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 156 of 182
Found at i:47991557 original size:85 final size:85
Alignment explanation
Indices: 47991439--47991723 Score: 401
Period size: 85 Copynumber: 3.4 Consensus size: 85
47991429 TTATTAACTC
* * * * * *
47991439 TAAAGATGGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGGGGTTGCCATCTGCTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATATGATG
*
47991504 ATTCCCTGTATCACTGAATA
66 ATTCCCCGTATCACTGAATA
* *
47991524 TAAAGGTGGTTGCTAAGTGTTGGTTCCATCGTATCTTTGATTGTGAAAGGGGTTGCTATATGATG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATATGATG
*
47991589 ATTCCCCATATCACTGAATA
66 ATTCCCCGTATCACTGAATA
* * * * *
47991609 TAAAGGTGGTTGCTAAGTATTGATTCCGCTGTATCTTTGATTGTGAAAGGGGTTGCTATGTGTTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATATGATG
*
47991674 ATTCCCCGTATCGCTGAAT-
66 ATTCCCCGTATCACTGAATA
* *
47991693 TTAAGGTGGTTGCTAAGTGTTGAATCCACCG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCG
47991724 AGTAACGGAT
Statistics
Matches: 176, Mismatches: 24, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
84 26 0.15
85 150 0.85
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (85 bp):
TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATATGATG
ATTCCCCGTATCACTGAATA
Found at i:47991580 original size:43 final size:42
Alignment explanation
Indices: 47991446--47991715 Score: 210
Period size: 43 Copynumber: 6.4 Consensus size: 42
47991436 CTCTAAAGAT
* *
47991446 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGG
1 GGTTGCTAAGTGTTGA-TTCCCCGTATCTTTGATTGTGAAAGG
* ** * * ** * *
47991489 GGTTGCCATCTGCTGATTCCCTGTATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
* *
47991530 TGGTTGCTAAGTGTTGGTTCCATCGTATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGTTGATTCC-CCGTATCTTTGATTGTGAAAGG
* * ** * *
47991574 GGTTGCTATA-TGATGATTCCCCATATCACTGAATAT-AAAGG
1 GGTTGCTA-AGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
* *
47991615 TGGTTGCTAAGTATTGATTCCGCTGTATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGTTGATTCC-CCGTATCTTTGATTGTGAAAGG
* **
47991659 GGTTGCTATGTGTTGATTCCCCGTATCGCTGAATT-T--AAGG
1 GGTTGCTAAGTGTTGATTCCCCGTATCTTTG-ATTGTGAAAGG
47991699 TGGTTGCTAAGTGTTGA
1 -GGTTGCTAAGTGTTGA
47991716 ATCCACCGAG
Statistics
Matches: 175, Mismatches: 42, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
40 4 0.02
41 26 0.15
42 64 0.37
43 70 0.40
44 11 0.06
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGTTGATTCCCCGTATCTTTGATTGTGAAAGG
Found at i:48002463 original size:214 final size:214
Alignment explanation
Indices: 48002068--48002492 Score: 518
Period size: 214 Copynumber: 2.0 Consensus size: 214
48002058 ATTATGATGT
** * *
48002068 TAGGAACTGCTCCTATCTCAAGTGCCCCTTAAAGAGTAGCCCTAGTAGAGTTGAAGTAGTTGAAA
1 TAGGAACAACTCCTATCTCAAGTGCCCCTTAAAGAATAGCCCTAGTAGAGTTGAAGTAGTTAAAA
* * * * * * * *
48002133 ACTCAGCTACAATAACTATAGGACAAGGGTTTCATCAGACCAAGTGTTTCACTTTGGGGTGCGCC
66 ACTAAACTACAAGAACTATAGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCACC
* * * **
48002198 AATACTATTCATTAAAAAGAATGATGGGACTCTTTGGTTATGTATTGATTACAAGAAGCTAAA-A
131 AATACTATTCATTAAAAAGAAGGATAGGACTCTTTGGTTATGTACTGATTACAAGAAAATAAACA
*
48002262 TAGGTAACCATAAAGAATGC
196 -AGGTAACCACAAAGAATGC
*
48002282 TAGGAACAACTCCTATCTCAAGTGCGCCTTATAA-AATAGCCCTAGTAGAGTTGAA-TGAGTTAA
1 TAGGAACAACTCCTATCTCAAGTGCCCCTTA-AAGAATAGCCCTAGTAGAGTTGAAGT-AGTTAA
* * * * *
48002345 AAACTAAACTATAAGAACTGTTGGATAAGGGGTTCATTAGACCAAATGTTTCACCTTAGGGTGCA
64 AAACTAAACTACAAGAACTATAGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCA
* * * *
48002410 CCAATGCTATTCGTTAAGAAGAAGGATAGGAC-CTTTCGG-TAGTGTACTGATTACAGGAAAATA
129 CCAATACTATTCATTAAAAAGAAGGATAGGACTCTTT-GGTTA-TGTACTGATTACAAGAAAATA
48002473 AACAAGGTAACCACAAAGAA
192 AACAAGGTAACCACAAAGAA
48002493 CAAGTATCTG
Statistics
Matches: 178, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
213 7 0.04
214 168 0.94
215 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (214 bp):
TAGGAACAACTCCTATCTCAAGTGCCCCTTAAAGAATAGCCCTAGTAGAGTTGAAGTAGTTAAAA
ACTAAACTACAAGAACTATAGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCACC
AATACTATTCATTAAAAAGAAGGATAGGACTCTTTGGTTATGTACTGATTACAAGAAAATAAACA
AGGTAACCACAAAGAATGC
Found at i:48008257 original size:27 final size:27
Alignment explanation
Indices: 48008227--48008302 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
48008217 AAGATAGTGA
* *
48008227 ATCATTGCTTTGAGTAAGGCCCCACAG
1 ATCATTACTTTGAGCAAGGCCCCACAG
*
48008254 ATCATTACTTTGGGCAAGGCCCCACAG
1 ATCATTACTTTGAGCAAGGCCCCACAG
* *
48008281 ATCATTACTTTAAGCAATGCCC
1 ATCATTACTTTGAGCAAGGCCC
48008303 AGCAGATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (27 bp):
ATCATTACTTTGAGCAAGGCCCCACAG
Found at i:48012387 original size:14 final size:14
Alignment explanation
Indices: 48012368--48012399 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
48012358 TATACGTGCA
*
48012368 TGTGGCCTAGTAAT
1 TGTGGCCAAGTAAT
48012382 TGTGGCCAAGTAAT
1 TGTGGCCAAGTAAT
48012396 TGTG
1 TGTG
48012400 ACCCTTCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.34
Consensus pattern (14 bp):
TGTGGCCAAGTAAT
Found at i:48029909 original size:20 final size:20
Alignment explanation
Indices: 48029884--48029926 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
48029874 ATTAGAATAT
48029884 ATAAAAAAGTAAAAATAAAG
1 ATAAAAAAGTAAAAATAAAG
48029904 ATAAAAAAGTAAAAATAAAG
1 ATAAAAAAGTAAAAATAAAG
48029924 ATA
1 ATA
48029927 TCTGTCCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (20 bp):
ATAAAAAAGTAAAAATAAAG
Found at i:48034628 original size:4 final size:4
Alignment explanation
Indices: 48034619--48034644 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48034609 AAAAAAGAAG
48034619 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
48034645 TGTTATGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:48036649 original size:20 final size:20
Alignment explanation
Indices: 48036624--48036663 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48036614 TTAATATGAA
* *
48036624 ATTCTTTTATTTAGTATTTT
1 ATTCTTCTATTTAATATTTT
48036644 ATTCTTCTATTTAATATTTT
1 ATTCTTCTATTTAATATTTT
48036664 TTTACTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTCTTCTATTTAATATTTT
Found at i:48047065 original size:16 final size:16
Alignment explanation
Indices: 48047044--48047077 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48047034 CTCGGTCCTT
48047044 TCCCTCTGTCTTTTGG
1 TCCCTCTGTCTTTTGG
48047060 TCCCTCTGTCTTTTGG
1 TCCCTCTGTCTTTTGG
48047076 TC
1 TC
48047078 ACAAGTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.32, G:0.18, T:0.50
Consensus pattern (16 bp):
TCCCTCTGTCTTTTGG
Found at i:48048335 original size:22 final size:19
Alignment explanation
Indices: 48048310--48048351 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
48048300 TGATAATCAT
48048310 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
48048332 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
48048351 T
1 T
48048352 CAACTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:48049101 original size:25 final size:24
Alignment explanation
Indices: 48049072--48049127 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
48049062 TTTCTCCTAA
*
48049072 ATTTTAATTTTATTTAATTATTTAAT
1 ATTTTAA-TTTATTGAATTA-TTAAT
48049098 -TTTTCAATTTATTGAATTATTAAT
1 ATTTT-AATTTATTGAATTATTAAT
48049122 ATTTTA
1 ATTTTA
48049128 TACTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTAATTTATTGAATTATTAAT
Found at i:48073089 original size:57 final size:59
Alignment explanation
Indices: 48072968--48073090 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 59
48072958 TAGAAATTGA
*
48072968 GAAAATGGATAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
1 GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
* *
48073027 CAAAATGGAGAAAT-GG-AAACATTTGGAAATG-AATGTGGTTTTC-CCTAAAATGAAAAT
1 GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCC-AAAACG-AAAT
48073084 GAAAATG
1 GAAAATG
48073091 ACCTGAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
55 2 0.03
56 17 0.29
57 25 0.43
58 2 0.03
59 12 0.21
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (59 bp):
GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
Found at i:48074076 original size:5 final size:5
Alignment explanation
Indices: 48074068--48074098 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
48074058 AGGTTTAGTT
*
48074068 TTCTC TTCTC TTCTC TTCTT TTCTC TTCTC T
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC T
48074099 ATAGATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
TTCTC
Found at i:48074803 original size:55 final size:55
Alignment explanation
Indices: 48074718--48074824 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 55
48074708 GAAGTAATAA
** * *
48074718 CAATTTAGATACCTAATTTTAAAGTGAACCAACCA-CATGGAAATCAACCAACTCG
