Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 48 of 82
Found at i:17645945 original size:59 final size:57
Alignment explanation
Indices: 17645842--17645996 Score: 190
Period size: 59 Copynumber: 2.7 Consensus size: 57
17645832 CTTTAACATG
*
17645842 TTTGTCTTAATTTAGACAA-AAAACATA-TTATGACTTAATTTAGACAAGAAAATATA
1 TTTGTCTTAATTTAGACAAGAAAA-ATATTTATGACTTAATCTAGACAAGAAAATATA
* * *
17645898 TTTGTCTTAATTTAAGACAAGAAAAATATTTGTTGCCTTAATCTAGACAAGAAAATTTA
1 TTTGTCTTAATTT-AGACAAGAAAAATATTT-ATGACTTAATCTAGACAAGAAAATATA
* * *
17645957 TTTGTCTCAATTTAGACAAGATAGAATATTT-TGTCTTAAT
1 TTTGTCTTAATTTAGACAAGA-AAAATATTTATGACTTAAT
17645997 TAAAGACTAG
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
56 13 0.15
57 17 0.20
58 14 0.16
59 43 0.49
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.39
Consensus pattern (57 bp):
TTTGTCTTAATTTAGACAAGAAAAATATTTATGACTTAATCTAGACAAGAAAATATA
Found at i:17645959 original size:31 final size:29
Alignment explanation
Indices: 17645842--17645997 Score: 157
Period size: 28 Copynumber: 5.4 Consensus size: 29
17645832 CTTTAACATG
*
17645842 TTTG-TCTTAATTTAGACAA-AAAACATA
1 TTTGTTCTTAATTTAGACAAGAAAATATA
*
17645869 TTATG-ACTTAATTTAGACAAGAAAATATA
1 TT-TGTTCTTAATTTAGACAAGAAAATATA
17645898 TTTG-TCTTAATTTAAGACAAGAAAA-ATA
1 TTTGTTCTTAATTT-AGACAAGAAAATATA
* *
17645926 TTTGTTGCCTTAATCTAGACAAGAAAATTTA
1 TTTGTT--CTTAATTTAGACAAGAAAATATA
*
17645957 TTTG-TCTCAATTTAGACAAGATAGAATAT-
1 TTTGTTCTTAATTTAGACAAGA-A-AATATA
17645986 TTTG-TCTTAATT
1 TTTGTTCTTAATT
17645998 AAAGACTAGT
Statistics
Matches: 111, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
27 2 0.02
28 47 0.42
29 33 0.30
30 16 0.14
31 13 0.12
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (29 bp):
TTTGTTCTTAATTTAGACAAGAAAATATA
Found at i:17652690 original size:19 final size:19
Alignment explanation
Indices: 17652666--17652703 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17652656 CCATTTAACT
*
17652666 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
17652685 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
17652704 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:17656151 original size:19 final size:19
Alignment explanation
Indices: 17656116--17656172 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
17656106 TTCCATTTTC
17656116 TTCTCCTTTCTTCCTTTCCT
1 TTCTCCTTTCTT-CTTTCCT
*
17656136 TTCTCTTTTCTTCTTTCCT
1 TTCTCCTTTCTTCTTTCCT
*
17656155 TTCTCCTTTCTTATTTCC
1 TTCTCCTTTCTTCTTTCC
17656173 CCTTGGCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 23 0.68
20 11 0.32
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (19 bp):
TTCTCCTTTCTTCTTTCCT
Found at i:17671930 original size:20 final size:19
Alignment explanation
Indices: 17671889--17671931 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
17671879 ACAAATTTTG
* *
17671889 AAAATCCTAAATATCTGTT
1 AAAATCCTAAAAATCTGCT
*
17671908 AAAATCCTTAAAAATGTGCT
1 AAAATCC-TAAAAATCTGCT
17671928 AAAA
1 AAAA
17671932 ATAAATATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAATCCTAAAAATCTGCT
Found at i:17686028 original size:32 final size:32
Alignment explanation
Indices: 17685992--17686097 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 32
17685982 TTTACCGGGA
*
17685992 TCAACTAAAATCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAATCCAAAGTGGTTTTTCAAAGGC
* * * **
17686024 TCAACCACAACCTTTCACAGTGGTTTTTCATGGGC
1 TCAACCA-AA--ATCCAAAGTGGTTTTTCAAAGGC
* *
17686059 TCAACCAAAACCCAAAGTGATTTTTCAAAGGC
1 TCAACCAAAATCCAAAGTGGTTTTTCAAAGGC
*
17686091 TTAACCA
1 TCAACCA
17686098 CAACCTACAA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
32 28 0.49
33 2 0.04
34 2 0.04
35 25 0.44
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (32 bp):
TCAACCAAAATCCAAAGTGGTTTTTCAAAGGC
Found at i:17686074 original size:67 final size:67
Alignment explanation
Indices: 17685965--17686140 Score: 248
Period size: 67 Copynumber: 2.6 Consensus size: 67
17685955 GCTTAGCCAA
* * *
17685965 AACCTTTCACAATGGTTTTT-ACCGGGATCAACTAAAATCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAAC
17686029 CAC
65 CAC
* * * *
17686032 AACCTTTCACAGTGGTTTTTCATGGGCTCAACCAAAACCCAAAGTGATTTTTCAAAGGCTTAACC
1 AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
17686097 AC
66 AC
*
17686099 AACC-TACAACAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
17686141 CAACTAACTT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 2 0.02
67 93 0.97
68 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
AC
Found at i:17686132 original size:35 final size:34
Alignment explanation
Indices: 17686007--17686142 Score: 127
Period size: 35 Copynumber: 4.0 Consensus size: 34
17685997 TAAAATCCAA
*
17686007 AGTGGTTTTTCAAAGGCTCAACCACAACCTTTC-AC
1 AGTGGTTTTTCAAAGGCTCAACCAAAACC--TCAAC
**
17686042 AGTGGTTTTTCATGGGCTCAACCAAAACC-CAA-
1 AGTGGTTTTTCAAAGGCTCAACCAAAACCTCAAC
* * *
17686074 AGTGATTTTTCAAAGGCTTAACCACAACCTACAAC
1 AGTGGTTTTTCAAAGGCTCAACCAAAACCT-CAAC
* ** *
17686109 AATGGTTTTTCACGGGATCAACCAAAACC-CAAC
1 AGTGGTTTTTCAAAGGCTCAACCAAAACCTCAAC
17686142 A
1 A
17686143 ACTAACTTTT
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
32 25 0.30
33 6 0.07
34 3 0.04
35 48 0.59
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (34 bp):
AGTGGTTTTTCAAAGGCTCAACCAAAACCTCAAC
Found at i:17690365 original size:20 final size:20
Alignment explanation
Indices: 17690340--17690392 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
17690330 ATTATGTTTA
17690340 AATGTTTATTTTAAGTTAAT
1 AATGTTTATTTTAAGTTAAT
* *
17690360 AATG-TTAGTTTTATGTTATT
1 AATGTTTA-TTTTAAGTTAAT
* *
17690380 TATATTTATTTTA
1 AATGTTTATTTTA
17690393 TGTTTTTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (20 bp):
AATGTTTATTTTAAGTTAAT
Found at i:17695005 original size:32 final size:32
Alignment explanation
Indices: 17694969--17695030 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
17694959 AGCTACTGGA
17694969 ATAATGAAAATATTTTGCTCCTTGATTTGAGG
1 ATAATGAAAATATTTTGCTCCTTGATTTGAGG
* *
17695001 ATAATGGACATATTTTGCTCCTTGATTTGA
1 ATAATGAAAATATTTTGCTCCTTGATTTGA
17695031 TGACACCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (32 bp):
ATAATGAAAATATTTTGCTCCTTGATTTGAGG
Found at i:17704096 original size:3 final size:3
Alignment explanation
Indices: 17704090--17704114 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17704080 TATTATTATT
17704090 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
17704115 CCTCCCCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:17704796 original size:22 final size:21
Alignment explanation
Indices: 17704758--17704798 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
17704748 TATATATATA
17704758 TTTATTATTATTTTATTTTAT
1 TTTATTATTATTTTATTTTAT
*
17704779 TTTATTCATTTTTTTATTTT
1 TTTATT-ATTATTTTATTTT
17704799 TTCATAGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTATTATTTTATTTTAT
Found at i:17704800 original size:10 final size:11
Alignment explanation
Indices: 17704758--17704796 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
17704748 TATATATATA
17704758 TTTATTATTAT
1 TTTATTATTAT
17704769 TTTATT-TTAT
1 TTTATTATTAT
*
17704779 TTTATTCATTTT
1 TTTATT-ATTAT
17704791 TTTATT
1 TTTATT
17704797 TTTTCATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 10 0.40
11 6 0.24
12 9 0.36
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:17705565 original size:19 final size:19
Alignment explanation
Indices: 17705525--17705567 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17705515 TGCTTTTTGG
*
17705525 TTTTTGTTTTGTGGTGTTT
1 TTTTTGTTTTGTGGTGTGT
*
17705544 TTTTTTTTTTGTGGT-TAGT
1 TTTTTGTTTTGTGGTGT-GT
17705563 TTTTT
1 TTTTT
17705568 ATTATGGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.02, C:0.00, G:0.21, T:0.77
Consensus pattern (19 bp):
TTTTTGTTTTGTGGTGTGT
Found at i:17707865 original size:23 final size:23
Alignment explanation
Indices: 17707839--17707882 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17707829 GCGTGATTGG
* *
17707839 TTGATATGTGATTGCGTGACATA
1 TTGATAGGTCATTGCGTGACATA
17707862 TTGATAGGTCATTGCGTGACA
1 TTGATAGGTCATTGCGTGACA
17707883 GCATGACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.36
Consensus pattern (23 bp):
TTGATAGGTCATTGCGTGACATA
Found at i:17707977 original size:113 final size:113
Alignment explanation
Indices: 17707794--17708008 Score: 295
Period size: 113 Copynumber: 1.9 Consensus size: 113
17707784 ATGGGGTCAC
* * * * * * *
17707794 TTAGGGTGTGCGTGATTACATTAGGGTTTAACATTGCGTGATTGGTTGATATGTGATTGCGTGAC
1 TTAGGGTGTGCGTGATTACATTAAGGTTTAACATTGCATGACTAGCTGATAGGTCATTGCGTGAC
**
17707859 ATATTGATAGGTCATTGCGTGACAGCATGACTAGATTTTGGCATAGGG
66 ATATTGATAAATCATTGCGTGACAGCATGACTAGATTTTGGCATAGGG
* * *
17707907 TTAGGGTGTGTGTGATTGCATTAAGGTTTAACATTGCATGACTAGCTGATAGGTCATTGCGTTAC
1 TTAGGGTGTGCGTGATTACATTAAGGTTTAACATTGCATGACTAGCTGATAGGTCATTGCGTGAC
* * *
17707972 CTATTGATAAATCATTGTGTGACAGCATGACTGGATT
66 ATATTGATAAATCATTGCGTGACAGCATGACTAGATT
17708009 GAGGCATGTT
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
113 87 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (113 bp):
TTAGGGTGTGCGTGATTACATTAAGGTTTAACATTGCATGACTAGCTGATAGGTCATTGCGTGAC
ATATTGATAAATCATTGCGTGACAGCATGACTAGATTTTGGCATAGGG
Found at i:17708094 original size:23 final size:23
Alignment explanation
Indices: 17708062--17708110 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
17708052 TAACATTGCA
*
17708062 TGATTGATTGATACGCCTTTACG
1 TGATTCATTGATACGCCTTTACG
* *
17708085 TGATTCATTGATAGGCTTTTACG
1 TGATTCATTGATACGCCTTTACG
17708108 TGA
1 TGA
17708111 CGGTTTATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (23 bp):
TGATTCATTGATACGCCTTTACG
Found at i:17712404 original size:23 final size:23
Alignment explanation
Indices: 17712351--17712409 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
17712341 AAGACTACTA
* * ** *
17712351 AATTTTGAATCACGTGACTGGTT
1 AATTTGGAATCGCGTGACTAATC
*
17712374 AATATGGAATCGCGTGACTAATC
1 AATTTGGAATCGCGTGACTAATC
17712397 AATTTGGAATCGC
1 AATTTGGAATCGC
17712410 ATGAACCGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (23 bp):
AATTTGGAATCGCGTGACTAATC
Found at i:17712462 original size:23 final size:23
Alignment explanation
Indices: 17712432--17712944 Score: 199
Period size: 23 Copynumber: 22.5 Consensus size: 23
17712422 ATTTAGAATA
*
17712432 GCGTGAGTAGTTGA-TATTGAGTC
1 GCGTGAGTAGTT-ATTATGGAGTC
* * * *
17712455 GCGTGAGTAGTAACTATTGAGTG
1 GCGTGAGTAGTTATTATGGAGTC
* * * * *
17712478 GTGTGACTAGTTATTATAGAATT
1 GCGTGAGTAGTTATTATGGAGTC
* * * **
17712501 GCATGACTAGGTATTATAAAAG-C
1 GCGTGAGTAGTTATTAT-GGAGTC
* * *
17712524 GCGTAAGTAGTAAATATGGAGTC
1 GCGTGAGTAGTTATTATGGAGTC
* *
17712547 GCGTGACTAGTTATTATGGATTC
1 GCGTGAGTAGTTATTATGGAGTC
* *
17712570 ACGTGAGTAGTTGA-TATTGAGTC
1 GCGTGAGTAGTT-ATTATGGAGTC
