Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 79 of 410
Found at i:22780107 original size:43 final size:43
Alignment explanation
Indices: 22780017--22780181 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
22780007 TTTTGACATG
* * * *
22780017 TGATTTA-GTGTAAGACCACGTCTGGGACGTTGGCATCAATTTG
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATC-GTATA
* *
22780060 TGATTTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATA
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
* * * *
22780103 TGATTT-CGTGTAAGACC-CTGTCTGAGACAGTGGCTTCGATATT
1 TGATTTACGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATA
* *
22780146 TGA-TTACATGTAAGACCACGTCAGGGACATTGGCAT
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCAT
22780182 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.28
43 44 0.44
44 28 0.28
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
Found at i:22780150 original size:86 final size:85
Alignment explanation
Indices: 22780017--22780181 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 85
22780007 TTTTGACATG
* * *
22780017 TGATTTAGTGTAAGACCACGTCTGGGACGTTGGCATCAATTTGTGATTTACGTGTAAAACCATGT
1 TGATTTAGTGTAAGACCACGTCTGAGACGTTGGCATCAATTTGTGA-TTACATGTAAAACCACGT
*
22780082 CTGGGACATTGGCATCGTATA
65 CAGGGACATTGGCATCGTATA
* * * *
22780103 TGATTTCGTGTAAGACC-CTGTCTGAGACAG-TGGCTTCGATATT-TGATTACATGTAAGACCAC
1 TGATTTAGTGTAAGACCAC-GTCTGAGAC-GTTGGCATCAAT-TTGTGATTACATGTAAAACCAC
22780165 GTCAGGGACATTGGCAT
63 GTCAGGGACATTGGCAT
22780182 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 30 0.44
86 35 0.51
87 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (85 bp):
TGATTTAGTGTAAGACCACGTCTGAGACGTTGGCATCAATTTGTGATTACATGTAAAACCACGTC
AGGGACATTGGCATCGTATA
Found at i:22783134 original size:25 final size:23
Alignment explanation
Indices: 22783106--22783152 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
22783096 ATAAAAAAAC
*
22783106 TTAAAAATATAATAAATCAAATATA
1 TTAAAAACATAA-AAA-CAAATATA
22783131 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
22783153 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 11 0.52
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
TTAAAAACATAAAAACAAATATA
Found at i:22783172 original size:21 final size:21
Alignment explanation
Indices: 22783124--22783181 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
22783114 ATAATAAATC
*
22783124 AAAT-ATATTAAAA-ACATAA
1 AAATAATATTAAAACAAATAA
*
22783143 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
22783165 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
22783182 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
21 21 0.66
22 8 0.25
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:22789153 original size:18 final size:18
Alignment explanation
Indices: 22789132--22789170 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22789122 TAAGTAAAAG
* *
22789132 ATATTATGTTATTATATT
1 ATATTATATTATGATATT
22789150 ATATTATATTATGATATT
1 ATATTATATTATGATATT
22789168 ATA
1 ATA
22789171 AACATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
ATATTATATTATGATATT
Found at i:22789273 original size:13 final size:13
Alignment explanation
Indices: 22789255--22789287 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
22789245 AAAACGCGAG
22789255 AAAGAAAG-AAGAA
1 AAAGAAAGAAAG-A
22789268 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
22789281 AAAGAAA
1 AAAGAAA
22789288 AAGGGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:22790026 original size:19 final size:19
Alignment explanation
Indices: 22790004--22790063 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
22789994 TATATATATA
22790004 TTGAATATATATTGATTAT
1 TTGAATATATATTGATTAT
22790023 TTGAAT-TGA-ATTGA--AT
1 TTGAATAT-ATATTGATTAT
*
22790039 TATGAGTATAT-TTGATTAT
1 T-TGAATATATATTGATTAT
22790058 TTGAAT
1 TTGAAT
22790064 TGAAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
16 3 0.09
17 9 0.27
18 11 0.33
19 10 0.30
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (19 bp):
TTGAATATATATTGATTAT
Found at i:22791555 original size:40 final size:40
Alignment explanation
Indices: 22791508--22791692 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
22791498 CTTGCACAAG
* *
22791508 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
22791548 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
22791588 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
22791628 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
22791669 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
22791693 CATTCGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.76
41 29 0.23
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:22796720 original size:40 final size:40
Alignment explanation
Indices: 22796663--22796810 Score: 113
Period size: 40 Copynumber: 3.7 Consensus size: 40
22796653 TGTGCTAGGT
* * *
22796663 GACTATAATCGGA-CTAAGATCAGAAGGCATTCGTGCGAGTT
1 GACTAT-ATCCGAGCTAAGACCAGAAGGCATTCGTGCGAG-C
* * *
22796704 G-CTATATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGC
1 GACTATATCCGAGCTAAGACCAGAAGGCATTCGTGCGAGC
* * ** * *
22796743 GACTATATCCGGGCTAAGTCCCA-AAGGCATTTATGCTAGT
1 GACTATATCCGAGCTAAG-ACCAGAAGGCATTCGTGCGAGC
* * *
22796783 GACCATATCCGGGCTAAGACCCGAAGGC
1 GACTATATCCGAGCTAAGACCAGAAGGC
22796811 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
39 8 0.09
40 78 0.88
41 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
GACTATATCCGAGCTAAGACCAGAAGGCATTCGTGCGAGC
Found at i:22796791 original size:80 final size:81
Alignment explanation
Indices: 22796634--22796810 Score: 202
Period size: 80 Copynumber: 2.2 Consensus size: 81
22796624 TGATATACGG
* * * *
22796634 GCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAATCGGACTAAGATCAGAAGGCATTCGTGC
1 GCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAATCGGACTAAGATCAGAAGGCATTCATGC
*
22796699 GAGTTGCTATATCCGA
66 GAGTTGCCATATCCGA
* *
22796715 GCTAAGACCCGAAGGCATTTGTGCTA-GCGACTAT-ATCCGGGCTAAG-TCCCA-AAGGCATTTA
1 GCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAAT-CGGACTAAGAT--CAGAAGGCATTCA
* *
22796776 TGCTAG-TGACCATATCCGG
63 TGCGAGTTG-CCATATCCGA
22796795 GCTAAGACCCGAAGGC
1 GCTAAGACCCGAAGGC
22796811 CTTGTGCAAG
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
79 5 0.06
80 52 0.63
81 26 0.31
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
GCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAATCGGACTAAGATCAGAAGGCATTCATGC
GAGTTGCCATATCCGA
Found at i:22798921 original size:40 final size:40
Alignment explanation
Indices: 22798793--22798923 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
22798783 TATGCTGGAA
* * * *
22798793 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
22798833 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
22798873 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
22798913 ATTATATCCGG
1 ATTATATCCGG
22798924 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:22803597 original size:40 final size:40
Alignment explanation
Indices: 22803512--22803662 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
22803502 AATTGAATGA
* * *
22803512 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
22803552 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
22803593 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
22803632 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
22803663 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:22803676 original size:40 final size:40
Alignment explanation
Indices: 22803548--22803678 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
22803538 TATGCTGGAA
* * *
22803548 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
22803588 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
22803628 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
22803668 ATTATATCCGG
1 ATTATATCCGG
22803679 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:22811592 original size:40 final size:40
Alignment explanation
Indices: 22811507--22811657 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
22811497 AATTGAATGA
* * *
22811507 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
22811547 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
22811588 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
22811627 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
22811658 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:22811671 original size:40 final size:40
Alignment explanation
Indices: 22811543--22811673 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
22811533 TATGCTGGAA
* * *
22811543 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
22811583 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
22811623 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
22811663 ATTATATCCGG
1 ATTATATCCGG
