Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 340 of 356
Found at i:108811156 original size:21 final size:21
Alignment explanation
Indices: 108811130--108811210 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 21
108811120 AAACCCCAAT
108811130 ACCCTAAACCCTATAGACTAA
1 ACCCTAAACCCTATAGACTAA
* * *
108811151 ACCCTAAACCAAATACACAATACCCTAA
1 ACCCTAAACC--CT--A-TAGA-C-TAA
108811179 ACCCTAAACCCTATAGACTAA
1 ACCCTAAACCCTATAGACTAA
108811200 ACCCTAAACCC
1 ACCCTAAACCC
108811211 AATACCCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
21 24 0.51
22 1 0.02
23 3 0.06
24 1 0.02
25 1 0.02
26 3 0.06
27 1 0.02
28 13 0.28
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.16
Consensus pattern (21 bp):
ACCCTAAACCCTATAGACTAA
Found at i:108811183 original size:49 final size:48
Alignment explanation
Indices: 108811107--108811229 Score: 169
Period size: 49 Copynumber: 2.5 Consensus size: 48
108811097 ATTAATCCCA
*
108811107 AAACCAATACACTAA-ACCCCAATACCCTAAACCCTATAGACTAAACCCT
1 AAACCAATACAC-AATACCCTAA-ACCCTAAACCCTATAGACTAAACCCT
108811156 AAACCAAATACACAATACCCTAAACCCTAAACCCTATAGACTAAACCCT
1 AAACC-AATACACAATACCCTAAACCCTAAACCCTATAGACTAAACCCT
* *
108811205 AAACCCAATACCCAGT-CCCTAAACC
1 AAA-CCAATACACAATACCCTAAACC
108811230 TTATAAACCA
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
48 9 0.13
49 44 0.65
50 15 0.22
ACGTcount: A:0.45, C:0.37, G:0.02, T:0.15
Consensus pattern (48 bp):
AAACCAATACACAATACCCTAAACCCTAAACCCTATAGACTAAACCCT
Found at i:108811248 original size:41 final size:41
Alignment explanation
Indices: 108811180--108811258 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
108811170 ATACCCTAAA
* *
108811180 CCCTAAACCCTATAGACTAAACCCTAAACCCAATACCCAGT
1 CCCTAAACCCTATAAACCAAACCCTAAACCCAATACCCAGT
* ** *
108811221 CCCTAAACCTTATAAACCAAATTCTAAACCCAGTACCC
1 CCCTAAACCCTATAAACCAAACCCTAAACCCAATACCC
108811259 TAAACCTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.39, C:0.38, G:0.04, T:0.19
Consensus pattern (41 bp):
CCCTAAACCCTATAAACCAAACCCTAAACCCAATACCCAGT
Found at i:108811669 original size:15 final size:15
Alignment explanation
Indices: 108811651--108811714 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
108811641 AAAATTTATT
* *
108811651 TTTAAGATTTTAGGG
1 TTTAAGATTTAAGAG
*
108811666 TTTATGATTTAAGAG
1 TTTAAGATTTAAGAG
* *
108811681 TTTAGGATTT-ATAG
1 TTTAAGATTTAAGAG
* *
108811695 TTTAAGGTTTGAGA-
1 TTTAAGATTTAAGAG
108811709 TTTAAG
1 TTTAAG
108811715 GCCTATAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 17 0.43
15 23 0.57
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (15 bp):
TTTAAGATTTAAGAG
Found at i:108811679 original size:22 final size:22
Alignment explanation
Indices: 108811651--108811712 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
108811641 AAAATTTATT
* *
108811651 TTTAAGATTTTAGGGTTTAT-G
1 TTTAAGAGTTTAGGATTTATAG
108811672 ATTTAAGAGTTTAGGATTTATAG
1 -TTTAAGAGTTTAGGATTTATAG
108811695 TTTAAG-GTTT-GAGATTTA
1 TTTAAGAGTTTAG-GATTTA
108811713 AGGCCTATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 1 0.03
21 10 0.28
22 24 0.67
23 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (22 bp):
TTTAAGAGTTTAGGATTTATAG
Found at i:108814949 original size:6 final size:6
Alignment explanation
Indices: 108814938--108814980 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
108814928 GTTGAAGCTT
*
108814938 TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTGCCT TTGCCC T
1 TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC T
108814981 ATCGATGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.47, G:0.16, T:0.37
Consensus pattern (6 bp):
TTGCCC
Found at i:108817588 original size:72 final size:72
Alignment explanation
Indices: 108817466--108817606 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
108817456 GAGGAAAAGT
* * * *
108817466 ACCATTTAATTGATTATCTGTAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCACTTAATTGATTATCTGAAACATCAAAGAAATACAAAGATGATAACTCCCCTATAGACAATG
108817531 GAATTTG
66 GAATTTG
* * *
108817538 ACCACTTAATTGATTTTCT-AAAGCATCAAAGAAATACAAAGATGATAACTCCCCTATGGACACT
1 ACCACTTAATTGATTATCTGAAA-CATCAAAGAAATACAAAGATGATAACTCCCCTATAGACAAT
108817602 GGAAT
65 GGAAT
108817607 GGGACCAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 2 0.03
72 59 0.97
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (72 bp):
ACCACTTAATTGATTATCTGAAACATCAAAGAAATACAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:108826610 original size:23 final size:20
Alignment explanation
Indices: 108826554--108826618 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 20
108826544 TTGCACCTCC
108826554 CACCATTTTTGACTTTTCAA
1 CACCATTTTTGACTTTTCAA
108826574 CACCATTTTTGAC-TTTCAA
1 CACCATTTTTGACTTTTCAA
108826593 CACCTACCTTATTTGACTTTTCAA
1 CACC-A--TT-TTTGACTTTTCAA
108826617 CA
1 CA
108826619 ATCTCCACCT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.25
20 14 0.35
22 2 0.05
23 6 0.15
24 8 0.20
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.42
Consensus pattern (20 bp):
CACCATTTTTGACTTTTCAA
Found at i:108828550 original size:21 final size:21
Alignment explanation
Indices: 108828524--108828564 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108828514 ATCTGCTCAA
* *
108828524 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
108828545 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
108828565 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:108842625 original size:21 final size:21
Alignment explanation
Indices: 108842599--108842639 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108842589 AGACGAGCAA
* *
108842599 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
108842620 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
108842640 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:108844576 original size:16 final size:16
Alignment explanation
Indices: 108844543--108844576 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
108844533 GGAGATTGTT
* *
108844543 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
108844559 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
108844575 AA
1 AA
108844577 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:108854342 original size:24 final size:24
Alignment explanation
Indices: 108854310--108854359 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
108854300 AATACAATTA
108854310 AACACAATCACATATTATCAAAGC
1 AACACAATCACATATTATCAAAGC
108854334 AACACAATCACATATTATCAAAGC
1 AACACAATCACATATTATCAAAGC
108854358 AA
1 AA
108854360 GCTTGAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.24, G:0.04, T:0.20
Consensus pattern (24 bp):
AACACAATCACATATTATCAAAGC
Found at i:108875842 original size:10 final size:10
Alignment explanation
Indices: 108875827--108875878 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
108875817 TAATTTTAGG
108875827 ATTTATTTTT
1 ATTTATTTTT
*
108875837 ATTTATCTTT
1 ATTTATTTTT
*
108875847 ATTTATCTTT
1 ATTTATTTTT
*
108875857 ATTTATTTGT
1 ATTTATTTTT
108875867 ATTTATCTTTT
1 ATTTAT-TTTT
108875878 A
1 A
108875879 CAATTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 33 0.89
11 4 0.11
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:108876801 original size:12 final size:12
Alignment explanation
Indices: 108876784--108876816 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
108876774 CTACTTCCCC
108876784 TTTACTATTATT
1 TTTACTATTATT
108876796 TTTACTATTATT
1 TTTACTATTATT
108876808 TTTACTATT
1 TTTACTATT
108876817 TTATAGGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTACTATTATT
Found at i:108885687 original size:5 final size:5
Alignment explanation
Indices: 108885677--108885744 Score: 66
Period size: 5 Copynumber: 13.0 Consensus size: 5
108885667 ACAACCTAAT
* * *
108885677 TTTTA TTTTA TTTTA GTTTA TTTTA TTTTTA TTTATT TTTTC TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT-TA TTTTA TT-TTA
108885725 TTTTA TTTT- TTCTTA TTTTA
1 TTTTA TTTTA TT-TTA TTTTA
108885745 AAATATTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
4 2 0.04
5 36 0.68
6 15 0.28
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:108885698 original size:15 final size:14
Alignment explanation
Indices: 108885678--108885744 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 14
108885668 CAACCTAATT
108885678 TTTATTTTATTTTA
1 TTTATTTTATTTTA
108885692 GTTTATTTTATTTTTA
1 -TTTATTTTA-TTTTA
108885708 TTTATTTT-TTCTTA
1 TTTATTTTATT-TTA
*
108885722 -TTATTTTATTTTT
1 TTTATTTTATTTTA
108885735 TCTTATTTTA
1 T-TTATTTTA
108885745 AAATATTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
13 11 0.24
14 5 0.11
15 25 0.54
16 5 0.11
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:108885751 original size:28 final size:28
Alignment explanation
Indices: 108885694--108885752 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
108885684 TTATTTTAGT
****
108885694 TTATTTTATTTTTATTTATTTTTTCTTA
1 TTATTTTATTTTTATTTATTTTAAAATA
108885722 TTATTTTATTTTT-TCTTATTTTAAAATA
1 TTATTTTATTTTTAT-TTATTTTAAAATA
108885750 TTA
1 TTA
108885753 ATAAAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (28 bp):
TTATTTTATTTTTATTTATTTTAAAATA
Found at i:108887339 original size:20 final size:20
Alignment explanation
Indices: 108887314--108887353 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
108887304 TAATTTTAGG
108887314 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
108887334 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
108887354 TACAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:108893066 original size:26 final size:26
Alignment explanation
Indices: 108893034--108893083 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
108893024 ATAAGGAAAA
*
108893034 TTTACAAATTTTTCATCTTCACAATT
1 TTTACAAATTTTACATCTTCACAATT
108893060 TTTACAAATTTTACATCTTCACAA
1 TTTACAAATTTTACATCTTCACAA
108893084 AAAATATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTACAAATTTTACATCTTCACAATT
