Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 11 of 218
Found at i:4122708 original size:22 final size:22
Alignment explanation
Indices: 4122673--4122720 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4122663 AAAAATGATT
* *
4122673 AAATTTTAATAAAAATATT-TAA
1 AAATTATAAGAAAAA-ATTATAA
4122695 AAATTATAAGAAAAAATTATAA
1 AAATTATAAGAAAAAATTATAA
4122717 AAAT
1 AAAT
4122721 CACAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATTATAAGAAAAAATTATAA
Found at i:4122720 original size:9 final size:9
Alignment explanation
Indices: 4122628--4122765 Score: 64
Period size: 9 Copynumber: 14.4 Consensus size: 9
4122618 ACATGTGGCA
*
4122628 AAAAATAAT
1 AAAAATTAT
4122637 AAAAA--AT
1 AAAAATTAT
*
4122644 AAAAATCAAT
1 AAAAAT-TAT
*
4122654 AAAAGTTAT
1 AAAAATTAT
*
4122663 AAAAATGATT
1 AAAAATTA-T
**
4122673 AAATTTTAAT
1 AAAAATT-AT
*
4122683 AAAAATATTT
1 AAAAAT-TAT
4122693 AAAAATTAT
1 AAAAATTAT
4122702 AAGAAAAAATTAT
1 ----AAAAATTAT
* *
4122715 AAAAATCACA
1 AAAAATTA-T
*
4122725 AAAAATTGT
1 AAAAATTAT
*
4122734 AAAATTTTAT
1 AAAA-ATTAT
*
4122744 AAAAATCAT
1 AAAAATTAT
4122753 AAAAATTAT
1 AAAAATTAT
4122762 AAAA
1 AAAA
4122766 TATATAGAAA
Statistics
Matches: 96, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
7 7 0.07
9 41 0.43
10 37 0.39
11 2 0.02
13 9 0.09
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4122747 original size:29 final size:28
Alignment explanation
Indices: 4122711--4122825 Score: 108
Period size: 29 Copynumber: 3.9 Consensus size: 28
4122701 TAAGAAAAAA
*
4122711 TTATAAAAATCACAAAAAATTGTAAAATT
1 TTATAAAAATCA-AAAAAATTATAAAATT
*
4122740 TTATAAAAATCATAAAAATTATAAAA-T
1 TTATAAAAATCAAAAAAATTATAAAATT
* *
4122767 ATATAGAAATACAGAAAAAAAATTATAAAATT
1 TTATAAAAAT-C---AAAAAAATTATAAAATT
*
4122799 TTAT-AAAGTCATAAGAAAATTATAAAA
1 TTATAAAAATCA-AA-AAAATTATAAAA
4122826 AATGTAAAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
27 10 0.14
28 15 0.21
29 24 0.34
30 1 0.01
31 17 0.24
32 4 0.06
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (28 bp):
TTATAAAAATCAAAAAAATTATAAAATT
Found at i:4122835 original size:21 final size:21
Alignment explanation
Indices: 4122811--4122866 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
4122801 ATAAAGTCAT
4122811 AAGAAAATTATAAAAAATGTA
1 AAGAAAATTATAAAAAATGTA
**
4122832 AAG-AAA-TATAAAATTTGTA
1 AAGAAAATTATAAAAAATGTA
*
4122851 AAAAAAATTATAAAAA
1 AAGAAAATTATAAAAA
4122867 TTATCGTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.45
20 6 0.21
21 10 0.34
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (21 bp):
AAGAAAATTATAAAAAATGTA
Found at i:4123190 original size:17 final size:17
Alignment explanation
Indices: 4123156--4123189 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4123146 TAAAATTTAA
*
4123156 TATTTTTTATTGATTTT
1 TATTTTTTATTAATTTT
4123173 TATTTTTTA-TAATTTT
1 TATTTTTTATTAATTTT
4123189 T
1 T
4123190 TGCCACATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TATTTTTTATTAATTTT
Found at i:4123429 original size:92 final size:92
Alignment explanation
Indices: 4123295--4123556 Score: 217
Period size: 91 Copynumber: 2.8 Consensus size: 92
4123285 GTCAAATAGT
* * * * ** *
4123295 ATTTTTGATACATTTTACAGTTCAAATACCTAATTGAGTGCAATAAAAAA-TTAAGGATTTAATT
1 ATTTTTAATACATTTTAAAGTTCAAATACCCAATTGAGTGCAAAAAAAAAGGCAAGGACTTAATT
4123359 GCTTTTTTTGAAAAAAAAATTGAGGGC
66 GCTTTTTTTGAAAAAAAAATTGAGGGC
* * * * *
4123386 ATTTTTAATACATTTTGAAAGTTCGAGTACCCAGTTGAGTGCAAAAAAAAAGGCATGGCCTTAAT
1 ATTTTTAATACATTTT-AAAGTTCAAATACCCAATTGAGTGCAAAAAAAAAGGCAAGGACTTAAT
* ** ***
4123451 TGCTTTTTTTG--AATAAGTTTGACAAC
65 TGCTTTTTTTGAAAAAAAAATTGAGGGC
* ** * * * *
4123477 TTTTTTAATGTATTTTGAAAGTTTAAATACCTAATTGAGTG-AAAAAAAAGAGAGTAAGAACTTA
1 ATTTTTAATACATTTT-AAAGTTCAAATACCCAATTGAGTGCAAAAAAAA-AG-GCAAGGACTTA
* *
4123541 ATTACATTTTTTGAAA
63 ATTGCTTTTTTTGAAA
4123557 TGTTTAAAGG
Statistics
Matches: 133, Mismatches: 32, Indels: 9
0.76 0.18 0.05
Matches are distributed among these distances:
90 8 0.06
91 59 0.44
92 46 0.35
93 19 0.14
94 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (92 bp):
ATTTTTAATACATTTTAAAGTTCAAATACCCAATTGAGTGCAAAAAAAAAGGCAAGGACTTAATT
GCTTTTTTTGAAAAAAAAATTGAGGGC
Found at i:4144009 original size:16 final size:16
Alignment explanation
Indices: 4143981--4144022 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4143971 TTTTTTTTTT
4143981 TTTTTACTT-TATAATA
1 TTTTTA-TTATATAATA
*
4143997 TTTTTATTATATAGTA
1 TTTTTATTATATAATA
4144013 TATTTTATTA
1 T-TTTTATTA
4144023 ACTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 2 0.09
16 13 0.57
17 8 0.35
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTTATTATATAATA
Found at i:4146365 original size:19 final size:18
Alignment explanation
Indices: 4146341--4146402 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
4146331 AAGCCCATAA
4146341 TTTTTAATAGTTTTAATAT
1 TTTTTAATAGTTTT-ATAT
*
4146360 TTTTTAATA-ATTTATATT
1 TTTTTAATAGTTTTATA-T
*
4146378 TATTTTAA-AGTTTTTTTAT
1 T-TTTTAATAG-TTTTATAT
4146397 TTTTTA
1 TTTTTA
4146403 GAATTAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.08
18 11 0.31
19 17 0.47
20 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTAATAGTTTTATAT
Found at i:4148048 original size:23 final size:24
Alignment explanation
Indices: 4148001--4148051 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
4147991 ATTATTAAAA
* *
4148001 TATTATTTTAGTTATTTATTTAATT
1 TATTATTTTA-TTAGTTATTGAATT
4148026 TATTATTTT-TTAGTTATTGAATT
1 TATTATTTTATTAGTTATTGAATT
4148049 TAT
1 TAT
4148052 AATAATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.62
25 9 0.38
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (24 bp):
TATTATTTTATTAGTTATTGAATT
Found at i:4150577 original size:14 final size:14
Alignment explanation
Indices: 4150560--4150589 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4150550 TCCACAAGGT
*
4150560 TTTAAACATAAACA
1 TTTAAACACAAACA
4150574 TTTAAACACAAACA
1 TTTAAACACAAACA
4150588 TT
1 TT
4150590 CCTCCCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (14 bp):
TTTAAACACAAACA
Found at i:4153252 original size:138 final size:138
Alignment explanation
Indices: 4152993--4153266 Score: 424
Period size: 138 Copynumber: 2.0 Consensus size: 138
4152983 GACGCTACCG
* * *
4152993 ATGCTGATATCTCGTTAGAATTGTCTCTTTCAATGAACAAACCCCAAAGGGTTGAAGTCGGTGAA
1 ATGCCGATAGCTCGTTAGAATGGTCTCTTTCAATGAACAAACCCCAAAGGGTTGAAGTCGGTGAA
* * * *
4153058 CGTAACAATCATTATAAACTGAATATCAATGAAGGCCTTACTTTGGCAACTACGAGTGATAATTT
66 CGTAACAATCATCATAAACTGAAGATCAATGAAGGCCTTACTTTAGCAACTACGAGTGATAAGTT
4153123 TACATCCA
131 TACATCCA
* * * *
4153131 ATGCCGATAGCTCGTTAGAATGGTCTCTTTCAATGAATAAACCCCCAGGGGTTGAAGTTGGTGAA
1 ATGCCGATAGCTCGTTAGAATGGTCTCTTTCAATGAACAAACCCCAAAGGGTTGAAGTCGGTGAA
*
4153196 CGTAACAATCATCATAAACTGAAGATCAATGAA-GCCATTACTTTAGCAACTGCGAGTGATAAGT
66 CGTAACAATCATCATAAACTGAAGATCAATGAAGGCC-TTACTTTAGCAACTACGAGTGATAAGT
4153260 TTACATC
130 TTACATC
4153267 GAAGAAAAGA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
137 3 0.02
138 120 0.98
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (138 bp):
ATGCCGATAGCTCGTTAGAATGGTCTCTTTCAATGAACAAACCCCAAAGGGTTGAAGTCGGTGAA
CGTAACAATCATCATAAACTGAAGATCAATGAAGGCCTTACTTTAGCAACTACGAGTGATAAGTT
TACATCCA
Found at i:4153309 original size:138 final size:137
Alignment explanation
Indices: 4153023--4153296 Score: 297
Period size: 138 Copynumber: 2.0 Consensus size: 137
4153013 TTGTCTCTTT
* * *
4153023 CAATGAACAAACCCCAAAGGGTTGAAGTCGGTGAACGTAACAATCATTATAAACTGAATATCAAT
1 CAATGAATAAACCCCAAAGGGTTGAAGTCGGTGAACGTAACAATCATCATAAACTGAAGATCAAT
* * * * * * *
4153088 GAAGGCCTTACTTTGGCAACTACGAGTGATAATTTTACATCCAATGCCGATAGCTCGTTAGAATG
66 GAAGGCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATG-CAAAAGCACGTAACAATG
*** **
4153153 GTCTCTTT
130 GAAACTGA
* * *
4153161 CAATGAATAAACCCCCAGGGGTTGAAGTTGGTGAACGTAACAATCATCATAAACTGAAGATCAAT
1 CAATGAATAAACCCCAAAGGGTTGAAGTCGGTGAACGTAACAATCATCATAAACTGAAGATCAAT
* *
4153226 GAA-GCCATTACTTTAGCAACTGCGAGTGATAAGTTTACATCGAA-G-AAAAG-ACG-AACAATG
66 GAAGGCC-TTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATGCAAAAGCACGTAACAAT-
4153286 GGGAAACTGA
129 -GGAAACTGA
4153296 C
1 C
4153297 GAATAGAAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
133 4 0.04
134 2 0.02
135 8 0.07
137 4 0.04
138 95 0.84
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (137 bp):
CAATGAATAAACCCCAAAGGGTTGAAGTCGGTGAACGTAACAATCATCATAAACTGAAGATCAAT
GAAGGCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATGCAAAAGCACGTAACAATGG
AAACTGA
Found at i:4154576 original size:18 final size:18
Alignment explanation
Indices: 4154553--4154600 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
4154543 TTTTTTTAAT
*
4154553 TTTAAAATGTTATACTA-A
