Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 81 of 182
Found at i:24527881 original size:28 final size:28
Alignment explanation
Indices: 24527805--24527884 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
24527795 GAAAAAAATT
24527805 AATAAAATGAAATGTTAAATGAATATGA
1 AATAAAATGAAATGTTAAATGAATATGA
* * *
24527833 AATGAAATGTAAT-TTGTAATGAATATGA
1 AATAAAATGAAATGTT-AAATGAATATGA
24527861 AATAAAATGAAATGTTAAATGAAT
1 AATAAAATGAAATGTTAAATGAAT
24527885 TTGTAATGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.05
28 40 0.91
29 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (28 bp):
AATAAAATGAAATGTTAAATGAATATGA
Found at i:24527892 original size:39 final size:39
Alignment explanation
Indices: 24527829--24527922 Score: 131
Period size: 39 Copynumber: 2.4 Consensus size: 39
24527819 TTAAATGAAT
24527829 ATGAAATG--AAATGTAATTTGTAATGAATATGAAATAAA
1 ATGAAATGTTAAATG-AATTTGTAATGAATATGAAATAAA
* *
24527867 ATGAAATGTTAAATGAATTTGTAATGATTATGAAATGAA
1 ATGAAATGTTAAATGAATTTGTAATGAATATGAAATAAA
24527906 ATGAAA-GTTTAAATGAA
1 ATGAAATG-TTAAATGAA
24527923 AATAAATTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
38 9 0.18
39 37 0.73
40 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (39 bp):
ATGAAATGTTAAATGAATTTGTAATGAATATGAAATAAA
Found at i:24527919 original size:17 final size:17
Alignment explanation
Indices: 24527893--24527946 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
24527883 ATTTGTAATG
24527893 ATTATGAAATGAAATGAA
1 ATTAT-AAATGAAATGAA
24527911 AGTT-TAAATGAAAAT-AA
1 A-TTATAAATG-AAATGAA
24527928 ATTATAAATTGAAATGAA
1 ATTATAAA-TGAAATGAA
24527946 A
1 A
24527947 ACAAAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.06
17 16 0.52
18 11 0.35
19 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (17 bp):
ATTATAAATGAAATGAA
Found at i:24528017 original size:16 final size:15
Alignment explanation
Indices: 24527987--24528025 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
24527977 ACTACTTGTT
24527987 ATTAATATGAAAAAAA
1 ATTAA-ATGAAAAAAA
*
24528003 ATTGAAATGAGAAAAA
1 ATT-AAATGAAAAAAA
24528019 ATTAAAT
1 ATTAAAT
24528026 TTTAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (15 bp):
ATTAAATGAAAAAAA
Found at i:24528045 original size:20 final size:20
Alignment explanation
Indices: 24527996--24528056 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
24527986 TATTAATATG
*
24527996 AAAA-AAAATTGAAATGAGAA
1 AAAAGAAAATTTAAATG-GAA
** *
24528016 AAAATTAAATTTTAATGGAA
1 AAAAGAAAATTTAAATGGAA
24528036 AAAAGAAAATTTAAAT-GAA
1 AAAAGAAAATTTAAATGGAA
24528055 AA
1 AA
24528057 TTTAAATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.15
20 20 0.59
21 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (20 bp):
AAAAGAAAATTTAAATGGAA
Found at i:24528055 original size:19 final size:18
Alignment explanation
Indices: 24527996--24528056 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 18
24527986 TATTAATATG
*
24527996 AAAAAAAATTGAAATGAGA
1 AAAAAAAATTTAAATGA-A
*
24528015 AAAAATTAAATTTTAATGGAA
1 AAAAA--AAATTTAAAT-GAA
24528036 AAAAGAAAATTTAAATGAA
1 AAAA-AAAATTTAAATGAA
24528055 AA
1 AA
24528057 TTTAAATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 10 0.29
20 9 0.26
21 13 0.37
22 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAAAAAATTTAAATGAA
Found at i:24528057 original size:12 final size:12
Alignment explanation
Indices: 24528040--24528067 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24528030 ATGGAAAAAA
24528040 GAAAATTTAAAT
1 GAAAATTTAAAT
24528052 GAAAATTTAAAT
1 GAAAATTTAAAT
24528064 GAAA
1 GAAA
24528068 TGAAAATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (12 bp):
GAAAATTTAAAT
Found at i:24528068 original size:17 final size:18
Alignment explanation
Indices: 24528048--24528090 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
24528038 AAGAAAATTT
**
24528048 AAATGAAAATTTAAAT-G
1 AAATGAAAATGGAAATGG
24528065 AAATGAAAATGGAAATGG
1 AAATGAAAATGGAAATGG
24528083 AAATGAAA
1 AAATGAAA
24528091 TGAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (18 bp):
AAATGAAAATGGAAATGG
Found at i:24528074 original size:6 final size:6
Alignment explanation
Indices: 24528048--24528101 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
24528038 AAGAAAATTT
** * *
24528048 AAATGA AAATTT AAATG- AAATGA AAATGG AAATGG AAATG- AAATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
24528094 AAAT-A AAA
1 AAATGA AAA
24528102 AAAAAATTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
5 14 0.33
6 28 0.67
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (6 bp):
AAATGA
Found at i:24528074 original size:23 final size:23
Alignment explanation
Indices: 24528048--24528102 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
24528038 AAGAAAATTT
**
24528048 AAATGAAAATTTAAATGAAATGA
1 AAATGAAAATGGAAATGAAATGA
*
24528071 AAATGGAAATGGAAATGAAATGA
1 AAATGAAAATGGAAATGAAATGA
*
24528094 AAATAAAAA
1 AAATGAAAA
24528103 AAAAATTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (23 bp):
AAATGAAAATGGAAATGAAATGA
Found at i:24529418 original size:31 final size:32
Alignment explanation
Indices: 24529383--24529445 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
24529373 AGGTAAATTA
24529383 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
24529414 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
24529446 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:24535591 original size:31 final size:32
Alignment explanation
Indices: 24535553--24535615 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
24535543 AGGCAAATTA
24535553 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
24535584 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
24535616 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:24537296 original size:25 final size:25
Alignment explanation
Indices: 24537256--24537309 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
24537246 GTACATGTAT
* * *
24537256 GCTCTTCTGAGTTGAATAATAGTAA
1 GCTCTTCTAAGCTGAATAACAGTAA
*
24537281 GCTCTTCTAAGCTGAATAACGGTAA
1 GCTCTTCTAAGCTGAATAACAGTAA
24537306 GCTC
1 GCTC
24537310 ATAAGAGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (25 bp):
GCTCTTCTAAGCTGAATAACAGTAA
Found at i:24537318 original size:25 final size:25
Alignment explanation
Indices: 24537290--24537378 Score: 119
Period size: 24 Copynumber: 3.6 Consensus size: 25
24537280 AGCTCTTCTA
*
24537290 AGCTGAATAACGGTAAGCTCATAAG
1 AGCTGAATATCGGTAAGCTCATAAG
* *
24537315 AGCTGAGTATCAGTAAGCTCATAAG
1 AGCTGAATATCGGTAAGCTCATAAG
*
24537340 ATCTGAA-ATCGGTAAGCTCATAAG
1 AGCTGAATATCGGTAAGCTCATAAG
*
24537364 AGCT-AAAATCGGTAA
1 AGCTGAATATCGGTAA
24537379 CCCTAATGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
23 2 0.04
24 27 0.48
25 27 0.48
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (25 bp):
AGCTGAATATCGGTAAGCTCATAAG
Found at i:24540781 original size:90 final size:90
Alignment explanation
Indices: 24540671--24540964 Score: 464
Period size: 90 Copynumber: 3.3 Consensus size: 90
24540661 TCAAACAAAA
* * * *
24540671 ATAATACGGACTAAATTAAATTTAAACACCCAACAAGCTACAAACAAATGGGTAAAATTAATACA
1 ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATAGGTAAAATTAATACA
24540736 CGAATATTTTAAATTCAAACTACAT
66 CGAATATTTTAAATTCAAACTACAT
* * *
24540761 ATAATACAGACTAAAATAAATTTAAACACCCGACAAACTACAAACAGATAGGTAAAATTAATGCA
1 ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATAGGTAAAATTAATACA
*
24540826 CGAATATTTTAAATTCAAACTATAT
66 CGAATATTTTAAATTCAAACTACAT
* * *
24540851 ATAATACAAACTAAATTAAATTTAAACACCCAACAAACTACAAGCAGATTGGTAAAATTAATACA
1 ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATAGGTAAAATTAATACA
*
24540916 CGAAAATTTTAAATTCAAACTACAT
66 CGAATATTTTAAATTCAAACTACAT
24540941 ATAATAC-GAACTAAATTAAATTTA
1 ATAATACAG-ACTAAATTAAATTTA
24540965 CAAATACAAA
Statistics
Matches: 186, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 186 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (90 bp):
ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATAGGTAAAATTAATACA
CGAATATTTTAAATTCAAACTACAT
Found at i:24541054 original size:180 final size:178
Alignment explanation
Indices: 24540596--24541030 Score: 502
Period size: 180 Copynumber: 2.4 Consensus size: 178
24540586 AGTACACAAC
* * *
24540596 AAATTAAATTTACAGATACAATAAAATACAAACATTAT-AGAATATTAATACA-AAAAATATAAA
1 AAATTAAATTTACAAATACAAAAAAATACAAACATTATAAGAA-ATTAATACACGAAAATATAAA
* ** * *
24540659 ACTCAAACAAAAATAATACGGACTAAATTAAATTTAAACACCCAACAAGCTACAAACAAATGGGT
65 AATCAAACTTAAATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAAATGGGT
*
24540724 AAAATTAATACACGAATATTTTAAATTCAAACTACATATAATACAGACT
130 AAAATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACT
* ** * * * * * * * * *
24540773 AAAATAAATTTA-AACACCCGACAAACTACAAACA-GATAGGTAAAATTAATGCACGAATATTTT
1 AAATTAAATTTACAA-ATACAAAAAAATACAAACATTATAAG--AAATTAATACACGAAAATATA
* * * * * *
24540836 AAATTCAAACTATATATAATACAAACTAAATTAAATTTAAACACCCAACAAACTACAAGCAGATT
63 AAAATCAAACT-TAAATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAAATG
24540901 GGTAAAATTAATACACGAAAATTTTAAATTCAAACTACATATAATAC-GAACT
127 GGTAAAATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAG-ACT
* *
24540953 AAATTAAATTTACAAATACAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTACAAATACAAAAAAATACAAACATTATAAGAAATTAATACACGAAAATATAAAA
*
24541018 ATGAAACCTTAAA
66 ATCAAA-CTTAAA
24541031 CCCTAAACGA
Statistics
Matches: 206, Mismatches: 42, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
176 3 0.01
177 26 0.13
178 8 0.04
179 44 0.21
180 120 0.58
181 5 0.02
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (178 bp):
AAATTAAATTTACAAATACAAAAAAATACAAACATTATAAGAAATTAATACACGAAAATATAAAA
ATCAAACTTAAATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAAATGGGTA
AAATTAATACACGAAAATTTTAAATTCAAACTACATATAATACAGACT
Found at i:24545724 original size:27 final size:26
Alignment explanation
Indices: 24545674--24545731 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
24545664 CTTTTCAATC
*
24545674 TTTTAAAATTTAGTCTATTGACTTAA
1 TTTTAAAATTTAATCTATTGACTTAA
* * *
24545700 TTTTAAAATTTTAATCTTTTTACTTAC
1 TTTTAAAA-TTTAATCTATTGACTTAA
24545727 TTTTA
1 TTTTA
24545732 GTCCATCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (26 bp):
TTTTAAAATTTAATCTATTGACTTAA
Found at i:24549956 original size:46 final size:46
Alignment explanation