1 CAATTTAGATACCTAATTCAAAAGTCAACCAACCATAAT-GAAATCAACCAACTCG
*
48074773 CAATTTAGAT-CCATAATTCAAAAGTCAACCAACCATAATGAAGTCAACCAAC
1 CAATTTAGATACC-TAATTCAAAAGTCAACCAACCATAATGAAATCAACCAAC
48074825 CGCTCTTTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
54 2 0.04
55 41 0.91
56 2 0.04
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.22
Consensus pattern (55 bp):
CAATTTAGATACCTAATTCAAAAGTCAACCAACCATAATGAAATCAACCAACTCG
Found at i:48083681 original size:13 final size:13
Alignment explanation
Indices: 48083663--48083687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48083653 AGAAAGGTGA
48083663 TTAGGTTTCAATC
1 TTAGGTTTCAATC
48083676 TTAGGTTTCAAT
1 TTAGGTTTCAAT
48083688 TTAAGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (13 bp):
TTAGGTTTCAATC
Found at i:48085025 original size:23 final size:22
Alignment explanation
Indices: 48084985--48085077 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 22
48084975 CACGTAATTC
*
48084985 TCTGTGAAGCCTATGTGGCATAT
1 TCTGTAAAG-CTATGTGGCATAT
*
48085008 TTTGTAAAGTCTATGTGGCATAT
1 TCTGTAAAG-CTATGTGGCATAT
* * *
48085031 TCTGCAAAGCTTGTGTGGCGTAT
1 TCTGTAAAGC-TATGTGGCATAT
* *
48085054 TCTATAAAGCCTATGTGGCGTAT
1 TCTGTAAAG-CTATGTGGCATAT
48085077 T
1 T
48085078 TCGTAAGGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
22 1 0.02
23 56 0.97
24 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (22 bp):
TCTGTAAAGCTATGTGGCATAT
Found at i:48088744 original size:27 final size:27
Alignment explanation
Indices: 48088727--48088951 Score: 265
Period size: 27 Copynumber: 8.3 Consensus size: 27
48088717 AGAATGATCA
* *
48088727 AAATACCCTCGATGGGTAAAATTA-CTG
1 AAATACCCCCAATGGGTAAAATTATC-G
*
48088754 AAATACCCCCAATGGGTAAAATTACCG
1 AAATACCCCCAATGGGTAAAATTATCG
*
48088781 AAATACCCCCAATGGGTAAAATTACCG
1 AAATACCCCCAATGGGTAAAATTATCG
48088808 AAATACCCCCAATGGGTAAAATTATCG
1 AAATACCCCCAATGGGTAAAATTATCG
* * *
48088835 AAATACCCTCGATGGGTAAAATTA-CTA
1 AAATACCCCCAATGGGTAAAATTATC-G
* *
48088862 AAATACCCTCGATGGGTAAAATTATCG
1 AAATACCCCCAATGGGTAAAATTATCG
* * * * *
48088889 AAATACCCCTAAAGGGTAAAATAACCA
1 AAATACCCCCAATGGGTAAAATTATCG
** *
48088916 AAATACCCTTAATAGGTAAAATTATCG
1 AAATACCCCCAATGGGTAAAATTATCG
48088943 AAATACCCC
1 AAATACCCC
48088952 TATAAGGTAA
Statistics
Matches: 174, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 171 0.98
28 2 0.01
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (27 bp):
AAATACCCCCAATGGGTAAAATTATCG
Found at i:48088785 original size:54 final size:54
Alignment explanation
Indices: 48088687--48088950 Score: 298
Period size: 54 Copynumber: 4.9 Consensus size: 54
48088677 CTCCAGAATA
* * * * * * * *
48088687 GGTAAAATGATCAAAATA-CCCCTATAAGGTAGAATGATCAAAATACCCTCGATG
1 GGTAAAATTACCAAAATACCCCCAAT-GGGTAAAATTATCGAAATACCCTCAATG
** * *
48088741 GGTAAAATTACTGAAATACCCCCAATGGGTAAAATTACCGAAATACCCCCAATG
1 GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCAATG
* *
48088795 GGTAAAATTACCGAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCGATG
1 GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCAATG
* * * *
48088849 GGTAAAATTACTAAAATACCCTCGATGGGTAAAATTATCGAAATACCC-CTAAAG
1 GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCCTC-AATG
* ** *
48088903 GGTAAAATAACCAAAATACCCTTAATAGGTAAAATTATCGAAATACCC
1 GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCC
48088951 CTATAAGGTA
Statistics
Matches: 181, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 174 0.96
55 6 0.03
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.22
Consensus pattern (54 bp):
GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCAATG
Found at i:48088959 original size:27 final size:26
Alignment explanation
Indices: 48088687--48088964 Score: 218
Period size: 27 Copynumber: 10.3 Consensus size: 26
48088677 CTCCAGAATA
* * *
48088687 GGTAAAATGATCAAAATACCCCTATAA
1 GGTAAAATTATCGAAATACCCCTA-AG
* * * * *
48088714 GGTAGAATGATCAAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCC-CTAAG
*
48088741 GGTAAAATTA-CTGAAATACCCCCAATG
1 GGTAAAATTATC-GAAATACCCCTAA-G
* *
48088768 GGTAAAATTACCGAAATACCCCCAATG
1 GGTAAAATTATCGAAATACCCCTAA-G
* *
48088795 GGTAAAATTACCGAAATACCCCCAATG
1 GGTAAAATTATCGAAATACCCCTAA-G
* *
48088822 GGTAAAATTATCGAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCC-CTAAG
* * *
48088849 GGTAAAATTA-CTAAAATACCCTCGATG
1 GGTAAAATTATC-GAAATACCC-CTAAG
48088876 GGTAAAATTATCGAAATACCCCTAAAG
1 GGTAAAATTATCGAAATACCCCT-AAG
* * * * *
48088903 GGTAAAATAACCAAAATACCCTTAATA
1 GGTAAAATTATCGAAATACCCCTAA-G
*
48088930 GGTAAAATTATCGAAATACCCCTATAA
1 GGTAAAATTATCGAAATACCCCTA-AG
48088957 GGTAAAAT
1 GGTAAAAT
48088965 GACCGTTATA
Statistics
Matches: 216, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
26 7 0.03
27 202 0.94
28 7 0.03
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.23
Consensus pattern (26 bp):
GGTAAAATTATCGAAATACCCCTAAG
Found at i:48088961 original size:81 final size:81
Alignment explanation
Indices: 48088683--48088964 Score: 284
Period size: 81 Copynumber: 3.5 Consensus size: 81
48088673 GAGACTCCAG
* * * * *
48088683 AATAGGTAAAATGATCAAAATACCCCTATAAGGTAGAATGATCAAAATA-CCCTCGATGGGTAAA
1 AATAGGTAAAATTATCAAAATACCCCTATAAGGTAAAATTATCGAAATACCCCT-AATGGGTAAA
* *
48088747 ATTACTGAAATACCCCC
65 ATTACCGAAATACCCTC
* * * * * * *
48088764 AATGGGTAAAATTACCGAAATACCCCCA-ATGGGTAAAATTACCGAAATACCCCCAATGGGTAAA
1 AATAGGTAAAATTATCAAAATACCCCTATA-AGGTAAAATTATCGAAATACCCCTAATGGGTAAA
*
48088828 ATTATCGAAATACCCTC
65 ATTACCGAAATACCCTC
* * * * *
48088845 GATGGGTAAAATTA-CTAAAATACCCTCGAT-GGGTAAAATTATCGAAATACCCCTAAAGGGTAA
1 AATAGGTAAAATTATC-AAAATACCC-CTATAAGGTAAAATTATCGAAATACCCCTAATGGGTAA
* * *
48088908 AATAACCAAAATACCCTT
64 AATTACCGAAATACCCTC
*
48088926 AATAGGTAAAATTATCGAAATACCCCTATAAGGTAAAAT
1 AATAGGTAAAATTATCAAAATACCCCTATAAGGTAAAAT
48088965 GACCGTTATA
Statistics
Matches: 164, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
80 5 0.03
81 153 0.93
82 6 0.04
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.23
Consensus pattern (81 bp):
AATAGGTAAAATTATCAAAATACCCCTATAAGGTAAAATTATCGAAATACCCCTAATGGGTAAAA
TTACCGAAATACCCTC
Found at i:48088975 original size:27 final size:27
Alignment explanation
Indices: 48088945--48089000 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
48088935 AATTATCGAA
* *
48088945 ATACCCCTATAAGGTAAAATGACCGTT
1 ATACCCCTAGAAGATAAAATGACCGTT
* *
48088972 ATACCCCTAGGAGATAAAATGACTGTT
1 ATACCCCTAGAAGATAAAATGACCGTT
48088999 AT
1 AT
48089001 GGCCTTATGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (27 bp):
ATACCCCTAGAAGATAAAATGACCGTT
Found at i:48089935 original size:13 final size:13
Alignment explanation
Indices: 48089914--48089977 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
48089904 TTTAAACCAA
48089914 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
48089927 GCTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
48089940 GCTTTTCCACAGC
1 ACTTTTCAAAAGC
48089953 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
48089966 ACTTTTCAAAAG
1 ACTTTTCAAAAG
48089978 TAATGACGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:48092220 original size:18 final size:18
Alignment explanation
Indices: 48092199--48092233 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48092189 ATAATTTTAC
*
48092199 TGAAATCAAAATAAAATA
1 TGAAATCAAAACAAAATA
48092217 TGAAATCAAAACAAAAT
1 TGAAATCAAAACAAAAT
48092234 TAAGTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.20
Consensus pattern (18 bp):
TGAAATCAAAACAAAATA
Found at i:48093255 original size:12 final size:12
Alignment explanation
Indices: 48093238--48093267 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48093228 TCAAGCTGTT
48093238 ACACGGCCTAGC
1 ACACGGCCTAGC
*
48093250 ACACGGCCTGGC
1 ACACGGCCTAGC
48093262 ACACGG
1 ACACGG
48093268 GCGTGTGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:48103568 original size:15 final size:15
Alignment explanation
Indices: 48103530--48103569 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
48103520 AGAAGAAAAT
*
48103530 GAAAGAAAACAGAGA
1 GAAAGAAAGCAGAGA
*
48103545 CAAAGGAAAGCAGAGA
1 GAAA-GAAAGCAGAGA
48103561 GAAAGAAAG
1 GAAAGAAAG
48103570 TGGAAGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.62, C:0.07, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGCAGAGA
Found at i:48112146 original size:13 final size:13
Alignment explanation
Indices: 48112128--48112158 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
48112118 TGTGTAAATG
48112128 GAAATGGATATAT
1 GAAATGGATATAT
*
48112141 GAAATGGCTATAT
1 GAAATGGATATAT
48112154 GAAAT
1 GAAAT
48112159 TAGTCATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (13 bp):
GAAATGGATATAT
Found at i:48118156 original size:27 final size:27
Alignment explanation
Indices: 48118126--48118201 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
48118116 CAACTCCCGC
*
48118126 GTTTATTGTCTCGAT-GAACTATCTCAT
