Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 45 of 433
Found at i:12116587 original size:3 final size:3
Alignment explanation
Indices: 12116579--12116628 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
12116569 ATAACAATGA
* * * *
12116579 AAT AAT AAT GAT AAC AAT AAT AAT AAC AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12116627 AA
1 AA
12116629 ATCTAAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:12116599 original size:12 final size:12
Alignment explanation
Indices: 12116582--12116628 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
12116572 ACAATGAAAT
*
12116582 AATAATGATAAC
1 AATAATAATAAC
12116594 AATAATAATAAC
1 AATAATAATAAC
12116606 AATAATAATAAC
1 AATAATAATAAC
12116618 AATAATAATAA
1 AATAATAATAA
12116629 ATCTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:12117592 original size:4 final size:5
Alignment explanation
Indices: 12117576--12117619 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
12117566 AAATAGATTC
*
12117576 GAAAA GAAAA G-AAA GAAAA GAAAA TAAAA -AAGAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAA-AA GAAAA GAAAA
12117620 AATAACAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
4 6 0.17
5 27 0.77
6 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:12122556 original size:46 final size:45
Alignment explanation
Indices: 12122496--12123021 Score: 689
Period size: 46 Copynumber: 12.0 Consensus size: 45
12122486 TTTGACATGA
* * * * * *
12122496 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
12122542 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
12122588 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
12122634 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
12122680 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
*
12122718 TGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
12122764 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
12122810 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
12122848 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
12122894 TGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
12122940 TACCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
12122978 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
12123022 AGAGCACACT
Statistics
Matches: 432, Mismatches: 21, Indels: 54
0.85 0.04 0.11
Matches are distributed among these distances:
38 100 0.23
40 9 0.02
41 1 0.00
43 3 0.01
44 9 0.02
45 4 0.01
46 300 0.69
47 6 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:12122769 original size:84 final size:85
Alignment explanation
Indices: 12122628--12123021 Score: 556
Period size: 84 Copynumber: 4.6 Consensus size: 85
12122618 ACATTTCATA
*
12122628 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
12122693 TTCAACCATGGTCTTACAC-
66 TTCAACCATGGTCTTACACT
*
12122712 TCAGGTTGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
12122777 TTCAACCATGGTCTTACACATTTTAT
66 TTCAACCATGGTCTTACAC------T
12122803 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGTTGCCATGGTATC
1 -TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATC
12122860 TTTCAACCATGGTCTTACACATTTCAT
65 TTTCAACCATGGTCTT--ACA---C-T
* *
12122887 ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCAGGTTACCATGGTATC
1 -TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATC
12122952 TTTCAACCATGGTCTTACAC-
65 TTTCAACCATGGTCTTACACT
12122972 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
12123022 AGAGCACACT
Statistics
Matches: 283, Mismatches: 6, Indels: 42
0.85 0.02 0.13
Matches are distributed among these distances:
84 201 0.71
86 6 0.02
87 2 0.01
89 2 0.01
90 6 0.02
92 66 0.23
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (85 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
TTCAACCATGGTCTTACACT
Found at i:12122777 original size:130 final size:130
Alignment explanation
Indices: 12122496--12123021 Score: 863
Period size: 130 Copynumber: 4.0 Consensus size: 130
12122486 TTTGACATGA
* * * * * * *
12122496 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
* *
12122561 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTC---TT-A---CA-CTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
12122626 TATCAGGT
123 TATCAGGT
12122634 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
*
12122699 CATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGCCTTACACATTTCATATCAGGT
66 CATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
12122764 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
12122829 CATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
12122894 TGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCAGGTTACCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
12122959 CATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
12123022 AGAGCACACT
Statistics
Matches: 374, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
130 304 0.81
131 2 0.01
134 1 0.00
135 2 0.01
138 65 0.17
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (130 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:12126187 original size:25 final size:24
Alignment explanation
Indices: 12126060--12126225 Score: 90
Period size: 25 Copynumber: 6.8 Consensus size: 24
12126050 CACTTAAACA
* * *
12126060 GGAAGCTCATATGAGCTAATATCG
1 GGAAGCTCATAAGAGCCATTATCG
* *
12126084 GGAAGTTC--AAGTAAGCCAATATCG
1 GGAAGCTCATAAG--AGCCATTATCG
* *
12126108 GGAAGCTC-TGGAGAGCCATTAATAG
1 GGAAGCTCAT-AAGAGCCATT-ATCG
* * * * *
12126133 GTAAACTAATAATATCCAGTTATCG
1 GGAAGCTCATAAGAGCCA-TTATCG
*
12126158 AGAAGCTC-TGAAGAGCCAATTATCG
1 GGAAGCTCAT-AAGAGCC-ATTATCG
*
12126183 GGAAGCTCATAAGAGCCATAAT-G
1 GGAAGCTCATAAGAGCCATTATCG
* *
12126206 GGAAGCTCACAAGAACCATT
1 GGAAGCTCATAAGAGCCATT
12126226 TAATAGGAAA
Statistics
Matches: 107, Mismatches: 25, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
22 2 0.02
23 18 0.17
24 35 0.33
25 45 0.42
26 7 0.07
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATTATCG
Found at i:12126212 original size:23 final size:24
Alignment explanation
Indices: 12126154--12126224 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 24
12126144 ATATCCAGTT
* *
12126154 ATCGAGAAGCTC-TGAAGAGCCAATT
1 ATCGGGAAGCTCAT-AAGAGCC-ATA
12126179 ATCGGGAAGCTCATAAGAGCCATA
1 ATCGGGAAGCTCATAAGAGCCATA
* *
12126203 AT-GGGAAGCTCACAAGAACCAT
1 ATCGGGAAGCTCATAAGAGCCAT
12126225 TTAATAGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.44
24 4 0.10
25 18 0.44
26 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (24 bp):
ATCGGGAAGCTCATAAGAGCCATA
Found at i:12134677 original size:14 final size:14
Alignment explanation
Indices: 12134655--12134700 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
12134645 AATACGTTTC
*
12134655 TTTTGTTTTTATTT
1 TTTTATTTTTATTT
12134669 TTTTATTTTTATTT
1 TTTTATTTTTATTT
* *
12134683 TTTTCTCTTT-TTT
1 TTTTATTTTTATTT
12134696 TTTTA
1 TTTTA
12134701 CTTAAGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 7 0.25
14 21 0.75
ACGTcount: A:0.09, C:0.04, G:0.02, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:12134875 original size:99 final size:100
Alignment explanation
Indices: 12134695--12134884 Score: 224
Period size: 99 Copynumber: 1.9 Consensus size: 100
12134685 TTCTCTTTTT
* * * ** *
12134695 TTTTTACTTAAGAATATATTGAACTTTTTGACGAGAAGAGAGGTGATAGTTAAGCACCCCACCCT
1 TTTTTACTTAAGAACATATCGAACTTTTTGACGAGAAGAGAGATGATAGCCAAACACCCCACCCT
* *
12134760 GGTTACTCAGCACAACATACTCCTAATTTATTATA
66 GATTACTCAGCACAACACACTCCTAATTTATTATA
* * **
12134795 TTTTT-CTTAAGAACATGTCGAACTTTTTGACGCGAAGAGAGATGATAGCCAAACATTCCA-CCT
1 TTTTTACTTAAGAACATATCGAACTTTTTGACGAGAAGAGAGATGATAGCCAAACACCCCACCCT
*
12134858 CGATTACTCAGTC-CAACACATTCCTAA
66 -GATTACTCAG-CACAACACACTCCTAA
12134885 AAAAATTTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
98 3 0.04
99 66 0.88
100 6 0.08
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (100 bp):
TTTTTACTTAAGAACATATCGAACTTTTTGACGAGAAGAGAGATGATAGCCAAACACCCCACCCT
GATTACTCAGCACAACACACTCCTAATTTATTATA
Found at i:12136001 original size:20 final size:20
Alignment explanation
Indices: 12135976--12136024 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
12135966 ATATCCAAAC
*
12135976 AAAATAAAGTAATAAACAAT
1 AAAATAAAATAATAAACAAT
*
12135996 AAAATAAAATAATAAATAAT
1 AAAATAAAATAATAAACAAT
*
12136016 AAAAGAAAA
1 AAAATAAAA
12136025 ATAAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAATAAAATAATAAACAAT
Found at i:12143612 original size:6 final size:6
Alignment explanation
Indices: 12143586--12143632 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