*
17712593 GCGTGAGTAG-TATATATGGAGTG
1 GCGTGAGTAGTTAT-TATGGAGTC
* * *
17712616 GCGTTACTAGTTATTATGGAATC
1 GCGTGAGTAGTTATTATGGAGTC
* **
17712639 GCGTGACTAGTTATTATAAAAGT-
1 GCGTGAGTAGTTATTAT-GGAGTC
* * * *
17712662 GTGTGAGCAGTAAATATGGAGTC
1 GCGTGAGTAGTTATTATGGAGTC
* * * *
17712685 GAGTAACTAGTTATTATGGAATC
1 GCGTGAGTAGTTATTATGGAGTC
* *
17712708 GTGTGAGTAGTTGA-TATTGAGTC
1 GCGTGAGTAGTT-ATTATGGAGTC
*
17712731 GCGTGAGTAG-TATATATGGAGTG
1 GCGTGAGTAGTTAT-TATGGAGTC
* * * * ** *
17712754 GTGTTACTAGCTATTATAAAATC
1 GCGTGAGTAGTTATTATGGAGTC
* * **
17712777 GCATGACTAGTTATTATAAAAG-C
1 GCGTGAGTAGTTATTAT-GGAGTC
* * *
17712800 GC--GAGTAGTAAATATGGAGCC
1 GCGTGAGTAGTTATTATGGAGTC
* * * *
17712821 GTGTGACTAGTTATTATGAAATC
1 GCGTGAGTAGTTATTATGGAGTC
** * *
17712844 ATGTGACTAGTTGA-TATTGAGTC
1 GCGTGAGTAGTT-ATTATGGAGTC
*
17712867 GC--GAGTAG-TATATATGGAGTG
1 GCGTGAGTAGTTAT-TATGGAGTC
* * *
17712888 GCGTTAGTAGTTATTATGGAATT
1 GCGTGAGTAGTTATTATGGAGTC
* * ** *
17712911 GCATGAGTATTTATTATAAAATC
1 GCGTGAGTAGTTATTATGGAGTC
17712934 GCGTGAGTAGT
1 GCGTGAGTAGT
17712945 ACATATGGAG
Statistics
Matches: 358, Mismatches: 109, Indels: 46
0.70 0.21 0.09
Matches are distributed among these distances:
19 1 0.00
20 3 0.01
21 28 0.08
22 8 0.02
23 299 0.84
24 19 0.05
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.34
Consensus pattern (23 bp):
GCGTGAGTAGTTATTATGGAGTC
Found at i:17712553 original size:69 final size:68
Alignment explanation
Indices: 17712454--17712990 Score: 376
Period size: 69 Copynumber: 7.9 Consensus size: 68
17712444 GATATTGAGT
* * * *
17712454 CGCGTGAGTAGTAACTATTGAGTGGTGTGACTAGTTATTATAGAATTGCATGACTAGGTATTATA
1 CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCATGACTA-GTATTATA
17712519 AAAG
65 AAAG
* * * *
17712523 CGCGTAAGTAGTAAATATGGAGTCGCGTGACTAGTTATTATGG-ATT-CACGTGAGTAGT-TGAT
1 CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCA--TGACTAGTATTAT
**
17712585 ATTGAG
64 A-AAAG
* * * *
17712591 TCGCGTGAGTAGTATATATGGAGTGGCGTTACTAGTTATTATGGAATCGCGTGACTAGTTATTAT
1 -CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCATGACTAG-TATTAT
17712656 AAAAG
64 AAAAG
* * * * * * * ** * *
17712661 TGTGTGAGCAGTAAATATGGAGTCGAGTAACTAGTTATTATGGAATCGTGTGAGTAGT-TGATAT
1 CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCATGACTAGTATTATA-
**
17712725 TGAG
65 AAAG
* * * * ** *
17712729 TCGCGTGAGTAGTATATATGGAGTGGTGTTACTAGCTATTATAAAATCGCATGACTAGTTATTAT
1 -CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCATGACTAG-TATTAT
17712794 AAAAG
64 AAAAG
** * * *
17712799 CGC--GAGTAGTAAATATGGAGCCGTGTGACTAGTTATTAT-GAAAT-CATGTGACTAGT-TGAT
1 CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCA--TGACTAGTATTAT
**
17712859 ATTGAG
64 A-AAAG
* * * * *
17712865 TCGC--GAGTAGTATATATGGAGTGGCGTTAGTAGTTATTATGGAATTGCATGAGTATTTATTAT
1 -CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCATGACTA-GTATTAT
*
17712928 AAAAT
64 AAAAG
* * * ** * * *
17712933 CGCGTGAGTAGTACATATGGAGTTGTGCAACTGGTTATTATGGAATCGCATGATTAGT
1 CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCATGACTAGT
17712991 TGATATTAAG
Statistics
Matches: 364, Mismatches: 82, Indels: 45
0.74 0.17 0.09
Matches are distributed among these distances:
65 6 0.02
66 5 0.01
67 89 0.24
68 17 0.05
69 230 0.63
70 8 0.02
71 9 0.02
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (68 bp):
CGCGTGAGTAGTAAATATGGAGTGGCGTGACTAGTTATTATGGAATTGCATGACTAGTATTATAA
AAG
Found at i:17712579 original size:46 final size:46
Alignment explanation
Indices: 17712432--17712996 Score: 234
Period size: 46 Copynumber: 12.4 Consensus size: 46
17712422 ATTTAGAATA
* * * * * * *
17712432 GCGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTAACTATTGAGTG
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTATGGAGTC
* * * * * * * * **
17712478 GTGTGACTAGTTATTATAGAATTGCATGACTAGGTATTATAAAAG-C
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTAT-GGAGTC
* * *
17712524 GCGTAAGTAGTAAATATGGAGTCGCGTGACTAGTTATTATGGATTC
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTATGGAGTC
* * * * *
17712570 ACGTGAGTAGTTGATATTGAGTCGCGTGAGTAG-TATATATGGAGTG
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTAT-TATGGAGTC
* * * * **
17712616 GCGTTACTAGTTATTATGGAATCGCGTGACTAGTTATTATAAAAGT-
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTAT-GGAGTC
* * * * * *
17712662 GTGTGAGCAGTAAATATGGAGTCGAGTAACTAGTTATTATGGAATC
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTATGGAGTC
* * * * *
17712708 GTGTGAGTAGTTGATATTGAGTCGCGTGAGTAG-TATATATGGAGTG
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTAT-TATGGAGTC
* * * * * ** * * **
17712754 GTGTTACTAGCTATTATAAAATCGCATGACTAGTTATTATAAAAG-C
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTAT-GGAGTC
* * * * *
17712800 GC--GAGTAGTAAATATGGAGCCGTGTGACTAGTTATTATGAAATC
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTATGGAGTC
** * * * * *
17712844 ATGTGACTAGTTGATATTGAGTCGC--GAGTAG-TATATATGGAGTG
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTAT-TATGGAGTC
* * * * * * * ** *
17712888 GCGTTAGTAGTTATTATGGAATTGCATGAGTATTTATTATAAAATC
1 GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTATGGAGTC
* * ** * *
17712934 GCGTGAGTAG-TACATATGGAGTTGTGCAACTGGTTATTATGGAATC
1 GCGTGAGTAGTTA-ATATGGAGTCGCGTGACTAGTTATTATGGAGTC
* * *
17712980 GCATGATTAGTTGATAT
1 GCGTGAGTAGTTAATAT
17712997 TAAGTCACAG
Statistics
Matches: 366, Mismatches: 135, Indels: 36
0.68 0.25 0.07
Matches are distributed among these distances:
43 5 0.01
44 53 0.14
45 11 0.03
46 280 0.77
47 17 0.05
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (46 bp):
GCGTGAGTAGTTAATATGGAGTCGCGTGACTAGTTATTATGGAGTC
Found at i:17712681 original size:138 final size:137
Alignment explanation
Indices: 17712433--17713060 Score: 762
Period size: 138 Copynumber: 4.6 Consensus size: 137
17712423 TTTAGAATAG
* * * *
17712433 CGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTA-ACTATTGAGTGGTGTGACTAGTTATTATAG
1 CGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTATA-TATGGAGTGGCGTTACTAGTTATTATGG
* * * * *
17712497 AATTGCATGACTAGGTATTATAAAAGCGCGTAAGTAGTAAATATGGAGTCGCGTGACTAGTTATT
65 AATTGCATGACTAGTTATTATAAAA-TGCGTGAGTAGTAAATATGGAGTCGTGTAACTAGTTATT
*
17712562 ATGGATTCA
129 ATGGAATCA
17712571 CGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGCGTTACTAGTTATTATGGA
1 CGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGCGTTACTAGTTATTATGGA
* * * * *
17712636 ATCGCGTGACTAGTTATTATAAAAGTGTGTGAGCAGTAAATATGGAGTCGAGTAACTAGTTATTA
66 ATTGCATGACTAGTTATTATAAAA-TGCGTGAGTAGTAAATATGGAGTCGTGTAACTAGTTATTA
*
17712701 TGGAATCG
130 TGGAATCA
* * * **
17712709 TGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGTGTTACTAGCTATTATAAA
1 CGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGCGTTACTAGTTATTATGGA
* * * *
17712774 ATCGCATGACTAGTTATTATAAAA-GCGCGAGTAGTAAATATGGAGCCGTGTGACTAGTTATTAT
66 ATTGCATGACTAGTTATTATAAAATGCGTGAGTAGTAAATATGGAGTCGTGTAACTAGTTATTAT
*
17712838 GAAATCA
131 GGAATCA
* * *
17712845 TGTGACTAGTTGATATTGAGTCGC--GAGTAGTATATATGGAGTGGCGTTAGTAGTTATTATGGA
1 CGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGCGTTACTAGTTATTATGGA
* * * * * *
17712908 ATTGCATGAGTATTTATTATAAAATCGCGTGAGTAGTACATATGGAGTTGTGCAACTGGTTATTA
66 ATTGCATGACTAGTTATTATAAAAT-GCGTGAGTAGTAAATATGGAGTCGTGTAACTAGTTATTA
*
17712973 TGGAATCG
130 TGGAATCA
* * * * * * * * *
17712981 CATGATTAGTTGATATTAAGTCACAG-GAATAGTATATATAGAGTGGCATTACCACTTATTATGG
1 CGTGAGTAGTTGATATTGAGTCGC-GTGAGTAGTATATATGGAGTGGCGTTACTAGTTATTATGG
*
17713045 AATTGCGTGACTAGTT
65 AATTGCATGACTAGTT
17713061 GATATGGAAT
Statistics
Matches: 424, Mismatches: 61, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
134 55 0.13
136 119 0.28
138 249 0.59
139 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (137 bp):
CGTGAGTAGTTGATATTGAGTCGCGTGAGTAGTATATATGGAGTGGCGTTACTAGTTATTATGGA
ATTGCATGACTAGTTATTATAAAATGCGTGAGTAGTAAATATGGAGTCGTGTAACTAGTTATTAT
GGAATCA
Found at i:17713070 original size:23 final size:23
Alignment explanation
Indices: 17713040--17713102 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
17713030 TACCACTTAT
17713040 TATGGAATTGCGTGACTAGTTGA
1 TATGGAATTGCGTGACTAGTTGA
* * **
17713063 TATGGAATCGCATGACTTTTTGA
1 TATGGAATTGCGTGACTAGTTGA
*
17713086 TATGGGATTGCGTGACT
1 TATGGAATTGCGTGACT
17713103 CACTTATTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (23 bp):
TATGGAATTGCGTGACTAGTTGA
Found at i:17722171 original size:22 final size:22
Alignment explanation
Indices: 17722124--17722165 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17722114 CTAGCCCAAT
*
17722124 GTCACGCAATACATAACAACAG
1 GTCACGCAATACATAAAAACAG
*
17722146 GTCACGGAATACATAAAAAC
1 GTCACGCAATACATAAAAAC
17722166 CAGTCATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (22 bp):
GTCACGCAATACATAAAAACAG
Found at i:17722325 original size:68 final size:67
Alignment explanation
Indices: 17722216--17722344 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 67
17722206 AAACAAGATA
* ** *
17722216 TGAATTACACAAGTCACGCACCACCAGTCTCGTAATACCTAATAATAAGTCACTCGATGTGNCCG
1 TGAATTACACAAGTCACGCACCACCACTCTCACAATACCTAATAATAAGTCACTCAATGTG-CCG
17722281 AGG
65 AGG
* * *
17722284 TGAATTACACAAGTCACGTAGCACCACTCTCACAATACCTAATAATAAGTTACTCAATGTG
1 TGAATTACACAAGTCACGCACCACCACTCTCACAATACCTAATAATAAGTCACTCAATGTG
17722345 TAATATCCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (67 bp):
TGAATTACACAAGTCACGCACCACCACTCTCACAATACCTAATAATAAGTCACTCAATGTGCCGA
GG
Found at i:17722785 original size:205 final size:205
Alignment explanation
Indices: 17722427--17723049 Score: 829
Period size: 205 Copynumber: 3.0 Consensus size: 205
17722417 GTCACGCAAT
*
17722427 GCAATGCCTACAAACTAGTGAACAAAAGCCTCAAAACAAGAATAAATTGCACAGGTCAATCAGCA
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAATAAATTGCACAGGTCAATCAGCA
** *
17722492 CAGGTAGTTTCGCTATACCTAATAATAAGTCACTCGATGTGTAATATTCACTCACATTATGCCAA
66 CAGGTAGTTTCGCTATACCTAATAATAAGTCACTCGATGCCTAATATCCACTCACATTATGCCAA
*
17722557 CATAACCAGTCATGTACTGGCCCAATCTCACGCAATACATAACAACAGGTCACGTAATACATAAA
131 CATAACCAGTCACGTACTGGCCCAATCTCACGCAATACATAACAACAGGTCACGTAATACATAAA
** *
17722622 AATTAGTCTC
196 AACCAGTCAC
17722632 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAATAAATTGCACAGGTCAATCAGCA
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAATAAATTGCACAGGTCAATCAGCA
17722697 CAGGTAGTTTCGCTATACCTAATAATAAGTCACTCGATGCCTAATATCCACTCACATTATGCCAA
66 CAGGTAGTTTCGCTATACCTAATAATAAGTCACTCGATGCCTAATATCCACTCACATTATGCCAA
* * * * *
17722762 CATAACCAATCACGTAATGGCCCAATGTCACGCAATACATAACAATAGGTCACGTAATATATAAA
131 CATAACCAGTCACGTACTGGCCCAATCTCACGCAATACATAACAACAGGTCACGTAATACATAAA
17722827 AACCAGTCAC
196 AACCAGTCAC
* * ** * * * * * * *
17722837 GTAATACCTTTAAACTAGTGAATAAAAGCCTTAAAACAATAAATGAATTACACAAGTCAGTCACG