1 TTTAAAATGTTA-ACCAGA
4154571 TTTAAAATGTTAACCAGA
1 TTTAAAATGTTAACCAGA
4154589 TTTAAAAT-TTAA
1 TTTAAAATGTTAA
4154601 AATTAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTTAAAATGTTAACCAGA
Found at i:4165994 original size:17 final size:17
Alignment explanation
Indices: 4165972--4166009 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
4165962 TAATAAACAA
4165972 ATGATTAGCAAATGATC
1 ATGATTAGCAAATGATC
4165989 ATGATTAGCAAATGATC
1 ATGATTAGCAAATGATC
4166006 ATGA
1 ATGA
4166010 AGCTTAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (17 bp):
ATGATTAGCAAATGATC
Found at i:4174388 original size:16 final size:16
Alignment explanation
Indices: 4174367--4174398 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4174357 CCGTTTACCG
4174367 ATTCCTTGCCTATTCC
1 ATTCCTTGCCTATTCC
*
4174383 ATTCCTTGCTTATTCC
1 ATTCCTTGCCTATTCC
4174399 CTCAGCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.34, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTCCTTGCCTATTCC
Found at i:4175168 original size:16 final size:16
Alignment explanation
Indices: 4175147--4175178 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4175137 TTTCAAAGTG
*
4175147 ATTCTATTACTTGTTT
1 ATTCTATTACATGTTT
4175163 ATTCTATTACATGTTT
1 ATTCTATTACATGTTT
4175179 GACTGATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTCTATTACATGTTT
Found at i:4175325 original size:21 final size:22
Alignment explanation
Indices: 4175285--4175329 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
4175275 CATGTTTTGG
4175285 TTTCTATATTAAGTTTGATGTT
1 TTTCTATATTAAGTTTGATGTT
*
4175307 TTTCTGTATTAAG-TTGATGTT
1 TTTCTATATTAAGTTTGATGTT
4175328 TT
1 TT
4175330 CCGTTTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.60
Consensus pattern (22 bp):
TTTCTATATTAAGTTTGATGTT
Found at i:4175387 original size:21 final size:21
Alignment explanation
Indices: 4175346--4175388 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4175336 GTGTTTATGG
*
4175346 ATTATATATAATTTTTATAGT
1 ATTATATATAATATTTATAGT
*
4175367 ATTATATATTATGATTT-TAGT
1 ATTATATATAAT-ATTTATAGT
4175388 A
1 A
4175389 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATATATAATATTTATAGT
Found at i:4175430 original size:17 final size:18
Alignment explanation
Indices: 4175405--4175450 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4175395 TATAAGAATG
*
4175405 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
4175422 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
4175440 ATTAAATTATA
1 ATTAAATTATA
4175451 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:4175447 original size:55 final size:54
Alignment explanation
Indices: 4175381--4175497 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 54
4175371 TATATTATGA
* * * *
4175381 TTTTAGTAAATTCATA-TAAGAATGATTATATTAAGAATTTTATTAAATTATATAT
1 TTTTATTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAAATTATATAT
* * *
4175436 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTAT
1 TTTTATTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAAATTATATAT
4175491 TATTTAT
1 T-TTTAT
4175498 ATTAATAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 3 0.06
55 29 0.56
56 20 0.38
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (54 bp):
TTTTATTAAATTATATTAAGAATAATTATATTAAAATATGATTAAATTATATAT
Found at i:4175705 original size:15 final size:16
Alignment explanation
Indices: 4175685--4175723 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
4175675 TTGAATTATT
4175685 ATTACAGCTC-ATTCC
1 ATTACAGCTCTATTCC
4175700 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
4175716 ATTACAGC
1 ATTACAGC
4175724 GAACCAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:4175916 original size:23 final size:23
Alignment explanation
Indices: 4175862--4175929 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
4175852 ATTAATATTT
**
4175862 TTCGTGAACATGTTCAATTATATG
1 TTCGTGAACATGTTTGATTA-ATG
** *
4175886 TTTATGAACATGTTTGTTTAATG
1 TTCGTGAACATGTTTGATTAATG
4175909 TTCGTGAACATGTTTGATTAA
1 TTCGTGAACATGTTTGATTAA
4175930 GTTAAATGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.46
Consensus pattern (23 bp):
TTCGTGAACATGTTTGATTAATG
Found at i:4175939 original size:23 final size:23
Alignment explanation
Indices: 4175866--4175945 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
4175856 ATATTTTTCG
** *
4175866 TGAACATGTTCAATTATATGTTTA
1 TGAACATGTTTGATTA-ATGTTAA
* **
4175890 TGAACATGTTTGTTTAATGTTCG
1 TGAACATGTTTGATTAATGTTAA
4175913 TGAACATGTTTGATTAA-GTTAAA
1 TGAACATGTTTGATTAATGTT-AA
4175936 TGAACATGTT
1 TGAACATGTT
4175946 CGTGAATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.06
23 31 0.66
24 13 0.28
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.44
Consensus pattern (23 bp):
TGAACATGTTTGATTAATGTTAA
Found at i:4183699 original size:4 final size:4
Alignment explanation
Indices: 4183690--4183731 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
4183680 TTTCATGTAT
4183690 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
4183732 TCATTCAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:4189988 original size:75 final size:76
Alignment explanation
Indices: 4189899--4190049 Score: 286
Period size: 75 Copynumber: 2.0 Consensus size: 76
4189889 CAGATTGGCA
*
4189899 TATGTGAATTCAAGATATGAAAAGAGAATAAATTTCTATAAAATGGGGAAATA-GGTGGCTGCAA
1 TATGTGAATTCAAGATATGAAAAGAGAATAAATTTCTATAAAAGGGGGAAATAGGGTGGCTGCAA
4189963 ATATCAAATAG
66 ATATCAAATAG
4189974 TATGTGAATTCAAGATATGAAAAGAGAATAAATTTCTATAAAAGGGGGAAATAGGGTGGCTGCAA
1 TATGTGAATTCAAGATATGAAAAGAGAATAAATTTCTATAAAAGGGGGAAATAGGGTGGCTGCAA
4190039 ATATCAAATAG
66 ATATCAAATAG
4190050 AGGAGTTTCA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 52 0.70
76 22 0.30
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.26
Consensus pattern (76 bp):
TATGTGAATTCAAGATATGAAAAGAGAATAAATTTCTATAAAAGGGGGAAATAGGGTGGCTGCAA
ATATCAAATAG
Found at i:4198280 original size:28 final size:28
Alignment explanation
Indices: 4198249--4198309 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
4198239 ATATGGTCCA
4198249 GTTGAAACATTCTTAGATAATTG-TGGTT
1 GTTGAAACATTCTTAGATAATTGCT-GTT
4198277 GTTGAAACATTCTTAGATAATTGCTGTT
1 GTTGAAACATTCTTAGATAATTGCTGTT
4198305 GTTGA
1 GTTGA
4198310 TGAACTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (28 bp):
GTTGAAACATTCTTAGATAATTGCTGTT
Found at i:4208437 original size:51 final size:51
Alignment explanation
Indices: 4208380--4208505 Score: 164
Period size: 53 Copynumber: 2.4 Consensus size: 51
4208370 TGATATTCAT
*
4208380 TTATTTGAGCAAAGAATCCAC-CTTTTTTCAACTTGAGAGCAAGTTTTACAA
1 TTATTTGTGCAAA-AATCCACTCTTTTTTCAACTTGAGAGCAAGTTTTACAA
* * * *
4208431 TTATTTGTGCAAAAATTCCACTTTTTTTTTCAATTTGAGAGCAAGTTTTCCAT
1 TTATTTGTGCAAAAA-TCCAC-TCTTTTTTCAACTTGAGAGCAAGTTTTACAA
4208484 TTATTTGTGCAAAAAATCCACT
1 TTATTTGTGC-AAAAATCCACT
4208506 AGTTTTTGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
50 2 0.03
51 17 0.26
52 1 0.02
53 41 0.62
54 5 0.08
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (51 bp):
TTATTTGTGCAAAAATCCACTCTTTTTTCAACTTGAGAGCAAGTTTTACAA
Found at i:4208478 original size:53 final size:54
Alignment explanation
Indices: 4208402--4208520 Score: 177
Period size: 53 Copynumber: 2.2 Consensus size: 54
4208392 AGAATCCACC
*
4208402 TTTTTTCAACTTGAGAGCAAGTTTTACAATTATTTGTGCAAAAATTCCACT-TT
1 TTTTTTCAACTTGAGAGCAAGTTTTACAATTATTTGTGCAAAAAATCCACTATT
* * *
4208455 TTTTTTCAATTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAAATCCACTAGTT
1 TTTTTTCAACTTGAGAGCAAGTTTTACAATTATTTGTGCAAAAAATCCACTA-TT
4208510 TTTGTTTCAAC
1 TTT-TTTCAAC
4208521 AAGGAAAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
53 47 0.81
55 5 0.09
56 6 0.10
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.45
Consensus pattern (54 bp):
TTTTTTCAACTTGAGAGCAAGTTTTACAATTATTTGTGCAAAAAATCCACTATT
Found at i:4272246 original size:3 final size:3
Alignment explanation
Indices: 4272238--4272279 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
4272228 GTAAAAGGAA
4272238 AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
4272280 AGTTAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4272261 original size:19 final size:19
Alignment explanation
Indices: 4272237--4272276 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4272227 GGTAAAAGGA
4272237 AAATAATAATAATAATAAT
1 AAATAATAATAATAATAAT
4272256 AAATAATAATAATAATAAT
1 AAATAATAATAATAATAAT
4272275 AA
1 AA
4272277 TAAAGTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATAATAATAATAATAAT
Found at i:4272266 original size:22 final size:22
Alignment explanation
Indices: 4272238--4272280 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4272228 GTAAAAGGAA