1 GTTTAATGTCTCG-TCGAACTATCTCAT
* * *
48118153 GTTTAATGTCCCGTCAAACTATCTCGT
1 GTTTAATGTCTCGTCGAACTATCTCAT
*
48118180 GTTTAATATCTCGTCGAACTAT
1 GTTTAATGTCTCGTCGAACTAT
48118202 GAAAGGATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (27 bp):
GTTTAATGTCTCGTCGAACTATCTCAT
Found at i:48118300 original size:45 final size:44
Alignment explanation
Indices: 48118207--48118382 Score: 172
Period size: 45 Copynumber: 3.9 Consensus size: 44
48118197 ACTATGAAAG
* * * * * *
48118207 GATGTCATAGCGTCTTTTAGCTATGTGGTCTTAGTCTTGTTTACCAT
1 GATGCCATAACGTCTTTCAGCTA--TGGTCTTACTCAT-TTTATCAT
* *
48118254 GATGCCATAGCGTCTTTCAGCCATGGTCTTACTCATTTATATCAT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATTT-TATCAT
* * * * *
48118299 GATGTCATAACATCTTTCAACTATGGTCTTACTTATCCTTATCAT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCAT-TTTATCAT
* *
48118344 GATGCCATAACGTTTTTCAGCTATGATCTTACTCATTTT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATTTT
48118383 TAGGCATATA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
44 4 0.04
45 82 0.77
46 1 0.01
47 20 0.19
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (44 bp):
GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATTTTATCAT
Found at i:48121629 original size:22 final size:23
Alignment explanation
Indices: 48121584--48121631 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
48121574 AAATGGTAGC
* *
48121584 AAAATAGTGAAAAAAATAACAAG
1 AAAATAATGAAAAAAATAAAAAG
*
48121607 AAAATAAT-AAAAAAGTAAAAAG
1 AAAATAATGAAAAAAATAAAAAG
48121629 AAA
1 AAA
48121632 CAAGTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (23 bp):
AAAATAATGAAAAAAATAAAAAG
Found at i:48122998 original size:5 final size:5
Alignment explanation
Indices: 48122988--48123034 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
48122978 ACACATATAC
* * * *
48122988 CATAT CATAT CATAT CATGT CATAT CATGT CATAC CCTAT CATAT CA
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CA
48123035 AAAATTTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:48126599 original size:16 final size:16
Alignment explanation
Indices: 48126567--48126614 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
48126557 AACCTTTTAA
* *
48126567 AAATTA-TAAAGATAT
1 AAATTATTAAAAAAAT
48126582 AAATTATTAAAAAAAT
1 AAATTATTAAAAAAAT
* *
48126598 AAAATATTATAAAAAT
1 AAATTATTAAAAAAAT
48126614 A
1 A
48126615 TATAATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
AAATTATTAAAAAAAT
Found at i:48128691 original size:22 final size:21
Alignment explanation
Indices: 48128666--48128714 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
48128656 TATTTTAAGG
48128666 TTATTTTATTAATATAAAAAAT
1 TTATTTTATTAATAT-AAAAAT
** **
48128688 TTATAATATTTTTATAAAAAT
1 TTATTTTATTAATATAAAAAT
48128709 TTATTT
1 TTATTT
48128715 CTATATATTA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTTTATTAATATAAAAAT
Found at i:48141036 original size:23 final size:25
Alignment explanation
Indices: 48140993--48141038 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
48140983 AACACAAATT
*
48140993 TTAATTTGTTTATTTTTAAATAATA
1 TTAATTTGTTTATGTTTAAATAATA
48141018 TTAATTT-TTTA-GTTTAAATAA
1 TTAATTTGTTTATGTTTAAATAA
48141039 AAAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TTAATTTGTTTATGTTTAAATAATA
Found at i:48141973 original size:35 final size:35
Alignment explanation
Indices: 48141923--48142012 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
48141913 AATCGACTCA
* *
48141923 AAAAAGGTTGAGATAGACCAT-TTTATGCCAACCTT
1 AAAAAGGTTGGGATAGACC-TGTTTAAGCCAACCTT
* *
48141958 AAAAATGTTGGGATAGACCTGTTTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTGTTTAAGCCAACCTT
*
48141993 AAAAAGGTTGGGATAAACCT
1 AAAAAGGTTGGGATAGACCT
48142013 TGTCTGCGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
34 1 0.02
35 47 0.98
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCTGTTTAAGCCAACCTT
Found at i:48149753 original size:19 final size:19
Alignment explanation
Indices: 48149729--48149771 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
48149719 TTTTTTAAAC
48149729 ATTTTATTACATAAAATAA
1 ATTTTATTACATAAAATAA
48149748 ATTTTATTACATAAAATAA
1 ATTTTATTACATAAAATAA
48149767 ATTTT
1 ATTTT
48149772 TAAACAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTATTACATAAAATAA
Found at i:48151353 original size:98 final size:98
Alignment explanation
Indices: 48151184--48151576 Score: 768
Period size: 98 Copynumber: 4.0 Consensus size: 98
48151174 ATGTAAGGCA
48151184 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
48151249 TACATGACAAGAAAAAGAATGCACATATTCCAC
66 TACATGACAAGAAAAAGAATGCACATATTCCAC
48151282 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
48151347 TACATGACAAGAAAAAGAATGCACATATTCCAC
66 TACATGACAAGAAAAAGAATGCACATATTCCAC
48151380 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
48151445 TACATGACAAGAAAAAGAATGCACATATTCCAC
66 TACATGACAAGAAAAAGAATGCACATATTCCAC
*
48151478 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
*
48151543 TACATGACAAGAAAAAAAATGCACATATTCCAC
66 TACATGACAAGAAAAAGAATGCACATATTCCAC
48151576 A
1 A
48151577 TTTGACGAGT
Statistics
Matches: 293, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 293 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (98 bp):
AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
TACATGACAAGAAAAAGAATGCACATATTCCAC
Found at i:48161480 original size:22 final size:22
Alignment explanation
Indices: 48161424--48161481 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
48161414 ATTCGGTTAA
*
48161424 TCAGTCGGTGG-CTGAATTTAGT
1 TCAGTCGGAGGTC-GAATTTAGT
* * *
48161446 TTAGTTGGTGGTCGAATTTAGT
1 TCAGTCGGAGGTCGAATTTAGT
*
48161468 TCGGTCGGAGGTCG
1 TCAGTCGGAGGTCG
48161482 GTTAATGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.16, C:0.12, G:0.36, T:0.36
Consensus pattern (22 bp):
TCAGTCGGAGGTCGAATTTAGT
Found at i:48166878 original size:30 final size:30
Alignment explanation
Indices: 48166837--48166899 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
48166827 TGACAGAAAC
*
48166837 AAGTTGGGGGGGGGGGGGGAGCTTGTTTTG
1 AAGTGGGGGGGGGGGGGGGAGCTTGTTTTG
*
48166867 AAGTGGGGGGGGGGGGTGGAGCTTGTTTTG
1 AAGTGGGGGGGGGGGGGGGAGCTTGTTTTG
48166897 AAG
1 AAG
48166900 GCCACTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.13, C:0.03, G:0.59, T:0.25
Consensus pattern (30 bp):
AAGTGGGGGGGGGGGGGGGAGCTTGTTTTG
Found at i:48169743 original size:15 final size:15
Alignment explanation
Indices: 48169723--48169755 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
48169713 CATAAATTAT
48169723 ATTATTTTCATGTTA
1 ATTATTTTCATGTTA
48169738 ATTATTTTCATGTTA
1 ATTATTTTCATGTTA
48169753 ATT
1 ATT
48169756 TTTATTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTATTTTCATGTTA
Found at i:48170578 original size:18 final size:18
Alignment explanation
Indices: 48170555--48170594 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
48170545 TTAATTCTAT
48170555 TTAGCTAGGATGATTGTG
1 TTAGCTAGGATGATTGTG
48170573 TTAGCTAGGATGATTGTG
1 TTAGCTAGGATGATTGTG
48170591 TTAG
1 TTAG
48170595 TTTAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.33, T:0.40
Consensus pattern (18 bp):
TTAGCTAGGATGATTGTG
Found at i:48179974 original size:20 final size:20
Alignment explanation
Indices: 48179949--48179988 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48179939 TTTGTAATGC
*
48179949 TTTTATCATGTATTATTTTA
1 TTTTATCATGCATTATTTTA
*
48179969 TTTTATTATGCATTATTTTA
1 TTTTATCATGCATTATTTTA
48179989 AATATTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTATCATGCATTATTTTA
Found at i:48185779 original size:9 final size:9
Alignment explanation
Indices: 48185767--48185825 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
48185757 TTTTGGTTAA
48185767 AAATTAACC
1 AAATTAACC
48185776 AAATTAACC
1 AAATTAACC
* *
48185785 TAATTACCC
1 AAATTAACC
* *
48185794 GAATTAACT
1 AAATTAACC
*
48185803 AAATTACCC
1 AAATTAACC
*
48185812 GAATTAACC
1 AAATTAACC
*
48185821 GAATT
1 AAATT
48185826 CAATCACTAC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (9 bp):
AAATTAACC
Found at i:48185798 original size:18 final size:18
Alignment explanation
Indices: 48185777--48185825 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
48185767 AAATTAACCA
48185777 AATTAACCTAATTACCCG
1 AATTAACCTAATTACCCG
48185795 AATTAA-CTAAATTACCCG
1 AATTAACCT-AATTACCCG
*
48185813 AATTAACCGAATT
1 AATTAACCTAATT
48185826 CAATCACTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 25 0.89
19 1 0.04
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (18 bp):
AATTAACCTAATTACCCG
Found at i:48185806 original size:27 final size:27
Alignment explanation
Indices: 48185768--48185825 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
48185758 TTTGGTTAAA
* *
48185768 AATTAACCAAATTAACCTAATTACCCG
1 AATTAACCAAATTAACCGAATTAACCG
* *
48185795 AATTAACTAAATTACCCGAATTAACCG