12143576 GAAAATAAAG
*
12143586 AAAATA AATATATA TAAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AA-A-ATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
12143633 TTGAGTTGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 31 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:12150457 original size:43 final size:45
Alignment explanation
Indices: 12150396--12150526 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 45
12150386 GAAATTATAA
* * *
12150396 ATCCGAGCTCATTGAGTGGTCTGAGTTTATTATGGAT-ATG-AGC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTTATTATGGATCATGTAAC
* *
12150439 ATCCGAGCTCGTTGAGTGGTCCGTGTTCATGATGGATGCGATGCATGTAAC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTT--T-AT-TATG-GAT-CATGTAAC
*
12150490 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGAT
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTTATTATGGAT
12150527 GGGTTATATG
Statistics
Matches: 72, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
43 24 0.33
45 1 0.01
46 5 0.07
47 6 0.08
48 5 0.07
50 3 0.04
51 28 0.39
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (45 bp):
ATCCGAGCTCGTTGAGTGGTCCGAGTTTATTATGGATCATGTAAC
Found at i:12151761 original size:48 final size:48
Alignment explanation
Indices: 12151630--12151763 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 48
12151620 CAGTGCAGGT
* * *
12151630 GATATGTGTGTCT-GTGTAAGACATGTCTGGGACATGCATCGGCTTTGA
1 GATATGAGTG-CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
* * * * * *
12151678 G--ACGAGAGCCAGTGTAAGAAATGTCTAGGATATGCATCGGCCTCGA
1 GATATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
* *
12151724 GATATGCGTGCTAGTGTAAGACATATCTGGGACATGCATC
1 GATATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATC
12151764 AACCGCGTTG
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
45 1 0.02
46 35 0.53
48 30 0.45
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GATATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
Found at i:12152671 original size:2 final size:2
Alignment explanation
Indices: 12152664--12152706 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
12152654 ATTATGGTTT
12152664 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12152706 T
1 T
12152707 TATCTCTGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12156093 original size:14 final size:15
Alignment explanation
Indices: 12156074--12156102 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12156064 AATGGATACA
12156074 GTCTTACGAT-TGGG
1 GTCTTACGATATGGG
12156088 GTCTTACGATATGGG
1 GTCTTACGATATGGG
12156103 CACATGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.14, G:0.34, T:0.34
Consensus pattern (15 bp):
GTCTTACGATATGGG
Found at i:12158659 original size:28 final size:28
Alignment explanation
Indices: 12158627--12158725 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
12158617 GCCATAAGCC
*
12158627 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
12158655 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
12158683 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
12158712 CGCACACTTAGTGC
1 CGCACACTTAGTGC
12158726 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:12166286 original size:28 final size:28
Alignment explanation
Indices: 12166254--12166352 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
12166244 TGCATAAGCC
*
12166254 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
12166282 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
12166310 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
12166339 CGCACACTTAGTGC
1 CGCACACTTAGTGC
12166353 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:12170929 original size:7 final size:7
Alignment explanation
Indices: 12170917--12170950 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
12170907 CAGCCGTATG
12170917 TTTCTTT
1 TTTCTTT
12170924 TTTCTTT
1 TTTCTTT
12170931 TTTCTTT
1 TTTCTTT
*
12170938 TTACTTT
1 TTTCTTT
*
12170945 GTTCTT
1 TTTCTT
12170951 CTCCCTTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (7 bp):
TTTCTTT
Found at i:12171549 original size:19 final size:19
Alignment explanation
Indices: 12171522--12171558 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12171512 TAATAAGGGA
*
12171522 GGAATGAGATTCATTCCAT
1 GGAACGAGATTCATTCCAT
12171541 GGAACGAGATTCATTCCA
1 GGAACGAGATTCATTCCA
12171559 ACCAAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (19 bp):
GGAACGAGATTCATTCCAT
Found at i:12186509 original size:29 final size:31
Alignment explanation
Indices: 12186461--12186524 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
12186451 TTTATAATTA
*
12186461 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
12186492 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
12186521 TTTA
1 TTTA
12186525 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:12186513 original size:8 final size:8
Alignment explanation
Indices: 12186502--12186526 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12186492 TTTAATAAGA
12186502 TATTTTAT
1 TATTTTAT
12186510 TATTTTAT
1 TATTTTAT
12186518 TATTTTAT
1 TATTTTAT
12186526 T
1 T
12186527 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:12189701 original size:45 final size:45
Alignment explanation
Indices: 12189628--12189779 Score: 232
Period size: 45 Copynumber: 3.4 Consensus size: 45
12189618 CTGTTACCAC
* * **
12189628 TACTGCTACCATTACCGATTTAGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCATTACTGATTCGGCACTTTGTGTGTCGAATATTGT
*
12189673 TACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCATTACTGATTCGGCACTTTGTGTGTCGAATATTGT
* *
12189718 TACTGTTACCATTACCGATTTGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCATTACTGATTCGGCACTTTGTGTGTCGAATATTGT
*
12189763 TACTGTTACCTTTACTG
1 TACTGTTACCATTACTG
12189780 TTACCGATTT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCATTACTGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:12189725 original size:51 final size:50
Alignment explanation
Indices: 12189670--12189828 Score: 168
Period size: 51 Copynumber: 3.2 Consensus size: 50
12189660 TGTCGAATAT
12189670 TGTTACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGTTACTGTTACCGTTACTGATT-GGCACTTTGTGTGTCGAATATTGTTAC
**
12189721 TGTTACCATTACCG--A-T--TTGGCACTTTGTGTGTCGAATATTGTTAC
1 TGTTACTGTTACCGTTACTGATTGGCACTTTGTGTGTCGAATATTGTTAC
* * * * * *
12189766 TGTTACCT-TTACTGTTACCGATTTGACACTTTGTGTGTTGAATACTATTAC
1 TGTTA-CTGTTACCGTTACTGA-TTGGCACTTTGTGTGTCGAATATTGTTAC
*
12189817 CGTTACTGTTAC
1 TGTTACTGTTAC
12189829 AAATTCAACA
Statistics
Matches: 90, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
45 37 0.41
46 3 0.03
47 1 0.01
48 1 0.01
49 1 0.01
50 2 0.02
51 45 0.50
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.43
Consensus pattern (50 bp):
TGTTACTGTTACCGTTACTGATTGGCACTTTGTGTGTCGAATATTGTTAC
Found at i:12189823 original size:45 final size:45
Alignment explanation
Indices: 12189639--12189873 Score: 211
Period size: 45 Copynumber: 5.1 Consensus size: 45
12189629 ACTGCTACCA
* *
12189639 TTACCGATTT-AGCACTTTGTGTGTCGAATATTGTTACTGTTACCG
1 TTACCGATTTGA-CACTTTGTGTGTCGAATACTGTTACTGTTACTG
* * * * **
12189684 TTACTGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCA
1 TTACCGATTTGACACTTTGTGTGTCGAATACTGTTACTGTTACTG
* *
12189729 TTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACTGTTACCTTTACTG
1 TTACCGATTTGACACTTTGTGTGTCGAATACTGTTACTG------TTACTG
* * *
12189780 TTACCGATTTGACACTTTGTGTGTTGAATACTATTACCGTTACTG
1 TTACCGATTTGACACTTTGTGTGTCGAATACTGTTACTGTTACTG
** ** * * * *
12189825 TTACAAATTCAACATTTTGTATGTTGAATACCGTTACTGTTACTG
1 TTACCGATTTGACACTTTGTGTGTCGAATACTGTTACTGTTACTG
12189870 TTAC
1 TTAC
12189874 TGCTACCATT
Statistics
Matches: 161, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
45 123 0.76
51 38 0.24
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (45 bp):
TTACCGATTTGACACTTTGTGTGTCGAATACTGTTACTGTTACTG
Found at i:12189844 original size:96 final size:91
Alignment explanation
Indices: 12189651--12189880 Score: 214
Period size: 96 Copynumber: 2.5 Consensus size: 91
12189641 ACCGATTTAG
*
12189651 CACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACTGATT--CGGCACTTTGTGTGTCGAATA
1 CACTTTGTGTGTCGAATATTGTTACTGTTACCTTTACTG-TTACCGGCACTTTGTGTGTCGAATA
* * * ** ***
12189714 TTGTTACTGTTACCATTACCGATTTGG
65 CTATTACCGTTACCATTACAAATTCAA
*
12189741 CACTTTGTGTGTCGAATATTGTTACTGTTACCTTTACTGTTACCGATTTGACACTTTGTGTGTTG
1 CACTTTGTGTGTCGAATATTGTTACTGTTACCTTTACTGTTACCG----G-CACTTTGTGTGTCG
**
12189806 AATACTATTACCGTTACTGTTACAAATTCAA
61 AATACTATTACCGTTACCATTACAAATTCAA