4272238 AATAATAATAATAATAATAAAT
1 AATAATAATAATAATAATAAAT
4272260 AATAATAATAATAATAATAAA
1 AATAATAATAATAATAATAAA
4272281 GTTAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAATAATAATAATAATAAAT
Found at i:4275362 original size:4 final size:4
Alignment explanation
Indices: 4275353--4275383 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4275343 GAAGAAGAAG
4275353 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
4275384 GCATTAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:4284019 original size:12 final size:12
Alignment explanation
Indices: 4284002--4284031 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4283992 TTGAGAAAGG
*
4284002 GAAATGAAATGT
1 GAAATGAAATAT
4284014 GAAATGAAATAT
1 GAAATGAAATAT
4284026 GAAATG
1 GAAATG
4284032 GTGGATTTTG
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:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (12 bp):
GAAATGAAATAT
Found at i:4286425 original size:24 final size:25
Alignment explanation
Indices: 4286389--4286436 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
4286379 GATCCCCATA
4286389 TTTTTTTCGTTTTAAGTAATTTAAT
1 TTTTTTTCGTTTTAAGTAATTTAAT
* *
4286414 TTTTTTTC-TTTTATGTTATTTAA
1 TTTTTTTCGTTTTAAGTAATTTAA
4286437 ACTTTCTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTTTTTCGTTTTAAGTAATTTAAT
Found at i:4288181 original size:16 final size:16
Alignment explanation
Indices: 4288148--4288182 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4288138 ATTCGTAGTT
* *
4288148 ATTTAATTATTAATAA
1 ATTTAATTATAAAAAA
4288164 ATTTAATTATAAAAAA
1 ATTTAATTATAAAAAA
4288180 ATT
1 ATT
4288183 ATAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAATTATAAAAAA
Found at i:4288981 original size:30 final size:30
Alignment explanation
Indices: 4288947--4289009 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4288937 ACTTAACAAG
4288947 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** * *
4288977 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
4289007 CAA
1 CAA
4289010 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:4292046 original size:11 final size:13
Alignment explanation
Indices: 4292015--4292039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4292005 TCTAAAGAAT
4292015 CCATATTTGACAA
1 CCATATTTGACAA
4292028 CCATATTTGACA
1 CCATATTTGACA
4292040 CATATTTAGA
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:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
CCATATTTGACAA
Found at i:4293734 original size:34 final size:34
Alignment explanation
Indices: 4293691--4293759 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
4293681 CTGCTTACTC
*
4293691 ATGGGGAAAATATGGAAAGGAAAAGGGAAAACAG
1 ATGGGGAAAAGATGGAAAGGAAAAGGGAAAACAG
4293725 ATGGGGAAAAGATGGAAAGGAAAAGGGAAAACAG
1 ATGGGGAAAAGATGGAAAGGAAAAGGGAAAACAG
4293759 A
1 A
4293760 GGATGGTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.36, T:0.07
Consensus pattern (34 bp):
ATGGGGAAAAGATGGAAAGGAAAAGGGAAAACAG
Found at i:4299794 original size:18 final size:17
Alignment explanation
Indices: 4299754--4299801 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
4299744 TATTATTAAG
*
4299754 TTTA-TATAAGATATTA
1 TTTATTATAAAATATTA
4299770 TTTATTATAAAATATTA
1 TTTATTATAAAATATTA
*
4299787 TCTTATTAAAAAATA
1 T-TTATTATAAAATA
4299802 AATTTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.14
17 12 0.43
18 12 0.43
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTATTATAAAATATTA
Found at i:4300029 original size:40 final size:40
Alignment explanation
Indices: 4299984--4300116 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 40
4299974 AATAGTGAAG
4299984 AAAATATGTTTGACTAAAAATTTTAAAAATTAAATTTTGA
1 AAAATATGTTTGACTAAAAATTTTAAAAATTAAATTTTGA
*** **
4300024 AAAATATGTTTGACTAAAAATTTTAATTTTCTTAGAAAATAGTGAA
1 AAAATATGTTTGACTAAAAATTTTAA--AAATT---AAATTTTG-A
*
4300070 GAAAATATGTTTGACTAAAAATTTTAAAAATTAATTTTTGA
1 -AAAATATGTTTGACTAAAAATTTTAAAAATTAAATTTTGA
4300111 AAAATA
1 AAAATA
4300117 AAAATATGTG
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
40 32 0.43
41 1 0.01
42 7 0.09
45 8 0.11
46 1 0.01
47 26 0.35
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.39
Consensus pattern (40 bp):
AAAATATGTTTGACTAAAAATTTTAAAAATTAAATTTTGA
Found at i:4300059 original size:87 final size:87
Alignment explanation
Indices: 4299957--4300116 Score: 311
Period size: 87 Copynumber: 1.8 Consensus size: 87
4299947 GTTATTTTCG
4299957 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAATTTTAAAAATTAAATTTT
1 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAATTTTAAAAATTAAATTTT
4300022 GAAAAATATGTTTGACTAAAAA
66 GAAAAATATGTTTGACTAAAAA
*
4300044 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAATTTTAAAAATTAATTTTT
1 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAATTTTAAAAATTAAATTTT
4300109 GAAAAATA
66 GAAAAATA
4300117 AAAATATGTG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (87 bp):
TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAATTTTAAAAATTAAATTTT
GAAAAATATGTTTGACTAAAAA
Found at i:4300076 original size:47 final size:47
Alignment explanation
Indices: 4299957--4300096 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 47
4299947 GTTATTTTCG
4299957 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAA
1 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAA
*** **
4300004 TTTTAA--AAATT---AAATTTTG-A-AAAATATGTTTGACTAAAAA
1 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAA
4300044 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAA
1 TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAA
4300091 TTTTAA
1 TTTTAA
4300097 AAATTAATTT
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
40 26 0.34
41 1 0.01
42 8 0.11
45 8 0.11
46 1 0.01
47 32 0.42
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.40
Consensus pattern (47 bp):
TTTTAATTTTCTTAGAAAATAGTGAAGAAAATATGTTTGACTAAAAA
Found at i:4300795 original size:31 final size:31
Alignment explanation
Indices: 4300743--4300841 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
4300733 TTAGGTAAAC
* * *
4300743 TACACTTTTAGTCACTAAACTATAGGAAAGTT
1 TACA-TTTTAGTCAGTTAACTATAAGAAAGTT
* *
4300775 TTCATTTTAGTCAGTTAACTA-AAAAAAG-T
1 TACATTTTAGTCAGTTAACTATAAGAAAGTT
* * **
4300804 TACAATTTAATCAGTTAACTATTCGAAAGTT
1 TACATTTTAGTCAGTTAACTATAAGAAAGTT
*
4300835 TCCATTT
1 TACATTT
4300842 AAGTGACAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
29 19 0.37
30 9 0.17
31 21 0.40
32 3 0.06
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (31 bp):
TACATTTTAGTCAGTTAACTATAAGAAAGTT
Found at i:4312358 original size:56 final size:57
Alignment explanation
Indices: 4312296--4312449 Score: 137
Period size: 55 Copynumber: 2.7 Consensus size: 57
4312286 GTTTTCCATA
4312296 AAAAATTTTAAAAAAATTAAAATA-TATGAAAATTGATATAAAATT-AT-AAATAT-TTT
1 AAAAATTTTAAAAAAATTAAAATATTAT-AAAA-T-ATATAAAATTAATAAAATATATTT
* * *
4312352 AAAAATTAT-AAAAATTTAAGAA-ATTATAAAATATATAATATTAATAAAATATATTT
1 AAAAATTTTAAAAAAATTAA-AATATTATAAAATATATAAAATTAATAAAATATATTT
*
4312408 -AAAATTTTATAAAAAGTATAAAATCA-TA-AAAATAATATAAAA
1 AAAAATTTTA-AAAAAAT-TAAAAT-ATTATAAAAT-ATATAAAA
4312450 AGTATTAAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
53 9 0.11
54 3 0.04
55 27 0.33
56 16 0.20
57 13 0.16
58 12 0.15
59 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (57 bp):
AAAAATTTTAAAAAAATTAAAATATTATAAAATATATAAAATTAATAAAATATATTT
Found at i:4312363 original size:9 final size:9
Alignment explanation
Indices: 4312296--4312488 Score: 117
Period size: 9 Copynumber: 20.6 Consensus size: 9
4312286 GTTTTCCATA
*
4312296 AAAAATTTT
1 AAAAATTAT
*
4312305 AAAAA-AAT
1 AAAAATTAT
*
4312313 TAAAATATAT
1 AAAAAT-TAT
*
4312323 GAAAATTGAT
1 AAAAATT-AT
4312333 ATAAAATTAT
1 A-AAAATTAT
* *
4312343 AAATATTTT
1 AAAAATTAT
4312352 AAAAATTAT
1 AAAAATTAT
4312361 AAAAATT-T
1 AAAAATTAT
4312369 AAGAAATTAT
1 AA-AAATTAT
4312379 -AAAA-TAT
1 AAAAATTAT
*
4312386 ATAATATTAAT
1 A-AAAATT-AT
*
4312397 AAAATATATTT
1 AAAA-AT-TAT
*
4312408 AAAATTTTAT
1 AAAA-ATTAT
*
4312418 AAAAAGTAT
1 AAAAATTAT
*
4312427 -AAAATCAT
1 AAAAATTAT
4312435 AAAAATAATAT
1 AAAAAT--TAT
*
4312446 AAAAAGTAT
1 AAAAATTAT
*
4312455 TAAAATTGAT
1 AAAAATT-AT
4312465 ATAAAATTAT
1 A-AAAATTAT
4312475 AAAAATTAT
1 AAAAATTAT
4312484 AAAAA
1 AAAAA
4312489 AAATCGTAAT
Statistics
Matches: 143, Mismatches: 24, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
7 3 0.02
8 17 0.12
9 64 0.45
10 27 0.19
11 31 0.22
12 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:4312448 original size:28 final size:28
Alignment explanation
Indices: 4312414--4312487 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
4312404 ATTTAAAATT
4312414 TTATAAAAAGTATAAAA-TCATA-AAAA
