Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 6 of 185
Found at i:1533227 original size:25 final size:25
Alignment explanation
Indices: 1533199--1533268 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
1533189 AAAGCCATTA
1533199 ATCGGGAAGCTCATGAGAGC-AAATT
1 ATCGGGAAGCTCATGAGAGCTAAA-T
*
1533224 ATCGGGAAGCTCGTGAGAGCTAAAT
1 ATCGGGAAGCTCATGAGAGCTAAAT
* *
1533249 AACGGGAAGCTCAAGAGAGC
1 ATCGGGAAGCTCATGAGAGC
1533269 CATATATGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 37 0.93
26 3 0.08
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.16
Consensus pattern (25 bp):
ATCGGGAAGCTCATGAGAGCTAAAT
Found at i:1539851 original size:12 final size:12
Alignment explanation
Indices: 1539831--1539869 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1539821 CGATACCAAT
1539831 AAATTTATTTTA
1 AAATTTATTTTA
*
1539843 AAATGTATTTT-
1 AAATTTATTTTA
1539854 AAATTTATATTTA
1 AAATTTAT-TTTA
1539867 AAA
1 AAA
1539870 ATTTTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 7 0.30
12 13 0.57
13 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (12 bp):
AAATTTATTTTA
Found at i:1553157 original size:31 final size:28
Alignment explanation
Indices: 1553110--1553179 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 28
1553100 GTCATCCAAC
* * *
1553110 TTTTAAATCTTACAAAATTATCACTTACA
1 TTTTAAGTGTTACAAAATAATCACTTA-A
1553139 TTATTAAGGTGTTACAAAATAATCACTTAA
1 TT-TTAA-GTGTTACAAAATAATCACTTAA
1553169 TTTTAAGTGTT
1 TTTTAAGTGTT
1553180 GTTTATAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.14
29 6 0.17
30 7 0.19
31 18 0.50
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (28 bp):
TTTTAAGTGTTACAAAATAATCACTTAA
Found at i:1555709 original size:22 final size:22
Alignment explanation
Indices: 1555670--1555712 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
1555660 TGGCAATTGA
1555670 GTAATTTTTAAAGTTAGGTAAGG
1 GTAATTTTTAAAG-TAGGTAAGG
1555693 GTAATTTTGTAAA-TAGGTAA
1 GTAATTTT-TAAAGTAGGTAA
1555713 AAAGGTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (22 bp):
GTAATTTTTAAAGTAGGTAAGG
Found at i:1556642 original size:25 final size:25
Alignment explanation
Indices: 1556597--1556662 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
1556587 GTCGTTAAGG
* *
1556597 TTACCGATTC-CAGCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
1556621 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* * *
1556646 TTATCGTTATTCAGCTC
1 TTACCGATACTCAGCTC
1556663 AGAAGAGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 9 0.25
25 27 0.75
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:1557557 original size:25 final size:25
Alignment explanation
Indices: 1557529--1557578 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1557519 CAGGTAAGGC
1557529 TCCTTCTCCTTCTTCCATTATTCAT
1 TCCTTCTCCTTCTTCCATTATTCAT
* * *
1557554 TCCTTTTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCATTATTCAT
1557579 CTTCTCTTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.08, C:0.36, G:0.02, T:0.54
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCATTATTCAT
Found at i:1559002 original size:13 final size:13
Alignment explanation
Indices: 1558984--1559008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1558974 TATTTTAATA
1558984 TTATTTTGTGTGT
1 TTATTTTGTGTGT
1558997 TTATTTTGTGTG
1 TTATTTTGTGTG
1559009 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:1561066 original size:41 final size:41
Alignment explanation
Indices: 1561021--1561195 Score: 216
Period size: 41 Copynumber: 4.3 Consensus size: 41
1561011 TAGCAGATGT
*
1561021 AGTGCCGGTGAAT-T-AATTCAGACTT-TAAGTCTAGCAGGCTA
1 AGTGCCGGTG-ATCTGAA-TCAG-CTTATAAGCCTAGCAGGCTA
* *
1561062 AGTGCCGGTGATCTGAACCAGGTTATGAA-CCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCAGCTTAT-AAGCCTAGCAGGCTA
* *
1561103 AGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCAGCTTATAAGCCTAGCAGGCTA
*
1561144 CGTGCCGGTGATCTGAATCAGGC-TATAAGCCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCA-GCTTATAAGCCTAGCAGGCTA
1561185 AGTGCCGGTGA
1 AGTGCCGGTGA
1561196 ATATGTTAAA
Statistics
Matches: 120, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
40 6 0.05
41 109 0.91
42 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (41 bp):
AGTGCCGGTGATCTGAATCAGCTTATAAGCCTAGCAGGCTA
Found at i:1568905 original size:41 final size:41
Alignment explanation
Indices: 1568860--1569034 Score: 207
Period size: 41 Copynumber: 4.3 Consensus size: 41
1568850 TAGCAGATGT
*
1568860 AGTGCCGGTGAAT-T-AATTCAGACTT-TAAGTCTAGCAGGCTA
1 AGTGCCGGTG-ATCTGAA-TCAG-CTTATAAGCCTAGCAGGCTA
* * *
1568901 AGTGCCGGTGATCTGAACCAGGTTATGAA-CTTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCAGCTTAT-AAGCCTAGCAGGCTA
* *
1568942 AGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCAGCTTATAAGCCTAGCAGGCTA
*
1568983 CGTGCCGGTGATCTGAATCAGGC-TATAAGCCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCA-GCTTATAAGCCTAGCAGGCTA
1569024 AGTGCCGGTGA
1 AGTGCCGGTGA
1569035 ATATGTTAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
40 6 0.05
41 107 0.91
42 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (41 bp):
AGTGCCGGTGATCTGAATCAGCTTATAAGCCTAGCAGGCTA
Found at i:1575091 original size:49 final size:48
Alignment explanation
Indices: 1574961--1575093 Score: 128
Period size: 49 Copynumber: 2.7 Consensus size: 48
1574951 AAAATTAGTT
* * * *
1574961 AATTTATATTTTATGTATCATTATATTAAATTATTTAAACATTTTATG
1 AATTTATATTTTATATATCATTATATTAAATTATTGAAAAATTTTATA
* * * *
1575009 TATCATTA-ATTTTACAAATAATTTATATT-AATTACTTGAAAAATATTTA-A
1 AAT--TTATATTTTATATATCA-TTATATTAAATTA-TTGAAAAAT-TTTATA
1575059 AATTTATATTTTATATATCATTATATTAAATTATT
1 AATTTATATTTTATATATCATTATATTAAATTATT
1575094 TAAATATCGT
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
48 14 0.21
49 29 0.44
50 19 0.29
51 4 0.06
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (48 bp):
AATTTATATTTTATATATCATTATATTAAATTATTGAAAAATTTTATA
Found at i:1580005 original size:36 final size:36
Alignment explanation
Indices: 1579949--1580022 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
1579939 TTATTTGTGA
* * * *
1579949 TTGTTTTTTCCAACATTCAAAGATTGAAACCTGCAT
1 TTGTTCTTTCCAACAATCAAAGATTCAAACATGCAT
* *
1579985 TTGTTCTTTCCGACAATCAAAGGTTCAAACATGCAT
1 TTGTTCTTTCCAACAATCAAAGATTCAAACATGCAT
1580021 TT
1 TT
1580023 TTTTTGTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (36 bp):
TTGTTCTTTCCAACAATCAAAGATTCAAACATGCAT
Found at i:1580693 original size:120 final size:120
Alignment explanation
Indices: 1580543--1580875 Score: 596
Period size: 120 Copynumber: 2.8 Consensus size: 120
1580533 ATTTAATCAT
*
1580543 ATTTAAACATAATTTTTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
1580608 ATCAATATTCTTATATAAATTTACTCAAATCATAATATACGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATACGATACTATAAAAGATA
1580664 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
1580729 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATACGATACTATAAAAGATA
*
1580784 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATTCTTAA-AA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1580848 TTAATATTCTTATATGAATTTACTCAAA
66 TTAATATTCTTATATGAATTTACTCAAA
1580876 AATTGTTAGC
Statistics
Matches: 206, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
119 30 0.15
120 172 0.83
121 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATACGATACTATAAAAGATA
Found at i:1580704 original size:16 final size:16
Alignment explanation
Indices: 1580660--1580706 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1580650 TACTATAAAA
*
1580660 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
1580676 TATTATT-AAATATAT
1 TATAATTAAAATATAT
1580691 TATAATTAAAATATAT
1 TATAATTAAAATATAT
1580707 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:1580824 original size:16 final size:16
Alignment explanation
Indices: 1580781--1580826 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1580771 ACTATAAAAG
*
1580781 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
1580797 ATTATT-AAATATATT
1 ATAATTAAAATATATT
1580812 ATAATTAAAATATAT
1 ATAATTAAAATATAT
1580827 GATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:1580828 original size:59 final size:58
Alignment explanation
Indices: 1580543--1580829 Score: 178
Period size: 59 Copynumber: 4.8 Consensus size: 58
1580533 ATTTAATCAT
* * * *
1580543 ATTTAAACATAATTTTTATTAAATATATTATAATTAAAATATATAAT-TTA-ATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATGATACTATA-AAAATA
* * * * * * *
1580601 CTTAATAATCA-ATATTCTTATATAAATTTACTCA-AATCATAATATACGATACTATAAAATATA
1 ATT--TAA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATGATACTATAAAA-ATA
* *
1580664 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATAT-A-A-TTTAATAA-A
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATGATACTATAAAAATA
* * ** * *
1580718 ATTCTTA-ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA
1 ATT-TAACATAATTATTATT-AAATAT--A-TTA-T--AATTAAAATATATGATACTATAAAA-A
1580782 TA
57 TA
1580784 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATGAT
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATGAT
1580830 TTAATAAAAT
Statistics
Matches: 171, Mismatches: 33, Indels: 49
0.68 0.13 0.19
Matches are distributed among these distances:
54 15 0.09
55 7 0.04
56 5 0.03
57 2 0.01
58 8 0.05
59 35 0.20
60 19 0.11
61 35 0.20
62 11 0.06
63 7 0.04
64 5 0.03
65 7 0.04
66 15 0.09
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (58 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATGATACTATAAAAATA
Found at i:1582854 original size:33 final size:36
Alignment explanation
Indices: 1582814--1582908 Score: 124
Period size: 33 Copynumber: 2.7 Consensus size: 36
1582804 AGAAAAGGGG
1582814 AAACAGAGGGAGCAAATCGGCAGAAAAG-AAA-AT-
1 AAACAGAGGGAGCAAATCGGCAGAAAAGAAAAGATA
* *
1582847 AAACAGAGAGAACAAATCGGCAGAAAAGAAAAGATAA
1 AAACAGAGGGAGCAAATCGGCAGAAAAGAAAAGAT-A
*
1582884 GAAACAGAGGGAGAAAATCGGCAGA
1 -AAACAGAGGGAGCAAATCGGCAGA
1582909 GGCTAGAAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
33 26 0.50
34 3 0.06
35 2 0.04
38 21 0.40
ACGTcount: A:0.56, C:0.12, G:0.27, T:0.05
Consensus pattern (36 bp):
AAACAGAGGGAGCAAATCGGCAGAAAAGAAAAGATA
Found at i:1582878 original size:38 final size:38
Alignment explanation
Indices: 1582835--1582908 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
1582825 GCAAATCGGC
*
1582835 AGAAAAGAAAATAAACAGAGAGA-ACAAATCGGCAGAAA
1 AGAAAAGAAAAGAAACAGAGAGAGA-AAATCGGCAGAAA
* *
1582873 AGAAAAGATAAGAAACAGAGGGAGAAAATCGGCAGA
1 AGAAAAGAAAAGAAACAGAGAGAGAAAATCGGCAGA
1582909 GGCTAGAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.59, C:0.09, G:0.26, T:0.05
Consensus pattern (38 bp):
AGAAAAGAAAAGAAACAGAGAGAGAAAATCGGCAGAAA
Found at i:1588844 original size:30 final size:31
Alignment explanation
Indices: 1588808--1588867 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1588798 GGCCCATTTT
1588808 TATTTTAAAAAT-TTAAAAAAATAAAAAAAG
1 TATTTTAAAAATATTAAAAAAATAAAAAAAG
** *
1588838 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTAAAAAAATAAAAAAA
1588868 TTAAAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (31 bp):
TATTTTAAAAATATTAAAAAAATAAAAAAAG
Found at i:1588865 original size:29 final size:29
Alignment explanation
Indices: 1588844--1588904 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
1588834 AAAGTATTTT
1588844 AAAAA-TATTTTAAAATTAAAAAAATTAA
1 AAAAAGTATTTTAAAATTAAAAAAATTAA
1588872 AAAAAGTATTTTAAAATTAAAAAAAATTAA
1 AAAAAGTATTTTAAAATT-AAAAAAATTAA
1588902 AAA
1 AAA
1588905 GTATGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 5 0.16
29 12 0.39
30 14 0.45
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAAGTATTTTAAAATTAAAAAAATTAA
Found at i:1588866 original size:40 final size:41
Alignment explanation
Indices: 1588808--1588887 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
1588798 GGCCCATTTT
*
1588808 TATTTTAAAAATTTAAAAAAATAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAAATAAAAAAAGTATTTTAAAAA
*
1588849 TATTTT-AAAATTAAAAAAATTAAAAAAAGTATTTTAAAA
1 TATTTTAAAAATTAAAAAAAATAAAAAAAGTATTTTAAAA
1588888 TTAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 31 0.84
41 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (41 bp):
TATTTTAAAAATTAAAAAAAATAAAAAAAGTATTTTAAAAA
Found at i:1588874 original size:39 final size:39
Alignment explanation
Indices: 1588808--1588936 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 39
1588798 GGCCCATTTT
*
1588808 TATTTTAAAAATTTAAAAAAATAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAGTATTTTAAAAA
1588849 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT--AAA
1 TATTTTAAAATTAAAAAAATT-AAAAAAGTATTTTAAAAA
* *
1588887 -A--TT---A--AAAAAAATT-AAAAAGTATGTAAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
1588917 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
1588937 AAATATATTT
Statistics
Matches: 74, Mismatches: 3, Indels: 25
0.73 0.03 0.25
Matches are distributed among these distances:
28 10 0.14
30 12 0.16
31 1 0.01
32 1 0.01
33 2 0.03
35 2 0.03
36 1 0.01
37 1 0.01
38 11 0.15
39 10 0.14
40 17 0.23
41 6 0.08
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:1588915 original size:28 final size:27
Alignment explanation
Indices: 1588842--1588908 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 27
1588832 AAAAAGTATT
1588842 TTAAAAA-TATTTTAAAATTAAAAAAA
1 TTAAAAAGTATTTTAAAATTAAAAAAA
1588868 TTAAAAAAAGTATTTTAAAATTAAAAAAAA
1 TT--AAAAAGTATTTTAAAATT-AAAAAAA
1588898 TTAAAAAGTAT
1 TTAAAAAGTAT
1588909 GTAAAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 2 0.05
28 14 0.38
29 12 0.32
30 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (27 bp):
TTAAAAAGTATTTTAAAATTAAAAAAA
Found at i:1588916 original size:29 final size:28
Alignment explanation
Indices: 1588855--1588917 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
1588845 AAAATATTTT
**
1588855 AAAATTAAAAAAATTAAAAAAAGTATTTT
1 AAAATTAAAAAAATT-AAAAAAGTATTAA
1588884 AAAATTAAAAAAAATT-AAAAAGTATGTAA
1 AAAATT-AAAAAAATTAAAAAAGTAT-TAA
1588913 AAAAT
1 AAAAT
1588918 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 9 0.30
29 12 0.40
30 9 0.30
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAATTAAAAAAATTAAAAAAGTATTAA
Found at i:1588919 original size:68 final size:70
Alignment explanation
Indices: 1588808--1588936 Score: 208
Period size: 68 Copynumber: 1.9 Consensus size: 70
1588798 GGCCCATTTT
* * *
1588808 TATTTTAAAAATTTAAAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
1 TATTTTAAAAATTAAAAAAAATAAAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAATTAAA
1588873 AAAAG
66 AAAAG
*
1588878 TATTTT-AAAATTAAAAAAAAT-TAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAAT
1 TATTTTAAAAATTAAAAAAAATAAAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAAT
1588937 AAATATATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 35 0.64
69 14 0.25
70 6 0.11
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (70 bp):
TATTTTAAAAATTAAAAAAAATAAAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAATTAAA
AAAAG
Found at i:1590082 original size:18 final size:20
Alignment explanation
Indices: 1590050--1590098 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
1590040 AATATAAAAT
* *
1590050 AATTCCAAATAATTT-TTAA
1 AATTCAAAATAATTTATAAA
1590069 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTTATAAA
1590088 AATTCTAAAAT
1 AATTC-AAAAT
1590099 TTATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 17 0.65
20 5 0.19
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:1590100 original size:18 final size:19
Alignment explanation
Indices: 1590067--1590103 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1590057 AATAATTTTT
1590067 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
*
1590086 AAAATTCTAAA-ATTTATA
1 AAAATTCAAAATATTTATA
1590104 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:1590142 original size:18 final size:18
Alignment explanation
Indices: 1590107--1590142 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1590097 ATTTATATTT
*
1590107 TTTAAAAAATTATATAAA
1 TTTAAAAAAATATATAAA
*
1590125 TTTAAAAAAATATCTAAA
1 TTTAAAAAAATATATAAA
1590143 AAATATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTAAAAAAATATATAAA
Found at i:1590146 original size:21 final size:21
Alignment explanation
Indices: 1590122--1590175 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 21
1590112 AAAATTATAT
1590122 AAATTTAAAAA-AATA-TCTAAA
1 AAATTTAAAAAGAA-AGT-TAAA
1590143 AAATATATAAAAAGAAAGTTAAA
1 AAAT-T-TAAAAAGAAAGTTAAA
1590166 AAA-TTAAAAA
1 AAATTTAAAAA
1590176 TTTTCTACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
20 6 0.21
21 5 0.17
22 1 0.03
23 14 0.48
24 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATTTAAAAAGAAAGTTAAA
Found at i:1592526 original size:16 final size:17
Alignment explanation
Indices: 1592497--1592528 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1592487 TATCATGGAG
1592497 TTTGTCCTAATGTGCTT
1 TTTGTCCTAATGTGCTT
1592514 TTTGTCC-AATGTGCT
1 TTTGTCCTAATGTGCT
1592529 ATGTGGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (17 bp):
TTTGTCCTAATGTGCTT
Found at i:1593693 original size:25 final size:27
Alignment explanation
Indices: 1593641--1593701 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
1593631 TATTATAAAC
* *
1593641 AAAAAATTATTAAAATTTACTATTTTTT
1 AAAAAATTATGAAAATTTAC-ATATTTT
*
1593669 TAAAAATTA-GAAAATTTA-ATATTTT
1 AAAAAATTATGAAAATTTACATATTTT
1593694 AAAAAATT
1 AAAAAATT
1593702 TATAAATCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 13 0.45
27 8 0.28
28 8 0.28
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
AAAAAATTATGAAAATTTACATATTTT
Found at i:1594074 original size:18 final size:19
Alignment explanation
Indices: 1594034--1594080 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1594024 ATTTTAGATT
* *
1594034 TTTTATATATTTTTTTGTAA
1 TTTTATA-AATTTTTTCTAA
1594054 TTTTATAAATTTTTTCT-A
1 TTTTATAAATTTTTTCTAA
1594072 TTTTA-AAAT
1 TTTTATAAAT
1594081 AAATTTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 8 0.32
20 7 0.28
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATAAATTTTTTCTAA
Found at i:1607821 original size:16 final size:15
Alignment explanation
Indices: 1607781--1607836 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
1607771 ATTTTGGATT
*
1607781 TTTATTATTTT-TAA
1 TTTATAATTTTATAA
1607795 TTTATCCAATTTTATAGA
1 TTTAT--AATTTTATA-A
1607813 TTTATAATTTTATTAA
1 TTTATAATTTTA-TAA
*
1607829 TTAATAAT
1 TTTATAAT