1 AATTAACCAAATTAACCGAATTAACCG
48185822 AATT
1 AATT
48185826 CAATCACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.28
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTAACCG
Found at i:48186088 original size:18 final size:18
Alignment explanation
Indices: 48186065--48186108 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
48186055 AATTTTTATT
*
48186065 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
48186083 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
48186101 CTTGGGTT
1 ATTGGGTT
48186109 TAGATTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:48193529 original size:24 final size:23
Alignment explanation
Indices: 48193500--48193578 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
48193490 TGTATAACAA
48193500 GAAGCTCATAAGAGCCATAATCGG
1 GAAGCTCATAAGAGCCATAA-CGG
*
48193524 GAAGCTCATACGAGCCAATAACGG
1 GAAGCTCATAAGAGCC-ATAACGG
* * *
48193548 GTAGCTTC-GAAGAGCCATTAACAG
1 GAAGC-TCATAAGAGCCA-TAACGG
48193572 GAAGCTC
1 GAAGCTC
48193579 CGGATAGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 3 0.07
24 37 0.80
25 6 0.13
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.16
Consensus pattern (23 bp):
GAAGCTCATAAGAGCCATAACGG
Found at i:48196943 original size:18 final size:18
Alignment explanation
Indices: 48196917--48196960 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
48196907 TCATTTTTAT
*
48196917 TTTTA-TTTTGTTATATA
1 TTTTATTTTTATTATATA
* *
48196934 TTTTATTTTTATTTTCTA
1 TTTTATTTTTATTATATA
48196952 TTTTATTTT
1 TTTTATTTT
48196961 CTTGCATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTATTATATA
Found at i:48197946 original size:112 final size:109
Alignment explanation
Indices: 48197745--48197962 Score: 262
Period size: 111 Copynumber: 2.0 Consensus size: 109
48197735 AAAATTTTAA
* * * * *
48197745 GAGTGTGTTGGGCTAAGTAACCGGGGTGGGGTGCTTGGGTTTTCATTGCACTACGCATCAAAAGG
1 GAGTGTGTGGGGCTAAGTAACCGGGGTGGGGCGCTTGGGTTGTCATTCCACTACGCATCAAAAAG
*
48197810 GCCAAAACATTCTTAAACCAAAAAATATATATAATATAATAAATTAG
66 GCCAAAACATTCTTAAACCAAAAAA-ATA-ATAAAATAA-AAATTAG
* * *
48197857 GAGTGTGTGGGGTTGAA-TAACCGGGGTGGGGCGCTT-GGTTGTCATTCCACTTCGCGTCAAAAA
1 GAGTGTGTGGGGCT-AAGTAACCGGGGTGGGGCGCTTGGGTTGTCATTCCACTACGCATCAAAAA
* *
48197920 GGCCAATACATTCTT-AAGCATTAAAAAATAATAAAATAAAAAT
65 GGCCAAAACATTCTTAAACCA--AAAAAATAATAAAATAAAAAT
48197963 AAATAAATAA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
109 4 0.04
110 12 0.13
111 39 0.42
112 35 0.38
113 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (109 bp):
GAGTGTGTGGGGCTAAGTAACCGGGGTGGGGCGCTTGGGTTGTCATTCCACTACGCATCAAAAAG
GCCAAAACATTCTTAAACCAAAAAAATAATAAAATAAAAATTAG
Found at i:48199327 original size:18 final size:19
Alignment explanation
Indices: 48199304--48199341 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
48199294 TCGAAAACTA
*
48199304 CTTTTCTCAACT-CTATTT
1 CTTTTCACAACTGCTATTT
*
48199322 CTTTTCACAATTGCTATTT
1 CTTTTCACAACTGCTATTT
48199341 C
1 C
48199342 AATTTATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.18, C:0.26, G:0.03, T:0.53
Consensus pattern (19 bp):
CTTTTCACAACTGCTATTT
Found at i:48208902 original size:22 final size:22
Alignment explanation
Indices: 48208868--48208910 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48208858 AGGGGCTACA
* * *
48208868 TGTCTTGAGACAAAATCCTATT
1 TGTCTCGAAACAAAAGCCTATT
48208890 TGTCTCGAAACAAAAGCCTAT
1 TGTCTCGAAACAAAAGCCTAT
48208911 ATGCATCGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (22 bp):
TGTCTCGAAACAAAAGCCTATT
Found at i:48214670 original size:24 final size:24
Alignment explanation
Indices: 48214629--48214680 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
48214619 TTTTGCATGT
* * *
48214629 TATTGTCACATAGGGTTCGCATAC
1 TATTGACACATAAGGTTCACATAC
* *
48214653 TATTGACACATAATGTTCACATAG
1 TATTGACACATAAGGTTCACATAC
48214677 TATT
1 TATT
48214681 AACTCATGGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (24 bp):
TATTGACACATAAGGTTCACATAC
Found at i:48214797 original size:34 final size:34
Alignment explanation
Indices: 48214736--48214868 Score: 149
Period size: 34 Copynumber: 3.9 Consensus size: 34
48214726 CTTGCATACT
* * * * *
48214736 ACCTAGGATCCGCATGACATATTGGCTCGCATAA
1 ACCTAGGGTTCGCATAACATATAGGCTCGCATAG
* * *
48214770 ACCTAGGGTTTGCATAATATGTAGGCTCGCATAG
1 ACCTAGGGTTCGCATAACATATAGGCTCGCATAG
* *
48214804 ACTTAGGGTTCGCATAACATATAGGCTCACATAG
1 ACCTAGGGTTCGCATAACATATAGGCTCGCATAG
* **
48214838 ACCTAGGGTTCACATGGCATATAGGCTCGCA
1 ACCTAGGGTTCGCATAACATATAGGCTCGCA
48214869 CAGGTAGGGC
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (34 bp):
ACCTAGGGTTCGCATAACATATAGGCTCGCATAG
Found at i:48215059 original size:14 final size:14
Alignment explanation
Indices: 48215038--48215132 Score: 93
Period size: 14 Copynumber: 6.8 Consensus size: 14
48215028 GTGATTTTTA
*
48215038 ACTCGCATGTATTG
1 ACTCGCATATATTG
*
48215052 ATTCGCATATATTG
1 ACTCGCATATATTG
*
48215066 ACTCACATATATTG
1 ACTCGCATATATTG
* ** *
48215080 ACTCGTAGGTGTTG
1 ACTCGCATATATTG
48215094 ACTCAG-ATATATTG
1 ACTC-GCATATATTG
*
48215108 ATTCGCATATATTG
1 ACTCGCATATATTG
*
48215122 ACTTGCATATA
1 ACTCGCATATA
48215133 CAATAGTTTA
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
13 1 0.02
14 62 0.97
15 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (14 bp):
ACTCGCATATATTG
Found at i:48215278 original size:29 final size:29
Alignment explanation
Indices: 48215244--48215306 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
48215234 TTATGCATGT
* *
48215244 GGGGTCACA-ATAGGA-GGTTTGCATGCATA
1 GGGGTCACATATAAGAGGGTTCGCAT--ATA
48215273 GGGGTCACATATAAGAGGGTTCGCATATA
1 GGGGTCACATATAAGAGGGTTCGCATATA
48215302 GGGGT
1 GGGGT
48215307 TTACATGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 17 0.57
30 5 0.17
31 8 0.27
ACGTcount: A:0.27, C:0.13, G:0.37, T:0.24
Consensus pattern (29 bp):
GGGGTCACATATAAGAGGGTTCGCATATA
Found at i:48216292 original size:11 final size:11
Alignment explanation
Indices: 48216276--48216301 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48216266 ACCCACATTT
48216276 TTTTCCCTTTA
1 TTTTCCCTTTA
48216287 TTTTCCCTTTA
1 TTTTCCCTTTA
48216298 TTTT
1 TTTT
48216302 TCTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTCCCTTTA
Found at i:48216302 original size:12 final size:12
Alignment explanation
Indices: 48216275--48216303 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
48216265 AACCCACATT
48216275 TTTTTCCCTTTA
1 TTTTTCCCTTTA
48216287 -TTTTCCCTTTA
1 TTTTTCCCTTTA
48216298 TTTTTC
1 TTTTTC
48216304 TATTTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTCCCTTTA
Found at i:48216676 original size:18 final size:19
Alignment explanation
Indices: 48216653--48216741 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 19
48216643 TCTATTCTAG
48216653 AATTATAAAAATATAA-AA
1 AATTATAAAAATATAATAA
48216671 AATTATAAAAA-ATAATTAA
1 AATTATAAAAATATAA-TAA
*
48216690 ACATTATAAAAAT-TATTAGA
1 A-ATTATAAAAATATAATA-A
* *
48216710 AATTAATTAAAA-ACAATAA
1 AATT-ATAAAAATATAATAA
48216729 AATTTATAAAAAT
1 AA-TTATAAAAAT
48216742 TTTATATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 4 0.07
18 11 0.19
19 17 0.30
20 25 0.44
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (19 bp):
AATTATAAAAATATAATAA
Found at i:48216729 original size:30 final size:30
Alignment explanation
Indices: 48216668--48216740 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
48216658 TAAAAATATA
* **
48216668 AAAAATTA-TAAAAAATAATTAAACATTAT
1 AAAAATTATTAAAAAATAATTAAAAACAAT
* *
48216697 AAAAATTATTAGAAATTAATTAAAAACAAT
1 AAAAATTATTAAAAAATAATTAAAAACAAT
*
48216727 AAAATTTA-TAAAAA
1 AAAAATTATTAAAAA
48216741 TTTTATATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 13 0.36
30 23 0.64
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (30 bp):
AAAAATTATTAAAAAATAATTAAAAACAAT
Found at i:48216736 original size:39 final size:39
Alignment explanation
Indices: 48216654--48216742 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
48216644 CTATTCTAGA
*
48216654 ATTATAAAAA-TATAAAAAATTATAAAAAATAATTAAAC
1 ATTATAAAAATTATAAAAAATTATAAAAAACAATTAAAC
* * *
48216692 ATTATAAAAATTATTAGAAATTAATTAAAAACAA-TAAA-
1 ATTATAAAAATTATAAAAAATT-ATAAAAAACAATTAAAC
48216730 ATTTATAAAAATT
1 A-TTATAAAAATT
48216743 TTATATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
38 11 0.25
39 24 0.55
40 9 0.20
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (39 bp):
ATTATAAAAATTATAAAAAATTATAAAAAACAATTAAAC
Found at i:48216743 original size:10 final size:9
Alignment explanation
Indices: 48216653--48216742 Score: 65
Period size: 9 Copynumber: 9.4 Consensus size: 9
48216643 TCTATTCTAG
48216653 AATTATAAA
1 AATTATAAA
48216662 AA-TATAAAA
1 AATTAT-AAA
48216671 AATTATAAAA
1 AATTAT-AAA
*
48216681 AATAATTAAA
1 AATTA-TAAA
*
48216691 CATTATAAA
1 AATTATAAA
*
48216700 AATTATTAGA
1 AATTA-TAAA
48216710 AATTAATTAAA
1 AATT-A-TAAA
