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 80 of 410
Found at i:23084074 original size:85 final size:85
Alignment explanation
Indices: 23083935--23084093 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
23083925 ATCAAGTACA
* * * * * **
23083935 ATGCCGACGTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTTTGTCCCAGACAGGGT
1 ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTGTGTCCCAGACACAGT
23084000 CTTACACGAAATCAGATACG
66 CTTACACGAAATCAGATACG
* *
23084020 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAAT-T-GAGGCCTGTGTCCCAGACACA
1 ATGCCGACGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTGTGTCCCAGACACA
23084083 GTCTTACACGA
64 GTCTTACACGA
23084094 TATCTCAGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 54 0.86
86 4 0.06
87 5 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTGTGTCCCAGACACAGT
CTTACACGAAATCAGATACG
Found at i:23090567 original size:7 final size:7
Alignment explanation
Indices: 23090557--23090581 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23090547 TACATCAAAG
23090557 TCATGTT
1 TCATGTT
23090564 TCATGTT
1 TCATGTT
23090571 TCATGTT
1 TCATGTT
23090578 TCAT
1 TCAT
23090582 AAATCTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (7 bp):
TCATGTT
Found at i:23096483 original size:17 final size:17
Alignment explanation
Indices: 23096461--23096495 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23096451 CAGTAAAATG
23096461 GATTATGAGATATGTTC
1 GATTATGAGATATGTTC
23096478 GATTATGAGATATGTTC
1 GATTATGAGATATGTTC
23096495 G
1 G
23096496 GGACACCTCT
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:0.29, C:0.06, G:0.26, T:0.40
Consensus pattern (17 bp):
GATTATGAGATATGTTC
Found at i:23098558 original size:67 final size:67
Alignment explanation
Indices: 23098450--23098585 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
23098440 GTCACAAACT
23098450 CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
1 CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
23098515 AG
66 AG
23098517 CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
1 CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
23098582 AG
66 AG
23098584 CC
1 CC
23098586 AAATCCAATC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (67 bp):
CCTTTCATAACAATAATTAGTAAAATCAAACAAAATTTCCACCTACATATATTTATTATTATTTG
AG
Found at i:23099647 original size:22 final size:24
Alignment explanation
Indices: 23099622--23099670 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
23099612 TAAGCTTATC
23099622 TAAAATACAT-TTTAAATT-TTTT
1 TAAAATACATGTTTAAATTATTTT
* *
23099644 TAAAATATATGTTTATATTATTTT
1 TAAAATACATGTTTAAATTATTTT
23099668 TAA
1 TAA
23099671 TTTTATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 7 0.30
24 7 0.30
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TAAAATACATGTTTAAATTATTTT
Found at i:23099667 original size:23 final size:22
Alignment explanation
Indices: 23099622--23099667 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
23099612 TAAGCTTATC
*
23099622 TAAAATACATTTTAAATTTTTT
1 TAAAATACATTTTAAATTATTT
* *
23099644 TAAAATATATGTTTATATTATTT
1 TAAAATACAT-TTTAAATTATTT
23099667 T
1 T
23099668 TAATTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TAAAATACATTTTAAATTATTT
Found at i:23099677 original size:17 final size:16
Alignment explanation
Indices: 23099655--23099700 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
23099645 AAAATATATG
23099655 TTTATATTATTTTTAAT
1 TTTATA-TATTTTTAAT
**
23099672 TTTATAT-TTAATAAT
1 TTTATATATTTTTAAT
23099687 TTTATATATTTTTA
1 TTTATATATTTTTA
23099701 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATATTTTTAAT
Found at i:23099681 original size:23 final size:24
Alignment explanation
Indices: 23099655--23099719 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
23099645 AAAATATATG
*
23099655 TTTATATTATTTT-TA-ATTTTATA
1 TTTATATAATTTTATATATTTT-TA
23099678 TTTA-ATAATTTTATATATTTTTA
1 TTTATATAATTTTATATATTTTTA
*
23099701 TTTATTAAAATTTTATATA
1 TTTA-TATAATTTTATATA
23099720 CAATCATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.19
23 12 0.33
24 5 0.14
25 12 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATATAATTTTATATATTTTTA
Found at i:23099699 original size:25 final size:25
Alignment explanation
Indices: 23099671--23099719 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23099661 TTATTTTTAA
23099671 TTTTATAT-TTAATAATTTTATATAT
1 TTTTATATATTAA-AATTTTATATAT
*
23099696 TTTTATTTATTAAAATTTTATATA
1 TTTTATATATTAAAATTTTATATA
23099720 CAATCATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTATATATTAAAATTTTATATAT
Found at i:23101617 original size:53 final size:54
Alignment explanation
Indices: 23101551--23101689 Score: 167
Period size: 53 Copynumber: 2.6 Consensus size: 54
23101541 ATCACATTTC
* *
23101551 TCTGATGCTATAGCCCAGCTATGGTCTTATACG-G-ATCGCTTGTATCACTT-TAA
1 TCTGATGCCATAGCCCAGCTATGGTCTTATACGAGAATC-ATT-TATCACTTGTAA
* * **
23101604 TCTGAAGCCATAGCCCAGCTATGATCTTATACGAGAATCATTTATCACTTGTTT
1 TCTGATGCCATAGCCCAGCTATGGTCTTATACGAGAATCATTTATCACTTGTAA
* *
23101658 TCCGATGCCATAGCCCAGCCATGGTCTTATAC
1 TCTGATGCCATAGCCCAGCTATGGTCTTATAC
23101690 AGATATTGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 38 0.52
54 32 0.44
55 3 0.04
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (54 bp):
TCTGATGCCATAGCCCAGCTATGGTCTTATACGAGAATCATTTATCACTTGTAA
Found at i:23101703 original size:54 final size:52
Alignment explanation
Indices: 23101554--23101708 Score: 159
Period size: 54 Copynumber: 2.9 Consensus size: 52
23101544 ACATTTCTCT
* * *
23101554 GATGCTATAGCCCAGCTATGGTCTTATAC-GGATCGCTTGTATCACTTTAATCT
1 GATGCCATAGCCCAGCTATGGTCTTATACAGAATCGC-T-TATCACTTTAATCC
* * ** **
23101607 GAAGCCATAGCCCAGCTATGATCTTATACGAGAATCATTTATCACTTGTTTTCC
1 GATGCCATAGCCCAGCTATGGTCTTATAC-AGAATCGCTTATCACTT-TAATCC
* *
23101661 GATGCCATAGCCCAGCCATGGTCTTATACAGATATTGCTTATCACTTT
1 GATGCCATAGCCCAGCTATGGTCTTATACAGA-ATCGCTTATCACTTT
23101709 TTGCCATGGT
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
53 38 0.46
54 41 0.49
55 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACAGAATCGCTTATCACTTTAATCC
Found at i:23112902 original size:2 final size:2
Alignment explanation
Indices: 23112895--23112920 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23112885 ATTGATAGGG
23112895 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23112921 GTATTAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23116439 original size:54 final size:52
Alignment explanation
Indices: 23116269--23116442 Score: 154
Period size: 53 Copynumber: 3.3 Consensus size: 52
23116259 ATATCCAGGA
* * * * * * *
23116269 TATGGTCTTACACGGGAGCACTTATCACATTTCTCCGATGTCATAGCCTAGC
1 TATGGTCTTATACGGGATCATTTATCACTTTTATCCAATGCCATAGCCTAGC
* * * * * *
23116321 TATGGTCTTATAC-GGATCGCTTGTATCACTTTAATCTGAA-GCCATAACCCAAC
1 TATGGTCTTATACGGGATC-ATT-TATCACTTTTATC-CAATGCCATAGCCTAGC
* *
23116374 TATGGTTTTATACGGGAATCATTTATCACTTGTTTTCCAATGCCATAGCCTAGC
1 TATGGTCTTATACGGG-ATCATTTATCACTT-TTATCCAATGCCATAGCCTAGC
23116428 TATGGTCTTATACGG
1 TATGGTCTTATACGG
23116443 ATATCGCTTA
Statistics
Matches: 93, Mismatches: 22, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
51 4 0.04
52 13 0.14
53 41 0.44
54 32 0.34
55 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (52 bp):
TATGGTCTTATACGGGATCATTTATCACTTTTATCCAATGCCATAGCCTAGC
Found at i:23116454 original size:54 final size:53
Alignment explanation
Indices: 23116310--23116461 Score: 148
Period size: 54 Copynumber: 2.8 Consensus size: 53
23116300 TCTCCGATGT
* *
23116310 CATAGCCTAGCTATGGTCTTATACGG-ATCGCTTGTATCACTT-TAATCTGAAGC
1 CATAGCCTAGCTATGGTCTTATACGGAATCGC-T-TATCACTTGTTATCTCAAGC
* * * * ** *
23116363 CATAACCCAACTATGGTTTTATACGGGAATCATTTATCACTTGTTTTC-CAATGC
1 CATAGCCTAGCTATGGTCTTATAC-GGAATCGCTTATCACTTGTTATCTCAA-GC
*
23116417 CATAGCCTAGCTATGGTCTTATACGGATATCGCTTATCAGTTGTT
1 CATAGCCTAGCTATGGTCTTATACGGA-ATCGCTTATCACTTGTT
23116462 GCCATGGTCC
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
53 33 0.42
54 42 0.54
55 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (53 bp):