1 GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAA-GAATAAATTGCACAGGTCAATCA-G
** * * * * *
17722902 CACCA-CCAGTCTCGCAATACCTAATAATAAGTCACTCGATACCTAATATCCAATCACGTTATGC
64 CA-CAGGTAGTTTCGCTATACCTAATAATAAGTCACTCGATGCCTAATATCCACTCACATTATGC
* * * ** * *
17722966 TAACATTACCAGTCACATACTGGCCCAA-CGTCACATAATACATAACAACAAGTCAC-CATATAC
128 CAACATAACCAGTCACGTACTGGCCCAATC-TCACGCAATACATAACAACAGGTCACGTA-ATAC
*
17723029 ATACAAACCAGTCAC
191 ATAAAAACCAGTCAC
17723044 GCAATG
1 GCAATG
17723050 TCTCAATAGA
Statistics
Matches: 367, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
205 225 0.61
206 19 0.05
207 121 0.33
208 2 0.01
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.22
Consensus pattern (205 bp):
GCAATGCCTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAATAAATTGCACAGGTCAATCAGCA
CAGGTAGTTTCGCTATACCTAATAATAAGTCACTCGATGCCTAATATCCACTCACATTATGCCAA
CATAACCAGTCACGTACTGGCCCAATCTCACGCAATACATAACAACAGGTCACGTAATACATAAA
AACCAGTCAC
Found at i:17724588 original size:26 final size:26
Alignment explanation
Indices: 17724548--17724598 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
17724538 CTACATACAA
17724548 CTCACGTAATACTCAACAAATATTCG
1 CTCACGTAATACTCAACAAATATTCG
*
17724574 CTCACGTAATGCTCAACAAATATTC
1 CTCACGTAATACTCAACAAATATTC
17724599 AGTCATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (26 bp):
CTCACGTAATACTCAACAAATATTCG
Found at i:17724684 original size:20 final size:20
Alignment explanation
Indices: 17724647--17724685 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17724637 AGTTACAATT
* *
17724647 CCTAATATCCAGTTACACAC
1 CCTAATATCCAATGACACAC
*
17724667 CCTAATATCTAATGACACA
1 CCTAATATCCAATGACACA
17724686 ATGCCTAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (20 bp):
CCTAATATCCAATGACACAC
Found at i:17724973 original size:37 final size:38
Alignment explanation
Indices: 17724888--17724990 Score: 145
Period size: 37 Copynumber: 2.7 Consensus size: 38
17724878 AGCAATGTAG
* **
17724888 ACCTCGATGACGTTGGAGAGCTAGACGGTGAGATATAT
1 ACCTCGATGGCGTTGGAGAGCTAGACGACGAGATATAT
17724926 ACCTCGATGGCGTTGGAGAGCTAGACGACGA-ATATAT
1 ACCTCGATGGCGTTGGAGAGCTAGACGACGAGATATAT
* * *
17724963 ACCTCAATGGCGTTAGAGAGCTGGACGA
1 ACCTCGATGGCGTTGGAGAGCTAGACGA
17724991 AGGGATAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 31 0.53
38 28 0.47
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.21
Consensus pattern (38 bp):
ACCTCGATGGCGTTGGAGAGCTAGACGACGAGATATAT
Found at i:17728945 original size:26 final size:29
Alignment explanation
Indices: 17728909--17728962 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
17728899 ATATAGATGA
17728909 AAAATCATCAA-TATTTAATTTT-ATAAG
1 AAAATCATCAATTATTTAATTTTGATAAG
*
17728936 AAAAT-ATCAATTATTTTATTTTGATAA
1 AAAATCATCAATTATTTAATTTTGATAA
17728963 TTAAGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 15 0.62
28 4 0.17
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (29 bp):
AAAATCATCAATTATTTAATTTTGATAAG
Found at i:17735007 original size:20 final size:20
Alignment explanation
Indices: 17734964--17735009 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
17734954 CTTCTAAACT
* *
17734964 TCAAATCATACTTCAATTAC
1 TCAAATCATACTCCAATAAC
*
17734984 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAC
17735004 TCAAAT
1 TCAAAT
17735010 GGGGCCAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAC
Found at i:17736888 original size:13 final size:13
Alignment explanation
Indices: 17736870--17736894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17736860 TTCCAGAAAA
17736870 TTTATAAAATCAT
1 TTTATAAAATCAT
17736883 TTTATAAAATCA
1 TTTATAAAATCA
17736895 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:17740449 original size:15 final size:16
Alignment explanation
Indices: 17740429--17740458 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17740419 TTCTTAAAAC
17740429 AACTTTAAAA-CCAAA
1 AACTTTAAAATCCAAA
17740444 AACTTTAAAATCCAA
1 AACTTTAAAATCCAA
17740459 TGCTTTAAAA
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:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (16 bp):
AACTTTAAAATCCAAA
Found at i:17742297 original size:20 final size:20
Alignment explanation
Indices: 17742253--17742299 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
17742243 ACTTCTAAAC
*
17742253 CTCAAATCATACTTCAATTA
1 CTCAAATCATACTTCAATAA
17742273 CTCAAATCATACTTCAATAA
1 CTCAAATCATACTTCAATAA
*
17742293 GTCAAAT
1 CTCAAAT
17742300 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (20 bp):
CTCAAATCATACTTCAATAA
Found at i:17748168 original size:19 final size:19
Alignment explanation
Indices: 17748144--17748183 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17748134 TAATAAATAA
17748144 AAAATTAAAAAAAATATAT
1 AAAATTAAAAAAAATATAT
** *
17748163 AAAATTTTAAAATATATAT
1 AAAATTAAAAAAAATATAT
17748182 AA
1 AA
17748184 TAAATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTAAAAAAAATATAT
Found at i:17749513 original size:31 final size:31
Alignment explanation
Indices: 17749478--17749582 Score: 156
Period size: 31 Copynumber: 3.4 Consensus size: 31
17749468 TAGTGTTGGT
**
17749478 GTGTTACAACATTTTATGTTATATGCATGGC
1 GTGTTACAACATTTTACATTATATGCATGGC
* * *
17749509 GTGTTACAATATTTTACCTTATATACATGGC
1 GTGTTACAACATTTTACATTATATGCATGGC
*
17749540 GTGTTACAACATTTTACATTATATGCATGGT
1 GTGTTACAACATTTTACATTATATGCATGGC
17749571 GTGTTACAACAT
1 GTGTTACAACAT
17749583 GACTGACAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (31 bp):
GTGTTACAACATTTTACATTATATGCATGGC
Found at i:17753641 original size:31 final size:31
Alignment explanation
Indices: 17753582--17753658 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
17753572 CACACCCCAA
* *
17753582 TTGTGGTGACACGTTGAGTGGAACCAGATAC
1 TTGTGGTGACACGCTGAGTGCAACCAGATAC
** **
17753613 TTG-GAGTGACACGCTGAGTGCATGCAGATTT
1 TTGTG-GTGACACGCTGAGTGCAACCAGATAC
17753644 TTGTGGTGACACGCT
1 TTGTGGTGACACGCT
17753659 AACTTCTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (31 bp):
TTGTGGTGACACGCTGAGTGCAACCAGATAC
Found at i:17753759 original size:118 final size:117
Alignment explanation
Indices: 17753462--17753983 Score: 647
Period size: 118 Copynumber: 4.4 Consensus size: 117
17753452 ATGTCAATGA
* * *
17753462 CATCTTGTGGTGACAC-ACTGAGTGGAAGCAGATAGTTCGCGTGACGCG-TGAGTGCATGCAGAT
1 CATCTTGTGGTGACACGA-TGAGTGGAA-CAGATACTTGGCGTGACACGCTGAGTGCATGCAGAT
* * * *
17753525 TTTTGTGGTGACACACTGACTTTTTGCAGTATTGTGGGGTGACACAGCACACCC
64 TTTTGTGGTGACACGCTGACTTCTTACAGTATTGTGGGGTGACACAACACACCC
* * *
17753579 CA-ATTGTGGTGACACGTTGAGTGGAACCAGATACTTGGAGTGACACGCTGAGTGCATGCAGATT
1 CATCTTGTGGTGACACGATGAGTGGAA-CAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * * ** *
17753643 TTTGTGGTGACACGCTAACTTCTTATAGTATTGTGAGGTGACACGGCACGCCC
65 TTTGTGGTGACACGCTGACTTCTTACAGTATTGTGGGGTGACACAACACACCC
* *
17753696 CATCTTGTGGTGACATGATGAATGGAACTAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
1 CATCTTGTGGTGACACGATGAGTGGAAC-AGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * * *
17753761 TCTGTGGTGACACGCTGACTTATTGCAGTATTGTGGGGTGACATAACACACCC
65 TTTGTGGTGACACGCTGACTTCTTACAGTATTGTGGGGTGACACAACACACCC
* * * * *
17753814 CATCTTGTGGTGACACGTTGAGTGAAAGCAGATACTTGGTGTGACACACTGAGTGCATGCAAATT
1 CATCTTGTGGTGACACGATGAGTGGAA-CAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * *
17753879 TTTGTGGTGACATGCTGACTTCTTATAGTATTGTGGGGTGACACGACA-AGCCC
65 TTTGTGGTGACACGCTGACTTCTTACAGTATTGTGGGGTGACACAACACA-CCC
* * * *
17753932 CATCTTGTGGTGACACGCTGAGTGGAACCAAATACTTGACATGACACGCTGA
1 CATCTTGTGGTGACACGATGAGTGGAA-CAGATACTTGGCGTGACACGCTGA
17753984 CTTGTTCTAG
Statistics
Matches: 347, Mismatches: 52, Indels: 11
0.85 0.13 0.03
Matches are distributed among these distances:
116 37 0.11
117 67 0.19
118 242 0.70
119 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (117 bp):
CATCTTGTGGTGACACGATGAGTGGAACAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTT
TTGTGGTGACACGCTGACTTCTTACAGTATTGTGGGGTGACACAACACACCC
Found at i:17753889 original size:236 final size:233
Alignment explanation
Indices: 17753462--17753983 Score: 749
Period size: 236 Copynumber: 2.2 Consensus size: 233
17753452 ATGTCAATGA
* * * *
17753462 CATCTTGTGGTGACACACTGAGTGGAAGCAGATAGTTCGCGTGACGCG-TGAGTGCATGCAGATT
1 CATCTTGTGGTGACAGA-TGAGTGGAA-CAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * *
17753526 TTTGTGGTGACACACTGACTTTTTGCAGTATTGTGGGGTGACACAGCACACCCCAATTGTGGTGA
64 TCTGTGGTGACACACTGACTTATTGCAGTATTGTGGGGTGACACAACACACCCCAATTGTGGTGA
* * *
17753591 CACGTTGAGTGGAACCAGATACTTGGAGTGACACGCTGAGTGCATGCAGATTTTTGTGGTGACAC
129 CACGTTGAGTGAAACCAGATACTTGGAGTGACACACTGAGTGCATGCAAATTTTTGTGGTGACAC
* *
17753656 GCTAACTTCTTATAGTATTGTGAGGTGACACGGCACGCCC
194 GCTAACTTCTTATAGTATTGTGAGGTGACACGACAAGCCC
*
17753696 CATCTTGTGGTGACATGATGAATGGAACTAGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
1 CATCTTGTGGTGACA-GATGAGTGGAAC-AGATACTTGGCGTGACACGCTGAGTGCATGCAGATT
* * *
17753761 TCTGTGGTGACACGCTGACTTATTGCAGTATTGTGGGGTGACATAACACACCCCATCTTGTGGTG
64 TCTGTGGTGACACACTGACTTATTGCAGTATTGTGGGGTGACACAACACACCCCA-ATTGTGGTG
* *
17753826 ACACGTTGAGTGAAAGCAGATACTTGGTGTGACACACTGAGTGCATGCAAATTTTTGTGGTGACA
128 ACACGTTGAGTGAAACCAGATACTTGGAGTGACACACTGAGTGCATGCAAATTTTTGTGGTGACA
* * *
17753891 TGCTGACTTCTTATAGTATTGTGGGGTGACACGACAAGCCC
193 CGCTAACTTCTTATAGTATTGTGAGGTGACACGACAAGCCC
* * * *
17753932 CATCTTGTGGTGACACGCTGAGTGGAACCAAATACTTGACATGACACGCTGA
1 CATCTTGTGGTGACA-GATGAGTGGAA-CAGATACTTGGCGTGACACGCTGA
17753984 CTTGTTCTAG
Statistics
Matches: 256, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
233 1 0.00
234 39 0.15
235 67 0.26
236 148 0.58
237 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (233 bp):
CATCTTGTGGTGACAGATGAGTGGAACAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTC
TGTGGTGACACACTGACTTATTGCAGTATTGTGGGGTGACACAACACACCCCAATTGTGGTGACA
CGTTGAGTGAAACCAGATACTTGGAGTGACACACTGAGTGCATGCAAATTTTTGTGGTGACACGC
TAACTTCTTATAGTATTGTGAGGTGACACGACAAGCCC
Found at i:17757722 original size:31 final size:31
Alignment explanation
Indices: 17757640--17757840 Score: 212
Period size: 31 Copynumber: 6.5 Consensus size: 31
17757630 GTTAACCCAT
* * *
17757640 AATGTTGTAACACCCCATGCATATAACGCAA
1 AATGTTGTAACACGCCATGCATGTAACGTAA
* * * *
17757671 AATGTTATAATACACTATGCATGTAACGTAA
1 AATGTTGTAACACGCCATGCATGTAACGTAA
* * *
17757702 AATATTGTAACACGCCATGCATGTAACATCA
1 AATGTTGTAACACGCCATGCATGTAACGTAA
* *
17757733 AATGTTGTAACACGCCATGCA--TAACTTCA
1 AATGTTGTAACACGCCATGCATGTAACGTAA
17757762 AATGTTGTAACACGCCATG--TGTATATCGTAA
1 AATGTTGTAACACGCCATGCATGTA-A-CGTAA
* * *
17757793 AATGTTATAACACGCCATGCATATAATGTAA
1 AATGTTGTAACACGCCATGCATGTAACGTAA
*
17757824 AATGTTGTAACATGCCA
1 AATGTTGTAACACGCCA
17757841 ACACTGACAC
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
29 28 0.20
30 1 0.01
31 109 0.77
32 1 0.01
33 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (31 bp):