1 TTATAAAAAGTATAAAATTCATATAAAA
*
4312440 TAATATAAAAAGTATTAAAATTGATATAAAA
1 T--TATAAAAAGTA-TAAAATTCATATAAAA
*
4312471 TTATAAAAATTATAAAA
1 TTATAAAAAGTATAAAA
4312488 AAAATCGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 1 0.02
28 16 0.39
29 15 0.37
30 4 0.10
31 5 0.12
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (28 bp):
TTATAAAAAGTATAAAATTCATATAAAA
Found at i:4312480 original size:49 final size:47
Alignment explanation
Indices: 4312304--4312488 Score: 118
Period size: 48 Copynumber: 3.9 Consensus size: 47
4312294 TAAAAAATTT
* * **
4312304 TAAAAAA-A-TTAAAA-TATATGAAAATTGATATAAAATTATAAATATTT
1 TAAAAAATATTTAAAATTATATAAAAATT-ATA-AAAA-TATAAAAATAA
* * * * *
4312351 TAAAAATTA-TAAAAATT-TA-AGAAATTATAAAATATATAATATTAA
1 TAAAAAATATTTAAAATTATATAAAAATTATAAAA-ATATAAAAATAA
* * *
4312396 TAAAATATATTTAAAATTTTATAAAAAGTAT-AAAATCATAAAAATAA
1 TAAAAAATATTTAAAATTATATAAAAATTATAAAAAT-ATAAAAATAA
4312443 TATAAAAAGTA-TTAAAATTGATAT-AAAATTATAAAAATTATAAAAA
1 TA-AAAAA-TATTTAAAATT-ATATAAAAATTATAAAAA-TATAAAAA
4312489 AAATCGTAAT
Statistics
Matches: 107, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
45 16 0.15
46 13 0.12
47 26 0.24
48 34 0.32
49 17 0.16
50 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (47 bp):
TAAAAAATATTTAAAATTATATAAAAATTATAAAAATATAAAAATAA
Found at i:4312490 original size:20 final size:20
Alignment explanation
Indices: 4312427--4312490 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
4312417 TAAAAAGTAT
* * *
4312427 AAAATCATAAAAATAATATA
1 AAAATTATAAAAATTATAAA
* * *
4312447 AAAAGTATTAAAATTGAT-AT
1 AAAATTATAAAAATT-ATAAA
4312467 AAAATTATAAAAATTATAAA
1 AAAATTATAAAAATTATAAA
4312487 AAAA
1 AAAA
4312491 ATCGTAATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAATTATAAA
Found at i:4312943 original size:19 final size:19
Alignment explanation
Indices: 4312921--4313036 Score: 56
Period size: 16 Copynumber: 6.3 Consensus size: 19
4312911 GTTTATATCA
4312921 ATTTTAATATATTTTTATT
1 ATTTTAATATATTTTTATT
*
4312940 ATTTTTAA-AAATTTTAATACTT
1 A-TTTTAATATATTTT--TA-TT
*
4312962 TTTTTAATAT-TTTTTA--
1 ATTTTAATATATTTTTATT
4312978 ATTATT-ATAT-TTTTTA-T
1 ATT-TTAATATATTTTTATT
*
4312995 ATTTTACA-ATA--TTTATA
1 ATTTTA-ATATATTTTTATT
*
4313012 ATTTT-ATATCATTTTTAAT
1 ATTTTAATAT-ATTTTTATT
4313031 ATTTTA
1 ATTTTA
4313037 CAATTTTTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 31
0.66 0.06 0.28
Matches are distributed among these distances:
15 1 0.01
16 20 0.27
17 13 0.18
18 1 0.01
19 18 0.24
20 6 0.08
21 12 0.16
22 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTAATATATTTTTATT
Found at i:4312945 original size:10 final size:11
Alignment explanation
Indices: 4312922--4312983 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 11
4312912 TTTATATCAA
4312922 TTTTAATATAT
1 TTTTAATATAT
4312933 TTTT-AT-TAT
1 TTTTAATATAT
*
4312942 TTTTAA-A-AA
1 TTTTAATATAT
*
4312951 TTTTAATACTTT
1 TTTTAATA-TAT
4312963 TTTTAATAT-T
1 TTTTAATATAT
4312973 TTTTAAT-TAT
1 TTTTAATATAT
4312983 T
1 T
4312984 ATATTTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
9 15 0.36
10 14 0.33
11 5 0.12
12 8 0.19
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:4312974 original size:9 final size:9
Alignment explanation
Indices: 4312929--4313035 Score: 60
Period size: 9 Copynumber: 11.8 Consensus size: 9
4312919 CAATTTTAAT
4312929 ATATTTTTA
1 ATATTTTTA
*
4312938 TTATTTTTA
1 ATATTTTTA
* *
4312947 AAAATTTTA
1 ATATTTTTA
4312956 ATACTTTTTTTA
1 ATA---TTTTTA
*
4312968 ATATTTTTT
1 ATATTTTTA
*
4312977 A-ATTATT-
1 ATATTTTTA
*
4312984 ATATTTTTT
1 ATATTTTTA
*
4312993 ATATTTTACA
1 ATATTTT-TA
*
4313003 ATATTTATA
1 ATATTTTTA
*
4313012 AT-TTTAT-
1 ATATTTTTA
4313019 ATCATTTTTA
1 AT-ATTTTTA
4313029 ATATTTT
1 ATATTTT
4313036 ACAATTTTTA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
7 3 0.04
8 15 0.20
9 41 0.55
10 8 0.11
12 8 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
ATATTTTTA
Found at i:4313051 original size:17 final size:16
Alignment explanation
Indices: 4312988--4313051 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 16
4312978 ATTATTATAT
4312988 TTTTTATATTTTACAA
1 TTTTTATATTTTACAA
* *
4313004 TATTTATAATTTTATATCA
1 TTTTTAT-ATTTTACA--A
4313023 TTTTTAATATTTTACAA
1 TTTTT-ATATTTTACAA
4313040 TTTTTATGATTT
1 TTTTTAT-ATTT
4313052 GCTAATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.21
17 17 0.44
19 12 0.31
20 2 0.05
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTTATATTTTACAA
Found at i:4313051 original size:26 final size:25
Alignment explanation
Indices: 4312988--4313051 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
4312978 ATTATTATAT
*
4312988 TTTTTATATTTTACAATATTTATAA
1 TTTTTATATTTTACAATATTTACAA
*
4313013 TTTTATATCATTTT-TAATATTTTACAA
1 TTTT-TAT-ATTTTACAATA-TTTACAA
4313040 TTTTTATGATTT
1 TTTTTAT-ATTT
4313052 GCTAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 4 0.12
26 14 0.42
27 15 0.45
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTATATTTTACAATATTTACAA
Found at i:4313057 original size:27 final size:27
Alignment explanation
Indices: 4313002--4313063 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
4312992 TATATTTTAC
* *
4313002 AATA-TTTATAATTTTATATCATTTTT
1 AATATTTTACAATTTTATATCATTTCT
*
4313028 AATATTTTACAATTTT-TATGATTTGCT
1 AATATTTTACAATTTTATATCATTT-CT
4313055 AATAATTTT
1 AAT-ATTTT
4313064 TTATGGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 11 0.37
27 14 0.47
28 5 0.17
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (27 bp):
AATATTTTACAATTTTATATCATTTCT
Found at i:4316315 original size:18 final size:18
Alignment explanation
Indices: 4316289--4316323 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4316279 CCATTAAAAA
* *
4316289 ATTTTAAAAATTATAAAT
1 ATTTCAAAAAATATAAAT
4316307 ATTTCAAAAAATATAAA
1 ATTTCAAAAAATATAAA
4316324 AAATATAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTCAAAAAATATAAAT
Found at i:4316340 original size:10 final size:9
Alignment explanation
Indices: 4316312--4316455 Score: 65
Period size: 10 Copynumber: 14.8 Consensus size: 9
4316302 TAAATATTTC
4316312 AAAAAATAT
1 AAAAAATAT
4316321 AAAAAATAT
1 AAAAAATAT
*
4316330 AAGAAATTAT
1 AA-AAAATAT
*
4316340 AAAATATAT
1 AAAAAATAT
* *
4316349 ATAATATTAAT
1 A-AAAAAT-AT
*
4316360 AAAACATATTT
1 AAAA-A-ATAT
**
4316371 AAAATTTTAT
1 AAAA-AATAT
*
4316381 AAAACATAT
1 AAAAAATAT
*
4316390 AAAATCATA-
1 AAAA-AATAT
4316399 AAAATAATAT
1 AAAA-AATAT
4316409 AAAAAAGTAT
1 AAAAAA-TAT
* *
4316419 TAAAATTGAT
1 AAAAAAT-AT
*
4316429 ATAAAATTAT
1 A-AAAAATAT
4316439 AAAAAATTAT
1 AAAAAA-TAT
4316449 AAAAAAT
1 AAAAAAT
4316456 CGTAAGAACT
Statistics
Matches: 104, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
9 40 0.38
10 48 0.46
11 15 0.14
12 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAAATAT
Found at i:4316383 original size:21 final size:20
Alignment explanation
Indices: 4316318--4316390 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
4316308 TTTCAAAAAA
*
4316318 TATAAAA-A-ATATAAGAAAT
1 TATAAAACATATATAA-AATT
* *
4316337 TATAAAATATATATAATATT
1 TATAAAACATATATAAAATT
* *
4316357 AATAAAACATATTTAAAATTT
1 TATAAAACATATATAAAA-TT
4316378 TATAAAACATATA
1 TATAAAACATATA
4316391 AAATCATAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 7 0.16
20 17 0.40
21 19 0.44
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
TATAAAACATATATAAAATT
Found at i:4316814 original size:28 final size:26
Alignment explanation
Indices: 4316783--4316953 Score: 90
Period size: 28 Copynumber: 6.4 Consensus size: 26
4316773 TATTTTTGTA
4316783 ATTTTTATAAGTTTATATCAATTTTAAT
1 ATTTTTATAA-TTTATAT-AATTTTAAT
* * *
4316811 ATTTTTTATTATTTTTAAAAATTTTAAT
1 A-TTTTTATAATTTAT-ATAATTTTAAT
* * *
4316839 ATGTTTTTTAATTTTAAATAGGTTTTAAT
1 AT-TTTTATAA-TTTATATA-ATTTTAAT
4316868 ATTTTT-TAA-TTAT-TATATTTT-AT
1 ATTTTTATAATTTATATA-ATTTTAAT
*
4316891 A-TTTTACAATTT-TAATAATTTTATAT
1 ATTTTTATAATTTAT-ATAATTTTA-AT
*
4316917 CATTTTTA-ATATTT-TATAATTTTTAT
1 -ATTTTTATA-ATTTATATAATTTTAAT
4316943 GATTTTT-TAAT
1 -ATTTTTATAAT
4316954 AATTTTTATG
Statistics
Matches: 113, Mismatches: 15, Indels: 33
0.70 0.09 0.20
Matches are distributed among these distances:
22 4 0.04
23 6 0.05
24 13 0.12
25 7 0.06
26 11 0.10
27 14 0.12
28 37 0.33
29 21 0.19
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (26 bp):
ATTTTTATAATTTATATAATTTTAAT
Found at i:4316872 original size:27 final size:25
Alignment explanation
Indices: 4316802--4316953 Score: 96
Period size: 27 Copynumber: 5.8 Consensus size: 25
4316792 AGTTTATATC
4316802 AATTTTAATATTTTTTATTATTTTTAAA
1 AATTTTAATATTTTTTA--A-TTTTAAA
4316830 AATTTTAATATGTTTTTTAATTTTAAA
1 AATTTTAATA--TTTTTTAATTTTAAA
*
4316857 TAGGTTTTAATATTTTTTAATTATT--A