Found at i:108898733 original size:69 final size:69
Alignment explanation
Indices: 108898594--108898744 Score: 167
Period size: 69 Copynumber: 2.2 Consensus size: 69
108898584 TCGTTTTCTT
* * * * *
108898594 CAAGAAAAAGAGCCCCCTGTTGCTGGAAAAAAAAAACCGTCTGAAATGCTAAATAAACGACTTCT
1 CAAGAAAAAGAGCCACCTGTCGCTGGAAAAAAAAAACCGTCAGAAACGCTAAATAAACGACCTCT
108898659 ACTC
66 ACTC
* ** * * * * *
108898663 CAAGAAAAAGAGCCACCTGTCGCTGGACACGAAGAGCCGTCAGAAACGCTAGATCAACTACCTCT
1 CAAGAAAAAGAGCCACCTGTCGCTGGAAAAAAAAAACCGTCAGAAACGCTAAATAAACGACCTCT
*
108898728 CCTC
66 ACTC
*
108898732 CAAGGAAAAGAGC
1 CAAGAAAAAGAGC
108898745 GACATGTTCC
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.15
Consensus pattern (69 bp):
CAAGAAAAAGAGCCACCTGTCGCTGGAAAAAAAAAACCGTCAGAAACGCTAAATAAACGACCTCT
ACTC
Found at i:108898863 original size:69 final size:68
Alignment explanation
Indices: 108898770--108898967 Score: 256
Period size: 69 Copynumber: 2.9 Consensus size: 68
108898760 GTAAAGAGCG
* * *
108898770 GGAAATGCTAGATAAACAAGGTCGAAACCAAGAAAATGAGCTCCATGTTACCGGACATGAAGAGC
1 GGAAATGCTAGATAAAC-ACGTCGAATCCAAGAAAATGAGCTCCATGTTACTGGACATGAAGAGC
108898835 CATC
65 CATC
* *
108898839 GGAAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGA-TGGACATGAAGAG
1 GGAAATGCTAGATAAAC-ACGTCGAATCCAAGAAAATGAGCTCCATGTT-ACTGGACATGAAGAG
*
108898903 CCCTC
64 CCATC
* * *
108898908 GGAAATACTAGATCAACAGCGTC-AACTCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
1 GGAAATGCTAGATAAACA-CGTCGAA-TCCAAGAAAATGAGCTCCATGTTACTGGACATGA
108898968 GCTAGATAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
68 2 0.02
69 110 0.97
70 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (68 bp):
GGAAATGCTAGATAAACACGTCGAATCCAAGAAAATGAGCTCCATGTTACTGGACATGAAGAGCC
ATC
Found at i:108899033 original size:123 final size:123
Alignment explanation
Indices: 108898845--108899092 Score: 318
Period size: 123 Copynumber: 2.0 Consensus size: 123
108898835 CATCGGAAAT
** ** * *
108898845 GCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGATGGACATGAAGAGCCCTCGG
1 GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGACGGACATGAAGAGCCATCGG
* *
108898910 AAATACTAGATCAAC-AGCGTCAACTCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
66 AAATACTAGATAAACGA-CGTCAACTCCAAGAAAATGAGCTCCAAGTTGCTGGACATGA
* * * **
108898968 GCTAGATAAACTAGGTCGACTCCAAGAAAACAAAATCCATGTTTCCGGACATGAAGAGCCATCGG
1 GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGACGGACATGAAGAGCCATCGG
** * * *
108899033 AAATGTTAGATAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGTTGGTGGACATGA
66 AAATACTAGATAAACGACGTCAACTCCAAGAAAATGAGCTCCAAGTTGCTGGACATGA
108899091 GC
1 GC
108899093 AGCCATTAGA
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
123 105 0.99
124 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (123 bp):
GCTAAATAAACGACGTCGACTCCAAGAAAACAAAATCCATGTTGACGGACATGAAGAGCCATCGG
AAATACTAGATAAACGACGTCAACTCCAAGAAAATGAGCTCCAAGTTGCTGGACATGA
Found at i:108899130 original size:192 final size:192
Alignment explanation
Indices: 108898776--108899133 Score: 520
Period size: 192 Copynumber: 1.9 Consensus size: 192
108898766 AGCGGGAAAT
** **
108898776 GCTAGATAAACAAGGTCGAAACCAAGAAAATGAGCTCCATGTTACCGGACATGAAGAGCCATCGG
1 GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
* *
108898841 AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCATGTTGATGGACATGAAGAGCCC
66 AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGCCA
* *
108898906 TCGGAAATACTAGATCAACAGCGTCAACTCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
131 TCAGAAATACTAGATAAACAGCGTCAACTCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
* ** *
108898968 GCTAGATAAACTAGGTCGACTCCAAGAAAACAAAATCCATGTTTCCGGACATGAAGAGCCATCGG
1 GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
* * * *
108899033 AAATGTTAGATAAACGACGTCGACTCCTAGAAAATGAGCTCCAAGTTGGTGGACATG-AGCAGCC
66 AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAG-AGCC
* * * *
108899097 ATTAGAAATGCTAGATAAACGGCGTCGACTCCAAGAA
130 ATCAGAAATACTAGATAAACAGCGTCAACTCCAAGAA
108899134 CATATCGATG
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
191 2 0.01
192 143 0.99
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (192 bp):
GCTAGATAAACAAGGTCGAAACCAAGAAAACAAAATCCATGTTACCGGACATGAAGAGCCATCGG
AAATGCTAAATAAACGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGCCA
TCAGAAATACTAGATAAACAGCGTCAACTCCAAGAAAATGAGCTCCATGTTGCTGGACATGA
Found at i:108899181 original size:129 final size:128
Alignment explanation
Indices: 108899014--108900156 Score: 1081
Period size: 129 Copynumber: 8.9 Consensus size: 128
108899004 CCATGTTTCC
* * * * * *
108899014 GGACATGAAGAGCCATCGGAAATGTTAGATAAACGACGTCGACTCCTAGA-AAATGAGCTCCAAG
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAG
* * * *
108899078 TTGGTGGACATGAGCAGCCATTAGAAATGCTAGATAAACGGCGTCGACTCCAAGAACATATCGAT
65 TTGATGGACATGAG-AGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
108899143 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* * *
108899208 TGATGGACATGGACAGCCCTCAGAAATGCTAGATAAACAGCGTCAACTCAAAGAACATATCGAT
66 TGATGGACAT-GAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
*
108899272 GGGCACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* *
108899337 TGATGGACATGAAAAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
* * * *
108899401 AGACACAAAGAGCCCTTGGAAATGCTAGATAAAAGACGTCGACTGCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
108899466 TGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
* *
108899530 GGACACGAAGAGCCTTCGGAAATGCTAGATAAAAGACGTCGACTTCAAGAGAAAGAACTCCAAGT
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
*
108899595 TGATAGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
* * * * * * * *
108899659 CGACACGAAGAGACCTCGAAAATGCTAGATAAACGGCGTCGAAT-CAA-A-CAA-CA-T---A-T
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* * * * * *
108899715 TGATGGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCC
66 TGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT-A--T-C
108899780 AAGTTGAT
126 -----GAT
* * * * *
108899788 GGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACT-CAA-AG-AA-CA-T---A-T
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
* ** * * ** *
108899844 CGATGGACACAAAGAGCCCT-TGAAAATGCTAGATAAAAGATGTCTACTCCAAGAGAAAGAACTA
66 TGATGGACA-TGAGAGCCCTCAG-AAATGCTAGATAAACGGCGTCGACT-C-----AAAGAAC-A
* *
108899908 CAGGTTGAT
122 TA--TCGAT
* * * * *
108899917 GGACATGAAGAGCCCTCAGAAATGCTAGATAAACGACATCGACT-CAA-A-AAACATA-T-C-A-
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGA-ACTCCAAG
* * * * * * * *
108899975 ---ATGGACACGAAGAGCCCTCTGAAATGCTAGATAAAAGACGTCGACTCAAGGAAAATGTTGAT
65 TTGATGGACATG-AGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
* ** * * *
108900037 GGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGTCTCCAAGA-AAATGAGCTCCAAG
1 GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAA-GAACTCCAAG
* * * * * *
108900101 TTGACGGACATGAAGAGCCCTC-GAAAATGCTATATAAAAGACATCGACTCCAAGAA
65 TTGATGGACATG-AGAGCCCTCAG-AAATGCTAGATAAACGGCGTCGACTCAAAGAA
108900157 AATGAGCTAC
Statistics
Matches: 889, Mismatches: 86, Indels: 78
0.84 0.08 0.07
Matches are distributed among these distances:
120 98 0.11
121 5 0.01
122 5 0.01
123 8 0.01
124 3 0.00
125 2 0.00
126 2 0.00
127 1 0.00
128 7 0.01
129 738 0.83
130 8 0.01
131 2 0.00
132 1 0.00
135 8 0.01
136 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.17
Consensus pattern (128 bp):
GGACACGAAGAGCCCTCGGAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGT
TGATGGACATGAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGAT
Found at i:108899572 original size:189 final size:186
Alignment explanation
Indices: 108899102--108900069 Score: 899
Period size: 189 Copynumber: 5.1 Consensus size: 186
108899092 CAGCCATTAG
* * *
108899102 AAATGCTAGATAAACGGCGTCGACTCCAAGAACATATCGATGGACACGAAGAGCCCTCGGAAATG
1 AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGGACACGAAGAGCCCTCAGAAATG
* * * * *
108899167 CTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGATGGACATGGACAGCCCTCAGA
66 CTAGATAAAAGACGTCGACT-CAAGA-AAAGCACT-C-AGTTGATAGACACGAAGAGCCCTCAGA
* * * *
108899232 AATGCTAGATAAACAG-CGTCAACTCAAAGAACATATCGATGGGCACGAAGAGCCCTC-GG
127 AATGCTAGATAAA-AGACGTCGACTCAAAGAAAATATCGATGGACACGAAGAGCCCTCAGA
* * * * *
108899291 AAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTCCAAGTTGATGGACATGAAAAGCCC
1 AAATGCTAGATAAACGGCGTCGACT-CAA-AG-AA-CA-T---A-TTGATGGACACGAAGAGCCC
* * * *
108899356 TCAGAAATGCTAGATAAACGGCGTCGACTCAA-AGAA-CA-T-A-TTGATAGACACAAAGAGCCC
57 TCAGAAATGCTAGATAAAAGACGTCGACTCAAGAAAAGCACTCAGTTGATAGACACGAAGAGCCC
** * *
108899416 TTGGAAATGCTAGATAAAAGACGTCGACTGCAAGAGAAAGAACTCCAAGTTGATGGACATGAAGA
122 TCAGAAATGCTAGATAAAAGACGTCGACT-CAA-AG-AA-AA-T---A-TCGATGGACACGAAGA
108899481 GCCCTCAG-
178 GCCCTCAGA
* * *
108899489 AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACGAAGAGCCTTCGGAAATG
1 AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGGACACGAAGAGCCCTCAGAAATG
* *
108899554 CTAGATAAAAGACGTCGACTTCAAGAGAAAGAACTCCAAGTTGATAGACATGAAGAGCCCTCAGA
66 CTAGATAAAAGACGTCGAC-TCAAGA-AAAGCACT-C-AGTTGATAGACACGAAGAGCCCTCAGA
* * * * *
108899619 AATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATCGACACGAAGAGACCTC-GA
127 AATGCTAGATAAAAGACGTCGACTCAAAGAAAATATCGATGGACACGAAGAGCCCTCAGA
* * *
108899678 AAATGCTAGATAAACGGCGTCGAATCAAACAACATATTGATGGACACGAAGAGCCCTCGGAAATG
1 AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGGACACGAAGAGCCCTCAGAAATG
* *
108899743 CTAGATAAAAGACGTCGACTCCAAGAAAATG-AGCTCCAAGTTGATGGACATGAAGAGCCCTCAG
66 CTAGATAAAAGACGTCGACT-CAAGAAAA-GCA-CT-C-AGTTGATAGACACGAAGAGCCCTCAG
* * * * *
108899807 AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCT-TGA
126 AAATGCTAGATAAAAGACGTCGACTCAAAGAAAATATCGATGGACACGAAGAGCCCTCAGA
* ** * * *
108899867 AAATGCTAGATAAAAGATGTCTACTCCAAGAGAAAGAACTACAGGTTGATGGACATGAAGAGCCC