AATGTTGTAACACGCCATGCATGTAACGTAA
Found at i:17758589 original size:47 final size:47
Alignment explanation
Indices: 17758536--17758936 Score: 310
Period size: 47 Copynumber: 8.6 Consensus size: 47
17758526 GCAGTTTGAG
* ** * *
17758536 AAACTCTGAATGCCGGCATGTCACAGACTCCCTCAATGGCGTGTCAC
1 AAACTCTGAACGCCACCATGTCACAGATTCCCTCCATGGCGTGTCAC
* * * * *
17758583 AAACTCTGAACACTACCGTATCACATATTCCCTCCATGGCGTGTCAC
1 AAACTCTGAACGCCACCATGTCACAGATTCCCTCCATGGCGTGTCAC
* * * * * * *
17758630 AAACTTTAAAC-CCTACCGTGTAACAGATTTCCTTCATGGCATGTCAC
1 AAACTCTGAACGCC-ACCATGTCACAGATTCCCTCCATGGCGTGTCAC
* **
17758677 AAACTCTGAAC-ACTGCAGTGTCACAGATTCCCT-CATGGCGTGTCAC
1 AAACTCTGAACGCCACCA-TGTCACAGATTCCCTCCATGGCGTGTCAC
* * * * *
17758723 AAACTCTAAAC-CCTGCCATGTCACAAATTCTCTCCATGCCGTGTCAC
1 AAACTCTGAACGCC-ACCATGTCACAGATTCCCTCCATGGCGTGTCAC
* * * *
17758770 AAACTCTGAACGCTAACGTGTCACAGATTCCCTCCATGCCGTGTCAC
1 AAACTCTGAACGCCACCATGTCACAGATTCCCTCCATGGCGTGTCAC
*** * * * * *
17758817 AAACTCTGAACGCTGGCTTATCATAGATTCCTTCCATGGCATGTCAC
1 AAACTCTGAACGCCACCATGTCACAGATTCCCTCCATGGCGTGTCAC
** * * * *
17758864 AAACTCTGAAC-CTTGCCATCTCATAGATTCCCTCCATGGCATATCAC
1 AAACTCTGAACGC-CACCATGTCACAGATTCCCTCCATGGCGTGTCAC
* *
17758911 AAACTCTAAAC-CCTGCCATGTCACAG
1 AAACTCTGAACGCC-ACCATGTCACAG
17758937 TCATGTCACA
Statistics
Matches: 288, Mismatches: 59, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
46 39 0.14
47 248 0.86
48 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (47 bp):
AAACTCTGAACGCCACCATGTCACAGATTCCCTCCATGGCGTGTCAC
Found at i:17758681 original size:94 final size:93
Alignment explanation
Indices: 17758552--17758936 Score: 441
Period size: 94 Copynumber: 4.1 Consensus size: 93
17758542 TGAATGCCGG
* * * * *
17758552 CATGTCACAGACTCCCTCAATGGCGTGTCACAAACTCTGAACACTACCGTATCACATATTCCCTC
1 CATGTCACAGATTCCTTC-ATGGCATGTCACAAACTCTGAACACTACCGTGTCACAGATTCCCTC
* *
17758617 CATGGCGTGTCACAAACTTTAAACCCTAC
65 CATGGCGTGTCACAAACTCTAAACCCTGC
* * * *
17758646 CGTGTAACAGATTTCCTTCATGGCATGTCACAAACTCTGAACACTGCAGTGTCACAGATTCCCT-
1 CATGTCACAGA-TTCCTTCATGGCATGTCACAAACTCTGAACACTACCGTGTCACAGATTCCCTC
17758710 CATGGCGTGTCACAAACTCTAAACCCTGC
65 CATGGCGTGTCACAAACTCTAAACCCTGC
* * * * * *
17758739 CATGTCACAAATTCTCTCCATGCCGTGTCACAAACTCTGAACGCTAACGTGTCACAGATTCCCTC
1 CATGTCACAGATTC-CTTCATGGCATGTCACAAACTCTGAACACTACCGTGTCACAGATTCCCTC
* * * *
17758804 CATGCCGTGTCACAAACTCTGAACGCTGG
65 CATGGCGTGTCACAAACTCTAAACCCTGC
* * * * * * *
17758833 CTTATCATAGATTCCTTCCATGGCATGTCACAAACTCTGAAC-CTTGCCATCTCATAGATTCCCT
1 CATGTCACAGATTCCTT-CATGGCATGTCACAAACTCTGAACAC-TACCGTGTCACAGATTCCCT
* *
17758897 CCATGGCATATCACAAACTCTAAACCCTGC
64 CCATGGCGTGTCACAAACTCTAAACCCTGC
17758927 CATGTCACAG
1 CATGTCACAG
17758937 TCATGTCACA
Statistics
Matches: 240, Mismatches: 46, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
92 3 0.01
93 80 0.33
94 152 0.63
95 5 0.02
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (93 bp):
CATGTCACAGATTCCTTCATGGCATGTCACAAACTCTGAACACTACCGTGTCACAGATTCCCTCC
ATGGCGTGTCACAAACTCTAAACCCTGC
Found at i:17758745 original size:24 final size:23
Alignment explanation
Indices: 17758717--17758776 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
17758707 CCTCATGGCG
*
17758717 TGTCACAAACTCTAAACCCTGCCA
1 TGTCACAAACTCT-AACCATGCCA
* ** *
17758741 TGTCACAAATTCTCTCCATGCCG
1 TGTCACAAACTCTAACCATGCCA
17758764 TGTCACAAACTCT
1 TGTCACAAACTCT
17758777 GAACGCTAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 18 0.60
24 12 0.40
ACGTcount: A:0.28, C:0.35, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTCACAAACTCTAACCATGCCA
Found at i:17758767 original size:23 final size:23
Alignment explanation
Indices: 17758694--17758819 Score: 78
Period size: 24 Copynumber: 5.4 Consensus size: 23
17758684 GAACACTGCA
* * *
17758694 GTGTCACAGATTCCCT-CATGGC
1 GTGTCACAAATTCTCTCCATGCC
* ** *
17758716 GTGTCACAAACTCTAAACCCTGCC
1 GTGTCACAAATTCT-CTCCATGCC
*
17758740 ATGTCACAAATTCTCTCCATGCC
1 GTGTCACAAATTCTCTCCATGCC
** *
17758763 GTGTCACAAA--CTCTGAACGCTAAC
1 GTGTCACAAATTCTCTCCATGC---C
* *
17758787 GTGTCACAGATTCCCTCCATGCC
1 GTGTCACAAATTCTCTCCATGCC
17758810 GTGTCACAAA
1 GTGTCACAAA
17758820 CTCTGAACGC
Statistics
Matches: 75, Mismatches: 22, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
21 7 0.09
22 11 0.15
23 25 0.33
24 26 0.35
26 6 0.08
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (23 bp):
GTGTCACAAATTCTCTCCATGCC
Found at i:17758857 original size:187 final size:188
Alignment explanation
Indices: 17758552--17758935 Score: 506
Period size: 187 Copynumber: 2.0 Consensus size: 188
17758542 TGAATGCCGG
* * * *
17758552 CATGTCACAGACTCCCTCAATGGCGTGTCACAAACTCTGAACACTACCGTATCACATATTCCCTC
1 CATGTCACAAACTCCCTCAATGCCGTGTCACAAACTCTGAACACTAACGTATCACAGATTCCCTC
* * *
17758617 CATGGCGTGTCACAAACTTTAAACCCTACCGTGTAACAGATTTCCTTCATGGCATGTCACAAACT
66 CATGCCGTGTCACAAACTCTAAACCCTACCGTATAACAGATTTCCTTCATGGCATGTCACAAACT
* * *
17758682 CTGAACAC-TG-CAGTGTCACAGATTCCCT-CATGGCGTGTCACAAACTCTAAACCCTGC
131 CTGAAC-CTTGCCA-TCTCACAGATTCCCTCCATGGCATATCACAAACTCTAAACCCTGC
* * * * *
17758739 CATGTCACAAATTCTCTCCATGCCGTGTCACAAACTCTGAACGCTAACGTGTCACAGATTCCCTC
1 CATGTCACAAACTCCCTCAATGCCGTGTCACAAACTCTGAACACTAACGTATCACAGATTCCCTC
* * ** * * *
17758804 CATGCCGTGTCACAAACTCTGAACGCTGGCTTATCATAGA-TTCCTTCCATGGCATGTCACAAAC
66 CATGCCGTGTCACAAACTCTAAACCCTACCGTATAACAGATTTCCTT-CATGGCATGTCACAAAC
*
17758868 TCTGAACCTTGCCATCTCATAGATTCCCTCCATGGCATATCACAAACTCTAAACCCTGC
130 TCTGAACCTTGCCATCTCACAGATTCCCTCCATGGCATATCACAAACTCTAAACCCTGC
17758927 CATGTCACA
1 CATGTCACA
17758936 GTCATGTCAC
Statistics
Matches: 170, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
186 7 0.04
187 125 0.74
188 38 0.22
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (188 bp):
CATGTCACAAACTCCCTCAATGCCGTGTCACAAACTCTGAACACTAACGTATCACAGATTCCCTC
CATGCCGTGTCACAAACTCTAAACCCTACCGTATAACAGATTTCCTTCATGGCATGTCACAAACT
CTGAACCTTGCCATCTCACAGATTCCCTCCATGGCATATCACAAACTCTAAACCCTGC
Found at i:17759108 original size:25 final size:25
Alignment explanation
Indices: 17759080--17759160 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 25
17759070 ATATTTCTCC
17759080 TTTCGATTCATCACTGTATCAGGGA
1 TTTCGATTCATCACTGTATCAGGGA
* * * *
17759105 TTTCTAGTTTCA-CATCAT-TCTCTA-AGC
1 TTTC--GATTCATCA-C-TGTATC-AGGGA
17759132 TTTCGATTCATCACTGTATCAGGGA
1 TTTCGATTCATCACTGTATCAGGGA
17759157 TTTC
1 TTTC
17759161 TAGTTTCACA
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
24 2 0.05
25 18 0.45
26 4 0.10
27 14 0.35
28 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (25 bp):
TTTCGATTCATCACTGTATCAGGGA
Found at i:17759116 original size:27 final size:27
Alignment explanation
Indices: 17759086--17759168 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
17759076 CTCCTTTCGA
17759086 TTCATCACTGTATCAGGGATTTCTAGT
1 TTCATCACTGTATCAGGGATTTCTAGT
* * * *
17759113 TTCA-CATCAT-TCTCTA-AGCTTTC--GA
1 TTCATCA-C-TGTATC-AGGGATTTCTAGT
17759138 TTCATCACTGTATCAGGGATTTCTAGT
1 TTCATCACTGTATCAGGGATTTCTAGT
17759165 TTCA
1 TTCA
17759169 CATCATTCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
24 2 0.05
25 14 0.35
26 4 0.10
27 18 0.45
28 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (27 bp):
TTCATCACTGTATCAGGGATTTCTAGT
Found at i:17759142 original size:52 final size:52
Alignment explanation
Indices: 17759079--17759197 Score: 238
Period size: 52 Copynumber: 2.3 Consensus size: 52
17759069 CATATTTCTC
17759079 CTTTCGATTCATCACTGTATCAGGGATTTCTAGTTTCACATCATTCTCTAAG
1 CTTTCGATTCATCACTGTATCAGGGATTTCTAGTTTCACATCATTCTCTAAG
17759131 CTTTCGATTCATCACTGTATCAGGGATTTCTAGTTTCACATCATTCTCTAAG
1 CTTTCGATTCATCACTGTATCAGGGATTTCTAGTTTCACATCATTCTCTAAG
17759183 CTTTCGATTCATCAC
1 CTTTCGATTCATCAC
17759198 GACCGGTTCC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (52 bp):
CTTTCGATTCATCACTGTATCAGGGATTTCTAGTTTCACATCATTCTCTAAG
Found at i:17773409 original size:30 final size:33
Alignment explanation
Indices: 17773373--17773451 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 33
17773363 AAGTTTGATG
17773373 AATATTAATATTTAAC-TTAAAAT-ATTAA-AA
1 AATATTAATATTTAACTTTAAAATAATTAATAA
*
17773403 AATATTAATATTTAACTTTGAAATAATTAATTTAA
1 AATATTAATATTTAACTTTAAAATAATTAA--TAA
17773438 AATA-TAATATTTAA
1 AATATTAATATTTAA
17773452 ATTATATAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
30 16 0.37
31 6 0.14
32 5 0.12
34 10 0.23
35 6 0.14
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (33 bp):
AATATTAATATTTAACTTTAAAATAATTAATAA
Found at i:17773613 original size:74 final size:74
Alignment explanation
Indices: 17773533--17773673 Score: 228
Period size: 74 Copynumber: 1.9 Consensus size: 74
17773523 ATAAATGGAA
* * *
17773533 TAAATCTTACTAATAGTTATAATAAAAAATATTTCAATGATTATCATTTGATGAATACACATTTA
1 TAAATCTTACTAATACTTATAATAAAAAATATTTCAATAATTATCATTTAATGAATACACATTTA
17773598 TAATAGGTT
66 TAATAGGTT
* * *
17773607 TAAATCTTACTAATACTTATAATAAAAAATATTTCAATAATTGTTATTTAATGAATACATATTTA
1 TAAATCTTACTAATACTTATAATAAAAAATATTTCAATAATTATCATTTAATGAATACACATTTA
17773672 TA
66 TA
17773674 GACACAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (74 bp):
TAAATCTTACTAATACTTATAATAAAAAATATTTCAATAATTATCATTTAATGAATACACATTTA
TAATAGGTT
Found at i:17774386 original size:31 final size:32
Alignment explanation
Indices: 17774348--17774429 Score: 132
Period size: 33 Copynumber: 2.6 Consensus size: 32
17774338 GGTTTTACCA
17774348 ACCACCGGTGAAAGGAGA-GA-ATGAGATCTTG
1 ACCACCGGTGAAAGGAGAGGAGA-GAGATCTTG
17774379 ACCACCGGTGAAAGGAGAGTGAGAGAGATCTTG
1 ACCACCGGTGAAAGGAGAG-GAGAGAGATCTTG
17774412 ACCACCGGTGAAAGGAGA
1 ACCACCGGTGAAAGGAGA
17774430 TCTGGAGATC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
31 18 0.38
33 29 0.60
34 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.34, T:0.13
Consensus pattern (32 bp):
ACCACCGGTGAAAGGAGAGGAGAGAGATCTTG
Found at i:17776450 original size:59 final size:59
Alignment explanation
Indices: 17776358--17776475 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
17776348 AGGTGAGAGA
* *
17776358 ATACCCCGAGTCCCAGCAATATGATGGGCGGATTCGAAAAAATATCCTTTATAAAAGGT
1 ATACCCCGAGTCCCACCAATATGATGGGCGGATTCGAAAAAATATCCTCTATAAAAGGT
17776417 ATACCCCGAGTCCCACCAATATGATGGGCGGATTCGAAAAAATATCCTCTATAAAAGGT
1 ATACCCCGAGTCCCACCAATATGATGGGCGGATTCGAAAAAATATCCTCTATAAAAGGT
17776476 TATTCATCCG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (59 bp):
ATACCCCGAGTCCCACCAATATGATGGGCGGATTCGAAAAAATATCCTCTATAAAAGGT
Found at i:17779099 original size:19 final size:20
Alignment explanation
Indices: 17779058--17779099 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
17779048 GAAAGAGACT
*
17779058 TGAAAAGGAGATGATGAATA
1 TGAAAAGGAGATGATGAAGA
* *
17779078 TGAAACGGAGAT-ATGAGGA
1 TGAAAAGGAGATGATGAAGA
17779097 TGA
1 TGA