* * * ** *
12189837 CATTTTGTATGTTGAATACCGTTACTGTTA-CTGTTACTGCTACC
1 CACTTTGTGTGTCGAATATTGTTACTGTTACCT-TTACTGTTACC
12189881 ATTACTGATT
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
89 2 0.02
90 38 0.33
91 2 0.02
95 3 0.03
96 69 0.61
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (91 bp):
CACTTTGTGTGTCGAATATTGTTACTGTTACCTTTACTGTTACCGGCACTTTGTGTGTCGAATAC
TATTACCGTTACCATTACAAATTCAA
Found at i:12190284 original size:26 final size:25
Alignment explanation
Indices: 12190227--12190285 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
12190217 AAGTATGAAA
**
12190227 AAGTGAAATTATGAATTGAAATGTG
1 AAGTGAAATTATGAATTGAAATAAG
*
12190252 AATTGAAATTGAT-ATATTGAAATAAG
1 AAGTGAAATT-ATGA-ATTGAAATAAG
12190278 AAGTGAAA
1 AAGTGAAA
12190286 ATAGAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (25 bp):
AAGTGAAATTATGAATTGAAATAAG
Found at i:12202175 original size:2 final size:2
Alignment explanation
Indices: 12202168--12202214 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
12202158 TAAATTAAAG
* * * *
12202168 AT AT AT AT AT AT AT AT AG AT AT AG AT AT AG AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12202210 AT AT A
1 AT AT A
12202215 AACAACTCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (2 bp):
AT
Found at i:12206288 original size:10 final size:10
Alignment explanation
Indices: 12206275--12206323 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
12206265 TACAACATAA
*
12206275 CAGAACAGAG
1 CAGAACAAAG
12206285 CAGAACAAAG
1 CAGAACAAAG
*
12206295 CAGAGCAGAA-
1 CAGAACA-AAG
*
12206305 TAGAACAAAG
1 CAGAACAAAG
12206315 CAGAACAAA
1 CAGAACAAA
12206324 ACAACAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.57, C:0.18, G:0.22, T:0.02
Consensus pattern (10 bp):
CAGAACAAAG
Found at i:12206298 original size:15 final size:14
Alignment explanation
Indices: 12206273--12206323 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
12206263 AGTACAACAT
12206273 AACAGAACAGAGCAG
1 AACA-AACAGAGCAG
12206288 AACAAAGCAGAGCAG
1 AACAAA-CAGAGCAG
* *
12206303 AATAGAACAAAGCAG
1 AACA-AACAGAGCAG
12206318 AACAAA
1 AACAAA
12206324 ACAACAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 4 0.13
15 25 0.81
16 2 0.06
ACGTcount: A:0.59, C:0.18, G:0.22, T:0.02
Consensus pattern (14 bp):
AACAAACAGAGCAG
Found at i:12206298 original size:20 final size:20
Alignment explanation
Indices: 12206275--12206326 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
12206265 TACAACATAA
*
12206275 CAGAACAGAGCAGAACAAAG
1 CAGAACAGAACAGAACAAAG
* *
12206295 CAGAGCAGAATAGAACAAAG
1 CAGAACAGAACAGAACAAAG
*
12206315 CAGAACAAAACA
1 CAGAACAGAACA
12206327 ACAAATATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.58, C:0.19, G:0.21, T:0.02
Consensus pattern (20 bp):
CAGAACAGAACAGAACAAAG
Found at i:12211997 original size:91 final size:88
Alignment explanation
Indices: 12211835--12212026 Score: 197
Period size: 91 Copynumber: 2.1 Consensus size: 88
12211825 AAAATTGGTT
* * * * * *
12211835 GTTTATCCACAAATTACTGACAACTTTTATCTGTAAAATCATTGTGTTTTCACAACTACTGGCAG
1 GTTTATCCACAAATTACTGACAACTATTATCTGCAAAACCATTGTGTATTCACAACTACCGGCAA
12211900 CATATTAACC-TACAAGCACTCATG
66 CATATTAACCAT-CAA-CACTCATG
* * * * *
12211924 GTTTATCCACAACTTATACTGACAACTATTATCTGCAAACCCGTTGTGTATTCACAGCTACCGGT
1 GTTTATCCACAA-AT-TACTGACAACTATTATCTGCAAAACCATTGTGTATTCACAACTACCGGC
** **
12211989 AATGTATTAACCATCAACACTGGTG
64 AACATATTAACCATCAACACTCATG
*
12212014 GATTATCCACAAA
1 GTTTATCCACAAA
12212027 CTGGAGTCTT
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
89 12 0.14
90 18 0.22
91 52 0.63
92 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (88 bp):
GTTTATCCACAAATTACTGACAACTATTATCTGCAAAACCATTGTGTATTCACAACTACCGGCAA
CATATTAACCATCAACACTCATG
Found at i:12212149 original size:32 final size:32
Alignment explanation
Indices: 12212108--12212171 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
12212098 TATACTTTTA
12212108 AACTAAAATTGCTAATTATATTGCATCATCAC
1 AACTAAAATTGCTAATTATATTGCATCATCAC
*
12212140 AACTAAAATTTCTAATTATATTGCATCATCAC
1 AACTAAAATTGCTAATTATATTGCATCATCAC
12212172 GCATAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.36
Consensus pattern (32 bp):
AACTAAAATTGCTAATTATATTGCATCATCAC
Found at i:12213877 original size:51 final size:51
Alignment explanation
Indices: 12213801--12213902 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
12213791 GAAAGAGTTA
12213801 ACTAAAAGTAGATTGATTTTAATGAATAGAAGAAACCAAGTTTTCAACATT
1 ACTAAAAGTAGATTGATTTTAATGAATAGAAGAAACCAAGTTTTCAACATT
12213852 ACTAAAAGTAGATTGATTTTAATGAATAGAAGAAACCAAGTTTTCAACATT
1 ACTAAAAGTAGATTGATTTTAATGAATAGAAGAAACCAAGTTTTCAACATT
12213903 CTTTCTTTAT
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:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (51 bp):
ACTAAAAGTAGATTGATTTTAATGAATAGAAGAAACCAAGTTTTCAACATT
Found at i:12217266 original size:27 final size:27
Alignment explanation
Indices: 12217236--12217318 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
12217226 AAAATTATGA
* * *
12217236 AAGAATAATCTTTATGGCGAATCCTGC
1 AAGAATCACCTTTGTGGCGAATCCTGC
* * ** *
12217263 AAGAATCACCTTTGTTGTGAATTATGA
1 AAGAATCACCTTTGTGGCGAATCCTGC
12217290 AAGAATCACCTTTGTGGCGAATCCTGC
1 AAGAATCACCTTTGTGGCGAATCCTGC
12217317 AA
1 AA
12217319 TAGAAGCCTT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (27 bp):
AAGAATCACCTTTGTGGCGAATCCTGC
Found at i:12222007 original size:30 final size:30
Alignment explanation
Indices: 12221966--12222022 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
12221956 GAGTTTTCAG
12221966 GATCCACACGGGCAGGCCACACGCCCACGT
1 GATCCACACGGGCAGGCCACACGCCCACGT
* * *
12221996 GATCCATACGGGTAGGCCAGACGCCCA
1 GATCCACACGGGCAGGCCACACGCCCA
12222023 TGTGCTAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.39, G:0.28, T:0.09
Consensus pattern (30 bp):
GATCCACACGGGCAGGCCACACGCCCACGT
Found at i:12229827 original size:19 final size:19
Alignment explanation
Indices: 12229796--12229857 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
12229786 AAAAATATAA
12229796 ATTTTAGAATTTTTATAAAT
1 ATTTTA-AATTTTTATAAAT
*
12229816 ATTTTAAATTTTTAAAAATT
1 ATTTTAAATTTTTATAAA-T
12229836 ATTTT-AATTTTT-TAAAT
1 ATTTTAAATTTTTATAAAT
12229853 -TTTTA
1 ATTTTA
12229858 TTCAGAGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.11
17 1 0.03
18 3 0.08
19 18 0.47
20 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTAAATTTTTATAAAT
Found at i:12235690 original size:23 final size:23
Alignment explanation
Indices: 12235661--12235709 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
12235651 TGGCTCATTT
* *
12235661 TTTTTTAATTTTTTAATATATTA
1 TTTTTTAATTTTATAATATATAA
*
12235684 TTTTTTAATTTTATATTATATAA
1 TTTTTTAATTTTATAATATATAA
12235707 TTT
1 TTT
12235710 ATATCATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTTTAATTTTATAATATATAA
Found at i:12236020 original size:17 final size:16
Alignment explanation
Indices: 12236000--12236031 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12235990 ATTACTAGAT
12236000 ATTAAATAATATATATA
1 ATTAAATAATA-ATATA
12236017 ATTAAATAATAATAT
1 ATTAAATAATAATAT
12236032 GGATATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAAATAATAATATA
Found at i:12236029 original size:20 final size:21
Alignment explanation
Indices: 12236004--12236045 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
12235994 CTAGATATTA
12236004 AATAATAT-ATATAATTAAAT
1 AATAATATGATATAATTAAAT
*
12236024 AATAATATGGATATATTTAAAT
1 AATAATAT-GATATAATTAAAT
12236046 CGATTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AATAATATGATATAATTAAAT
Found at i:12241106 original size:17 final size:14
Alignment explanation
Indices: 12241077--12241116 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 14
12241067 AGACACTTTA
12241077 ATAAAAAAACATACC
1 ATAAAAAAACATA-C
12241092 ATAAAAAACATCATAC
1 ATAAAAAA-A-CATAC
12241108 ATAAAAAAA
1 ATAAAAAAA
12241117 GTATCATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 10 0.43
17 4 0.17
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (14 bp):
ATAAAAAAACATAC
Found at i:12242812 original size:19 final size:19
Alignment explanation
Indices: 12242788--12242829 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
12242778 ATTTTAAATA
12242788 TATTTAGGTAGATAAATTT
1 TATTTAGGTAGATAAATTT
*
12242807 TATTTAGGTAGATAAGTTT
1 TATTTAGGTAGATAAATTT
12242826 TATT
1 TATT
12242830 CATATTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (19 bp):
TATTTAGGTAGATAAATTT
Found at i:12242933 original size:42 final size:41
Alignment explanation