1 AAATGCTAGATAAACGGCGTCGACT-C-----AAAGAAC-ATA--TTGATGGACACGAAGAGCCC
* * ** *
108899932 TCAGAAATGCTAGATAAACGACATCGACTCAA-AAAA-CA-T-A-TCAATGGACACGAAGAGCCC
57 TCAGAAATGCTAGATAAAAGACGTCGACTCAAGAAAAGCACTCAGTTGATAGACACGAAGAGCCC
* * * * *
108899992 TCTGAAATGCTAGATAAAAGACGTCGACTCAAGGAAAATGTTGATGGACATGAAGAGCCCTCA-A
122 TCAGAAATGCTAGATAAAAGACGTCGACTCAAAGAAAATATCGATGGACACGAAGAGCCCTCAGA
108900056 AAATGCTAGATAAA
1 AAATGCTAGATAAA
108900070 AGACATCGTC
Statistics
Matches: 655, Mismatches: 79, Indels: 90
0.79 0.10 0.11
Matches are distributed among these distances:
188 8 0.01
189 396 0.60
190 14 0.02
191 5 0.01
192 6 0.01
193 7 0.01
194 6 0.01
195 13 0.02
196 11 0.02
197 15 0.02
198 173 0.26
199 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.17
Consensus pattern (186 bp):
AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGGACACGAAGAGCCCTCAGAAATG
CTAGATAAAAGACGTCGACTCAAGAAAAGCACTCAGTTGATAGACACGAAGAGCCCTCAGAAATG
CTAGATAAAAGACGTCGACTCAAAGAAAATATCGATGGACACGAAGAGCCCTCAGA
Found at i:108899716 original size:318 final size:318
Alignment explanation
Indices: 108899354--108900156 Score: 1200
Period size: 318 Copynumber: 2.5 Consensus size: 318
108899344 CATGAAAAGC
* * * *
108899354 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATAGACACAAAGAGCCCTTG
1 CCTCTGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGGACACGAAGAGCCCTCG
* *
108899419 GAAATGCTAGATAAAAGACGTCGACTGCAAGAGAAA-GAACTCCAAGTTGATGGACATGAAGAGC
66 GAAATGCTAGATAAAAGACGTCGACTCCAAGA-AAATGAGCTCCAAGTTGATGGACATGAAGAGC
*
108899483 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACGAAGAG-CCTTC
130 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCTT-
* * *
108899547 GGAAATGCTAGATAAAAGACGTCGACTTCAAGAGAAAGAACTCCAAGTTGATAGACATGAAGAGC
194 GAAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTACAAGTTGATAGACATGAAGAGC
* * * *
108899612 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATCGACACGAAGAGA
259 CCTCAGAAATGCTAGATAAACGACATCGACTCAAAAAACATATCAATCGACACGAAGAGA
* *
108899672 CCTC-GAAAATGCTAGATAAACGGCGTCGAATCAAACAACATATTGATGGACACGAAGAGCCCTC
1 CCTCTG-AAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGGACACGAAGAGCCCTC
108899736 GGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGC
65 GGAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGC
108899801 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCTTG
130 CCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCTTG
* * * *
108899866 AAAATGCTAGATAAAAGATGTCTACTCCAAGAGAAAGAACTACAGGTTGATGGACATGAAGAGCC
195 AAAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTACAAGTTGATAGACATGAAGAGCC
* *
108899931 CTCAGAAATGCTAGATAAACGACATCGACTCAAAAAACATATCAATGGACACGAAGAGC
260 CTCAGAAATGCTAGATAAACGACATCGACTCAAAAAACATATCAATCGACACGAAGAGA
* * * * * * *
108899990 CCTCTGAAATGCTAGATAAAAGACGTCGACTCAAGGAAAATGTTGATGGACATGAAGAGCCCTCA
1 CCTCTGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGGACACGAAGAGCCCTCG
* * * *
108900055 AAAATGCTAGATAAAAGACATCGTCTCCAAGAAAATGAGCTCCAAGTTGACGGACATGAAGAGCC
66 GAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGCC
* * * * *
108900120 CTC-GAAAATGCTATATAAAAGACATCGACTCCAAGAA
131 CTCAG-AAATGCTAGATAAACGGCGTCGACTCAAAGAA
108900157 AATGAGCTAC
Statistics
Matches: 441, Mismatches: 39, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
317 5 0.01
318 431 0.98
319 5 0.01
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (318 bp):
CCTCTGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATTGATGGACACGAAGAGCCCTCG
GAAATGCTAGATAAAAGACGTCGACTCCAAGAAAATGAGCTCCAAGTTGATGGACATGAAGAGCC
CTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACATATCGATGGACACAAAGAGCCCTTGA
AAATGCTAGATAAAAGACGTCGACTCCAAGAGAAAGAACTACAAGTTGATAGACATGAAGAGCCC
TCAGAAATGCTAGATAAACGACATCGACTCAAAAAACATATCAATCGACACGAAGAGA
Found at i:108900089 original size:60 final size:60
Alignment explanation
Indices: 108899782--108900160 Score: 303
Period size: 60 Copynumber: 6.0 Consensus size: 60
108899772 TGAGCTCCAA
* * * * * *
108899782 GTTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGGCGTCGACTCAAAGAACAT
1 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAAAT
* * ** ** ** *
108899842 ATCGATGGACACAAAGAGCCCTTGAAAATGCTAGATAAAAGATGTCTACTCCAAGAGAAAGAACT
1 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCC-A-AG-AA-AA-T
* * *
108899907 ACAGGTTGATGGACATGAAGAGCCCTCAGAAATGCTAGATAAACGACATCGACT-CAAAAAACAT
1 ----GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAA-AT
* ** * ** *
108899971 ATCAATGGACACGAAGAGCCCTCTGAAATGCTAGATAAAAGACGTCGACT-CAAGGAAAAT
1 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAA-GAAAAT
*
108900031 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGTCTCCAAGAAAATGAGCT
1 GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAG-AAA--A--T
* * *
108900096 CCAAGTTGACGGACATGAAGAGCCCTCGAAAATGCTATATAAAAGACATCGACTCCAAGAAAAT
1 ----GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAAAT
108900160 G
1 G
108900161 AGCTACATGT
Statistics
Matches: 253, Mismatches: 45, Indels: 42
0.74 0.13 0.12
Matches are distributed among these distances:
60 132 0.52
61 10 0.04
62 2 0.01
63 3 0.01
64 4 0.02
65 5 0.02
66 2 0.01
67 1 0.00
68 4 0.02
69 90 0.36
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (60 bp):
GTTGATGGACATGAAGAGCCCTCAAAAATGCTAGATAAAAGACATCGACTCCAAGAAAAT
Found at i:108900297 original size:48 final size:48
Alignment explanation
Indices: 108900224--108900320 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
108900214 CGACTCCAAA
*
108900224 AAAATGAGCTCCATGTTGTTAGACATCAAGAGCCCTCGAAAATGCTAG
1 AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
* * * *
108900272 AAAATGAGCTTCATGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAG
1 AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
108900320 A
1 A
108900321 TAAACGGCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (48 bp):
AAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCTAG
Found at i:108900366 original size:117 final size:117
Alignment explanation
Indices: 108900153--108900389 Score: 305
Period size: 117 Copynumber: 2.0 Consensus size: 117
108900143 ATCGACTCCA
* ** *
108900153 AGAAAATGAGCTACATGTTGCTAGACACAGAGAACTCTTTGAAATGCTAGATAAACGACGTCGAC
1 AGAAAATGAGCTACATGTTGCTAGACACAGAGAACCCTCGGAAATGCTAGATAAACGACGTCAAC
*
108900218 TCCAAAAAAATGAGCTCCATGTTGTTAGACATCAAGAGCCCTCGAAAATGCT
66 TCCAAAAAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCT
* * * * *
108900270 AGAAAATGAGCTTCATGTTGCTGGACA-TGAAGAGCCCTCGGAAATGCTAGATAAACGGCGTCAA
1 AGAAAATGAGCTACATGTTGCTAGACACAG-AGAACCCTCGGAAATGCTAGATAAACGACGTCAA
* * * * * * *
108900334 CTCCAAGAAAATGGGCTCCATGTTGCTGGACATGAAGAGGCGTCGGAAATGCT
65 CTCCAAAAAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCT
108900387 AGA
1 AGA
108900390 TAAACGACGT
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
116 1 0.01
117 101 0.99
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (117 bp):
AGAAAATGAGCTACATGTTGCTAGACACAGAGAACCCTCGGAAATGCTAGATAAACGACGTCAAC
TCCAAAAAAATGAGCTCCATGTTGCTAGACATCAAGAGCCCTCGAAAATGCT
Found at i:108900381 original size:69 final size:69
Alignment explanation
Indices: 108900270--108900621 Score: 379
Period size: 69 Copynumber: 5.1 Consensus size: 69
108900260 CGAAAATGCT
* * * * *
108900270 AGAAAATGAGCTTCATGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCGTCAAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTAC
108900335 TCCA
66 TCCA
* * * *
108900339 AGAAAATGGGCTCCATGTTGCTGGACATGAAGAGGCGTCGGAAATGCTAGATAAACGACGTCGAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTAC
108900404 TCCA
66 TCCA
** * * * ** * *
108900408 AGAAGTTGAGCACCCTATTTTTGGACATGAAGAGCCGT-TGAAAGTGCTAGATAATATC--CGTT
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAA-TGCTAGATAA-A-CGACGTC
*
108900470 TACTCCG
63 TACTCCA
* * *
108900477 AGAAAATGAG-TCCACTGTTGCTGGACATGAAGAACTGTCAGAAATGCTAGATAAACCACGTCTA
1 AGAAAATGAGCTCCA-TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTA
108900541 CTCCA
65 CTCCA
* * * * * *
108900546 AGAAAAGGAGCCCCCTGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAACGTCTAC
1 AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTAC
108900611 TCCA
66 TCCA
108900615 AGGAAAA
1 A-GAAAA
108900622 CAGTCCCCTG
Statistics
Matches: 235, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
67 1 0.00
68 7 0.03
69 214 0.91
70 12 0.05
71 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (69 bp):
AGAAAATGAGCTCCATGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTAC
TCCA
Found at i:108900443 original size:186 final size:185
Alignment explanation
Indices: 108900084--108900458 Score: 450
Period size: 186 Copynumber: 2.0 Consensus size: 185
108900074 ATCGTCTCCA
* *
108900084 AGAAAATGAGCTCCAAGTTGACGGACATGAAGAGCCCTCGAAAATGCTATATAAAAGACATCGAC
1 AGAAAATGAGCTCCAAGTTGACGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACATCAAC
* *
108900149 TCCAAGAAAATGAGCTACATGTTGCTAGACACAGAGAACTCTTTGAAATGCTAGATAAACGACGT
66 TCCAAGAAAATGAGCTACATGTTGCTAGACAAAGAGAACTC-TGGAAATGCTAGATAAACGACGT
* *
108900214 CGACTCCAAAAAAATGAGCTCCATGTTGTTAGACATCAAGAGCCCTCGAAAATGCT
130 CGACTCCAAAAAAATGAGCACCATATTGTTAGACATCAAGAGCCCTCGAAAATGCT
* * * * * *
108900270 AGAAAATGAGCTTCATGTTG-CTGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCGTCAA
1 AGAAAATGAGCTCCAAGTTGAC-GGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACATCAA
* * * *
108900334 CTCCAAGAAAATGGGCTCCATGTTGCTGGACATGAAGAG-GCGTC-GGAAATGCTAGATAAACGA
65 CTCCAAGAAAATGAGCTACATGTTGCTAGACA--AAGAGAAC-TCTGGAAATGCTAGATAAACGA
* ** * * * * * * *
108900397 CGTCGACTCCAAGAAGTTGAGCACCCTATTTTTGGACATGAAGAGCCGTTGAAAGTGCT
127 CGTCGACTCCAAAAAAATGAGCACCATATTGTTAGACATCAAGAGCCCTCGAAAATGCT
108900456 AGA
1 AGA
108900459 TAATATCCGT
Statistics
Matches: 159, Mismatches: 26, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
185 1 0.01
186 151 0.95
187 1 0.01
188 6 0.04