Indices: 24549903--24550042 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
24549893 CCATGGCAAA
24549903 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
24549949 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAGGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
24549995 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
24550041 TT
1 TT
24550043 ATAGCATTGT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:24554412 original size:21 final size:21
Alignment explanation
Indices: 24554379--24554432 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
24554369 CGATCAGCGT
* * *
24554379 ACACGGGCGTGTGAAATAGTC
1 ACACGAGCATGTGAAATAGCC
24554400 ACACGAGCATGTGAAATAGCC
1 ACACGAGCATGTGAAATAGCC
*
24554421 ACACGACCATGT
1 ACACGAGCATGT
24554433 ATTGAGCCAC
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:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (21 bp):
ACACGAGCATGTGAAATAGCC
Found at i:24561395 original size:6 final size:6
Alignment explanation
Indices: 24561384--24561411 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24561374 ATTGTTGATA
24561384 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
24561412 CTCTTTTATT
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:24563946 original size:141 final size:141
Alignment explanation
Indices: 24563686--24563967 Score: 440
Period size: 141 Copynumber: 2.0 Consensus size: 141
24563676 TGACTTCATT
* * * * * *
24563686 CTCTTAAATGGTATCATATTGTAGGATATGATGTGTTGGGATCAACTCGTATAAGCAATGAAATA
1 CTCTCAAATGGTATCATATAGTAGGATATGATGTGTTGGGATCAACCCATATAAACAACGAAATA
*
24563751 GAAAAAGGCAAAGAAGATCGAACACAAATATTTTACGTGAAAAACTCCTCCGAAGAGGATAAAAA
66 GAAAAAGGCAAAGAAGATCGAACACAAATATTTTACGTAAAAAACTCCTCCGAAGAGGATAAAAA
24563816 CCATGGACAAA
131 CCATGGACAAA
*
24563827 CTCTCAAATGGTATCATATAGTAGGATATGATGTGTTGGGGATCAACCCATATAAATAACGAAAT
1 CTCTCAAATGGTATCATATAGTAGGATATGATGTGTT-GGGATCAACCCATATAAACAACGAAAT
* * *
24563892 AGAAAAAGGTAGAG-AGATCGAACACAAATATTTTACGTAAAAAACTCCTTCGAAGAGGATAAAA
65 AGAAAAAGGCAAAGAAGATCGAACACAAATATTTTACGTAAAAAACTCCTCCGAAGAGGATAAAA
*
24563956 ACCATGGGCAAA
130 ACCATGGACAAA
24563968 GAAAAATTCA
Statistics
Matches: 128, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
141 94 0.73
142 34 0.27
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (141 bp):
CTCTCAAATGGTATCATATAGTAGGATATGATGTGTTGGGATCAACCCATATAAACAACGAAATA
GAAAAAGGCAAAGAAGATCGAACACAAATATTTTACGTAAAAAACTCCTCCGAAGAGGATAAAAA
CCATGGACAAA
Found at i:24568128 original size:15 final size:16
Alignment explanation
Indices: 24568104--24568133 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24568094 ATATACCAAA
24568104 AAAAACAAAAACCTGC
1 AAAAACAAAAACCTGC
24568120 AAAAA-AAAAACCTG
1 AAAAACAAAAACCTG
24568134 ACAACAGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.20, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAACAAAAACCTGC
Found at i:24568190 original size:27 final size:26
Alignment explanation
Indices: 24568160--24568218 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
24568150 GCCAATCACG
*
24568160 TTGGCGGCACCAAAGGTGCCAAAGTGA
1 TTGGCGG-ACCAAAGGTGCCAAAGAGA
*
24568187 TTGGTCTGACCAAAGGTGCCAAAGAGA
1 TTGG-CGGACCAAAGGTGCCAAAGAGA
24568214 TTGGC
1 TTGGC
24568219 CTGACCGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 26 0.90
28 2 0.07
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.19
Consensus pattern (26 bp):
TTGGCGGACCAAAGGTGCCAAAGAGA
Found at i:24568222 original size:27 final size:27
Alignment explanation
Indices: 24568168--24568224 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
24568158 CGTTGGCGGC
* *
24568168 ACCAAAGGTGCCAAAGTGATTGGTCTG
1 ACCAAAGGTGCCAAAGAGATTGGCCTG
24568195 ACCAAAGGTGCCAAAGAGATTGGCCTG
1 ACCAAAGGTGCCAAAGAGATTGGCCTG
24568222 ACC
1 ACC
24568225 GGACTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.18
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGAGATTGGCCTG
Found at i:24578369 original size:99 final size:99
Alignment explanation
Indices: 24578198--24578466 Score: 529
Period size: 99 Copynumber: 2.7 Consensus size: 99
24578188 TAATTAAATC
*
24578198 TAATATTAGTTAAGTGATAATTAAGTTACTTAGAATTCTAATTAAGTAATAACTCTATTTTACTT
1 TAATATTAGTTAAGTGATAATTAAGATACTTAGAATTCTAATTAAGTAATAACTCTATTTTACTT
24578263 TAATAAACTATTCTCATCAAATTACCAAAATTTA
66 TAATAAACTATTCTCATCAAATTACCAAAATTTA
24578297 TAATATTAGTTAAGTGATAATTAAGATACTTAGAATTCTAATTAAGTAATAACTCTATTTTACTT
1 TAATATTAGTTAAGTGATAATTAAGATACTTAGAATTCTAATTAAGTAATAACTCTATTTTACTT
24578362 TAATAAACTATTCTCATCAAATTACCAAAATTTA
66 TAATAAACTATTCTCATCAAATTACCAAAATTTA
24578396 TAATATTAGTTAAGTGATAATTAAGATACTTAGAATTCTAATTAAGTAATAACTCTATTTTACTT
1 TAATATTAGTTAAGTGATAATTAAGATACTTAGAATTCTAATTAAGTAATAACTCTATTTTACTT
24578461 TAATAA
66 TAATAA
24578467 GTTTATTAAA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 169 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (99 bp):
TAATATTAGTTAAGTGATAATTAAGATACTTAGAATTCTAATTAAGTAATAACTCTATTTTACTT
TAATAAACTATTCTCATCAAATTACCAAAATTTA
Found at i:24578466 original size:19 final size:19
Alignment explanation
Indices: 24578442--24578504 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
24578432 TCTAATTAAG
24578442 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
24578461 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
24578480 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
24578499 TAATAA
1 TAATAA
24578505 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:24578568 original size:18 final size:17
Alignment explanation
Indices: 24578539--24578573 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24578529 GTAATGTTTC
*
24578539 AAAAAATGTTTTTAGGA
1 AAAAAATGTTTTAAGGA
24578556 AAAAAATGTTTTTAAGGA
1 AAAAAATG-TTTTAAGGA
24578574 GAAGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAAAAATGTTTTAAGGA
Found at i:24578620 original size:30 final size:30
Alignment explanation
Indices: 24578584--24578719 Score: 91
Period size: 30 Copynumber: 4.5 Consensus size: 30
24578574 GAAGTAAAAA
24578584 TTTATGAGTAAAAATCATAGATTAAGAGCT
1 TTTATGAGTAAAAATCATAGATTAAGAGCT
* * * * **
24578614 TTTATGAGTAAAAATTTAGGAGAAGTAAAATAT
1 TTTATGAGTAAAAA-TCA-TAG-ATTAAGAGCT
* * * * *
24578647 ATTTACT--TTAATAAT-A-AAATAAAGGGCT
1 -TTTA-TGAGTAAAAATCATAGATTAAGAGCT
*
24578675 TTTATGAGTAAAAATCATAGATTAAGAGCA
1 TTTATGAGTAAAAATCATAGATTAAGAGCT
24578705 TTTATGAGTAAAAAT
1 TTTATGAGTAAAAAT
24578720 TTAGGAGAAG
Statistics
Matches: 76, Mismatches: 21, Indels: 18
0.66 0.18 0.16
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 10 0.13
29 2 0.03
30 37 0.49
31 3 0.04
32 3 0.04
33 11 0.14
34 4 0.05
35 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.34
Consensus pattern (30 bp):
TTTATGAGTAAAAATCATAGATTAAGAGCT
Found at i:24578739 original size:91 final size:91
Alignment explanation
Indices: 24578584--24578794 Score: 413
Period size: 91 Copynumber: 2.3 Consensus size: 91
24578574 GAAGTAAAAA
*
24578584 TTTATGAGTAAAAATCATAGATTAAGAGCTTTTATGAGTAAAAATTTAGGAGAAGTAAAATATAT
1 TTTATGAGTAAAAATCATAGATTAAGAGCATTTATGAGTAAAAATTTAGGAGAAGTAAAATATAT
24578649 TTACTTTAATAATAAAATAAAGGGCT
66 TTACTTTAATAATAAAATAAAGGGCT
24578675 TTTATGAGTAAAAATCATAGATTAAGAGCATTTATGAGTAAAAATTTAGGAGAAGTAAAATATAT
1 TTTATGAGTAAAAATCATAGATTAAGAGCATTTATGAGTAAAAATTTAGGAGAAGTAAAATATAT
24578740 TTACTTTAATAATAAAATAAAGGGCT
66 TTACTTTAATAATAAAATAAAGGGCT
24578766 TTTATGAGTAAAAATCATAGATTAAGAGC
1 TTTATGAGTAAAAATCATAGATTAAGAGC
24578795 TTATTTAACT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 119 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (91 bp):
TTTATGAGTAAAAATCATAGATTAAGAGCATTTATGAGTAAAAATTTAGGAGAAGTAAAATATAT
TTACTTTAATAATAAAATAAAGGGCT
Found at i:24579057 original size:27 final size:27
Alignment explanation
Indices: 24579019--24579111 Score: 118
Period size: 27 Copynumber: 3.4 Consensus size: 27
24579009 ATTTTAGTCC
* *
24579019 GGTCAGGCCAATCTCTTTGGCACCTTT
1 GGTCACGCCAATCACTTTGGCACCTTT
*
24579046 GGTCATGCCAATCACTTTGGCACCTTT
1 GGTCACGCCAATCACTTTGGCACCTTT
*
24579073 GCTGC-CGCCAATCACTTTGGCACCTTT
1 GGT-CACGCCAATCACTTTGGCACCTTT
24579100 GGTGC-CGCCAAT
1 GGT-CACGCCAAT
24579112 GTGATTGGCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.16, C:0.32, G:0.22, T:0.30
Consensus pattern (27 bp):
GGTCACGCCAATCACTTTGGCACCTTT
Found at i:24579207 original size:28 final size:27
Alignment explanation
Indices: 24579152--24579216 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
24579142 TTTTTTTGGT
***
24579152 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGGGATA
24579179 ATATTTTGGTAAATAAAAAAAAGGGATA
1 ATATTTTGGTAAAT-AAAAAAAGGGATA
*
24579207 ACATTTTGGT
1 ATATTTTGGT
24579217 TATTTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 14 0.42
28 19 0.58
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.37
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGGGATA
Found at i:24582748 original size:228 final size:227
Alignment explanation
Indices: 24582340--24583448 Score: 1171
Period size: 228 Copynumber: 4.9 Consensus size: 227
24582330 TTCTAAATAG
* * *
24582340 ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCCTT-GAGGTGGAAAGTTCTGATA
1 ATGCAAATTTTTGTCAAGACCCTCACTGGAAAGACCATCA-CCTTGGAGGTGGAGAGTTCTGATA
* * * * * * * *
24582404 CCATCGACAATGTAAAGACCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTT
65 CCATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAAGGAATCCCACCAGACCAGCAGAGGCTG
* * * * *
24582469 ATCTTTGCTGGTAAACAGCTGGAGGATGGCCGTACCCTTGCTGACTACAACATCCAGAAGGAATC
130 ATCTTTGCTGGTAAGCAACTGGAGGATGGCCGGACCCTTGCTGATTACAACATCCAGAAGGAGTC
* * *
24582534 CACACTCCATTTGGTCCTCCGAT-TGAGGGGTGGT
195 CACACTCCACTTGGTGCTCCG-TCT-AGTGGTGGT
* *
24582568 ATGCAAATTTTTGTCAAGACCCTCACCGGAAAGACCATCACATTGGAGGTGGAGAGTTCTGATAC
1 ATGCAAATTTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTGGAGAGTTCTGATAC
* * * * *
24582633 GATTGACAATGTCAAGGCCAAGATTCAGGACAAGGAAGGCATCCCCCCAGACCAGCAAAGGCTGA
66 CATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAAGGAATCCCACCAGACCAGCAGAGGCTGA
* * * *
24582698 TCTTCGCTGGTAAGCAACTTGAGGATGGCCGCA-CATTGGCTGATTACAACATCCAGAAGGAGTC
131 TCTTTGCTGGTAAGCAACTGGAGGATGGCCGGACCCTT-GCTGATTACAACATCCAGAAGGAGTC
* * * *
24582762 CACACTCCACTTGGTGCTTCGCCTACGTGGAGGA
195 CACACTCCACTTGGTGCTCCGTCTA-GTGGTGGT
* ** * * * * * *
24582796 ATGCAAATTTTTGTTAAGACTTTGACTGGGAAGACCATTACATTGGAGGTAGAGAGTTCAGATAC
1 ATGCAAATTTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTGGAGAGTTCTGATAC
* * * * *
24582861 CATTGACAATGTTAAGGCAAAAATTCAGGACAAGGAGGGAATCCCCCCAGACCAACAGAGGCTGA
66 CATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAAGGAATCCCACCAGACCAGCAGAGGCTGA
* * * * *
24582926 TTTTTGCTGGTAAGCAACTGGAGGATGGCCGTACCCTGGCTGACTATAACATCCAGAAGGAGTCC
131 TCTTTGCTGGTAAGCAACTGGAGGATGGCCGGACCCTTGCTGATTACAACATCCAGAAGGAGTCC
* * *
24582991 ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
196 ACACTCCACTTGGTGCTCCGTC-TAGTGGTGGT
* * * * * * * * * * *
24583024 ATGCAGATTTTTGTGAAGACACTTACCGGGAAGACCATCACCCTGGAAGTTGAGAGCTCTGACAC
1 ATGCAAATTTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTGGAGAGTTCTGATAC
* * * * * * * *
24583089 AATCGATAATGTTAAGGCCAAAATTCAAGATAAGGAAGGTATCCCTCCAGACCAGCAGAGGCTGA
66 CATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAAGGAATCCCACCAGACCAGCAGAGGCTGA
* * * * ** *
24583154 TATTTGCTGGAAAGCAGCTAGAGGATGGGAGGACCCTTGCAGATTACAACATCCAGAAGGAGTCC
131 TCTTTGCTGGTAAGCAACTGGAGGATGGCCGGACCCTTGCTGATTACAACATCCAGAAGGAGTCC
* * * *
24583219 ACCCTCCACTTGGTTCTCCGTCTCCGTGGTGGG
196 ACACTCCACTTGGTGCTCCGTCT-AGTGGTGGT
* * * * * * * * *
24583252 ATGCAAATTTTCGTGAAGACCCTGACTGGAAAGACCATCACCCTGGAAGTTGAGAGCTCAGACAC
1 ATGCAAATTTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTGGAGAGTTCTGATAC
* * * *
24583317 GATTGATAATGTTAAGGCCAAGATCCAGGATAAGGAAGGAATCCCACCAGACCAGCAGAGGCTGA
66 CATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAAGGAATCCCACCAGACCAGCAGAGGCTGA
* * * * ** * *
24583382 TTTTTGCTGGGAAGCAACTTGAAGATGGGAGGACCCTTGCAGATTACAACATCCAGAAGGAATCC
131 TCTTTGCTGGTAAGCAACTGGAGGATGGCCGGACCCTTGCTGATTACAACATCCAGAAGGAGTCC
24583447 AC
196 AC
24583449 TTTGCACCTG
Statistics
Matches: 755, Mismatches: 119, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
227 8 0.01
228 744 0.99
229 3 0.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (227 bp):
ATGCAAATTTTTGTCAAGACCCTCACTGGAAAGACCATCACCTTGGAGGTGGAGAGTTCTGATAC
CATTGACAATGTTAAGGCCAAGATTCAGGACAAGGAAGGAATCCCACCAGACCAGCAGAGGCTGA
TCTTTGCTGGTAAGCAACTGGAGGATGGCCGGACCCTTGCTGATTACAACATCCAGAAGGAGTCC
ACACTCCACTTGGTGCTCCGTCTAGTGGTGGT
Found at i:24583201 original size:456 final size:456
Alignment explanation
Indices: 24582340--24583448 Score: 1335
Period size: 456 Copynumber: 2.4 Consensus size: 456
24582330 TTCTAAATAG
* * * * *
24582340 ATGCAAATTTTCGTCAAGACCCTCACTGGCAAGACCATCACCCTT-GAGGTGGAAAGTTCTGATA
1 ATGCAAATTTTCGTCAAGACCCTGACTGGAAAGACCATCA-CCTTGGAGGTAGAGAGTTCAGATA
* * * *
24582404 CCATCGACAATGTAAAGACCAAGATCCAAGACAAGGAAGGG-ATCCCACCAGACCAACAGAGGCT
65 CCATTGACAATGTTAAGGCCAAGATCCAGGACAAGG-AGGGAATCCCACCAGACCAACAGAGGCT
* * * *
24582468 TATCTTTGCTGGTAAACAGCTGGAGGATGGCCGTACCCTTGCTGACTACAACATCCAGAAGGAAT
129 GATTTTTGCTGGTAAGCAACTGGAGGATGGCCGTACCCTTGCTGACTACAACATCCAGAAGGAAT
* *
24582533 CCACACTCCATTTGGTCCTCCGATTGAGGGGTGGTATGCAAATTTTTGTCAAGACCCTCACCGGA
194 CCACACTCCACTTGGTCCTCCGATTGAGGGGTGGTATGCAAATTTTTGTCAAGACACTCACCGGA
* * * * * * * *
24582598 AAGACCATCACATTGGAGGTGGAGAGTTCTGATACGATTGACAATGTCAAGGCCAAGATTCAGGA
259 AAGACCATCACACTGGAAGTGGAGAGCTCTGACACAATCGACAATGTCAAGGCCAAAATTCAAGA
* * * *
24582663 CAAGGAAGGCATCCCCCCAGACCAGCAAAGGCTGATCTTCGCTGGTAAGCAACTTGAGGATGGCC
324 CAAGGAAGGCATCCCCCCAGACCAGCAAAGGCTGATATTCGCTGGAAAGCAACTAGAGGATGGCA
* *
24582728 GCACATTGGCTGATTACAACATCCAGAAGGAGTCCACACTCCACTTGGTGCTTCGCCTACGTGGA
389 GCACATTGGCAGATTACAACATCCAGAAGGAGTCCACACTCCACTTGGTGCTCCGCCTACGTGGA
24582793 GGA
454 GGA
* * ** * * *
24582796 ATGCAAATTTTTGTTAAGACTTTGACTGGGAAGACCATTACATTGGAGGTAGAGAGTTCAGATAC
1 ATGCAAATTTTCGTCAAGACCCTGACTGGAAAGACCATCACCTTGGAGGTAGAGAGTTCAGATAC
* * * *
24582861 CATTGACAATGTTAAGGCAAAAATTCAGGACAAGGAGGGAATCCCCCCAGACCAACAGAGGCTGA
66 CATTGACAATGTTAAGGCCAAGATCCAGGACAAGGAGGGAATCCCACCAGACCAACAGAGGCTGA
* * *
24582926 TTTTTGCTGGTAAGCAACTGGAGGATGGCCGTACCCTGGCTGACTATAACATCCAGAAGGAGTCC
131 TTTTTGCTGGTAAGCAACTGGAGGATGGCCGTACCCTTGCTGACTACAACATCCAGAAGGAATCC
* * * ** * * * * *
24582991 ACCCTCCACTTGGTGCTTCG-TCTTCGTGGTGGTATGCAGATTTTTGTGAAGACACTTACCGGGA
196 ACACTCCACTTGGTCCTCCGAT-TGAGGGGTGGTATGCAAATTTTTGTCAAGACACTCACCGGAA
* * * * *
24583055 AGACCATCACCCTGGAAGTTGAGAGCTCTGACACAATCGATAATGTTAAGGCCAAAATTCAAGAT
260 AGACCATCACACTGGAAGTGGAGAGCTCTGACACAATCGACAATGTCAAGGCCAAAATTCAAGAC
* * * * * *
24583120 AAGGAAGGTATCCCTCCAGACCAGCAGAGGCTGATATTTGCTGGAAAGCAGCTAGAGGATGGGAG
325 AAGGAAGGCATCCCCCCAGACCAGCAAAGGCTGATATTCGCTGGAAAGCAACTAGAGGATGGCAG
* * * * * * *
24583185 GACCCTT-GCAGATTACAACATCCAGAAGGAGTCCACCCTCCACTTGGTTCTCCGTCTCCGTGGT
390 CA-CATTGGCAGATTACAACATCCAGAAGGAGTCCACACTCCACTTGGTGCTCCGCCTACGTGGA
*
24583249 GGG
454 GGA
* * * * * *
24583252 ATGCAAATTTTCGTGAAGACCCTGACTGGAAAGACCATCACCCTGGAAGTTGAGAGCTCAGACAC
1 ATGCAAATTTTCGTCAAGACCCTGACTGGAAAGACCATCACCTTGGAGGTAGAGAGTTCAGATAC
* * * * *
24583317 GATTGATAATGTTAAGGCCAAGATCCAGGATAAGGAAGGAATCCCACCAGACCAGCAGAGGCTGA
66 CATTGACAATGTTAAGGCCAAGATCCAGGACAAGGAGGGAATCCCACCAGACCAACAGAGGCTGA
* * * ** * * *
24583382 TTTTTGCTGGGAAGCAACTTGAAGATGGGAGGACCCTTGCAGATTACAACATCCAGAAGGAATCC
131 TTTTTGCTGGTAAGCAACTGGAGGATGGCCGTACCCTTGCTGACTACAACATCCAGAAGGAATCC
24583447 AC
196 AC
24583449 TTTGCACCTG
Statistics
Matches: 546, Mismatches: 103, Indels: 8
0.83 0.16 0.01
Matches are distributed among these distances:
455 8 0.01
456 535 0.98
457 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (456 bp):
ATGCAAATTTTCGTCAAGACCCTGACTGGAAAGACCATCACCTTGGAGGTAGAGAGTTCAGATAC
CATTGACAATGTTAAGGCCAAGATCCAGGACAAGGAGGGAATCCCACCAGACCAACAGAGGCTGA
TTTTTGCTGGTAAGCAACTGGAGGATGGCCGTACCCTTGCTGACTACAACATCCAGAAGGAATCC
ACACTCCACTTGGTCCTCCGATTGAGGGGTGGTATGCAAATTTTTGTCAAGACACTCACCGGAAA
GACCATCACACTGGAAGTGGAGAGCTCTGACACAATCGACAATGTCAAGGCCAAAATTCAAGACA
AGGAAGGCATCCCCCCAGACCAGCAAAGGCTGATATTCGCTGGAAAGCAACTAGAGGATGGCAGC
ACATTGGCAGATTACAACATCCAGAAGGAGTCCACACTCCACTTGGTGCTCCGCCTACGTGGAGG
A
Found at i:24583953 original size:11 final size:11
Alignment explanation
Indices: 24583937--24583972 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
24583927 CGTGTAAAAA
24583937 TTATTAAAATG
1 TTATTAAAATG
*
24583948 TTATTAAAATA
1 TTATTAAAATG
*
24583959 TAATTAAAATG
1 TTATTAAAATG
24583970 TTA
1 TTA
24583973 AAAATTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (11 bp):
TTATTAAAATG
Found at i:24583955 original size:21 final size:22
Alignment explanation
Indices: 24583931--24583972 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24583921 CATTTACGTG
*
24583931 TAAAA-ATTATTAAAATGTTAT
1 TAAAATATAATTAAAATGTTAT
24583952 TAAAATATAATTAAAATGTTA
1 TAAAATATAATTAAAATGTTA
24583973 AAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAAATATAATTAAAATGTTAT
Found at i:24591603 original size:23 final size:23
Alignment explanation
Indices: 24591577--24591667 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
24591567 GTGTTATTGA
*
24591577 TCAGTGGTAGCTTCGACTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
24591600 TCAGTGGTAGCTACGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
24591623 ACAGTGGTAGCTTCGGCTACATAT
1 TCAGTGGTAGCTTCGGCTACAT-T
*
24591647 T-AGTGGTAGCTTTGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
24591668 ATTAGTGTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 60 0.98
24 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:24596153 original size:23 final size:24
Alignment explanation
Indices: 24596109--24596155 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
24596099 TATAGTTGCT
*
24596109 GATGCTTTGAGCAGAAAGTCTATC
1 GATGCTTTGAGCAGAAACTCTATC
24596133 GATGCTTTGAG-AGAAACTCTATC
1 GATGCTTTGAGCAGAAACTCTATC
24596156 TTTTCTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (24 bp):
GATGCTTTGAGCAGAAACTCTATC
Found at i:24598740 original size:8 final size:8
Alignment explanation
Indices: 24598727--24598755 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24598717 CACTAGAGAC
24598727 CAGTGTTA
1 CAGTGTTA
24598735 CAGTGTTA
1 CAGTGTTA
24598743 CAGTGTTA
1 CAGTGTTA
24598751 CAGTG
1 CAGTG
24598756 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:24598869 original size:23 final size:23
Alignment explanation
Indices: 24598843--24598933 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
24598833 GTGTTATTGA
*
24598843 TCAGTGGTAGCTTCGACTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
24598866 TCAGTGGTAGCTACGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
24598889 ACAGTGGTAGCTTCGGCTACATAT
1 TCAGTGGTAGCTTCGGCTACAT-T
*
24598913 T-AGTGGTAGCTTTGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
24598934 ATTAGTGTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 60 0.98
24 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:24601608 original size:5 final size:5
Alignment explanation
Indices: 24601589--24601642 Score: 62
Period size: 5 Copynumber: 11.4 Consensus size: 5
24601579 TTAGTTTATT
*
24601589 TAATA T-ATAA TAATA TAATA TAAT- TATTA TAATA TAATA TAATA T-AT-
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
24601636 TAATA TA
1 TAATA TA
24601643 TTTAAAACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
3 1 0.02
4 9 0.21
5 30 0.71
6 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAATA
Found at i:24601622 original size:19 final size:20
Alignment explanation
Indices: 24601589--24601637 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
24601579 TTAGTTTATT
*
24601589 TAATATATAATAATATAATA
1 TAATATATTATAATATAATA
24601609 TAAT-TATTATAATATAATA
1 TAATATATTATAATATAATA
24601628 TAATATATTA
1 TAATATATTA
24601638 ATATATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATATATTATAATATAATA
Found at i:24601625 original size:24 final size:23
Alignment explanation
Indices: 24601588--24601642 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
24601578 TTTAGTTTAT
24601588 TTAATAT-ATAATAATATAATATAA
1 TTAATATAAT-ATAATATAATAT-A
*
24601612 TTATTATAATATAATATAATATA
1 TTAATATAATATAATATAATATA
24601635 TTAATATA
1 TTAATATA
24601643 TTTAAAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 18 0.64
25 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAATATAATATAATATAATATA
Found at i:24619341 original size:30 final size:30
Alignment explanation
Indices: 24619306--24619367 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
24619296 TATAACTCAA
*
24619306 TTTCAATACATTAAATACTATTTAGCAATT
1 TTTCAAAACATTAAATACTATTTAGCAATT
*
24619336 TTTCAAAATATTAAATACTATTTAGCAATT
1 TTTCAAAACATTAAATACTATTTAGCAATT
24619366 TT
1 TT
24619368 AAATTGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (30 bp):