Indices: 12242839--12242933 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 41
12242829 TCATATTCTA
* *
12242839 GGAATATTTTATTTTATCTTTTAGTAGTTTATTAGAATAAG
1 GGAATATTTTCTCTTATCTTTTAGTAGTTTATTAGAATAAG
*
12242880 GGAACTATTTTCTCTTATGTTTTAGTAGTTTATTAGAATAAG
1 GGAA-TATTTTCTCTTATCTTTTAGTAGTTTATTAGAATAAG
12242922 GGAATTATTTTC
1 GGAA-TATTTTC
12242934 CCAATTAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 4 0.08
42 45 0.92
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.49
Consensus pattern (41 bp):
GGAATATTTTCTCTTATCTTTTAGTAGTTTATTAGAATAAG
Found at i:12244074 original size:30 final size:30
Alignment explanation
Indices: 12244040--12244101 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
12244030 TTCACTAAGG
12244040 AACAATTAGAGCATTTACACAAGTTTTTTC
1 AACAATTAGAGCATTTACACAAGTTTTTTC
12244070 AACAATTAGAGCATTTACACAAGTTTTTTC
1 AACAATTAGAGCATTTACACAAGTTTTTTC
12244100 AA
1 AA
12244102 TCGCTACAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (30 bp):
AACAATTAGAGCATTTACACAAGTTTTTTC
Found at i:12247389 original size:19 final size:19
Alignment explanation
Indices: 12247343--12247390 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
12247333 GTATATATTT
12247343 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
12247361 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
12247380 TAAGTTTTATT
1 TAAATTTTATT
12247391 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:12250428 original size:10 final size:10
Alignment explanation
Indices: 12250413--12250440 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
12250403 GAGGAGGAGG
12250413 AAAATATACA
1 AAAATATACA
12250423 AAAATATACA
1 AAAATATACA
12250433 AAAATATA
1 AAAATATA
12250441 TGAATGACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATATACA
Found at i:12250647 original size:14 final size:15
Alignment explanation
Indices: 12250620--12250648 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12250610 AATTTTATGA
12250620 ATTTCATGATGTATT
1 ATTTCATGATGTATT
12250635 ATTTCAT-ATGTATT
1 ATTTCATGATGTATT
12250649 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTATT
Found at i:12250856 original size:31 final size:31
Alignment explanation
Indices: 12250818--12250991 Score: 269
Period size: 31 Copynumber: 5.6 Consensus size: 31
12250808 ACAAATGACA
*
12250818 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
12250849 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
12250880 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
12250911 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
12250942 AGTGAAAAATGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
12250973 AGTGAATAGTGGTAGCTTC
1 AGTGAAAAGTGGTAGCTTC
12250992 TACTACAAGT
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
30 2 0.02
31 130 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:12251085 original size:47 final size:48
Alignment explanation
Indices: 12251015--12251140 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 48
12251005 AAGTGATTTC
*
12251015 CGTATAAGACCATATCTGGGATATGGCATCGATGTGATATATGCT-ACT
1 CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATG-TGACT
* *
12251063 -GTATAAGACCATATCTGGGATATGGAATC-A-GTGAGATATGTGATT
1 CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGACT
* * * *
12251108 CGTGTAAGACCATAGCTAGGCTATGGCATCGAT
1 CGTATAAGACCATATCTGGGATATGGCATCGAT
12251141 ATATGAATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
44 1 0.02
45 11 0.17
46 25 0.38
47 29 0.44
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (48 bp):
CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGACT
Found at i:12251133 original size:46 final size:43
Alignment explanation
Indices: 12251066--12251225 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 43
12251056 TGCTACTGTA
* * * *
12251066 TAAGACCATATCTGGGATATGGAATCAGTGAGATATGTGAT-TCGTG
1 TAAGACCATAGCTGGGCTATGGCATCA--GAGATATG-AATAT-GTG
* *
12251112 TAAGACCATAGCTAGGCTATGGCATC-GATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
** * *
12251154 TAAGACCATAGCTGGGCTATGGCATCA-TTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
* **
12251196 TAAGACCATAGTTGAACTATGGCATC-GAGA
1 TAAGACCATAGCTGGGCTATGGCATCAGAGA
12251226 AAACGAAGTA
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
42 66 0.69
43 8 0.08
46 22 0.23
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
Found at i:12251165 original size:42 final size:43
Alignment explanation
Indices: 12251109--12251223 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
12251099 TATGTGATTC
*
12251109 GTGTAAGACCATAGCTAGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* *
12251151 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* *
12251193 GTGTAAGACCATAG-TTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTAG-GCTATGGCATCGA
12251224 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 61 0.94
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
Found at i:12256224 original size:2 final size:2
Alignment explanation
Indices: 12256217--12256242 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12256207 CTCCAATGCC
12256217 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
12256243 TATGGGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12260422 original size:56 final size:56
Alignment explanation
Indices: 12260358--12260464 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
12260348 ATTTGGCTTC
*
12260358 TGAGCATGAAAGGTATGCAAGTCTTTTTAATTATTTCTTCTACCTGCTTTAAATGT
1 TGAGCATGAAAGGTATGCAAGTCTTTCTAATTATTTCTTCTACCTGCTTTAAATGT
*
12260414 TGAGCATGAAAGGTATGCAAGTCTTTCTAATTGTTTCTTCTACCTGCTTTA
1 TGAGCATGAAAGGTATGCAAGTCTTTCTAATTATTTCTTCTACCTGCTTTA
12260465 TGTGGATGCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (56 bp):
TGAGCATGAAAGGTATGCAAGTCTTTCTAATTATTTCTTCTACCTGCTTTAAATGT
Found at i:12265400 original size:13 final size:14
Alignment explanation
Indices: 12265366--12265414 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
12265356 AAATAGGGTC
* *
12265366 TATTTTATTTTGGT
1 TATTTTAATTTAGT
12265380 TATTTTAATTTA-T
1 TATTTTAATTTAGT
*
12265393 TTTTTTAATTTAGT
1 TATTTTAATTTAGT
12265407 TATTTTAA
1 TATTTTAA
12265415 ATAAAATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (14 bp):
TATTTTAATTTAGT
Found at i:12266195 original size:16 final size:16
Alignment explanation
Indices: 12266136--12266197 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
12266126 TTTGGTTCAC
* *
12266136 TGTAATAGAATAGGGC
1 TGTAATAGAATAGAGT
* *
12266152 TGTAATTGAGTAGAGT
1 TGTAATAGAATAGAGT
*
12266168 TGTAAT-GAAATAAAGT
1 TGTAATAG-AATAGAGT
12266184 TGTAATAGAATAGA
1 TGTAATAGAATAGA
12266198 AACTGTAATC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
15 1 0.03
16 35 0.95
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.26, T:0.31
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:12266521 original size:58 final size:58
Alignment explanation
Indices: 12266395--12266528 Score: 150
Period size: 58 Copynumber: 2.3 Consensus size: 58
12266385 TATATTTAAT
* *
12266395 AAAAATAATAATAAATAATTTAATTATATTTTAACATAATTATTATTAAATACAATTTA
1 AAAAAT-ATAATATATAATTTAATAATATTTTAACATAATTATTATTAAATACAATTTA
* * * *
12266454 ATAGA-ATAATATATAATTTAATAATATTTTTAATATAATTATTA-T-AATATGAA-TTA
1 AAAAATATAATATATAATTTAATAATA-TTTTAACATAATTATTATTAAATA-CAATTTA
12266510 AAAAATCATAATATATAAT
1 AAAAAT-ATAATATATAAT
12266529 ATTATAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
56 10 0.16
57 22 0.35
58 28 0.44
59 3 0.05
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (58 bp):
AAAAATATAATATATAATTTAATAATATTTTAACATAATTATTATTAAATACAATTTA
Found at i:12275149 original size:16 final size:16
Alignment explanation
Indices: 12275128--12275159 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12275118 ATTCACATGT
12275128 TAGAAACAAATCGGGA
1 TAGAAACAAATCGGGA
12275144 TAGAAACAAATCGGGA
1 TAGAAACAAATCGGGA
12275160 CTTAATCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.25, T:0.12
Consensus pattern (16 bp):
TAGAAACAAATCGGGA
Found at i:12281786 original size:48 final size:48
Alignment explanation
Indices: 12281729--12281849 Score: 147
Period size: 48 Copynumber: 2.5 Consensus size: 48
12281719 AAATGATATT
** *
12281729 CTGTGTAAGATTATGTCTGAGACAT-AGCATCGACAATGATATATTTAC
1 CTGTGTAAGACCATGTCTGAGACATGA-CATCGACAATGATATATGTAC
* *
12281777 CTGTGTAAGACCATGTCTGGGACATGACATCGACAATGGTATATGTAC
1 CTGTGTAAGACCATGTCTGAGACATGACATCGACAATGATATATGTAC
* *
12281825 CTGTGTAA-ACCCATGTATGGGACAT
1 CTGTGTAAGA-CCATGTCTGAGACAT
12281850 AGCATGGCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 1 0.02