CATAGCCTAGCTATGGTCTTATACGGAATCGCTTATCACTTGTTATCTCAAGC
Found at i:23121810 original size:22 final size:22
Alignment explanation
Indices: 23121783--23121825 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
23121773 TTCTAGTAAG
23121783 AACTCATTTAAAGACTTTTAAC
1 AACTCATTTAAAGACTTTTAAC
23121805 AACTCATTTAAAGACTTTTAA
1 AACTCATTTAAAGACTTTTAA
23121826 TGTTATTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (22 bp):
AACTCATTTAAAGACTTTTAAC
Found at i:23123726 original size:25 final size:25
Alignment explanation
Indices: 23123700--23123753 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
23123690 GATCTTTTAA
23123700 TTAATAAAATATTATATTAATATAAT
1 TTAATAAAATATT-TATTAATATAAT
* *
23123726 TTAATTAGATATTTATT-A-ATAAT
1 TTAATAAAATATTTATTAATATAAT
23123749 TTAAT
1 TTAAT
23123754 TATAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 4 0.15
26 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TTAATAAAATATTTATTAATATAAT
Found at i:23123765 original size:23 final size:23
Alignment explanation
Indices: 23123721--23123765 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
23123711 TTATATTAAT
* **
23123721 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTAGAAAAATATTA
*
23123744 ATAATTTAATTATAAAAATATT
1 ATAATTTAATTAGAAAAATATT
23123766 GATATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAATTTAATTAGAAAAATATTA
Found at i:23125213 original size:30 final size:30
Alignment explanation
Indices: 23125177--23125268 Score: 175
Period size: 30 Copynumber: 3.1 Consensus size: 30
23125167 AGGCCGTATA
23125177 TCACACACGGCTTAGACACACGCTCGTGTG
1 TCACACACGGCTTAGACACACGCTCGTGTG
23125207 TCACACACGGCTTAGACACACGCTCGTGTG
1 TCACACACGGCTTAGACACACGCTCGTGTG
*
23125237 TCACACACGGCTTAGACACACACTCGTGTG
1 TCACACACGGCTTAGACACACGCTCGTGTG
23125267 TC
1 TC
23125269 TACCCGTGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.24, C:0.34, G:0.22, T:0.21
Consensus pattern (30 bp):
TCACACACGGCTTAGACACACGCTCGTGTG
Found at i:23125214 original size:17 final size:17
Alignment explanation
Indices: 23125192--23125245 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
23125182 CACGGCTTAG
23125192 ACACACGCTCGTGTGTC
1 ACACACGCTCGTGTGTC
*
23125209 ACACACGGCT--T-AG--
1 ACACAC-GCTCGTGTGTC
23125222 ACACACGCTCGTGTGTC
1 ACACACGCTCGTGTGTC
23125239 ACACACG
1 ACACACG
23125246 GCTTAGACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 3 0.10
13 6 0.21
14 1 0.03
15 2 0.07
16 1 0.03
17 13 0.45
18 3 0.10
ACGTcount: A:0.24, C:0.35, G:0.22, T:0.19
Consensus pattern (17 bp):
ACACACGCTCGTGTGTC
Found at i:23125485 original size:2 final size:2
Alignment explanation
Indices: 23125473--23125512 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
23125463 ACTAAAACAC
23125473 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23125513 ATTGGTGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23129439 original size:2 final size:2
Alignment explanation
Indices: 23129427--23129462 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
23129417 ACCCAAACAC
23129427 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23129463 ATTGGTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23132164 original size:10 final size:10
Alignment explanation
Indices: 23132149--23132199 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
23132139 AATTTTCGCT
23132149 TTTATCTTTA
1 TTTATCTTTA
23132159 TTTATCTTTA
1 TTTATCTTTA
*
23132169 ATTATCTTTAA
1 TTTATCTTT-A
*
23132180 TTT-TCTATA
1 TTTATCTTTA
23132189 TTTATCCTTTA
1 TTTAT-CTTTA
23132200 AATTTTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.12
10 23 0.68
11 7 0.21
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:23132876 original size:21 final size:21
Alignment explanation
Indices: 23132852--23132891 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23132842 AACTCTATTT
23132852 ATTTTTACT-ATTTCAATTCTA
1 ATTTTT-CTAATTTCAATTCTA
*
23132873 ATTTTTGTAATTTCAATTC
1 ATTTTTCTAATTTCAATTC
23132892 ATTCCAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTTTCTAATTTCAATTCTA
Found at i:23137212 original size:2 final size:2
Alignment explanation
Indices: 23137205--23137237 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23137195 GTAGCCGAAC
23137205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23137238 ACATCTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23138314 original size:28 final size:28
Alignment explanation
Indices: 23138274--23138342 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
23138264 TAGTAAGTTT
*
23138274 GCACACTTAGTGCT-TAATAATCAAACTC
1 GCACACTTAGTGCTAT-ACAATCAAACTC
* *
23138302 GCACACTTAGTGCTATACAATTAAACTT
1 GCACACTTAGTGCTATACAATCAAACTC
23138330 GCACACTTAGTGC
1 GCACACTTAGTGC
23138343 CAATCTCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
GCACACTTAGTGCTATACAATCAAACTC
Found at i:23149720 original size:8 final size:8
Alignment explanation
Indices: 23149704--23149797 Score: 76
Period size: 8 Copynumber: 12.0 Consensus size: 8
23149694 GGCAACCCAA
23149704 ATTTTATT
1 ATTTTATT
23149712 -TTGTTATTT
1 ATT-TTA-TT
23149721 ATTGTT-TT
1 ATT-TTATT
23149729 ATTTTATT
1 ATTTTATT
23149737 A-TTTATT
1 ATTTTATT
*
23149744 ACTTTATTTT
1 A-TTT-TATT
23149754 ATTTTATT
1 ATTTTATT
23149762 ATTTTATT
1 ATTTTATT
23149770 A--TT-TT
1 ATTTTATT
23149775 ATTTTATT
1 ATTTTATT
23149783 A-TTTATT
1 ATTTTATT
*
23149790 ACTTTATT
1 ATTTTATT
23149798 TTGTTTTGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
5 3 0.04
6 2 0.03
7 20 0.27
8 32 0.44
9 7 0.10
10 9 0.12
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:23149730 original size:20 final size:21
Alignment explanation
Indices: 23149704--23149799 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 21
23149694 GGCAACCCAA
*
23149704 ATTTTATTTTGTTA-TTTATT
1 ATTTTATTTTATTATTTTATT
*
23149724 GTTTTATTTTATTATTTATTACTTT
1 ATTTTATTTTATTA-TT-TTA--TT
23149749 ATTTTATTTTATTATTTTATT
1 ATTTTATTTTATTATTTTATT
23149770 ATTTTATTTTATTA-TTTATT
1 ATTTTATTTTATTATTTTATT
*
23149790 ACTTTATTTT
1 ATTTTATTTT
23149800 GTTTTGATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
20 27 0.40
21 16 0.24
22 1 0.01
23 6 0.09
24 2 0.03
25 15 0.22
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
ATTTTATTTTATTATTTTATT
Found at i:23149734 original size:13 final size:13
Alignment explanation
Indices: 23149704--23149786 Score: 91
Period size: 13 Copynumber: 6.3 Consensus size: 13
23149694 GGCAACCCAA
*
23149704 ATTTTATTTTGTT
1 ATTTTATTTTATT
23149717 A-TTTATTGTT-TT
1 ATTTTATT-TTATT
23149729 ATTTTATTATTTATT
1 ATTTTA-T-TTTATT
*
23149744 ACTTTATTTTATT
1 ATTTTATTTTATT
23149757 -TTATTATTTTATT
1 ATT-TTATTTTATT
23149770 ATTTTATTTTATT
1 ATTTTATTTTATT
23149783 ATTT
1 ATTT
23149787 ATTACTTTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
12 10 0.16
13 37 0.61
14 6 0.10
15 8 0.13
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.75
Consensus pattern (13 bp):
ATTTTATTTTATT
Found at i:23149780 original size:46 final size:45
Alignment explanation
Indices: 23149704--23149804 Score: 166
Period size: 46 Copynumber: 2.2 Consensus size: 45
23149694 GGCAACCCAA
* *
23149704 ATTTTATTTTGTTATTTATTGTTTTATTTTATTATTTATTACTTT
1 ATTTTATTTTATTATTTATTATTTTATTTTATTATTTATTACTTT
23149749 ATTTTATTTTATTATTTTATTATTTTATTTTATTATTTATTACTTT
1 ATTTTATTTTATTA-TTTATTATTTTATTTTATTATTTATTACTTT
*
23149795 ATTTTGTTTT
1 ATTTTATTTT
23149805 GATATTAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 13 0.25
46 39 0.75
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (45 bp):
ATTTTATTTTATTATTTATTATTTTATTTTATTATTTATTACTTT
Found at i:23149796 original size:25 final size:25
Alignment explanation
Indices: 23149725--23149804 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 25
23149715 TTATTTATTG
23149725 TTTTATTTTATTATTTATTACTTTA
1 TTTTATTTTATTATTTATTACTTTA
23149750 TTTTATTTTATTA-TT-TTA--TTA
1 TTTTATTTTATTATTTATTACTTTA
23149771 TTTTATTTTATTATTTATTACTTTA
1 TTTTATTTTATTATTTATTACTTTA
*
23149796 TTTTGTTTT
1 TTTTATTTT
23149805 GATATTAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
21 16 0.32
22 2 0.04
23 6 0.12
24 2 0.04
25 24 0.48