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (185 bp):
AGAAAATGAGCTCCAAGTTGACGGACATGAAGAGCCCTCGAAAATGCTAGATAAAAGACATCAAC
TCCAAGAAAATGAGCTACATGTTGCTAGACAAAGAGAACTCTGGAAATGCTAGATAAACGACGTC
GACTCCAAAAAAATGAGCACCATATTGTTAGACATCAAGAGCCCTCGAAAATGCT
Found at i:108900630 original size:69 final size:68
Alignment explanation
Indices: 108900285--108900689 Score: 345
Period size: 69 Copynumber: 5.9 Consensus size: 68
108900275 ATGAGCTTCA
* * * * *
108900285 TGTTGCTGGACATGAAGAGCCCTCGGAAATGCTAGATAAACGGCGTCAACTCCAAGAAAATG-GG
1 TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAAAA-GAGT
*
108900349 CTCCA
65 C-CCC
* * * **
108900354 TGTTGCTGGACATGAAGAGGCGTCGGAAATGCTAGATAAACGACGTCGACTCCAAGAAGTTGAG-
1 TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAA-AAGAGT
108900418 CACCC
65 C-CCC
* ** * * *
108900423 TATTTTTGGACATGAAGAGCCGT-TGAAAGTGCTAGATAATATC--CGTTTACTCCGAGAAAATG
1 TGTTGCTGGACATGAAGAGCCGTCAGAAA-TGCTAGATAA-A-CGACGTCTACTCCAAGAAAA-G
*
108900485 AGTCCAC
62 AGTCCCC
* * * *
108900492 TGTTGCTGGACATGAAGAACTGTCAGAAATGCTAGATAAACCACGTCTACTCCAAGAAAAGGAGC
1 TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAAAA-GAGT
108900557 CCCC
65 CCCC
* * * *
108900561 TGTTGCTGGACATGAAGAGCCATCAGAAATTCTAGATAAACAACGTCTACTCCAAGGAAAACAGT
1 TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAA-GAAAAGAGT
108900626 CCCC
65 CCCC
** * ** ** * * *
108900630 TGGTT-CTGGACACAAAGAACCACCAGAAATGCTCCATAAACGACCTGTACTCCAAAAAAA
1 T-GTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAAAA
108900690 AGAACCACCT
Statistics
Matches: 276, Mismatches: 48, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
67 1 0.00
68 9 0.03
69 250 0.91
70 15 0.05
71 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (68 bp):
TGTTGCTGGACATGAAGAGCCGTCAGAAATGCTAGATAAACGACGTCTACTCCAAGAAAAGAGTC
CCC
Found at i:108901912 original size:5 final size:5
Alignment explanation
Indices: 108901902--108901930 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
108901892 AATATACCAT
108901902 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
108901931 AGCTCTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:108909551 original size:21 final size:21
Alignment explanation
Indices: 108909525--108909566 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
108909515 CGCATCTCGA
108909525 ATGCCAAAAAGCTCAATTTCC
1 ATGCCAAAAAGCTCAATTTCC
108909546 ATGCCAAAAAGCTCAATTTCC
1 ATGCCAAAAAGCTCAATTTCC
108909567 TTTTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (21 bp):
ATGCCAAAAAGCTCAATTTCC
Found at i:108917454 original size:26 final size:26
Alignment explanation
Indices: 108917423--108917530 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
108917413 TGAAATGCCC
* *
108917423 ATCATGGAACATTTAACTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
108917449 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
108917475 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
108917501 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
108917527 ATCA
1 ATCA
108917531 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:108924513 original size:26 final size:26
Alignment explanation
Indices: 108924482--108924615 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
108924472 TGAAATGCCC
*
108924482 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
108924508 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
108924534 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
108924560 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
108924586 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
108924612 ATCA
1 ATCA
108924616 ATTTGTACCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:108926703 original size:20 final size:21
Alignment explanation
Indices: 108926678--108926721 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
108926668 GTAAGTTCTA
* *
108926678 TAAAAAATATA-TATTTAATT
1 TAAAAAACATATTATTGAATT
108926698 TAAAAAACATATTATTGAATT
1 TAAAAAACATATTATTGAATT
108926719 TAA
1 TAA
108926722 TAATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAAACATATTATTGAATT
Found at i:108930696 original size:85 final size:85
Alignment explanation
Indices: 108930553--108930723 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
108930543 TAGCTTATAG
108930553 ATCAAGTAAGCCAGTTTCCTTAATTGCCACAAAGAATGCTATAAGATCAGTTGGTTTATACAATC
1 ATCAAGTAAGCCAGTTTCCTTAATTGCCACAAAGAATGCTATAAGATCAGTTGGTTTATACAATC
*
108930618 AGTTTTAAGAGGTGATATCC
66 AGTTTTAAGAGGTGACATCC
* * *
108930638 ATCAAGTAAGCCAGTTTCCTTATTTGGCACAAAGAATGCTATGAGATCAGTTGGTTTATACAATC
1 ATCAAGTAAGCCAGTTTCCTTAATTGCCACAAAGAATGCTATAAGATCAGTTGGTTTATACAATC
108930703 AGTTTTAAGAGGTGACATCC
66 AGTTTTAAGAGGTGACATCC
108930723 A
1 A
108930724 ATAAGTTTGA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (85 bp):
ATCAAGTAAGCCAGTTTCCTTAATTGCCACAAAGAATGCTATAAGATCAGTTGGTTTATACAATC
AGTTTTAAGAGGTGACATCC
Found at i:108933379 original size:24 final size:24
Alignment explanation
Indices: 108933349--108933450 Score: 104
Period size: 23 Copynumber: 4.3 Consensus size: 24
108933339 TTTGAATATA
* *
108933349 TATATATATATACTGTATATGTTTT
1 TATATATAT-TAATGTATATATTTT
*
108933374 TCATATATA-TAATGTATGTATTTT
1 T-ATATATATTAATGTATATATTTT
108933398 TA-ATATTATTAAT-TATATATTTT
1 TATATA-TATTAATGTATATATTTT
*
108933421 TATATATATT-ATGTATACATTTT
1 TATATATATTAATGTATATATTTT
*
108933444 TAAATAT
1 TATATAT
108933451 CATACTGTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
22 5 0.08
23 33 0.50
24 20 0.30
25 1 0.02
26 7 0.11
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (24 bp):
TATATATATTAATGTATATATTTT
Found at i:108934808 original size:24 final size:23
Alignment explanation
Indices: 108934781--108934826 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
108934771 ATCCATAGTA
108934781 AAAATAAAAT-ATAATGTGCAATAT
1 AAAATAAAATGA-AATGTG-AATAT
*
108934805 AAAATATAATGAAATGTGAATA
1 AAAATAAAATGAAATGTGAATA
108934827 CTATTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (23 bp):
AAAATAAAATGAAATGTGAATAT
Found at i:108935073 original size:19 final size:19
Alignment explanation
Indices: 108935049--108935089 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
108935039 TACTAAATTC
108935049 ATAAATAAAATGT-ATAATA
1 ATAAATAAAAT-TAATAATA
*
108935068 ATAAATATAATTAATAATA
1 ATAAATAAAATTAATAATA
108935087 ATA
1 ATA
108935090 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAAATAAAATTAATAATA
Found at i:108937167 original size:21 final size:21
Alignment explanation
Indices: 108937136--108937199 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
108937126 ATTATAATTA
108937136 TTATTAT-TATTAGTATATGT
1 TTATTATATATTAGTATATGT
*
108937156 TTATTATATATTTA-TATATCT
1 TTATTATATA-TTAGTATATGT
*
108937177 TTAATATATA-T-GTATATGT
1 TTATTATATATTAGTATATGT
108937196 TTAT
1 TTAT
108937200 GCAGTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.27
20 7 0.19
21 17 0.46
22 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (21 bp):
TTATTATATATTAGTATATGT
Found at i:108940109 original size:19 final size:19
Alignment explanation
Indices: 108940087--108940126 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
108940077 TTTAACCAAG
108940087 GAAGAAAAGCTTAATATAA
1 GAAGAAAAGCTTAATATAA
108940106 GAAGAAAAGCTTAATATAA
1 GAAGAAAAGCTTAATATAA
108940125 GA
1 GA
108940127 TAGTCTCTAA
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:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (19 bp):
GAAGAAAAGCTTAATATAA
Found at i:108945811 original size:16 final size:16
Alignment explanation
Indices: 108945790--108945822 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
108945780 GTAATGGAAC
108945790 TAGAAATATATTGGTG
1 TAGAAATATATTGGTG
108945806 TAGAAATATATTGGTG
1 TAGAAATATATTGGTG
108945822 T
1 T
108945823 TCTTAATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (16 bp):
TAGAAATATATTGGTG
Found at i:108950456 original size:220 final size:219
Alignment explanation
Indices: 108950081--108950564 Score: 752
Period size: 220 Copynumber: 2.2 Consensus size: 219
108950071 AGATTTGACC
* * * * ** * * *
108950081 TTCAGGTGTTTACACTGAAGTGGATCCAAGATGATTTAACATCTTTGTATTATTAGAGAACAAAT
1 TTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTATCAGAGAACAAAT
*
108950146 CGAAGAAACAGATTTGGCATATCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
66 CAAAGAAACAGATTTGGCATATCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
* *
108950211 CTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCA
131 CTTCAGATGTCTTCACATAGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCA
** *
108950276 GATTGAAGACATAGTAGATTTGGAT
196 GATCAAAGACATAGCA-ATTTGGAT
* * *
108950301 TTCACGTGTTTATGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAGCAAAT
1 TTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTATCAGAGAACAAAT
* *
108950366 CAAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
66 CAAAGAAACAGATTTGGCATATCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
* *
108950431 CTTCGGATGTCTTCACATAGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCA
131 CTTCAGATGTCTTCACATAGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCA
*
108950496 GATCAAAGACATAGCAATTTGGCT
196 GATCAAAGACATAGCAATTTGGAT
108950520 TTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTC
1 TTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTC
108950565 CATATTCGAC
Statistics
Matches: 240, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
219 51 0.21
220 189 0.79
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (219 bp):
TTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTATCAGAGAACAAAT
CAAAGAAACAGATTTGGCATATCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAAC
CTTCAGATGTCTTCACATAGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCA
GATCAAAGACATAGCAATTTGGAT
Found at i:108950664 original size:78 final size:78
Alignment explanation
Indices: 108950535--108950846 Score: 430