**
48216721 AACAATAAA
1 AATTATAAA
*
48216730 ATTTATAAA
1 AATTATAAA
48216739 AATT
1 AATT
48216743 TTATATTTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
8 3 0.05
9 28 0.44
10 25 0.39
11 8 0.12
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:48217092 original size:16 final size:18
Alignment explanation
Indices: 48217059--48217099 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 18
48217049 TTCATTGTAT
48217059 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAAT-ATTTTA
48217078 ATTTTTTT-AAT-TTTTA
1 ATTTTTTTAAATATTTTA
48217094 ATTTTT
1 ATTTTT
48217100 GTTGATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTTAAATATTTTA
Found at i:48218497 original size:15 final size:15
Alignment explanation
Indices: 48218477--48218517 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
48218467 TTTTTAACCC
*
48218477 TAAACCCTAAAATCA
1 TAAACCTTAAAATCA
*
48218492 TAAACCTTAAAATCC
1 TAAACCTTAAAATCA
48218507 TAAACCTTAAA
1 TAAACCTTAAA
48218518 CCCTAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCTTAAAATCA
Found at i:48218528 original size:15 final size:15
Alignment explanation
Indices: 48218472--48218524 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
48218462 TTTAATTTTT
*
48218472 AACCCTAAACCCTAA
1 AACCCTAAACCTTAA
* *
48218487 AATCATAAACCTTAA
1 AACCCTAAACCTTAA
*
48218502 AATCCTAAACCTT-A
1 AACCCTAAACCTTAA
48218516 AACCCTAAA
1 AACCCTAAA
48218525 ACCTAGAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 9 0.27
15 24 0.73
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCTAAACCTTAA
Found at i:48223848 original size:2 final size:2
Alignment explanation
Indices: 48223843--48223872 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48223833 AATTCTGTGT
48223843 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
48223873 TGGATGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:48242466 original size:42 final size:42
Alignment explanation
Indices: 48242403--48242483 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
48242393 ATAATCATTG
* *
48242403 TCATCTTGAATCCTCGAGCAACGGAGCAATAGTCGTGTATTT
1 TCATCTTGAATCCTAGAGCAACGGAGCAATAGTCATGTATTT
*
48242445 TCATCTTGAATCCTTAG-GCAACGGAGCCATAGTCATGTA
1 TCATCTTGAATCC-TAGAGCAACGGAGCAATAGTCATGTA
48242484 GTCCTCCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
TCATCTTGAATCCTAGAGCAACGGAGCAATAGTCATGTATTT
Found at i:48245502 original size:30 final size:31
Alignment explanation
Indices: 48245459--48245523 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 31
48245449 TATTAGTATT
48245459 ACTAATACATAAAATAATATT-ATA-ATATATA
1 ACTAATACAT-AAA-AATATTAATACATATATA
*
48245490 ACTATTAC-TAAAAATATTAATACATATATA
1 ACTAATACATAAAAATATTAATACATATATA
48245520 ACTA
1 ACTA
48245524 CAATTATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 6 0.19
29 6 0.19
30 12 0.39
31 7 0.23
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.35
Consensus pattern (31 bp):
ACTAATACATAAAAATATTAATACATATATA
Found at i:48252737 original size:6 final size:6
Alignment explanation
Indices: 48252706--48252796 Score: 119
Period size: 6 Copynumber: 14.0 Consensus size: 6
48252696 TGAAAAAGTA
48252706 AAAATTG AAAATTG AAAAATG AAAAATG AAAAATG AAAAATG AAAAATG
1 AAAA-TG AAAA-TG -AAAATG -AAAATG -AAAATG -AAAATG -AAAATG
48252755 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
48252797 TTCTCTTTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
6 42 0.51
7 37 0.45
8 4 0.05
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (6 bp):
AAAATG
Found at i:48252766 original size:12 final size:13
Alignment explanation
Indices: 48252695--48252796 Score: 129
Period size: 12 Copynumber: 7.7 Consensus size: 13
48252685 TGAATATACC
*
48252695 ATGAAAAAGTAAAA
1 ATGAAAATG-AAAA
48252709 ATTGAAAATTGAAAA
1 A-TGAAAA-TGAAAA
48252724 ATGAAAAATGAAAA
1 ATG-AAAATGAAAA
48252738 ATGAAAAATGAAAA
1 ATG-AAAATGAAAA
48252752 ATGAAAATG-AAA
1 ATGAAAATGAAAA
48252764 ATGAAAATG-AAA
1 ATGAAAATGAAAA
48252776 ATGAAAATG-AAA
1 ATGAAAATGAAAA
48252788 ATGAAAATG
1 ATGAAAATG
48252797 TTCTCTTTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
12 36 0.43
13 6 0.07
14 26 0.31
15 15 0.18
16 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.18
Consensus pattern (13 bp):
ATGAAAATGAAAA
Found at i:48254963 original size:24 final size:24
Alignment explanation
Indices: 48254930--48254983 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
48254920 GTATCTTGAA
* *
48254930 CTTTGCAATCGGAAGACTTCTAGT
1 CTTTGAAATCGAAAGACTTCTAGT
*
48254954 CTTTGAAATCGAAAGACTTTTAGT
1 CTTTGAAATCGAAAGACTTCTAGT
48254978 CTTTGA
1 CTTTGA
48254984 CTTGTGCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (24 bp):
CTTTGAAATCGAAAGACTTCTAGT
Found at i:48257005 original size:51 final size:51
Alignment explanation
Indices: 48256948--48257049 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
48256938 AATAATTAGA
48256948 ATAAAAAACAAGGTATTAAGACCTCAGAGATTTTAAAATGAGAATATTTAT
1 ATAAAAAACAAGGTATTAAGACCTCAGAGATTTTAAAATGAGAATATTTAT
48256999 ATAAAAAACAAGGTATTAAGACCTCAGAGATTTTAAAATGAGAATATTTAT
1 ATAAAAAACAAGGTATTAAGACCTCAGAGATTTTAAAATGAGAATATTTAT
48257050 GGAGTGTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (51 bp):
ATAAAAAACAAGGTATTAAGACCTCAGAGATTTTAAAATGAGAATATTTAT
Found at i:48258757 original size:7 final size:7
Alignment explanation
Indices: 48258745--48258790 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
48258735 ACTTCTGATC
48258745 AGTGACA
1 AGTGACA
48258752 AGTGACA
1 AGTGACA
48258759 AGTGACA
1 AGTGACA
48258766 AGTGACA
1 AGTGACA
48258773 AGTGACA
1 AGTGACA
*
48258780 AGTGATA
1 AGTGACA
48258787 AGTG
1 AGTG
48258791 TTACCTTTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.17
Consensus pattern (7 bp):
AGTGACA
Found at i:48258850 original size:51 final size:51
Alignment explanation
Indices: 48258766--48258888 Score: 219
Period size: 51 Copynumber: 2.4 Consensus size: 51
48258756 ACAAGTGACA
* *
48258766 AGTGACAAGTGACAAGTGATAAGTGTTACCTTTAGCTACACTTATTTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTACCTTTAGCTACACTTATCTGATC
*
48258817 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTACCTTTAGCTACACTTATCTGATC
48258868 AGTGACAAGTGACAAGTGATA
1 AGTGACAAGTGACAAGTGATA
48258889 TATGTGATCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTGGTACCTTTAGCTACACTTATCTGATC
Found at i:48265031 original size:110 final size:110
Alignment explanation
Indices: 48264838--48265057 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
48264828 AAATTAAAAT
48264838 TTTGAAAATTGACCCTGTTTGTGATATTTATAGCAACAAACCTTGAACAGAAATCATACCTATGT
1 TTTGAAAATTGACCCTGTTTGTGATATTTATAGCAACAAACCTTGAACAGAAATCATACCTATGT
*
48264903 TTTTGGATAAGTAGATCCTTGATGTTTTTTGATTTTCAACCAAAC
66 TTTTGGATAAGTAGATCCTTGATGTGTTTTGATTTTCAACCAAAC
48264948 TTTGAAAATTGACCCTGTTTGTGATATTTATAGCAACAAACCTTGAACAGAAATCATACCTATGT
1 TTTGAAAATTGACCCTGTTTGTGATATTTATAGCAACAAACCTTGAACAGAAATCATACCTATGT
48265013 TTTTGGATAAGTAGATCCTTGATGTGTTTTGATTTTCAACCAAAC
66 TTTTGGATAAGTAGATCCTTGATGTGTTTTGATTTTCAACCAAAC
48265058 GATCTTCTTC
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (110 bp):
TTTGAAAATTGACCCTGTTTGTGATATTTATAGCAACAAACCTTGAACAGAAATCATACCTATGT
TTTTGGATAAGTAGATCCTTGATGTGTTTTGATTTTCAACCAAAC
Found at i:48265551 original size:183 final size:183
Alignment explanation
Indices: 48265243--48265609 Score: 725
Period size: 183 Copynumber: 2.0 Consensus size: 183
48265233 ATAAATTCTC
48265243 TCTATTTTTTGATAGAGTAATAATCTCTCCAAGTTATGTAAATAGCCCTACCGGTGCTTTCTATT
1 TCTATTTTTTGATAGAGTAATAATCTCTCCAAGTTATGTAAATAGCCCTACCGGTGCTTTCTATT
48265308 TAAAAGAGAGAATATAAAATACTTATTGAATTTATATGTTTATTTCAAATATAAAAACAACTTTC
66 TAAAAGAGAGAATATAAAATACTTATTGAATTTATATGTTTATTTCAAATATAAAAACAACTTTC
48265373 TAGTCCAACTAGGAAAGAGAGGGGCTAATCGGGTGTGCTTCCTTTAATATGTA
131 TAGTCCAACTAGGAAAGAGAGGGGCTAATCGGGTGTGCTTCCTTTAATATGTA
*
48265426 TCTATTTTTTGATAGAGTAATAATCTCTCTAAGTTATGTAAATAGCCCTACCGGTGCTTTCTATT
1 TCTATTTTTTGATAGAGTAATAATCTCTCCAAGTTATGTAAATAGCCCTACCGGTGCTTTCTATT
48265491 TAAAAGAGAGAATATAAAATACTTATTGAATTTATATGTTTATTTCAAATATAAAAACAACTTTC
66 TAAAAGAGAGAATATAAAATACTTATTGAATTTATATGTTTATTTCAAATATAAAAACAACTTTC
48265556 TAGTCCAACTAGGAAAGAGAGGGGCTAATCGGGTGTGCTTCCTTTAATATGTA
131 TAGTCCAACTAGGAAAGAGAGGGGCTAATCGGGTGTGCTTCCTTTAATATGTA
48265609 T
1 T
48265610 TATGATGGGG
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (183 bp):
TCTATTTTTTGATAGAGTAATAATCTCTCCAAGTTATGTAAATAGCCCTACCGGTGCTTTCTATT
TAAAAGAGAGAATATAAAATACTTATTGAATTTATATGTTTATTTCAAATATAAAAACAACTTTC
TAGTCCAACTAGGAAAGAGAGGGGCTAATCGGGTGTGCTTCCTTTAATATGTA
Found at i:48269391 original size:23 final size:23
Alignment explanation
Indices: 48269365--48269509 Score: 191
Period size: 23 Copynumber: 6.2 Consensus size: 23
48269355 ATTGGGTATA
* *
48269365 TATATATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
48269388 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