48 63 0.97
49 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (48 bp):
CTGTGTAAGACCATGTCTGAGACATGACATCGACAATGATATATGTAC
Found at i:12283122 original size:29 final size:29
Alignment explanation
Indices: 12283039--12283125 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
12283029 AAGGGAAACA
* *
12283039 CAAGCTTGTCCTTATGTTCACACGAACAT
1 CAAGCTTGTCCTTACGTTCACACGAGCAT
12283068 CAAGCTTGTCCTTACGTTCACACGAGCAT
1 CAAGCTTGTCCTTACGTTCACACGAGCAT
*
12283097 CAAGCTTGTCCTTACGCTCACACGAGCAT
1 CAAGCTTGTCCTTACGTTCACACGAGCAT
12283126 GTGACGCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
CAAGCTTGTCCTTACGTTCACACGAGCAT
Found at i:12285920 original size:11 final size:11
Alignment explanation
Indices: 12285906--12285932 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12285896 TTTGTTTTTT
12285906 ATATTAAAAAA
1 ATATTAAAAAA
12285917 ATATTAAAAAA
1 ATATTAAAAAA
12285928 ATATT
1 ATATT
12285933 TTCGGGTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATTAAAAAA
Found at i:12286033 original size:27 final size:27
Alignment explanation
Indices: 12286013--12286084 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
12286003 GCCTTTCTCT
12286013 GAGGCGCAAATGATTGTGCCTACCTCA
1 GAGGCGCAAATGATTGTGCCTACCTCA
*
12286040 AAGGCGCAAATGATTGTGCCTACCTCA
1 GAGGCGCAAATGATTGTGCCTACCTCA
*
12286067 GAGGCGCAAATGGTTGTG
1 GAGGCGCAAATGATTGTG
12286085 GTGGAGCCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (27 bp):
GAGGCGCAAATGATTGTGCCTACCTCA
Found at i:12286315 original size:36 final size:30
Alignment explanation
Indices: 12286242--12286304 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
12286232 GCTCCTATAA
*
12286242 TTGGTGAATACAATATCAATATTTTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
12286272 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
12286302 TTG
1 TTG
12286305 TAGCAGGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (30 bp):
TTGGTGAATACAATATCAATATTCTAAATT
Found at i:12286901 original size:12 final size:12
Alignment explanation
Indices: 12286884--12286908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12286874 GCTCGATTCC
12286884 TTTTTACCCGTA
1 TTTTTACCCGTA
12286896 TTTTTACCCGTA
1 TTTTTACCCGTA
12286908 T
1 T
12286909 ATATATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTTACCCGTA
Found at i:12286947 original size:26 final size:26
Alignment explanation
Indices: 12286918--12286968 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
12286908 TATATATTTA
*
12286918 AATATTTT-TAATAAAAATAAAAAAAT
1 AATATTTTAT-ATAAAAACAAAAAAAT
*
12286944 AATATTTTATTTAAAAACAAAAAAA
1 AATATTTTATATAAAAACAAAAAAA
12286969 AAAAGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
AATATTTTATATAAAAACAAAAAAAT
Found at i:12286979 original size:29 final size:31
Alignment explanation
Indices: 12286931--12286988 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
12286921 ATTTTTAATA
* * *
12286931 AAAATAAAAAAATAATATTTTATTTAAAAAC
1 AAAATAAAAAAAGAATATTTAATATAAAAAC
12286962 AAAA-AAAAAAAGAA-ATTTAATATAAAA
1 AAAATAAAAAAAGAATATTTAATATAAAA
12286989 TAATCATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.46
30 9 0.38
31 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (31 bp):
AAAATAAAAAAAGAATATTTAATATAAAAAC
Found at i:12287212 original size:22 final size:23
Alignment explanation
Indices: 12287172--12287217 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
12287162 CTTCTAGATA
*
12287172 TTTCTTTGTTTATTATTTTATTT
1 TTTCGTTGTTTATTATTTTATTT
12287195 TTTCGTTGTTT-TTATTTTATTT
1 TTTCGTTGTTTATTATTTTATTT
12287217 T
1 T
12287218 CCCTCTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (23 bp):
TTTCGTTGTTTATTATTTTATTT
Found at i:12298563 original size:39 final size:39
Alignment explanation
Indices: 12298517--12298598 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
12298507 GCTCTGATGA
12298517 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
* *
12298556 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGTACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
12298595 GCTT
1 GCTT
12298599 TAGCTAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:12298616 original size:39 final size:39
Alignment explanation
Indices: 12298534--12298617 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 39
12298524 TTAGCCTCCG
* * *
12298534 GGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCG
1 GGCTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCA
* * *
12298573 GGCTTCCGTTTAGTACTTATGTGCTTTAGCTAGATTTCA
1 GGCTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCA
12298612 GGCTTC
1 GGCTTC
12298618 AGATCACGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (39 bp):
GGCTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCA
Found at i:12302234 original size:39 final size:39
Alignment explanation
Indices: 12302190--12302478 Score: 322
Period size: 39 Copynumber: 7.4 Consensus size: 39
12302180 TGATGAGCTC
*
12302190 CAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGTGCTT
1 CAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTT
* *
12302229 CAGTTAGCCTTCGGGCTTTCGTTTAGCACTTGTGTGCTT
1 CAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTT
*
12302268 CAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTT
1 CAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTT
* *
12302307 CAGTTAGCC-T---GCTTCAG-TTAGC-CTT-TGGGCTT
1 CAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTT
* *
12302339 CCGTTTAGCACACAGACTTCGGCCTTCCGTTTAGCACTTATGTGCTT
1 CAG-TTAG----C---CTTCGGGCTTCCGTTTAGCACTTATGTGCTT
* *
12302386 CAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGTGCTT
1 CAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTT
* * *
12302425 CAGTTAGCCTTCGGGCTTCCGTTTAGTAGTTATGTACTT
1 CAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTT
* *
12302464 CAGCTAGACTTCGGG
1 CAGTTAGCCTTCGGG
12302479 TTTCAAATCA
Statistics
Matches: 214, Mismatches: 21, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
32 8 0.04
33 7 0.03
34 5 0.02
35 6 0.03
37 1 0.00
38 1 0.00
39 158 0.74
40 1 0.00
41 1 0.00
42 1 0.00
44 5 0.02
45 5 0.02
46 7 0.03
47 8 0.04
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (39 bp):
CAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTT
Found at i:12302321 original size:14 final size:14
Alignment explanation
Indices: 12302302--12302330 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12302292 AGCACTTGTG
12302302 TGCTTCAGTTAGCC
1 TGCTTCAGTTAGCC
12302316 TGCTTCAGTTAGCC
1 TGCTTCAGTTAGCC
12302330 T
1 T
12302331 TTGGGCTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.38
Consensus pattern (14 bp):
TGCTTCAGTTAGCC
Found at i:12303214 original size:19 final size:19
Alignment explanation
Indices: 12303187--12303253 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
12303177 ACATATGTAT
12303187 GAAAGTTTTTAATTTAGAA
1 GAAAGTTTTTAATTTAGAA
** *
12303206 GAAA-TTTTTAAACATATGTAT
1 GAAAGTTTTT-AATTTA-G-AA
12303227 GAAAGTTTTTAATTTAGAA
1 GAAAGTTTTTAATTTAGAA
12303246 GAAA-TTTT
1 GAAAGTTTT
12303254 ATGGCTGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 9 0.24
19 13 0.34
20 2 0.05
21 9 0.24
22 5 0.13
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.43
Consensus pattern (19 bp):
GAAAGTTTTTAATTTAGAA
Found at i:12303217 original size:40 final size:40
Alignment explanation
Indices: 12303173--12303253 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
12303163 TAAAAGGACG
12303173 TTAAACATATGTATGAAAGTTTTTAATTTAGAAGAAATTT
1 TTAAACATATGTATGAAAGTTTTTAATTTAGAAGAAATTT
12303213 TTAAACATATGTATGAAAGTTTTTAATTTAGAAGAAATTT
1 TTAAACATATGTATGAAAGTTTTTAATTTAGAAGAAATTT
12303253 T
1 T
12303254 ATGGCTGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.43
Consensus pattern (40 bp):
TTAAACATATGTATGAAAGTTTTTAATTTAGAAGAAATTT
Found at i:12303235 original size:21 final size:21
Alignment explanation
Indices: 12303173--12303235 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
12303163 TAAAAGGACG
12303173 TTAAACATATGTATGAAAGTT
1 TTAAACATATGTATGAAAGTT
* ** * *
12303194 TTTAATTTA-G-AAGAAATTT
1 TTAAACATATGTATGAAAGTT
12303213 TTAAACATATGTATGAAAGTT
1 TTAAACATATGTATGAAAGTT
12303234 TT
1 TT
12303236 TAATTTAGAA
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 13 0.43
20 2 0.07
21 15 0.50
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (21 bp):
TTAAACATATGTATGAAAGTT
Found at i:12304802 original size:20 final size:20
Alignment explanation
Indices: 12304715--12304802 Score: 81
Period size: 20 Copynumber: 4.3 Consensus size: 20
12304705 TATGTCAATA
* * *
12304715 TTTAATTAATTTTTTTA-AT