TTTCAAAACATTAAATACTATTTAGCAATT
Found at i:24627230 original size:31 final size:32
Alignment explanation
Indices: 24627171--24627235 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
24627161 GGCAAATTAC
*
24627171 AAGAGTAATTGAATGCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
24627203 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
24627234 AA
1 AA
24627236 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:24643784 original size:22 final size:23
Alignment explanation
Indices: 24643751--24643793 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
24643741 TTATTAAATC
24643751 TTTTATTATTTTCAAAATTTTCA
1 TTTTATTATTTTCAAAATTTTCA
*
24643774 TTTT-TTATTTTTAAAATTTT
1 TTTTATTATTTTCAAAATTTT
24643794 TATAGCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTATTATTTTCAAAATTTTCA
Found at i:24652112 original size:130 final size:130
Alignment explanation
Indices: 24651863--24652220 Score: 429
Period size: 130 Copynumber: 2.8 Consensus size: 130
24651853 GAAATATGTA
* * * * * *
24651863 AAACAAATCACTAATTTAAAGTCACAACTGATATTATTAATGCTC-TCTAATTTACGATCACAAA
1 AAACAACTCACTGATTTAAAGTCACAACTGATATTATTAAGGTTCGT-TGATTTACGATCACAAC
* * *
24651927 CTAAGTTCATTGATTTACTATCATGAAAAATCTTCTCTAAGTTAGTTGATTTACTATTGTTACTT
65 CTAAGTTCATTGATTTACTATCATGAAAAATCTTCTCTAAGTTAGCTGATCTACTATTGCTACTT
*
24651992 T
130 C
* * * *
24651993 AAATAGA-T-AGCTGATTTAAGGTCACAGCTGATATTATTAAGGTTCGTTGATTTATGATCACAA
1 AAACA-ACTCA-CTGATTTAAAGTCACAACTGATATTATTAAGGTTCGTTGATTTACGATCACAA
* * * *
24652056 CCTAAATTCATTAATTTACTATCATGAATAATCTTCTCTGAGTTAGCTGATCTACTATTGCTACT
64 CCTAAGTTCATTGATTTACTATCATGAAAAATCTTCTCTAAGTTAGCTGATCTACTATTGCTACT
24652121 TC
129 TC
* * *
24652123 AAACAACTCACTGATTTAATA-TCACAATTGATGTTATTAAGGATT-GTTGATTTACGATCACAG
1 AAACAACTCACTGATTTAA-AGTCACAACTGATATTATTAAGG-TTCGTTGATTTACGATCACAA
* *
24652186 CCTAAGTTTATTGATTTACTATCATGAACAATCTT
64 CCTAAGTTCATTGATTTACTATCATGAAAAATCTT
24652221 TCCCAAGTTG
Statistics
Matches: 193, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
129 2 0.01
130 186 0.96
131 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (130 bp):
AAACAACTCACTGATTTAAAGTCACAACTGATATTATTAAGGTTCGTTGATTTACGATCACAACC
TAAGTTCATTGATTTACTATCATGAAAAATCTTCTCTAAGTTAGCTGATCTACTATTGCTACTTC
Found at i:24653347 original size:12 final size:12
Alignment explanation
Indices: 24653330--24653358 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24653320 CTCACACACC
24653330 CGTGTGCTAGGT
1 CGTGTGCTAGGT
24653342 CGTGTGCTAGGT
1 CGTGTGCTAGGT
24653354 CGTGT
1 CGTGT
24653359 AACAGCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.17, G:0.41, T:0.34
Consensus pattern (12 bp):
CGTGTGCTAGGT
Found at i:24654441 original size:21 final size:21
Alignment explanation
Indices: 24654417--24654464 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
24654407 TCTTGTAACC
24654417 TCTTATTTTACTCCA-CCAATT
1 TCTTATTTT-CTCCATCCAATT
* *
24654438 TCTTGTTTTCTTCATCCAATT
1 TCTTATTTTCTCCATCCAATT
24654459 TCTTAT
1 TCTTAT
24654465 GTAGTTCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.19, C:0.25, G:0.02, T:0.54
Consensus pattern (21 bp):
TCTTATTTTCTCCATCCAATT
Found at i:24656931 original size:10 final size:10
Alignment explanation
Indices: 24656916--24656958 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
24656906 TACAAATTAG
24656916 AAAGAAAGAA
1 AAAGAAAGAA
24656926 AAAGAAAGAA
1 AAAGAAAGAA
*
24656936 AAGGAAAAAGAA
1 AA--AGAAAGAA
24656948 AAAGAAAGAA
1 AAAGAAAGAA
24656958 A
1 A
24656959 GGGAGAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:24656945 original size:22 final size:22
Alignment explanation
Indices: 24656920--24656969 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
24656910 AATTAGAAAG
24656920 AAAGAAAAAGAAAGAAAAGGAA
1 AAAGAAAAAGAAAGAAAAGGAA
* *
24656942 AAAGAAAAAGAAAGAAAGGGAG
1 AAAGAAAAAGAAAGAAAAGGAA
24656964 AAAGAA
1 AAAGAA
24656970 GAAACGCACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAAAGAAAAGGAA
Found at i:24657758 original size:16 final size:16
Alignment explanation
Indices: 24657737--24657767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24657727 AATATATTTT
*
24657737 TGTAAATGTGATAATG
1 TGTAAATATGATAATG
24657753 TGTAAATATGATAAT
1 TGTAAATATGATAAT
24657768 TGGATATTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (16 bp):
TGTAAATATGATAATG
Found at i:24662087 original size:15 final size:16
Alignment explanation
Indices: 24662067--24662097 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
24662057 TTTATTTAAA
24662067 TTTTAATAA-GAAAAT
1 TTTTAATAATGAAAAT
24662082 TTTTAATAATGAAAAT
1 TTTTAATAATGAAAAT
24662098 GAATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
TTTTAATAATGAAAAT
Found at i:24662226 original size:13 final size:13
Alignment explanation
Indices: 24662203--24662238 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
24662193 CAGAAAAAGG
*
24662203 AAAAAAATATTTT
1 AAAAGAATATTTT
*
24662216 ATAAGAATATTTT
1 AAAAGAATATTTT
24662229 AAAAGAATAT
1 AAAAGAATAT
24662239 AGAAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (13 bp):
AAAAGAATATTTT
Found at i:24663058 original size:14 final size:14
Alignment explanation
Indices: 24663035--24663071 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
24663025 TACAATATCC
*
24663035 AAATAATAACAATA
1 AAATAGTAACAATA
24663049 AAATAGTAACAATA
1 AAATAGTAACAATA
*
24663063 TAATAGTAA
1 AAATAGTAA
24663072 AATGACATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
AAATAGTAACAATA
Found at i:24663873 original size:137 final size:134
Alignment explanation
Indices: 24663544--24663873 Score: 335
Period size: 134 Copynumber: 2.4 Consensus size: 134
24663534 TGTTGATCTC
* * * * * * *
24663544 TGATATGCCATTTTTCTTTTCTTTCATCTCTCTGTCTGAATGTTAAAGATTTTTGTTCTTGTTCA
1 TGATAAGCCATTATACTTTTCTTTTATCTCTCTATATGAATGTTAAAGATTTTTGTTCTTATTCA
* * * *
24663609 TTTCTCATACAAAGTCATTTCAAGGCATTGAAATTATCTGCTCATATGCTATTATTGTTATTGAC
66 TGTCTCATACAAAGTCATTTCAAGGCACTGAAACTATCTGCTCATATGCTATTATTGTTATCGAC
*
24663674 CTTT
131 CTCT
* * *
24663678 TGATAAGCTATTATACTTTTCTTTTATCTCTCTATATGAATGTCAAAGCTTTTTGTTCTTATTCA
1 TGATAAGCCATTATACTTTTCTTTTATCTCTCTATATGAATGTTAAAGATTTTTGTTCTTATTCA
* * * * * *
24663743 TGTCTCATGCAAAGTCATTTCAAGGTACT-ACAACTATTTGCTCATACAATGTTATTGTTGTTGT
66 TGTCTCATACAAAGTCATTTCAAGGCACTGA-AACTATCTGCTCAT---ATGCTATTATTGTTAT
*
24663807 CGATCTCT
127 CGACCTCT
* * * *
24663815 TGATATA-CCATTATA-TTATTGTTTTATCTCAT-TATATGACTGTTGAAGTTTTTTGTTCT
1 TGATA-AGCCATTATACTT-TTCTTTTATCTC-TCTATATGAATGTTAAAGATTTTTGTTCT
24663874 CATTTCAAGG
Statistics
Matches: 161, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
133 1 0.01
134 92 0.57
136 2 0.01
137 64 0.40
138 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (134 bp):
TGATAAGCCATTATACTTTTCTTTTATCTCTCTATATGAATGTTAAAGATTTTTGTTCTTATTCA
TGTCTCATACAAAGTCATTTCAAGGCACTGAAACTATCTGCTCATATGCTATTATTGTTATCGAC
CTCT
Found at i:24668341 original size:25 final size:26
Alignment explanation
Indices: 24668309--24668406 Score: 114
Period size: 25 Copynumber: 3.9 Consensus size: 26
24668299 ACAAGCTATA
*
24668309 AACGGTAAGCTCCA-CCGAGCTGAGT
1 AACGGTAAGCTCCATACGAGCTGAGT
*
24668334 AACGGTAAGCT-CATATGAGCTGAGT
1 AACGGTAAGCTCCATACGAGCTGAGT
*
24668359 AACGGTAAGCT-CATATGAGCTGAGT
1 AACGGTAAGCTCCATACGAGCTGAGT
* * *
24668384 ATCAGTAAGCT-CATAAGAGCTGA
1 AACGGTAAGCTCCATACGAGCTGA
24668407 AATCGGTAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
24 2 0.03
25 65 0.97
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (26 bp):
AACGGTAAGCTCCATACGAGCTGAGT
Found at i:24668367 original size:50 final size:50
Alignment explanation
Indices: 24668309--24668406 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
24668299 ACAAGCTATA
* * *
24668309 AACGGTAAGCTCCA-CCGAGCTGAGTAACGGTAAGCTCATATGAGCTGAGT
1 AACGGTAAGCT-CATACGAGCTGAGTAACAGTAAGCTCATAAGAGCTGAGT
* *
24668359 AACGGTAAGCTCATATGAGCTGAGTATCAGTAAGCTCATAAGAGCTGA
1 AACGGTAAGCTCATACGAGCTGAGTAACAGTAAGCTCATAAGAGCTGA
24668407 AATCGGTAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.05
50 40 0.95
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (50 bp):
AACGGTAAGCTCATACGAGCTGAGTAACAGTAAGCTCATAAGAGCTGAGT
Found at i:24668708 original size:16 final size:17
Alignment explanation
Indices: 24668682--24668714 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24668672 ATAAATTTAA
24668682 CTCATTTCAATATAATC
1 CTCATTTCAATATAATC
*
24668699 CTCA-TTCAATTTAATC
1 CTCATTTCAATATAATC
24668715 TATCATGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (17 bp):
CTCATTTCAATATAATC
Found at i:24679169 original size:13 final size:13
Alignment explanation
Indices: 24679153--24679202 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
24679143 AGCTCTCTAC
*
24679153 GCGAGCCCTATGT
1 GCGAGCCCAATGT
* *
24679166 GCGAGCTCAATAT
1 GCGAGCCCAATGT
24679179 GCGAGCCCAATGT
1 GCGAGCCCAATGT
* *
24679192 GTGAGCTCAAT
1 GCGAGCCCAAT
24679203 ACACAAGCCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (13 bp):
GCGAGCCCAATGT
Found at i:24679172 original size:26 final size:26
Alignment explanation
Indices: 24679150--24679228 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
24679140 GTGAGCTCTC
*
24679150 TACGCGAGCCCTATGTGCGAGCTCAA
1 TACGCGAGCCCAATGTGCGAGCTCAA
* *
24679176 TATGCGAGCCCAATGTGTGAGCTCAA
1 TACGCGAGCCCAATGTGCGAGCTCAA
* * * *
24679202 TACACAAGCCTAATGTGCGAGATCAA
1 TACGCGAGCCCAATGTGCGAGCTCAA
24679228 T
1 T
24679229 GTGTGAACCA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (26 bp):
TACGCGAGCCCAATGTGCGAGCTCAA
Found at i:24698458 original size:9 final size:9
Alignment explanation
Indices: 24698444--24698474 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24698434 GTTAAACGAA
24698444 TCGAGTTAT
1 TCGAGTTAT
*
24698453 TCGAGTTAA
1 TCGAGTTAT
24698462 TCGAGTTAT
1 TCGAGTTAT
24698471 TCGA
1 TCGA
24698475 ATTAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:24698465 original size:18 final size:18
Alignment explanation
Indices: 24698442--24698484 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
24698432 GAGTTAAACG
*
24698442 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAATT
24698460 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
24698478 AACTCGA
1 AA-TCGA
24698485 ATTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:24698545 original size:9 final size:9
Alignment explanation