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (25 bp):
TTTTATTTTATTATTTATTACTTTA
Found at i:23165028 original size:19 final size:19
Alignment explanation
Indices: 23165004--23165041 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23164994 ATACAGAGCC
*
23165004 ACACGCCCGTGTGCTCTAG
1 ACACGCCCGTGTCCTCTAG
23165023 ACACGCCCGTGTCCTCTAG
1 ACACGCCCGTGTCCTCTAG
23165042 CCGTGTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.39, G:0.24, T:0.21
Consensus pattern (19 bp):
ACACGCCCGTGTCCTCTAG
Found at i:23172111 original size:27 final size:28
Alignment explanation
Indices: 23172050--23172119 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
23172040 AAATTTGTAC
* *
23172050 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
23172078 AGCACTAAGTGTGCGAG-CTGAATATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
*
23172105 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
23172120 TGATCGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:23180112 original size:27 final size:28
Alignment explanation
Indices: 23180051--23180120 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
23180041 AAATTTGTAC
* *
23180051 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
23180079 AGCACTAAGTGTGCGAG-CTGAATATAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
*
23180106 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
23180121 TGATCGAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:23182139 original size:23 final size:23
Alignment explanation
Indices: 23182110--23182158 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
23182100 TGAGTGATTA
23182110 AATTTAATATAAATAAAAGGTAT
1 AATTTAATATAAATAAAAGGTAT
*
23182133 AATTTAATATAAATAAATGGTAT
1 AATTTAATATAAATAAAAGGTAT
23182156 AAT
1 AAT
23182159 GACTATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (23 bp):
AATTTAATATAAATAAAAGGTAT
Found at i:23184445 original size:22 final size:21
Alignment explanation
Indices: 23184410--23184485 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
23184400 AAAGGATATC
* *
23184410 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
23184431 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
23184454 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
23184473 TGC-AATCATATCT
1 TACAAATCATATCT
23184486 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:23184502 original size:35 final size:37
Alignment explanation
Indices: 23184446--23184536 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
23184436 AATCATATCT
*
23184446 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
23184483 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
23184519 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
23184537 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:23184515 original size:14 final size:15
Alignment explanation
Indices: 23184460--23184515 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
23184450 AGATTGCATA
23184460 TCATATCTAAGATTG
1 TCATATCTAAGATTG
23184475 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
23184493 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
23184510 -CATATC
1 TCATATC
23184516 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:23184544 original size:17 final size:19
Alignment explanation
Indices: 23184446--23184536 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
23184436 AATCATATCT
23184446 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
23184465 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
23184483 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
23184500 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
23184519 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
23184537 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23184970 original size:44 final size:46
Alignment explanation
Indices: 23184902--23185071 Score: 215
Period size: 44 Copynumber: 3.8 Consensus size: 46
23184892 GCTATCTTTG
23184902 ATCTGCTCCCCGTCTAATACAGAGACGCCAAAT-T-TTCTTCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTCTTCTTCA
* *
23184946 ATCTACTCCCCGTCTAATACAGAGACGCCAAAT-T-TACTTCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTCTTCTTCA
* * * * *
23184990 ATCTACTCCCCGTCTAATACAGAGATGTCAAATCTGTT-ATCTCCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTCTTCTTCA
* * *
23185035 ATTTGCTCCCCGTCTAATACAAAGATGCCAAATCTGT
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
23185072 CATCTTGGAT
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 73 0.65
45 39 0.35
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (46 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTCTTCTTCA
Found at i:23185061 original size:45 final size:45
Alignment explanation
Indices: 23184888--23185077 Score: 206
Period size: 44 Copynumber: 4.3 Consensus size: 45
23184878 GGAAGGCGAT
* ** *
23184888 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAA
*
23184933 AT-T-TTCTTCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTT-ATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAA
* ** * *
23184977 ATTTACT-TCTTCAATCTACTCCCCGTCTAATACAGAGATGTCAA
1 ATCTGTTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAA
* * * * *
23185021 ATCTGTTATCTCCAATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAA
*
23185066 ATCTGTCATCTT
1 ATCTGTTATCTT
23185078 GGATCTGCTT
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.01
44 76 0.62
45 45 0.37
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCAATCTACTCCCCGTCTAATACAGAGACGCCAA
Found at i:23185303 original size:45 final size:45
Alignment explanation
Indices: 23185245--23185554 Score: 272
Period size: 45 Copynumber: 6.9 Consensus size: 45
23185235 CTCTGCTATG
*
23185245 TCTTCGATCTGCTCCCCGTTTAATACAGAGACGCCAAATCTGTTA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTA
*
23185290 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATTCT-CT-
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAA-TCTGTTA
* * * * **
23185334 TCTTCAATCTACTCCCCATCTAATACAGAGACGCCAAATTTACT-
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTA
* * * * *
23185378 TCTTCAATCTACTCCCCGTCTAATATAGAGATGTCAAATCTGTTA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTA
* * * * *
23185423 TCTTCAATTTGCTCCCCGTCTAATACAAAGATGCCAAATCTGTCA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTA
* * * * * ** *
23185468 TCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGCCAGCTCTGCTATG
1 TCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAAATCTG-T-TA
* *
23185515 TCTTCGATCTGCTCCCCGTTTAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATC
23185555 ATCTTGAATC
Statistics
Matches: 217, Mismatches: 37, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
43 8 0.04
44 79 0.36
45 96 0.44
46 4 0.02
47 19 0.09
48 5 0.02
49 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTA
Found at i:23185356 original size:44 final size:46
Alignment explanation
Indices: 23185236--23185461 Score: 257
Period size: 44 Copynumber: 5.0 Consensus size: 46
23185226 GAAGGCCAGC
* *
23185236 TCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGACGCCAAA-
1 TCTGCTA--TCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
* *
23185283 TCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
1 TCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
* *
23185329 TCT-CT-TCTTCAATCTACTCCCCATCTAATACAGAGACGCCAAAT
1 TCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
* * * * *
23185373 T-TACT-TCTTCAATCTACTCCCCGTCTAATATAGAGATGTCAAA-
1 TCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
* * * *
23185416 TCTGTTATCTTCAATTTGCTCCCCGTCTAATACAAAGATGCCAAAT
1 TCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
23185462 CTGTCATCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
43 2 0.01
44 75 0.48
45 71 0.45
46 3 0.02
47 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (46 bp):
TCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
Found at i:23185559 original size:133 final size:134
Alignment explanation
Indices: 23184893--23185568 Score: 492
Period size: 133 Copynumber: 5.1 Consensus size: 134