Period size: 78 Copynumber: 4.0 Consensus size: 78
108950525 GTGTTTACGC
* * ** * * * *
108950535 TGAAGTAGATCTAAGATGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
108950600 ATCT-GACCTTCAT
66 AT-TGGACCTTCAT
* *
108950613 TGAAGCAGATCCAAGGTGATTTGGCATATCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
108950678 ATTGGACCTTCAT
66 ATTGGACCTTCAT
* * * * *
108950691 TGAAGCAGAACTAAGATGATTTGGCATCTCTGTATTAGATGGGGAGCATATCAAAGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
108950756 ATTGGACCTTCAT
66 ATTGGACCTTCAT
* * *
108950769 TGAAGTAGATGCAAGATGATTTGGAATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
108950834 ATCT-GACCTTCAT
66 AT-TGGACCTTCAT
108950847 GTGTTTACAT
Statistics
Matches: 207, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
77 1 0.00
78 205 0.99
79 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (78 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
ATTGGACCTTCAT
Found at i:108950980 original size:45 final size:45
Alignment explanation
Indices: 108950786--108951014 Score: 207
Period size: 45 Copynumber: 5.1 Consensus size: 45
108950776 GATGCAAGAT
* *
108950786 GATTTGGAATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AA-AGATAACA
* * * * * * * *
108950833 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAAAGATAACA
* * *
108950878 GATTTGGCATCTCTATATTAGACGGGGAGCA-AACTAAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AAAGATAACA
* *
108950922 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
* * *
108950967 GATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCAAAGATATCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
108951012 GAT
1 GAT
108951015 ATCGCCTTCC
Statistics
Matches: 144, Mismatches: 29, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 41 0.28
45 74 0.51
46 5 0.03
47 18 0.12
48 4 0.03
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
Found at i:108951384 original size:17 final size:17
Alignment explanation
Indices: 108951364--108951426 Score: 83
Period size: 17 Copynumber: 3.5 Consensus size: 17
108951354 AATGATATGT
108951364 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
108951381 AATCTTAGATATGATTGA-
1 AATCTTAGATATGA-T-AC
108951399 AATCTTAGATATGATATGC
1 AATCTTAGATATGATA--C
108951418 AATCTTAGA
1 AATCTTAGA
108951427 AGATATGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.02
17 15 0.37
18 15 0.37
19 10 0.24
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:108951404 original size:18 final size:18
Alignment explanation
Indices: 108951364--108951426 Score: 85
Period size: 18 Copynumber: 3.5 Consensus size: 18
108951354 AATGATATGT
108951364 AATCTTAGATATGA-T-A
1 AATCTTAGATATGATTGA
108951380 CAATCTTAGATATGATTGA
1 -AATCTTAGATATGATTGA
*
108951399 AATCTTAGATATGATATGC
1 AATCTTAGATATGAT-TGA
108951418 AATCTTAGA
1 AATCTTAGA
108951427 AGATATGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 14 0.33
18 16 0.38
19 12 0.29
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTGA
Found at i:108951404 original size:35 final size:37
Alignment explanation
Indices: 108951355--108951434 Score: 114
Period size: 35 Copynumber: 2.2 Consensus size: 37
108951345 ATAATCTTCA
*
108951355 ATGATATGTAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGAAATCTTAGATATGATAGCAATCTTAGAT
108951391 ATGAT-TGAAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGAAATCTTAGATATGATA-GCAATCTTAGAT
108951427 A-GATATGA
1 ATGATATGA
108951435 TTTTGTAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.52
36 9 0.22
37 10 0.25
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATATGAAATCTTAGATATGATAGCAATCTTAGAT
Found at i:108951433 original size:17 final size:19
Alignment explanation
Indices: 108951355--108951426 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
108951345 ATAATCTTCA
*
108951355 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
108951374 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
108951391 ATGAT-TGAAATCTTAGAT
1 ATGATATGCAATCTTAGAT
108951409 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
108951427 AGATATGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.32
18 15 0.32
19 17 0.36
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:108951433 original size:22 final size:23
Alignment explanation
Indices: 108951405--108951449 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
108951395 TTGAAATCTT
108951405 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
108951427 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
108951450 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:108960386 original size:20 final size:20
Alignment explanation
Indices: 108960361--108960401 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
108960351 ACTTTACTTC
108960361 TAATTTCCAATTGATCTGAT
1 TAATTTCCAATTGATCTGAT
108960381 TAATTTCCAATTGATCTGAT
1 TAATTTCCAATTGATCTGAT
108960401 T
1 T
108960402 TCAAGAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TAATTTCCAATTGATCTGAT
Found at i:108961529 original size:37 final size:37
Alignment explanation
Indices: 108961483--108961553 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
108961473 TAACAATAGG
* * *
108961483 AGATTTATTGAAAAATAATTATTATACTCAAATTAAA
1 AGATGTATTGAAAAATAATTATAATACTAAAATTAAA
*
108961520 AGATGTATTGAATAATAATTATAATACTAAAATT
1 AGATGTATTGAAAAATAATTATAATACTAAAATT
108961554 GTAATTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (37 bp):
AGATGTATTGAAAAATAATTATAATACTAAAATTAAA
Found at i:108962881 original size:13 final size:13
Alignment explanation
Indices: 108962863--108962900 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
108962853 AACAACACAC
*
108962863 ATATATTAAATAA
1 ATATATAAAATAA
108962876 ATATATAAAATAA
1 ATATATAAAATAA
108962889 A-ATA-AAAATAA
1 ATATATAAAATAA
108962900 A
1 A
108962901 AAAATAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 13 0.54
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATATATAAAATAA
Found at i:108964595 original size:27 final size:27
Alignment explanation
Indices: 108964547--108964705 Score: 148
Period size: 27 Copynumber: 5.9 Consensus size: 27
108964537 GCGAGGCTGC
* *
108964547 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* * *
108964574 AAGATATTATGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
108964600 CAGATATATGTGGCAGAGCCACCGGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
108964627 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
108964654 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
108964681 CAGATAATTGTGGTATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
108964706 GACGCTTCCT
Statistics
Matches: 108, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
26 9 0.08
27 94 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:108964657 original size:54 final size:54
Alignment explanation
Indices: 108964589--108964708 Score: 213
Period size: 54 Copynumber: 2.2 Consensus size: 54
108964579 ATTATGGTAG
* *
108964589 AGCCACCAGAACAGATATATGTGGCAGAGCCACCGGATCAGATAATTGTGGCAT
1 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
*
108964643 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTAT
1 AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
108964697 AGCCACCAGGAC
1 AGCCACCAGGAC
108964709 GCTTCCTCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.17
Consensus pattern (54 bp):
AGCCACCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
Found at i:108972257 original size:27 final size:28
Alignment explanation
Indices: 108972227--108972313 Score: 144
Period size: 27 Copynumber: 3.2 Consensus size: 28
108972217 GTGACGAAGT
*
108972227 CACCAGATACAGATAT-TGTAGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
108972254 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
108972281 CACCAGAT-CAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
108972308 CACCAG
1 CACCAG
108972314 GATGCTTCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
26 8 0.14
27 49 0.86
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCAGAGC
Found at i:108974267 original size:3 final size:3
Alignment explanation
Indices: 108974246--108974298 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
108974236 GGGCGTTACA
* * *
108974246 TAT TAT CAT TAT TAC TAT TAT TAT T-T TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
108974293 ATAT TA
1 -TAT TA
108974299 GTGTATATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:108974274 original size:23 final size:23
Alignment explanation
Indices: 108974248--108974292 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
108974238 GCGTTACATA
108974248 TTATCATTATTACTATTATTATT
1 TTATCATTATTACTATTATTATT
*
108974271 TTATTATTATTACTATTATTAT
1 TTATCATTATTACTATTATTAT
108974293 ATATTAGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATCATTATTACTATTATTATT
Found at i:108974278 original size:20 final size:20
Alignment explanation
Indices: 108974253--108974290 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
108974243 ACATATTATC
*
108974253 ATTATTACTATTATTATTTT
1 ATTATTACTACTATTATTTT
*
108974273 ATTATTATTACTATTATT
1 ATTATTACTACTATTATT
108974291 ATATATTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTATTACTACTATTATTTT
Found at i:108974407 original size:3 final size:3
Alignment explanation
Indices: 108974399--108974458 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
108974389 TGCATTTCTA
108974399 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
108974447 TAT TAT TAT TAT
1 TAT TAT TAT TAT
108974459 CATCATCATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:108974774 original size:20 final size:20
Alignment explanation
Indices: 108974751--108974828 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
108974741 ATATATCATG
108974751 TATATATATATTTTTAATAT
1 TATATATATATTTTTAATAT
*
108974771 TATAT-T-T-TTTATGTATACAT
1 TATATATATATTT-T-TA-ATAT
* *