Indices: 24698528--24698573 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
24698518 TGAGTTTTCG
24698528 AATTCGAAT
1 AATTCGAAT
*
24698537 AACTCGAAT
1 AATTCGAAT
*
24698546 ATTTCGAAT
1 AATTCGAAT
24698555 AATTCGAAT
1 AATTCGAAT
24698564 AATTCGAAT
1 AATTCGAAT
24698573 A
1 A
24698574 TCAAACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24698835 original size:30 final size:31
Alignment explanation
Indices: 24698787--24698846 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
24698777 AAACCTTTTA
*
24698787 TTTTACCCCAAAATTTTTACTCTC-TCCCAC
1 TTTTACCCCAAAACTTTTACTCTCTTCCCAC
*
24698817 TTTT-CCCCTAAAACTTTTATTCTCTTCCCA
1 TTTTACCCC-AAAACTTTTACTCTCTTCCCA
24698847 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 17 0.65
31 5 0.19
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTACCCCAAAACTTTTACTCTCTTCCCAC
Found at i:24698966 original size:17 final size:17
Alignment explanation
Indices: 24698927--24698972 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
24698917 ACTCTCCCTA
24698927 TTTACTTTCCCTC-AAACT
1 TTTA-TTTCCC-CAAAACT
24698945 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
24698962 TTTATTTCCCC
1 TTTATTTCCCC
24698973 CCAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 5 0.20
18 10 0.40
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:24704081 original size:14 final size:15
Alignment explanation
Indices: 24704053--24704101 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
24704043 AGGGTCTGTT
*
24704053 TGTTTGCTAGTAAAA
1 TGTTTTCTAGTAAAA
*
24704068 TGTTTTC-CGTAAAA
1 TGTTTTCTAGTAAAA
*
24704082 TGATTTCTAG-AAAA
1 TGTTTTCTAGTAAAA
24704096 TGTTTT
1 TGTTTT
24704102 ACTTTTCTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (15 bp):
TGTTTTCTAGTAAAA
Found at i:24704114 original size:34 final size:35
Alignment explanation
Indices: 24704070--24704136 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
24704060 TAGTAAAATG
*
24704070 TTTTCCGTAAAATGATTT-CTAGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
24704104 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
24704137 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:24704201 original size:32 final size:32
Alignment explanation
Indices: 24704115--24704202 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 32
24704105 TTTCTGTAAA
*
24704115 ATGATTTACTGGAAAATATTTTCTGGTGTTTGG
1 ATGATTTCCT-GAAAATATTTTCTGGTGTTTGG
* * *
24704148 ATGA-ATCTGTGTAAAATATTTTCTGTTGTTTGG
1 ATGATTTC-CTG-AAAATATTTTCTGGTGTTTGG
24704181 CA-GATTTCCTGAAAATATTTTC
1 -ATGATTTCCTGAAAATATTTTC
24704203 CGGAATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
32 13 0.29
33 29 0.64
34 3 0.07
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.45
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTCTGGTGTTTGG
Found at i:24707561 original size:114 final size:114
Alignment explanation
Indices: 24707362--24707934 Score: 767
Period size: 114 Copynumber: 5.0 Consensus size: 114
24707352 GAAATAAGAA
** * ** * *
24707362 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAATGACGCTATTTACCGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
24707426 TCGGGGATTTTGTGGCGTTTTTAAGAAAGCGCCGCTAATTCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
24707475 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
24707540 TCGTGGG-CTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCT
66 TCG-GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
24707589 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-T
* * ** *
24707654 TTCGGGTG-TTTAGTGGCGTTTTTAAGAAAGCGGCTTTAATACTCAGGGCT
65 TTCGGG-GATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * *
24707704 TTAGCGGCGTTTTTGGGGAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCCTTAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
24707769 TCGGGGAATTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCAGGGAT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * *
24707818 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAGAAAAA-CTAAGCCAAACGGCGCCGTTTTCTGTGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAA-AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
24707882 TTCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAATGCTTAGGGAT
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
24707932 TTA
1 TTA
24707935 AAATAATTTA
Statistics
Matches: 407, Mismatches: 47, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
113 26 0.06
114 276 0.68
115 105 0.26
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:24707770 original size:229 final size:228
Alignment explanation
Indices: 24707362--24707921 Score: 786
Period size: 229 Copynumber: 2.5 Consensus size: 228
24707352 GAAATAAGAA
** * ** * *
24707362 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAATGACGCTATTTACCGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
24707426 TCGGGGATTTTGTGGCGTTTTTAAGAAAGCGCCGCTAATTCTCAGGGCTTTAGCGGCGTTTTTGA
66 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATACTCAGGGCTTTAGCGGCGTTTTTGA
* * * *
24707491 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTTTCGTGGG-CTTAGCGG
131 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCCTGAGCTTTCG-GGGAATTAGCGG
* *
24707555 CATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCT
195 CATTTTTAAGAAAGCGCCGCTAATGCTCAGGGAT
*
24707589 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-T
* **
24707654 TTCGGGTG-TTTAGTGGCGTTTTTAAGAAAGCGGCTTTAATACTCAGGGCTTTAGCGGCGTTTTT
65 TTCGGG-GATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATACTCAGGGCTTTAGCGGCGTTTTT
* * *
24707718 GGGGAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCCTTAGCTTTCGGGGAATTAGCG
129 GAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCCTGAGCTTTCGGGGAATTAGCG
* *
24707783 GCGTTTTTCAGAAAGCGCCGCTAATGCTCAGGGAT
194 GCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGAT
* * * *
24707818 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAGAAAAA-CTAAGCCAAACGGCGCCGTTTTCTGTGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAA-AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
24707882 TTCGGGGATTTAGCGGCGTTTTTATGAAAGCGCCGCTAAT
65 TTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAAT
24707922 GCTTAGGGAT
Statistics
Matches: 293, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
227 26 0.09
228 66 0.23
229 195 0.67
230 6 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (228 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATACTCAGGGCTTTAGCGGCGTTTTTGA
GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCCTGAGCTTTCGGGGAATTAGCGGC
ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGAT
Found at i:24708173 original size:21 final size:21
Alignment explanation
Indices: 24708149--24708214 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
24708139 GGGGTATGGA
24708149 TTTAGGGTTTGGGATTTAAGG
1 TTTAGGGTTTGGGATTTAAGG
* * * *
24708170 TTTAGGGGTTAGG-TGTTATGC
1 TTTAGGGTTTGGGAT-TTAAGG
*
24708191 TTTAGGGTTAGGGGATTTAAGG
1 TTTAGGGTT-TGGGATTTAAGG
24708213 TT
1 TT
24708215 AGTGGATTTA
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
20 1 0.03
21 23 0.70
22 8 0.24
23 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.38, T:0.42
Consensus pattern (21 bp):
TTTAGGGTTTGGGATTTAAGG
Found at i:24708214 original size:15 final size:15
Alignment explanation
Indices: 24708191--24708248 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
24708181 GGTGTTATGC
*
24708191 TTTAGGGTTAGGGGA
1 TTTAAGGTTAGGGGA
*
24708206 TTTAAGGTTAGTGGA
1 TTTAAGGTTAGGGGA
* *
24708221 TTTAGGGGTTA-GGGT
1 TTTA-AGGTTAGGGGA
24708236 TTTAATGGTTAGG
1 TTTAA-GGTTAGG
24708249 TTAGAGTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 28 0.82
16 6 0.18
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
TTTAAGGTTAGGGGA
Found at i:24708232 original size:16 final size:15
Alignment explanation
Indices: 24708146--24708234 Score: 62
Period size: 15 Copynumber: 6.1 Consensus size: 15
24708136 GTCGGGGTAT
*
24708146 GGATTTAGGGTT-TG
1 GGATTTAGGGTTAGG
*
24708160 GGATTTAAGGTTTAGG
1 GGATTT-AGGGTTAGG
24708176 GG--TTAGGTGTTA--
1 GGATTTAGG-GTTAGG
* *
24708188 TGCTTTAGGGTTAGG
1 GGATTTAGGGTTAGG
* *
24708203 GGATTTAAGGTTAGT
1 GGATTTAGGGTTAGG
24708218 GGATTTAGGGGTTAGG
1 GGATTTA-GGGTTAGG
24708234 G
1 G
24708235 TTTTAATGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
12 1 0.02
13 7 0.12
14 16 0.28
15 23 0.40
16 10 0.18
ACGTcount: A:0.19, C:0.01, G:0.42, T:0.38
Consensus pattern (15 bp):
GGATTTAGGGTTAGG
Found at i:24708663 original size:109 final size:109
Alignment explanation
Indices: 24708472--24708765 Score: 579
Period size: 109 Copynumber: 2.7 Consensus size: 109
24708462 TTAATACTTN
*
24708472 TCGTTTTGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGTGGCGTTTTTC
1 TCGTTTTGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGGCGTTTTTC
24708537 GTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACG
66 GTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACG
24708581 TCGTTTTGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGGCGTTTTTC
1 TCGTTTTGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGGCGTTTTTC
24708646 GTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACG
66 GTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACG
24708690 TCGTTTTGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGGCGTTTTTC
1 TCGTTTTGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGGCGTTTTTC
24708755 GTAAAAACGCC
66 GTAAAAACGCC
24708766 GCTATTGCTT
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 184 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (109 bp):
TCGTTTTGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGGCGTTTTTC
GTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACG
Found at i:24709368 original size:26 final size:27
Alignment explanation
Indices: 24709332--24709382 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
24709322 CTTGTATTTT
*
24709332 AGCTAGAAATCGACGATG-CCAGAAGA
1 AGCTAGAAATCGACAATGACCAGAAGA
24709358 AGCTAGAAATCGACAATGACCAGAA
1 AGCTAGAAATCGACAATGACCAGAA
24709383 ACTATAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.12
Consensus pattern (27 bp):
AGCTAGAAATCGACAATGACCAGAAGA
Found at i:24711218 original size:2 final size:2
Alignment explanation
Indices: 24711211--24711235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24711201 TGGATTGTCA
24711211 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