22811674 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:22818869 original size:40 final size:40
Alignment explanation
Indices: 22818822--22819006 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
22818812 CTTGCACAAG
* *
22818822 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
22818862 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
22818902 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* ** * *
22818942 GCCTTCGGATCTTAGTTCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
22818983 GCCTTCAGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
22819007 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 93 0.77
41 27 0.22
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:22823516 original size:92 final size:92
Alignment explanation
Indices: 22823352--22823568 Score: 317
Period size: 92 Copynumber: 2.4 Consensus size: 92
22823342 GACATGATGT
* *
22823352 CATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTATCATATTGCCATGGTATCTTTCAACCAT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
*
22823417 AATCTTATTCATTTCTTGTCATGTTGC
66 AATCTTATTCATTTCTTATCATGTTGC
* * * * * *
22823444 CATGGTATCTTTCAACCATGGTCTTATTCATTTCCTTTCATGTTGCCATGGTTTCTTTCAACCAT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
** *
22823509 GGTCTTATTCATTTCTTATCATTTTGC
66 AATCTTATTCATTTCTTATCATGTTGC
*
22823536 CATAGTATCTTTCAACTATGGTCTTACACATTT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTT
22823569 GAATCGCGAT
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 109 1.00
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (92 bp):
CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
AATCTTATTCATTTCTTATCATGTTGC
Found at i:22823568 original size:46 final size:46
Alignment explanation
Indices: 22823359--22823561 Score: 284
Period size: 46 Copynumber: 4.4 Consensus size: 46
22823349 TGTCATAGTG
* * *
22823359 TCTTTCAACTATGGTCTTACTCATTT-TCTATCATATTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCT-TATCATGTTGCCATGGTA
** *
22823405 TCTTTCAACCATAATCTTATTCATTTCTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTTATCATGTTGCCATGGTA
*
22823451 TCTTTCAACCATGGTCTTATTCATTTCCTT-TCATGTTGCCATGGTT
1 TCTTTCAACCATGGTCTTATTCATTT-CTTATCATGTTGCCATGGTA
* *
22823497 TCTTTCAACCATGGTCTTATTCATTTCTTATCATTTTGCCATAGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTTATCATGTTGCCATGGTA
*
22823543 TCTTTCAACTATGGTCTTA
1 TCTTTCAACCATGGTCTTA
22823562 CACATTTGAA
Statistics
Matches: 141, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
45 3 0.02
46 134 0.95
47 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCTTATCATGTTGCCATGGTA
Found at i:22823600 original size:45 final size:45
Alignment explanation
Indices: 22823533--22823658 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
22823523 CTTATCATTT
** * *
22823533 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTGAATCGCGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
* * * *
22823578 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTGAGTCGTGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
22823623 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
22823659 CTGGTATGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (45 bp):
TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
Found at i:22832139 original size:18 final size:18
Alignment explanation
Indices: 22832116--22832171 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
22832106 AATATATAAC
*
22832116 AATTATTTTAAAAATTAA
1 AATTATTTAAAAAATTAA
*
22832134 AATTATTTAAAAAATTATTT
1 AATTATTTAAAAAATTA--A
*
22832154 AATTATTAAAAAAATTAA
1 AATTATTTAAAAAATTAA
22832172 GTTGGAGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.50
20 16 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTATTTAAAAAATTAA
Found at i:22833121 original size:20 final size:20
Alignment explanation
Indices: 22833096--22833134 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22833086 TTCCGAATCT
*
22833096 CAAACTCTAAACCCTAAACA
1 CAAACTCCAAACCCTAAACA
*
22833116 CAAACTCCAAACCTTAAAC
1 CAAACTCCAAACCCTAAAC
22833135 TTGAACCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (20 bp):
CAAACTCCAAACCCTAAACA
Found at i:22833383 original size:14 final size:14
Alignment explanation
Indices: 22833364--22833394 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22833354 TTAATTGATT
22833364 TTTAATTAATTAAA
1 TTTAATTAATTAAA
*
22833378 TTTAATTAATTGAA
1 TTTAATTAATTAAA
22833392 TTT
1 TTT
22833395 TCTAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:22834271 original size:3 final size:3
Alignment explanation
Indices: 22834263--22834287 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22834253 GACTCATAGA
22834263 AGG AGG AGG AGG AGG AGG AGG AGG A
1 AGG AGG AGG AGG AGG AGG AGG AGG A
22834288 AGAGAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:22835833 original size:6 final size:6
Alignment explanation
Indices: 22835824--22835852 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22835814 GGTATGGGTT
22835824 GGGCTA GGGCTA GGGCTA GGGCTA GGGCT
1 GGGCTA GGGCTA GGGCTA GGGCTA GGGCT
22835853 TAGACCAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.17, G:0.52, T:0.17
Consensus pattern (6 bp):
GGGCTA
Found at i:22838091 original size:96 final size:99
Alignment explanation
Indices: 22837967--22838172 Score: 271
Period size: 96 Copynumber: 2.1 Consensus size: 99
22837957 ATTTTTAAAT
* ** *
22837967 TTTAGGG-TTTTAAGGAAAAAAATTAAATAAATTAGGGTTT-AGTGTTTGTTAATTAAATTAATT
1 TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAAG-GTTACTTAAGTAAATTAATT
* *
22838030 ATTAA-TTTT-AAAAAATTAGATTATGG-TTTAGTG
65 ATAAATTTTTAAAAAAATTAGATTA-GGATTTAGGG
* *
22838063 TTTATGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTA
1 TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTA
22838127 TAAATTTTTAAAAAAATTAGATTAGGATTTTAGGG
66 TAAATTTTTAAAAAAATTAGATTAGGA-TTTAGGG
22838162 TTTAGGGTTTT
1 TTTAGGGTTTT
22838173 AGGGTATTTA
Statistics
Matches: 95, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
96 49 0.52
97 16 0.17
98 14 0.15
99 16 0.17
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (99 bp):
TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTA
TAAATTTTTAAAAAAATTAGATTAGGATTTAGGG
Found at i:22838172 original size:15 final size:15
Alignment explanation
Indices: 22838148--22838177 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22838138 AAAAATTAGA
22838148 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
22838163 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
22838178 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:22838477 original size:126 final size:127
Alignment explanation
Indices: 22838266--22838536 Score: 422
Period size: 126 Copynumber: 2.1 Consensus size: 127
22838256 TTTTACGTGA
* * *
22838266 ACGCTCTTTTGCTACAGT-AGTCTCTGAAAAAATAATTTTGAGAAGACGTGTTTGCGTAAATAGT
1 ACGCTCTTTTGCTACAGTGAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCATAAATAGT
* * ** *
22838330 GGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCTACGTAG
66 GGTAAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAATACTAAAAGAAGCTCCCACGTAG
*
22838392 ATGCTCTTTTGCTACAGTGA-TCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCATAAATAGT
1 ACGCTCTTTTGCTACAGTGAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCATAAATAGT
*
22838456 -GTCAAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAATACTAAAAGAAGCTCCCACGTGG
66 GGT-AAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAATACTAAAAGAAGCTCCCACGTAG
22838518 ACGCTCTTTTGCTACAGTG
1 ACGCTCTTTTGCTACAGTG
22838537 GTTTCTAAAA
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
125 2 0.02
126 129 0.98
127 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (127 bp):
ACGCTCTTTTGCTACAGTGAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCATAAATAGT
GGTAAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAATACTAAAAGAAGCTCCCACGTAG
Found at i:22841720 original size:116 final size:116
Alignment explanation
Indices: 22841545--22841927 Score: 667
Period size: 116 Copynumber: 3.3 Consensus size: 116
22841535 TTTATATTTT
* * * *
22841545 ATTACATGAAATAATATAAAAATATTCAAAATATTTCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
22841610 AAAATATAAAAATAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATA
*
22841661 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
22841726 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATA
22841777 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
22841842 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATGTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATA
*
22841893 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
22841928 TGTACAAATA
Statistics
Matches: 255, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 255 1.00