17779100 GCTAGAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.45, C:0.02, G:0.33, T:0.19
Consensus pattern (20 bp):
TGAAAAGGAGATGATGAAGA
Found at i:17782921 original size:45 final size:45
Alignment explanation
Indices: 17782857--17782954 Score: 187
Period size: 45 Copynumber: 2.2 Consensus size: 45
17782847 GTGTTAACGG
*
17782857 GGAAGAGGACTTACTCATAAGCAAGCTAGTGGATACTCCTTACGT
1 GGAAGAGGACTTACTCATAAGCAAGCCAGTGGATACTCCTTACGT
17782902 GGAAGAGGACTTACTCATAAGCAAGCCAGTGGATACTCCTTACGT
1 GGAAGAGGACTTACTCATAAGCAAGCCAGTGGATACTCCTTACGT
17782947 GGAAGAGG
1 GGAAGAGG
17782955 CGGAAGAAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (45 bp):
GGAAGAGGACTTACTCATAAGCAAGCCAGTGGATACTCCTTACGT
Found at i:17788223 original size:76 final size:76
Alignment explanation
Indices: 17788097--17788251 Score: 222
Period size: 76 Copynumber: 2.0 Consensus size: 76
17788087 AAAAAAGGAA
* *
17788097 AAAAGGTTTCGTTACCTCAGTTTTCAGGAATTCATTTTTAAAGATACGTTGCCTCAATTTTGAGG
1 AAAAGCTTTCGTTACCTCAGTTTTCAGGAATTCATTTTCAAAGATACGTTGCCTCAATTTTGAGG
17788162 AGTCCATTTTT
66 AGTCCATTTTT
* * * * *
17788173 AAAAGCTTTGGTTACCTCAGTTTTGAGGAGTTCATTTTCAAAG-TCTCGTTGCCTCAGTTTTGAG
1 AAAAGCTTTCGTTACCTCAGTTTTCAGGAATTCATTTTCAAAGAT-ACGTTGCCTCAATTTTGAG
*
17788237 GAGTTCATTTTT
65 GAGTCCATTTTT
17788249 AAA
1 AAA
17788252 GTCTCATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
75 1 0.01
76 69 0.99
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (76 bp):
AAAAGCTTTCGTTACCTCAGTTTTCAGGAATTCATTTTCAAAGATACGTTGCCTCAATTTTGAGG
AGTCCATTTTT
Found at i:17788254 original size:37 final size:38
Alignment explanation
Indices: 17788105--17788256 Score: 175
Period size: 37 Copynumber: 4.1 Consensus size: 38
17788095 AAAAAAGGTT
* *
17788105 TCGTTACCTCAGTTTTCAGGAATTCATTTTTAAAGAT-
1 TCGTTACCTCAGTTTTGAGGAGTTCATTTTTAAAGATC
* * * * * *
17788142 ACGTTGCCTCAATTTTGAGGAGTCCATTTTTAAAAGCTT
1 TCGTTACCTCAGTTTTGAGGAGTTCATTTTT-AAAGATC
* *
17788181 TGGTTACCTCAGTTTTGAGGAGTTCATTTTCAAAG-TC
1 TCGTTACCTCAGTTTTGAGGAGTTCATTTTTAAAGATC
*
17788218 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAG-TC
1 TCGTTACCTCAGTTTTGAGGAGTTCATTTTTAAAGATC
17788255 TC
1 TC
17788257 ATTTTTAAAG
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
37 62 0.65
38 9 0.09
39 25 0.26
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (38 bp):
TCGTTACCTCAGTTTTGAGGAGTTCATTTTTAAAGATC
Found at i:17788258 original size:14 final size:14
Alignment explanation
Indices: 17788241--17788270 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17788231 TTTGAGGAGT
17788241 TCATTTTTAAAGTC
1 TCATTTTTAAAGTC
17788255 TCATTTTTAAAGTC
1 TCATTTTTAAAGTC
17788269 TC
1 TC
17788271 GCTGCCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (14 bp):
TCATTTTTAAAGTC
Found at i:17788285 original size:51 final size:51
Alignment explanation
Indices: 17788204--17788307 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
17788194 TTTGAGGAGT
* *
17788204 TCATTTTCAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC
1 TCATTTTCAAAGTCTCGCTGCCTCAATTTTGAGGAGTTCATTTTTAAAGTC
*
17788255 TCATTTTTAAAGTCTCGCTGCCTCAATTTTGAGGAGTTCATTTTTAAAGTC
1 TCATTTTCAAAGTCTCGCTGCCTCAATTTTGAGGAGTTCATTTTTAAAGTC
17788306 TC
1 TC
17788308 GTTGCCTCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (51 bp):
TCATTTTCAAAGTCTCGCTGCCTCAATTTTGAGGAGTTCATTTTTAAAGTC
Found at i:17788352 original size:38 final size:38
Alignment explanation
Indices: 17788255--17788402 Score: 174
Period size: 38 Copynumber: 3.9 Consensus size: 38
17788245 TTTTAAAGTC
* *
17788255 TCATTTTT-AAAGTCTCGCTGCCTCAATTTTGAGGAGT
1 TCATTTTTAAAAGTCTCGTTGCCTCAACTTTGAGGAGT
*
17788292 TCATTTTT-AAAGTCTCGTTGCCTCAGCTTTGAGGAGT
1 TCATTTTTAAAAGTCTCGTTGCCTCAACTTTGAGGAGT
* * ** * * *
17788329 TTATTTTTAAAAGTCACAATGCCTCAATTTTAAGGAAT
1 TCATTTTTAAAAGTCTCGTTGCCTCAACTTTGAGGAGT
* *
17788367 TCATTTTTAAAAGTTTCGTTGCCTCAGCTTTGAGGA
1 TCATTTTTAAAAGTCTCGTTGCCTCAACTTTGAGGA
17788403 ATCTCATTAA
Statistics
Matches: 91, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
37 41 0.45
38 50 0.55
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (38 bp):
TCATTTTTAAAAGTCTCGTTGCCTCAACTTTGAGGAGT
Found at i:17790389 original size:7 final size:7
Alignment explanation
Indices: 17790353--17790419 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 7
17790343 CAAAAAAAGT
17790353 AAATAAA
1 AAATAAA
*
17790360 CAAATAAT
1 -AAATAAA
*
17790368 AGATAAA
1 AAATAAA
**
17790375 AAGGAAA
1 AAATAAA
17790382 AAATAAAA
1 AAAT-AAA
17790390 AAATAAAA
1 AAAT-AAA
17790398 AAATAAA
1 AAATAAA
17790405 AAATGAAA
1 AAAT-AAA
17790413 ACAATAA
1 A-AATAA
17790420 TAATAATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
7 18 0.38
8 27 0.56
9 3 0.06
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:17790702 original size:15 final size:17
Alignment explanation
Indices: 17790668--17790729 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
17790658 TTGCTTACGA
17790668 AAAAATATAATAATAAT
1 AAAAATATAATAATAAT
17790685 AAAAATATAA-AA-AAT
1 AAAAATATAATAATAAT
*
17790700 AAAAATAGT-ATAATAAA
1 AAAAATA-TAATAATAAT
17790717 AAATAATA-AATAA
1 AAA-AATATAATAA
17790730 ATTTTTGTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 11 0.28
16 5 0.13
17 19 0.49
18 4 0.10
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAAATATAATAATAAT
Found at i:17790706 original size:21 final size:22
Alignment explanation
Indices: 17790676--17790730 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
17790666 GAAAAAATAT
*
17790676 AATAATAATAAAAAT-ATAAAA
1 AATAAAAATAAAAATAATAAAA
**
17790697 AATAAAAAT-AGTATAATAAAA
1 AATAAAAATAAAAATAATAAAA
17790718 AATAATAAATAAA
1 AATAA-AAATAAA
17790731 TTTTTGTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 3 0.11
21 19 0.70
22 4 0.15
23 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAAAAATAAAAATAATAAAA
Found at i:17793623 original size:34 final size:32
Alignment explanation
Indices: 17793576--17793640 Score: 76
Period size: 34 Copynumber: 2.0 Consensus size: 32
17793566 TGGATGTATG
* *
17793576 ATTTTGAGTTATAAAATAAAAAAAATAATTGATT
1 ATTTCGAGATATAAAA-AAAAAAAA-AATTGATT
* *
17793610 ATTTCGAGATATAAGAAAAAAAGAAATTGAT
1 ATTTCGAGATATAAAAAAAAAAAAAATTGAT
17793641 GAATATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 7 0.26
33 7 0.26
34 13 0.48
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (32 bp):
ATTTCGAGATATAAAAAAAAAAAAAATTGATT
Found at i:17797701 original size:20 final size:20
Alignment explanation
Indices: 17797673--17797716 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
17797663 TCTAAACCTA
17797673 AAATCATACTCCAATAAGTC
1 AAATCATACTCCAATAAGTC
*
17797693 AAATTATACTCCAATAAGTC
1 AAATCATACTCCAATAAGTC
17797713 AAAT
1 AAAT
17797717 GGGGTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATCATACTCCAATAAGTC
Found at i:17798218 original size:6 final size:6
Alignment explanation
Indices: 17798207--17798246 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
17798197 TCTTAACATG
17798207 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATG
1 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATG
17798247 AAGAAGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (6 bp):
GATGGA
Found at i:17798699 original size:24 final size:24
Alignment explanation
Indices: 17798636--17798700 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
17798626 GTTTGAAAAG
17798636 AATTTTCAATAGAATTTTCATTGAA
1 AATTTTCAATAGAA-TTTCATTGAA
* * *
17798661 AATTTTTAACAGAATTTCGTT-ATA
1 AATTTTCAATAGAATTTCATTGA-A
*
17798685 AATTTTCAATGGAATT
1 AATTTTCAATAGAATT
17798701 GTTACTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 1 0.03
24 20 0.61
25 12 0.36
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (24 bp):
AATTTTCAATAGAATTTCATTGAA
Found at i:17800416 original size:15 final size:14
Alignment explanation
Indices: 17800385--17800423 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
17800375 TATTTAAATT
17800385 TAAAATATTAA-GTA
1 TAAAATA-TAATGTA
17800399 TAAAACTATAATGTA
1 TAAAA-TATAATGTA
17800414 TAAAATATAA
1 TAAAATATAA
17800424 ATAGTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (14 bp):
TAAAATATAATGTA
Found at i:17800480 original size:16 final size:17
Alignment explanation
Indices: 17800459--17800492 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17800449 TCATATAATG
17800459 GTTAAAT-ATAAAAATA
1 GTTAAATAATAAAAATA
*
17800475 GTTAAATAATATAAATA
1 GTTAAATAATAAAAATA
17800492 G
1 G
17800493 GGAAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (17 bp):
GTTAAATAATAAAAATA
Found at i:17800844 original size:27 final size:27
Alignment explanation
Indices: 17800814--17800897 Score: 110
Period size: 28 Copynumber: 3.3 Consensus size: 27
17800804 GAGAGAATCA
17800814 TTTAAAAATATATAATAAATAAAAAAT
1 TTTAAAAATATATAATAAATAAAAAAT
17800841 TTT-AAAATA-AT-AT---T-AAAAAT
1 TTTAAAAATATATAATAAATAAAAAAT
17800861 TTTAAAATATATATAATAAATAAAAAAT
1 TTTAAAA-ATATATAATAAATAAAAAAT
17800889 TTTAAAAAT
1 TTTAAAAAT
17800898 TTTGAGAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
20 9 0.18
21 4 0.08
22 3 0.06
23 2 0.04
24 4 0.08
25 2 0.04
26 6 0.12
27 6 0.12
28 13 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
TTTAAAAATATATAATAAATAAAAAAT
Found at i:17800849 original size:19 final size:20
Alignment explanation
Indices: 17800827--17800881 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
17800817 AAAAATATAT
17800827 AATAA-ATAAAAAATTTTAA
1 AATAATATAAAAAATTTTAA
*
17800846 AATAATATTAAAAATTTTAA
1 AATAATATAAAAAATTTTAA
*
17800866 AATATATATAATAAAT
1 AATA-ATATAAAAAAT
17800882 AAAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 5 0.16
20 17 0.55
21 9 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAATATAAAAAATTTTAA
Found at i:17801390 original size:17 final size:18
Alignment explanation
Indices: 17801368--17801409 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
17801358 GATAAGTGAA
17801368 AATATTTTA-AATAAAAT
1 AATATTTTATAATAAAAT
17801385 AATATTTTATTAATAAAAT
1 AATATTTTA-TAATAAAAT
17801404 AATATT
1 AATATT
17801410 AAAAATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.39
19 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATATTTTATAATAAAAT
Found at i:17809411 original size:15 final size:14
Alignment explanation
Indices: 17809349--17809445 Score: 60
Period size: 15 Copynumber: 6.9 Consensus size: 14
17809339 ATAATATTAT
17809349 AATTAAAATA-AAA
1 AATTAAAATATAAA
* *
17809362 TA-TATAATATAAA
1 AATTAAAATATAAA
17809375 AATTAAAA-ATTAAA
1 AATTAAAATA-TAAA
*
17809389 TAAATAAAATATAAGA
1 -AATTAAAATATAA-A
* *
17809405 AATTAAAATTTATAT
1 AATTAAAATATA-AA
*
17809420 AA-TATAAGTA-AAA
1 AATTA-AAATATAAA
17809433 AATTAAAATATAA
1 AATTAAAATATAA
17809446 TATATAATAT
Statistics
Matches: 62, Mismatches: 12, Indels: 19
0.67 0.13 0.20
Matches are distributed among these distances:
12 6 0.10
13 13 0.21