23184883 GCGATATCTG
** * * * *
23184893 CTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATTTTCTTCTTCAATCTACTCCCCG
1 CTATCTTCAATCTGCTCCCCGTCTAATACAAAGACGCCAAATTCTCATCTTCAATCTACTCCCCA
* * * ** * * *
23184958 TCT-AATACA-GAGACGCCAAAT-T--TACT-TCTTCAATCTACTCCCCGTCTAATACAGAGATG
66 TGTAAACACATGA-AGGCCAGCTCTGCTA-TGTCTTCGATCTGCTCCCCGTTTAATACAGAGATG
*
23185017 TCAAAT
129 CCAAAT
* * * * ** *
23185023 CTGTTATCTCCAATTTGCTCCCCGTCTAATACAAAGATGCCAAATCTGTCATCTTGGATCTGCT-
1 C---TATCTTCAATCTGCTCCCCGTCTAATACAAAGACGCCAAAT-TCTCATCTTCAATCTACTC
* *
23185087 TCGATGTAAACACATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGA
62 CCCATGTAAACACATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGA
23185152 TGCCAAAT
127 TGCCAAAT
* * * * ** *
23185160 C-ATCTTGAATCTGCT-----TC-AAT--GAAG--GTCC-AATCTGTTATGTCTTTGATCTGCTC
1 CTATCTTCAATCTGCTCCCCGTCTAATACAAAGACG-CCAAAT-TCTCA--TCTTCAATCTACTC
23185213 CCC--GTAAACACATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGA
62 CCCATGTAAACACATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGA
*
23185276 CGCCAAAT
127 TGCCAAAT
* * *
23185284 CTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATTCTCTTCTTCAATCTACTCC
1 C---TATCTTCAATCTGCTCCCCGTCTAATACAAAGACGCCAAATTCTCATCTTCAATCTACTCC
* * * ** * * * *
23185349 CCATCT-AATACA-GAGACGCCAAAT-T--TACT-TCTTCAATCTACTCCCCGTCTAATATAGAG
63 CCATGTAAACACATGA-AGGCCAGCTCTGCTA-TGTCTTCGATCTGCTCCCCGTTTAATACAGAG
*
23185408 ATGTCAAAT
126 ATGCCAAAT
* * * ** *
23185417 CTGTTATCTTCAATTTGCTCCCCGTCTAATACAAAGATGCCAAATCTGTCATCTTGGATCTGCT-
1 C---TATCTTCAATCTGCTCCCCGTCTAATACAAAGACGCCAAAT-TCTCATCTTCAATCTACTC
* *
23185481 TCGATGTAAACACATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGA
62 CCCATGTAAACACATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGA
23185546 TGCCAAAT
127 TGCCAAAT
*
23185554 C-ATCTTGAATCTGCT
1 CTATCTTCAATCTGCT
23185569 TCAATGAAGG
Statistics
Matches: 430, Mismatches: 76, Indels: 77
0.74 0.13 0.13
Matches are distributed among these distances:
123 9 0.02
124 70 0.16
125 15 0.03
126 1 0.00
127 3 0.01
128 14 0.03
130 1 0.00
133 143 0.33
134 52 0.12
135 23 0.05
136 15 0.03
137 80 0.19
138 4 0.01
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.31
Consensus pattern (134 bp):
CTATCTTCAATCTGCTCCCCGTCTAATACAAAGACGCCAAATTCTCATCTTCAATCTACTCCCCA
TGTAAACACATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGATGCC
AAAT
Found at i:23185726 original size:78 final size:78
Alignment explanation
Indices: 23185494--23186021 Score: 727
Period size: 78 Copynumber: 6.8 Consensus size: 78
23185484 ATGTAAACAC
* * * * *
23185494 ATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
23185559 TGAATCTGCTTCA
66 TGGATCTGCTTCA
* *
23185572 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCT-CCCGTCTAATATAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
23185635 TTGGATCTACTTCA
65 TTGGATCTGCTTCA
* *
23185649 ATGAAGGTTAGATCTGTTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
23185714 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * *
23185727 ATGAAGGTTATATCTGTTATGTCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
23185792 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
23185805 ATGAAGGCCAGATTTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATCT
1 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
23185870 TGGATCTGATTCA
66 TGGATCTGCTTCA
* * *
23185883 ATGAAGGTCAAATCTGCTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
23185948 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* ** * * * * ** *
23185961 ATGAAGGTCAGATATACTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCTAAATC
1 ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
23186022 TGTTTCTTTG
Statistics
Matches: 403, Mismatches: 44, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
76 1 0.00
77 68 0.17
78 332 0.82
79 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:23185936 original size:234 final size:233
Alignment explanation
Indices: 23185410--23186021 Score: 809
Period size: 234 Copynumber: 2.6 Consensus size: 233
23185400 ATATAGAGAT
* * *
23185410 GTCAAATCTG-T-TATCTTCAATTTGCTCCCCGTCTAATACAAAGATGCCAAATCTGTCATCTTG
1 GTCAAATCTGCTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTG
* * * *
23185473 GATCTGCTTCGATGTAAACACATGAAGGCCAGCTCTGCTATGTCTTCGATCTGCTCCCCGTTTAA
62 GATCTG---C--T-T---CA-ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAA
* *
23185538 TACAGAGATGCCAAATCATCTTGAATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCT
117 TATAGAGATGCCAAATCATCTTGAATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCT
*
23185603 GCTCCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAG
182 GCTCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAG
* * *
23185655 GTTAGATCTGTTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
1 GTCAAATCTGCTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
* * *
23185720 TGCTTCAATGAAGGTTATATCTGTTATGTCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAA
66 TGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAA
* * *
23185785 ATCATCTTGGATCTGCTTCAATGAAGG-CCAGATTTGCTGTGTCTTCGATCTGCTCCCCGTCTAA
131 ATCATCTTGAATCTGCTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCT-CCCGTCTAA
*
23185849 TACAGAGATGTCAAATCATCTTGGATCTGA-TTCAATGAAG
194 TACAGAGATGCCAAATCATCTTGGATCT-ACTTCAATGAAG
23185889 GTCAAATCTGCTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
1 GTCAAATCTGCTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
* * * * * *
23185954 TGCTTCAATGAAGGTCAGATATACTATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCTAA
66 TGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAA
23186019 ATC
131 ATC
23186022 TGTTTCTTTG
Statistics
Matches: 331, Mismatches: 31, Indels: 21
0.86 0.08 0.05
Matches are distributed among these distances:
232 3 0.01
233 96 0.29
234 168 0.51
235 1 0.00
237 1 0.00
238 1 0.00
240 1 0.00
243 14 0.04
245 8 0.02
246 1 0.00
247 37 0.11
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (233 bp):
GTCAAATCTGCTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
TGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATAGAGATGCCAA
ATCATCTTGAATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCGTCTAATA
CAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAG
Found at i:23186176 original size:44 final size:44
Alignment explanation
Indices: 23186099--23186459 Score: 456
Period size: 44 Copynumber: 8.2 Consensus size: 44
23186089 CATGTGAAAA
* * * * *
23186099 CCAAATCTGCTATGTCTTCGGTTTTCTCTCTGACAATATAGAGATG
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGACAATACAGAGACG
* *
23186145 CCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * **
23186189 CCAAATCTGCTATCTTCAATCTGCCCTCTGACAATACAGAGATA
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
*
23186233 CCAAATCTGCTATCTTCGATCTGCTC-CTTGACAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTC-TGACAATACAGAGACG
* * * * *
23186277 CCAAATCTTCTATCTTCGATCTGCCCTTTGATAATACAAAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* *
23186321 CCAAATCTGCTATCTTCGATCTGCTCCCTGACAATATAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* * *
23186365 CCAAATCTACTATCTTCGATCTGCCCTCTGACAATATAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
* *
23186409 CCAAATCTTCTATCTTCGATCTACT-TCCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCT-CTGACAATACAGAGACG
23186453 CCAAATC
1 CCAAATC
23186460 ATCTTAGATC
Statistics
Matches: 282, Mismatches: 30, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
43 2 0.01
44 268 0.95
46 12 0.04
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
Found at i:23190851 original size:27 final size:27
Alignment explanation
Indices: 23190807--23190961 Score: 103
Period size: 27 Copynumber: 5.7 Consensus size: 27
23190797 TACTGAAATG
* * ***
23190807 CCCTCAAATTGTAAAATTACCAAAGTA
1 CCCTCAATTTATAAAATTACCATTTTA
* * *
23190834 CCCTCAATTTATAGAATTATCGTTTTA
1 CCCTCAATTTATAAAATTACCATTTTA
* * *
23190861 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCAATTTATAAAATTACCATTTTA
* **
23190888 CCCTCGATTTATAAAATTACTGTTTTA