48269411 TATAAATGCTGCCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * *
48269434 TATATATGCTGTCCAATTTGATA
1 TATAAATGCTGTCCAATTTGGTG
*
48269457 TATATATATGCTGTCCAATTGGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
* *
48269482 TATAAATGCTGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
48269505 TATAA
1 TATAA
48269510 GAGATATCCA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
23 86 0.81
24 1 0.01
25 19 0.18
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:48269520 original size:71 final size:69
Alignment explanation
Indices: 48269365--48269520 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 69
48269355 ATTGGGTATA
* * * * *
48269365 TATATATGCTATCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGCCCAATTT
1 TATATAAGATATCCAATTTGATATATAAATGCTGTCCAATTGGGTGTATAAATGCTGCCCAATTT
*
48269430 GGTG
66 GATG
* * * * *
48269434 TATATATGCTGTCCAATTTGATATATATATATGCTGTCCAATTGGGTGTATAAATGCTGTCCGAT
1 TATATAAGATATCCAATTTGATATATA-A-ATGCTGTCCAATTGGGTGTATAAATGCTGCCCAAT
48269499 TTGATG
64 TTGATG
48269505 TATA-AGAGATATCCAA
1 TATATA-AGATATCCAA
48269521 ATAGGGTAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
69 24 0.32
70 2 0.03
71 48 0.65
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (69 bp):
TATATAAGATATCCAATTTGATATATAAATGCTGTCCAATTGGGTGTATAAATGCTGCCCAATTT
GATG
Found at i:48274252 original size:21 final size:22
Alignment explanation
Indices: 48274226--48274275 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
48274216 TTTCAAAAAC
48274226 TGAATTTC-TAT-CAGTGTTTT
1 TGAATTTCGTATGCAGTGTTTT
*
48274246 TGAAATTCGTATGCAGTGTTTT
1 TGAATTTCGTATGCAGTGTTTT
48274268 TGAATTTC
1 TGAATTTC
48274276 AGGTCGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 3 0.12
22 16 0.62
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (22 bp):
TGAATTTCGTATGCAGTGTTTT
Found at i:48275953 original size:56 final size:51
Alignment explanation
Indices: 48275736--48275983 Score: 236
Period size: 50 Copynumber: 4.8 Consensus size: 51
48275726 TGATAATAAC
* ** * * *
48275736 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TTCTTAT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCATCTCA
* * ** * *
48275785 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATTTCT-CATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCATCTCA
* * * *
48275835 GTGCCCATGCTATGTCCGAGACATGGTCTTACGA-GGGACCTC-CCATCTCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCCATCTCA
* *
48275885 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--CATCTC-A
*
48275939 TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 --ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
48275984 TTACCCAAAT
Statistics
Matches: 164, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
49 42 0.26
50 73 0.45
51 2 0.01
53 5 0.03
54 1 0.01
56 41 0.25
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCATCTCA
Found at i:48277485 original size:13 final size:13
Alignment explanation
Indices: 48277467--48277491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48277457 GAATTAATAT
48277467 GTGTGAAAATTTC
1 GTGTGAAAATTTC
48277480 GTGTGAAAATTT
1 GTGTGAAAATTT
48277492 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:48278664 original size:43 final size:42
Alignment explanation
Indices: 48278601--48278726 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 42
48278591 AAGATTCCGT
48278601 TATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCATCAAC
1 TATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATC-AC
**
48278645 T-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGT
1 TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAC
* *
48278687 TATGTGATTACATGTAAGACCACGTCTGGAACGTTGGCAT
1 TATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
48278727 TGTACGATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 3 0.04
43 62 0.87
44 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (42 bp):
TATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAC
Found at i:48280617 original size:102 final size:101
Alignment explanation
Indices: 48280441--48280784 Score: 478
Period size: 102 Copynumber: 3.4 Consensus size: 101
48280431 TATCGATGAA
* * * *
48280441 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGATCGCTAAATAATGGTCACATGTGCAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGTAGTAC
*
48280506 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
48280543 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGTAGTAC
48280608 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * * *
48280645 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATCACGTGTATAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGATCACATGTGTAGTA
* * * * *
48280708 CTATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
65 CTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
*
48280745 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
48280785 ATGATAAAAG
Statistics
Matches: 218, Mismatches: 21, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
100 41 0.19
101 46 0.21
102 130 0.60
103 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:48280711 original size:50 final size:50
Alignment explanation
Indices: 48280441--48280783 Score: 368
Period size: 51 Copynumber: 6.8 Consensus size: 50
48280431 TATCGATGAA
* * *
48280441 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGATCGCTAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGAT
* * * * * * * * *
48280492 CACATGTGCAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTA-AAAC-TTGAT
* ***
48280543 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAAACTTGAT
* * * * * *
48280594 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAA-C-TTGAT
*
48280645 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
* *
48280695 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
*
48280745 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG
48280784 AATGATAAAA
Statistics
Matches: 240, Mismatches: 44, Indels: 17
0.80 0.15 0.06
Matches are distributed among these distances:
49 4 0.02
50 89 0.37
51 140 0.58
52 6 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
Found at i:48282750 original size:23 final size:22
Alignment explanation
Indices: 48282719--48282864 Score: 123
Period size: 23 Copynumber: 6.2 Consensus size: 22
48282709 TGATTGGGTA
48282719 TATATATACTGTCCAATTTGGTG
1 TATA-ATACTGTCCAATTTGGTG
*
48282742 TATCAATACTATCCAATTTGGTG
1 TAT-AATACTGTCCAATTTGGTG
*
48282765 TATAAAATGCTGTCCAATTTGGTG
1 TAT--AATACTGTCCAATTTGGTG
*
48282789 TATATATGA-TGTCCAATTTGGTA
1 TATA-AT-ACTGTCCAATTTGGTG
* *
48282812 TATATATATGCTGTCCGATTTGATG
1 TATA-ATA--CTGTCCAATTTGGTG
* * *
48282837 TATAAGAGCTGTCCGATTTGATG
1 TATAATA-CTGTCCAATTTGGTG
48282860 TATAA
1 TATAA
48282865 GAGTTGTCCA
Statistics
Matches: 106, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
22 2 0.02
23 66 0.62
24 23 0.22
25 15 0.14
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (22 bp):
TATAATACTGTCCAATTTGGTG
Found at i:48282786 original size:47 final size:48
Alignment explanation
Indices: 48282717--48282840 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
48282707 ATTGATTGGG
* * *
48282717 TATATATATACTGTCCAATTTGGTGTATCA-AT-ACTATCCAATTTGGTG
1 TATATAAATGCTGTCCAATTTGGTGTAT-ATATGA-TATCCAATTTGGTA
*
48282765 TATA-AAATGCTGTCCAATTTGGTGTATATATGATGTCCAATTTGGTA
1 TATATAAATGCTGTCCAATTTGGTGTATATATGATATCCAATTTGGTA
* * *
48282812 TATATATATGCTGTCCGATTTGATGTATA
1 TATATAAATGCTGTCCAATTTGGTGTATA
48282841 AGAGCTGTCC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
46 1 0.02
47 39 0.59
48 26 0.39
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (48 bp):
TATATAAATGCTGTCCAATTTGGTGTATATATGATATCCAATTTGGTA
Found at i:48282865 original size:23 final size:23
Alignment explanation
Indices: 48282821--48282873 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
48282811 ATATATATAT
48282821 GCTGTCCGATTTGATGTATAAGA
1 GCTGTCCGATTTGATGTATAAGA
48282844 GCTGTCCGATTTGATGTATAAGA
1 GCTGTCCGATTTGATGTATAAGA
*
48282867 GTTGTCC
1 GCTGTCC
48282874 AAATAGGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (23 bp):
GCTGTCCGATTTGATGTATAAGA
Found at i:48289395 original size:43 final size:43
Alignment explanation
Indices: 48289346--48289446 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
48289336 AATGAAAAAT
* * **
48289346 TACTGGCACATATAGTACATCATCAGGT-AAGCTGAAGCAATTA
1 TACTGGCACACAAAGTACATCATCAAATGAA-CTGAAGCAATTA
* *
48289389 TGCTGGCACACAAAGTGCATCATCAAATGAACTGAAGCAATTA
1 TACTGGCACACAAAGTACATCATCAAATGAACTGAAGCAATTA
*
48289432 TACTGGCACCCAAAG
1 TACTGGCACACAAAG
48289447 ATAAACTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (43 bp):
TACTGGCACACAAAGTACATCATCAAATGAACTGAAGCAATTA
Found at i:48289526 original size:42 final size:41
Alignment explanation