1607837 ATATTATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 5 0.14
16 20 0.57
17 4 0.11
18 6 0.17
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (15 bp):
TTTATAATTTTATAA
Found at i:1609487 original size:24 final size:25
Alignment explanation
Indices: 1609460--1609511 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
1609450 CATAGGACAA
1609460 ATGCAAACTAG-GGTCGCGAG-AAAG
1 ATGCAAA-TAGTGGTCGCGAGAAAAG
* *
1609484 ATGCGAATTGTGGTCGCGAGAAAAG
1 ATGCAAATAGTGGTCGCGAGAAAAG
1609509 ATG
1 ATG
1609512 TGAGCTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 2 0.08
24 15 0.62
25 7 0.29
ACGTcount: A:0.35, C:0.13, G:0.35, T:0.17
Consensus pattern (25 bp):
ATGCAAATAGTGGTCGCGAGAAAAG
Found at i:1629994 original size:5 final size:5
Alignment explanation
Indices: 1629966--1630041 Score: 93
Period size: 5 Copynumber: 15.4 Consensus size: 5
1629956 AAAATATCAT
* *
1629966 ATTTA TTTTA A-TTA ATTTG A-TTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
* *
1630014 ATTTA ATTTA ATTTCA AATTA CTTTA AT
1 ATTTA ATTTA ATTT-A ATTTA ATTTA AT
1630042 CAAATTCTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
4 7 0.12
5 49 0.82
6 4 0.07
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (5 bp):
ATTTA
Found at i:1630934 original size:9 final size:9
Alignment explanation
Indices: 1630917--1630953 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
1630907 TGAGTTTTCG
1630917 AATTCGAAT
1 AATTCGAAT
*
1630926 AACTCGAAT
1 AATTCGAAT
1630935 AATTCGAAT
1 AATTCGAAT
1630944 AATTCGAAT
1 AATTCGAAT
1630953 A
1 A
1630954 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:1631605 original size:5 final size:5
Alignment explanation
Indices: 1631595--1631620 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1631585 GAACAAATAT
1631595 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
1631621 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:1631720 original size:5 final size:5
Alignment explanation
Indices: 1631710--1631742 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
1631700 CTCGAAAATT
1631710 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTC
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTC
1631743 AATCGAATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:1632382 original size:14 final size:14
Alignment explanation
Indices: 1632362--1632399 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1632352 AAGCAAAAAC
*
1632362 GAAAAAGAAGGAAA
1 GAAAAAGAAAGAAA
1632376 -AAGAAAGAAAGAAA
1 GAA-AAAGAAAGAAA
1632390 GAAAAAGAAA
1 GAAAAAGAAA
1632400 ATGGAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAAGAAA
Found at i:1632386 original size:18 final size:18
Alignment explanation
Indices: 1632343--1632399 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
1632333 AAATAATTAA
*
1632343 AAAGAAACAAAGCAAAAACG
1 AAAGAAAGAAAG-AAAAA-G
*
1632363 -AA-AAAGAAGGAAAAAG
1 AAAGAAAGAAAGAAAAAG
1632379 AAAGAAAGAAAGAAAAAG
1 AAAGAAAGAAAGAAAAAG
1632397 AAA
1 AAA
1632400 ATGGAGAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.03
17 7 0.22
18 22 0.69
19 2 0.06
ACGTcount: A:0.75, C:0.05, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAAGAAAAAG
Found at i:1632399 original size:10 final size:10
Alignment explanation
Indices: 1632362--1632399 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1632352 AAGCAAAAAC
*
1632362 GAAAAAGAAG
1 GAAAAAGAAA
1632372 GAAAAAGAAA
1 GAAAAAGAAA
1632382 G--AAAGAAA
1 GAAAAAGAAA
1632390 GAAAAAGAAA
1 GAAAAAGAAA
1632400 ATGGAGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 8 0.32
10 17 0.68
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:1633048 original size:25 final size:25
Alignment explanation
Indices: 1632977--1633048 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
1632967 ATTGGATCGT
* *
1632977 ATGAGCTTCCTGTTA-ATGGCTCTC
1 ATGAGCTTCCCGTTATATGGCTCAC
* **
1633001 -CGAAGCTTCCCGTTATACAGCTCAC
1 ATG-AGCTTCCCGTTATATGGCTCAC
1633026 ATGAGCTTCCCGTTATATGGCTC
1 ATGAGCTTCCCGTTATATGGCTC
1633049 GAAAGAGCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
23 1 0.03
24 11 0.30
25 24 0.65
26 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCAC
Found at i:1633056 original size:25 final size:25
Alignment explanation
Indices: 1632979--1633068 Score: 71
Period size: 25 Copynumber: 3.7 Consensus size: 25
1632969 TGGATCGTAT
* * *
1632979 GAGCTTCCTGTTA-ATGGCTCTC-C
1 GAGCTTCCCGTTATATGGCTCACAA
** *
1633002 GAAGCTTCCCGTTATACAGCTCACAT
1 G-AGCTTCCCGTTATATGGCTCACAA
1633028 GAGCTTCCCGTTATATGGCTCGA-AA
1 GAGCTTCCCGTTATATGGCTC-ACAA
*
1633053 GAGCTTCCTGTT-TATG
1 GAGCTTCCCGTTATATG
1633069 TGCTTGTATG
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
23 1 0.02
24 15 0.28
25 36 0.67
26 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAA
Found at i:1633081 original size:25 final size:25
Alignment explanation
Indices: 1633004--1633087 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
1632994 GGCTCTCCGA
**
1633004 AGCTTCCCGTTATACAGCTC-ACATG
1 AGCTTCCCGTTATATGGCTCGA-ATG
*
1633029 AGCTTCCCGTTATATGGCTCGAAAG
1 AGCTTCCCGTTATATGGCTCGAATG
* * *
1633054 AGCTTCCTGTT-TATGTGCTTGTATG
1 AGCTTCCCGTTATATG-GCTCGAATG
1633079 AGCATTCCC
1 AGC-TTCCC
1633088 AAATATGAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
24 4 0.08
25 39 0.81
26 5 0.10
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCGAATG
Found at i:1639858 original size:25 final size:26
Alignment explanation
Indices: 1639824--1639873 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
1639814 CTTAACCTTT
* *
1639824 TTATTTTTTTTTG-TCAATTTGATTC
1 TTATTTTTTTTAGTTAAATTTGATTC
1639849 TTATTTTTTTTAGTTAAATTTGATT
1 TTATTTTTTTTAGTTAAATTTGATT
1639874 TTCAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.20, C:0.04, G:0.08, T:0.68
Consensus pattern (26 bp):
TTATTTTTTTTAGTTAAATTTGATTC
Found at i:1649805 original size:126 final size:125
Alignment explanation
Indices: 1649569--1650011 Score: 699
Period size: 125 Copynumber: 3.5 Consensus size: 125
1649559 GATAAAATCA
* * *
1649569 AAGCAAGATGTTTTATCAGAAGAATTTCTGAAATCGCGCCCATGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCATGTGGACGCGCTTTTGCTACAGT
* *
1649634 AGGTCTTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTACAAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTA-TAAAAAACGCTTC
* * * * *
1649695 AGGCAGGATGCTTTATCAAAAAAATTTCTGATATCACGCCCATGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCATGTGGACGCGCTTTTGCTACAGT
1649760 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
* * **
1649820 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGTGCCCACGTGGACATGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCATGTGGACGCGCTTTTGCTACAGT
** *
1649885 AGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
*
1649945 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCC-TCGTGGACGCGCTTTTACTACAG
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCAT-GTGGACGCGCTTTTGCTACAG
1650009 TAG
65 TAG
1650012 CATGTTTGGG
Statistics
Matches: 289, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
125 186 0.64
126 103 0.36
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCATGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
Found at i:1653844 original size:7 final size:7
Alignment explanation
Indices: 1653834--1653859 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1653824 TTATATACAT
1653834 AATACTA
1 AATACTA
1653841 AATACTA
1 AATACTA
1653848 AATACTA
1 AATACTA
1653855 AATAC
1 AATAC
1653860 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:1657505 original size:10 final size:9
Alignment explanation
Indices: 1657487--1657609 Score: 81
Period size: 9 Copynumber: 13.0 Consensus size: 9
1657477 TTTTTTAAAT
1657487 TAATTTTTA
1 TAATTTTTA
1657496 TAAGTTTTTA
1 TAA-TTTTTA
*
1657506 TAAGTTTATA
1 TAA-TTTTTA
1657516 TAAATTTTGTA
1 T-AATTTT-TA
*
1657527 AATATTTTTA
1 TA-ATTTTTA
1657537 -AATATTTTA
1 TAAT-TTTTA
*
1657546 TTATTTTTA
1 TAATTTTTA
1657555 TAATTTTTA
1 TAATTTTTA
*
1657564 TAAGTTTATA
1 TAA-TTTTTA
*
1657574 TAAATTTT-
1 TAATTTTTA
1657582 TAATATTTTA
1 TAAT-TTTTA
*
1657592 -ATATTTTAA
1 TA-ATTTTTA
*
1657601 TATTTTTTA
1 TAATTTTTA
1657610 CGATTTCTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 22
0.73 0.10 0.18
Matches are distributed among these distances:
8 5 0.05
9 42 0.46
10 35 0.38
11 9 0.10
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:1657539 original size:68 final size:56
Alignment explanation
Indices: 1657489--1657607 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 56
1657479 TTTTAAATTA
1657489 ATTTTTATAAGTTTTTATAAGTTTATATAAATTTTGTAAATATTTTTAAATATTTTATT
1 ATTTTTATAA-TTTTTATAAGTTTATATAAATTTT-T-AATATTTTTAAATATTTTATT
*
1657548 ATTTTTATAATTTTTATAAGTTTATATAAATTTTTAATA-TTTT-AATATTTTAAT
1 ATTTTTATAATTTTTATAAGTTTATATAAATTTTTAATATTTTTAAATATTTTATT
1657602 ATTTTT
1 ATTTTT
1657608 TACGATTTCT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
54 16 0.27
55 4 0.07
56 4 0.07
57 1 0.02
58 24 0.41
59 10 0.17
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (56 bp):
ATTTTTATAATTTTTATAAGTTTATATAAATTTTTAATATTTTTAAATATTTTATT
Found at i:1657590 original size:8 final size:8
Alignment explanation
Indices: 1657579--1657606 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1657569 TTATATAAAT