24711236 CAGTTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:24712115 original size:85 final size:85
Alignment explanation
Indices: 24711955--24712203 Score: 282
Period size: 85 Copynumber: 2.8 Consensus size: 85
24711945 CTCTAAACAT
* * * *
24711955 GCCGCTAAAGGTCTTGCTCTTTAGCGGCGTTTTCAGGTAAAGCGCCGCTAAAAGTCTTGTTCTTT
1 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTT-TGGGAAAGCGCCGCTAAAGGTCTTGTTCTTT
* *
24712020 AACGACGTTTTCGGGGAAAGC
65 AGCGACGTTTTCAGGGAAAGC
*
24712041 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAAAGGTCTTGTTCTTTA
1 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCTTGTTCTTTA
* * *
24712106 GCGGCGTTTTTATGGAAAGC
66 GCGACGTTTTCAGGGAAAGC
** * * *
24712126 GTTGTTAAAGTTCTTGTTCTTGTTCTTTAGCGGCGTTTTTGGGAAAAGTGCCGCTAAAGGTCATG
1 GCCGCTAAAG-----G-TCTTGTTCTTTAGCGGCGTTTTTGGG-AAAGCGCCGCTAAAGGTCTTG
*
24712191 ATCTTTAGCGACG
59 TTCTTTAGCGACG
24712204 CTTATTTCTA
Statistics
Matches: 138, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
85 50 0.36
86 32 0.23
90 1 0.01
91 26 0.19
92 29 0.21
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (85 bp):
GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCTTGTTCTTTA
GCGACGTTTTCAGGGAAAGC
Found at i:24712184 original size:49 final size:42
Alignment explanation
Indices: 24711955--24712200 Score: 267
Period size: 43 Copynumber: 5.6 Consensus size: 42
24711945 CTCTAAACAT
* * *
24711955 GCCGCTAAAGGTCTTGCTCTTTAGCGGCGTTTTCAGGTAAAGC
1 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTT-TGGGAAAGC
* * * *
24711998 GCCGCTAAAAGTCTTGTTCTTTAACGACGTTTTCGGGGAAAGC
1 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTT-TGGGAAAGC
*
24712041 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTTGGGGAAGC
1 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTTGGGAAAGC
*
24712083 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTTATGGAAAGC
1 GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTT-GGGAAAGC
** * *
24712126 GTTGTTAAAGTTCTTGTTCTTGTTCTTTAGCGGCGTTTTTGGGAAAAGT
1 GCCGCTAAAG-----G-TCTTGTTCTTTAGCGGCGTTTTTGGG-AAAGC
* *
24712175 GCCGCTAAAGGTCATGATCTTTAGCG
1 GCCGCTAAAGGTCTTGTTCTTTAGCG
24712201 ACGCTTATTT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
42 41 0.24
43 93 0.54
44 1 0.01
48 3 0.02
49 34 0.20
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.35
Consensus pattern (42 bp):
GCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTTTGGGAAAGC
Found at i:24719213 original size:113 final size:115
Alignment explanation
Indices: 24719070--24719534 Score: 342
Period size: 114 Copynumber: 4.1 Consensus size: 115
24719060 TAGAGAATTC
* *
24719070 GTGGCGTTTTTTATAAAAAACGCCGCAAAAGAATAGT-ATTAGCGGCGTTTAACAAAAAGCGCCG
1 GTGGCGTTTTTTATAAAAAACGCCGCAAAAGAACA-TAATTAGCGGCGTTTATCAAAAAGCGCCG
* * * **
24719134 CAAATATCTTAAGGAAAACGTACCATTTTATCTTGAGGTAGATTAATATTA
65 CAAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATTAATATTA
* * * **** *
24719185 GTGGC-TTTTTTA-AAAAAATGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGC
1 GTGGCGTTTTTTATAAAAAACGCCGCAAAAGAACATAATTAGCGGCGTTTATCAAAAAGCGCCGC
* * * * ** * * *
24719248 AAAATACCTTAACCAAAACGCAGCGTTTGGT-TCAATTGTATATTAGACATT-
66 -AAATATCTTAACGAAAACGCACCGTTTCGTCTTGA-GGTAGATTA-ATATTA
* * * **
24719299 GTGGCGTTTTCTAT--AAAACACCGCAAAAGAATAGT-ATTAGCGGCGTTT-TCGGTAAAGCGCC
1 GTGGCGTTTTTTATAAAAAACGCCGCAAAAGAACA-TAATTAGCGGCGTTTATC-AAAAAGCGCC
* * *
24719360 GCAAATATCTTAATGAAAACACACCGTTTCGTCTTGAGGTAGATTAGTATTA
64 GCAAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATTAATATTA
* * * **** *
24719412 GTGGCG-TTTTTA-GAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATGCGCCGC
1 GTGGCGTTTTTTATAAAAAACGCCGCAAAAGAACATAATTAGCGGCGTTTATCAAAAAGCGCCGC
* * *** * * *
24719475 AAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA-ATTA
66 -AAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATTA-ATATTA
24719526 GTGGCGTTT
1 GTGGCGTTT
24719535 ACGATAAAAC
Statistics
Matches: 267, Mismatches: 66, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
112 10 0.04
113 116 0.43
114 123 0.46
115 18 0.07
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (115 bp):
GTGGCGTTTTTTATAAAAAACGCCGCAAAAGAACATAATTAGCGGCGTTTATCAAAAAGCGCCGC
AAATATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATTAATATTA
Found at i:24719328 original size:114 final size:113
Alignment explanation
Indices: 24719166--24719552 Score: 367
Period size: 114 Copynumber: 3.4 Consensus size: 113
24719156 CCATTTTATC
* * * * *
24719166 TTGAGGTAGATTA-ATATTAGTGGC-TTTTTTAAAAAAATGCCGTAAAAGAACATAATTAGTGGC
1 TTGAGGTATATTAGA-ATTAGTGGCGTTTTCT-ATAAAACGCCGCAAAAGAACATAATTAGTGGC
24719229 GTTTATTTGGATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGT
64 GTTTATTTGGATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGT
** * * * *
24719279 TCAATTGTATATTAGACATT-GTGGCGTTTTCTATAAAACACCGCAAAAGAATAGT-ATTAGCGG
1 TTGA-GGTATATTAGA-ATTAGTGGCGTTTTCTATAAAACGCCGCAAAAGAACA-TAATTAGTGG
* * * ** * * *
24719342 CG-TT-TTCGGTAAAGCGCCGC-AAATATCTTAATGAAAACACACCGTTTCGT
63 CGTTTATTTGG--ATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGT
* * * *
24719392 CTTGAGGTAGATTAGTATTAGTGGCGTTTT-TAGAAAAACGCCGTAAAAGAACATAATTAGTGGC
1 -TTGAGGTATATTAGAATTAGTGGCGTTTTCTA-TAAAACGCCGCAAAAGAACATAATTAGTGGC
** **
24719456 GTTTATTTTTATGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTT
64 GTTTATTTGGATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGG-T
* *
24719507 TTGAGGTATATTAGAATTAGTGGCGTTTACGATAAAACGCCGCAAA
1 TTGAGGTATATTAGAATTAGTGGCGTTTTCTATAAAACGCCGCAAA
24719553 TATCTTAACG
Statistics
Matches: 211, Mismatches: 48, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
112 10 0.05
113 79 0.37
114 108 0.51
115 14 0.07
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (113 bp):
TTGAGGTATATTAGAATTAGTGGCGTTTTCTATAAAACGCCGCAAAAGAACATAATTAGTGGCGT
TTATTTGGATGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGT
Found at i:24719487 original size:227 final size:227
Alignment explanation
Indices: 24719063--24719552 Score: 689
Period size: 227 Copynumber: 2.1 Consensus size: 227
24719053 GAAGGATTAG
* *
24719063 AGAATTCGTGGCGTTTTTTATAAAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAA
1 AGAATTAGTGGCGTTTTCTAT--AAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAA
** * *
24719128 GCGCCGCAAATATCTTAAGGAAAACGTACCATTTTATCTTGAGGTAGATTAATATTAGTGGCTTT
64 GCGCCGCAAATATCTTAAGGAAAACACACCATTTCATCTTGAGGTAGATTAATATTAGTGGCGTT
*
24719193 TTTAAAAAAATGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGCAAAATACCTT
129 TTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGCAAAATACCTT
** *
24719258 AACCAAAACGCAGCGTTTGG-TTCAATTGTATATT
194 AACCAAAACGCAGAATTTGGTTTCAA-GGTATATT
* * **
24719292 AGACATT-GTGGCGTTTTCTATAAAACACCGCAAAAGAATAGTATTAGCGGCGTTT-TCGGTAAA
1 AGA-ATTAGTGGCGTTTTCTATAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAAC-AAAAA
* * * *
24719355 GCGCCGCAAATATCTTAATGAAAACACACCGTTTCGTCTTGAGGTAGATTAGTATTAGTGGCGTT
64 GCGCCGCAAATATCTTAAGGAAAACACACCATTTCATCTTGAGGTAGATTAATATTAGTGGCGTT
* **
24719420 TTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATGCGCCGCAAAATACCTT
129 TTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGCAAAATACCTT
**
24719485 AACCAAAACGCAGAATTTGGTTTTGAGGTATATT
194 AACCAAAACGCAGAATTTGGTTTCAAGGTATATT
* *
24719519 AGAATTAGTGGCGTTTACGATAAAACGCCGCAAA
1 AGAATTAGTGGCGTTTTCTATAAAACGCCGCAAA
24719553 TATCTTAACG
Statistics
Matches: 232, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
226 4 0.02
227 206 0.89
228 3 0.01
229 16 0.07
230 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (227 bp):
AGAATTAGTGGCGTTTTCTATAAAACGCCGCAAAAGAATAGTATTAGCGGCGTTTAACAAAAAGC
GCCGCAAATATCTTAAGGAAAACACACCATTTCATCTTGAGGTAGATTAATATTAGTGGCGTTTT
TAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCGCAAAATACCTTAA
CCAAAACGCAGAATTTGGTTTCAAGGTATATT
Found at i:24719578 original size:74 final size:75
Alignment explanation
Indices: 24719469--24719608 Score: 194
Period size: 74 Copynumber: 1.9 Consensus size: 75
24719459 TATTTTTATG
* * *
24719469 CGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA-ATTAGTGGCGT
1 CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
24719533 TTACGATAAAA
65 TTACGATAAAA
* * **
24719544 CGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
24719608 T
66 T
24719609 TTAAAAAAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
73 1 0.02
74 50 0.88
75 6 0.11
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (75 bp):
CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
TACGATAAAA
Found at i:24719585 original size:188 final size:188
Alignment explanation
Indices: 24719334--24719723 Score: 636
Period size: 188 Copynumber: 2.1 Consensus size: 188
24719324 AAAGAATAGT
* * * * *
24719334 ATTAGCGGCGTTTTCGGTAAAGCGCCGCAAATATCTTAATGAAAACACACCGTTTCGTCTTGAGG
1 ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACACACCGTTTCGTCTTGAGG
* *
24719399 TAGATTAGTATTAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
** *
24719464 TTATGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA
* *
24719522 ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGG
1 ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACACACCGTTTCGTCTTGAGG
24719587 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
* ** *
24719652 GGAAGCGCCGCAAAATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA
24719710 ATTAGTGGCGTTTA
1 ATTAGTGGCGTTTA
24719724 TGGTAAAATG
Statistics
Matches: 186, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
188 186 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (188 bp):
ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACACACCGTTTCGTCTTGAGG
TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA
Found at i:24719618 original size:74 final size:75
Alignment explanation
Indices: 24719469--24719627 Score: 187
Period size: 74 Copynumber: 2.1 Consensus size: 75
24719459 TATTTTTATG
* * *
24719469 CGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
* *
24719534 TACGATAAAA
66 TACAAAAAAA
* * **
24719544 CGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
1 CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAGA-ATTAGTGGCGT
**
24719607 TTTTAAAAAAA
65 TTACAAAAAAA
*
24719618 CGCCGTAAAA
1 CGCCGCAAAA
24719628 GAACATAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
73 1 0.01
74 60 0.86
75 9 0.13
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (75 bp):
CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
TACAAAAAAA
Found at i:24720160 original size:7 final size:7
Alignment explanation
Indices: 24720150--24720182 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
24720140 GGTTTATGGA
24720150 TTAGGGG
1 TTAGGGG
24720157 TTAGGGG
1 TTAGGGG
*
24720164 TTATGGG
1 TTAGGGG
24720171 TTAGGGG
1 TTAGGGG
24720178 TTAGG
1 TTAGG
24720183 TTAGGAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:24720169 original size:21 final size:21
Alignment explanation
Indices: 24720143--24720182 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24720133 GATTTAAGGT
24720143 TTATGGATTAGGGGTTAGGGG
1 TTATGGATTAGGGGTTAGGGG
*
24720164 TTATGGGTTAGGGGTTAGG
1 TTATGGATTAGGGGTTAGG
24720183 TTAGGAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.47, T:0.35
Consensus pattern (21 bp):
TTATGGATTAGGGGTTAGGGG
Found at i:24720173 original size:14 final size:13
Alignment explanation
Indices: 24720154--24720193 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
24720144 TATGGATTAG
24720154 GGGTTAGGGGTTA
1 GGGTTAGGGGTTA
24720167 TGGGTTAGGGGTTA
1 -GGGTTAGGGGTTA
*
24720181 -GGTTAGGAGTTA
1 GGGTTAGGGGTTA
24720193 G
1 G
24720194 ATGTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (13 bp):
GGGTTAGGGGTTA
Found at i:24720304 original size:7 final size:7
Alignment explanation
Indices: 24720292--24720374 Score: 60
Period size: 7 Copynumber: 11.9 Consensus size: 7
24720282 TAAATAAGTT
24720292 TTAGGGG
1 TTAGGGG
24720299 TTAGGGG
1 TTAGGGG
**
24720306 TTAAAGG
1 TTAGGGG
* *
24720313 TCATGGGC
1 TTA-GGGG
* *
24720321 TAAGGGT
1 TTAGGGG
* *
24720328 TTAAGGT
1 TTAGGGG
24720335 TTA-GGG
1 TTAGGGG
*
24720341 TTAAGGG
1 TTAGGGG
*
24720348 TTAAGGG
1 TTAGGGG
24720355 TTAGGGG
1 TTAGGGG
24720362 TTAGGGG
1 TTAGGGG
24720369 TTAGGG
1 TTAGGG
24720375 ATTGGGTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
6 5 0.08
7 54 0.87
8 3 0.05
ACGTcount: A:0.22, C:0.02, G:0.46, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:24720362 original size:21 final size:21
Alignment explanation
Indices: 24720292--24720371 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
24720282 TAAATAAGTT
* *
24720292 TTAGGGGTTAGGGGTTAAAGG
1 TTAGGGGTTAAGGGTTAAGGG
* * * *
24720313 TCATGGGCTAAGGGTTTAAGGT
1 TTAGGGGTTAAGGG-TTAAGGG
24720335 TTA-GGGTTAAGGGTTAAGGG
1 TTAGGGGTTAAGGGTTAAGGG
*
24720355 TTAGGGGTTAGGGGTTA
1 TTAGGGGTTAAGGGTTA
24720372 GGGATTGGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 9 0.19
21 31 0.66
22 7 0.15
ACGTcount: A:0.23, C:0.03, G:0.44, T:0.31
Consensus pattern (21 bp):
TTAGGGGTTAAGGGTTAAGGG
Found at i:24720619 original size:14 final size:14
Alignment explanation
Indices: 24720600--24720626 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24720590 GATATGCAAT
24720600 ATATAATAATTTGA
1 ATATAATAATTTGA
24720614 ATATAATAATTTG
1 ATATAATAATTTG
24720627 GAATTGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATAATAATTTGA
Found at i:24720710 original size:18 final size:18
Alignment explanation
Indices: 24720663--24720703 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
24720653 TCAAAATTAC
24720663 AAAAAATAAAATGAAAAT
1 AAAAAATAAAATGAAAAT
*
24720681 AAAAAATAAAAAG-AAAT
1 AAAAAATAAAATGAAAAT
24720698 AAAAAA
1 AAAAAA
24720704 ACTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAATGAAAAT
Found at i:24721545 original size:198 final size:198
Alignment explanation
Indices: 24721194--24721585 Score: 588
Period size: 198 Copynumber: 2.0 Consensus size: 198
24721184 CGCAATTTTA
*
24721194 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTACACGCC
1 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
* * * * * ** *
24721259 GCAAAATTATTTTAATTTTTATGGAGACGATGCCGTTTTGTCTAAAACGCCATGAGTTTTAGTTT
66 GCAAAAATATTTTAATTTTTATGGAGACGATGACGTTTTCTCTAAAACGCAATGACTTAGAGTTA
*
24721324 ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCACTAGTATATAAACGCCGCAAAG
131 ACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCACTAGTATATAAACGCCGCAAAG
24721389 TAC
196 TAC
** *
24721392 AGAAATTGTTTAGGAAAACGGCTTCGTTTTCTTATTTA-CTTTTAGTGGCGCTTTTAGTAAACGC
1 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATC-TTTAGTGGCGCTTTTAGTAAACGC
* * *
24721456 CGCAAAAATGTTTTAATTTTTATGGAGACGATGATGTTTTCTCTAAAATGCAATGACTTAGAGTT
65 CGCAAAAATATTTTAATTTTTATGGAGACGATGACGTTTTCTCTAAAACGCAATGACTTAGAGTT
* * * *
24721521 AACTGATCGGGAAACGATAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGCCGCAAA
130 AACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCACTAGTATATAAACGCCGCAAA
24721586 TGGGTTAATT
Statistics
Matches: 173, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
197 1 0.01
198 172 0.99
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (198 bp):
AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
GCAAAAATATTTTAATTTTTATGGAGACGATGACGTTTTCTCTAAAACGCAATGACTTAGAGTTA
ACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCACTAGTATATAAACGCCGCAAAG
TAC
Found at i:24722100 original size:10 final size:10
Alignment explanation
Indices: 24722085--24722109 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24722075 TCGAAAATTG
24722085 CAAAATTGTT
1 CAAAATTGTT
24722095 CAAAATTGTT
1 CAAAATTGTT
24722105 CAAAA
1 CAAAA
24722110 CCATGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
CAAAATTGTT
Found at i:24722919 original size:7 final size:7
Alignment explanation
Indices: 24722907--24722979 Score: 92
Period size: 7 Copynumber: 10.3 Consensus size: 7
24722897 TGTTTCATTA
24722907 TTTTCTG
1 TTTTCTG
24722914 TTTTCTG
1 TTTTCTG
24722921 TTTTCTG
1 TTTTCTG
**
24722928 CATTCTG
1 TTTTCTG
24722935 TTTTCTG
1 TTTTCTG
*
24722942 TTTTCTA
1 TTTTCTG
*
24722949 TTTTTTG
1 TTTTCTG
24722956 TTTTCTG
1 TTTTCTG
*
24722963 TTTTGCTA
1 TTTT-CTG
24722971 TTTTCTG
1 TTTTCTG
24722978 TT
1 TT
24722980 GAATGAAGTG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 49 0.89
8 6 0.11
ACGTcount: A:0.04, C:0.14, G:0.12, T:0.70
Consensus pattern (7 bp):
TTTTCTG
Found at i:24722974 original size:21 final size:21
Alignment explanation
Indices: 24722905--24722979 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
24722895 TATGTTTCAT
24722905 TATTTTCTGTTTTCTGTTTTC
1 TATTTTCTGTTTTCTGTTTTC
***
24722926 TGCATTCTGTTTTCTGTTTTC
1 TATTTTCTGTTTTCTGTTTTC
*
24722947 TATTTTTTGTTTTCTGTTTTGC
1 TATTTTCTGTTTTCTGTTTT-C
24722969 TATTTTCTGTT
1 TATTTTCTGTT
24722980 GAATGAAGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 34 0.76
22 11 0.24
ACGTcount: A:0.05, C:0.13, G:0.12, T:0.69
Consensus pattern (21 bp):
TATTTTCTGTTTTCTGTTTTC
Found at i:24723898 original size:102 final size:102
Alignment explanation
Indices: 24723380--24723885 Score: 1003
Period size: 102 Copynumber: 5.0 Consensus size: 102
24723370 TTAATATTAA
24723380 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
24723445 AATATAATTTTTTAAAATTTATATATTACATTATGGG
66 AATATAATTTTTTAAAATTTATATATTACATTATGGG
24723482 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
24723547 AATATAATTTTTTAAAATTTATATATTACATTATGGG
66 AATATAATTTTTTAAAATTTATATATTACATTATGGG
24723584 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
24723649 AATATAATTTTTTAAAATTTATATATTACATTATGGG
66 AATATAATTTTTTAAAATTTATATATTACATTATGGG
24723686 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
24723751 AATATAATTTTTTAAAATTTATATATTACATTATGGG
66 AATATAATTTTTTAAAATTTATATATTACATTATGGG
24723788 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
1 AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
*
24723853 AATATAATTTTTCAAAATTTATATATTACATTA
66 AATATAATTTTTTAAAATTTATATATTACATTA
24723886 CTTAAATATA
Statistics
Matches: 403, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 403 1.00
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (102 bp):
AATATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCG
AATATAATTTTTTAAAATTTATATATTACATTATGGG
Found at i:24723986 original size:13 final size:13
Alignment explanation
Indices: 24723968--24724019 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
24723958 TTTTACTCTT
*
24723968 AATATATTACTTG
1 AATATATTACTTA
24723981 AATATATTACTTA
1 AATATATTACTTA
*
24723994 AATAAATTACTTA
1 AATATATTACTTA
*
24724007 AATACATTACTTA
1 AATATATTACTTA
24724020 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:24724044 original size:53 final size:53
Alignment explanation
Indices: 24723987--24724122 Score: 200
Period size: 53 Copynumber: 2.6 Consensus size: 53
24723977 CTTGAATATA
**
24723987 TTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* ** * *
24724040 TTACTTAAATATGTTACTCAGTTACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
*
24724093 TTACTTAAATATGTTACTTGAATACATTAC
1 TTACTTAAATATGTTACTTAAATACATTAC
24724123 CCGCTATAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 71 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
Found at i:24724291 original size:9 final size:9
Alignment explanation
Indices: 24724267--24724464 Score: 126
Period size: 9 Copynumber: 22.8 Consensus size: 9
24724257 TATGTACAAG
24724267 AACTTACAT
1 AACTTACAT
* *
24724276 AATTTACAC
1 AACTTACAT
*
24724285 AACTTACTT
1 AACTTACAT
*
24724294 AACCTACAT
1 AACTTACAT
24724303 AACTTACAT
1 AACTTACAT
24724312 AA--TACA-
1 AACTTACAT
24724318 AAGCTTACAT
1 AA-CTTACAT
* *
24724328 AACTAAAAT
1 AACTTACAT
* *
24724337 AGCTTACAC
1 AACTTACAT
24724346 AACTTACAT
1 AACTTACAT
*
24724355 AACATACAT
1 AACTTACAT
* **
24724364 TACTTTGAT
1 AACTTACAT
24724373 AACTTACAT
1 AACTTACAT
*
24724382 AAGTTACAT
1 AACTTACAT
*
24724391 AA--TACAC
1 AACTTACAT
24724398 AACTTACAT
1 AACTTACAT
** *
24724407 AGTTTACTT
1 AACTTACAT
*
24724416 AA--TACAA
1 AACTTACAT
24724423 AACTTACAT
1 AACTTACAT
24724432 AACTT--AT
1 AACTTACAT
*
24724439 ACACGTACAT
1 A-ACTTACAT
*
24724449 AACCTACAT
1 AACTTACAT
*
24724458 AATTTAC
1 AACTTAC
24724465 TTAATACATA
Statistics
Matches: 140, Mismatches: 38, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
6 2 0.01
7 18 0.13
8 3 0.02
9 112 0.80
10 5 0.04
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:24724331 original size:25 final size:25
Alignment explanation
Indices: 24724298--24724437 Score: 111
Period size: 25 Copynumber: 5.4 Consensus size: 25
24724288 TTACTTAACC
24724298 TACATAACTTACATAATACA-AAGCT
1 TACATAACTTACATAATACACAA-CT
* * *
24724323 TACATAACTAAAATAGCTTACACAACT
1 TACATAACTTACATA--ATACACAACT
* * ** *
24724350 TACATAACATACATTACTTTGATAACT