108974791 TATGTATATATCTTTAATAT
1 TATATATATATTTTTAATAT
*
108974811 TATGTATATA-TTTTAATA
1 TATATATATATTTTTAATA
108974829 CATATATGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
17 3 0.06
18 2 0.04
19 10 0.21
20 25 0.53
21 3 0.06
22 2 0.04
23 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (20 bp):
TATATATATATTTTTAATAT
Found at i:108974775 original size:40 final size:40
Alignment explanation
Indices: 108974731--108974813 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
108974721 ACATTACGTA
*
108974731 TATATTTCATATATAT-CATGTATATATATATTTTTAATAT
1 TATATTTCATATATATACAT-TATATATATATCTTTAATAT
** * *
108974771 TATATTTTTTATGTATACATTATGTATATATCTTTAATAT
1 TATATTTCATATATATACATTATATATATATCTTTAATAT
108974811 TAT
1 TAT
108974814 GTATATATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.57
Consensus pattern (40 bp):
TATATTTCATATATATACATTATATATATATCTTTAATAT
Found at i:108974821 original size:11 final size:11
Alignment explanation
Indices: 108974740--108974822 Score: 50
Period size: 11 Copynumber: 7.7 Consensus size: 11
108974730 ATATATTTCA
*
108974740 TATATATCATG
1 TATATATTATG
*
108974751 TATATATATATT
1 TATATAT-TATG
*
108974763 TTTAATATTA--
1 TAT-ATATTATG
* *
108974773 TATTTTTTATG
1 TATATATTATG
*
108974784 TATACATTATG
1 TATATATTATG
108974795 TATATATCT-T-
1 TATATAT-TATG
108974805 TA-ATATTATG
1 TATATATTATG
108974815 TATATATT
1 TATATATT
108974823 TTAATACATA
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
8 1 0.02
9 9 0.17
10 6 0.11
11 27 0.50
12 7 0.13
13 4 0.07
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.57
Consensus pattern (11 bp):
TATATATTATG
Found at i:108974836 original size:22 final size:22
Alignment explanation
Indices: 108974785--108974839 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
108974775 TTTTTTATGT
108974785 ATACATTATGTATATATCTTTA
1 ATACATTATGTATATATCTTTA
108974807 AT--ATTATGTATATAT-TTTA
1 ATACATTATGTATATATCTTTA
108974826 ATACATATATGTAT
1 ATACAT-TATGTAT
108974840 CGTTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.20
20 13 0.43
21 2 0.07
22 9 0.30
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (22 bp):
ATACATTATGTATATATCTTTA
Found at i:108975024 original size:15 final size:15
Alignment explanation
Indices: 108975004--108975035 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
108974994 TTATTACCGT
108975004 TTTATACTATTATTA
1 TTTATACTATTATTA
*
108975019 TTTATATTATTATTA
1 TTTATACTATTATTA
108975034 TT
1 TT
108975036 ATCATTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:108984597 original size:24 final size:24
Alignment explanation
Indices: 108984570--108984621 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
108984560 TTAGTAAGTC
*
108984570 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
108984594 AAATATATTGTACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
108984618 AAAT
1 AAAT
108984622 CTTCTAGAAA
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:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:108990947 original size:11 final size:10
Alignment explanation
Indices: 108990909--108990948 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
108990899 TGACCTTTCC
108990909 AAAGTATGGG
1 AAAGTATGGG
*
108990919 -TAGTATGGG
1 AAAGTATGGG
108990928 AAAGTATGGG
1 AAAGTATGGG
108990938 AAAGGTATGGG
1 AAA-GTATGGG
108990949 TATGGGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 8 0.31
10 11 0.42
11 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.23
Consensus pattern (10 bp):
AAAGTATGGG
Found at i:108995008 original size:18 final size:18
Alignment explanation
Indices: 108994989--108995080 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
108994979 CCCAACTACT
* *
108994989 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
*
108995007 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
108995025 ATATACGTGAATAGTA-C
1 GTATACGTGAATAGTACC
*
108995042 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
108995060 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
108995078 GTA
1 GTA
108995081 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
17 15 0.23
18 50 0.77
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:108995053 original size:35 final size:36
Alignment explanation
Indices: 108994990--108995076 Score: 149
Period size: 35 Copynumber: 2.4 Consensus size: 36
108994980 CCAACTACTG
*
108994990 TATACGTGAACAGTACTGTATACGTGAATAGTGCCA
1 TATACGTGAATAGTACTGTATACGTGAATAGTGCCA
*
108995026 TATACGTGAATAGTAC-GTATACGTGAATAGTGCCG
1 TATACGTGAATAGTACTGTATACGTGAATAGTGCCA
108995061 TATACGTGAATAGTAC
1 TATACGTGAATAGTAC
108995077 CGTAAACGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 34 0.69
36 15 0.31
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (36 bp):
TATACGTGAATAGTACTGTATACGTGAATAGTGCCA
Found at i:108997280 original size:16 final size:16
Alignment explanation
Indices: 108997259--108997291 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
108997249 AAGATTGTTG
108997259 TATGTTTACACTTTAA
1 TATGTTTACACTTTAA
108997275 TATGTTTACACTTTAA
1 TATGTTTACACTTTAA
108997291 T
1 T
108997292 CTCATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (16 bp):
TATGTTTACACTTTAA
Found at i:109003536 original size:24 final size:24
Alignment explanation
Indices: 109003504--109003552 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
109003494 CTAATAATGC
109003504 TCATGAACCTAATCAAACTTTTAT
1 TCATGAACCTAATCAAACTTTTAT
109003528 TCATGAACCTAATCAAACTTTTAT
1 TCATGAACCTAATCAAACTTTTAT
109003552 T
1 T
109003553 ATAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (24 bp):
TCATGAACCTAATCAAACTTTTAT
Found at i:109008799 original size:22 final size:23
Alignment explanation
Indices: 109008765--109008810 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
109008755 GTGATTATAA
109008765 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
*
109008788 ATACAT-TGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
109008810 A
1 A
109008811 CGTACTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.41
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:109008942 original size:16 final size:16
Alignment explanation
Indices: 109008923--109008956 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
109008913 GAAAACAGGG
109008923 GAGAAAGAAAAGAAAA
1 GAGAAAGAAAAGAAAA
**
109008939 GAGAAAGGGAAGAAAA
1 GAGAAAGAAAAGAAAA
109008955 GA
1 GA
109008957 AAGAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
GAGAAAGAAAAGAAAA
Found at i:109009848 original size:27 final size:25
Alignment explanation
Indices: 109009792--109009893 Score: 99
Period size: 25 Copynumber: 4.3 Consensus size: 25
109009782 ACTTTAGCGC
* *
109009792 GCTCTGTGATTATTAGCACGTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
109009817 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
* * *
109009842 GCTCTCTGTTTAATA-CA--TCTGT
1 GCTCTCTGATTACTAGCACGTCAGT
* *
109009864 GCTCTCTG--TA-TAGCACTTTAGT
1 GCTCTCTGATTACTAGCACGTCAGT
109009886 GCTCTCTG
1 GCTCTCTG
109009894 TTCATTTGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.03
20 4 0.06
22 23 0.34
24 2 0.03
25 36 0.54
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGTCAGT
Found at i:109010811 original size:16 final size:16
Alignment explanation
Indices: 109010786--109010830 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
109010776 GATTTTTCTA
109010786 TTAA-TTTTTTATATT
1 TTAAGTTTTTTATATT
*
109010801 TTAAGTTTTTTTTATT
1 TTAAGTTTTTTATATT
* *
109010817 TTAGGTTTATTATA
1 TTAAGTTTTTTATA
109010831 CAAGTATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (16 bp):
TTAAGTTTTTTATATT
Found at i:109024251 original size:20 final size:20
Alignment explanation
Indices: 109024214--109024252 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109024204 TTTAAAATTG
* **
109024214 TATAATTTTTCATCTAATGT
1 TATAATTATTCAAATAATGT
109024234 TATAATTATTCAAATAATG
1 TATAATTATTCAAATAATG
109024253 AGAAAGGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (20 bp):
TATAATTATTCAAATAATGT
Found at i:109024603 original size:16 final size:16
Alignment explanation
Indices: 109024578--109024610 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
109024568 TTTCCCCATT
*
109024578 CATTTCGAGTTCTAAA
1 CATTTAGAGTTCTAAA
109024594 CATTTAGAGTTCTAAA
1 CATTTAGAGTTCTAAA
109024610 C
1 C
109024611 TGTGTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (16 bp):
CATTTAGAGTTCTAAA
Found at i:109029054 original size:162 final size:156
Alignment explanation
Indices: 109028774--109029088 Score: 427
Period size: 162 Copynumber: 2.0 Consensus size: 156
109028764 ACATGTGATA
109028774 GATAAAATGATCAAATCAAAATATTCGAAAAAATTAAAAATAATATTTCTGTGACTTTTTCTGTT
1 GATAAAATGATCAAATCAAAATATTCG-AAAAATTAAAAATAATATTTCTGTGACTTTTTCTGTT
* *
109028839 GTTTCCATGACTTTTTTGTGTACTGCACATTTCATACAATTAGAATAAAGTTTTGAAAATGATAT
65 GTTTCCATGACTTTTTTGTGTACTACACATTTCATACAATTAAAATAAAGTTTTGAAAATGATAT
109028904 TCATATGAATTATGTTGGACCTATTGTG
130 TCATATGAATTATGTT-GACCTATTGTG
* * **
109028932 GATAAAATTATCAAATCAAAATATTTG-AAAATTCCAAAAATTGTATTTCTGTGACTACTTTT-T
1 GATAAAATGATCAAATCAAAATATTCGAAAAATT--AAAAATAATATTTCTGTGACT--TTTTCT
* * * *
109028995 GTTGTTTTCATGATTTTCTTTTTGTGTACTATACATTTCATATAATTAAAATAAAGTTTTGAAAA
62 GTTGTTTCCATGA--CT-TTTTTGTGTACTACACATTTCATACAATTAAAATAAAGTTTTGAAAA
* *
109029060 TTATATTCATATTAATTATGTTGACCTAT
124 TGATATTCATATGAATTATGTTGACCTAT
109029089 GATAGATATG
Statistics
Matches: 138, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
156 6 0.04
158 44 0.32
159 13 0.09
160 4 0.03
161 8 0.06
162 63 0.46
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (156 bp):
GATAAAATGATCAAATCAAAATATTCGAAAAATTAAAAATAATATTTCTGTGACTTTTTCTGTTG
TTTCCATGACTTTTTTGTGTACTACACATTTCATACAATTAAAATAAAGTTTTGAAAATGATATT
CATATGAATTATGTTGACCTATTGTG
Found at i:109030425 original size:29 final size:30
Alignment explanation