Indices: 48289474--48289655 Score: 143
Period size: 42 Copynumber: 4.4 Consensus size: 41
48289464 AGCTGGCATG
**
48289474 TAAGTGCATCATCGGTTGTAGCGAAGCAAATATATTGGCACA
1 TAAGTGCATCATCGGACGTA-CGAAGCAAATATATTGGCACA
* ** * * * *
48289516 TGAGTGCATCATCAAATCG-ACGAAGCAATTATACTAGTACA
1 TAAGTGCATCATCGGA-CGTACGAAGCAAATATATTGGCACA
* * *** **
48289557 TTAGTACATCATCGGATAAACTGAAGCAAATATACTT-GCATG
1 TAAGTGCATCATCGGACGTAC-GAAGCAAATATA-TTGGCACA
* *
48289599 TAAGTGCATCATCGAACGTACCGAAGCAAATATATTGTCACA
1 TAAGTGCATCATCGGACGTA-CGAAGCAAATATATTGGCACA
48289641 TAAGTGCATCATCGG
1 TAAGTGCATCATCGG
48289656 CTAAACCAAA
Statistics
Matches: 104, Mismatches: 30, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
41 33 0.32
42 68 0.65
43 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (41 bp):
TAAGTGCATCATCGGACGTACGAAGCAAATATATTGGCACA
Found at i:48291561 original size:11 final size:11
Alignment explanation
Indices: 48291547--48291603 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
48291537 ATTGAATTAA
*
48291547 TAAAATACTAT
1 TAAAATAATAT
48291558 TAAAATAAGTAT
1 TAAAATAA-TAT
*
48291570 TAAATTTAATAT
1 TAAA-ATAATAT
*
48291582 T-AAAT-TTAT
1 TAAAATAATAT
48291591 TAAAATAATAT
1 TAAAATAATAT
48291602 TA
1 TA
48291604 TTTTTGAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 4 0.11
10 5 0.14
11 14 0.38
12 11 0.30
13 3 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:48297771 original size:32 final size:34
Alignment explanation
Indices: 48297708--48297771 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
48297698 TCTAATAATT
* *
48297708 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
48297742 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
48297772 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:48298707 original size:23 final size:22
Alignment explanation
Indices: 48298665--48298742 Score: 138
Period size: 23 Copynumber: 3.5 Consensus size: 22
48298655 TTGATTTGTT
48298665 CTGGAAATTGTTTGATTGTCTG
1 CTGGAAATTGTTTGATTGTCTG
48298687 CTGGAAATTGTTATGATTGTCTG
1 CTGGAAATTGTT-TGATTGTCTG
48298710 CTGGAAATTGTTTTGATTGTCTG
1 CTGGAAATTG-TTTGATTGTCTG
48298733 CTGGAAATTG
1 CTGGAAATTG
48298743 AATTTGTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.22
23 40 0.74
24 2 0.04
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.44
Consensus pattern (22 bp):
CTGGAAATTGTTTGATTGTCTG
Found at i:48300048 original size:95 final size:96
Alignment explanation
Indices: 48299929--48300110 Score: 321
Period size: 95 Copynumber: 1.9 Consensus size: 96
48299919 AAATAATTAC
48299929 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAA
48299994 GGACTTTAATATTTTATTAAAATAAGGACTA
66 GGACTTTAATATTTTATTAAAATAAGGACTA
* * * *
48300025 ATCAATAATTAAAAT-AGGACTTTAATATTTTATTAAAATAAGGACTAATTAATATTTAAAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAA
48300089 GGACTTTAATATTTTATTAAAA
66 GGACTTTAATATTTTATTAAAA
48300111 ATCAAGAAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
95 67 0.82
96 15 0.18
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (96 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAA
GGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:48300062 original size:47 final size:48
Alignment explanation
Indices: 48299929--48300110 Score: 321
Period size: 48 Copynumber: 3.8 Consensus size: 48
48299919 AAATAATTAC
*
48299929 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
48299977 ATCAATAATTAAAACAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
48300025 ATCAATAATTAAAAT-AGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
* *
48300072 ATTAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
48300111 ATCAAGAAAT
Statistics
Matches: 128, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 45 0.35
48 83 0.65
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:48303446 original size:92 final size:91
Alignment explanation
Indices: 48303289--48303497 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
48303279 TTGATTTTAG
* * *
48303289 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
48303354 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
48303381 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
48303445 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
48303473 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
48303498 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:48303460 original size:24 final size:25
Alignment explanation
Indices: 48303425--48303472 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
48303415 TTATGAAATT
48303425 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
48303449 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
48303473 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:48303651 original size:120 final size:120
Alignment explanation
Indices: 48303513--48304045 Score: 1005
Period size: 120 Copynumber: 4.4 Consensus size: 120
48303503 AATTATTTTA
* * * * *
48303513 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
48303577 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48303633 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48303698 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48303753 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48303818 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48303873 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
48303938 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48303993 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
48304046 TAAATATGAT
Statistics
Matches: 407, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
120 405 1.00
121 2 0.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:48303673 original size:15 final size:15
Alignment explanation
Indices: 48303638--48303689 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48303628 TTAAGAATTT
*
48303638 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48303652 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48303666 TATTTAATAATAAT-
1 TATTTAATTATAATA
48303680 TATGTTAATT
1 TAT-TTAATT
48303690 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48303793 original size:15 final size:15
Alignment explanation
Indices: 48303758--48303809 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48303748 TTAAGAATTT
*
48303758 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48303772 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48303786 TATTTAATAATAAT-
1 TATTTAATTATAATA
48303800 TATGTTAATT
1 TAT-TTAATT
48303810 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48303913 original size:15 final size:15
Alignment explanation
Indices: 48303878--48303929 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48303868 TTAAGAATTT
*
48303878 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48303892 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48303906 TATTTAATAATAAT-
1 TATTTAATTATAATA
48303920 TATGTTAATT
1 TAT-TTAATT
48303930 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48304028 original size:16 final size:16
Alignment explanation
Indices: 48304007--48304048 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48303997 TTATTAAATT
*
48304007 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48304023 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48304038 AT-TATGTTTAA
1 ATATAT-TTTAA
48304049 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48304033 original size:15 final size:15
Alignment explanation
Indices: 48303998--48304039 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48303988 TTAAGAATTT
*
48303998 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48304012 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48304026 TATTTAATAATAAT
1 TATTTAATTATAAT
48304040 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48304160 original size:157 final size:154
Alignment explanation
Indices: 48303982--48304295 Score: 529
Period size: 157 Copynumber: 2.0 Consensus size: 154
48303972 ATAAGAATAT
*
48303982 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
48304047 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAAT---AA
** *
48304112 TAATAATTTATTAAAACAAATTTCTGC
128 TAATAATTTACCAAAACAAATTTATGC
48304139 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
48304204 AAATATGATTAAAATATTTATTATTGATAATAATTATCTTATTAAAATTTAAATAACAATAATAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAA
*
48304269 TCATTTACCAAAACAAATTTATGC
131 TAATTTACCAAAACAAATTTATGC
48304293 TAA
1 TAA
48304296 GGGTATTCTA
Statistics
Matches: 149, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
154 28 0.19
157 121 0.81
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (154 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAA
TAATTTACCAAAACAAATTTATGC
Found at i:48304179 original size:18 final size:17
Alignment explanation