1657579 TTTTAATA
1 TTTTAATA
1657587 TTTTAATA
1 TTTTAATA
1657595 TTTTAATA
1 TTTTAATA
1657603 TTTT
1 TTTT
1657607 TTACGATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTAATA
Found at i:1659253 original size:10 final size:10
Alignment explanation
Indices: 1659216--1659246 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1659206 TAGATTACCA
1659216 ATATCAATTC
1 ATATCAATTC
1659226 ATATCAATTC
1 ATATCAATTC
*
1659236 ATACCAATTC
1 ATATCAATTC
1659246 A
1 A
1659247 AGTCAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (10 bp):
ATATCAATTC
Found at i:1663282 original size:85 final size:85
Alignment explanation
Indices: 1663183--1663789 Score: 1205
Period size: 85 Copynumber: 7.1 Consensus size: 85
1663173 GTTTATTTTG
1663183 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1663248 ATCTTATTATAGTCCTATTA
66 ATCTTATTATAGTCCTATTA
1663268 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1663333 ATCTTATTATAGTCCTATTA
66 ATCTTATTATAGTCCTATTA
1663353 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1663418 ATCTTATTATAGTCCTATTA
66 ATCTTATTATAGTCCTATTA
1663438 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1663503 ATCTTATTATAGTCCTATTA
66 ATCTTATTATAGTCCTATTA
1663523 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1663588 ATCTTATTATAGTCCTATTA
66 ATCTTATTATAGTCCTATTA
1663608 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1663673 ATCTTATTATAGTCCTATTA
66 ATCTTATTATAGTCCTATTA
1663693 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1 GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
1663758 ATCTTATTATAGTCCTATTA
66 ATCTTATTATAGTCCTATTA
*
1663778 GAATATGATTTT
1 GAATATGGTTTT
1663790 ACAAGGCTAT
Statistics
Matches: 521, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 521 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (85 bp):
GAATATGGTTTTTTAAACCTTATTAAACTCCATCTATTTGATATTGATTAGAATAAGGTGTTTAA
ATCTTATTATAGTCCTATTA
Found at i:1664954 original size:82 final size:82
Alignment explanation
Indices: 1664810--1664970 Score: 234
Period size: 82 Copynumber: 2.0 Consensus size: 82
1664800 GGGAGGTTCT
* * *
1664810 GAATCAAAAGGGAAAACAACCAAAAAATTTCGGTGAAGTTGATGTCATAGAATACTACAGCGATG
1 GAATCAAAAGGGAAAACAACCAAAAAATTTCGGTGAAGCTGATGTCATAGAAGACTACAGCGATA
*
1664875 GTGAACTTCTAGTCTGC
66 GTAAACTTCTAGTCTGC
* * * *
1664892 GAATCAAAAGGGAAAACAACCAGAAAATTTTGGTGAAGCTGATG-CTGTAGAAGACTATAGCGAT
1 GAATCAAAAGGGAAAACAACCAAAAAATTTCGGTGAAGCTGATGTC-ATAGAAGACTACAGCGAT
1664956 AGTAAACTTCTAGTC
65 AGTAAACTTCTAGTC
1664971 GCTTCTGTCA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 1 0.01
82 69 0.99
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (82 bp):
GAATCAAAAGGGAAAACAACCAAAAAATTTCGGTGAAGCTGATGTCATAGAAGACTACAGCGATA
GTAAACTTCTAGTCTGC
Found at i:1677406 original size:270 final size:270
Alignment explanation
Indices: 1676926--1677470 Score: 1013
Period size: 270 Copynumber: 2.0 Consensus size: 270
1676916 TGTACAATTT
1676926 ATAATGATTTTCTAAAGTCAGAACAGGGGACTTTAAAAAACCATTCTGACCCTGTCTCACTAAAA
1 ATAATGATTTTCTAAAGTCAGAACAGGGGACTTTAAAAAACCATTCTGACCCTGTCTCACTAAAA
1676991 TTCAAATATCTCAAAATATAAAATTCACTTGCCTACACCGTTTTTTATGTAAAAATAAACTTGAT
66 TTCAAATATCTCAAAATATAAAATTCACTTGCCTACACCGTTTTTTATGTAAAAATAAACTTGAT
1677056 AAGCTTTAATTCTATATATCATTCACTCTCTAATTCCATTTCTACTATTTATGGTGATTTTTCAC
131 AAGCTTTAATTCTATATATCATTCACTCTCTAATTCCATTTCTACTATTTATGGTGATTTTTCAC
1677121 ATTCACGTCACTGTTGCTGTCAAAGAAATTGTTTGTTTGTATTAGCTACCATTTAAACATACATA
196 ATTCACGTCACTGTTGCTGTCAAAGAAATTGTTTGTTTGTATTAGCTACCATTTAAACATACATA
1677186 ACACCAAAA-
261 ACACCAAAAC
* *
1677195 ATAATGATTTTCTAAAGTTAGAACAGGGGAC-TTCAAAAACCATTCTGACCCTGTCTCACTAAAA
1 ATAATGATTTTCTAAAGTCAGAACAGGGGACTTTAAAAAACCATTCTGACCCTGTCTCACTAAAA
* **
1677259 TTTAAATATCTCAAAATATAAAATTCTTTTGCCTACACCGTTTCTTTCATGTAAAAATAAACTTG
66 TTCAAATATCTCAAAATATAAAATTCACTTGCCTACACCGTTT-TTT-ATGTAAAAATAAACTTG
1677324 ATAAGCTTTAATTCTATATATCATTCACTCTCTAATTCCATTTCTACTATTTATGGTGATTTTTC
129 ATAAGCTTTAATTCTATATATCATTCACTCTCTAATTCCATTTCTACTATTTATGGTGATTTTTC
1677389 ACATTCACGTCACTGTTGCTGTCAAAGAAATTGTTTGTTTGTATTAGCTACCATTTAAACATACA
194 ACATTCACGTCACTGTTGCTGTCAAAGAAATTGTTTGTTTGTATTAGCTACCATTTAAACATACA
1677454 TAACACCAAAAC
259 TAACACCAAAAC
1677466 ATAAT
1 ATAAT
1677471 CTTTACTAAC
Statistics
Matches: 268, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
268 72 0.27
269 33 0.12
270 158 0.59
271 5 0.02
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (270 bp):
ATAATGATTTTCTAAAGTCAGAACAGGGGACTTTAAAAAACCATTCTGACCCTGTCTCACTAAAA
TTCAAATATCTCAAAATATAAAATTCACTTGCCTACACCGTTTTTTATGTAAAAATAAACTTGAT
AAGCTTTAATTCTATATATCATTCACTCTCTAATTCCATTTCTACTATTTATGGTGATTTTTCAC
ATTCACGTCACTGTTGCTGTCAAAGAAATTGTTTGTTTGTATTAGCTACCATTTAAACATACATA
ACACCAAAAC
Found at i:1684659 original size:6 final size:6
Alignment explanation
Indices: 1684648--1684676 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1684638 TTGTTGTTAC
1684648 CAATGG CAATGG CAATGG CAATGG CAATG
1 CAATGG CAATGG CAATGG CAATGG CAATG
1684677 AATGATGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (6 bp):
CAATGG
Found at i:1689239 original size:14 final size:15
Alignment explanation
Indices: 1689203--1689239 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1689193 CTTAAATTCA
1689203 TAATTTTTCAACACT
1 TAATTTTTCAACACT
* *
1689218 TAATTTTTCAATATT
1 TAATTTTTCAACACT
1689233 TAATTTT
1 TAATTTT
1689240 ACAGTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATTTTTCAACACT
Found at i:1690791 original size:6 final size:6
Alignment explanation
Indices: 1690782--1690809 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1690772 ATGATTAGGA
1690782 TTTTGT TTTTGT TTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTT
1690810 CTTAATGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:1692516 original size:33 final size:33
Alignment explanation
Indices: 1692473--1692536 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
1692463 GTACACAAAA
1692473 TAAAAATTCATGA-ATCAAAATATACATTAAAGC
1 TAAAAATTCAT-ATATCAAAATATACATTAAAGC
* *
1692506 TAAAAGTTCATATATCAAATTATACATTAAA
1 TAAAAATTCATATATCAAAATATACATTAAA
1692537 ATAAAGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (33 bp):
TAAAAATTCATATATCAAAATATACATTAAAGC
Found at i:1695817 original size:30 final size:28
Alignment explanation
Indices: 1695781--1695845 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
1695771 AACTCTAAAC
**
1695781 TAAAAAAACTAATTTTATTTGCTTCAAAA
1 TAAAAAAACT-ATCCTATTTGCTTCAAAA
**
1695810 TTAAAAAATGTATCCTATTTGCTTCAAAA
1 -TAAAAAAACTATCCTATTTGCTTCAAAA
1695839 TAAAAAA
1 TAAAAAA
1695846 TAAAATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 7 0.23
29 16 0.52
30 8 0.26
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (28 bp):
TAAAAAAACTATCCTATTTGCTTCAAAA
Found at i:1703202 original size:18 final size:18
Alignment explanation
Indices: 1703181--1703215 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1703171 AAAAGAAGGA
1703181 AATTAAAGAAAATTAAAG
1 AATTAAAGAAAATTAAAG
**
1703199 AATTAAATTAAATTAAA
1 AATTAAAGAAAATTAAA
1703216 TTGTTGAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AATTAAAGAAAATTAAAG
Found at i:1704710 original size:142 final size:142
Alignment explanation
Indices: 1704510--1704788 Score: 425
Period size: 142 Copynumber: 2.0 Consensus size: 142
1704500 AAAACAGATT
* *
1704510 ATTTTTTAAGTTAAAATTGATTTTCAATCCAAACCCAAAAGCTATTACGTTCGTAAAAAAAAACA
1 ATTTTTTAAATTAAAATTGATTTTCAATCCAAACCCAAAAGCTATTACGTTCGGAAAAAAAAACA
* * *
1704575 CTTTT-GGAGTCCAAGGATATTTTTAACTCTTATTTATAATCTAATGTATTTTATATAATATTTA
66 -TTTTCGGAGTCAAAGAATATTTTTAACTCTTATTTATAATCTAATATATTTTATATAATATTTA
1704639 TATTGGACCGGCC
130 TATTGGACCGGCC
* * * * *
1704652 ATTTTTTAAATTAAATTTGTTTTTCAATCCAAACCCAAAAGCTATTGCGTTTGGAAAAAAAAATA
1 ATTTTTTAAATTAAAATTGATTTTCAATCCAAACCCAAAAGCTATTACGTTCGGAAAAAAAAACA
* * *
1704717 TTTTCGGAGTCAAAGAATCTTTTTAACTCTTATTTATAATTTAATATATTTTATATAATATTTGT
66 TTTTCGGAGTCAAAGAATATTTTTAACTCTTATTTATAATCTAATATATTTTATATAATATTTAT
1704782 ATTGGAC
131 ATTGGAC
1704789 TTAAATTTAT
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
141 4 0.03
142 119 0.97
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (142 bp):
ATTTTTTAAATTAAAATTGATTTTCAATCCAAACCCAAAAGCTATTACGTTCGGAAAAAAAAACA
TTTTCGGAGTCAAAGAATATTTTTAACTCTTATTTATAATCTAATATATTTTATATAATATTTAT
ATTGGACCGGCC
Found at i:1718420 original size:29 final size:29
Alignment explanation
Indices: 1718368--1718425 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1718358 AGGGAAATTT
1718368 TTTAATTTTTTGGGGCCATCACAT-TAAA
1 TTTAATTTTTTGGGGCCATCACATATAAA
*
1718396 TTTACATTTTTTGGGGGCC-TTACATATAAA
1 TTTA-ATTTTTT-GGGGCCATCACATATAAA
1718426 GAGAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 4 0.15
29 12 0.46
30 10 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (29 bp):
TTTAATTTTTTGGGGCCATCACATATAAA
Found at i:1727542 original size:18 final size:18
Alignment explanation
Indices: 1727521--1727555 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1727511 CAAGTATTCA
*
1727521 ACCCAACCCAATCCAATT
1 ACCCAACCCAACCCAATT
1727539 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
1727556 CATAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.49, G:0.00, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:1727831 original size:12 final size:12