1 -A-ATTTTAATATTTTTTAATT-TTAAA
* ** *
4316883 TATTTT-ATATTTTACAATTTTAAT
1 AATTTTAATATTTTTTAATTTTAAA
* *
4316907 AATTTT-ATATCATTTTTAATATTTTAT
1 AATTTTAATAT--TTTTTAAT-TTTAAA
*
4316934 AATTTTTATGATTTTTTAAT
1 AATTTTAAT-ATTTTTTAAT
4316954 AATTTTTATG
Statistics
Matches: 102, Mismatches: 10, Indels: 25
0.74 0.07 0.18
Matches are distributed among these distances:
22 2 0.02
23 11 0.11
24 13 0.13
26 7 0.07
27 36 0.35
28 16 0.16
29 10 0.10
30 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (25 bp):
AATTTTAATATTTTTTAATTTTAAA
Found at i:4316926 original size:17 final size:17
Alignment explanation
Indices: 4316803--4316961 Score: 76
Period size: 19 Copynumber: 8.9 Consensus size: 17
4316793 GTTTATATCA
* *
4316803 ATTTTAATATTTTTTATT
1 ATTTT-ATAATTTTTAAT
* *
4316821 ATTTTTAAAAATTTTAAT
1 A-TTTTATAATTTTTAAT
* *
4316839 ATGTTTTTTAATTTTAAAT
1 A--TTTTATAATTTTTAAT
*
4316858 AGGTTTTAATATTTTTTAAT
1 A--TTTT-ATAATTTTTAAT
*
4316878 -TATTAT-A-TTTT-AT
1 ATTTTATAATTTTTAAT
*
4316891 ATTTTACAA-TTTTAAT
1 ATTTTATAATTTTTAAT
4316907 AATTTTATATCATTTTTAAT
1 -ATTTTATA--ATTTTTAAT
4316927 ATTTTATAATTTTTATGAT
1 ATTTTATAATTTTTA--AT
*
4316946 TTTTTAATAATTTTTA
1 ATTTT-ATAATTTTTA
4316962 TGGGAAACAT
Statistics
Matches: 109, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
13 2 0.02
14 8 0.07
15 5 0.05
16 4 0.04
17 17 0.16
18 10 0.09
19 37 0.34
20 26 0.24
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTATAATTTTTAAT
Found at i:4322281 original size:19 final size:19
Alignment explanation
Indices: 4322257--4322320 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
4322247 TGTTAAAATT
4322257 TATATAAAAATGAAGTTGG
1 TATATAAAAATGAAGTTGG
*** *
4322276 TATATACCTATGTTAAAATT--
1 TATATAAAAATG---AAGTTGG
4322296 TATATAAAAATGAAGTTGG
1 TATATAAAAATGAAGTTGG
4322315 TATATA
1 TATATA
4322321 CCTATTGTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
17 4 0.12
19 15 0.47
20 9 0.28
22 4 0.12
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (19 bp):
TATATAAAAATGAAGTTGG
Found at i:4322290 original size:39 final size:39
Alignment explanation
Indices: 4322244--4322330 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
4322234 AAATAACATG
4322244 CTATGTTAAAATTTATATAAAAATGAAGTTGGTATATAC
1 CTATGTTAAAATTTATATAAAAATGAAGTTGGTATATAC
4322283 CTATGTTAAAATTTATATAAAAATGAAGTTGGTATATAC
1 CTATGTTAAAATTTATATAAAAATGAAGTTGGTATATAC
4322322 CTATTGTTA
1 CTA-TGTTA
4322331 TATACTACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 42 0.89
40 5 0.11
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (39 bp):
CTATGTTAAAATTTATATAAAAATGAAGTTGGTATATAC
Found at i:4325489 original size:26 final size:25
Alignment explanation
Indices: 4325460--4325516 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
4325450 CATGTTTTCC
*
4325460 TATTTTTATTATTTAAAATAAATTTT
1 TATTTTTATT-TATAAAATAAATTTT
* * *
4325486 TATTTCTATTTATCAAATAAGTTTT
1 TATTTTTATTTATAAAATAAATTTT
4325511 T-TTTTT
1 TATTTTT
4325517 CAATTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 4 0.15
25 13 0.50
26 9 0.35
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTTTTATTTATAAAATAAATTTT
Found at i:4325528 original size:25 final size:24
Alignment explanation
Indices: 4325470--4325528 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 24
4325460 TATTTTTATT
*
4325470 ATTT-AAAATAAATTTTTATTTCT
1 ATTTAAAAATAAATTTTTATTTCA
* * *
4325493 ATTTATCAAATAAGTTTTTTTTTTCA
1 ATTTA-AAAATAA-ATTTTTATTTCA
4325519 ATTTAAAAAT
1 ATTTAAAAAT
4325529 GTAAAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 4 0.14
25 10 0.36
26 14 0.50
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTAAAAATAAATTTTTATTTCA
Found at i:4326581 original size:21 final size:19
Alignment explanation
Indices: 4326557--4326599 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4326547 GATTTAATAG
4326557 TTTCTAGGCAATTCTTCATGT
1 TTTCTAGG-AA-TCTTCATGT
* *
4326578 TTTCTTGGAATGTTCATGT
1 TTTCTAGGAATCTTCATGT
4326597 TTT
1 TTT
4326600 TAAGACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 2 0.10
21 7 0.35
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.53
Consensus pattern (19 bp):
TTTCTAGGAATCTTCATGT
Found at i:4329945 original size:48 final size:48
Alignment explanation
Indices: 4329893--4329995 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
4329883 TATTTTAATA
* * * * *
4329893 TTATATATATTT-ATACTTTTATACTT-TTCTATAAATTTTGTCTAATTT
1 TTATAAATATTTGATAATTTT-TAATTCTTCTA-AAATTTTATATAATTT
* *
4329941 TTATAAATTTTTGATAATTTTTAATTCTTTTAAAATTTTATATAATTT
1 TTATAAATATTTGATAATTTTTAATTCTTCTAAAATTTTATATAATTT
4329989 TTATAAA
1 TTATAAA
4329996 AAAATAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 35 0.76
49 11 0.24
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (48 bp):
TTATAAATATTTGATAATTTTTAATTCTTCTAAAATTTTATATAATTT
Found at i:4329949 original size:10 final size:10
Alignment explanation
Indices: 4329917--4329995 Score: 53
Period size: 10 Copynumber: 8.0 Consensus size: 10
4329907 ACTTTTATAC
4329917 TTTTCTATAAA
1 TTTT-TATAAA
*
4329928 TTTTGTCT-AA
1 TTTT-TATAAA
4329938 TTTTTATAAA
1 TTTTTATAAA
4329948 TTTTTGAT-AA
1 TTTTT-ATAAA
4329958 -TTTT-T-AA
1 TTTTTATAAA
4329965 TTCTTT-TAAA
1 TT-TTTATAAA
*
4329975 ATTTTATATAA
1 TTTTTATA-AA
4329986 TTTTTATAAA
1 TTTTTATAAA
4329996 AAAATAATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
7 3 0.05
8 1 0.02
9 13 0.23
10 22 0.39
11 17 0.30
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:4329958 original size:20 final size:20
Alignment explanation
Indices: 4329912--4329963 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
4329902 TTTATACTTT
*
4329912 TATACTTTTCTATAAATTTTG
1 TATAATTTT-TATAAATTTTG
*
4329933 TCTAATTTTTATAAATTTT-
1 TATAATTTTTATAAATTTTG
4329952 TGATAATTTTTA
1 T-ATAATTTTTA
4329964 ATTCTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (20 bp):
TATAATTTTTATAAATTTTG
Found at i:4342080 original size:62 final size:62
Alignment explanation
Indices: 4341958--4342078 Score: 190
Period size: 62 Copynumber: 2.0 Consensus size: 62
4341948 AACTACGTCA
* *
4341958 AGAA-ACATAAAAGGTAAAAAAATAGAAAATCAATCTTTTTACTTTTTTTGTGTTTTTTTAG
1 AGAATACATAAAAGGTAAAAAAATAGAAAATCAATATTTTTACTTTTTTTATGTTTTTTTAG
* *
4342019 AGAATACATAAAAGGTAAAAATATAGAAAATCAATATTTTTATTTTTTTTTATGTTTTTT
1 AGAATACATAAAAGGTAAAAAAATAGAAAATCAATATTTTTA-CTTTTTTTATGTTTTTT
4342079 AGGGAATGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 4 0.07
62 35 0.65
63 15 0.28
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (62 bp):
AGAATACATAAAAGGTAAAAAAATAGAAAATCAATATTTTTACTTTTTTTATGTTTTTTTAG
Found at i:4355078 original size:27 final size:27
Alignment explanation
Indices: 4355041--4355101 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
4355031 TTGGTGCAGA
**
4355041 ATCATCATCATTTTCAACAACAGCAAC
1 ATCATCATCATCATCAACAACAGCAAC
**
4355068 ATCATCATCATCATCTGCAACAGCAAC
1 ATCATCATCATCATCAACAACAGCAAC
*
4355095 AACATCA
1 ATCATCA
4355102 ACAGCAGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.31, G:0.05, T:0.23
Consensus pattern (27 bp):
ATCATCATCATCATCAACAACAGCAAC
Found at i:4357927 original size:90 final size:91
Alignment explanation
Indices: 4357651--4357908 Score: 473
Period size: 91 Copynumber: 2.8 Consensus size: 91
4357641 TTAAATGTAT
4357651 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
4357716 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
*
4357742 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTTATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
4357807 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
4357833 AAATTA-ATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
4357897 GAAAATTTATTA
66 GAAAATTTATTA
4357909 GGTATAATTA
Statistics
Matches: 162, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 66 0.41
91 96 0.59
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:4358084 original size:15 final size:15
Alignment explanation
Indices: 4358049--4358090 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4358039 TTAAGAATTT
*
4358049 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4358063 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4358077 TATTTAATAATAAT
1 TATTTAATTATAAT
4358091 TATGCTAAAT
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:4358186 original size:16 final size:16
Alignment explanation
Indices: 4358165--4358210 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4358155 TTATTAAATT
4358165 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
4358181 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
4358196 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
4358211 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:4358293 original size:16 final size:16