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATA
Found at i:22842338 original size:18 final size:18
Alignment explanation
Indices: 22842312--22842354 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22842302 GACTAGAAAA
* *
22842312 AGGAAACATATAAGGGCT
1 AGGAAACATAAAAGAGCT
*
22842330 AGGATACATAAAAGAGCT
1 AGGAAACATAAAAGAGCT
22842348 AGGAAAC
1 AGGAAAC
22842355 GTACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.12, G:0.26, T:0.14
Consensus pattern (18 bp):
AGGAAACATAAAAGAGCT
Found at i:22847791 original size:20 final size:20
Alignment explanation
Indices: 22847762--22847814 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
22847752 ATCAGTATTC
* *
22847762 TTATCCTGAATTTTAGGATT
1 TTATCTTGAATTTCAGGATT
*
22847782 TTATCTTGAATTTCAGTATT
1 TTATCTTGAATTTCAGGATT
22847802 TTAAT-TTGAATTT
1 TT-ATCTTGAATTT
22847815 GATTTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (20 bp):
TTATCTTGAATTTCAGGATT
Found at i:22851980 original size:13 final size:13
Alignment explanation
Indices: 22851962--22851986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22851952 TTTGTAATGA
22851962 AGAAAAATAGATT
1 AGAAAAATAGATT
22851975 AGAAAAATAGAT
1 AGAAAAATAGAT
22851987 CATCTCCAAG
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:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (13 bp):
AGAAAAATAGATT
Found at i:22872915 original size:3 final size:3
Alignment explanation
Indices: 22872901--22872940 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
22872891 GTAAAAGATA
22872901 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATCT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A
22872941 ATTGAGATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:22873090 original size:16 final size:16
Alignment explanation
Indices: 22873066--22873096 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22873056 TAAGTAAATA
*
22873066 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
22873082 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
22873097 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:22874500 original size:13 final size:13
Alignment explanation
Indices: 22874479--22874510 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22874469 TTTGGTTTGA
*
22874479 ATTTATATGTATG
1 ATTTGTATGTATG
22874492 ATTTGTATGTATG
1 ATTTGTATGTATG
22874505 ATTTGT
1 ATTTGT
22874511 TAATTATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (13 bp):
ATTTGTATGTATG
Found at i:22875028 original size:20 final size:20
Alignment explanation
Indices: 22874999--22875045 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
22874989 AGGTTAGTCC
*
22874999 CACGGCCATGTCCCAGGCCA
1 CACGGGCATGTCCCAGGCCA
22875019 CACGGGCATGTCCCAGGCCA
1 CACGGGCATGTCCCAGGCCA
22875039 CACGGGC
1 CACGGGC
22875046 GTGTGCCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.43, G:0.30, T:0.09
Consensus pattern (20 bp):
CACGGGCATGTCCCAGGCCA
Found at i:22879579 original size:9 final size:9
Alignment explanation
Indices: 22879567--22879608 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
22879557 TTCAAATCTC
22879567 TCAAAACCT
1 TCAAAACCT
22879576 TCAAAA-CT
1 TCAAAACCT
*
22879584 TCAAAATCT
1 TCAAAACCT
*
22879593 CCCAAAACCT
1 -TCAAAACCT
22879603 TCAAAA
1 TCAAAA
22879609 GTATCATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.29
9 13 0.46
10 7 0.25
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (9 bp):
TCAAAACCT
Found at i:22881496 original size:14 final size:14
Alignment explanation
Indices: 22881474--22881508 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
22881464 ATAATAATAT
*
22881474 AATATAGTATAATG
1 AATAAAGTATAATG
22881488 AATAAAGTATAATG
1 AATAAAGTATAATG
*
22881502 AGTAAAG
1 AATAAAG
22881509 AAACATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (14 bp):
AATAAAGTATAATG
Found at i:22882396 original size:47 final size:47
Alignment explanation
Indices: 22882332--22882442 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
22882322 GACATTGAGT
*
22882332 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
22882379 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
22882426 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
22882443 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:22888740 original size:14 final size:14
Alignment explanation
Indices: 22888718--22888752 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
22888708 ATAATAATAT
*
22888718 AATATAGTATAATG
1 AATAAAGTATAATG
22888732 AATAAAGTATAATG
1 AATAAAGTATAATG
*
22888746 AGTAAAG
1 AATAAAG
22888753 AAACATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (14 bp):
AATAAAGTATAATG
Found at i:22891110 original size:54 final size:54
Alignment explanation
Indices: 22891042--22891183 Score: 200
Period size: 53 Copynumber: 2.7 Consensus size: 54
22891032 ACAAGTGTGC
* *
22891042 CCGTTTAAGACCATAGCTGGGCTATGGCATTCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATTCGGTACAATGTGATAATGTGACT
* * *
22891096 CCGTATAAGACCATAGTTGGGCTATGGCA-TCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATTCGGTACAATGTGATAATGTGACT
*
22891149 CCGTATAAGACCAT-GTCTGGGATATGGC-TTCGGTA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATTCGGTA
22891184 TGATATGTGA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
52 1 0.01
53 51 0.65
54 27 0.34
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (54 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATTCGGTACAATGTGATAATGTGACT
Found at i:22893656 original size:19 final size:19
Alignment explanation
Indices: 22893611--22893655 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
22893601 CAGTATAAAA
22893611 ATATGTTTAATATTATTAAT
1 ATAT-TTTAATATTATTAAT
22893631 ATATTTTAAT-TTATT-AT
1 ATATTTTAATATTATTAAT
22893648 ATAATTTT
1 AT-ATTTT
22893656 TTTTCTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 6 0.25
20 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATATTTTAATATTATTAAT
Found at i:22896955 original size:25 final size:23
Alignment explanation
Indices: 22896903--22896957 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
22896893 TATAAATAGT
22896903 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
22896926 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
22896951 AATAGTG
1 AATAGTG
22896958 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:22897137 original size:25 final size:25
Alignment explanation
Indices: 22897023--22897234 Score: 102
Period size: 25 Copynumber: 8.6 Consensus size: 25
22897013 ATATAAAAAA
* * * *
22897023 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
22897048 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
22897070 ATATATACATAAGATAACATGTAAAAAAAAT
1 ATATATACAT-A-AT-ATA-GT--ATTAAAG
*
22897101 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
22897126 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
22897151 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
22897175 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
22897197 AATACATACATAATATAATATT-AAG
1 -ATATATACATAATATAGTATTAAAG
*
22897222 AAATATA-ATAATA
1 ATATATACATAATA
22897235 ACAAAAAAAA
Statistics
Matches: 141, Mismatches: 30, Indels: 34
0.69 0.15 0.17
Matches are distributed among these distances:
21 1 0.01
22 11 0.08
23 25 0.18
24 24 0.17
25 58 0.41
26 2 0.01
27 2 0.01
28 2 0.01
29 2 0.01
30 5 0.04
31 9 0.06
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:22897734 original size:30 final size:30
Alignment explanation
Indices: 22897698--22897765 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
22897688 AGGTACAAGT
*
22897698 GGTGGTGGAGCAAGTGTGGTTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
* *
22897728 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
22897758 GGTGGTGG
1 GGTGGTGG
22897766 CAAAGGCTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.18, C:0.04, G:0.51, T:0.26
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
Found at i:22898033 original size:17 final size:17
Alignment explanation
Indices: 22898013--22898073 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
22898003 ATTTCAAGGC
22898013 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
22898030 TTATTTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
22898049 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
22898067 TTATGTA
1 TTATGTA
22898074 GTAATTCAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 4 0.13
20 8 0.26
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:22898053 original size:37 final size:37
Alignment explanation
Indices: 22897987--22898113 Score: 177
Period size: 37 Copynumber: 3.4 Consensus size: 37
22897977 AAGACTTACA
* *
22897987 TTTTAATTATGT-GTTAATTTC-AAGGCTTATGTAATGT
1 TTTTAATTATGTAG-TGA-TTCAAAGACTTATGTAATGT
*
22898024 TTTTAATTATTTAGTGATTCAAAGACTTATGTAATGT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