14 15 0.24
15 25 0.40
16 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AATTAAAATATAAA
Found at i:17809413 original size:24 final size:24
Alignment explanation
Indices: 17809365--17809464 Score: 78
Period size: 27 Copynumber: 3.9 Consensus size: 24
17809355 AATAAAATAT
*
17809365 ATAATATAAAA-ATTAAAAATT-AA
1 ATAA-ATAAAATATAAAAAATTAAA
*
17809388 ATAAATAAAATATAAGAAATTAAA
1 ATAAATAAAATATAAAAAATTAAA
* *
17809412 ATTTATATAATATAAGTAAAAAATTAAA
1 A--TAAATAAAAT-A-TAAAAAATTAAA
17809440 ATATAATATATAATATAAAAAATTA
1 ATA-AATA-A-AATATAAAAAATTA
17809465 TATCAAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
22 6 0.10
23 12 0.20
24 3 0.05
26 10 0.16
27 14 0.23
28 14 0.23
29 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAATAAAATATAAAAAATTAAA
Found at i:17809423 original size:29 final size:27
Alignment explanation
Indices: 17809349--17809460 Score: 95
Period size: 29 Copynumber: 4.1 Consensus size: 27
17809339 ATAATATTAT
** *
17809349 AATTAAAATAAAAT-ATATAATATAAA
1 AATTAAAATTTAATAATAAAATATAAA
*
17809375 AATTAAAAATTAAATAAATAAAATATAAGA
1 AATT-AAAATTTAAT-AATAAAATATAA-A
*
17809405 AATTAAAATTTATATAATATAAGTA-AAA
1 AATTAAAATTTA-ATAATA-AAATATAAA
* *
17809433 AATTAAAATATAAT-ATATAATATAAA
1 AATTAAAATTTAATAATAAAATATAAA
17809459 AA
1 AA
17809461 ATTATATCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
25 3 0.04
26 12 0.17
27 11 0.15
28 12 0.17
29 23 0.32
30 11 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
AATTAAAATTTAATAATAAAATATAAA
Found at i:17809467 original size:24 final size:24
Alignment explanation
Indices: 17809327--17809467 Score: 67
Period size: 23 Copynumber: 5.5 Consensus size: 24
17809317 ATTATCTTAT
*
17809327 TAAAAATATTTTATAATATTATAAT-
1 TAAAAA-ATTATATAATA-TATAATA
* *
17809352 TAAAATAAAATATATAATATA-AAAA
1 T-AAA-AAATTATATAATATATAATA
* * *
17809377 TTAAAAATTAAATAA-ATAAAATA
1 TAAAAAATTATATAATATATAATA
*
17809400 TAAGAAATTA-A-AATTTATATAATATAA
1 TAAAAAATTATATAA--TATAT-A-AT-A
17809427 GTAAAAAATTAAAATATAATATATAATA
1 -TAAAAAATT---ATATAATATATAATA
17809455 TAAAAAATTATAT
1 TAAAAAATTATAT
17809468 CAAAAAACTA
Statistics
Matches: 89, Mismatches: 11, Indels: 33
0.67 0.08 0.25
Matches are distributed among these distances:
21 2 0.02
22 4 0.04
23 20 0.22
24 11 0.12
25 5 0.06
26 14 0.16
27 12 0.13
28 9 0.10
29 2 0.02
30 1 0.01
31 6 0.07
32 1 0.01
33 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (24 bp):
TAAAAAATTATATAATATATAATA
Found at i:17809490 original size:34 final size:33
Alignment explanation
Indices: 17809437--17809523 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 33
17809427 GTAAAAAATT
* *
17809437 AAAATATAATATATAATATAAAAAATTAT-ATCAA
1 AAAATA-AAAATAAAATATAAAAAATTATAAT-AA
* *
17809471 AAAACTAAAAATAAAATATATAAGATTATAATAA
1 AAAA-TAAAAATAAAATATAAAAAATTATAATAA
*
17809505 GAAATAAAAATAAAATATA
1 AAAATAAAAATAAAATATA
17809524 TGATATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 15 0.33
34 27 0.59
35 4 0.09
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (33 bp):
AAAATAAAAATAAAATATAAAAAATTATAATAA
Found at i:17809523 original size:74 final size:76
Alignment explanation
Indices: 17809338--17809540 Score: 204
Period size: 74 Copynumber: 2.7 Consensus size: 76
17809328 AAAAATATTT
* * *
17809338 TATAATATTATAATTAAAATAAAATATATAATATA-AAAATTAAAAATTAAATAAATAAAATATA
1 TATAA-ATTATAATAAAAATAAAA-ATATAATATATAATATTAAAAATTATATAAATAAAATATA
*
17809402 AGAAATTAAAATT
64 AGAAATTAAAATA
* * * *
17809415 TATATAA-TATAAGTAAAAAATTAAAATATAATATATAATATAAAAAATTATATCAA-AAAA-CT
1 TATA-AATTATAA-T-AAAAATAAAAATATAATATATAATATTAAAAATTATATAAATAAAATAT
17809477 AA-AAA-TAAAATA
63 AAGAAATTAAAATA
* *
17809489 TATAAGATTATAATAAGAAATAAAAATAAAATATATGATATTAAAAA-TATAT
1 TATAA-ATTATAATAA-AAATAAAAATATAATATATAATATTAAAAATTATAT
17809541 TTAAGATATG
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
73 8 0.07
74 38 0.36
75 8 0.07
76 8 0.07
77 20 0.19
78 25 0.23
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (76 bp):
TATAAATTATAATAAAAATAAAAATATAATATATAATATTAAAAATTATATAAATAAAATATAAG
AAATTAAAATA
Found at i:17810394 original size:14 final size:14
Alignment explanation
Indices: 17810375--17810440 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
17810365 GATGAATATT
17810375 AATATTTAACTTAA
1 AATATTTAACTTAA
** *
17810389 AATATTTAAAAAATATT
1 AATATTT--AACTTA-A
17810406 AATATTTAACTTTAA
1 AATATTTAAC-TTAA
* *
17810421 AATAATTAATTTAA
1 AATATTTAACTTAA
17810435 AATATT
1 AATATT
17810441 AATATTCAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
14 16 0.41
15 10 0.26
16 6 0.15
17 7 0.18
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTTAACTTAA
Found at i:17810407 original size:31 final size:33
Alignment explanation
Indices: 17810369--17810446 Score: 115
Period size: 31 Copynumber: 2.4 Consensus size: 33
17810359 AAGTTTGATG
*
17810369 AATATTAATATTTAAC-TTAAAATATTTAA-AA
1 AATATTAATATTTAACTTTAAAATAATTAATAA
17810400 AATATTAATATTTAACTTTAAAATAATTAATTTAA
1 AATATTAATATTTAACTTTAAAATAATTAA--TAA
17810435 AATATTAATATT
1 AATATTAATATT
17810447 CAAATTATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 16 0.38
32 12 0.29
35 14 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
AATATTAATATTTAACTTTAAAATAATTAATAA
Found at i:17810609 original size:74 final size:74
Alignment explanation
Indices: 17810531--17810672 Score: 221
Period size: 74 Copynumber: 1.9 Consensus size: 74
17810521 ATAAATGGAA
* * *
17810531 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATCATCATCATTTGATGAATACACATTTA
1 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATCAGTTAATGAATACACATTTA
17810596 TAATAGGTT
66 TAATAGGTT
* * * *
17810605 TAAATCTTGCTAATAATTATAATAAAAAATATTTCAATAATTATTAGTTAATGAATACATATTTA
1 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATCAGTTAATGAATACACATTTA
17810670 TAA
66 TAA
17810673 GTATAAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.40
Consensus pattern (74 bp):
TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATCAGTTAATGAATACACATTTA
TAATAGGTT
Found at i:17811619 original size:17 final size:17
Alignment explanation
Indices: 17811597--17811630 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17811587 TAATCTAATG
17811597 TTTTC-AATTTAATAACT
1 TTTTCAAATTTAA-AACT
17811614 TTTTCAAATTTAAAACT
1 TTTTCAAATTTAAAACT
17811631 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTCAAATTTAAAACT
Found at i:17813663 original size:25 final size:25
Alignment explanation
Indices: 17813635--17813684 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
17813625 TCATCTCTTA
17813635 CTAATGT-GCTATGCTATACTCTCGT
1 CTAATGTGGC-ATGCTATACTCTCGT
17813660 CTAATGTGGCATGCTATACTCTCGT
1 CTAATGTGGCATGCTATACTCTCGT
17813685 TGCATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (25 bp):
CTAATGTGGCATGCTATACTCTCGT
Found at i:17816037 original size:14 final size:15
Alignment explanation
Indices: 17816012--17816047 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
17816002 GTTGGACTTG
17816012 AAATACCAAAAAAAA
1 AAATACCAAAAAAAA
17816027 AAATA-CAAAAAAAA
1 AAATACCAAAAAAAA
17816041 AAA-ACCA
1 AAATACCA
17816048 CCATACATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 14 0.70
15 5 0.25
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.06
Consensus pattern (15 bp):
AAATACCAAAAAAAA
Found at i:17829495 original size:22 final size:22
Alignment explanation
Indices: 17829449--17829497 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
17829439 AATCAACCAA
*
17829449 AAAAATAATAATATAATATAGT
1 AAAAATAATAATATAATATAAT
17829471 AAAAATAAATAA-ATAA-ATAAAT
1 AAAAAT-AATAATATAATAT-AAT
17829493 AAAAA
1 AAAAA
17829498 GAAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.08
22 17 0.71
23 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAATAATAATATAATATAAT
Found at i:17833444 original size:18 final size:18
Alignment explanation
Indices: 17833413--17833462 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
17833403 TAGAAAATCA
17833413 AAATAAACACAAAAAAATA-
1 AAAT-AACA-AAAAAAATAG
*
17833432 ACAATAATAAAAAAAATAG
1 A-AATAACAAAAAAAATAG
17833451 AAATAACAAAAA
1 AAATAACAAAAA
17833463 TAGTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 19 0.70
19 5 0.19
20 3 0.11
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (18 bp):
AAATAACAAAAAAAATAG
Found at i:17844151 original size:19 final size:20
Alignment explanation
Indices: 17844109--17844157 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
17844099 TTCAACTTCT
* *
17844109 AATTGGGTTAAATCCTACCC
1 AATTGGGTCAAATCCGACCC
17844129 AATTGGGTCAAATCCGA-CC
1 AATTGGGTCAAATCCGACCC
17844148 AATTTGGGTC
1 AA-TTGGGTC
17844158 TTTATCCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
AATTGGGTCAAATCCGACCC
Found at i:17847473 original size:24 final size:24
Alignment explanation
Indices: 17847434--17847479 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17847424 GTCCAGCGAA
*
17847434 GGATCTTCATCGCGGTACCCATTT
1 GGATCTTCATCACGGTACCCATTT
* *
17847458 GGATCTTCATTACGGTGCCCAT
1 GGATCTTCATCACGGTACCCAT
17847480 ATTCTTACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (24 bp):
GGATCTTCATCACGGTACCCATTT
Found at i:17847932 original size:60 final size:60
Alignment explanation
Indices: 17847860--17847978 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
17847850 ATTTAACCTT
* * * *
17847860 AATGTGAATTTGCTATTATATAGTATATATTATAATTTG-TCTATTGATTTATTAGATTGG
1 AATGTGAATTTGCTATTACATAGTATATATCATAATTTGTTC-ATTAATTTATTAAATTGG
* * * *
17847920 AATGTGATTTTGCTATTACGTAGTATGTATCATATTTTGTTCATTAATTTATTAAATTG
1 AATGTGAATTTGCTATTACATAGTATATATCATAATTTGTTCATTAATTTATTAAATTG
17847979 AATTGAGCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 48 0.96
61 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.50
Consensus pattern (60 bp):
AATGTGAATTTGCTATTACATAGTATATATCATAATTTGTTCATTAATTTATTAAATTGG
Found at i:17848707 original size:2 final size:2
Alignment explanation
Indices: 17848700--17848756 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
17848690 AACAAAGTAA
17848700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17848742 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
17848757 NCAAACCAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17848914 original size:15 final size:14
Alignment explanation
Indices: 17848896--17848948 Score: 58
Period size: 13 Copynumber: 3.9 Consensus size: 14
17848886 ATATTGTATA
*
17848896 ATATTTTATATATGT
1 ATATTATATATAT-T
*
17848911 ATA-TATATATATA
1 ATATTATATATATT
17848924 ATA-TATATATA-T
1 ATATTATATATATT
17848936 ATATTATATATAT
1 ATATTATATATAT
17848949 ATTCATCTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 3 0.09
13 19 0.58
14 8 0.24
15 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
ATATTATATATATT
Found at i:17848915 original size:2 final size:2