1 TTTAAATAATTTTTATATTT
*
12304734 TTTAAA-AATATTTTATACTT
1 TTTAAATAAT-TTTTATATTT
*
12304754 TTTAAATAATTTTAATGATTT
1 TTTAAATAATTTTTAT-ATTT
*
12304775 TTAAAAATAATTTTTATATTT
1 TT-TAAATAATTTTTATATTT
12304796 TTTAAAT
1 TTTAAAT
12304803 TTTTAAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
18 3 0.05
19 11 0.20
20 16 0.29
21 14 0.25
22 12 0.21
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TTTAAATAATTTTTATATTT
Found at i:12304807 original size:40 final size:40
Alignment explanation
Indices: 12304731--12304825 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
12304721 TAATTTTTTT
*
12304731 AATTTTAAAAAT-A-TTTTATACTTTTTAAATAATTTTAATG
1 AATTTTAAAAATAATTTTTATACTTTTTAAAT-ATTTTAA-A
* *
12304771 ATTTTTAAAAATAATTTTTATATTTTTTAAAT-TTTTAAA
1 AATTTTAAAAATAATTTTTATACTTTTTAAATATTTTAAA
*
12304810 AATTTTAAAATTAATT
1 AATTTTAAAAATAATT
12304826 AAATATTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
39 14 0.29
40 17 0.35
41 1 0.02
42 16 0.33
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (40 bp):
AATTTTAAAAATAATTTTTATACTTTTTAAATATTTTAAA
Found at i:12305304 original size:22 final size:22
Alignment explanation
Indices: 12305262--12305313 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
12305252 TTATTTCATG
*
12305262 ATTTTAATATTATTAATATAAT
1 ATTTTAATATTATTAACATAAT
*
12305284 ATTTT-ATATTATTTTACATAAT
1 ATTTTAATATTA-TTAACATAAT
*
12305306 -TTTGAATA
1 ATTTTAATA
12305314 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTTAATATTATTAACATAAT
Found at i:12319966 original size:9 final size:9
Alignment explanation
Indices: 12319952--12319991 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
12319942 TTGAATTTTG
12319952 TAATTCGAA
1 TAATTCGAA
12319961 TAATTCGAA
1 TAATTCGAA
* *
12319970 CAACTCGAA
1 TAATTCGAA
*
12319979 TAATTCAAA
1 TAATTCGAA
12319988 TAAT
1 TAAT
12319992 AAATTAGTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (9 bp):
TAATTCGAA
Found at i:12320165 original size:21 final size:20
Alignment explanation
Indices: 12320130--12320173 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
12320120 AAAGAAATTT
*
12320130 TAAAAAAATTCTAAAGAATATA
1 TAAAAAAAGTCTAAA-AATA-A
12320152 TAAAAAAAGT-TAAAAATAA
1 TAAAAAAAGTCTAAAAATAA
12320171 TAA
1 TAA
12320174 TTTTGGAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 4 0.19
21 4 0.19
22 9 0.43
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (20 bp):
TAAAAAAAGTCTAAAAATAA
Found at i:12322334 original size:16 final size:16
Alignment explanation
Indices: 12322313--12322367 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
12322303 GTTTGGTTCA
12322313 CTGTAATAGAATAAGG
1 CTGTAATAGAATAAGG
*
12322329 CTGTAATTA-AATAGGG
1 CTGTAA-TAGAATAAGG
* *
12322345 TTGTAATTGAAT-AGAG
1 CTGTAATAGAATAAG-G
12322361 CTGTAAT
1 CTGTAAT
12322368 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 2 0.06
16 27 0.87
17 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (16 bp):
CTGTAATAGAATAAGG
Found at i:12323624 original size:22 final size:22
Alignment explanation
Indices: 12323599--12323643 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12323589 TTTAATAAAA
12323599 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
12323621 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
12323643 A
1 A
12323644 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:12328202 original size:22 final size:22
Alignment explanation
Indices: 12328177--12328221 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12328167 ATTTTAATAA
12328177 AAAAAATCTACAAAATATTCCT
1 AAAAAATCTACAAAATATTCCT
* * *
12328199 AAAATATTTACAGAATATTCCT
1 AAAAAATCTACAAAATATTCCT
12328221 A
1 A
12328222 CAGAAAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATCTACAAAATATTCCT
Found at i:12328827 original size:54 final size:54
Alignment explanation
Indices: 12328763--12328872 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
12328753 ATCCTGATAA
*
12328763 CCAAAAAGTACCAATCAAGCTTGCTTAAGTTTCTGTTTAGTATTGACCTTAGAG
1 CCAAAAAGTACCAATCAAGCTTGCTTAAGTTTCTGTTTAGCATTGACCTTAGAG
12328817 CCAAAAAGTACCAATCAAGCTTGCTTAAGTTTCTGTTTAGCATTGACCTTAGAG
1 CCAAAAAGTACCAATCAAGCTTGCTTAAGTTTCTGTTTAGCATTGACCTTAGAG
12328871 CC
1 CC
12328873 TTACACATTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (54 bp):
CCAAAAAGTACCAATCAAGCTTGCTTAAGTTTCTGTTTAGCATTGACCTTAGAG
Found at i:12330973 original size:174 final size:174
Alignment explanation
Indices: 12330689--12331365 Score: 874
Period size: 174 Copynumber: 3.9 Consensus size: 174
12330679 GCTGGCTCAA
* * * * * * *
12330689 AGGACACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGAAGAAG-AGTCTTTTCTCTTATG
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCTTGAATTTGGAGAGGCAGT-TGTCCTCTGA-G
* ** * *
12330753 AGAAAAACCAGTGCTTGAATGAGCCTTTGAACTTGTTTCCGGAAGATCTTCATCAGAACCACTGT
64 A-AAAAACCA-TGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTAT
* * *
12330818 TTCCTGGACCTAAATATGGCATGGGGTCAGAAACTACCTTTGATTCAG
127 TTCCTGGACCAAAATATGGCATGGGGTCAGAAACTAGCTTCGATTCAG
*
12330866 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCTTGCATTTGGAGAGGCAGTTGTCCTCTGAGAA
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCTTGAATTTGGAGAGGCAGTTGTCCTCTGAGAA
* *
12330931 AAAATCATGCTTGAACGAGTCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
66 AAAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
* *
12330996 TGGACCAAAATGTGGCATGGGGTCAAAAACTAGCTTCGATTCAG
131 TGGACCAAAATATGGCATGGGGTCAGAAACTAGCTTCGATTCAG
* * *
12331040 AGGAAACTGTAGTTTTAAGAGTGGAACCT-TTTTGTGCATTTGGAGAGGCAGTTGTCCTATGAGA
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCT-TGAATTTGGAGAGGCAGTTGTCCTCTGAGA
***
12331104 AAAAATTGTGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTC
65 AAAAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTC
* * * * *
12331169 CTGGACCAAAATATGGTATGGGGTTAGAAACTAGCGTCAATTCGG
130 CTGGACCAAAATATGGCATGGGGTCAGAAACTAGCTTCGATTCAG
* * * * * * *
12331214 AGGAAACTGTAGCTTTAAGAGTGGAACCTTTTCCTGAATTCGGGGAGGCAGTTGTCTTGTGAG-A
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCTTGAATTTGGAGAGGCAGTTGTCCTCTGAGAA
* * * * *
12331278 AAAACCAATGCTTGAATGAACCTTTGAACGTGTTTTAGGAAGTTCTTCATCGGAATCACTATTTC
66 AAAACC-ATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTC
* *
12331343 CTGAATCAAAATATGGCATGGGG
130 CTGGACCAAAATATGGCATGGGG
12331366 ACCCTTGAGG
Statistics
Matches: 445, Mismatches: 51, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
173 8 0.02
174 373 0.84
175 9 0.02
176 2 0.00
177 50 0.11
178 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (174 bp):
AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCTTGAATTTGGAGAGGCAGTTGTCCTCTGAGAA
AAAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
TGGACCAAAATATGGCATGGGGTCAGAAACTAGCTTCGATTCAG
Found at i:12332217 original size:24 final size:24
Alignment explanation
Indices: 12332190--12332241 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
12332180 AAGTACCTTC
12332190 ATCATCAAAAACTGCTGAGGCATT
1 ATCATCAAAAACTGCTGAGGCATT
12332214 ATCATCAAAAACTGCTGAGGCATT
1 ATCATCAAAAACTGCTGAGGCATT
12332238 ATCA
1 ATCA
12332242 CAAGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (24 bp):
ATCATCAAAAACTGCTGAGGCATT
Found at i:12340415 original size:101 final size:101
Alignment explanation
Indices: 12340229--12340421 Score: 287
Period size: 101 Copynumber: 1.9 Consensus size: 101
12340219 TATATTAGTT
* * *
12340229 TTTAATGTCATATATGTTACATGTAAGAACATAAAACGTCCCAATCCATCATTGAAGTAGAAAGT
1 TTTAATATCATATATGTTACATGTAAGAACATAAAACATCCCAATCCATCATTAAAGTAGAAAGT
* * *
12340294 GCATCCTCTGATGAAGACATTTCCATGACATATGTG
66 GCATCCTCTAATAAAAACATTTCCATGACATATGTG
* * * * *
12340330 TTTAATATCATATGTGTTGCGTGTAAGAACATGAAATATCCCAATCCATCATTAAAGTAGAAAGT
1 TTTAATATCATATATGTTACATGTAAGAACATAAAACATCCCAATCCATCATTAAAGTAGAAAGT
12340395 GCATCCTCTAATAAAAACATTTCCATG
66 GCATCCTCTAATAAAAACATTTCCATG
12340422 GCATGCTCGA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 81 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (101 bp):
TTTAATATCATATATGTTACATGTAAGAACATAAAACATCCCAATCCATCATTAAAGTAGAAAGT
GCATCCTCTAATAAAAACATTTCCATGACATATGTG
Found at i:12344939 original size:23 final size:23
Alignment explanation
Indices: 12344861--12344949 Score: 98
Period size: 21 Copynumber: 4.1 Consensus size: 23
12344851 TACCTGATTA
12344861 ATATACGACACAT-AAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
** *
12344883 A-A-ACGACACACGAGGTGCCTG
1 ATATACGACACATAAAGTGCCTG
12344904 --ATACGACACATAAAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
* *