* *
22898061 TTTTAATTATGTAGTAATTCAAAGACTTATGTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
22898098 TTTTAATTATGTAGTG
1 TTTTAATTATGTAGTG
22898114 TAGTGATTCA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
36 3 0.04
37 77 0.95
38 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (37 bp):
TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
Found at i:22898107 original size:17 final size:17
Alignment explanation
Indices: 22898050--22898110 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
22898040 ATTCAAAGAC
*
22898050 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
* ***
22898067 TTATGTAGTAATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
22898086 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
22898104 TTATGTA
1 TTATGTA
22898111 GTGTAGTGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:22898135 original size:9 final size:9
Alignment explanation
Indices: 22898123--22898207 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
22898113 GTAGTGATTC
*
22898123 AATTCGGTC
1 AATTCGGTT
*
22898132 AATTCGATT
1 AATTCGGTT
22898141 AATTCGGTT
1 AATTCGGTT
* *
22898150 AATCCGGGT
1 AATTCGGTT
22898159 AATTCGGTT
1 AATTCGGTT
*
22898168 AATTCGATT
1 AATTCGGTT
22898177 AATTCGGTT
1 AATTCGGTT
* *
22898186 AATCCGGGT
1 AATTCGGTT
22898195 AATTCGGTT
1 AATTCGGTT
22898204 AATT
1 AATT
22898208 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 63 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:22898164 original size:36 final size:36
Alignment explanation
Indices: 22898123--22898207 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
22898113 GTAGTGATTC
*
22898123 AATTCGGTCAATTCGATTAATTCGGTTAATCCGGGT
1 AATTCGGTTAATTCGATTAATTCGGTTAATCCGGGT
22898159 AATTCGGTTAATTCGATTAATTCGGTTAATCCGGGT
1 AATTCGGTTAATTCGATTAATTCGGTTAATCCGGGT
22898195 AATTCGGTTAATT
1 AATTCGGTTAATT
22898208 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (36 bp):
AATTCGGTTAATTCGATTAATTCGGTTAATCCGGGT
Found at i:22899812 original size:7 final size:7
Alignment explanation
Indices: 22899800--22899830 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
22899790 TTTATAATAG
22899800 CATTATA
1 CATTATA
22899807 CATTATA
1 CATTATA
22899814 CATTATA
1 CATTATA
22899821 CATTATA
1 CATTATA
22899828 CAT
1 CAT
22899831 ATGTGTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (7 bp):
CATTATA
Found at i:22910845 original size:40 final size:41
Alignment explanation
Indices: 22910790--22910957 Score: 166
Period size: 40 Copynumber: 4.2 Consensus size: 41
22910780 TGAATGATAC
* *
22910790 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * *
22910830 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * ** *
22910870 CCTGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * * * *
22910910 CCGGGTTAAGACCCAAAGGCAATTGTGCTTG-TGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
22910950 CC-GGCTAA
1 CCGGGCTAA
22910958 ATTCCGAAGA
Statistics
Matches: 103, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
39 6 0.06
40 95 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
Found at i:22910929 original size:80 final size:79
Alignment explanation
Indices: 22910793--22910957 Score: 190
Period size: 80 Copynumber: 2.1 Consensus size: 79
22910783 ATGATACCCG
* * ** * *
22910793 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTCGTG
1 GGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCAAAGGCAATT-GTG
*
22910857 CGAGTTGTTATATCC
65 CGAGTGGTTATATCC
* *
22910872 TGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATCCGGGTTAAGACCCAAAGGCAATTGT
1 -GGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCAAAGGCAATTGT
**
22910936 GCTTGTGGTTATATCC
64 GCGAGTGGTTATATCC
22910952 GGCTAA
1 GGCTAA
22910958 ATTCCGAAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 6 0.08
80 62 0.86
81 4 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
GGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCAAAGGCAATTGTGC
GAGTGGTTATATCC
Found at i:22912686 original size:46 final size:46
Alignment explanation
Indices: 22912621--22912802 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
22912611 TTATCTTCGA
* * * * *
22912621 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
22912667 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
22912713 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
22912759 CATGTTGCCATGGTATCTTTCAACCATTGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
22912803 TTTAGATAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 122 0.97
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:22915574 original size:37 final size:36
Alignment explanation
Indices: 22915512--22915587 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
22915502 GGTAATCACT
*
22915512 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
22915549 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
22915585 TTA
1 TTA
22915588 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:22916015 original size:19 final size:19
Alignment explanation
Indices: 22915991--22916042 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
22915981 AAAATATCAT
*
22915991 ATTAATTTTACTTAACTTG
1 ATTAATTTAACTTAACTTG
* * *
22916010 ATTAATTTAATTTTATTTG
1 ATTAATTTAACTTAACTTG
22916029 ATTAATTTAA-TTAA
1 ATTAATTTAACTTAA
22916043 TTTTTCAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 3 0.11
19 25 0.89
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTAATTTAACTTAACTTG
Found at i:22919884 original size:28 final size:29
Alignment explanation
Indices: 22919852--22919907 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
22919842 CACTGGCGAC
22919852 GACACAGGCGTGT-CTAGGCCGTGTGAAG
1 GACACAGGCGTGTGCTAGGCCGTGTGAAG
* *
22919880 GACACAGGTGTGTGCTCGGCCGTGTGAA
1 GACACAGGCGTGTGCTAGGCCGTGTGAA
22919908 AACCCTATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.20, C:0.21, G:0.39, T:0.20
Consensus pattern (29 bp):
GACACAGGCGTGTGCTAGGCCGTGTGAAG
Found at i:22925105 original size:43 final size:43
Alignment explanation
Indices: 22925044--22925149 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 43
22925034 CACCATTTTT
* * * *
22925044 TGGACAAACTACCAGTAATTGGAGTCAAGTTGCCAAAAATATG
1 TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
* * * *
22925087 TGGACAAGCCACCAGTAATTGCATTCAAGCTACTAGAAATATG
1 TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
*
22925130 TGGACAAACCACTAGTAATT
1 TGGACAAACCACCAGTAATT
22925150 ACAAATAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (43 bp):
TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
Found at i:22925198 original size:40 final size:39
Alignment explanation
Indices: 22925080--22925238 Score: 135
Period size: 40 Copynumber: 3.9 Consensus size: 39
22925070 AAGTTGCCAA
*
22925080 AAATATGTGGACAAGCCACCAGTAATTGCAT-TCAAGCTACTAG
1 AAATATGTGGACAAGCCACCAGTAATTGCATAT-AA---A-TTG
* * * *
22925123 AAATATGTGGACAAACCACTAGTAATTACAAATAAATTG
1 AAATATGTGGACAAGCCACCAGTAATTGCATATAAATTG
*
22925162 ATAATATTGTGGACAAGCCACCAGT-ATTGCATATAAACTG
1 A-AATA-TGTGGACAAGCCACCAGTAATTGCATATAAATTG
* * *
22925202 CCAATATTGTGGATAAGCCACCAGT-ATTGCAGATAAA
1 -AAATA-TGTGGACAAGCCACCAGTAATTGCATATAAA
22925239 CTATAAGTAC
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.03
40 50 0.51
41 16 0.16
43 29 0.29
44 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (39 bp):
AAATATGTGGACAAGCCACCAGTAATTGCATATAAATTG
Found at i:22925229 original size:20 final size:20
Alignment explanation
Indices: 22925166--22925230 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
22925156 AAATTGATAA
*
22925166 TATTGTGGACAAGCCACCAG
1 TATTGTGGATAAGCCACCAG
*** * ** *
22925186 TATTGCATATAAACTGCCAA
1 TATTGTGGATAAGCCACCAG
22925206 TATTGTGGATAAGCCACCAG
1 TATTGTGGATAAGCCACCAG
22925226 TATTG
1 TATTG
22925231 CAGATAAACT
Statistics
Matches: 30, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (20 bp):
TATTGTGGATAAGCCACCAG
Found at i:22925236 original size:20 final size:20
Alignment explanation
Indices: 22925176--22925237 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
22925166 TATTGTGGAC
*
22925176 AAGCCACCAGTATTGCATAT
1 AAGCCACCAGTATTGCAGAT
* ** * **
22925196 AAACTGCCAATATTGTGGAT
1 AAGCCACCAGTATTGCAGAT
22925216 AAGCCACCAGTATTGCAGAT
1 AAGCCACCAGTATTGCAGAT
22925236 AA
1 AA
22925238 ACTATAAGTA
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
AAGCCACCAGTATTGCAGAT
Found at i:22925239 original size:40 final size:40
Alignment explanation
Indices: 22925124--22925240 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
22925114 AGCTACTAGA
* * * * * **
22925124 AATA-TGTGGACAAACCACTAGTAATTACAAATAAATTGAT
1 AATATTGTGGACAAGCCACCAGT-ATTGCAGATAAACTGCC
*
22925164 AATATTGTGGACAAGCCACCAGTATTGCATATAAACTGCC
1 AATATTGTGGACAAGCCACCAGTATTGCAGATAAACTGCC
*
22925204 AATATTGTGGATAAGCCACCAGTATTGCAGATAAACT