Alignment explanation
Indices: 1727814--1727838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1727804 TGTTATTTCG
1727814 GGTCGGTTAACC
1 GGTCGGTTAACC
1727826 GGTCGGTTAACC
1 GGTCGGTTAACC
1727838 G
1 G
1727839 AATGAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:1731540 original size:57 final size:57
Alignment explanation
Indices: 1731452--1731569 Score: 227
Period size: 57 Copynumber: 2.1 Consensus size: 57
1731442 TAATCTGTTT
*
1731452 TTGTTTTGAGAGTATTTTAAAATAATAAATGGTTTCACGAGTTAGTTTGGACCCGTG
1 TTGTTTTGAGAGTATTTCAAAATAATAAATGGTTTCACGAGTTAGTTTGGACCCGTG
1731509 TTGTTTTGAGAGTATTTCAAAATAATAAATGGTTTCACGAGTTAGTTTGGACCCGTG
1 TTGTTTTGAGAGTATTTCAAAATAATAAATGGTTTCACGAGTTAGTTTGGACCCGTG
1731566 TTGT
1 TTGT
1731570 CTTAAGTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (57 bp):
TTGTTTTGAGAGTATTTCAAAATAATAAATGGTTTCACGAGTTAGTTTGGACCCGTG
Found at i:1733386 original size:92 final size:92
Alignment explanation
Indices: 1733229--1733413 Score: 325
Period size: 92 Copynumber: 2.0 Consensus size: 92
1733219 CAAGAGGACT
* * * *
1733229 TTTCCTATAAATATCTTGGAAAACTATGAACAGGGGATTGCCTTTTTAGCACCCTGAAGTCACTC
1 TTTCCTATAAATATCTTAGAAAACTATGAACAAGGGATCGCCTTTTTAGCACCCTAAAGTCACTC
1733294 TCAACATTTATCCTTTTAATCAGCCTG
66 TCAACATTTATCCTTTTAATCAGCCTG
1733321 TTTCCTATAAATATCTTAGAAAACTATGAACAAGGGATCGCCTTTTTAGCACCCTAAAGTCACTC
1 TTTCCTATAAATATCTTAGAAAACTATGAACAAGGGATCGCCTTTTTAGCACCCTAAAGTCACTC
*
1733386 TCAACATTTATCCTTTTAATTAGCCTG
66 TCAACATTTATCCTTTTAATCAGCCTG
1733413 T
1 T
1733414 CCTCTTGTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (92 bp):
TTTCCTATAAATATCTTAGAAAACTATGAACAAGGGATCGCCTTTTTAGCACCCTAAAGTCACTC
TCAACATTTATCCTTTTAATCAGCCTG
Found at i:1735552 original size:25 final size:24
Alignment explanation
Indices: 1735501--1735557 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
1735491 ATGTGGACAA
* *
1735501 AATAAAACACGAAATTTTGGATAG
1 AATAAAACACGAAATTGTAGATAG
* *
1735525 AATAAAACCATGAAATTGTAGATTG
1 AATAAAA-CACGAAATTGTAGATAG
1735550 AATTAAAA
1 AA-TAAAA
1735558 ATAAAGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.26
25 15 0.56
26 5 0.19
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (24 bp):
AATAAAACACGAAATTGTAGATAG
Found at i:1748135 original size:7 final size:7
Alignment explanation
Indices: 1748123--1748148 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1748113 TTAATAAACA
1748123 TATTAAT
1 TATTAAT
1748130 TATTAAT
1 TATTAAT
1748137 TATTAAT
1 TATTAAT
1748144 TATTA
1 TATTA
1748149 CAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTAAT
Found at i:1748883 original size:28 final size:28
Alignment explanation
Indices: 1748831--1748887 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
1748821 ATAAAAATCG
*
1748831 TAAAAAAATATTTAAAATATTAAAATTA
1 TAAAAAAATATTTAAAATATGAAAATTA
1748859 TAAAAAAAT-TATTAGAAAT-TGAAAATTA
1 TAAAAAAATAT-TTA-AAATATGAAAATTA
1748887 T
1 T
1748888 TGTAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 1 0.04
28 21 0.81
29 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (28 bp):
TAAAAAAATATTTAAAATATGAAAATTA
Found at i:1750176 original size:19 final size:20
Alignment explanation
Indices: 1750154--1750195 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1750144 TATAATTTTA
*
1750154 TAATTTTTT-TTTCTATTTG
1 TAATTTTTTATATCTATTTG
*
1750173 TAATTTTTTATATCTTTTTG
1 TAATTTTTTATATCTATTTG
1750193 TAA
1 TAA
1750196 ATCTTTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (20 bp):
TAATTTTTTATATCTATTTG
Found at i:1750192 original size:20 final size:19
Alignment explanation
Indices: 1750149--1750195 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1750139 TATTTTATAA
* *
1750149 TTTTATAATTTTTTTTTCT
1 TTTTGTAATTTTTTTATCT
*
1750168 ATTTGTAATTTTTTATATCT
1 TTTTGTAATTTTTT-TATCT
1750188 TTTTGTAA
1 TTTTGTAA
1750196 ATCTTTTGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTGTAATTTTTTTATCT
Found at i:1750798 original size:40 final size:40
Alignment explanation
Indices: 1750715--1750810 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
1750705 AAAAAAGCAA
*
1750715 AAAAGCGCGTTGACG-GGGATTCGCTTTACCCGTGTCAGC
1 AAAAGCACGTTGACGTGGGATTCGCTTTACCCGTGTCAGC
*
1750754 AAAAGCACGTTGACGTGGGCA-T-GCTTTGCCACGTGTCAGC
1 AAAAGCACGTTGACGTGGG-ATTCGCTTTACC-CGTGTCAGC
*
1750794 AAAAGCACGTTAACGTG
1 AAAAGCACGTTGACGTG
1750811 AACGCGCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
39 21 0.41
40 29 0.57
41 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
AAAAGCACGTTGACGTGGGATTCGCTTTACCCGTGTCAGC
Found at i:1750820 original size:40 final size:39
Alignment explanation
Indices: 1750736--1750824 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 39
1750726 GACGGGGATT
* **
1750736 CGCTTTACCCGTGTCAGCAAAAGCACGTTGACGTGGGCA
1 CGCTTTACCCGTGTCAGCAAAAGCACGTTAACGTGAACA
* * *
1750775 TGCTTTGCCACGTGTCAGCAAAAGCACGTTAACGTGAACG
1 CGCTTTACC-CGTGTCAGCAAAAGCACGTTAACGTGAACA
1750815 CGCTTTACCC
1 CGCTTTACCC
1750825 CGTATTTTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 8 0.20
40 33 0.80
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CGCTTTACCCGTGTCAGCAAAAGCACGTTAACGTGAACA
Found at i:1762863 original size:114 final size:112
Alignment explanation
Indices: 1762555--1762864 Score: 309
Period size: 114 Copynumber: 2.7 Consensus size: 112
1762545 TGGTCATAAA
* * * *
1762555 CGCCGCAAAACTGTTAAGAAAACGATGTCGTTTTCAGTTTAGGTTTTGGGGACTTTAGTGGCGCT
1 CGCCGCAAAACTGTTAAGAAAACGATGTCGTTTTTAATTTAGGTTTTAGAGACTTTAGTGGCGCT
* * *
1762620 TACTGAAAAAAGCCGCTATAGTCAAGAATTAGCAGCGCTTTATTATAAG
66 TTCT-AAAAAAGCCGC-ATAGTCAAGAATTAGCAGCGCTTTATCACAAG
* * * * ** * * *
1762669 CGCCGCAAAACTGTTAAGAAAATGTTGCCGTTTTTCATTTATCTTTTCGAGACGTTAGTGGCGAT
1 CGCCGCAAAACTGTTAAGAAAACGATGTCGTTTTTAATTTAGGTTTTAGAGACTTTAGTGGCGCT
* ** **
1762734 TT-TCAGAAAACGCCGCAGTAG-CGAAGCTTTAGTGGCGCTTTATCACAAG
66 TTCT-A-AAAAAGCCGCA-TAGTC-AAGAATTAGCAGCGCTTTATCACAAG
* * * *
1762783 TGCCGCAAAACTGTTAAGAAAGCGATGTTGTTTTTAATTTAGGTTTTAGAGTCTTTAGTGGCGCT
1 CGCCGCAAAACTGTTAAGAAAACGATGTCGTTTTTAATTTAGGTTTTAGAGACTTTAGTGGCGCT
*
1762848 TGTCTAAAAATGCCGCA
66 T-TCTAAAAAAGCCGCA
1762865 AAATATAGGA
Statistics
Matches: 156, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
113 4 0.03
114 149 0.96
115 2 0.01
116 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (112 bp):
CGCCGCAAAACTGTTAAGAAAACGATGTCGTTTTTAATTTAGGTTTTAGAGACTTTAGTGGCGCT
TTCTAAAAAAGCCGCATAGTCAAGAATTAGCAGCGCTTTATCACAAG
Found at i:1763166 original size:73 final size:73
Alignment explanation
Indices: 1763021--1763166 Score: 172
Period size: 73 Copynumber: 2.0 Consensus size: 73
1763011 AAGCGCCACA
* * *
1763021 AAACTATTAAGCAAATGATGTCGTTTATTATTTAGCATTTAAGGCCTTTAGTGGCGCTCGTTTAA
1 AAACTATTAAGCAAAAGATGTCGTTTATTATATAGCATTTAAGGACTTTAGTGGCGC-CGTTTAA
1763086 AAACGCCAT
65 AAACGCCAT
* * **
1763095 AAACTGTTAAGGAAAAGATGTCGTTT-TTATATAGC-TTTTTGAGACTTTAGTGGCG-CGTATTA
1 AAACTATTAAGCAAAAGATGTCGTTTATTATATAGCATTTAAG-GACTTTAGTGGCGCCGT-TTA
1763157 ATAAACGCCA
64 A-AAACGCCA
1763167 CAATAGTCAG
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
71 3 0.05
72 8 0.13
73 28 0.45
74 23 0.37
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (73 bp):
AAACTATTAAGCAAAAGATGTCGTTTATTATATAGCATTTAAGGACTTTAGTGGCGCCGTTTAAA
AACGCCAT
Found at i:1763474 original size:21 final size:21
Alignment explanation
Indices: 1763452--1763524 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
1763442 TCAGGGTTTA
1763452 GGGTTTAAGGGATATGGGTTAG
1 GGGTTT-AGGGATATGGGTTAG
* *
1763474 GGGTTTATGGATATGGTTTA-
1 GGGTTTAGGGATATGGGTTAG
* * * * * *
1763494 AGGATTGGGGTTAAGGGTTAA
1 GGGTTTAGGGATATGGGTTAG
1763515 GGGTTTAGGG
1 GGGTTTAGGG
1763525 GTGAAGGGTT
Statistics
Matches: 38, Mismatches: 12, Indels: 3
0.72 0.23 0.06
Matches are distributed among these distances:
20 13 0.34
21 19 0.50
22 6 0.16
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (21 bp):
GGGTTTAGGGATATGGGTTAG
Found at i:1763578 original size:8 final size:7
Alignment explanation
Indices: 1763500--1763576 Score: 66
Period size: 7 Copynumber: 10.9 Consensus size: 7
1763490 TTTAAGGATT
1763500 GGGGTTA
1 GGGGTTA
*
1763507 AGGGTTAA
1 GGGGTT-A
*
1763515 GGGTTTA
1 GGGGTTA
*
1763522 GGGGTGA
1 GGGGTTA
*
1763529 AGGGTTA
1 GGGGTTA
* *
1763536 AGGGCT-
1 GGGGTTA
1763542 GGGGTTA
1 GGGGTTA
1763549 GGGGTTA
1 GGGGTTA
*
1763556 GGAGTTA
1 GGGGTTA
1763563 GGGGTTTA
1 GGGG-TTA
1763571 GGGGTT
1 GGGGTT
1763577 TATAGTTAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
6 4 0.07
7 39 0.71
8 12 0.22
ACGTcount: A:0.18, C:0.01, G:0.52, T:0.29
Consensus pattern (7 bp):
GGGGTTA
Found at i:1763584 original size:22 final size:21
Alignment explanation
Indices: 1763500--1763576 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 21
1763490 TTTAAGGATT
*
1763500 GGGGTTAAGGGTTAAGG-GTTTA
1 GGGGTTAGGGGTT-AGGAG-TTA
* * *
1763522 GGGGTGAAGGGTTAAGG-GCT-
1 GGGGTTAGGGGTT-AGGAGTTA
1763542 GGGGTTAGGGGTTAGGAGTTA
1 GGGGTTAGGGGTTAGGAGTTA
1763563 GGGGTTTAGGGGTT
1 GGGG-TTAGGGGTT
1763577 TATAGTTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 3 0.06
20 13 0.28
21 5 0.11
22 26 0.55
ACGTcount: A:0.18, C:0.01, G:0.52, T:0.29
Consensus pattern (21 bp):
GGGGTTAGGGGTTAGGAGTTA
Found at i:1763651 original size:76 final size:76