12344925 ATATACGATATATAAAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
12344948 AT
1 AT
12344950 CGGCAAAGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.16
21 25 0.45
22 1 0.02
23 21 0.38
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (23 bp):
ATATACGACACATAAAGTGCCTG
Found at i:12345434 original size:17 final size:18
Alignment explanation
Indices: 12345404--12345437 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12345394 AATTTCTATT
12345404 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
12345422 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
12345438 AATTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:12346532 original size:2 final size:2
Alignment explanation
Indices: 12346525--12346549 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12346515 ACATAAAATA
12346525 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12346550 ATTAAAACAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12360152 original size:46 final size:45
Alignment explanation
Indices: 12360092--12360356 Score: 330
Period size: 46 Copynumber: 6.0 Consensus size: 45
12360082 TTTGACATGA
* * * * * *
12360092 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
12360138 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
12360184 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
12360230 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
12360276 TG-CATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
12360313 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
12360357 AGAGCACACT
Statistics
Matches: 195, Mismatches: 13, Indels: 22
0.85 0.06 0.10
Matches are distributed among these distances:
37 8 0.04
38 25 0.13
40 3 0.02
43 4 0.02
45 29 0.15
46 123 0.63
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:12360324 original size:38 final size:37
Alignment explanation
Indices: 12360270--12360344 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 37
12360260 ACATTTTATA
12360270 TCAGGTTGCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCATGGTATCTTTCAACCATGGTCTTACAC
12360307 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTG-CATGGTATCTTTCAACCATGGTCTTACAC
12360345 ATTTCATATC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 8 0.22
38 29 0.78
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (37 bp):
TCAGGTTGCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:12360342 original size:129 final size:134
Alignment explanation
Indices: 12360092--12360356 Score: 378
Period size: 129 Copynumber: 2.0 Consensus size: 134
12360082 TTTGACATGA
* * * * * *
12360092 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
12360157 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTC-T-TTCA--TCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
12360222 TATCAGGT
127 TATCAGGT
*
12360230 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTG-CATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
* *
12360294 CATGGTC-TT-A-CA-CTCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
66 CATGGTCTTTCATCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
12360355 AG
131 AG
12360357 AGAGCACACT
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
129 49 0.42
130 2 0.02
133 1 0.01
134 2 0.02
137 23 0.19
138 41 0.35
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (134 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTTCATCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
AGGT
Found at i:12362506 original size:11 final size:11
Alignment explanation
Indices: 12362490--12362541 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
12362480 TATACTAAAT
12362490 AAATAATAATA
1 AAATAATAATA
*
12362501 AAATAAT-ATT
1 AAATAATAATA
* *
12362511 AAATATCTCATA
1 AAATA-ATAATA
*
12362523 AAATATTAATA
1 AAATAATAATA
12362534 AAATAATA
1 AAATAATA
12362542 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:12364186 original size:16 final size:16
Alignment explanation
Indices: 12364155--12364191 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12364145 ATGTGAAGAA
12364155 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
12364171 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
12364187 TATTA
1 TATTA
12364192 AAATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:12365570 original size:41 final size:43
Alignment explanation
Indices: 12365514--12365604 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 43
12365504 CCTCGAGTCT
**
12365514 ATGAGGCACTATATGTGTTGTAATATTGCTTCGGA-T-AATTCCG
1 ATGAGGCAC-ATATGTGTCATAATATTGCTTCGGATTAAATT-CG
*
12365557 ATGAGGCAC-TATGTGTCATATTATTGCTTCGGATTAAATTCG
1 ATGAGGCACATATGTGTCATAATATTGCTTCGGATTAAATTCG
12365599 ATGAGG
1 ATGAGG
12365605 TAGTAGGTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 21 0.49
42 9 0.21
43 13 0.30
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (43 bp):
ATGAGGCACATATGTGTCATAATATTGCTTCGGATTAAATTCG
Found at i:12370824 original size:44 final size:44
Alignment explanation
Indices: 12370761--12370848 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
12370751 CTGATATAGT
*
12370761 ACCTTATGGGTACCATTGGACATGATTTGGCGGATCTTGATTTG
1 ACCTTATGGGTACCATTGGACATGATTTGACGGATCTTGATTTG
*
12370805 ACCTTATGGGTACCATTGGACATGATTTGACGGGTCTTGATTTG
1 ACCTTATGGGTACCATTGGACATGATTTGACGGATCTTGATTTG
12370849 TACACCTCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (44 bp):
ACCTTATGGGTACCATTGGACATGATTTGACGGATCTTGATTTG
Found at i:12387351 original size:2 final size:2
Alignment explanation
Indices: 12387344--12387375 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12387334 GTGAATTAGA
12387344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12387376 TTGTCTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12396347 original size:21 final size:21
Alignment explanation
Indices: 12396320--12396371 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
12396310 ACACACGAGG
12396320 TGCCTGATACGACACATAAAA
1 TGCCTGATACGACACATAAAA
* *
12396341 TGTCTGATATACGACACATAAAG
1 TGCCTG--ATACGACACATAAAA
12396364 TGCCTGAT
1 TGCCTGAT
12396372 CGGCAAAGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 7 0.27
23 19 0.73
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (21 bp):
TGCCTGATACGACACATAAAA
Found at i:12396356 original size:23 final size:23
Alignment explanation
Indices: 12396326--12396371 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
12396316 GAGGTGCCTG
*
12396326 ATACGACACATAAAATGTCTGAT
1 ATACGACACATAAAATGCCTGAT
*
12396349 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAATGCCTGAT
12396372 CGGCAAAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (23 bp):
ATACGACACATAAAATGCCTGAT
Found at i:12396835 original size:2 final size:2
Alignment explanation
Indices: 12396830--12396854 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12396820 ACACACACAC
12396830 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12396855 ATTCAATTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12397822 original size:31 final size:32
Alignment explanation
Indices: 12397766--12397828 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
12397756 TACATTTGTC
*
12397766 ATAATTTAATTTATTTATTACATAAAAATCTT
1 ATAATATAATTTATTTATTACATAAAAATCTT
*
12397798 ATAATATAA-TTATTTAATTA-ATAAATATCTT
1 ATAATATAATTTATTT-ATTACATAAAAATCTT
12397829 TTACTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATATAATTTATTTATTACATAAAAATCTT
Found at i:12397836 original size:18 final size:19
Alignment explanation
Indices: 12397808--12397861 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
12397798 ATAATATAAT
12397808 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
12397827 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
12397845 TATTTAA-TAACTAAATA
1 TATTTAATTAA-TAAATA
12397862 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:12401283 original size:24 final size:24
Alignment explanation
Indices: 12401256--12401305 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
12401246 TTACTTTTAT
*
12401256 TGATGGTTATTCTAAATATTGCTA
1 TGATGATTATTCTAAATATTGCTA
12401280 TGATGATTATTCTAAATATTGCTA
1 TGATGATTATTCTAAATATTGCTA
12401304 TG
1 TG
12401306 TATATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (24 bp):
TGATGATTATTCTAAATATTGCTA
Found at i:12403848 original size:20 final size:18
Alignment explanation
Indices: 12403798--12403849 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
12403788 CTACAAGATA
*
12403798 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTC
12403815 AATATTAAGA-TAATCACTTC
1 AATATTAA-ATTAAT-A-TTC