1 AATATTGTGGACAAGCCACCAGTATTGCAGATAAACT
22925241 ATAAGTACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 51 0.76
41 16 0.24
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (40 bp):
AATATTGTGGACAAGCCACCAGTATTGCAGATAAACTGCC
Found at i:22927005 original size:34 final size:34
Alignment explanation
Indices: 22926963--22927032 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
22926953 GAAAGTGAAT
22926963 AAATTAATATATGATAAAAGATTAAATAGAATTC
1 AAATTAATATATGATAAAAGATTAAATAGAATTC
22926997 AAATTAATATATGATAAAAGATTAAATAGAATTC
1 AAATTAATATATGATAAAAGATTAAATAGAATTC
22927031 AA
1 AA
22927033 CTTATTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (34 bp):
AAATTAATATATGATAAAAGATTAAATAGAATTC
Found at i:22928006 original size:33 final size:33
Alignment explanation
Indices: 22927969--22928091 Score: 101
Period size: 33 Copynumber: 3.8 Consensus size: 33
22927959 TACCCAAATG
* * *
22927969 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
* * *
22928002 GTA-CACTT-AGAAATGTTAGGTATACTTTGTGT
1 GTACCACTTGA-AAAGGTAAGGTACACTTTGTGT
* * *
22928034 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGTAAGGTACACTTTGTGT
* *
22928067 GTACCACTTGGAAAGG-AATGTACAC
1 GTACCACTTGAAAAGGTAAGGTACAC
22928092 CTCAAGTGTA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
31 1 0.01
32 33 0.45
33 37 0.51
34 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (33 bp):
GTACCACTTGAAAAGGTAAGGTACACTTTGTGT
Found at i:22929733 original size:21 final size:21
Alignment explanation
Indices: 22929707--22929788 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
22929697 TGATCAGTAT
*
22929707 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
22929728 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
22929749 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
22929771 TACGACACATAAAGTGCC
1 -ACGACACACAAAGTGCC
22929789 CGATCAGTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
21 34 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.13
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:22929757 original size:23 final size:22
Alignment explanation
Indices: 22929705--22929779 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
22929695 CCTGATCAGT
** *
22929705 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
22929726 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
22929747 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
22929770 ATACGACACA
1 ATACGACACA
22929780 TAAAGTGCCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:22931296 original size:5 final size:5
Alignment explanation
Indices: 22931286--22931341 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
22931276 TTACTTATTT
* *
22931286 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
22931334 ATATA ATA
1 ATATA ATA
22931342 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:22931302 original size:12 final size:12
Alignment explanation
Indices: 22931285--22931338 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
22931275 TTTACTTATT
22931285 TATATAATATAA
1 TATATAATATAA
22931297 TATATAATATAATA
1 TATATAATAT-A-A
22931311 TACTATAATATAA
1 TA-TATAATATAA
*
22931324 TA-ATAATATCA
1 TATATAATATAA
22931335 TATA
1 TATA
22931339 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:22931394 original size:15 final size:15
Alignment explanation
Indices: 22931374--22931404 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22931364 ATTATTTAGT
22931374 TGTATTACAAGTGTA
1 TGTATTACAAGTGTA
*
22931389 TGTATTACACGTGTA
1 TGTATTACAAGTGTA
22931404 T
1 T
22931405 TTATAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (15 bp):
TGTATTACAAGTGTA
Found at i:22931464 original size:21 final size:22
Alignment explanation
Indices: 22931425--22931475 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
22931415 CATACAATTG
*
22931425 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
22931447 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
22931467 ATAAAATAA
1 TTAAAATAA
22931476 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:22931664 original size:19 final size:22
Alignment explanation
Indices: 22931640--22931686 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
22931630 ATCCTTTCCA
22931640 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
22931659 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
22931680 CTAATTA
1 CTAATTA
22931687 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:22937755 original size:42 final size:42
Alignment explanation
Indices: 22937702--22937852 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
22937692 ACTAAGACTA
* *
22937702 CGTGTAAGACCATATTTGGGATATGGTATCAATAG-GAGACTTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAAT-GTGAGA-TTT
*
22937745 -GTGTAAGACCATATCTGGGATATGGCATCTATGTGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATGTGAGATTT
* * * ** **
22937786 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATGTGAGATTT
*
22937829 CATGTAAGACCATATCTGGGATAT
1 CGTGTAAGACCATATCTGGGATAT
22937853 AACATTGGTA
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 4 0.04
42 54 0.59
43 34 0.37
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATGTGAGATTT
Found at i:22941605 original size:16 final size:16
Alignment explanation
Indices: 22941563--22941607 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
22941553 ATTTAAACTT
*
22941563 AACAACTCAAATTCGA
1 AACAACTCAAATTCCA
*
22941579 AATAA-TCCAAATTCCA
1 AACAACT-CAAATTCCA
22941595 AACAACTCAAATT
1 AACAACTCAAATT
22941608 AAAACAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.22
Consensus pattern (16 bp):
AACAACTCAAATTCCA
Found at i:22941921 original size:34 final size:34
Alignment explanation
Indices: 22941883--22941951 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
22941873 TCAATAATTG
* * *
22941883 TAAATTTAGCCTTCCTAATTATCTCATTGAAACA
1 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
22941917 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
1 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
22941951 T
1 T
22941952 CTCATGATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (34 bp):
TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
Found at i:22945011 original size:6 final size:6
Alignment explanation
Indices: 22945002--22945040 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
22944992 TTTGAATTTA
22945002 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TAT
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TAT
22945041 ATATATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (6 bp):
TATGTG
Found at i:22950894 original size:26 final size:26
Alignment explanation
Indices: 22950863--22950970 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
22950853 TGAAATGCCC
*
22950863 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22950889 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
22950915 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22950941 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22950967 ATCA
1 ATCA
22950971 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22952252 original size:23 final size:23
Alignment explanation
Indices: 22952221--22952311 Score: 96
Period size: 23 Copynumber: 4.0 Consensus size: 23
22952211 AAATAAACTG
* *
22952221 TGAAAATTCTCTGCAATGAACAA
1 TGAAGATTCTCTGTAATGAACAA
* *
22952244 TGAAGATTC-CTTGTAATGAATAG
1 TGAAGATTCTC-TGTAATGAACAA
*
22952267 TGAATATTCTCTGTAATGAACAA
1 TGAAGATTCTCTGTAATGAACAA
*
22952290 T-AAGGATTCTCCGTAATGAACA
1 TGAA-GATTCTCTGTAATGAACA
22952312 TTAAAAATTC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
22 3 0.05
23 52 0.93
24 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (23 bp):
TGAAGATTCTCTGTAATGAACAA
Found at i:22952306 original size:46 final size:46
Alignment explanation
Indices: 22952220--22952328 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 46
22952210 CAAATAAACT
*
22952220 GTGAAAATTCTCTGCAATGAACAATGAAGATTCCTTGTAATGAATA
1 GTGAAAATTCTCTGCAATGAACAATGAAGATTCCTCGTAATGAATA
* * *
22952266 GTGAATATTCTCTGTAATGAACAAT-AAGGATT-CTCCGTAATGAACA
1 GTGAAAATTCTCTGCAATGAACAATGAA-GATTCCT-CGTAATGAATA
* * *
22952312 TTAAAAATTCTTTGCAA
1 GTGAAAATTCTCTGCAA
22952329 AAAAAAAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
45 4 0.08
46 48 0.92
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (46 bp):
GTGAAAATTCTCTGCAATGAACAATGAAGATTCCTCGTAATGAATA
Found at i:22952321 original size:23 final size:23
Alignment explanation
Indices: 22952223--22952322 Score: 67
Period size: 23 Copynumber: 4.3 Consensus size: 23
22952213 ATAAACTGTG
* * *
22952223 AAAATTCTCTGCAATGAACAATG
1 AAAATTCTCCGTAATGAACAATA
* * * * *
22952246 AAGATTC-CTTGTAATGAATAGTG
1 AAAATTCTC-CGTAATGAACAATA
* *
22952269 AATATTCTCTGTAATGAACAATA
1 AAAATTCTCCGTAATGAACAATA