Indices: 109030370--109030435 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
109030360 GTTCGATGTG
* *
109030370 CAATGTTATACATGAACTTTAATTTTG-TA
1 CAATTTTATACATGAAATTTAATTTTGATA
* *
109030399 CAATTTTATACATTAAATCTTAA-TTTGATT
1 CAATTTTATACATGAAAT-TTAATTTTGATA
109030429 CAATTTT
1 CAATTTT
109030436 CACAAGTCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (30 bp):
CAATTTTATACATGAAATTTAATTTTGATA
Found at i:109030926 original size:10 final size:10
Alignment explanation
Indices: 109030911--109030948 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
109030901 ATTTTAGCTT
109030911 TTATCTTTAA
1 TTATCTTTAA
109030921 TTATCTTTAA
1 TTATCTTTAA
*
109030931 TTAT-TTGTAT
1 TTATCTT-TAA
109030941 TTATCTTT
1 TTATCTTT
109030949 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:109032002 original size:14 final size:14
Alignment explanation
Indices: 109031983--109032012 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
109031973 AAAAACCCAC
109031983 CTCACCAGCAACAA
1 CTCACCAGCAACAA
109031997 CTCACCAGCAACAA
1 CTCACCAGCAACAA
109032011 CT
1 CT
109032013 TTGGATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.43, G:0.07, T:0.10
Consensus pattern (14 bp):
CTCACCAGCAACAA
Found at i:109039350 original size:19 final size:19
Alignment explanation
Indices: 109039326--109039365 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
109039316 GTGTACTTCT
*
109039326 TTTTTTTTTAATTTTTAAA
1 TTTTTTTATAATTTTTAAA
109039345 TTTTTTTATAATTTTTAAA
1 TTTTTTTATAATTTTTAAA
109039364 TT
1 TT
109039366 ATTTATTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTTATAATTTTTAAA
Found at i:109042064 original size:10 final size:10
Alignment explanation
Indices: 109042051--109042096 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
109042041 CAATTTATTT
109042051 TTTTCTTTTA
1 TTTTCTTTTA
109042061 TTTTCTTTTAA
1 TTTTCTTTT-A
*
109042072 CTTTCTTTTA
1 TTTTCTTTTA
*
109042082 TTTTCTTTTT
1 TTTTCTTTTA
109042092 TTTTC
1 TTTTC
109042097 ATTCTCTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:109056223 original size:18 final size:18
Alignment explanation
Indices: 109056200--109056301 Score: 114
Period size: 18 Copynumber: 5.7 Consensus size: 18
109056190 GATCATCAAT
*
109056200 CTTACTCAAATCGCCGAG
1 CTTACTCAAATCGCCAAG
* *
109056218 CTTACTCAAACCTCCAAG
1 CTTACTCAAATCGCCAAG
* *
109056236 CGTACTGAAATCGCCAAG
1 CTTACTCAAATCGCCAAG
* * * * *
109056254 CATGCACAAATCTCCGAG
1 CTTACTCAAATCGCCAAG
109056272 CTTACTCAAATCGCCAAG
1 CTTACTCAAATCGCCAAG
109056290 CTTACTCAAATC
1 CTTACTCAAATC
109056302 ACCTCCAACC
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (18 bp):
CTTACTCAAATCGCCAAG
Found at i:109056300 original size:36 final size:36
Alignment explanation
Indices: 109056200--109056301 Score: 132
Period size: 36 Copynumber: 2.8 Consensus size: 36
109056190 GATCATCAAT
* *
109056200 CTTACTCAAATCGCCGAGCTTACTCAAACCTCCAAG
1 CTTACTCAAATCGCCAAGCTTACTCAAATCTCCAAG
* * * * * *
109056236 CGTACTGAAATCGCCAAGCATGCACAAATCTCCGAG
1 CTTACTCAAATCGCCAAGCTTACTCAAATCTCCAAG
109056272 CTTACTCAAATCGCCAAGCTTACTCAAATC
1 CTTACTCAAATCGCCAAGCTTACTCAAATC
109056302 ACCTCCAACC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (36 bp):
CTTACTCAAATCGCCAAGCTTACTCAAATCTCCAAG
Found at i:109056501 original size:24 final size:25
Alignment explanation
Indices: 109056459--109056506 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
109056449 ACGCAATTTT
109056459 AGTTAAAGAAATTAAAAATCCAAAC
1 AGTTAAAGAAATTAAAAATCCAAAC
* *
109056484 AGTT-AAGAATTTAGAAATCCAAA
1 AGTTAAAGAAATTAAAAATCCAAA
109056507 TTTTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (25 bp):
AGTTAAAGAAATTAAAAATCCAAAC
Found at i:109058818 original size:19 final size:19
Alignment explanation
Indices: 109058794--109058832 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
109058784 CTGAAATAAG
109058794 AACAAAGAAGATTTATTGA
1 AACAAAGAAGATTTATTGA
109058813 AACAAAGAAGATTTATTGA
1 AACAAAGAAGATTTATTGA
109058832 A
1 A
109058833 TCTCCTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (19 bp):
AACAAAGAAGATTTATTGA
Found at i:109059778 original size:114 final size:114
Alignment explanation
Indices: 109059575--109059961 Score: 453
Period size: 114 Copynumber: 3.4 Consensus size: 114
109059565 TCAGTAGCCA
** * * *
109059575 CTCCTGGAGAGC-TTTGGGCAGTTGAGATGGCATCGGATGAGACCTGCTTGATGAACCCAGAGGC
1 CTCCTGGAGA-CATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGC
*
109059639 AGTGCCCAACAGTCCAGAATACTGAGCCTGAGGAGACCCTTCCCCAGAAC
65 AGTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGAAC
*
109059689 CTCCTGGAGACATTTGGGCAACCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGCA
1 CTCCTGGAGACATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGCA
** * *
109059754 GCACCCAACAGTTCAGAAGGCTGAGCCTGAGGAGACCC-TCCCTCA-AAC
66 GTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCC-CAGAAC
* * * ** * *
109059802 ACTCCTGG-G--GTTTGGGCAGCCGAGATGGCATCGGAAGAGATTTGCTTGATGAGTCCAGAGGC
1 -CTCCTGGAGACATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGC
* * * ***
109059864 AGTGCCCAACAGTCCAGAATGCTGAACCTGAGGAGGCCCTCCCCCAGCTG
65 AGTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGAAC
* * * *
109059914 CTCCTGGAGACATTTGTGCAGCCGAGATAGCTTCAGATGAGACATCCT
1 CTCCTGGAGACATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCT
109059962 AGACAATTGG
Statistics
Matches: 227, Mismatches: 38, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
111 87 0.38
112 4 0.02
113 9 0.04
114 127 0.56
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.19
Consensus pattern (114 bp):
CTCCTGGAGACATTTGGGCAGCCGAGATGGCATCAGATGAGACCTCCTTGATGAATCCAGAGGCA
GTGCCCAACAGTCCAGAATGCTGAGCCTGAGGAGACCCTTCCCCAGAAC
Found at i:109066543 original size:19 final size:20
Alignment explanation
Indices: 109066521--109066560 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
109066511 ATTATGTAAA
109066521 TGTGACATATTTATA-TATT
1 TGTGACATATTTATATTATT
**
109066540 TGTGTTATATTTATATTATT
1 TGTGACATATTTATATTATT
109066560 T
1 T
109066561 TCTTACATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (20 bp):
TGTGACATATTTATATTATT
Found at i:109071317 original size:19 final size:19
Alignment explanation
Indices: 109071283--109071319 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
109071273 ATGTGTGTGT
* *
109071283 GTATAAAAGTAGTTTAAAC
1 GTATAAAAGAACTTTAAAC
109071302 GTATAAAAGAACTTTAAA
1 GTATAAAAGAACTTTAAA
109071320 ATATATTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATAAAAGAACTTTAAAC
Found at i:109072822 original size:47 final size:47
Alignment explanation
Indices: 109072712--109072823 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 47
109072702 TCCGGGATAA
* *
109072712 ACACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGT
1 ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGT
* * *
109072759 ACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-
1 ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGT
109072806 ACACATAGTG-TCTCATCG
1 ACACATAGTGCT-TCATCG
109072824 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGT
Found at i:109073595 original size:4 final size:4
Alignment explanation
Indices: 109073586--109073666 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
109073576 CCCTTTTCTA
* * * * * **
109073586 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCATG TTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTT-C TTTC TTTC TTTC
*
109073636 TTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
109073667 TAACTTACTC
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 4 0.07
ACGTcount: A:0.05, C:0.25, G:0.04, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:109080085 original size:47 final size:47
Alignment explanation
Indices: 109079976--109080086 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
109079966 CCGGGATAAG
* *
109079976 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
109080023 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
109080070 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
109080087 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:109080858 original size:4 final size:4
Alignment explanation
Indices: 109080849--109080933 Score: 71
Period size: 4 Copynumber: 20.8 Consensus size: 4
109080839 CCCTTTTCTA
* ** * * * **
109080849 TTTC TTTC TTTC TTTC TTTA TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
*
109080899 TTTC TATC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
109080934 TTAACTTACT
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 59 0.94
5 3 0.05
6 1 0.02
ACGTcount: A:0.06, C:0.25, G:0.04, T:0.66
Consensus pattern (4 bp):
TTTC
Found at i:109084507 original size:19 final size:22
Alignment explanation
Indices: 109084478--109084519 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
109084468 TGAGAATAAG
109084478 AAAATAA-TTT-TACGTTAACT
1 AAAATAATTTTGTACGTTAACT
109084498 AAAA-AATTTTGTACGTTAACT
1 AAAATAATTTTGTACGTTAACT
109084519 A
1 A
109084520 TCTTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 7 0.35
21 11 0.55
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
AAAATAATTTTGTACGTTAACT
Found at i:109085094 original size:16 final size:16
Alignment explanation
Indices: 109085063--109085101 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
109085053 TAAATAAAAT
109085063 AATATTTTTTAGATAA
1 AATATTTTTTAGATAA
*
109085079 TATATTGTTTTA-ATAA
1 AATATT-TTTTAGATAA
109085095 AATATTT
1 AATATTT
109085102 AAATTTCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.70
17 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
AATATTTTTTAGATAA
Found at i:109085740 original size:16 final size:17
Alignment explanation
Indices: 109085721--109085752 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
109085711 TCATTAAATC
109085721 CAAAAAAA-AAATTTAA
1 CAAAAAAATAAATTTAA
109085737 CAAAAAAATAAATTTA
1 CAAAAAAATAAATTTA
109085753 TTTAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