1 CCCTCAATTTATAAAATTACCATTTTA
** * * **
23190915 CCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCAATTTATAAAATTACCATTTTA
** *
23190942 CCCTTGATTTACAAAATTAC
1 CCCTCAATTTATAAAATTAC
23190962 TAAAATACCC
Statistics
Matches: 108, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCAATTTATAAAATTACCATTTTA
Found at i:23190941 original size:54 final size:55
Alignment explanation
Indices: 23190832--23190962 Score: 185
Period size: 54 Copynumber: 2.4 Consensus size: 55
23190822 ATTACCAAAG
* *
23190832 TACCCTCAATTTATAGAATTA-TCGTTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTCGTTTTACCCTCGATTTACAGAATTACCATTT
* **
23190886 TACCCTCGATTTATAAAATTACT-GTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTCGTTTTACCCTCGATTTACAGAATTACCATTT
* *
23190940 TACCCTTGATTTACAAAATTACT
1 TACCCTCGATTTATAAAATTACT
23190963 AAAATACCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 68 0.99
55 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (55 bp):
TACCCTCGATTTATAAAATTACTCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:23190962 original size:27 final size:27
Alignment explanation
Indices: 23190832--23190962 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
23190822 ATTACCAAAG
* * *
23190832 TACCCTCAATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* **
23190859 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
23190886 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
23190913 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
23190940 TACCCTTGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
23190963 AAAATACCCT
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:23190970 original size:27 final size:27
Alignment explanation
Indices: 23190859--23191218 Score: 144
Period size: 27 Copynumber: 13.3 Consensus size: 27
23190849 ATTATCGTTT
* * * ***
23190859 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * ****
23190886 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
23190913 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
23190940 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
23190967 TACCCTT-AGTTTACAAAATTA-TCAAAA
1 TACCCTTGA-TTTACAAAATTACT-AAAA
* * *
23190994 TACCCTCGA-TTAGTAAAATTACCAAAA
1 TACCCTTGATTTA-CAAAATTACTAAAA
* * * *
23191021 TACCCTAG-TCTATAAAATTGCTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
23191047 TACCACTAG-TTTGTAAAATTACCAAAA
1 TACC-CTTGATTTACAAAATTACTAAAA
* *** **
23191074 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTACAAAATTACTAAAA
** ** *
23191101 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
23191128 TACCCCTGATTCACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
*
23191155 TACCCTTGACTTT-CTAAAAATTA-TGGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-AAAA
** * *
23191184 TACTGTTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
23191211 TACCCTTG
1 TACCCTTG
23191219 GTTTGTAGAT
Statistics
Matches: 269, Mismatches: 47, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
26 24 0.09
27 222 0.83
28 7 0.03
29 16 0.06
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:23190971 original size:54 final size:54
Alignment explanation
Indices: 23190859--23191026 Score: 160
Period size: 54 Copynumber: 3.1 Consensus size: 54
23190849 ATTATCGTTT
* * ****
23190859 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTGTTT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAA
** *
23190913 TACCCTTGATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAA
* * *** * *
23190967 TACCCTT-AGTTTACAAAATTATCAAAATACCCTCGA-TTAGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAGAATTACCATTTTACCCTCGATTTA-CAAAATTACTAAAA
23191021 TACCCT
1 TACCCT
23191027 AGTCTATAAA
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
53 4 0.04
54 89 0.96
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:23191065 original size:80 final size:80
Alignment explanation
Indices: 23190954--23191132 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
23190944 CTTGATTTAC
*
23190954 AAAATTACTAAAATACCCTTAGTTTACAAAATTATCAAAATACC-CTCGATTAGTAAAATTACCA
1 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCACT-GATTAGTAAAATTACCA
23191018 AAATACCCTAGTCTAT
65 AAATACCCTAGTCTAT
* ** * * * *
23191034 AAAATTGCTAAAATACCAC-TAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCG
1 AAAATTACTAAAATACC-CTTAGTTTACAAAATTACCAAAATACCACTGATTAGTAAAATTACCA
* * *
23191098 AAATACCCTCAATTTGT
65 AAATACCCT-AGTCTAT
*
23191115 AAAATTACCAAAATACCC
1 AAAATTACTAAAATACCC
23191133 CTGATTCACA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 61 0.73
81 22 0.27
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCACTGATTAGTAAAATTACCAA
AATACCCTAGTCTAT
Found at i:23191116 original size:54 final size:53
Alignment explanation
Indices: 23190954--23191132 Score: 198
Period size: 54 Copynumber: 3.3 Consensus size: 53
23190944 CTTGATTTAC
* * * * * *
23190954 AAAATTACTAAAATACCCTTAGTTTACAAAATTATCAAAATACCCTCGATTAGT
1 AAAATTACCAAAATACCC-TAGTCTATAAAATTACCAAAATACCCTCAATTTGT
* * *
23191008 AAAATTACCAAAATACCCTAGTCTATAAAATTGCTAAAATACCACT-AGTTTGT
1 AAAATTACCAAAATACCCTAGTCTATAAAATTACCAAAATACC-CTCAATTTGT
* * * * *
23191061 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTCTATAAAATTACCAAAATACCCTCAATTTGT
23191115 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
23191133 CTGATTCACA
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
53 44 0.42
54 61 0.58
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTCTATAAAATTACCAAAATACCCTCAATTTGT
Found at i:23191155 original size:54 final size:52
Alignment explanation
Indices: 23190954--23191160 Score: 175
Period size: 54 Copynumber: 3.8 Consensus size: 52
23190944 CTTGATTTAC
* * * * *
23190954 AAAATTACTAAAATACCCTTAGTTTACAAAATTATCAAAATACCCTCGATTAGT
1 AAAATTACCAAAATACCCTGA-TTCACAAAATTA-CAAAATACCCTCAATTTGT
* * * *
23191008 AAAATTACCAAAATACCCT-AGTCTATAAAATTGCTAAAATACCACT-AGTTTGT
1 AAAATTACCAAAATACCCTGATTC-ACAAAATTAC-AAAATACC-CTCAATTTGT
* **** *
23191061 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTGATTCACAAAATTA-CAAAATACCCTCAATTTGT
*
23191115 AAAATTACCAAAATACCCCTGATTCACAAAGTTACAGAAATACCCT
1 AAAATTACCAAAATA-CCCTGATTCACAAAATTACA-AAATACCCT
23191161 TGACTTTCTA
Statistics
Matches: 121, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
52 2 0.02
53 40 0.33
54 75 0.62
55 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (52 bp):
AAAATTACCAAAATACCCTGATTCACAAAATTACAAAATACCCTCAATTTGT
Found at i:23191340 original size:27 final size:27
Alignment explanation
Indices: 23191276--23191340 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
23191266 ACCTCTATTA
* *
23191276 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTATAG
* * *
23191303 GGTAAAGTGACCGTAAAGGCCCTATAT
1 GGTAAAATGACCGTAAAGCCCCTATAG
23191330 GGTAAAATGAC
1 GGTAAAATGAC
23191341 GAATATGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTATAG
Found at i:23192240 original size:25 final size:26
Alignment explanation
Indices: 23192143--23192265 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
23192133 GAGGAAGTGC
23192143 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
23192169 AAAAGGGCTTATGTCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
23192195 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
23192221 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
23192246 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
23192266 ATTAAAGAGG
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 32 0.36
26 58 0.64
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:23192469 original size:42 final size:42
Alignment explanation
Indices: 23192410--23192501 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
23192400 TAGTCTCCCC
* ** *
23192410 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
23192452 AAATGGGTTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
23192494 AAATGGGC
1 AAATGGGC
23192502 CTAAAGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:23192559 original size:30 final size:31
Alignment explanation
Indices: 23192525--23192601 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