Alignment explanation
Indices: 17848902--17848950 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
17848892 TATAATATTT
*
17848902 TA TA TA TG TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17848942 TA TA TA TA T
1 TA TA TA TA T
17848951 TCATCTAGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17848947 original size:17 final size:17
Alignment explanation
Indices: 17848881--17848950 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
17848871 ATTAATTAGC
*
17848881 ATATA-ATATTGTATA-
1 ATATATATATTATATAT
* *
17848896 ATAT-TTTATATATGTAT
1 ATATATATAT-TATATAT
*
17848913 ATATATATATAATATAT
1 ATATATATATTATATAT
17848930 ATATATATATTATATAT
1 ATATATATATTATATAT
17848947 ATAT
1 ATAT
17848951 TCATCTAGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 7 0.16
16 4 0.09
17 29 0.66
18 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATATATATATTATATAT
Found at i:17848949 original size:15 final size:15
Alignment explanation
Indices: 17848902--17848950 Score: 80
Period size: 15 Copynumber: 3.2 Consensus size: 15
17848892 TATAATATTT
17848902 TATATATGTATATATA
1 TATATAT-TATATATA
*
17848918 TATATAATATATATA
1 TATATATTATATATA
17848933 TATATATTATATATA
1 TATATATTATATATA
17848948 TAT
1 TAT
17848951 TCATCTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 25 0.81
16 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATATATTATATATA
Found at i:17852421 original size:35 final size:35
Alignment explanation
Indices: 17852369--17852489 Score: 152
Period size: 35 Copynumber: 3.5 Consensus size: 35
17852359 TTGTATAGAG
*
17852369 AACAATTAGAACAAGTGAAGTGCTACTTCACGCAA
1 AACAACTAGAACAAGTGAAGTGCTACTTCACGCAA
* * *
17852404 AATAACTAGAACAAGTGAAGTGTTACTTCACGCTA
1 AACAACTAGAACAAGTGAAGTGCTACTTCACGCAA
* * * *
17852439 AACAACTAGAACAAGTGAAGTACTACTTAAAGCAG
1 AACAACTAGAACAAGTGAAGTGCTACTTCACGCAA
* *
17852474 AACAATTAGAATAAGT
1 AACAACTAGAACAAGT
17852490 AAAGCATTAC
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 73 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (35 bp):
AACAACTAGAACAAGTGAAGTGCTACTTCACGCAA
Found at i:17852766 original size:14 final size:14
Alignment explanation
Indices: 17852726--17852770 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
17852716 TACCTTCTTT
*
17852726 TCTTGTACCTATTC
1 TCTTGTACTTATTC
* *
17852740 TCGTATAACTTATTC
1 TCTTGT-ACTTATTC
17852755 TCTTGTACTTATTC
1 TCTTGTACTTATTC
17852769 TC
1 TC
17852771 GTACAGCTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.18, C:0.24, G:0.07, T:0.51
Consensus pattern (14 bp):
TCTTGTACTTATTC
Found at i:17852767 original size:29 final size:29
Alignment explanation
Indices: 17852726--17852804 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
17852716 TACCTTCTTT
* *
17852726 TCTTGTACCTATTCTCGTATAACTTATTC
1 TCTTGTACTTATTCTCGTACAACTTATTC
* *
17852755 TCTTGTACTTATTCTCGTACAGCTTCTTC
1 TCTTGTACTTATTCTCGTACAACTTATTC
*
17852784 TCTTGTA-TCTATTCTTGTACA
1 TCTTGTACT-TATTCTCGTACA
17852805 CCTTTTTTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 1 0.02
29 43 0.98
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.49
Consensus pattern (29 bp):
TCTTGTACTTATTCTCGTACAACTTATTC
Found at i:17854120 original size:102 final size:101
Alignment explanation
Indices: 17853892--17854179 Score: 303
Period size: 102 Copynumber: 2.8 Consensus size: 101
17853882 AAAAAAAAAT
* * * * *
17853892 TCATATTCAGCCGCTAGCTTTATCGCTTATATTTTGGCTGTAATTATA-TTATACTATTGGTCCC
1 TCATATTCAGCTGCTAGCTTTATCGCTCATATTTTGGCTGTAATGATATTTTTA-TATTGGTCGC
* * *
17853956 CA-CTTTATTGCTCATTCTTTGACCATAGTTCATCAC
65 AAGCTTTATTGCTTATTCTTTGACCATAATTCATCAC
* * * *
17853992 TCTTACTTCAG-TCACAAGCTTTATCGCTCATATTTTGGCTGCAATGATATTTTTATATTGGTCG
1 TCATA-TTCAGCT-GCTAGCTTTATCGCTCATATTTTGGCTGTAATGATATTTTTATATTGGTCG
* * *
17854056 CAAGCTTTATCGCTTATTCTTTGACCATAATTTATTAC
64 CAAGCTTTATTGCTTATTCTTTGACCATAATTCATCAC
* * * * ** *
17854094 TCATATTCCAGCTGCTTGCTTTATCGCTCATAATTTGGCTGTAATGATGTTATGCTATTGGCCGC
1 TCATATT-CAGCTGCTAGCTTTATCGCTCATATTTTGGCTGTAATGATATTTTTATATTGGTCGC
*
17854159 TAGCTTTATTGCTTAGTTCTT
65 AAGCTTTATTGCTTA-TTCTT
17854180 GGCCCTAGCA
Statistics
Matches: 153, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
100 4 0.03
101 48 0.31
102 95 0.62
103 6 0.04
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (101 bp):
TCATATTCAGCTGCTAGCTTTATCGCTCATATTTTGGCTGTAATGATATTTTTATATTGGTCGCA
AGCTTTATTGCTTATTCTTTGACCATAATTCATCAC
Found at i:17858037 original size:55 final size:53
Alignment explanation
Indices: 17857963--17858148 Score: 147
Period size: 55 Copynumber: 3.4 Consensus size: 53
17857953 TGAAGAGTTA
* * * * *
17857963 TTTTAGTGTGTCACGGCTGTTACTGGCGTGTTGTGGGTTAACTAGTTATTTGGG
1 TTTTAGCGTGTCACAGCTGTTCCTGGAGTGTCGTGGGTTAACTAGTT-TTTGGG
* * * *
17858017 TTGTTAGCGTGTCACAGCTGTTCCTAGAGTGTGGTGGGTTAACTGAATTTATGGG
1 TT-TTAGCGTGTCACAGCTGTTCCTGGAGTGTCGTGGGTTAACT-AGTTTTTGGG
* * ** * * * * *
17858072 TTTTTGAAGTGTCATGGCTATTCCTGGTGTGTCGTGTGTTAACTGGTTTTTTAGGT
1 TTTTAG-CGTGTCACAGCTGTTCCTGGAGTGTCGTGGGTTAACTAG-TTTTT-GGG
*
17858128 TTTTAGCGTGTCACAGATGTT
1 TTTTAGCGTGTCACAGCTGTT
17858149 GGTGTAACCA
Statistics
Matches: 100, Mismatches: 27, Indels: 9
0.74 0.20 0.07
Matches are distributed among these distances:
54 5 0.05
55 85 0.85
56 10 0.10
ACGTcount: A:0.15, C:0.12, G:0.31, T:0.42
Consensus pattern (53 bp):
TTTTAGCGTGTCACAGCTGTTCCTGGAGTGTCGTGGGTTAACTAGTTTTTGGG
Found at i:17858194 original size:20 final size:21
Alignment explanation
Indices: 17858169--17858237 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 21
17858159 GTCAGTAATT
17858169 ACAGTGAT-TGGCGTGTCACG
1 ACAGTGATATGGCGTGTCACG
*
17858189 ACAGTGATGCATGGCGTGTAACG
1 ACAGTGAT--ATGGCGTGTCACG
* *
17858212 ATACTGATGCATGGCGTGTCACG
1 ACAGTGAT--ATGGCGTGTCACG
17858235 ACA
1 ACA
17858238 TTTGACTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.20
23 33 0.80
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (21 bp):
ACAGTGATATGGCGTGTCACG
Found at i:17858207 original size:23 final size:23
Alignment explanation
Indices: 17858177--17858237 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
17858167 TTACAGTGAT
*
17858177 TGGCGTGTCACGACAGTGATGCA
1 TGGCGTGTCACGACACTGATGCA
* *
17858200 TGGCGTGTAACGATACTGATGCA
1 TGGCGTGTCACGACACTGATGCA
17858223 TGGCGTGTCACGACA
1 TGGCGTGTCACGACA
17858238 TTTGACTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (23 bp):
TGGCGTGTCACGACACTGATGCA
Found at i:17858253 original size:31 final size:31
Alignment explanation
Indices: 17858218--17858299 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
17858208 AACGATACTG
*
17858218 ATGCATGGCGTGTCACGACATTTGAC-TTGAT
1 ATGCATGGCGTGTCACAACATTTGACGTT-AT
* *
17858249 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTCACAACATTTGACGTTAT
* *
17858280 TTGCATGGCGTGTAACAACA
1 ATGCATGGCGTGTCACAACA
17858300 CGACTAACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTGACGTTAT
Found at i:17858680 original size:33 final size:32
Alignment explanation
Indices: 17858638--17858702 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
17858628 GAGGAATGTT
*
17858638 TCGGCTATGTATGTCAGCATTAAGGGACGCCA
1 TCGGCTATGTATGTCAGCATTAAAGGACGCCA
*
17858670 NTCGGCTATGTATGTTAGCATTAAAGGACGCCA
1 -TCGGCTATGTATGTCAGCATTAAAGGACGCCA
17858703 AACAAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.26
Consensus pattern (32 bp):
TCGGCTATGTATGTCAGCATTAAAGGACGCCA
Found at i:17861828 original size:31 final size:30
Alignment explanation
Indices: 17861775--17862021 Score: 192
Period size: 31 Copynumber: 8.0 Consensus size: 30
17861765 AAATAAGGAA
* *
17861775 TAAATG-TGAGACACACCATGCATAACAAG
1 TAAATGTTGTGACACGCCATGCATAACAAG
* * *
17861804 TACAATGTTGTGACACGCCGTGCATATCAAA
1 TA-AATGTTGTGACACGCCATGCATAACAAG
* * * *
17861835 TAAAATATTGTAAAACGCCATTCATAACAAG
1 T-AAATGTTGTGACACGCCATGCATAACAAG
* *** *
17861866 AAAAATGAAATGAGACGCCATGCATAACAAG
1 -TAAATGTTGTGACACGCCATGCATAACAAG
* * *
17861897 ATAAACT-TAGTGACACGCCAAGGATAACAAG
1 -TAAA-TGTTGTGACACGCCATGCATAACAAG
* *
17861928 CAAAATGTTCTGACACGCCATGCATAACAAG
1 -TAAATGTTGTGACACGCCATGCATAACAAG
* * *
17861959 TTAAACGTTGTGACACACCATGCATAACAAT
1 -TAAATGTTGTGACACGCCATGCATAACAAG
* *
17861990 TAAATTGTTCTGACTCGCCATGCATAACAAG
1 TAAA-TGTTGTGACACGCCATGCATAACAAG
17862021 T
1 T
17862022 TCTGGTGTGT
Statistics
Matches: 168, Mismatches: 43, Indels: 12
0.75 0.19 0.05
Matches are distributed among these distances:
29 2 0.01
30 9 0.05
31 155 0.92
32 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (30 bp):
TAAATGTTGTGACACGCCATGCATAACAAG
Found at i:17862736 original size:14 final size:15
Alignment explanation
Indices: 17862708--17862736 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17862698 TGCAATAAAT
17862708 TGTGTATACAAATAA
1 TGTGTATACAAATAA
17862723 TGTGTATA-AAATAA
1 TGTGTATACAAATAA
17862737 ATTTTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.34
Consensus pattern (15 bp):
TGTGTATACAAATAA
Found at i:17864263 original size:31 final size:31
Alignment explanation
Indices: 17864225--17864614 Score: 356
Period size: 31 Copynumber: 12.5 Consensus size: 31
17864215 ACCCATAAAC
*
17864225 AGTAAAATGTTGTGACACG-CAGTGCATACCA
1 AGTAAAATGTTGTGACACGCCA-TGCATAACA
* * *
17864256 AGTAAAATGTTGTCACACGCAATGCAAAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
**
17864287 AGTAAAATGTCATGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * * **
17864318 AGATAAACT-TGGTGACACGCCAAGGATAATG
1 AG-TAAAATGTTGTGACACGCCATGCATAACA
*
17864349 AGGAAAATGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * * *
17864380 AGATAAACT-TGGTGACACGCCAAGGATAACG
1 AG-TAAAATGTTGTGACACGCCATGCATAACA
* * *
17864411 AGGAAAATGTTGTGACACGCCATGCAAAATA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * *
17864442 ATTAAAATGTTGTGACACGCCATGCAAAATA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
*
17864473 ATTAAAATGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
* * * * *
17864504 AGATAAACT-TGGTGACACGCCAAGGATAATA
1 AG-TAAAATGTTGTGACACGCCATGCATAACA
* * * * *
17864535 AGCAAAATGTTCTGATACGTCATGCATATCAA
1 AGTAAAATGTTGTGACACGCCATGCATAAC-A
* * * *
17864567 AATCAAACGTTGTGACACGCCATGAATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACA
17864598 AGTAAAATGTTGTGACA
1 AGTAAAATGTTGTGACA
17864615 TGCTAAAGCT
Statistics
Matches: 282, Mismatches: 69, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
30 12 0.04
31 233 0.83
32 37 0.13
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (31 bp):
AGTAAAATGTTGTGACACGCCATGCATAACA
Found at i:17864457 original size:124 final size:122
Alignment explanation
Indices: 17864225--17864614 Score: 412
Period size: 124 Copynumber: 3.1 Consensus size: 122
17864215 ACCCATAAAC
* * * * * *
17864225 AGTAAAATGTTGTGACACG-CAGTGCATACCAAG-TAAAATGTTGTCACACG-CAATGCAAAACA
1 AGTAAAATGTTGTGACACGCCA-TGCATAACAAGATAAACT-TGGTGACACGCCAA-GGATAACA