Alignment explanation
Indices: 1763567--1763735 Score: 338
Period size: 76 Copynumber: 2.2 Consensus size: 76
1763557 GAGTTAGGGG
1763567 TTTAGGGGTTTATAGTTAATGTTTTATGATTCAATAAGGGTTACGAGTTAAGGGTTTATGATTTA
1 TTTAGGGGTTTATAGTTAATGTTTTATGATTCAATAAGGGTTACGAGTTAAGGGTTTATGATTTA
1763632 TAAGTTTTGGA
66 TAAGTTTTGGA
1763643 TTTAGGGGTTTATAGTTAATGTTTTATGATTCAATAAGGGTTACGAGTTAAGGGTTTATGATTTA
1 TTTAGGGGTTTATAGTTAATGTTTTATGATTCAATAAGGGTTACGAGTTAAGGGTTTATGATTTA
1763708 TAAGTTTTGGA
66 TAAGTTTTGGA
1763719 TTTAGGGGTTTATAGTT
1 TTTAGGGGTTTATAGTT
1763736 TATATATTTA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 93 1.00
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (76 bp):
TTTAGGGGTTTATAGTTAATGTTTTATGATTCAATAAGGGTTACGAGTTAAGGGTTTATGATTTA
TAAGTTTTGGA
Found at i:1765579 original size:27 final size:29
Alignment explanation
Indices: 1765525--1765580 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
1765515 ATTTAATTTA
* *
1765525 TATTAAGTTGATTGTTACTTTATCAATTAT
1 TATTAAGTTGATTGTTA-GTGATCAATTAT
1765555 TATTAAGTTGATTGTT-GTGAT-AATTA
1 TATTAAGTTGATTGTTAGTGATCAATTA
1765581 AAATTGATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 3 0.12
30 16 0.67
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (29 bp):
TATTAAGTTGATTGTTAGTGATCAATTAT
Found at i:1766496 original size:21 final size:22
Alignment explanation
Indices: 1766472--1766513 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1766462 AAATTTAAAA
* *
1766472 ATTTATTTTTTTTAAA-ATATG
1 ATTTATATATTTTAAATATATG
1766493 ATTTATATATTTTAAATATAT
1 ATTTATATATTTTAAATATAT
1766514 TTTAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTATATATTTTAAATATATG
Found at i:1766765 original size:40 final size:40
Alignment explanation
Indices: 1766708--1766784 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
1766698 TATATTTTTA
1766708 AAAATTGATACAATACATAACTTGCATAACCTACATACAT
1 AAAATTGATACAATACATAACTTGCATAACCTACATACAT
*
1766748 AAAATTGATACATTACATAACTTGCATAACCTACATA
1 AAAATTGATACAATACATAACTTGCATAACCTACATA
1766785 AAATTAAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.29
Consensus pattern (40 bp):
AAAATTGATACAATACATAACTTGCATAACCTACATACAT
Found at i:1766805 original size:20 final size:20
Alignment explanation
Indices: 1766782--1766820 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1766772 CATAACCTAC
1766782 ATAAAATTAAGATAACTTAT
1 ATAAAATTAAGATAACTTAT
*
1766802 ATAATATTAAGATAACTTA
1 ATAAAATTAAGATAACTTA
1766821 CATTCTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAAAATTAAGATAACTTAT
Found at i:1766847 original size:25 final size:25
Alignment explanation
Indices: 1766826--1766891 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
1766816 ACTTACATTC
1766826 TACAGAACTTACATAACATACATAA
1 TACAGAACTTACATAACATACATAA
*
1766851 TACATAACTTACATAAC-TAACATAA
1 TACAGAACTTACATAACAT-ACATAA
* *
1766876 TACATAGCTTACATAA
1 TACAGAACTTACATAA
1766892 TACTCAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (25 bp):
TACAGAACTTACATAACATACATAA
Found at i:1766864 original size:41 final size:41
Alignment explanation
Indices: 1766813--1767046 Score: 119
Period size: 41 Copynumber: 5.7 Consensus size: 41
1766803 TAATATTAAG
* *
1766813 ATAACTTACATTCTACAGAACTTACATAACATACATAATAC
1 ATAACTTACATACTACATAACTTACATAACATACATAATAC
* *
1766854 ATAACTTACATAACTAACATAA--TACATAGCTTACATAATACTC
1 ATAACTTACAT-ACT-ACATAACTTACATAACATACATAATA--C
* * * * *
1766897 AACTTAGCTTACATAATAAATAACTTACATAAAATACA-ACTTAC
1 -A--TAACTTACATACTACATAACTTACATAACATACATA-ATAC
* * * * * * * *
1766941 ATAGCTTACATTCTACACAATTTACGTAGCTTACATAATAA
1 ATAACTTACATACTACATAACTTACATAACATACATAATAC
** * *
1766982 ATAACTTACATAAAATACAACTTACATAA-A-A-A-AATGA-
1 ATAACTTACATACTACATAACTTACATAACATACATAAT-AC
*
1767019 ACAACTTACATA-T-CATAACTTACATAAC
1 ATAACTTACATACTACATAACTTACATAAC
1767047 TCATTTATAC
Statistics
Matches: 145, Mismatches: 35, Indels: 31
0.69 0.17 0.15
Matches are distributed among these distances:
35 12 0.08
37 14 0.10
38 2 0.01
39 1 0.01
41 75 0.52
42 3 0.02
43 7 0.05
44 7 0.05
45 3 0.02
46 21 0.14
ACGTcount: A:0.48, C:0.20, G:0.03, T:0.29
Consensus pattern (41 bp):
ATAACTTACATACTACATAACTTACATAACATACATAATAC
Found at i:1766868 original size:9 final size:9
Alignment explanation
Indices: 1766760--1766994 Score: 84
Period size: 9 Copynumber: 26.9 Consensus size: 9
1766750 AATTGATACA
1766760 TTACATAAC
1 TTACATAAC
*
1766769 TTGCATAAC
1 TTACATAAC
* *
1766778 CTACATAAAA
1 TTACAT-AAC
*
1766788 TTAAGATAAC
1 TT-ACATAAC
* *
1766798 TTATATAATA
1 TTACATAA-C
*
1766808 TTAAGATAAC
1 TT-ACATAAC
*
1766818 TTACAT-TC
1 TTACATAAC
*
1766826 -TACAGAAC
1 TTACATAAC
1766834 TTACATAAC
1 TTACATAAC
*
1766843 ATACATAA-
1 TTACATAAC
1766851 -TACATAAC
1 TTACATAAC
1766859 TTACATAAC
1 TTACATAAC
*
1766868 TAACATAA-
1 TTACATAAC
*
1766876 -TACATAGC
1 TTACATAAC
1766884 TTACATAATAC
1 TTACAT-A-AC
* * *
1766895 TCAACTTAGC
1 T-TACATAAC
1766905 TTACATAA-
1 TTACATAAC
*
1766913 -TAAATAAC
1 TTACATAAC
*
1766921 TTACATAAA
1 TTACATAAC
*
1766930 ATAC--AAC
1 TTACATAAC
*
1766937 TTACATAGC
1 TTACATAAC
*
1766946 TTACAT-TC
1 TTACATAAC
* *
1766954 -TACACAAT
1 TTACATAAC
* *
1766962 TTACGTAGC
1 TTACATAAC
1766971 TTACATAA-
1 TTACATAAC
*
1766979 -TAAATAAC
1 TTACATAAC
1766987 TTACATAA
1 TTACATAA
1766995 AATACAACTT
Statistics
Matches: 159, Mismatches: 46, Indels: 42
0.64 0.19 0.17
Matches are distributed among these distances:
7 37 0.23
8 3 0.02
9 91 0.57
10 14 0.09
11 11 0.07
12 3 0.02
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:1766902 original size:16 final size:16
Alignment explanation
Indices: 1766813--1767010 Score: 80
Period size: 16 Copynumber: 11.8 Consensus size: 16
1766803 TAATATTAAG
**
1766813 ATAACTTACATTCTAC
1 ATAACTTACATAATAC
*
1766829 AGAACTTACATAACATAC
1 ATAACTTACAT-A-ATAC
1766847 ATAA--TACATAACTTAC
1 ATAACTTACATAA--TAC
*
1766863 ATAACTAACATAATAC
1 ATAACTTACATAATAC
*
1766879 ATAGCTTACATAATACTC
1 ATAACTTACATAATA--C
* *
1766897 AACTTAGCTTACATAATAA
1 -A--TAACTTACATAATAC
* *
1766916 ATAACTTACATAAAAT
1 ATAACTTACATAATAC
* *
1766932 ACAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
* *
1766950 AT-TC-TACACAATTTAC
1 ATAACTTACATAA--TAC
* * *
1766966 GTAGCTTACATAATAA
1 ATAACTTACATAATAC
* *
1766982 ATAACTTACATAAAAT
1 ATAACTTACATAATAC
*
1766998 ACAACTTACATAA
1 ATAACTTACATAA
1767011 AAAAATGAAC
Statistics
Matches: 137, Mismatches: 28, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
14 1 0.01
15 1 0.01
16 96 0.70
17 2 0.01
18 22 0.16
19 1 0.01
21 14 0.10
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:1766921 original size:21 final size:21
Alignment explanation
Indices: 1766880--1766923 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1766870 ACATAATACA
*
1766880 TAGCTTACATAATACTCAACT
1 TAGCTTACATAATAATCAACT
1766901 TAGCTTACATAATAAAT-AACT
1 TAGCTTACATAAT-AATCAACT
1766922 TA
1 TA
1766924 CATAAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (21 bp):
TAGCTTACATAATAATCAACT
Found at i:1766924 original size:62 final size:64
Alignment explanation
Indices: 1766844--1767009 Score: 196
Period size: 66 Copynumber: 2.6 Consensus size: 64
1766834 TTACATAACA
* * * *
1766844 TACATAATACATAACTTACAT-AACTAACATA-ATACATAGCTTACATAATACTC-A-ACTTAGC
1 TACATAATAAATAACTTACATAAAAT-ACA-ACATACATAGCTTACATAATACACAATACGTAGC
1766905 T
64 T
* **
1766906 TACATAATAAATAACTTACATAAAATACAACTTACATAGCTTACATTCTACACAATTTACGTAGC
1 TACATAATAAATAACTTACATAAAATACAACATACATAGCTTACATAATACACAA--TACGTAGC
1766971 T
64 T
*
1766972 TACATAATAAATAACTTACATAAAATACAACTTACATA
1 TACATAATAAATAACTTACATAAAATACAACATACATA
1767010 AAAAAATGAA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
61 1 0.01
62 41 0.45
63 4 0.04
66 45 0.49
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (64 bp):
TACATAATAAATAACTTACATAAAATACAACATACATAGCTTACATAATACACAATACGTAGCT
Found at i:1766948 original size:25 final size:24
Alignment explanation
Indices: 1766920--1766993 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
1766910 TAATAAATAA
1766920 CTTACATAAAATACAACTTACATAG
1 CTTACATAAAA-ACAACTTACATAG
** * * *
1766945 CTTACATTCTACACAATTTACGTAG
1 CTTACA-TAAAAACAACTTACATAG
*
1766970 CTTACATAATAAATAACTTACATA
1 CTTACATAA-AAACAACTTACATA
1766994 AAATACAACT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
24 1 0.03
25 33 0.92
26 2 0.06
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.32
Consensus pattern (24 bp):
CTTACATAAAAACAACTTACATAG
Found at i:1770314 original size:433 final size:433
Alignment explanation
Indices: 1769508--1770371 Score: 1629
Period size: 433 Copynumber: 2.0 Consensus size: 433
1769498 TTAATTAAAA
1769508 TTTTTAAAATTTTCCTTCATTCACCTCTATGCCTTTAGTTACAACTTTTGATAATGTTGTATATT
1 TTTTTAAAATTTTCCTTCATTCACCTCTATGCCTTTAGTTACAACTTTTGATAATGTTGTATATT
*
1769573 GTGTTTAGGTTCCTATCCAAATTAAAGTCTTACTGCCGCAACAAGCGATATCCAGAAGGATCGAT
66 ATGTTTAGGTTCCTATCCAAATTAAAGTCTTACTGCCGCAACAAGCGATATCCAGAAGGATCGAT
1769638 TGCTGAAGGCTACTTGGCAGAGGAATGTATGACCTTCTGCTCAAGATATTTGGAAGATGTTGAAA
131 TGCTGAAGGCTACTTGGCAGAGGAATGTATGACCTTCTGCTCAAGATATTTGGAAGATGTTGAAA
* * *
1769703 TAAGGTTGAACAGACCAAATAGGAATGCTGGACTCACGGACCATAACTTCGCCGATACTTATTTG
196 CAAGGTTAAACAGACCAAATAGGAATGCTGGACTCACGGACCATAACTTAGCCGATACTTATTTG
*