1 TACATAACTTACA-TA-ATACACAACT
*
24724377 TACATAAGTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
** * *
24724402 TACATAGTTTACTTAATACAAAACT
1 TACATAACTTACATAATACACAACT
24724427 TACATAACTTA
1 TACATAACTTA
24724438 TACACGTACA
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
25 49 0.54
26 2 0.02
27 35 0.39
28 4 0.04
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:24724475 original size:25 final size:25
Alignment explanation
Indices: 24724371--24724475 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
24724361 CATTACTTTG
* *
24724371 ATAACTTACATAAGTTACATAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
24724396 ACAACTTACATAGTTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
24724421 AAAACTTACATAACTTATAC--ACGTAC
1 ATAACTTACATAA-TT-TACTTA-ATAC
*
24724447 ATAACCTACATAATTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
24724472 ATAA
1 ATAA
24724476 ATATATATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.05
25 42 0.65
26 17 0.26
27 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATTTACTTAATAC
Found at i:24731536 original size:16 final size:16
Alignment explanation
Indices: 24731511--24731548 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
24731501 TTGAATTACT
*
24731511 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
24731527 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
24731543 ATTACA
1 ATTACA
24731549 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:24740355 original size:23 final size:22
Alignment explanation
Indices: 24740311--24740359 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
24740301 TGATGATTGG
24740311 TTGATGAAATTATGATATGAAA
1 TTGATGAAATTATGATATGAAA
*
24740333 TTGA-GAAATTGATTATAATGAAA
1 TTGATGAAATT-ATGAT-ATGAAA
24740356 TTGA
1 TTGA
24740360 AATAAGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 6 0.25
22 8 0.33
23 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (22 bp):
TTGATGAAATTATGATATGAAA
Found at i:24740361 original size:21 final size:19
Alignment explanation
Indices: 24740315--24740362 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
24740305 GATTGGTTGA
24740315 TGAAATTATGATATGAAAT
1 TGAAATTATGATATGAAAT
*
24740334 TGAGAAATTGATTATAATGAAAT
1 T--GAAATT-ATGAT-ATGAAAT
24740357 TGAAAT
1 TGAAAT
24740363 AAGGATGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
21 11 0.46
22 4 0.17
23 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (19 bp):
TGAAATTATGATATGAAAT
Found at i:24743061 original size:17 final size:18
Alignment explanation
Indices: 24743041--24743082 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24743031 TACATAAATA
* *
24743041 TTTTTTATACATTGTT-G
1 TTTTTTATAAATTATTAG
24743058 TTTTTTA-AAATTATTAG
1 TTTTTTATAAATTATTAG
24743075 TTTTTTAT
1 TTTTTTAT
24743083 TTTTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTTTATAAATTATTAG
Found at i:24749128 original size:16 final size:16
Alignment explanation
Indices: 24749107--24749175 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
24749097 TTTGGTTCGC
24749107 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24749123 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24749139 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
24749156 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24749172 TGTA
1 TGTA
24749176 ATAGCAAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24749153 original size:33 final size:32
Alignment explanation
Indices: 24749107--24749175 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
24749097 TTTGGTTCGC
24749107 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
24749139 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
24749172 TGTA
1 TGTA
24749176 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:24749431 original size:16 final size:16
Alignment explanation
Indices: 24749391--24749445 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
24749381 TTAATCATAT
*
24749391 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
24749407 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
24749422 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
24749440 -TAAAAT
1 TTAAAAT
24749446 TCTTAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:24749438 original size:18 final size:17
Alignment explanation
Indices: 24749411--24749445 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24749401 TTTTTATTAA
*
24749411 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24749429 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24749446 TCTTAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24750831 original size:24 final size:25
Alignment explanation
Indices: 24750797--24750854 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
24750787 ACTCACAAAT
* *
24750797 TGAAAACTACAGAATCCATTTTCAA
1 TGAAAAATACAGAAACCATTTTCAA
24750822 -GAAAAATACAGAAACCATTTTCAA
1 TGAAAAATACAGAAACCATTTTCAA
24750846 TTGAAAAAT
1 -TGAAAAAT
24750855 TCAACAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 22 0.76
26 7 0.24
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.26
Consensus pattern (25 bp):
TGAAAAATACAGAAACCATTTTCAA
Found at i:24753684 original size:22 final size:21
Alignment explanation
Indices: 24753624--24753683 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
24753614 TCAATTTTTA
*
24753624 AATTTAAAAAATAAAAATTAT
1 AATTTAAAAAATAAAAAATAT
*
24753645 -ATTCATAAAAATAAAAAATAT
1 AATTTA-AAAAATAAAAAATAT
24753666 AATTTAAAAAATAAAAAA
1 AATTTAAAAAATAAAAAA
24753684 AATGAATGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.12
21 26 0.76
22 4 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AATTTAAAAAATAAAAAATAT
Found at i:24753696 original size:22 final size:21
Alignment explanation
Indices: 24753651--24753696 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24753641 TTATATTCAT
* **
24753651 AAAAATAAAAAATATAATTTA
1 AAAAATAAAAAAAATAATGGA
24753672 AAAAATAAAAAAAATGAATGGA
1 AAAAATAAAAAAAAT-AATGGA
24753694 AAA
1 AAA
24753697 GCAAACAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAAATAAAAAAAATAATGGA
Found at i:24755299 original size:23 final size:23
Alignment explanation
Indices: 24755241--24755493 Score: 87
Period size: 24 Copynumber: 11.0 Consensus size: 23
24755231 AAGTGTATTG
24755241 TATATTATTATTTTAGATTTATCA
1 TATATTATTATTTTA-ATTTATCA
* *
24755265 TGTTTTATTATTTTCAATTTATCA
1 TATATTATTATTTT-AATTTATCA
* **
24755289 -ATATTATTATTTTAAATTCATTG
1 TATATTATTATTTT-AATTTATCA
** *
24755312 T-TAACAATATTTTAAATTTATCA
1 TATATTATTATTTT-AATTTATCA
* *
24755335 TGTA-TATCTATTTCAAATTTATCA
1 TATATTAT-TATTT-TAATTTATCA
* *
24755359 T-TAATATT-TTTAAATTTAT--
1 TATATTATTATTTTAATTTATCA
* *
24755378 TATACTATTATTTTGTATTTATCA
1 TATATTATTATTTT-AATTTATCA
** * * *
24755402 CGTATGATTATTCTAGAATTATCA
1 TATATTATTATTTTA-ATTTATCA
* *
24755426 TCA-A-AATT-TTTAAATTTTAT-A
1 T-ATATTATTATTTTAA-TTTATCA
* * *
24755447 TGTATTATTATTTCAAATTTATTA
1 TATATTATTATTT-TAATTTATCA
* *
24755471 TATATTATTTATTGTAAATTATC
1 TATATTA-TTATTTTAATTTATC
24755494 CAATTCATTT
Statistics
Matches: 169, Mismatches: 40, Indels: 40
0.68 0.16 0.16
Matches are distributed among these distances:
19 1 0.01
20 6 0.04
21 15 0.09
22 19 0.11
23 49 0.29
24 73 0.43
25 6 0.04
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (23 bp):
TATATTATTATTTTAATTTATCA
Found at i:24755566 original size:23 final size:23
Alignment explanation
Indices: 24755539--24755583 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
24755529 AATTGTACAT
*
24755539 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
24755562 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
24755584 AATTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:24756670 original size:52 final size:52
Alignment explanation
Indices: 24756614--24756719 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
24756604 CACAGACAAT
*
24756614 CTTACACTCTTTCATATATTTTTGTATGATTAATATTTTAATGATCTAACTG
1 CTTACACTCTTACATATATTTTTGTATGATTAATATTTTAATGATCTAACTG
24756666 CTTACACTCTTACATATATTTTTGTATGATTAATATTTTAATGATCTAACTG
1 CTTACACTCTTACATATATTTTTGTATGATTAATATTTTAATGATCTAACTG
24756718 CT
1 CT
24756720 CTATTTCGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (52 bp):
CTTACACTCTTACATATATTTTTGTATGATTAATATTTTAATGATCTAACTG
Found at i:24757448 original size:12 final size:12
Alignment explanation
Indices: 24757431--24757455 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24757421 GACCTCACTT
24757431 TCACAAGTTTAA
1 TCACAAGTTTAA
24757443 TCACAAGTTTAA
1 TCACAAGTTTAA
24757455 T
1 T
24757456 TTACTCACAA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TCACAAGTTTAA
Found at i:24763994 original size:17 final size:17
Alignment explanation
Indices: 24763972--24764005 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24763962 CAATAATTTC
24763972 GGATTGTGTGGATGGAT
1 GGATTGTGTGGATGGAT
*
24763989 GGATTGTGTGGGTGGAT
1 GGATTGTGTGGATGGAT
24764006 TTTTGGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (17 bp):
GGATTGTGTGGATGGAT
Found at i:24768472 original size:44 final size:44
Alignment explanation
Indices: 24768423--24768510 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
24768413 TGGCCAAAAT
24768423 CGACAATAATGGAGCAGAAAAAGAAACTTTTCCAGAGGTTCAGC
1 CGACAATAATGGAGCAGAAAAAGAAACTTTTCCAGAGGTTCAGC
*
24768467 CGACAATAATGGAGCAGAAAAAGAAACTTTTCCAGATGTTCAGC
1 CGACAATAATGGAGCAGAAAAAGAAACTTTTCCAGAGGTTCAGC
24768511 AGAGCTAGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (44 bp):
CGACAATAATGGAGCAGAAAAAGAAACTTTTCCAGAGGTTCAGC
Found at i:24775244 original size:17 final size:17
Alignment explanation
Indices: 24775222--24775266 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
24775212 TTGTGTGGGG
24775222 CCATACACCCGTGTGGC
1 CCATACACCCGTGTGGC
24775239 CCATACACCCGTGTGGC
1 CCATACACCCGTGTGGC
24775256 CCATACGACCC
1 CCATAC-ACCC
24775267 TATTTGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.20, C:0.44, G:0.20, T:0.16
Consensus pattern (17 bp):
CCATACACCCGTGTGGC
Found at i:24775977 original size:15 final size:15
Alignment explanation
Indices: 24775957--24775990 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24775947 TGGGAATTTG
24775957 AAAATAACAA-AAATA
1 AAAATAA-AAGAAATA
24775972 AAAATAAAAGAAATA
1 AAAATAAAAGAAATA
24775987 AAAA
1 AAAA
24775991 ATTTTAGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAATAAAAGAAATA
Done.