12403835 AATATTAAATTAATA
1 AATATTAAATTAATA
12403850 AAATAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATATTC
Found at i:12405773 original size:30 final size:30
Alignment explanation
Indices: 12405729--12405785 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
12405719 CAGACACTTC
*
12405729 CACACGGGTAAACCACACGCCCGTGTGAGG
1 CACACGGGCAAACCACACGCCCGTGTGAGG
* *
12405759 CACATGGGCAAACCACATGCCCGTGTG
1 CACACGGGCAAACCACACGCCCGTGTG
12405786 TCATGGCCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.12
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGAGG
Found at i:12410447 original size:16 final size:15
Alignment explanation
Indices: 12410420--12410458 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
12410410 TCTTTCCCCC
12410420 TTCCTTTC-TTCTTT
1 TTCCTTTCTTTCTTT
12410434 TTCCTTTCTTTTCTTT
1 TTCCTTTC-TTTCTTT
12410450 TTCCTTTCT
1 TTCCTTTCT
12410459 ACCGACTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 1 0.04
16 14 0.61
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCCTTTCTTTCTTT
Found at i:12412206 original size:18 final size:18
Alignment explanation
Indices: 12412179--12412220 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12412169 TTTGAGTCCC
12412179 TTTA-TTTTACTATTATT
1 TTTATTTTTACTATTATT
*
12412196 TTTATTTTTACTTTTATT
1 TTTATTTTTACTATTATT
12412214 TTTATTT
1 TTTATTT
12412221 AAACTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTACTATTATT
Found at i:12412210 original size:7 final size:6
Alignment explanation
Indices: 12412191--12412220 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12412181 TATTTTACTA
*
12412191 TTATTT TTATTT TTACTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
12412221 AAACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:12412226 original size:18 final size:18
Alignment explanation
Indices: 12412191--12412227 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12412181 TATTTTACTA
**
12412191 TTATTTTTATTTTTACTT
1 TTATTTTTATTTAAACTT
12412209 TTATTTTTATTTAAACTT
1 TTATTTTTATTTAAACTT
12412227 T
1 T
12412228 ATTGTGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTTAAACTT
Found at i:12420543 original size:19 final size:19
Alignment explanation
Indices: 12420515--12420553 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12420505 TGATAAGTGA
*
12420515 ATACATATGTGCTAA-TAAT
1 ATACACATGTG-TAATTAAT
12420534 ATACACATGTGTAATTAAT
1 ATACACATGTGTAATTAAT
12420553 A
1 A
12420554 AATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (19 bp):
ATACACATGTGTAATTAAT
Found at i:12420703 original size:12 final size:12
Alignment explanation
Indices: 12420665--12420703 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12420655 GCAGGGAAGG
*
12420665 AAAGAAAGAAAG
1 AAAGAAAGAAAA
* *
12420677 AAAGAAAGGAGA
1 AAAGAAAGAAAA
12420689 AAAGAAAGAAAA
1 AAAGAAAGAAAA
12420701 AAA
1 AAA
12420704 AGGGGAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:12422081 original size:18 final size:18
Alignment explanation
Indices: 12422050--12422164 Score: 106
Period size: 18 Copynumber: 6.3 Consensus size: 18
12422040 ACCGATCAAT
*
12422050 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
* * *
12422068 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAC
*
12422086 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
* *
12422104 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * *
12422122 TAATTGTT-CTGATTGAC
1 TGATTGTTACTGAATAAC
*
12422139 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
12422159 TGATTG
1 TGATTG
12422165 ATTAATTGCT
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
17 13 0.18
18 53 0.72
20 8 0.11
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.41
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:12424017 original size:13 final size:13
Alignment explanation
Indices: 12423999--12424028 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12423989 CGGGCGTGTA
12423999 ACTTGACCATGTG
1 ACTTGACCATGTG
*
12424012 ACTTGACCGTGTG
1 ACTTGACCATGTG
12424025 ACTT
1 ACTT
12424029 CAATTTGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (13 bp):
ACTTGACCATGTG
Found at i:12431929 original size:13 final size:16
Alignment explanation
Indices: 12431883--12431922 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
12431873 GAGATCCTGC
12431883 GAGCTAGCGAGGAGGT
1 GAGCTAGCGAGGAGGT
12431899 GAGCTAGCGAGGAGGT
1 GAGCTAGCGAGGAGGT
12431915 GAGCTAGC
1 GAGCTAGC
12431923 AGGGTGACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.47, T:0.12
Consensus pattern (16 bp):
GAGCTAGCGAGGAGGT
Found at i:12433125 original size:30 final size:30
Alignment explanation
Indices: 12433066--12433125 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
12433056 CATGGGCTGG
* * *
12433066 CACATGGGTATGTGTCCAGCCTGTATGGAA
1 CACATGGGCATGTATCCAGCCCGTATGGAA
* *
12433096 CACATGGGCATGTATCCATCCCGTGTGGAA
1 CACATGGGCATGTATCCAGCCCGTATGGAA
12433126 ATGCCCAGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (30 bp):
CACATGGGCATGTATCCAGCCCGTATGGAA
Found at i:12434986 original size:6 final size:6
Alignment explanation
Indices: 12434956--12435032 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
12434946 GAAGCCAAAG
* * *
12434956 AAAATA AGAATTA AACAACTA AAAATA AAAATA AACATA AACAT- AAAATA
1 AAAATA A-AAATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * *
12435006 AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
12435033 CAAATAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
5 4 0.06
6 46 0.74
7 8 0.13
8 4 0.06
ACGTcount: A:0.77, C:0.05, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:12435026 original size:23 final size:23
Alignment explanation
Indices: 12434977--12435026 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
12434967 TAAACAACTA
* * * * *
12434977 AAAATAAAAATAAACATAAACAT
1 AAAATAAAAAGAAAAAGAAAAAG
12435000 AAAATAAAAAGAAAAAGAAAAAG
1 AAAATAAAAAGAAAAAGAAAAAG
12435023 AAAA
1 AAAA
12435027 AGAAAACAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (23 bp):
AAAATAAAAAGAAAAAGAAAAAG
Found at i:12435274 original size:8 final size:8
Alignment explanation
Indices: 12435254--12435360 Score: 61
Period size: 8 Copynumber: 12.0 Consensus size: 8
12435244 TACTAAATGG
12435254 AATAAATAA
1 AATAAA-AA
12435263 AATAAAAA
1 AATAAAAA
12435271 AATAAGTAGAA
1 AATAA--A-AA
*
12435282 TAATAAAAT
1 -AATAAAAA
12435291 AATAAAATA
1 AATAAAA-A
*
12435300 ATTAAAGAA
1 AATAAA-AA
*
12435309 ATTAAAGAA
1 AATAAA-AA
*
12435318 AATAATAA
1 AATAAAAA
12435326 AATAATAAA
1 AATAA-AAA
*
12435335 ATGATAAAAT
1 A--ATAAAAA
12435345 AATAAAAA
1 AATAAAAA
*
12435353 ATTAAAAA
1 AATAAAAA
12435361 TAGGGGAAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
8 34 0.43
9 29 0.36
10 6 0.08
11 6 0.08
12 5 0.06
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (8 bp):
AATAAAAA
Found at i:12435299 original size:38 final size:38
Alignment explanation
Indices: 12435257--12435336 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
12435247 TAAATGGAAT
*
12435257 AAATAAAATAAA-AAAAT-AAGTAGAATAATAAAATAATA
1 AAAT-AAATAAAGAAAATAAAG-AAAATAATAAAATAATA
* *
12435295 AAATAATTAAAGAAATTAAAGAAAATAATAAAATAATA
1 AAATAAATAAAGAAAATAAAGAAAATAATAAAATAATA
12435333 AAAT
1 AAAT
12435337 GATAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 6 0.16
38 28 0.76
39 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (38 bp):
AAATAAATAAAGAAAATAAAGAAAATAATAAAATAATA
Found at i:12435342 original size:46 final size:44
Alignment explanation
Indices: 12435254--12435360 Score: 144
Period size: 46 Copynumber: 2.4 Consensus size: 44
12435244 TACTAAATGG
* *
12435254 AATAAATAAAATAAAAAAATAAGTAGAATAATAAAATAATAAAAT
1 AATAAA-AAATTAAAAAAATAAGTAAAATAATAAAATAATAAAAT
*
12435299 AATTAAAGAAATTAAAGAAAATAA-TAAAATAATAAAATGATAAAAT
1 AA-TAAA-AAATTAAA-AAAATAAGTAAAATAATAAAATAATAAAAT
12435345 AATAAAAAATTAAAAA
1 AATAAAAAATTAAAAA
12435361 TAGGGGAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
43 2 0.04
44 8 0.14
45 6 0.11
46 33 0.59
47 7 0.12
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (44 bp):
AATAAAAAATTAAAAAAATAAGTAAAATAATAAAATAATAAAAT
Found at i:12436841 original size:33 final size:33
Alignment explanation
Indices: 12436803--12436869 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
12436793 TGGAGAGTAA
12436803 TCATTTCATCACCTATACGAAGTACTAATTCAT
1 TCATTTCATCACCTATACGAAGTACTAATTCAT
*
12436836 TCATTTCATCACCTATATGAAGTACTAATTCAT
1 TCATTTCATCACCTATACGAAGTACTAATTCAT
12436869 T
1 T
12436870 TGTACCAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (33 bp):
TCATTTCATCACCTATACGAAGTACTAATTCAT
Done.