1769768 TTCCAAAGTTTTGGAGAACCAATCGGCAAAGTTGAAATTGCAGAATTAGATCATTTATCGTGGGT
261 TTCCAAAGTTTTGGAGAACCAATCGGCAAAGTTGAAATTACAGAATTAGATCATTTATCGTGGGT
1769833 ACAAGCACATCGATATGTTCTGTTTCACCACAAATCAATGGAACCTTTACGGAAGTAAGTTCTAC
326 ACAAGCACATCGATATGTTCTGTTTCACCACAAATCAATGGAACCTTTACGGAAGTAAGTTCTAC
1769898 AAATTTGATAAATATTTACCAAACTAAAAATCGTTTATCTTTT
391 AAATTTGATAAATATTTACCAAACTAAAAATCGTTTATCTTTT
*
1769941 TTTTTAAAATTTTCCTTCATTCACCTCTATGCCTTTAGTTACAACTTTTGATCATGTTGTATATT
1 TTTTTAAAATTTTCCTTCATTCACCTCTATGCCTTTAGTTACAACTTTTGATAATGTTGTATATT
*
1770006 ATGTTTAGGTTCCTATTCAAATTAAAGTCTTACTGCCGCAACAAGCGATATCCAGAAGGATCGAT
66 ATGTTTAGGTTCCTATCCAAATTAAAGTCTTACTGCCGCAACAAGCGATATCCAGAAGGATCGAT
1770071 TGCTGAAGGCTACTTGGCAGAGGAATGTATGACCTTCTGCTCAAGATATTTGGAAGATGTTGAAA
131 TGCTGAAGGCTACTTGGCAGAGGAATGTATGACCTTCTGCTCAAGATATTTGGAAGATGTTGAAA
1770136 CAAGGTTAAACAGACCAAATAGGAATGCTGGACTCACGGACCATAACTTAGCCGATACTTATTTG
196 CAAGGTTAAACAGACCAAATAGGAATGCTGGACTCACGGACCATAACTTAGCCGATACTTATTTG
1770201 TTCCAAAGTTTTGGAGAACCAATCGGCAAAGTTGAAATTACAGAATTAGATCATTTATCGTGGGT
261 TTCCAAAGTTTTGGAGAACCAATCGGCAAAGTTGAAATTACAGAATTAGATCATTTATCGTGGGT
* *
1770266 ACAAGCACATCGATATGTTCTGTTTCACCACGAATCATTGGAACCTTTACGGAAGTAAGTTCTAC
326 ACAAGCACATCGATATGTTCTGTTTCACCACAAATCAATGGAACCTTTACGGAAGTAAGTTCTAC
* *
1770331 AAATTTGATAAATATTTATCAAACTAAAAATTGTTTATCTT
391 AAATTTGATAAATATTTACCAAACTAAAAATCGTTTATCTT
1770372 CTAACAAAGT
Statistics
Matches: 420, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
433 420 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (433 bp):
TTTTTAAAATTTTCCTTCATTCACCTCTATGCCTTTAGTTACAACTTTTGATAATGTTGTATATT
ATGTTTAGGTTCCTATCCAAATTAAAGTCTTACTGCCGCAACAAGCGATATCCAGAAGGATCGAT
TGCTGAAGGCTACTTGGCAGAGGAATGTATGACCTTCTGCTCAAGATATTTGGAAGATGTTGAAA
CAAGGTTAAACAGACCAAATAGGAATGCTGGACTCACGGACCATAACTTAGCCGATACTTATTTG
TTCCAAAGTTTTGGAGAACCAATCGGCAAAGTTGAAATTACAGAATTAGATCATTTATCGTGGGT
ACAAGCACATCGATATGTTCTGTTTCACCACAAATCAATGGAACCTTTACGGAAGTAAGTTCTAC
AAATTTGATAAATATTTACCAAACTAAAAATCGTTTATCTTTT
Found at i:1772970 original size:21 final size:20
Alignment explanation
Indices: 1772944--1773011 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
1772934 CTACAACTTA
*
1772944 AAGCAGAGACGGCAGCGAGGG
1 AAGCAGAG-CTGCAGCGAGGG
*
1772965 AAGCAGCAGTTGCAGCGAGGG
1 AAGCAG-AGCTGCAGCGAGGG
* *
1772986 AATCAGAGGCTGCAGCGAGAG
1 AAGCAGA-GCTGCAGCGAGGG
1773007 AAGCA
1 AAGCA
1773012 AAGTAGAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 36 0.92
22 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.41, T:0.06
Consensus pattern (20 bp):
AAGCAGAGCTGCAGCGAGGG
Found at i:1774985 original size:22 final size:23
Alignment explanation
Indices: 1774951--1774994 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
1774941 GTGATGAGGT
**
1774951 TATCTTATGAATACGTT-AAATC
1 TATCTTAAAAATACGTTGAAATC
*
1774973 TATCTTAAAAATATGTTGAAAT
1 TATCTTAAAAATACGTTGAAAT
1774995 GGATTGGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
TATCTTAAAAATACGTTGAAATC
Found at i:1775574 original size:157 final size:156
Alignment explanation
Indices: 1775279--1775574 Score: 409
Period size: 157 Copynumber: 1.9 Consensus size: 156
1775269 AGCTGGGAGG
* * * * *
1775279 TTTTTTAGTATTTTTGTTGACAATGCATCCTACTTGAAGCGTTTTTCAACCCCAACTATCAGATT
1 TTTTTTAGTACTTTTGCTGACAATACATCCTACTTGAAACATTTTTCAACCCCAACTATCAGATT
* * *
1775344 TCCCGTGAATCCCAGGATTTTTTTTTTCAAAAACATCTTCTCAAAAATATTTTTCAAAATCAACA
66 TCCCGTGAATCCCAAGA-TTATTTTTTCAAAAACATCTTCACAAAAATATTTTTCAAAATCAACA
1775409 GTACAAAAAAAACGTCTAGGTGAGAGC
130 GTACAAAAAAAACGTCTAGGTGAGAGC
* *
1775436 TTTTTTAGTACTTTTGCTGACAGTACATCCTACTTGAAACATTTTTCAACCCCAATTATCAGATT
1 TTTTTTAGTACTTTTGCTGACAATACATCCTACTTGAAACATTTTTCAACCCCAACTATCAGATT
* * * * *
1775501 TCCCAG-GAATCCCAAGA-TATTTTTTC-GAACCATCTTCACAAAATTATATTTTCAGATTCAAC
66 TCCC-GTGAATCCCAAGATTATTTTTTCAAAAACATCTTCACAAAAATAT-TTTTCAAAATCAAC
1775563 AGTACAAAAAAA
129 AGTACAAAAAAA
1775575 GTCCAATTGG
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
154 17 0.14
155 32 0.26
157 72 0.59
158 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.35
Consensus pattern (156 bp):
TTTTTTAGTACTTTTGCTGACAATACATCCTACTTGAAACATTTTTCAACCCCAACTATCAGATT
TCCCGTGAATCCCAAGATTATTTTTTCAAAAACATCTTCACAAAAATATTTTTCAAAATCAACAG
TACAAAAAAAACGTCTAGGTGAGAGC
Found at i:1777488 original size:31 final size:32
Alignment explanation
Indices: 1777451--1777530 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 32
1777441 TTAAATTTTG
*
1777451 AAAAAAATATAAAAACTAAAATTCAAA-AAAT
1 AAAAAAATATAAAAATTAAAATTCAAACAAAT
* *
1777482 AAAAAAATA-AAAAATTTAAATTTAAACAAAT
1 AAAAAAATATAAAAATTAAAATTCAAACAAAT
*
1777513 --TAAAATATAAAAATTAAA
1 AAAAAAATATAAAAATTAAA
1777531 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 6 0.14
30 23 0.55
31 13 0.31
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (32 bp):
AAAAAAATATAAAAATTAAAATTCAAACAAAT
Found at i:1777512 original size:16 final size:15
Alignment explanation
Indices: 1777454--1777530 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
1777444 AATTTTGAAA
*
1777454 AAAATAT-AAAAACT
1 AAAATATAAAAAATT
*
1777468 AAAAT-TCAAAAAATA
1 AAAATAT-AAAAAATT
*
1777483 AAAAAATAAAAAATT
1 AAAATATAAAAAATT
* *
1777498 TAAATTTAAACAAATT
1 AAAATATAAA-AAATT
1777514 AAAATAT-AAAAATT
1 AAAATATAAAAAATT
1777528 AAA
1 AAA
1777531 TTAACAGAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
13 1 0.02
14 13 0.26
15 25 0.50
16 11 0.22
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATATAAAAAATT
Found at i:1780236 original size:30 final size:31
Alignment explanation
Indices: 1780188--1780246 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
1780178 TGCTTATAAT
* *
1780188 ATAATTTTTATAACTTAAA-CTTGTATGAAA
1 ATAATTTTTATAAATTAAATCATGTATGAAA
1780218 ATAATTTTT-TAAAATTAAATCATGTATGA
1 ATAATTTTTAT-AAATTAAATCATGTATGA
1780247 GTGTCTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.04
30 16 0.64
31 8 0.32
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (31 bp):
ATAATTTTTATAAATTAAATCATGTATGAAA
Found at i:1782436 original size:4 final size:4
Alignment explanation
Indices: 1782427--1782457 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1782417 AAGAAAAGAA
*
1782427 TCTT TCTT TCTT TCTT TCTT TCTT TTTT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
1782458 CACACGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TCTT
Found at i:1796028 original size:40 final size:40
Alignment explanation
Indices: 1795984--1796127 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 40
1795974 GATGCAGAAC
1795984 AGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAAT
1 AGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAAT
* * * *
1796024 AGGGGTATGTATGTGCATTTAGGGATA-CAGAAGTACAAAT
1 AGGGGCACGTATGTGCATTCAGGGGTACCA-AAGTACAAAT
* * * * * *
1796064 AGGGGCACGCATTTGCATTTAGGGGTACCGAAGTATAAAC
1 AGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAAT
* *
1796104 AGGAGCACATATGTGCATTCAGGG
1 AGGGGCACGTATGTGCATTCAGGG
1796128 ACATTTTCCT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 2 0.02
40 82 0.96
41 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.23
Consensus pattern (40 bp):
AGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAAT
Found at i:1805470 original size:21 final size:21
Alignment explanation
Indices: 1805446--1805499 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1805436 ACAGCTGTGG
*
1805446 CGGTGAGATTAGTTACTGTAA
1 CGGTGAGATTAGGTACTGTAA
* *
1805467 CGGTGAGATTGGGTACTGTAG
1 CGGTGAGATTAGGTACTGTAA
1805488 CGGTGAGATTAG
1 CGGTGAGATTAG
1805500 AAACAATGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.09, G:0.37, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAA
Found at i:1808823 original size:64 final size:64
Alignment explanation
Indices: 1808722--1808868 Score: 285
Period size: 64 Copynumber: 2.3 Consensus size: 64
1808712 ATGTTATATT
1808722 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
*
1808786 AGTTCGAATCCTTTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1808850 AGTTCGAATCCTCTAATTT
1 AGTTCGAATCCTCTAATTT
1808869 AAATACTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (64 bp):
AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
Found at i:1811746 original size:12 final size:12
Alignment explanation
Indices: 1811729--1811753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1811719 TTGCAGGAGA
1811729 TGTTTTCTTATT
1 TGTTTTCTTATT
1811741 TGTTTTCTTATT
1 TGTTTTCTTATT
1811753 T
1 T
1811754 TATCAGGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (12 bp):
TGTTTTCTTATT
Found at i:1812097 original size:11 final size:11
Alignment explanation
Indices: 1812081--1812106 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1812071 TTCTTAGCTA
1812081 AGAACAAGATG
1 AGAACAAGATG
1812092 AGAACAAGATG
1 AGAACAAGATG
1812103 AGAA
1 AGAA
1812107 GGAAAAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.08, G:0.27, T:0.08
Consensus pattern (11 bp):
AGAACAAGATG
Found at i:1824504 original size:21 final size:19
Alignment explanation
Indices: 1824479--1824524 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
1824469 AAAGACAAGA
1824479 TATGAAAGATAATAATTTAAC
1 TATGAAA-AT-ATAATTTAAC
*
1824500 TATG-AAATTTAATTTAAC
1 TATGAAAATATAATTTAAC
1824518 TATGAAA
1 TATGAAA
