAG
1 CAGTGTTTGCAAATAAACTGCCAG
5659754 TACTTCCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (24 bp):
CAGTGTTTGCAAATAAACTGCCAG
Found at i:5663210 original size:21 final size:21
Alignment explanation
Indices: 5663186--5663229 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5663176 AGATAGGATA
5663186 GTGTCTTCGA-TCCGCTCCGCT
1 GTGTCTTCGACT-CGCTCCGCT
*
5663207 GTGTCTTCGACTTGCTCCGCT
1 GTGTCTTCGACTCGCTCCGCT
5663228 GT
1 GT
5663230 AATCTTAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.05, C:0.34, G:0.25, T:0.36
Consensus pattern (21 bp):
GTGTCTTCGACTCGCTCCGCT
Found at i:5663319 original size:46 final size:44
Alignment explanation
Indices: 5663210--5663812 Score: 360
Period size: 44 Copynumber: 13.9 Consensus size: 44
5663200 CTCCGCTGTG
* * *
5663210 TCTTCGA-CTTGCTCCGCTGTAATCTTAGGGAGATAAGACCTCTG--
1 TCTTCGATC-TGCTCCACTGTAACCTCAGGGAGATAAGA--TCTGAT
* * *
5663254 GCTTCAATCTGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAAT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--AT
* * * *
5663300 TCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGA-
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * * * *
5663343 --TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGAT
* * * *
5663387 T-TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-T-AT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
*
5663427 ATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAAT
1 -TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--AT
* * * *
5663474 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA-
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * * * *
5663517 --TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGAT
* * * *
5663561 T-TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-T-AT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
*
5663601 ATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--AT
* * * * *
5663648 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA-
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
* * * * *
5663691 T-GT-GATCTTCTCTACTGTAACTTCAGAGAGATAAGATC----
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
** * * * * *
5663729 -CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-T
* * *
5663771 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 -TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
5663813 CTGGCTTCAA
Statistics
Matches: 433, Mismatches: 90, Indels: 71
0.73 0.15 0.12
Matches are distributed among these distances:
38 1 0.00
39 24 0.06
40 4 0.01
41 91 0.21
42 11 0.03
43 63 0.15
44 123 0.28
45 4 0.01
46 108 0.25
47 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT
Found at i:5663369 original size:41 final size:42
Alignment explanation
Indices: 5663260--5663726 Score: 228
Period size: 46 Copynumber: 10.8 Consensus size: 42
5663250 TCTGGCTTCA
* * * * *
5663260 ATCTGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGACCTG--A-T-TTCG
* * *
5663306 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGA-TGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGACCTGATTTCG
* * **
5663347 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGA-CC-TGATTTCG
** * * * *
5663391 ATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTATATCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGACCT-GAT-TTCG
* * * * *
5663434 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGACCTG--A-T-TTCG
* ** * *
5663480 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGACCTGA-TGCG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGACCTGATTTCG
* * **
5663521 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGA-CC-TGATTTCG
** * * * *
5663565 ATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTATATCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGACCT-GAT-TTCG
* * * * * *
5663608 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGACCTG--A-T-TTCG
* ** * *
5663654 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGACCTGATGT-G
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGACCTGATTTCG
* *
5663695 ATCTTCTCTACTGTAACTTCAGAGAGATAAGA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGA
5663727 TCCTTTAATC
Statistics
Matches: 331, Mismatches: 68, Indels: 49
0.74 0.15 0.11
Matches are distributed among these distances:
41 88 0.27
42 13 0.04
43 65 0.20
44 61 0.18
45 2 0.01
46 102 0.31
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGACCTGATTTCG
Found at i:5663436 original size:87 final size:87
Alignment explanation
Indices: 5663345--5663811 Score: 381
Period size: 87 Copynumber: 5.4 Consensus size: 87
5663335 AGACCTGATG
* * *
5663345 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CT
1 CGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTAATTTTAATCCGCTCCACTGTAATC-
5663409 TCAGGGAGATAGGATTATATCTT
65 TCAGGGAGATAGGATTATATCTT
* * * * ** * *
5663432 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT-CTGCAATTCTTCGGTCTGTTCCACTGTAA
1 CGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCT-TAATT-TT-AATCCGCTCCACTGTAA
* * * *
5663496 TCTCAGGGAGATAAGACCT-GA--TG
63 TCTCAGGGAGATAGGA-TTATATCTT
* * *
5663519 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CT