Alignment explanation
Indices: 4358272--4358313 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4358262 TTATTAAATT
*
4358272 ATATATTTTAATTATA
1 ATATATTTTAATAATA
4358288 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
4358303 AT-TATGTTTAA
1 ATATAT-TTTAA
4358314 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:4358298 original size:15 final size:15
Alignment explanation
Indices: 4358263--4358304 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4358253 TTAAGAATTT
*
4358263 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4358277 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4358291 TATTTAATAATAAT
1 TATTTAATTATAAT
4358305 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:4358309 original size:107 final size:107
Alignment explanation
Indices: 4357993--4358315 Score: 601
Period size: 107 Copynumber: 3.0 Consensus size: 107
4357983 TATTTTATAG
* *
4357993 TATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
4358058 ATATATTTTAATTATAATATATTTAATAATAATTATGCTAAAT
65 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
4358101 TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
4358166 TATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
4358208 TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
4358273 TATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
4358316 ATGATTAAAT
Statistics
Matches: 211, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
107 201 0.95
108 10 0.05
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (107 bp):
TATCTATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:4358539 original size:45 final size:44
Alignment explanation
Indices: 4358458--4358548 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
4358448 ACCTTTATTC
*
4358458 CATTCAACCAAACACAGGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAGGATTACTATTACACCTCTATTCCATTA
*** *
4358502 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCCATTA
4358547 CA
1 CA
4358549 CCTCTAATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAGGATTACTATTACACCTCTATTCCATTA
Found at i:4359945 original size:16 final size:17
Alignment explanation
Indices: 4359892--4359949 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
4359882 TACGTTTATT
*
4359892 TTATTTAAATTAAGATTTA
1 TTATTT-AATTTA-ATTTA
* *
4359911 TTTTTTAATTTAATGTA
1 TTATTTAATTTAATTTA
*
4359928 TTATTT-ATTTATTTTA
1 TTATTTAATTTAATTTA
4359944 TTATTT
1 TTATTT
4359950 TTCACATGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 14 0.42
17 9 0.27
18 5 0.15
19 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTATTTAATTTAATTTA
Found at i:4367824 original size:50 final size:50
Alignment explanation
Indices: 4367708--4368004 Score: 468
Period size: 50 Copynumber: 5.9 Consensus size: 50
4367698 TGATAATAAC
* **
4367708 GTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCG
1 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCG
* * * *
4367759 GTGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCG
1 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
4367809 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
4367859 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCG
1 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
4367909 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAAG
1 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC--G
* *
4367961 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 G-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4368005 TTACCCAAAT
Statistics
Matches: 229, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
50 153 0.67
51 34 0.15
52 2 0.01
53 40 0.17
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:4368378 original size:29 final size:30
Alignment explanation
Indices: 4368340--4368399 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4368330 GCCCCCGACT
*
4368340 CTAAA-TTTTTCAAAATTACAATTTTGCCC
1 CTAAACTTTTGCAAAATTACAATTTTGCCC
* *
4368369 CTAAACTTTTGCATAATTACATTTTTGCCC
1 CTAAACTTTTGCAAAATTACAATTTTGCCC
4368399 C
1 C
4368400 AAGGCTCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (30 bp):
CTAAACTTTTGCAAAATTACAATTTTGCCC
Found at i:4369708 original size:42 final size:41
Alignment explanation
Indices: 4369640--4369779 Score: 156
Period size: 42 Copynumber: 3.3 Consensus size: 41
4369630 GTGCTAATCA
* **
4369640 GAAACCCATAAGGGTTGAAC-GAAAGCTCGTAAGAGCAGAACG
1 GAAACCCATAAGGGTTAAACTG-AAGCTCAAAAGAGCA-AACG
*
4369682 GAAACCCATAAGGGTTCAACTGAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGC-AAACG
** * *
4369724 GAAACCCATTGGGGTTAAAGTGAAGCTCAAAAGAGTTAAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAG-CAAACG
4369766 GAAACCCATTAAGG
1 GAAACCCA-TAAGG
4369780 TTATAGTTAG
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 79 0.94
43 5 0.06
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCAAACG
Found at i:4369782 original size:21 final size:21
Alignment explanation
Indices: 4369718--4369782 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
4369708 TCAAAAGAGC
**
4369718 TAAACGGAAACCCATTGGGGT
1 TAAACGGAAACCCATTAAGGT
* * *
4369739 TAAA-GTGAAGCTCA-AAAGAGT
1 TAAACG-GAAACCCATTAAG-GT
4369760 TAAACGGAAACCCATTAAGGT
1 TAAACGGAAACCCATTAAGGT
4369781 TA
1 TA
4369783 TAGTTAGCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (21 bp):
TAAACGGAAACCCATTAAGGT
Found at i:4369831 original size:32 final size:32
Alignment explanation
Indices: 4369790--4369859 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
4369780 TTATAGTTAG
4369790 CTGAAGCTCATGAGAACTAAAAGAAAAGTAAA
1 CTGAAGCTCATGAGAACTAAAAGAAAAGTAAA
*
4369822 CTGAAGCTCATGAGAACTAAATGAAAAGTAAA
1 CTGAAGCTCATGAGAACTAAAAGAAAAGTAAA
4369854 CATGAA
1 C-TGAA
4369860 AGTTCGCAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 32 0.89
33 4 0.11
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (32 bp):
CTGAAGCTCATGAGAACTAAAAGAAAAGTAAA
Found at i:4372200 original size:11 final size:11
Alignment explanation
Indices: 4372186--4372212 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4372176 TATACTAAAT
4372186 ATAATAATTAA
1 ATAATAATTAA
4372197 ATAATAATTAA
1 ATAATAATTAA
4372208 ATAAT
1 ATAAT
4372213 TAAAAAAATT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATAATTAA
Found at i:4373550 original size:11 final size:11
Alignment explanation
Indices: 4373495--4373520 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4373485 ATTTTTTTAA
4373495 TTTTAAAATAT
1 TTTTAAAATAT
4373506 TTTTAAAATAT
1 TTTTAAAATAT
4373517 TTTT
1 TTTT
4373521 TTAATTATTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:4373551 original size:12 final size:12
Alignment explanation
Indices: 4373495--4373535 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
4373485 ATTTTTTTAA
4373495 TTTTAAAATA-T
1 TTTTAAAATATT
4373506 TTTTAAAATATT
1 TTTTAAAATATT
* *
4373518 TTTTTAATTATT
1 TTTTAAAATATT
4373530 TTTTAA
1 TTTTAA
4373536 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAAAATATT
Found at i:4376560 original size:24 final size:24
Alignment explanation
Indices: 4376526--4376577 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4376516 TTTCTAGAAA
* *
4376526 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
* *
4376550 ATTTAGCATTTATTAGCATAATCT
1 ATTTAGCATTTATGAGCATAATAT
4376574 ATTT
1 ATTT
4376578 GAATTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:4376588 original size:24 final size:24
Alignment explanation
Indices: 4376526--4376589 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
4376516 TTTCTAGAAA
* * *
4376526 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGCATAATAT
* *
4376550 ATTTAGCATTTATTAGCATAATCT
1 ATTTAGAATTTATTAGCATAATAT
4376574 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
4376590 AATTAGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAGAATTTATTAGCATAATAT
Found at i:4384750 original size:24 final size:24
Alignment explanation
Indices: 4384723--4384774 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4384713 TTAGTAAGTC
*
4384723 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4384747 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4384771 AAAT
1 AAAT
4384775 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4385004 original size:30 final size:30
Alignment explanation
Indices: 4384970--4385032 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
4384960 ACTTAACAAG
*
4384970 CAAATACCTCTAAAATAATAACAAAACTAA
1 CAAATACATCTAAAATAATAACAAAACTAA
** * * *
4385000 CAAATGTATTTAAAATAATAATAAAATTAA
1 CAAATACATCTAAAATAATAACAAAACTAA
4385030 CAA
1 CAA
4385033 TAAAATAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACATCTAAAATAATAACAAAACTAA
Found at i:4388464 original size:31 final size:30
Alignment explanation
Indices: 4388423--4388512 Score: 85
Period size: 36 Copynumber: 2.9 Consensus size: 30
4388413 TTTACTATTA
*
4388423 AATATT-TATAAATTTTAAAATATATTTAT
1 AATATTATATAAATTTTAAAATATATTAAT
*
4388452 TATATTAATATAAATATTTTTCAATAATATATTAAT
1 AATATT-ATAT-AA-A-TTTT-AA-AATATATTAAT
*
4388488 AATATTATATAAAATTTAAAA-ATAT
1 AATATTATATAAATTTTAAAATATAT
4388513 CATTGTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
29 9 0.18
30 2 0.04
31 5 0.10
32 5 0.10
33 2 0.04
34 6 0.12
35 6 0.12
36 15 0.30
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
AATATTATATAAATTTTAAAATATATTAAT
Found at i:4388534 original size:55 final size:55
Alignment explanation
Indices: 4388475--4388585 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
4388465 ATATTTTTCA
4388475 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
1 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
*
4388530 ATAATATATTAATAATATTATATAAAATTTAAAAATATTATTGTTAAAATGTATT
1 ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
4388585 A
1 A
4388586 GTAAAAGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (55 bp):
ATAATATATTAATAATATTATATAAAATTTAAAAATATCATTGTTAAAATGTATT
Found at i:4389062 original size:19 final size:18
Alignment explanation
Indices: 4389016--4389071 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 18
4389006 TTATCAAAAA
*
4389016 ATAAAATTATTTTTTATT
1 ATAAAATTATTTTTCATT
4389034 ACTTATAAATTATTTTTCATT
1 A--TA-AAATTATTTTTCATT
4389055 GATAAAATTATTTTTCA
1 -ATAAAATTATTTTTCA
4389072 GGAACACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.39
20 4 0.12
21 14 0.42
22 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (18 bp):
ATAAAATTATTTTTCATT
Found at i:4389210 original size:18 final size:17
Alignment explanation
Indices: 4389178--4389211 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4389168 GTTGAAGATA
4389178 ATGATAATCTATATTAG
1 ATGATAATCTATATTAG
*
4389195 ATGATGAATGTATATTA
1 ATGAT-AATCTATATTA
4389212 TTTTTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (17 bp):
ATGATAATCTATATTAG
Found at i:4395283 original size:2 final size:2
Alignment explanation
Indices: 4395278--4395309 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4395268 TATACATGTA
4395278 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4395310 CATATATGTA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4396037 original size:27 final size:27
Alignment explanation
Indices: 4395976--4396038 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
4395966 ATTCTTCTCA
4395976 TATTTAA-AATTTAATCCATAACTTTT
1 TATTTAATAATTTAATCCATAACTTTT
*
4396002 TATTCTAATAATTTAGTCC-T-ACTCTTT
1 TATT-TAATAATTTAATCCATAACT-TTT
4396029 TGATTTAATA
1 T-ATTTAATA
4396039 TCATTTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 7 0.22
27 13 0.41
28 12 0.38
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (27 bp):
TATTTAATAATTTAATCCATAACTTTT
Found at i:4397063 original size:24 final size:24
Alignment explanation
Indices: 4396992--4397070 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
4396982 TTCCTAATTG
*
4396992 TTATAATTTTTATATATTTTTTAAT
1 TTATAATTTTTAT-TATTTTTTAAA
* *
4397017 TTGAAAATTTAACCTATTATTTTTTAAA
1 TT-ATAATTT---TTATTATTTTTTAAA
*
4397045 TTATAATTTTTATTATTTTTAAAA
1 TTATAATTTTTATTATTTTTTAAA
4397069 TT
1 TT
4397071 TTAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 15 0.34
25 2 0.05
26 6 0.14
27 6 0.14
28 12 0.27
29 3 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (24 bp):
TTATAATTTTTATTATTTTTTAAA
Found at i:4397328 original size:34 final size:34
Alignment explanation
Indices: 4397285--4397357 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
4397275 TAAAATAAAA
*
4397285 AAATTTGCTTATATACTTAATATTACAAGCATGG
1 AAATTTGCTTATATAATTAATATTACAAGCATGG
*
4397319 AAATTTGCTTATATAATTAATATTACATGCATGG
1 AAATTTGCTTATATAATTAATATTACAAGCATGG
4397353 AAATT
1 AAATT
4397358 CAGAGAAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (34 bp):
AAATTTGCTTATATAATTAATATTACAAGCATGG
Found at i:4399884 original size:20 final size:20
Alignment explanation
Indices: 4399854--4399891 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4399844 TTTATTTATT
4399854 TTTTCCAATTATATCATGTGA
1 TTTTCCAATTA-ATCATGTGA
4399875 TTTT-CAATTAATCATGT
1 TTTTCCAATTAATCATGT
4399892 TTAGTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTCCAATTAATCATGTGA
Found at i:4407223 original size:14 final size:15
Alignment explanation
Indices: 4407206--4407235 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4407196 CTTTATAAAA
4407206 AAATCTATTT-TTAT
1 AAATCTATTTGTTAT
4407220 AAATCTATTTGTTAT
1 AAATCTATTTGTTAT
4407235 A
1 A
4407236 TTTCAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATCTATTTGTTAT
Found at i:4415152 original size:3 final size:3
Alignment explanation
Indices: 4415131--4415179 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
4415121 ACCTTCCACT
* *
4415131 CCA CCA TCA CCA TCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
4415179 C
1 C
4415180 AACAATCACC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.63, G:0.00, T:0.04
Consensus pattern (3 bp):
CCA
Found at i:4421467 original size:18 final size:18
Alignment explanation
Indices: 4421444--4421479 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4421434 TTACTGCAGC
4421444 GGACAACTCGACCCGCGT
1 GGACAACTCGACCCGCGT
*
4421462 GGACAACTCGACCTGCGT
1 GGACAACTCGACCCGCGT
4421480 AGGGTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (18 bp):
GGACAACTCGACCCGCGT
Found at i:4424513 original size:6 final size:6
Alignment explanation
Indices: 4424502--4424528 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4424492 AGCTACTTTA
4424502 TTTTGG TTTTGG TTTTGG TTTTGG TTT
1 TTTTGG TTTTGG TTTTGG TTTTGG TTT
4424529 CAACGTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (6 bp):
TTTTGG
Found at i:4426604 original size:11 final size:11
Alignment explanation
Indices: 4426563--4426598 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
4426553 GAGAAATTTA
* *
4426563 AGAGGAAATTC
1 AGAGCAAATTG
4426574 AGAGCAAATTG
1 AGAGCAAATTG
4426585 AGAGCAAATTG
1 AGAGCAAATTG
4426596 AGA
1 AGA
4426599 TTAAATATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.08, G:0.28, T:0.17
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:4426695 original size:19 final size:19
Alignment explanation
Indices: 4426671--4426709 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4426661 AGAGGATTAC
*
4426671 TTTGTGAAAAAAAAATGTG
1 TTTGTGAAAAAAAAAGGTG
4426690 TTTGTGAAAAAAAAAGGTG
1 TTTGTGAAAAAAAAAGGTG
4426709 T
1 T
4426710 GGGTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
TTTGTGAAAAAAAAAGGTG
Found at i:4449058 original size:10 final size:9
Alignment explanation
Indices: 4449043--4449139 Score: 50
Period size: 10 Copynumber: 9.7 Consensus size: 9
4449033 ATTAAAGTAC
4449043 ATAAAAAGTT
1 ATAAAAA-TT
4449053 ATAAAAATTT
1 ATAAAAA-TT
*
4449063 AAACAAAATT
1 ATA-AAAATT
*
4449073 ATTAAAAATA
1 A-TAAAAATT
*
4449083 ATAAAAAAGT
1 AT-AAAAATT
*
4449093 ATAAATATT
1 ATAAAAATT
4449102 AGTAAGAAATT
1 A-TAA-AAATT
* *
4449113 CTAAAAATC
1 ATAAAAATT
4449122 ATTAAAACTATT
1 A-TAAAA--ATT
4449134 ATAAAA
1 ATAAAA
4449140 TATTTTAGGA
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
9 11 0.17
10 38 0.58
11 14 0.21
12 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4450610 original size:13 final size:13
Alignment explanation
Indices: 4450570--4450618 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
4450560 ACACTAAAAT
*
4450570 TTTTCAAAAGCAC
1 TTTTCAAAAGTAC
* * *
4450583 TTTTCCACAGCAC
1 TTTTCAAAAGTAC
*
4450596 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
4450609 TTTTCAAAAG
1 TTTTCAAAAG
4450619 CAATGAAGAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:4450620 original size:26 final size:27
Alignment explanation
Indices: 4450569--4450620 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
4450559 AACACTAAAA
* *
4450569 TTTTTCAAAAGCACTTTTCCACAGCAC
1 TTTTTCAAAAGCACTTTTCAAAAGCAC
*
4450596 TTTTT-AAAAGTACTTTTCAAAAGCA
1 TTTTTCAAAAGCACTTTTCAAAAGCA
4450621 ATGAAGAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (27 bp):
TTTTTCAAAAGCACTTTTCAAAAGCAC
Found at i:4466262 original size:22 final size:22
Alignment explanation
Indices: 4466234--4466277 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4466224 CCAGTAAGTT
4466234 AGAACGCGATTTTTTAAATCTC
1 AGAACGCGATTTTTTAAATCTC
4466256 AGAACGCGATTTTTTAAATCTC
1 AGAACGCGATTTTTTAAATCTC
4466278 GAGATTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (22 bp):
AGAACGCGATTTTTTAAATCTC
Found at i:4466862 original size:22 final size:23
Alignment explanation