23192515 TGTTTACAGT
23192525 AAAA-GCTTCGGCCCAATGATATGATTTATG
1 AAAAGGCTTCGGCCCAATGATATGATTTATG
* *
23192555 AAAAGGATTTGGCCCAATGATATGATTTATG
1 AAAAGGCTTCGGCCCAATGATATGATTTATG
23192586 AAAAGGCTTCGGCCCA
1 AAAAGGCTTCGGCCCA
23192602 GTAACCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.10
31 38 0.90
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAATGATATGATTTATG
Found at i:23196750 original size:40 final size:40
Alignment explanation
Indices: 23196691--23196898 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
23196681 CAATTGAATG
* * * *
23196691 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * **
23196731 ATACCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
23196771 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * *
23196811 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
23196851 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
23196891 ATATCCGG
1 ATATCCGG
23196899 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:23196829 original size:80 final size:80
Alignment explanation
Indices: 23196693--23196898 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
23196683 ATTGAATGAT
* * ** * * * *
23196693 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
23196757 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTAGACC-C
* * *
23196773 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
23196838 TGTGCAAGTAGTTCT
66 TGTGCAAGTAGACCC
* *
23196853 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
23196899 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTAGACCC
Found at i:23199896 original size:22 final size:21
Alignment explanation
Indices: 23199877--23199935 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
23199867 TTAAATCTCT
23199877 AAGATTACAAAATCATATCTTC
1 AAGATTAC-AAATCATATCTTC
* *
23199899 AAGATTGCATATCATATC-T-
1 AAGATTACAAATCATATCTTC
*
23199918 AAGATTGC-AATCATATCT
1 AAGATTACAAATCATATCT
23199936 AAGATTGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 8 0.24
19 8 0.24
20 1 0.03
21 9 0.27
22 7 0.21
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (21 bp):
AAGATTACAAATCATATCTTC
Found at i:23199952 original size:35 final size:36
Alignment explanation
Indices: 23199887--23199986 Score: 139
Period size: 35 Copynumber: 2.7 Consensus size: 36
23199877 AAGATTACAA
23199887 AATCATATCTTCAAGATTGCATATCATATCTAAGATTGC
1 AATCATATC-T-AAGATTG-ATATCATATCTAAGATTGC
23199926 AATCATATCTAAGATTG-TATCATATCTAAGATTGC
1 AATCATATCTAAGATTGATATCATATCTAAGATTGC
*
23199961 ATATCACATCTAAGATTGCATATCAT
1 A-ATCATATCTAAGATTG-ATATCAT
23199987 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.33
36 15 0.26
37 7 0.12
38 7 0.12
39 9 0.16
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (36 bp):
AATCATATCTAAGATTGATATCATATCTAAGATTGC
Found at i:23199965 original size:14 final size:15
Alignment explanation
Indices: 23199910--23199965 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
23199900 AGATTGCATA
23199910 TCATATCTAAGATTG
1 TCATATCTAAGATTG
23199925 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
23199943 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
23199960 -CATATC
1 TCATATC
23199966 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:23199994 original size:17 final size:19
Alignment explanation
Indices: 23199874--23199986 Score: 151
Period size: 19 Copynumber: 5.9 Consensus size: 19
23199864 AAATTAAATC
* *
23199874 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-ATATCATA
23199894 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
23199915 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
23199933 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
23199950 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
23199969 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
23199987 TGAAGATTAT
Statistics
Matches: 84, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 32 0.38
20 3 0.04
21 10 0.12
22 7 0.08
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23200120 original size:66 final size:67
Alignment explanation
Indices: 23200009--23200141 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 67
23199999 TTTCATATGA
23200009 GTCAAGCTTATAGATAGACCTTAAATCTTTTCAAGTAATGGGCCATTCCGATC-GGCAAAATTAT
1 GTCAAGCTTATAGATAGACCTTAAATCTTTTCAAGTAATGGGCCATTCCGATCGGGCAAAATTAT
23200073 AT
66 AT
*
23200075 GTCATGCTTATAGATAGACCTTAAATCTTTTCAAGTAATGGGCCATTCCGATCGGGCAAAATTAT
1 GTCAAGCTTATAGATAGACCTTAAATCTTTTCAAGTAATGGGCCATTCCGATCGGGCAAAATTAT
23200140 AT
66 AT
23200142 TTGTAATTAT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 52 0.80
67 13 0.20
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (67 bp):
GTCAAGCTTATAGATAGACCTTAAATCTTTTCAAGTAATGGGCCATTCCGATCGGGCAAAATTAT
AT
Found at i:23201043 original size:41 final size:41
Alignment explanation
Indices: 23200986--23201083 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
23200976 CGAACCCAAT
*
23200986 ATGAAACACCTAAGCTTGTGGGATTGATTAAGGTCCTTGTA
1 ATGAAACACCTAAGCTTGTGGGATTGATTAAGGTCATTGTA
*
23201027 ATGAAACGCCTAAGCTTGTGGGATTGATTAAGGTCATTGTA
1 ATGAAACACCTAAGCTTGTGGGATTGATTAAGGTCATTGTA
23201068 ATGAAACACCTAAGCT
1 ATGAAACACCTAAGCT
23201084 GGTTAACATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (41 bp):
ATGAAACACCTAAGCTTGTGGGATTGATTAAGGTCATTGTA
Found at i:23204113 original size:19 final size:19
Alignment explanation
Indices: 23204086--23204123 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23204076 ATTACAATTC
23204086 CATAAAT-AATATATACCTT
1 CATAAATAAATAT-TACCTT
*
23204105 CATATATAAATATTACCTT
1 CATAAATAAATATTACCTT
23204124 GGCCGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (19 bp):
CATAAATAAATATTACCTT
Found at i:23204696 original size:30 final size:31
Alignment explanation
Indices: 23204655--23204712 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
23204645 AACGTATAAA
*
23204655 CATGGTTTTACTCGCACA-CATATATCGATG
1 CATGGTCTTACTCGCACATCATATATCGATG
*
23204685 CATGGTCTTACTCGTACATCATATATCG
1 CATGGTCTTACTCGCACATCATATATCG
23204713 GAATCCTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (31 bp):
CATGGTCTTACTCGCACATCATATATCGATG
Found at i:23208601 original size:39 final size:39
Alignment explanation
Indices: 23208524--23208602 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
23208514 ATAAAGATGT
* * *
23208524 TTTGAGTATTGTGATATATGATTATATGCTATGTGATTA
1 TTTGAGTATTGTAATATATGATTATATGCTAGGCGATTA
* * *
23208563 TTTGAGTATTGTAATATATGCTTGTATGTTAGGCGATTA
1 TTTGAGTATTGTAATATATGATTATATGCTAGGCGATTA
23208602 T
1 T
23208603 ATGTGTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.48
Consensus pattern (39 bp):
TTTGAGTATTGTAATATATGATTATATGCTAGGCGATTA
Found at i:23210300 original size:40 final size:39
Alignment explanation
Indices: 23210253--23210434 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
23210243 CTTCAGGACA
* ** * *
23210253 TAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CT
* *
23210293 TAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
*
23210332 TAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
* *
23210371 TAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
* *
23210410 TAGCCCGGATATCACAATTCGCACA
1 TAGCCCGGATATCATAACTCGCACA
23210435 TTCATTCACA
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.77
40 30 0.23
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
Found at i:23210353 original size:39 final size:39
Alignment explanation
Indices: 23210272--23210434 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
23210262 TATGGTAACC
* *
23210272 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
23210312 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
23210351 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
23210390 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
23210429 CGCACA
1 CGCACA
23210435 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:23216572 original size:12 final size:12
Alignment explanation
Indices: 23216555--23216581 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23216545 TGTCTATGGC