** *
22952292 AGGATTCTCCGTAATGAACATTA
1 AAAATTCTCCGTAATGAACAATA
22952315 AAAATTCT
1 AAAATTCT
22952323 TTGCAAAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
22 1 0.02
23 59 0.97
24 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (23 bp):
AAAATTCTCCGTAATGAACAATA
Found at i:22954416 original size:4 final size:4
Alignment explanation
Indices: 22954407--22954435 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
22954397 TGTTATTGTC
22954407 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
22954436 AACTAGGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:22976862 original size:17 final size:19
Alignment explanation
Indices: 22976840--22976874 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
22976830 GGCAAATTTG
22976840 AACAAGAA-GAG-AGAAGC
1 AACAAGAATGAGTAGAAGC
22976857 AACAAGAATGAGTAGAAG
1 AACAAGAATGAGTAGAAG
22976875 AAAAGAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.57, C:0.09, G:0.29, T:0.06
Consensus pattern (19 bp):
AACAAGAATGAGTAGAAGC
Found at i:22991304 original size:15 final size:15
Alignment explanation
Indices: 22991284--22991317 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22991274 TTTGGTTTTG
22991284 ATTGTTTA-ATATCTA
1 ATTGTTTATATAT-TA
22991299 ATTGTTTATATATTA
1 ATTGTTTATATATTA
22991314 ATTG
1 ATTG
22991318 AGTTTACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (15 bp):
ATTGTTTATATATTA
Found at i:22991530 original size:45 final size:45
Alignment explanation
Indices: 22991389--22991549 Score: 198
Period size: 45 Copynumber: 3.6 Consensus size: 45
22991379 TAGTAACGAA
* * * * *
22991389 TAAGACCGTGACTGAAAAACGTTATAGCATCACGATTCTATCAAG
1 TAAGACCATAACTGAAAGACGTTATGGCATCACGATTCTATCGAG
* * * *
22991434 TAAGA-GATGACTGAAAGACGTTATGACATCACAATTCTATCGAG
1 TAAGACCATAACTGAAAGACGTTATGGCATCACGATTCTATCGAG
*
22991478 TATGACCATAACTGAAAGACGTTATGGCATCACGATTCTATCGAG
1 TAAGACCATAACTGAAAGACGTTATGGCATCACGATTCTATCGAG
* * *
22991523 TAAGACCACAATTAAAAGACGTTATGG
1 TAAGACCATAACTGAAAGACGTTATGG
22991550 AATAACGAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
44 36 0.36
45 63 0.64
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (45 bp):
TAAGACCATAACTGAAAGACGTTATGGCATCACGATTCTATCGAG
Found at i:22991593 original size:45 final size:45
Alignment explanation
Indices: 22991544--22991675 Score: 114
Period size: 46 Copynumber: 2.9 Consensus size: 45
22991534 TTAAAAGACG
*
22991544 TTATGGAATAACGAATC-AAATGAATAAGACCATGGTTGAAAAACA
1 TTATGG-ATAACGAATCAAAATAAATAAGACCATGGTTGAAAAACA
* * *
22991589 TTATGG-TAAC-ACGTCGGAAAATTAATAAGACCATGGTTGAAAGACA
1 TTATGGATAACGA-ATC--AAAATAAATAAGACCATGGTTGAAAAACA
*
22991635 CTATGGCATCAA-G-A-CAAGAATAAATAAGACCATGGTTGAAA
1 TTATGG-AT-AACGAATCAA-AATAAATAAGACCATGGTTGAAA
22991676 GAAAACATAG
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
44 2 0.03
45 28 0.39
46 32 0.44
48 1 0.01
49 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (45 bp):
TTATGGATAACGAATCAAAATAAATAAGACCATGGTTGAAAAACA
Found at i:22991676 original size:45 final size:45
Alignment explanation
Indices: 22991561--22991677 Score: 137
Period size: 46 Copynumber: 2.6 Consensus size: 45
22991551 ATAACGAATC
* * * * * *
22991561 AAATGAATAAGACCATGGTTGAAAAACATTATGGTAACACGTCGGA
1 AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGAC-GA
* *
22991607 AAATTAATAAGACCATGGTTGAAAGACACTATGGCATCAAGAC-A
1 AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGA
22991651 AGAATAAATAAGACCATGGTTGAAAGA
1 A-AATAAATAAGACCATGGTTGAAAGA
22991678 AAACATAGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.03
45 24 0.39
46 36 0.58
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (45 bp):
AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGA
Found at i:22994277 original size:15 final size:16
Alignment explanation
Indices: 22994254--22994291 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22994244 AAAAATAACG
22994254 ATGAAAATTT-ATTAA
1 ATGAAAATTTAATTAA
*
22994269 ATGACAATTTAATTAA
1 ATGAAAATTTAATTAA
*
22994285 ACGAAAA
1 ATGAAAA
22994292 AGAAAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:23005490 original size:12 final size:12
Alignment explanation
Indices: 23005473--23005502 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23005463 AATAATCACT
*
23005473 TTTGATTGTTTA
1 TTTGATTGTATA
23005485 TTTGATTGTATA
1 TTTGATTGTATA
23005497 TTTGAT
1 TTTGAT
23005503 ACCATTTTGT
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:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (12 bp):
TTTGATTGTATA
Found at i:23009884 original size:40 final size:40
Alignment explanation
Indices: 23009836--23010031 Score: 324
Period size: 40 Copynumber: 4.9 Consensus size: 40
23009826 GGACTAAGAT
*
23009836 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
23009876 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
23009916 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
23009956 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
23009996 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAA
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
23010032 ATTCTGAAGG
Statistics
Matches: 150, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 6 0.04
40 142 0.95
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:23017856 original size:40 final size:40
Alignment explanation
Indices: 23017775--23017965 Score: 319
Period size: 40 Copynumber: 4.8 Consensus size: 40
23017765 GGACTAAGAT
*
23017775 CCGAAGGCATTTGTGCTAGTGATTATTATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTA-TATCCGGGCTAAGTC
*
23017816 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
23017856 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
23017896 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
23017936 CCGAAGGCATTCGTGCGAGTTACTATATCC
1 CCGAAGGCATTTGTGCTAGTGACTATATCC
23017966 AGCTAAATTC
Statistics
Matches: 144, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 119 0.83
41 25 0.17
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:23022082 original size:40 final size:40
Alignment explanation
Indices: 23022027--23022113 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
23022017 TGATGACATA
23022027 TCAGCTAAATATGGCACTTAGTATGCGATTT-AGTATAGCT
1 TCAGCTAAATATGGCACTTAGTATGCGATTTGAG-ATAGCT
* *
23022067 TCAGCTAAATGTGGCACTTAGTGTGCGATTTGAGATAGCT
1 TCAGCTAAATATGGCACTTAGTATGCGATTTGAGATAGCT
23022107 TCAGCTA
1 TCAGCTA
23022114 TGTACAGCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (40 bp):
TCAGCTAAATATGGCACTTAGTATGCGATTTGAGATAGCT
Found at i:23022124 original size:40 final size:39
Alignment explanation
Indices: 23022040--23022133 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
23022030 GCTAAATATG
* *
23022040 GCACTTAGTATGCGATTTAGTATAGCTTCAGCTAAATGTG
1 GCACTTAGTGTGCGATTTAGTATAGCTTCAGCT-AATGTA
23022080 GCACTTAGTGTGCGATTTGAG-ATAGCTTCAGCT-ATGTACA
1 GCACTTAGTGTGCGATTT-AGTATAGCTTCAGCTAATGT--A
23022120 GCACTTAGTGTGCG
1 GCACTTAGTGTGCG
23022134 GGATATCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
38 4 0.08
40 43 0.88
41 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (39 bp):
GCACTTAGTGTGCGATTTAGTATAGCTTCAGCTAATGTA
Found at i:23024229 original size:22 final size:22
Alignment explanation
Indices: 23024203--23024244 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23024193 TTGTAACCTC
*
23024203 TTTCTCTTCTTATTTGTTTGTG
1 TTTCTCTTCTTATTAGTTTGTG
*
23024225 TTTCTCTTCTTGTTAGTTTG
1 TTTCTCTTCTTATTAGTTTG
23024245 CTCTGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.14, G:0.14, T:0.67
Consensus pattern (22 bp):
TTTCTCTTCTTATTAGTTTGTG
Found at i:23025193 original size:26 final size:26
Alignment explanation
Indices: 23025157--23025207 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
23025147 CCTATTAATA
*
23025157 TTTAACCTAGCATTAACCTTTTTGCT
1 TTTAACCTAGCATTAACCATTTTGCT
23025183 TTTAACCTAGCATTAACCATTTTGC
1 TTTAACCTAGCATTAACCATTTTGC
23025208 CCTTAAGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (26 bp):
TTTAACCTAGCATTAACCATTTTGCT
Found at i:23025213 original size:26 final size:26
Alignment explanation
Indices: 23025158--23025213 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
23025148 CTATTAATAT
* **
23025158 TTAACCTAGCATTAACCTTTTTGCTT
1 TTAACCTAGCATTAACCATTTTGCCC
23025184 TTAACCTAGCATTAACCATTTTGCCC
1 TTAACCTAGCATTAACCATTTTGCCC
23025210 TTAA
1 TTAA
23025214 GCAAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (26 bp):
TTAACCTAGCATTAACCATTTTGCCC
Found at i:23026837 original size:29 final size:29
Alignment explanation
Indices: 23026776--23026874 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
23026766 ACAGTAAGTC
*
23026776 CGCACACTTAGTGCT-TA-ATATTCAAACC
1 CGCACACTTAGTGCTATACA-ATTCAAACT
23026804 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
23026833 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