1824525 TTTTATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 13 0.57
19 4 0.17
20 2 0.09
21 4 0.17
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (19 bp):
TATGAAAATATAATTTAAC
Found at i:1824514 original size:18 final size:18
Alignment explanation
Indices: 1824491--1824527 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1824481 TGAAAGATAA
1824491 TAATTTAACTATGAAATT
1 TAATTTAACTATGAAATT
1824509 TAATTTAACTATGAAATT
1 TAATTTAACTATGAAATT
1824527 T
1 T
1824528 TATTAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TAATTTAACTATGAAATT
Found at i:1829251 original size:20 final size:20
Alignment explanation
Indices: 1829226--1829277 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1829216 CTAAAATCCT
1829226 AGACCTTAAACCAAGACCGA
1 AGACCTTAAACCAAGACCGA
1829246 AGACCTTAAACCAAGACCGA
1 AGACCTTAAACCAAGACCGA
1829266 AGACCTTAAACC
1 AGACCTTAAACC
1829278 TTTAAACCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.31, G:0.13, T:0.12
Consensus pattern (20 bp):
AGACCTTAAACCAAGACCGA
Found at i:1831059 original size:20 final size:20
Alignment explanation
Indices: 1831034--1831085 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1831024 CTAAAATCCT
1831034 AGACCTTAAACCAAGACCGA
1 AGACCTTAAACCAAGACCGA
1831054 AGACCTTAAACCAAGACCGA
1 AGACCTTAAACCAAGACCGA
1831074 AGACCTTAAACC
1 AGACCTTAAACC
1831086 TTTAAACCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.31, G:0.13, T:0.12
Consensus pattern (20 bp):
AGACCTTAAACCAAGACCGA
Found at i:1831979 original size:26 final size:26
Alignment explanation
Indices: 1831911--1831967 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
1831901 CCTCAATTTT
*
1831911 TTTTAAAAATAAATTAAATTATTAATC
1 TTTTAAAAA-GAATTAAATTATTAATC
1831938 TTTTAAAAAGAATTAAATTATT-AT-
1 TTTTAAAAAGAATTAAATTATTAATC
1831962 TTTTAA
1 TTTTAA
1831968 CGAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 6 0.21
25 2 0.07
26 12 0.41
27 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTTAAAAAGAATTAAATTATTAATC
Found at i:1834790 original size:51 final size:51
Alignment explanation
Indices: 1834726--1835065 Score: 334
Period size: 51 Copynumber: 6.7 Consensus size: 51
1834716 TATCGATGAA
* * * *
1834726 CACGTGTGTAGTACTGTGTGAAGGCTACTGCGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* ** * * * * * *
1834777 CACATGTGTAGTACTAACTGAAGGCTACTATGTATACCCAGAAGTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* **
1834828 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATGA-TGAA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATTGGT
* * * *
1834879 CACATGTGTGGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TATTGGT
* * *
1834930 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAA-ATTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGGT
* * * *
1834980 CACGCGTGTAGTACTATGTGAAGGCTACTACATGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGGT
*
1835030 CACGTGTGTAGTACTATGTGAAGACTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1835066 TCGAATGATA
Statistics
Matches: 237, Mismatches: 45, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
50 85 0.36
51 151 0.64
52 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
Found at i:1834902 original size:102 final size:101
Alignment explanation
Indices: 1834726--1835065 Score: 384
Period size: 102 Copynumber: 3.4 Consensus size: 101
1834716 TATCGATGAA
* * * *
1834726 CACGTGTGTAGTACTGTGTGAAGGCTACTGCGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATGATCACATGTGTAGTAC
* *
1834791 TAACTGAAGGCTACTATGTATACCCAGAAGTTTTGGT
65 TAAGTGAAGGCTACTATGTATACCCAGAAGATTTGGT
* * *
1834828 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATGATGAACACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATGATCACATGTGTAGTAC
* * * *
1834893 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
65 TAAGTGAAGGCTACTATGTATACCCAGAAGATTTGGT
* * * **
1834930 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAAATTTGATCACGCGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAT-AAATATGATCACATGTGTAGTAC
* * * *
1834994 TATGTGAAGGCTACTACATG-A-A-CC-GTAAAACTTGAT
65 TAAGTGAAGGCTACT--ATGTATACCCAG-AAGATTTGGT
*
1835030 CACGTGTGTAGTACTATGTGAAGACTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1835066 TCGAATGATA
Statistics
Matches: 204, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
100 40 0.20
101 30 0.15
102 131 0.64
103 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATGATCACATGTGTAGTACT
AAGTGAAGGCTACTATGTATACCCAGAAGATTTGGT
Found at i:1838874 original size:16 final size:16
Alignment explanation
Indices: 1838833--1838880 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1838823 ATTCAATTTC
1838833 ATAATCTCAATTCA-A
1 ATAATCTCAATTCACA
1838848 ATAATCATCAATTCACA
1 ATAATC-TCAATTCACA
** *
1838865 ATCTTCTCAAATCACA
1 ATAATCTCAATTCACA
1838881 TAAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.21
16 17 0.61
17 5 0.18
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATCTCAATTCACA
Found at i:1857097 original size:27 final size:27
Alignment explanation
Indices: 1857059--1857112 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1857049 ATTTCTAAAA
1857059 AGCCCTTATGTTATTATTGAAGGGATT
1 AGCCCTTATGTTATTATTGAAGGGATT
1857086 AGCCCTTATGTTATTATTGAAGGGATT
1 AGCCCTTATGTTATTATTGAAGGGATT
1857113 TATGTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (27 bp):
AGCCCTTATGTTATTATTGAAGGGATT
Found at i:1857773 original size:30 final size:30
Alignment explanation
Indices: 1857732--1857793 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
1857722 CCGAATTAGG
* * *
1857732 TATGAGTATAAACTGTATAAGTAAGCATGT
1 TATGAGGATAAACTCTATAAATAAGCATGT
*
1857762 TATGAGGATAAACTCTATAAATAGGCATGT
1 TATGAGGATAAACTCTATAAATAAGCATGT
1857792 TA
1 TA
1857794 AGTCTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.32
Consensus pattern (30 bp):
TATGAGGATAAACTCTATAAATAAGCATGT
Found at i:1858490 original size:16 final size:16
Alignment explanation
Indices: 1858471--1858502 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1858461 TATTTGGTTT
*
1858471 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
1858487 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
1858503 GGTTAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:1858949 original size:22 final size:22
Alignment explanation
Indices: 1858924--1858968 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1858914 TGATTCAGTG
1858924 TATGACTCGAAGTGGAATTCTT
1 TATGACTCGAAGTGGAATTCTT
*
1858946 TATGACTCGGAGTGGAATTCTT
1 TATGACTCGAAGTGGAATTCTT
1858968 T
1 T
1858969 CTATCGAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.38
Consensus pattern (22 bp):
TATGACTCGAAGTGGAATTCTT
Found at i:1862623 original size:25 final size:25
Alignment explanation
Indices: 1862589--1862641 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
1862579 ACACTCCATA
*
1862589 CTATGTTTCTGATGCATTGGACGTG
1 CTATGTTTCTAATGCATTGGACGTG
1862614 CTATGTTTCTAATGCATTGGACGTG
1 CTATGTTTCTAATGCATTGGACGTG
1862639 CTA
1 CTA
1862642 GATATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.40
Consensus pattern (25 bp):
CTATGTTTCTAATGCATTGGACGTG
Found at i:1866500 original size:16 final size:16
Alignment explanation
Indices: 1866479--1866510 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1866469 TAATTGGTTG
*
1866479 ATTTTTAGTTTAATTA
1 ATTTTTAGATTAATTA
1866495 ATTTTTAGATTAATTA
1 ATTTTTAGATTAATTA
1866511 GATTAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTTTTAGATTAATTA
Found at i:1866814 original size:19 final size:18
Alignment explanation
Indices: 1866790--1866850 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
1866780 TAATAAACAT
1866790 TAAAAAATTATTTTAAAAA
1 TAAAAAA-TATTTTAAAAA
***
1866809 TAAAAAA-ATAAAAAAAA
1 TAAAAAATATTTTAAAAA
* *
1866826 TTTAAAAGTATTTTAAAAA
1 -TAAAAAATATTTTAAAAA
1866845 TAAAAA
1 TAAAAA
1866851 TAAAAATAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
17 7 0.23
18 10 0.32
19 14 0.45
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAAAAATATTTTAAAAA
Found at i:1866839 original size:36 final size:37
Alignment explanation
Indices: 1866793--1866863 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 37
1866783 TAAACATTAA
*
1866793 AAAATTATTTTAAAAATAAAAA-AATAAA-AAAAATTT
1 AAAAGTATTTTAAAAATAAAAATAA-AAATAAAAATTT
1866829 AAAAGTATTTTAAAAATAAAAATAAAAATAAAAAT
1 AAAAGTATTTTAAAAATAAAAATAAAAATAAAAAT
1866864 ATATATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 24 0.75
37 8 0.25
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (37 bp):
AAAAGTATTTTAAAAATAAAAATAAAAATAAAAATTT
Found at i:1866855 original size:5 final size:6
Alignment explanation
Indices: 1866839--1866864 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1866829 AAAAGTATTT
1866839 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
1866865 TATATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:1869639 original size:15 final size:15
Alignment explanation
Indices: 1869619--1869647 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1869609 ATTTCACACC
1869619 TCTTCTGTTGCAATG
1 TCTTCTGTTGCAATG
1869634 TCTTCTGTTGCAAT
1 TCTTCTGTTGCAAT
1869648 CAAAAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.48
Consensus pattern (15 bp):
TCTTCTGTTGCAATG
Done.