23216555 AAAAAAAAAAGA
1 AAAAAAAAAAGA
23216567 AAAAAAAAAAGA
1 AAAAAAAAAAGA
23216579 AAA
1 AAA
23216582 GAAATAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:23216686 original size:2 final size:2
Alignment explanation
Indices: 23216679--23216709 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23216669 TTCATGTTTT
23216679 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23216710 TTAATCTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23220483 original size:2 final size:2
Alignment explanation
Indices: 23220476--23220520 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
23220466 TTAGCCGAAT
23220476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23220518 TA T
1 TA T
23220521 TGTTAAAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23226066 original size:12 final size:12
Alignment explanation
Indices: 23226049--23226089 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
23226039 TGGGGGTAGG
23226049 ATCTGATTATGT
1 ATCTGATTATGT
*
23226061 ATCTGAATATGT
1 ATCTGATTATGT
* *
23226073 ATTTGATTATGC
1 ATCTGATTATGT
23226085 ATCTG
1 ATCTG
23226090 TATCTGATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (12 bp):
ATCTGATTATGT
Found at i:23226988 original size:17 final size:17
Alignment explanation
Indices: 23226966--23227001 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
23226956 CAACAATTTA
23226966 AAATACAGATCTTGAGG
1 AAATACAGATCTTGAGG
23226983 AAATACAGATCTTGAGG
1 AAATACAGATCTTGAGG
23227000 AA
1 AA
23227002 GAAGTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (17 bp):
AAATACAGATCTTGAGG
Found at i:23241736 original size:13 final size:12
Alignment explanation
Indices: 23241704--23241758 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
23241694 TGAAATATTT
23241704 TAATTTAAAATA
1 TAATTTAAAATA
23241716 TTTAATTTCAAAATA
1 --TAATTT-AAAATA
23241731 TAATTTAAAATA
1 TAATTTAAAATA
23241743 T--TTT--AATA
1 TAATTTAAAATA
23241751 TAATTTAA
1 TAATTTAA
23241759 TATAAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
8 5 0.14
10 6 0.17
12 7 0.19
13 6 0.17
14 6 0.17
15 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATTTAAAATA
Found at i:23241749 original size:15 final size:14
Alignment explanation
Indices: 23241691--23241745 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 14
23241681 AAAATAAGAT
*
23241691 ATTTGAAATATTTTA
1 ATTTAAAATA-TTTA
23241706 ATTTAAAATATTTA
1 ATTTAAAATATTTA
23241720 ATTTCAAAATA--TA
1 ATTT-AAAATATTTA
23241733 ATTTAAAATATTT
1 ATTTAAAATATTT
23241746 TAATATAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 6 0.17
13 6 0.17
14 9 0.25
15 15 0.42
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTTAAAATATTTA
Found at i:23241757 original size:10 final size:10
Alignment explanation
Indices: 23241727--23241763 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
23241717 TTAATTTCAA
23241727 AATATAATTT
1 AATATAATTT
* *
23241737 AAAATATTTT
1 AATATAATTT
23241747 AATATAATTT
1 AATATAATTT
23241757 AATATAA
1 AATATAA
23241764 AAATAATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATATAATTT
Found at i:23241871 original size:55 final size:58
Alignment explanation
Indices: 23241765--23241884 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 58
23241755 TTAATATAAA
* * * *
23241765 AATAATTATATTAAACATTTTATTAAATTATATATTATTTTTATTAAATTATATTTAAT
1 AATAATTAAATTAAACATATGATTAAATTA-ATATTATTATTATTAAATTATATTTAAT
* *
23241824 AGTAATTAAATTAAA-ATATGATTAAATT-AT-TTATTATTATTAAATTATTTTTAAT
1 AATAATTAAATTAAACATATGATTAAATTAATATTATTATTATTAAATTATATTTAAT
23241879 AATAAT
1 AATAAT
23241885 CCTATTAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 28 0.52
56 2 0.04
58 11 0.20
59 13 0.24
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (58 bp):
AATAATTAAATTAAACATATGATTAAATTAATATTATTATTATTAAATTATATTTAAT
Found at i:23242084 original size:16 final size:16
Alignment explanation
Indices: 23242063--23242114 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
23242053 TGAATTATTG
*
23242063 ATTACAACTTTATTCC
1 ATTACAACTCTATTCC
* *
23242079 ATTACAGCTCTATTAC
1 ATTACAACTCTATTCC
23242095 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
23242111 ATTA
1 ATTA
23242115 AAACAAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:23242946 original size:21 final size:20
Alignment explanation
Indices: 23242908--23242947 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
23242898 TTAATTCTCT
23242908 TAAATATTTTTTTAAATTAA
1 TAAATATTTTTTTAAATTAA
23242928 TAAAT-TTTTATTATAAATTA
1 TAAATATTTT-TT-TAAATTA
23242948 GATCAATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATATTTTTTTAAATTAA
Found at i:23245357 original size:18 final size:18
Alignment explanation
Indices: 23245325--23245375 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
23245315 ATACCCATTT
*
23245325 CTCTCCATC-TTTCTTTC
1 CTCTCTATCTTTTCTTTC
23245342 CTCTCTATCTTTTCTTTC
1 CTCTCTATCTTTTCTTTC
*
23245360 CTCTCTTATCTCTTCT
1 CTCTC-TATCTTTTCT
23245376 GTGCCCTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.27
18 13 0.43
19 9 0.30
ACGTcount: A:0.06, C:0.37, G:0.00, T:0.57
Consensus pattern (18 bp):
CTCTCTATCTTTTCTTTC
Found at i:23252157 original size:13 final size:13
Alignment explanation
Indices: 23252139--23252164 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23252129 AATGAATTAA
23252139 CTGATTTGATCTC
1 CTGATTTGATCTC
23252152 CTGATTTGATCTC
1 CTGATTTGATCTC
23252165 TAAGAAGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
CTGATTTGATCTC
Found at i:23265701 original size:15 final size:15
Alignment explanation
Indices: 23265681--23265711 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23265671 TTTTACTTAG
*
23265681 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
23265696 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
23265711 T
1 T
23265712 GTACAGGTTT
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:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:23269329 original size:23 final size:23
Alignment explanation
Indices: 23269299--23269344 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
23269289 TGCCGAGGCA
23269299 GAATACTCAACAAGATCAGATAT
1 GAATACTCAACAAGATCAGATAT
*
23269322 GAATACTCAACAAGATTAGATAT
1 GAATACTCAACAAGATCAGATAT
23269345 CATCTTCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (23 bp):
GAATACTCAACAAGATCAGATAT
Found at i:23270920 original size:94 final size:94
Alignment explanation
Indices: 23270731--23270994 Score: 313
Period size: 94 Copynumber: 2.8 Consensus size: 94
23270721 TTTGTACGCC
* *
23270731 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCTAGTGTAAGACCATGTCAGG
* ** *
23270796 GACATGGCATCGGCGTTGAGGTGAGGGCT
66 GACATGGCATCGACGTTGAGACGAGAGCT
23270825 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGT-GCTAGTGTAAGA-CATGTCAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCTAGTGTAAGACCATGTCAG
*
23270888 GGACAT-GCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGGCATC-G-ACGT-TGAGACGAGAGCT
* * ** *
23270919 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGATAGCTAGTGTAAGACCATGTC
23270984 TA-GGACATGGC
63 -AGGGACATGGC
23270995 GTCGGCAACT
Statistics
Matches: 147, Mismatches: 12, Indels: 17
0.84 0.07 0.10
Matches are distributed among these distances:
92 5 0.03
93 14 0.10
94 71 0.48
95 16 0.11
96 10 0.07
97 16 0.11
98 12 0.08
99 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCTAGTGTAAGACCATGTCAGG
GACATGGCATCGACGTTGAGACGAGAGCT
Found at i:23270946 original size:142 final size:142
Alignment explanation
Indices: 23270731--23270992 Score: 377
Period size: 142 Copynumber: 1.8 Consensus size: 142
23270721 TTTGTACGCC
* * * *
23270731 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCAGCCACATTACGAGAGCTAGTGTAAGACCATGTCTGG
* * * * * *
23270796 GACATGGCATCGGCGTTG-AGGTGAGGGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCAC
66 GACATGGCATCGGCCTCGAAGATGAGAGCCAGTGTAAGACCATGTCTAGGACATGCATCAGCCAC
23270859 ATTATGAGTGCT
131 ATTATGAGTGCT
23270871 AGTGTAAGACATGTCAGGGACATGCATCAG-CACGTATATACGAGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCAGGGACATGCATCAGCCAC--AT-TACGAGAGCTAGTGTAAGACCATGTC