* * * * * * *
17864287 AGTAAAATGTCATGACACGCCATGCATAACAAGATAAACT-TGGTGACACGCCAAGGATAATG
63 AGCAAAATGTTATGACACGCCATGCA-AA-AA-ATAAAATGTTGTGACACGCCATGAATAATA
* * *
17864349 AGGAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACGAGG
1 AGTAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGC
*
17864414 AAAATGTTGTGACACGCCATGCAAAATAATTAAAATGTTGTGACACGCCATGCAA-AATA
66 AAAATGTTATGACACGCCATGCAAAA-AA-TAAAATGTTGTGACACGCCATG-AATAATA
* *
17864473 ATTAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAATAAGC
1 AGTAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGC
* * * * * *
17864538 AAAATGTTCTGATACGTCATGCATATCAAAATCAAACGTTGTGACACGCCATGAATAACA
66 AAAATGTTATGACACGCCATGCA-A--AAAATAAAATGTTGTGACACGCCATGAATAATA
17864598 AGTAAAATGTTGTGACA
1 AGTAAAATGTTGTGACA
17864615 TGCTAAAGCT
Statistics
Matches: 227, Mismatches: 28, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
122 2 0.01
123 8 0.04
124 162 0.71
125 51 0.22
126 2 0.01
127 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (122 bp):
AGTAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGC
AAAATGTTATGACACGCCATGCAAAAAATAAAATGTTGTGACACGCCATGAATAATA
Found at i:17865295 original size:156 final size:156
Alignment explanation
Indices: 17864983--17865485 Score: 668
Period size: 156 Copynumber: 3.2 Consensus size: 156
17864973 AACTACAATA
* *
17864983 ACATATATAATTGTGTTATTCAATAATCATATATGAAATTGTTGAACATTGACCGTTACAACTTT
1 ACATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCGTTACAACTTT
* * * * *
17865048 AACATCCTAACCGACGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGTGCTTTAGGACC
66 AATATCCTTACCGCCGGCTCGTTAGTAGTCTGCGGTGGAGCCGGACCGATCGGTGCTTTAGGACT
* * * *
17865113 TGTCATTGCTTTCGCATACTGCAATT
131 TGTCATCGCTTCCGCAAACTGTAATT
* * * *
17865139 ACATATTTAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACTGTTACAACTTT
1 ACATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCGTTACAACTTT
* * *
17865204 AATATCTTTACCGCCGGCTCGTTAGTAGTCTGCGGTGGAGTCGGACCGATCGGTGCTTTAAGACT
66 AATATCCTTACCGCCGGCTCGTTAGTAGTCTGCGGTGGAGCCGGACCGATCGGTGCTTTAGGACT
*
17865269 TGTCGTCGCTTCCGCAAACTGTAATT
131 TGTCATCGCTTCCGCAAACTGTAATT
* * *
17865295 ACATATATAACTGTGTTATTCAATAATCATGTTTGAAATTATTGAACATTAACCGTTACAACTTT
1 ACATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCGTTACAACTTT
* * ** *
17865360 AATATCCTTACCGCCGGCTCGTTAGCT-GTCTGTGG-GTAGGCTAGACCGATCGGTGCTTGAGGA
66 AATATCCTTACCGCCGGCTCGTTAG-TAGTCTGCGGTGGA-GCCGGACCGATCGGTGCTTTAGGA
* *
17865423 CTTGTCCTCGCTTCCGTAAACTGTAATT
129 CTTGTCATCGCTTCCGCAAACTGTAATT
* * * * *
17865451 ACATAAATTACTGTGTTAATCGATAAACATATATG
1 ACATATATAACTGTGTTATTCAATAATCATATATG
17865486 GGAATGTAAA
Statistics
Matches: 304, Mismatches: 41, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
155 2 0.01
156 301 0.99
157 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (156 bp):
ACATATATAACTGTGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCGTTACAACTTT
AATATCCTTACCGCCGGCTCGTTAGTAGTCTGCGGTGGAGCCGGACCGATCGGTGCTTTAGGACT
TGTCATCGCTTCCGCAAACTGTAATT
Found at i:17867427 original size:31 final size:31
Alignment explanation
Indices: 17867100--17867425 Score: 334
Period size: 31 Copynumber: 10.5 Consensus size: 31
17867090 AATAAGGAAT
* *
17867100 AAATGTTGTAACACGCCATGCAT-TGCAA-TCA
1 AAATGCTGTCACACGCCATGCATAT-CAAGT-A
* * * *
17867131 AAATGTTGTGACATGCCATGCATAACAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
17867162 AAATGTTGTGACACGCCATGCATAACAAGTT
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
17867193 AAACGTTGTAACACGCCATGCATATCAAGTT
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * * *
17867224 AAACGTTATGACACGCCATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* *
17867255 AAATGCTGTCAAACGTCATGCATAAT-AAGTA
1 AAATGCTGTCACACGCCATGCAT-ATCAAGTA
* * *
17867286 AAATGCTGTCAAACACCATGCATAACAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* * *
17867317 AAATTCTGTGACACGACATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
*
17867348 AAATGTTGTCACACGCCATGCATATCAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
* *
17867379 AAATGCTGTCACACGCTATGCATATTAAGTA
1 AAATGCTGTCACACGCCATGCATATCAAGTA
*
17867410 AAATGCTATCACACGC
1 AAATGCTGTCACACGC
17867426 TAATAACTAA
Statistics
Matches: 257, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.00
31 253 0.98
32 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (31 bp):
AAATGCTGTCACACGCCATGCATATCAAGTA
Found at i:17870408 original size:35 final size:35
Alignment explanation
Indices: 17870298--17870396 Score: 146
Period size: 35 Copynumber: 2.9 Consensus size: 35
17870288 TATTGTACAA
* *
17870298 AGAACAACTAGAA-AAGTGAAGTGCTACTTCACGC
1 AGAACAACTAAAACAAGTGAAGTGCTATTTCACGC
*
17870332 AGAATAACTAAAACAAGTGAAGTGCTATTTCACGC
1 AGAACAACTAAAACAAGTGAAGTGCTATTTCACGC
* *
17870367 AAAACAACTAAAACAAGTGAAGTACTATTT
1 AGAACAACTAAAACAAGTGAAGTGCTATTT
17870397 AAAACAGAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 11 0.19
35 47 0.81
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.21
Consensus pattern (35 bp):
AGAACAACTAAAACAAGTGAAGTGCTATTTCACGC
Found at i:17877183 original size:18 final size:17
Alignment explanation
Indices: 17877156--17877193 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17877146 TTTTATTTTT
* *
17877156 AAAATTAAAAATTAAAA
1 AAAAATAAAAAATAAAA
17877173 AAAAATAAAAAATAAAA
1 AAAAATAAAAAATAAAA
17877190 AAAA
1 AAAA
17877194 GAGCCCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAAATAAAA
Found at i:17877470 original size:12 final size:13
Alignment explanation
Indices: 17877438--17877470 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17877428 GACACCCCAC
17877438 TTTATTTAATCTT
1 TTTATTTAATCTT
*
17877451 TTTGTTTAAT-TT
1 TTTATTTAATCTT
17877463 TTTATTTA
1 TTTATTTA
17877471 TTTCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTATTTAATCTT
Found at i:17884077 original size:9 final size:8
Alignment explanation
Indices: 17884062--17884131 Score: 59
Period size: 9 Copynumber: 7.9 Consensus size: 8
17884052 TTGTTTTTAA
17884062 TTTTTTTC
1 TTTTTTTC
*
17884070 TTTCTTTTT
1 TTT-TTTTC
17884079 TTTTTTTC
1 TTTTTTTC
*
17884087 ATTCTTTTGC
1 -TT-TTTTTC
17884097 TTTTTTTGC
1 TTTTTTT-C
17884106 TTTTTTTAAC
1 TTTTTTT--C
17884116 TTTTTCTTC
1 TTTTT-TTC
17884125 TTTTTTT
1 TTTTTTT
17884132 TTTAAATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
8 13 0.25
9 25 0.49
10 11 0.22
11 2 0.04
ACGTcount: A:0.04, C:0.13, G:0.03, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:17884084 original size:17 final size:17
Alignment explanation
Indices: 17884062--17884134 Score: 69
Period size: 17 Copynumber: 4.3 Consensus size: 17
17884052 TTGTTTTTAA
17884062 TTTTTTTCTTTCTTTTT
1 TTTTTTTCTTTCTTTTT
*
17884079 TTTTTTTCATTCTTTTGCT
1 TTTTTTTCTTTCTTTT--T
* *
17884098 TTTTTTGCTTT-TTTTA
1 TTTTTTTCTTTCTTTTT
**
17884114 ACTTTTTC-TTCTTTTT
1 TTTTTTTCTTTCTTTTT
17884130 TTTTT
1 TTTTT
17884135 AAATTTTGCC
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
15 2 0.05
16 12 0.28
17 15 0.35
18 4 0.09
19 10 0.23
ACGTcount: A:0.04, C:0.12, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTTTCTTTTT
Found at i:17884094 original size:15 final size:14
Alignment explanation
Indices: 17884035--17884094 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 14
17884025 CTCTCTCTTC
*
17884035 TTTTTTTTTTAATT
1 TTTTTTTTTTCATT
* *
17884049 TATTTGTTTTT-AAT
1 T-TTTTTTTTTCATT
*
17884063 TTTTTTCTTTC-TT
1 TTTTTTTTTTCATT
17884076 TTTTTTTTTTCATT
1 TTTTTTTTTTCATT
*
17884090 CTTTT
1 TTTTT
17884095 GCTTTTTTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
13 18 0.50
14 10 0.28
15 8 0.22
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTCATT
Found at i:17884793 original size:14 final size:14
Alignment explanation
Indices: 17884776--17884821 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
17884766 CTTTTTTTTA
17884776 TTTTTCTTTTCTCT
1 TTTTTCTTTTCTCT
*
17884790 TTTTTCTTTTAT-T
1 TTTTTCTTTTCTCT
*
17884803 TTATT-TTTTCTTCT
1 TTTTTCTTTTC-TCT
17884817 TTTTT
1 TTTTT
17884822 TGTCTCTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 16 0.62
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTCTCT
Found at i:17884809 original size:29 final size:28
Alignment explanation
Indices: 17884766--17884822 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
17884756 AACTTTTGAA
17884766 CTTTTTTTTATTTTTCTT-TTCTCTTTTTT
1 CTTTTTTTTATTTTT-TTCTTCT-TTTTTT
17884795 CTTTTATTTTA-TTTTTTCTTCTTTTTTT
1 CTTTT-TTTTATTTTTTTCTTCTTTTTTT
17884823 GTCTCTCGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 8 0.31
29 13 0.50
30 5 0.19
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (28 bp):
CTTTTTTTTATTTTTTTCTTCTTTTTTT
Found at i:17901990 original size:12 final size:12
Alignment explanation
Indices: 17901969--17902005 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
17901959 CCTGTTTTTG
*
17901969 GTTCTTTCTCTT
1 GTTCTCTCTCTT
*
17901981 GTTCTCTCTCAT
1 GTTCTCTCTCTT
17901993 GTTCTCTCTCTT
1 GTTCTCTCTCTT
17902005 G
1 G
17902006 CCAGATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.30, G:0.11, T:0.57
Consensus pattern (12 bp):
GTTCTCTCTCTT
Found at i:17906049 original size:22 final size:22
Alignment explanation
Indices: 17906024--17906073 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
17906014 TAGTAAAGTT
* *
17906024 AAATATACAAAAATGTTCTAAA
1 AAATATAAAAAAATGTTATAAA
*
17906046 AAATATAAAAAAATGTTATTAA
1 AAATATAAAAAAATGTTATAAA
17906068 AAATAT
1 AAATAT
17906074 TTTTTATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (22 bp):
AAATATAAAAAAATGTTATAAA
Found at i:17907298 original size:52 final size:52
Alignment explanation
Indices: 17907224--17907322 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
17907214 CATTTTGAAC
* **
17907224 ATTTTGAAGTGGTTTTTGATATAT-AAAAAAAATTTTTGGAGCATTTTTAGGT
1 ATTTTGAAGTGATTTTTGATATATGAAAAAAAACCTTT-GAGCATTTTTAGGT
* * *
17907276 ATTTTGGAGTGATTTTTTATATATGAAGAAAAACCTTTGAGCATTTT
1 ATTTTGAAGTGATTTTTGATATATGAAAAAAAACCTTTGAGCATTTT
17907323 GAGTCAAGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
52 30 0.75
53 10 0.25
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.45
Consensus pattern (52 bp):
ATTTTGAAGTGATTTTTGATATATGAAAAAAAACCTTTGAGCATTTTTAGGT
Found at i:17907447 original size:22 final size:22
Alignment explanation
Indices: 17907422--17907500 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 22
17907412 AGTTTTGGTG
*
17907422 GTTTTTAAGTATTGTATAACCA
1 GTTTTTAAGCATTGTATAACCA
* * *
17907444 GTTTTTAGGCATTGTATGACTA
1 GTTTTTAAGCATTGTATAACCA
* * * *
17907466 GTTTTCAAGCATTGCATTACTA
1 GTTTTTAAGCATTGTATAACCA
*
17907488 ATTTTTAAGCATT
1 GTTTTTAAGCATT
17907501 ACATGATTGA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (22 bp):
GTTTTTAAGCATTGTATAACCA
Done.