CAAAAAAATAAATTTAA
Found at i:109090448 original size:24 final size:24
Alignment explanation
Indices: 109090421--109090469 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
109090411 ATTCGAAACC
109090421 AATCTAAATTTATAATAACAATTA
1 AATCTAAATTTATAATAACAATTA
109090445 AATCTAAATTTATAATAACAATTA
1 AATCTAAATTTATAATAACAATTA
109090469 A
1 A
109090470 GATAGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (24 bp):
AATCTAAATTTATAATAACAATTA
Found at i:109094754 original size:19 final size:19
Alignment explanation
Indices: 109094732--109094774 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
109094722 TTAAATTATG
*
109094732 TTATT-ACCCTTAATATATA
1 TTATTAACCCTAAATATA-A
*
109094751 TTATTAACCCTAAATTTAA
1 TTATTAACCCTAAATATAA
109094770 TTATT
1 TTATT
109094775 GAGTTAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTAACCCTAAATATAA
Found at i:109095904 original size:14 final size:14
Alignment explanation
Indices: 109095885--109095912 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
109095875 TATATTAGTA
109095885 TTTTCTATTCTATT
1 TTTTCTATTCTATT
109095899 TTTTCTATTCTATT
1 TTTTCTATTCTATT
109095913 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:109095924 original size:5 final size:6
Alignment explanation
Indices: 109095909--109095979 Score: 53
Period size: 6 Copynumber: 12.2 Consensus size: 6
109095899 TTTTCTATTC
* * *
109095909 TATTAG TATTAG -ATTAG TATT-C TATT-C TATTAA TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
109095953 TATTAG TTAAATTAG -ATTAG TATTAG T
1 TATTAG -T--ATTAG TATTAG TATTAG T
109095980 TAGTGATCCC
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
5 24 0.44
6 25 0.45
7 1 0.02
9 5 0.09
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (6 bp):
TATTAG
Found at i:109095931 original size:27 final size:27
Alignment explanation
Indices: 109095901--109095956 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
109095891 ATTCTATTTT
*
109095901 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAATATTAGATTAGTA
109095928 TTCTATTCTATTAATATTAGATTAGTA
1 TTCTATTCTATTAATATTAGATTAGTA
109095955 TT
1 TT
109095957 AGTTAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (27 bp):
TTCTATTCTATTAATATTAGATTAGTA
Found at i:109095968 original size:20 final size:21
Alignment explanation
Indices: 109095938--109095981 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
109095928 TTCTATTCTA
109095938 TTAATATTAGATTAGTATTAG
1 TTAATATTAGATTAGTATTAG
109095959 TTAA-ATTAGATTAGTATTAG
1 TTAATATTAGATTAGTATTAG
109095979 TTA
1 TTA
109095982 GTGATCCCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.48
Consensus pattern (21 bp):
TTAATATTAGATTAGTATTAG
Found at i:109096949 original size:12 final size:12
Alignment explanation
Indices: 109096934--109096985 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
109096924 CTTCATAAGC
109096934 ATCTTCGAAATA
1 ATCTTCGAAATA
*
109096946 ATCTTCAAAATTA
1 ATCTTCGAAA-TA
** **
109096959 ATCTTCGTGAGC
1 ATCTTCGAAATA
109096971 ATCTTCGAAATA
1 ATCTTCGAAATA
109096983 ATC
1 ATC
109096986 ACCACCCCGC
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
12 20 0.69
13 9 0.31
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (12 bp):
ATCTTCGAAATA
Found at i:109096972 original size:37 final size:33
Alignment explanation
Indices: 109096875--109096985 Score: 125
Period size: 33 Copynumber: 3.2 Consensus size: 33
109096865 AAGCCTTCTA
* *
109096875 AAATAATCTTG-AAAATCTTTATGAGCATCTGCG
1 AAATAATC-TGCAAAATCTTCATGAGCATCTTCG
*
109096908 AAATAATCTGCAAAATCTTCATAAGCATCTTCG
1 AAATAATCTGCAAAATCTTCATGAGCATCTTCG
* *
109096941 AAATAATCTTCAAAATTAATCTTCGTGAGCATCTTCG
1 AAATAATCTGC--AA--AATCTTCATGAGCATCTTCG
109096978 AAATAATC
1 AAATAATC
109096986 ACCACCCCGC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 2 0.03
33 37 0.55
35 2 0.03
37 26 0.39
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (33 bp):
AAATAATCTGCAAAATCTTCATGAGCATCTTCG
Found at i:109110011 original size:26 final size:24
Alignment explanation
Indices: 109109981--109110030 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
109109971 AAATAAAAAA
*
109109981 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
109110007 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
109110031 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:109110050 original size:21 final size:21
Alignment explanation
Indices: 109110001--109110059 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
109109991 ATAATAAATC
*
109110001 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
109110021 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
109110043 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
109110060 TACACAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:109110083 original size:28 final size:27
Alignment explanation
Indices: 109110035--109110088 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
109110025 AAATATTAAA
*
109110035 ACAAATAAAAATAATACTAAAACAATAC
1 ACAAATAAAAATAATAATAAAA-AATAC
*
109110063 ACAAATTAACAAT-ATAATAAAAAATA
1 ACAAA-TAAAAATAATAATAAAAAATA
109110089 GTTATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 13 0.57
29 6 0.26
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (27 bp):
ACAAATAAAAATAATAATAAAAAATAC
Found at i:109110336 original size:16 final size:16
Alignment explanation
Indices: 109110315--109110346 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
109110305 GGCCGCCCGG
109110315 CCCATGATCAGCTCTA
1 CCCATGATCAGCTCTA
*
109110331 CCCATGATCAGGTCTA
1 CCCATGATCAGCTCTA
109110347 ATTATCATTA
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:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (16 bp):
CCCATGATCAGCTCTA
Found at i:109118670 original size:15 final size:15
Alignment explanation
Indices: 109118650--109118686 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
109118640 TAATTCTGTA
109118650 ACCATTAGAGGCCCT
1 ACCATTAGAGGCCCT
**
109118665 ACCATTATCGGCCCT
1 ACCATTAGAGGCCCT
109118680 ACCATTA
1 ACCATTA
109118687 TCTCCATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (15 bp):
ACCATTAGAGGCCCT
Found at i:109118687 original size:15 final size:15
Alignment explanation
Indices: 109118659--109118688 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
109118649 AACCATTAGA
109118659 GGCCCTACCATTATC
1 GGCCCTACCATTATC
109118674 GGCCCTACCATTATC
1 GGCCCTACCATTATC
109118689 TCCATTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (15 bp):
GGCCCTACCATTATC
Found at i:109119532 original size:6 final size:6
Alignment explanation
Indices: 109119511--109119566 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
109119501 TTGTTTTCAA
* *
109119511 TTTAAT TTTTA- TTTAAT ATTAAT TTTAAT TTTAAT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
*
109119558 TGTAAT TTT
1 TTTAAT TTT
109119567 TCATTTAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:109119575 original size:12 final size:11
Alignment explanation
Indices: 109119504--109119576 Score: 74
Period size: 12 Copynumber: 6.2 Consensus size: 11
109119494 AAGAGAGTTG
109119504 TTTTCAATTTAA
1 TTTT-AATTTAA
*
109119516 TTTTTATTTAA
1 TTTTAATTTAA
*
109119527 TATTAATTTTAA
1 TTTTAA-TTTAA
109119539 TTTTAATTTTAA
1 TTTTAA-TTTAA
109119551 TTTTAATTGTAA
1 TTTTAATT-TAA
*
109119563 TTTTTCATTTAA
1 -TTTTAATTTAA
109119575 TT
1 TT
109119577 ATTTTCTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
11 14 0.26
12 32 0.60
13 7 0.13
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (11 bp):
TTTTAATTTAA
Found at i:109121937 original size:18 final size:18
Alignment explanation
Indices: 109121914--109121949 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
109121904 CTTTAAACAC
109121914 GGATACAATTTACACGGA
1 GGATACAATTTACACGGA
109121932 GGATACAATTTACACGGA
1 GGATACAATTTACACGGA
109121950 TACAATTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (18 bp):
GGATACAATTTACACGGA
Found at i:109121962 original size:15 final size:15
Alignment explanation
Indices: 109121910--109121956 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 15
109121900 ATAACTTTAA
109121910 ACACGGATACAATTT
1 ACACGGATACAATTT
109121925 ACACGGAGGATACAATTT
1 ACAC---GGATACAATTT
109121943 ACACGGATACAATT
1 ACACGGATACAATT
109121957 ATCACGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 14 0.48
18 15 0.52
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (15 bp):
ACACGGATACAATTT
Found at i:109123552 original size:31 final size:29
Alignment explanation
Indices: 109123516--109123592 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
109123506 GTACCAGGGA
109123516 AGTCCCTATATTA-TAGGAACCGGATCAAGTT
1 AGTCCCTATATTATTA--AA-CGGATCAAGTT
* *
109123547 AGTCCCTCTATTATTAAACGGATCAATTT
1 AGTCCCTATATTATTAAACGGATCAAGTT
*
109123576 AGT-CCTATACTATTAAA
1 AGTCCCTATATTATTAAA
109123593 AAGAATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.29
29 13 0.32
30 2 0.05
31 12 0.29
32 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (29 bp):
AGTCCCTATATTATTAAACGGATCAAGTT
Found at i:109128131 original size:17 final size:17
Alignment explanation
Indices: 109128109--109128143 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
109128099 AAGTAAAGCT
109128109 TTTGTTTTCTCTTCTTG
1 TTTGTTTTCTCTTCTTG
109128126 TTTGTTTTCTCTTCTTG
1 TTTGTTTTCTCTTCTTG
109128143 T
1 T
109128144 GTTATTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTGTTTTCTCTTCTTG
Found at i:109128151 original size:17 final size:17
Alignment explanation
Indices: 109128109--109128152 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
109128099 AAGTAAAGCT
*
109128109 TTTGTTTTCTCTTCTTG
1 TTTGATTTCTCTTCTTG
*
109128126 TTTGTTTTCTCTTCTTG
1 TTTGATTTCTCTTCTTG
109128143 TGTT-ATTTCT
1 T-TTGATTTCT
109128153 GCAGACCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.02, C:0.16, G:0.11, T:0.70
Consensus pattern (17 bp):
TTTGATTTCTCTTCTTG
Done.