23026861 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23026875 CAATCTCATT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 34 0.50
29 33 0.49
30 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:23028002 original size:17 final size:18
Alignment explanation
Indices: 23027965--23028002 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
23027955 ACTTTTTTTT
23027965 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
23027984 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
23028001 TT
1 TT
23028003 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:23028423 original size:41 final size:41
Alignment explanation
Indices: 23028378--23028465 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
23028368 ATGTTTTCTG
*
23028378 CATGTTTAGGCCAGCATCGACCCTCTACAAAACTCAATTAA
1 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
23028419 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
1 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
*
23028460 CTTGTT
1 CATGTT
23028466 AGTTCCCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (41 bp):
CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
Found at i:23029944 original size:12 final size:12
Alignment explanation
Indices: 23029927--23029954 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23029917 TGCAAAACAG
23029927 GTTTTTAGCGGC
1 GTTTTTAGCGGC
23029939 GTTTTTAGCGGC
1 GTTTTTAGCGGC
23029951 GTTT
1 GTTT
23029955 GAATAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:23030829 original size:14 final size:14
Alignment explanation
Indices: 23030812--23030863 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
23030802 TTAAAACTCT
23030812 AACCCCTAAACCCC
1 AACCCCTAAACCCC
23030826 AACCCCTAAACCCC
1 AACCCCTAAACCCC
*
23030840 AACCCTTAAACCCC
1 AACCCCTAAACCCC
*
23030854 AAGCCCTAAA
1 AACCCCTAAA
23030864 ACTAACCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.38, C:0.50, G:0.02, T:0.10
Consensus pattern (14 bp):
AACCCCTAAACCCC
Found at i:23030926 original size:28 final size:29
Alignment explanation
Indices: 23030881--23030942 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
23030871 TCTAAACCCA
* * * *
23030881 TAAACTATAGATCGTAAATCCCAAACTC-
1 TAAACTATAAACCATAAATCACAAACTCT
*
23030909 TAAACTATAAACCATAAATCATAAACTCT
1 TAAACTATAAACCATAAATCACAAACTCT
23030938 TAAAC
1 TAAAC
23030943 CAAAAACCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.26
Consensus pattern (29 bp):
TAAACTATAAACCATAAATCACAAACTCT
Found at i:23030955 original size:22 final size:21
Alignment explanation
Indices: 23030903--23030955 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 21
23030893 CGTAAATCCC
* *
23030903 AAACTCTAAACTATAAACCAT
1 AAACCCTAAACTATAAACCAA
* * *
23030924 AAATCATAAACTCTTAAACCAA
1 AAACCCTAAACT-ATAAACCAA
23030946 AAACCCTAAA
1 AAACCCTAAA
23030956 ATCTAAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTAAACTATAAACCAA
Found at i:23032891 original size:34 final size:34
Alignment explanation
Indices: 23032851--23032982 Score: 184
Period size: 34 Copynumber: 4.0 Consensus size: 34
23032841 ATGTAATTGG
*
23032851 AAATTTTATTTCTTTTTGTAAATCATTTTTCTTT
1 AAATTTTATTTCTTTGTGTAAATCATTTTTCTTT
*
23032885 AAATTTTATTTCTTTGTGTAAATAATTTTTCTTT
1 AAATTTTATTTCTTTGTGTAAATCATTTTTCTTT
* *
23032919 AAATTTTATTTATTTGTGT--A--ATTTCTCTTT
1 AAATTTTATTTCTTTGTGTAAATCATTTTTCTTT
23032949 AAATTTTATTAT-TTTGTGTAAATCATTTTTCTTT
1 AAATTTTATT-TCTTTGTGTAAATCATTTTTCTTT
23032983 GTTTAGTGAC
Statistics
Matches: 88, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
30 26 0.30
31 1 0.01
32 2 0.02
34 59 0.67
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (34 bp):
AAATTTTATTTCTTTGTGTAAATCATTTTTCTTT
Found at i:23032941 original size:30 final size:30
Alignment explanation
Indices: 23032875--23032969 Score: 120
Period size: 30 Copynumber: 3.0 Consensus size: 30
23032865 TTTGTAAATC
*
23032875 ATTTTTCTTTAAATTTTATTTCTTTGTGTAAATA
1 ATTTTTCTTTAAATTTTATTTATTTGTG----TA
23032909 ATTTTTCTTTAAATTTTATTTATTTGTGTA
1 ATTTTTCTTTAAATTTTATTTATTTGTGTA
*
23032939 ATTTCTCTTTAAATTTTA-TTATTTTGTGTA
1 ATTTTTCTTTAAATTTTATTTA-TTTGTGTA
23032969 A
1 A
23032970 ATCATTTTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 3 0.05
30 28 0.48
34 27 0.47
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (30 bp):
ATTTTTCTTTAAATTTTATTTATTTGTGTA
Found at i:23035738 original size:44 final size:44
Alignment explanation
Indices: 23035632--23035819 Score: 170
Period size: 44 Copynumber: 4.3 Consensus size: 44
23035622 AAGTTTATAT
* * * * *
23035632 TCTTAAGCGGCGTTTGT-GAAAAAAGTGCCGCTAAAGGTC-TGT
1 TCTTTAGCGGCGTTTATAAAAAAAAGTGACGCTAAAGGTCATGG
* * *
23035674 TATATAACGGCGTTTATAAAAAAAAGTGACGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTATAAAAAAAAGTGACGCTAAAGGTCATGG
* * * * * * * *
23035718 TTTTTAGCGACGTTTCTAAAAAAAAGCGCCGTTAAAGGTTATTG
1 TCTTTAGCGGCGTTTATAAAAAAAAGTGACGCTAAAGGTCATGG
*
23035762 TCTTTAGCGGCGTTTGT--AAAAAAG-GCATCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTATAAAAAAAAGTG-A-CGCTAAAGGTCATGG
23035805 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
23035820 GCAGGAAAAG
Statistics
Matches: 117, Mismatches: 25, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 19 0.16
43 47 0.40
44 50 0.43
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
TCTTTAGCGGCGTTTATAAAAAAAAGTGACGCTAAAGGTCATGG
Found at i:23035839 original size:43 final size:43
Alignment explanation
Indices: 23035632--23035897 Score: 203
Period size: 43 Copynumber: 6.2 Consensus size: 43
23035622 AAGTTTATAT
* ** * *
23035632 TCTTAAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTC-TGT
1 TCTTTAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGG
* * * ** * *
23035674 TATATAACGGCGTTTATAAAAAAAAGTGACGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTT-GCAAAAAAAGCGCCGCTAAAGGTCATGG
* * * * *
23035718 TTTTTAGCGACGTTT-CTAAAAAAAAGCGCCGTTAAAGGTTATTG
1 TCTTTAGCGGCGTTTGC--AAAAAAAGCGCCGCTAAAGGTCATGG
* * **
23035762 TCTTTAGCGGCGTTTGTAAAAAAGGCATCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGG
** * ** *
23035805 TCTTTAGCGGCGTTTGCAGGAAAAGCGCCACTAAAGACCATGA
1 TCTTTAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGG
* * * * *
23035848 CCTTTAGCGGCATTTGCAAAAAAAACGCCTCTAAAAGTCATGG
1 TCTTTAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGG
23035891 TCTTTAG
1 TCTTTAG
23035898 TGGCTTTTTT
Statistics
Matches: 170, Mismatches: 49, Indels: 9
0.75 0.21 0.04
Matches are distributed among these distances:
42 11 0.06
43 112 0.66
44 47 0.28
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGG
Found at i:23038266 original size:9 final size:9
Alignment explanation
Indices: 23038252--23038303 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
23038242 GTAAAAAATG
*
23038252 ATAATAATA
1 ATAATAGTA
*
23038261 ATAATATTTA
1 ATAATA-GTA
23038271 ATAATAGTA
1 ATAATAGTA
* *
23038280 ATAGTAGTG
1 ATAATAGTA
*
23038289 ATGATAGTA
1 ATAATAGTA
23038298 ATAATA
1 ATAATA
23038304 ATTTGGGCCT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (9 bp):
ATAATAGTA
Found at i:23038589 original size:42 final size:42
Alignment explanation
Indices: 23038487--23038810 Score: 479
Period size: 42 Copynumber: 7.7 Consensus size: 42
23038477 TCGTGGCTTG
23038487 CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAAT-GA
1 CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGA
* *
23038528 CCTCCACATCTGGGTCTCTAGATGCAATGAAAAGTGAATGGA
1 CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGA
* * *
23038570 CCTCCACACCTGGGCCTCTAAGTGGAATGAAAAGTGAATGGA
1 CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGA
* *
23038612 TCTCCACACCTCGGTCTCTAAATGCAATGAAAAGTGAATGGA
1 CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGA
* * *
23038654 CCTCCACACCTGGGTCTCTAGATGCAATAAAAAGTGAATGAA
1 CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGA
* * * *
23038696 CCTCCACACCTGGGTCTCTAGATGCAATGAAATGGGAATAGA
1 CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGA
* * * *
23038738 CCTCCACACCTAGGTCTTTAAATGCAATGAAAAGTAAATGGG
1 CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGA
23038780 CCTCCACACCTGGGTCTCTAAATGCAATGAA
1 CCTCCACACCTGGGTCTCTAAATGCAATGAA
23038811 TGTTTTCCTT
Statistics
Matches: 250, Mismatches: 32, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
41 37 0.15
42 213 0.85
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (42 bp):
CCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGA
Found at i:23039244 original size:24 final size:26
Alignment explanation
Indices: 23039207--23039270 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 26
23039197 TCTCTTGCTC
*
23039207 TCTCTTTATTTTTTGGTT-TCTTTTT-T
1 TCTCTTT-TCTTTT-GTTGTCTTTTTGT
*
23039233 TC-CTTTTCTTTTTTTGTCTTTTTGT
1 TCTCTTTTCTTTTGTTGTCTTTTTGT
*
23039258 TCTTTTTTCTTTT
1 TCTCTTTTCTTTT
23039271 TTCTTGACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.06