Indices: 4466837--4466892 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
4466827 TATACGAAAG
4466837 TTATAAAATAAAAGTATG-TATA
1 TTATAAAATAAAAGTATGATATA
*
4466859 TTATATAAA-AAATGTATGCATATA
1 TTATA-AAATAAAAGTATG-ATATA
*
4466883 TTTTAAAATA
1 TTATAAAATA
4466893 TGTATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TTATAAAATAAAAGTATGATATA
Found at i:4468485 original size:26 final size:29
Alignment explanation
Indices: 4468439--4468494 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
4468429 GGTTTTGGGC
4468439 TTGTTGGGTATTTGGGCTTGG-TT-TAAT
1 TTGTTGGGTATTTGGGCTTGGATTGTAAT
*
4468466 TTGTTGGGT-TTTGGGTTTGGATTGTAAT
1 TTGTTGGGTATTTGGGCTTGGATTGTAAT
4468494 T
1 T
4468495 GGGTTTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 10 0.38
27 11 0.42
28 5 0.19
ACGTcount: A:0.11, C:0.02, G:0.34, T:0.54
Consensus pattern (29 bp):
TTGTTGGGTATTTGGGCTTGGATTGTAAT
Found at i:4469142 original size:86 final size:86
Alignment explanation
Indices: 4469026--4469198 Score: 265
Period size: 86 Copynumber: 2.0 Consensus size: 86
4469016 AGATCTTAAA
* * * * * *
4469026 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTAC
1 TCTTCGATCTACTTCGCCGTCAATACAGGAAGACAAGATCTGTTATCTTCAACCAGCTCCACCAC
4469091 AACCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
* * *
4469112 TCTTCGATCTACTTCGCTGTCAATGCAGGAAGACAAGATCTTTTATCTTCAACCAGCTCCACCAC
1 TCTTCGATCTACTTCGCCGTCAATACAGGAAGACAAGATCTGTTATCTTCAACCAGCTCCACCAC
4469177 AACCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
4469198 T
1 T
4469199 GTCTTCAATC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (86 bp):
TCTTCGATCTACTTCGCCGTCAATACAGGAAGACAAGATCTGTTATCTTCAACCAGCTCCACCAC
AACCGAGAGAGGCAAGGTTTG
Found at i:4469249 original size:41 final size:43
Alignment explanation
Indices: 4469204--4469319 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 43
4469194 TTTGTGTCTT
4469204 CAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CC-TAATG
1 CAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTTAATG
* * * * *
4469245 CAATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTT
1 CAATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCC-TTAATG
* *
4469289 TAATCTGCTCCACTGTAATCTCAGGGAGATA
1 CAATCTGCTCCGCTGTAATCTCAGGGAGATA
4469320 GGATTACCGG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.02
41 29 0.48
42 2 0.03
44 27 0.45
45 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
CAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCCTTAATG
Found at i:4469454 original size:88 final size:88
Alignment explanation
Indices: 4469330--4470011 Score: 981
Period size: 88 Copynumber: 7.8 Consensus size: 88
4469320 GGATTACCGG
* * * * * *
4469330 CTTCAATCTGCTCCGCTGTCAATGCAAGAAGGCAAGATCTGTTGTCTTTAACCAGCTCTA-CTAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-AC
4469394 AATCGAGAGAGGCAAGGTTTGTGT
65 AATCGAGAGAGGCAAGGTTTGTGT
* * * * *
4469418 ATTTGATCTGCTTCGCTATCAATGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
* * *
4469483 ACCGAAAGAGGCAAGGTTCGTGT
66 ATCGAGAGAGGCAAGGTTTGTGT
* * * * * *
4469506 ATTTGATCTGCTTCGCTATCAACGCAGGAAGGCAAAATCTGTTGTCTTCAACCAGCTCCA-CTAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-AC
* *
4469570 AACCAAGAGAGGCAAGGTTTGTGT
65 AATCGAGAGAGGCAAGGTTTGTGT
* *
4469594 CTTCGATCTACTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
*
4469659 ATCGAAAGAGGCAAGGTTTGTGT
66 ATCGAGAGAGGCAAGGTTTGTGT
* *
4469682 CTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
*
4469747 ACCGAGAGAGGCAAGGTTTGTGT
66 ATCGAGAGAGGCAAGGTTTGTGT
* * * *
4469770 CTTCGATCTGCCTCGCTGTCAATACGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
4469835 ATCGAGAGAGGCAAGGTTTGTGT
66 ATCGAGAGAGGCAAGGTTTGTGT
* * * *
4469858 CTTCGACCTGTTTCGCTGTCAATTCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
4469923 ATCGAGAGAGGCAAGGTTTGTGT
66 ATCGAGAGAGGCAAGGTTTGTGT
* * *
4469946 CTTCGACCTACTTCGCTGTCAATGCAGGAAGACAAGATCTTTTGTCTTCAACCAGCTCCATCACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
4470011 A
66 A
4470012 CCTAATTCAA
Statistics
Matches: 537, Mismatches: 54, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
87 1 0.00
88 534 0.99
89 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (88 bp):
CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACA
ATCGAGAGAGGCAAGGTTTGTGT
Found at i:4469642 original size:45 final size:44
Alignment explanation
Indices: 4469591--4469994 Score: 112
Period size: 44 Copynumber: 9.2 Consensus size: 44
4469581 GCAAGGTTTG
* *
4469591 TGTCTTCGATCTACTTCGCTGTCAATGTAGGAAGGCAAGATCTTT
1 TGTCTTCGAACTACTTC-CTGTCAATGAAGGAAGGCAAGATCTTT
* ** * * *
4469636 TGTCTTC-AACCAGC-TCCATCACAATCGAAAG-AGGCAAGGT-TTG
1 TGTCTTCGAACTA-CTTCC-TGTCAAT-GAAGGAAGGCAAGATCTTT
* * *
4469679 TGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTT
1 TGTCTTCGAACTACTTC-CTGTCAATGAAGGAAGGCAAGATCTTT
* ** * * *
4469724 TGTCTTC-AACCAGC-TCCATCACAACCG-A-GAGAGGCAAGGT-TTG
1 TGTCTTCGAACTA-CTTCC-TGTCAA-TGAAGGA-AGGCAAGATCTTT
* * * *
4469767 TGTCTTCGATCTGCCTCGCTGTCAAT-ACGGGAAGGCAAGATCTTT
1 TGTCTTCGAACTACTTC-CTGTCAATGA-AGGAAGGCAAGATCTTT
* * * *
4469812 TGTCTTC-AACCAGC-T-CTATCACAATCG-A-GAGAGGCAAGGT-TTG
1 TGTCTTCGAACTA-CTTCCTGT--CAAT-GAAGGA-AGGCAAGATCTTT
* ** **
4469855 TGTCTTCGACCTGTTTCGCTGTCAATTCAGGAAGGCAAGATCTTT
1 TGTCTTCGAACTACTTC-CTGTCAATGAAGGAAGGCAAGATCTTT
* * ** * *
4469900 TATCTTC-AACCAGC-TCCATCACAATCG-A-GAGAGGCAAGGT-TTG
1 TGTCTTCGAACTA-CTTCC-TGTCAAT-GAAGGA-AGGCAAGATCTTT
* * *
4469943 TGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGACAAGATCTTT
1 TGTCTTCGAACTACTTC-CTGTCAATGAAGGAAGGCAAGATCTTT
4469988 TGTCTTC
1 TGTCTTC
4469995 AACCAGCTCC
Statistics
Matches: 250, Mismatches: 67, Indels: 84
0.62 0.17 0.21
Matches are distributed among these distances:
42 3 0.01
43 51 0.20
44 135 0.54
45 58 0.23
46 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
TGTCTTCGAACTACTTCCTGTCAATGAAGGAAGGCAAGATCTTT
Found at i:4471760 original size:6 final size:6
Alignment explanation
Indices: 4471748--4471803 Score: 85
Period size: 6 Copynumber: 9.2 Consensus size: 6
4471738 ATAAATATAT
* *
4471748 ATTTTA TTTTTA TTTTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
1 ATTTTA ATTTTA -ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
4471797 ATTTTA A
1 ATTTTA A
4471804 AATATTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
6 41 0.87
7 6 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:4471836 original size:14 final size:14
Alignment explanation
Indices: 4471817--4471860 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
4471807 ATTTTAAAAA
*
4471817 TATTTTTATTTTTT
1 TATTTTTAATTTTT
4471831 TATTTTTAATTTTT
1 TATTTTTAATTTTT
4471845 TATTTTTAAATTTTT
1 TATTTTT-AATTTTT
4471860 T
1 T
4471861 TTTGTGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TATTTTTAATTTTT
Found at i:4471858 original size:7 final size:7
Alignment explanation
Indices: 4471749--4471859 Score: 67
Period size: 6 Copynumber: 16.6 Consensus size: 7
4471739 TAAATATATA
4471749 TTTT-AT
1 TTTTAAT
*
4471755 TTTTATT
1 TTTTAAT
4471762 TTTTAA-
1 TTTTAAT
4471768 TTTTAA-
1 TTTTAAT
4471774 TTTTAA-
1 TTTTAAT
4471780 TTTTAA-
1 TTTTAAT
4471786 TTTTAA-
1 TTTTAAT
4471792 TTTTAAT
1 TTTTAAT
*
4471799 TTTAAAAT
1 TTT-TAAT
4471807 ATTTTAA-
1 -TTTTAAT
***
4471814 AAAT-AT
1 TTTTAAT
*
4471820 TTTTATT
1 TTTTAAT
*
4471827 TTTTTAT
1 TTTTAAT
4471834 TTTTAAT
1 TTTTAAT
*
4471841 TTTTTAT
1 TTTTAAT
4471848 TTTTAAAT
1 TTTT-AAT
4471856 TTTT
1 TTTT
4471860 TTTTGTGTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
5 1 0.01
6 36 0.44
7 31 0.38
8 11 0.13
9 3 0.04
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTAAT
Found at i:4474337 original size:9 final size:9
Alignment explanation
Indices: 4474325--4474375 Score: 57
Period size: 9 Copynumber: 5.2 Consensus size: 9
4474315 AAATATATTT
4474325 ATTTTTAAA
1 ATTTTTAAA
*
4474334 ATTTTAAAA
1 ATTTTTAAA
4474343 TATTTTTAAAA
1 -ATTTTT-AAA
4474354 TACTTTTTAAA
1 -A-TTTTTAAA
4474365 ATTTTTAAA
1 ATTTTTAAA
4474374 AT
1 AT
4474376 AATTTTTTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 18 0.49
10 6 0.16
11 8 0.22
12 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:4474362 original size:12 final size:11
Alignment explanation
Indices: 4474324--4474382 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
4474314 TAAATATATT
4474324 TATTTTT-AAA
1 TATTTTTAAAA
4474334 -A-TTTTAAAA
1 TATTTTTAAAA
4474343 TATTTTTAAAA
1 TATTTTTAAAA
4474354 TACTTTTT-AAA
1 TA-TTTTTAAAA
4474365 -ATTTTTAAAA
1 TATTTTTAAAA
4474375 TAATTTTT
1 T-ATTTTT
4474383 TGGTATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
8 4 0.10
9 9 0.21
10 5 0.12
11 13 0.31
12 11 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTTTAAAA
Done.