Indices: 48304151--48304185 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48304141 ATTATTAAGA
*
48304151 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48304168 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48304186 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48304439 original size:16 final size:16
Alignment explanation
Indices: 48304418--48304453 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
48304408 GATTTGCTAT
48304418 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
48304434 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
48304450 TACA
1 TACA
48304454 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48306772 original size:28 final size:28
Alignment explanation
Indices: 48306740--48306796 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
48306730 TTAATAATAA
48306740 AGTCTTAAGAATAATATGATTATTCTTG
1 AGTCTTAAGAATAATATGATTATTCTTG
48306768 AGTCTTAAGAATAATATGATTATTCTTG
1 AGTCTTAAGAATAATATGATTATTCTTG
48306796 A
1 A
48306797 AAGTCCTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (28 bp):
AGTCTTAAGAATAATATGATTATTCTTG
Found at i:48309390 original size:50 final size:50
Alignment explanation
Indices: 48309324--48309500 Score: 171
Period size: 50 Copynumber: 3.6 Consensus size: 50
48309314 AATATGTGAG
* * **
48309324 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTC
* * *
48309374 CCCTGTAAGACTATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTC
* * * * * * *
48309424 CCATGTAAGACCATATTTGAGATATGGCATTGGCA--GTACA-GAAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATGAGAAC-TC
* *
48309473 CTACGTAAGACCATGTCTGGGACATGGC
1 CCATGTAAGACCATGTCTGGGACATGGC
48309501 TTTGGCATGT
Statistics
Matches: 103, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
48 6 0.06
49 26 0.25
50 71 0.69
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTC
Found at i:48309735 original size:20 final size:20
Alignment explanation
Indices: 48309710--48309752 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
48309700 TGAGTTATTT
*
48309710 AAGTAAGCA-AGTAAGTAAAG
1 AAGTAAG-AGAGTAAGAAAAG
48309730 AAGTAAGAGAGTAAGAAAAG
1 AAGTAAGAGAGTAAGAAAAG
48309750 AAG
1 AAG
48309753 AAGTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.58, C:0.02, G:0.28, T:0.12
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGAAAAG
Found at i:48313959 original size:17 final size:18
Alignment explanation
Indices: 48313927--48313961 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48313917 CCATGATATT
48313927 CGCCTATGTCGGCCCACA
1 CGCCTATGTCGGCCCACA
*
48313945 CGCCTGTGT-GGCCCACA
1 CGCCTATGTCGGCCCACA
48313962 TGACCCAAAT
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:0.14, C:0.43, G:0.26, T:0.17
Consensus pattern (18 bp):
CGCCTATGTCGGCCCACA
Found at i:48318963 original size:17 final size:19
Alignment explanation
Indices: 48318935--48318971 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
48318925 AAAATTCGAA
48318935 TTTATTTCCCAAT-TTAAT
1 TTTATTTCCCAATATTAAT
48318953 TTTATTT-CCAATATTAAT
1 TTTATTTCCCAATATTAAT
48318971 T
1 T
48318972 AATTGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTTCCCAATATTAAT
Found at i:48328779 original size:23 final size:22
Alignment explanation
Indices: 48328753--48328796 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
48328743 ACATCCCCTG
*
48328753 CCCCTAAACTCCCCGCCCCCCCC
1 CCCCCAAACTCCCC-CCCCCCCC
**
48328776 CCCCCACCCTCCCCCCCCCCC
1 CCCCCAAACTCCCCCCCCCCC
48328797 AACCCCTCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.09, C:0.82, G:0.02, T:0.07
Consensus pattern (22 bp):
CCCCCAAACTCCCCCCCCCCCC
Found at i:48328805 original size:18 final size:17
Alignment explanation
Indices: 48328769--48328801 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48328759 AACTCCCCGC
*
48328769 CCCCCCCCCCCCACCCT
1 CCCCCCCCCCCAACCCT
48328786 CCCCCCCCCCCAACCC
1 CCCCCCCCCCCAACCC
48328802 CTCCAATGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.88, G:0.00, T:0.03
Consensus pattern (17 bp):
CCCCCCCCCCCAACCCT
Found at i:48333419 original size:23 final size:24
Alignment explanation
Indices: 48333393--48333437 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
48333383 ATATCCCCAC
*
48333393 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
48333416 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
48333438 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:48333554 original size:34 final size:34
Alignment explanation
Indices: 48333511--48333588 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
48333501 GCATTTTTGA
* *
48333511 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
48333544 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGTT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTG-T
48333580 CAACTGTAC
1 C-ACTGTAC
48333589 ACTATGAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 5 0.13
34 20 0.53
35 4 0.11
36 5 0.13
37 4 0.11
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:48335819 original size:15 final size:16
Alignment explanation
Indices: 48335799--48335840 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
48335789 ATGGTATATA
48335799 TATTTTAAAA-TTTTT
1 TATTTTAAAATTTTTT
48335814 TATTTTAAAATTTTTTT
1 TATTTTAAAA-TTTTTT
48335831 TATTTTAAAA
1 TATTTTAAAA
48335841 AATGAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.40
17 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTAAAATTTTTT
Found at i:48342381 original size:72 final size:72
Alignment explanation
Indices: 48342264--48342411 Score: 206
Period size: 72 Copynumber: 2.1 Consensus size: 72
48342254 CGTTTATTAT
* *
48342264 GGCCTGACAAATGGTCGTGTCCTTATCGTTGGGTATTTTACACGTCACACACACAACCTCAGGCT
1 GGCCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCACACACACAACCTCAGGCT
*
48342329 GTTACAC
66 ATTACAC
* * ** ** *
48342336 GGCCTGACACATAGTCGTGTCCTTATCATTGGGTATTTTGCACGTCGTACACACGGCCTTAGGCT
1 GGCCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCACACACACAACCTCAGGCT
48342401 ATTACAC
66 ATTACAC
48342408 GGCC
1 GGCC
48342412 GTGTACCCCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (72 bp):
GGCCTGACAAATAGTCGTGTCCTTATCATTGGGTATTTTACACGTCACACACACAACCTCAGGCT
ATTACAC
Found at i:48344604 original size:29 final size:29
Alignment explanation
Indices: 48344562--48344620 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
48344552 TCACTTAACA
48344562 TAGCTAGTGGTCTTCTTGGTGTTGATACT
1 TAGCTAGTGGTCTTCTTGGTGTTGATACT
48344591 TAGCTAGTGGTCTTCTTGGTGTTGATACT
1 TAGCTAGTGGTCTTCTTGGTGTTGATACT
48344620 T
1 T
48344621 GCTTAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.46
Consensus pattern (29 bp):
TAGCTAGTGGTCTTCTTGGTGTTGATACT
Found at i:48351959 original size:24 final size:24
Alignment explanation
Indices: 48351932--48351977 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
48351922 AAGCTCATGC
48351932 GAGCCAATAACGGGTAA-CTCCGAA
1 GAGCCAATAACGGG-AAGCTCCGAA
* *
48351956 GAGCTATTAACGGGAAGCTCCG
1 GAGCCAATAACGGGAAGCTCCG
48351978 GATAGCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.33, C:0.24, G:0.28, T:0.15
Consensus pattern (24 bp):
GAGCCAATAACGGGAAGCTCCGAA
Found at i:48367167 original size:15 final size:15
Alignment explanation
Indices: 48367132--48367173 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48367122 TTAAAAATTT
*
48367132 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48367146 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48367160 TATTTAATAATAAT
1 TATTTAATTATAAT
48367174 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48367416 original size:16 final size:16
Alignment explanation
Indices: 48367395--48367432 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
48367385 TTGATTTGTT
*
48367395 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
48367411 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
48367427 AATACA
1 ATTACA
48367433 GCGAGCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:48378624 original size:18 final size:17
Alignment explanation
Indices: 48378587--48378638 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
48378577 CTAAAGGACA
* *
48378587 ACAAATAATCGATAAAT
1 ACAAATAAGCAATAAAT
48378604 ACAAATAAGCAATACAAT
1 ACAAATAAGCAATA-AAT
*
48378622 ACACATGAGAGCAATAA
1 ACAAAT-A-AGCAATAA
48378639 TCTTACATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.41
18 8 0.28
19 2 0.07
20 7 0.24
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (17 bp):
ACAAATAAGCAATAAAT
Found at i:48379280 original size:16 final size:16
Alignment explanation
Indices: 48379259--48379291 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48379249 AGTGAATTAA
48379259 AAAAAT-ATTATAAAAT
1 AAAAATCATTA-AAAAT
48379275 AAAAATCATTAAAAAT
1 AAAAATCATTAAAAAT
48379291 A
1 A
48379292 TTTATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATCATTAAAAAT
Done.