1 CGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTAATTTTAATCCGCTCCACTGTAATC-
5663583 TCAGGGAGATAGGATTATATCTT
65 TCAGGGAGATAGGATTATATCTT
* * * * ** * *
5663606 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTGTAA
1 CGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCT-TAA-T-TTTAATCCGCTCCACTGTAA
* * * *
5663670 TCTCAGGGAGATAAGACCT-GAT-GT
63 TCTCAGGGAGATAGGA-TTATATCTT
* * *
5663694 -GATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC-----TTTAATCCGCTCCATTGTAATCT
1 CGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTAATTTTAATCCGCTCCACTGTAATCT
*
5663753 CAAGGAGATAGGATTACTATCTT
66 CAGGGAGATAGGATTA-TATCTT
* * *
5663776 TGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATC
1 CGATCTGCTCCACTGTAACT-TCAGAGAGATAAGATC
5663812 TCTGGCTTCA
Statistics
Matches: 295, Mismatches: 64, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
79 1 0.00
80 29 0.10
81 2 0.01
82 2 0.01
83 29 0.10
84 2 0.01
85 27 0.09
86 6 0.02
87 128 0.43
88 7 0.02
89 58 0.20
90 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (87 bp):
CGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTAATTTTAATCCGCTCCACTGTAATCT
CAGGGAGATAGGATTATATCTT
Found at i:5663550 original size:174 final size:174
Alignment explanation
Indices: 5663255--5663812 Score: 921
Period size: 174 Copynumber: 3.2 Consensus size: 174
5663245 AGACCTCTGG
* * * **
5663255 CTTCAATCTGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
* *
5663320 AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
66 AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
5663385 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
131 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
5663429 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
5663494 AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
66 AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
5663559 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
131 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
* *
5663603 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGT
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
* *
5663668 AATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC---
66 AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
* *
5663730 --TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTAT
131 ATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGATTA-TAT
* *
5663773 CTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
5663813 CTGGCTTCAA
Statistics
Matches: 367, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
168 1 0.00
169 35 0.10
170 41 0.11
174 290 0.79
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (174 bp):
CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
Found at i:5663876 original size:86 final size:87
Alignment explanation
Indices: 5663772--5664170 Score: 382
Period size: 88 Copynumber: 4.6 Consensus size: 87
5663762 AGGATTACTA
* * * ** * * * *
5663772 TCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC-TCTGGCTTCAATCTGCTCCAAT-G
1 TCTTTGATCTGCTTCGCTGTAATGT-AGGAAGGCAAGATCTTCTGTCTTCAACCAGCT-CAATCA
**
5663835 CAACCGATGGAGGCAAGGCTT-TG
64 CAACCGAAAGAGGCAAGGCTTGTG
* * * * * *
5663858 TCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACT-TCTTTAACTAGCTCCA-CTG
1 TCTTTGATCTGCTTCGCTG-TAATGTAGGAAGGCAAGATCTTCTGTCTTCAACCAGCTCAATC-A
* ** *
5663921 CAATCGATGGATGCAAGGCTT-TG
64 CAACCGAAAGAGGCAAGGCTTGTG
* *
5663944 T-TTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
1 TCTTT-GATCTGCTTCGCTG-TAATGTAGGAAGGCAAGATCTTCTGTCTTCAACCAGCTCAATCA
*
5664008 CAACCGAAAGAGGCAAGGTTTGTG
64 CAACCGAAAGAGGCAAGGCTTGTG
* * *
5664032 TCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCAC
1 TCTTTGATCTGCTTCGCTGT-AATGTAGGAAGGCAAGATCTTCTGTCTTCAACCAGCTCAATCAC
*
5664097 AACCGAAAGAGGCAAGGTTTGTG
65 AACCGAAAGAGGCAAGGCTTGTG
* * *
5664120 TCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCCTT-TGTCTTCA
1 TCTTTGATCTGCTTCGCTGT-AATGTAGGAAGGCAAGAT-CTTCTGTCTTCA
5664171 TTGATCTGTC
Statistics
Matches: 272, Mismatches: 30, Indels: 20
0.84 0.09 0.06
Matches are distributed among these distances:
85 5 0.02
86 96 0.35
87 36 0.13
88 130 0.48
89 5 0.02
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (87 bp):
TCTTTGATCTGCTTCGCTGTAATGTAGGAAGGCAAGATCTTCTGTCTTCAACCAGCTCAATCACA
ACCGAAAGAGGCAAGGCTTGTG
Found at i:5663894 original size:43 final size:43
Alignment explanation
Indices: 5663845--5663980 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
5663835 CAACCGATGG
5663845 AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
* * * * * *
5663888 AGGCAAGATCTACT-TCTTT-AACTAGCTCCACTG-CAAT-CGATGG-
1 AGGCAAG-GCT-TTGTCTTTGATCT-GCTTCGCTGTTAATGC-A-GGA
* *
5663931 ATGCAAGGCTTTGT-TTTCGATCTGCTTCGCTGTTAATGTAGGA
1 AGGCAAGGCTTTGTCTTT-GATCTGCTTCGCTGTTAATGCAGGA
5663974 AGGCAAG
1 AGGCAAG
5663981 ATCTTTTGTC
Statistics
Matches: 67, Mismatches: 15, Indels: 22
0.64 0.14 0.21
Matches are distributed among these distances:
41 4 0.06
42 13 0.19
43 33 0.49
44 16 0.24
45 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (43 bp):
AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
Done.