24 12 0.38
25 7 0.22
26 11 0.34
ACGTcount: A:0.02, C:0.14, G:0.06, T:0.78
Consensus pattern (26 bp):
TCTCTTTTCTTTTGTTGTCTTTTTGT
Found at i:23039244 original size:26 final size:26
Alignment explanation
Indices: 23039225--23039272 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
23039215 TTTTTTGGTT
23039225 TCTTTTT-TTC-CTTTTCTTTTTTTG
1 TCTTTTTGTTCTCTTTTCTTTTTTTG
*
23039249 TCTTTTTGTTCTTTTTTCTTTTTT
1 TCTTTTTGTTCTCTTTTCTTTTTT
23039273 CTTGACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (26 bp):
TCTTTTTGTTCTCTTTTCTTTTTTTG
Found at i:23039271 original size:16 final size:15
Alignment explanation
Indices: 23039223--23039271 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
23039213 TATTTTTTGG
*
23039223 TTTC-TTTTTTTCCT
1 TTTCTTTTTTTTCTT
23039237 TTTCTTTTTTTGTCTT
1 TTTCTTTTTTT-TCTT
*
23039253 TTTGTTCTTTTTTCTT
1 TTTCTT-TTTTTTCTT
23039269 TTT
1 TTT
23039272 TCTTGACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 4 0.13
15 6 0.20
16 15 0.50
17 5 0.17
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTTTTCTT
Found at i:23055086 original size:19 final size:18
Alignment explanation
Indices: 23055043--23055090 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
23055033 AGACAGAGAC
*
23055043 ATAAGAAAAATAAAGTCA
1 ATAAAAAAAATAAAGTCA
*
23055061 GTAAAAAAAATAAAGTCAA
1 ATAAAAAAAATAAAGTC-A
*
23055080 ATGAAAAAAAT
1 ATAAAAAAAAT
23055091 GCAAAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.17
Consensus pattern (18 bp):
ATAAAAAAAATAAAGTCA
Found at i:23057133 original size:42 final size:42
Alignment explanation
Indices: 23057028--23057192 Score: 183
Period size: 43 Copynumber: 3.9 Consensus size: 42
23057018 CAGAAAGCTC
* * *
23057028 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
* *
23057070 ATATCGATGCC-ACTATCCCAGACAG-GGTCTTAAACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAA
* *
23057113 ATACGATGCCAATGTCCCAGATGTGGTCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCA-A
*
23057157 AGT-CGATGCCAACGTCCCAGGCGTGGTCTTACACGA
1 A-TACGATGCCAACGTCCCAGACGTGGTCTTACACGA
23057193 TAACACATAT
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.28
43 40 0.39
44 32 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:23059981 original size:21 final size:21
Alignment explanation
Indices: 23059956--23060092 Score: 130
Period size: 21 Copynumber: 6.5 Consensus size: 21
23059946 AAGCTCGAAG
* *
23059956 GCTAAACAGAAGCTTATGAGA
1 GCTAAACAGAAGCTCATAAGA
23059977 GCTAAACAGAAGCTCATAAGA
1 GCTAAACAGAAGCTCATAAGA
* * * *
23059998 GCTAAACGGAAACCCATAAGG
1 GCTAAACAGAAGCTCATAAGA
* * *
23060019 GTTAAACAGAAGCTCAAAATA
1 GCTAAACAGAAGCTCATAAGA
* * * *
23060040 GCTTAACGGAAACTCATATGA
1 GCTAAACAGAAGCTCATAAGA
* * *
23060061 GTTAAACAGAAGCTCGTGAGA
1 GCTAAACAGAAGCTCATAAGA
23060082 GCTAAACAGAA
1 GCTAAACAGAA
23060093 AGTAAACACA
Statistics
Matches: 88, Mismatches: 28, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 88 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.17
Consensus pattern (21 bp):
GCTAAACAGAAGCTCATAAGA
Found at i:23060586 original size:23 final size:22
Alignment explanation
Indices: 23060544--23060603 Score: 93
Period size: 23 Copynumber: 2.7 Consensus size: 22
23060534 AATTTAGTCC
**
23060544 TTAACTAATTAATCTTATCAAA
1 TTAACTAATTTTTCTTATCAAA
23060566 TTAACTAATATTTTCTTATCAAA
1 TTAACTAAT-TTTTCTTATCAAA
23060589 TTAACTAATTTTTCT
1 TTAACTAATTTTTCT
23060604 CAATTAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAACTAATTTTTCTTATCAAA
Found at i:23062069 original size:17 final size:18
Alignment explanation
Indices: 23062047--23062087 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
23062037 AAAAAAAACG
*
23062047 TCTTCCTCTACCTTTTC-
1 TCTTCCTCTACCTCTTCT
*
23062064 TCTTCCTCTTCCTCTTCT
1 TCTTCCTCTACCTCTTCT
23062082 TCTTCC
1 TCTTCC
23062088 AACTTCTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTCCTCTACCTCTTCT
Found at i:23062322 original size:148 final size:149
Alignment explanation
Indices: 23062124--23062395 Score: 424
Period size: 148 Copynumber: 1.8 Consensus size: 149
23062114 CACTAGAGAG
* * *
23062124 AATCTAAACTTTCTCATTTAAAAAAAAAATACTATTTTTCTTAAATATTAAAGTTTTTATTTTGA
1 AATCTAAACTTTCTCATTT-AAAAAAAAACACTATTTTTCTTAAATATTAAAGCTTTTACTTTGA
* *
23062189 AGTAGTT-AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTATAAAA
65 AATAGTTGAAAAAAATC-AAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTATAAAA
23062253 AAATAGATTTTTATTTTTCAA
129 AAATAGATTTTTATTTTTCAA
*
23062274 AATCTAAACTTTCTCCTTT-AAAAAAAACACTATTTTTCTT-AATGATTAAAGCTTTTACTTTGA
1 AATCTAAACTTTCTCATTTAAAAAAAAACACTATTTTTCTTAAAT-ATTAAAGCTTTTACTTTGA
* *
23062337 AATAGTTGAAAAAAATCAAACCTTGTTTTACAATTTTAAACTTTCCTTTAAAATAACTA
65 AATAGTTGAAAAAAATCAAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTA
23062396 ATATATATAT
Statistics
Matches: 112, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
147 3 0.03
148 82 0.73
149 9 0.08
150 18 0.16
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (149 bp):
AATCTAAACTTTCTCATTTAAAAAAAAACACTATTTTTCTTAAATATTAAAGCTTTTACTTTGAA
ATAGTTGAAAAAAATCAAACCTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTATAAAAAA
ATAGATTTTTATTTTTCAA
Found at i:23076724 original size:43 final size:43
Alignment explanation
Indices: 23076677--23076788 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 43
23076667 AATACCGACG
* * **
23076677 TCCCAGACGTGGTCTTACATGTAAATCA-ATATCGATGCCTCTA
1 TCCCAGACGTGGTCTTACACGTAAATCAGATA-CAATGCCGATA
*
23076720 TCCCAGACAG-GGTCTTACACG-AAATCAGATACAATGCCGATG
1 TCCCAGAC-GTGGTCTTACACGTAAATCAGATACAATGCCGATA
* *
23076762 TCCCAGACATGGTCTTATACGTAAATC
1 TCCCAGACGTGGTCTTACACGTAAATC
23076789 TCAATCGAGG
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 31 0.53
43 26 0.45
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGTAAATCAGATACAATGCCGATA
Found at i:23076766 original size:42 final size:42
Alignment explanation
Indices: 23076657--23076788 Score: 133
Period size: 43 Copynumber: 3.1 Consensus size: 42
23076647 AGATGCTCAT
* * *
23076657 AATCAAGTACAATACCGACGTCCCAGAC-GTGGTCTTACATGTA
1 AATCAA-TACAATGCCGATGTCCCAGACAG-GGTCTTACACGTA
* ** *
23076700 AATCAATATCGATGCCTCTATCCCAGACAGGGTCTTACACG-A
1 AATCAATA-CAATGCCGATGTCCCAGACAGGGTCTTACACGTA
* *
23076742 AATCAGATACAATGCCGATGTCCCAGACATGGTCTTATACGTA
1 AATCA-ATACAATGCCGATGTCCCAGACAGGGTCTTACACGTA
23076785 AATC
1 AATC
23076789 TCAATCGAGG
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
42 34 0.47
43 37 0.51
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
AATCAATACAATGCCGATGTCCCAGACAGGGTCTTACACGTA
Found at i:23076819 original size:85 final size:85
Alignment explanation
Indices: 23076664--23076826 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
23076654 CATAATCAAG
* * * *
23076664 TACAATACCGACGTCCCAGACGTGGTCTTACATGTAAATCAATATCGATGCCTCTATCCCAGACA
1 TACAATACCGACGTCCCAGACATGGTCTTACACGTAAATCAATATCGAGGCCTCTATCCCACACA
*
23076729 GGGTCTTACACGAAATCAGA
66 CGGTCTTACACGAAATCAGA
* * * * * * *
23076749 TACAATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCA-ATCGAGGCCTGTGTCTCACAC
1 TACAATACCGACGTCCCAGACATGGTCTTACACGTAAATC-AATATCGAGGCCTCTATCCCACAC
23076813 ACGGTCTTACACGA
65 ACGGTCTTACACGA
23076827 TATCTCAGAC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
85 64 0.98
86 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (85 bp):
TACAATACCGACGTCCCAGACATGGTCTTACACGTAAATCAATATCGAGGCCTCTATCCCACACA
CGGTCTTACACGAAATCAGA
Found at i:23084001 original size:43 final size:43
Alignment explanation
Indices: 23083954--23084092 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 43
23083944 TCCCGGACGT
* * *
23083954 GGTCTTACATGTAATTCAATATCGATGCCTTTGTCCCAGACAG
1 GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * *
23083997 GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * *
23084039 GGTCTTATACGTAAATCTCAAT-T-GAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
*
23084082 AGTCTTACACG
1 GGTCTTACACG
23084093 ATATCTCAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
42 33 0.42
43 38 0.49
44 4 0.05
45 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:23084033 original size:42 final size:43
Alignment explanation
Indices: 23083935--23084055 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 43
23083925 ATCAAGTACA
* * * *
23083935 ATGCCGACGTCCCGGAC-GTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACACGTAAATCAATATCG
**
23083978 ATGCCTTTGTCCCAGACAGGGTCTTACACG-AAATCAGATA-CG
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCA-ATATCG
* *
23084020 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATC
1 ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATC
23084056 TCAATTGAGG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 33 0.51
43 31 0.48
44 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACAGGGTCTTACACGTAAATCAATATCG
Done.