*
23270935 TGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGTAAGACCATGTCTAGGACATG
63 TGGGACATGGCATCGGCCTCGAAGATGAGAGCCAGTGTAAGACCATGTCTAGGACATG
23270993 GCGTCGGCAA
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
139 3 0.03
140 28 0.26
141 2 0.02
142 43 0.41
143 16 0.15
144 14 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (142 bp):
AGTGTAAGACATGTCAGGGACATGCATCAGCCACATTACGAGAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGGCCTCGAAGATGAGAGCCAGTGTAAGACCATGTCTAGGACATGCATCAGCCAC
ATTATGAGTGCT
Found at i:23271000 original size:49 final size:47
Alignment explanation
Indices: 23270731--23270992 Score: 255
Period size: 46 Copynumber: 5.5 Consensus size: 47
23270721 TTTGTACGCC
*
23270731 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGATAGCT
*** ** **
23270777 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTG-AGGTGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAATATGATAGCT
* *
23270825 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGA-TAGCT
* * * *
23270871 AGTGTAAGACATGTCAGGGACATGCATCAG-CACGTATATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACG-A-ATATGATAGCT
* * *
23270919 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAATATGATAGCT
*
23270968 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
23270993 GCGTCGGCAA
Statistics
Matches: 176, Mismatches: 28, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.02
46 51 0.29
47 29 0.16
48 40 0.23
49 43 0.24
50 7 0.04
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGATAGCT
Found at i:23273408 original size:50 final size:50
Alignment explanation
Indices: 23273343--23273442 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
23273333 AATTAAGTAC
*
23273343 GATCATAAATTGACGGACAAGACCATAGTTGGACTATGGCATTAATTGAA
1 GATCATAAATTGACGGACAAGACCATAGTTGGACTATGGCATCAATTGAA
* *
23273393 GATCATAAATTGACGGATAATACCATAGTTGGACTATGGCATCAATTGAA
1 GATCATAAATTGACGGACAAGACCATAGTTGGACTATGGCATCAATTGAA
23273443 TGATGTACTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (50 bp):
GATCATAAATTGACGGACAAGACCATAGTTGGACTATGGCATCAATTGAA
Found at i:23276695 original size:7 final size:7
Alignment explanation
Indices: 23276683--23276707 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23276673 TGGAAACAAC
23276683 TAAATTT
1 TAAATTT
23276690 TAAATTT
1 TAAATTT
23276697 TAAATTT
1 TAAATTT
23276704 TAAA
1 TAAA
23276708 AATCTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:23282253 original size:27 final size:27
Alignment explanation
Indices: 23282206--23282294 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
23282196 TGGATAAGTT
*
23282206 GTAGAATTAT-AAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
*
23282232 GTAGAATTATCGAAATACCCCTATAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
* * * *
23282259 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTATCGAAATACCCCTGTAGG
*
23282286 GTAAAATTA
1 GTAGAATTA
23282295 CCATTTTGCC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
26 10 0.19
27 44 0.81
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCCTGTAGG
Found at i:23282992 original size:27 final size:26
Alignment explanation
Indices: 23282948--23282999 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23282938 CTCGCTGCAA
*
23282948 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
23282975 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
23283000 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:23283064 original size:33 final size:32
Alignment explanation
Indices: 23283015--23283078 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
23283005 CTCGCTGCAA
* *
23283015 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
23283048 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
23283079 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:23283092 original size:27 final size:26
Alignment explanation
Indices: 23283040--23283098 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
23283030 ACATATATAT
*
23283040 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
23283066 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
23283093 ATATCT
1 ATATCT
23283099 TACAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:23285292 original size:42 final size:42
Alignment explanation
Indices: 23285233--23285524 Score: 313
Period size: 42 Copynumber: 6.9 Consensus size: 42
23285223 ATTAGGGATA
* * * *
23285233 CTGAGATTACGTGTAAGAGCATATCTAGGATATGGCATCTAT
1 CTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGAT
*
23285275 CTGAGATTTCGTGTAAGACCATATCTGGGATACGGCATCGAT
1 CTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGAT
* * * *
23285317 ATGAGATTTCGTGTAAGACTATAGCTGGGCTATTGGCA-CTGAT
1 CTGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATC-GAT
* * * *
23285360 AC-GAGATTACATGTAAGACCATATCTGGGATATGACATCTAT
1 -CTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGAT
* * *
23285402 ATGAGATTTTGTGTAAGACCATATCTGGGATATCGCATCGAT
1 CTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGAT
* * *
23285444 ATGAGATTTCGTGTAACACCATAGT-TGGGCTATTGGCATCGAT
1 CTGAGATTTCGTGTAAGACCATA-TCTGGGATA-TGGCATCGAT
* *
23285487 AC-GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 -CTGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
23285525 TGGTACAGTA
Statistics
Matches: 207, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
42 140 0.68
43 67 0.32
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
CTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGAT
Found at i:23285376 original size:85 final size:84
Alignment explanation
Indices: 23285229--23285524 Score: 337
Period size: 85 Copynumber: 3.5 Consensus size: 84
23285219 TGACATTAGG
* * * *
23285229 GATACTGAGATTACGTGTAAGAGCATATCTAGGATATGGCATCTAT-CTGAGATTTCGTGTAAGA
1 GATA-TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATAC-GAGATTTCGTGTAAGA
*
23285293 CCATATCTGGGATACGGCATC
64 CCATATCTGGGATATGGCATC
* * * * *
23285314 GATATGAGATTTCGTGTAAGACTATAGCTGGGCTATTGGCA-CTGATACGAGATTACATGTAAGA
1 GATATGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATC-GATACGAGATTTCGTGTAAGA
*
23285378 CCATATCTGGGATATGACATC
64 CCATATCTGGGATATGGCATC
* * * * *
23285399 TATATGAGATTTTGTGTAAGACCATATCTGGGATATCGCATCGATATGAGATTTCGTGTAACACC
1 GATATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATACGAGATTTCGTGTAAGACC
*
23285464 ATAGT-TGGGCTATTGGCATC
66 ATA-TCTGGGATA-TGGCATC
* * *
23285484 GATACGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GATATGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
23285525 TGGTACAGTA
Statistics
Matches: 176, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
84 58 0.33
85 117 0.66
86 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (84 bp):
GATATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATACGAGATTTCGTGTAAGACC
ATATCTGGGATATGGCATC
Found at i:23285473 original size:127 final size:127
Alignment explanation
Indices: 23285229--23285520 Score: 462
Period size: 127 Copynumber: 2.3 Consensus size: 127
23285219 TGACATTAGG
* * * * *
23285229 GATACTGAGATTACGTGTAAGAGCATATCTAGGATATGGCATCTATCTGAGATTTCGTGTAAGAC
1 GATAC-GAGATTACATGTAAGACCATATCTGGGATATGACATCTATATGAGATTTCGTGTAAGAC
* *
23285294 CATATCTGGGATACGGCATCGATATGAGATTTCGTGTAAGACTATAGCTGGGCTATTGGCA-C
65 CATATCTGGGATACGGCATCGATATGAGATTTCGTGTAACACCATAGCTGGGCTATTGGCATC
*
23285356 TGATACGAGATTACATGTAAGACCATATCTGGGATATGACATCTATATGAGATTTTGTGTAAGAC
1 -GATACGAGATTACATGTAAGACCATATCTGGGATATGACATCTATATGAGATTTCGTGTAAGAC
*
23285421 CATATCTGGGATATC-GCATCGATATGAGATTTCGTGTAACACCATAGTTGGGCTATTGGCATC
65 CATATCTGGGATA-CGGCATCGATATGAGATTTCGTGTAACACCATAGCTGGGCTATTGGCATC
23285484 GATACGAGATTACATGTAAGACCATATCTGGGATATG
1 GATACGAGATTACATGTAAGACCATATCTGGGATATG
23285521 GCATTGGTAC
Statistics
Matches: 153, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
127 146 0.95
128 7 0.05
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (127 bp):
GATACGAGATTACATGTAAGACCATATCTGGGATATGACATCTATATGAGATTTCGTGTAAGACC
ATATCTGGGATACGGCATCGATATGAGATTTCGTGTAACACCATAGCTGGGCTATTGGCATC
Found at i:23285789 original size:21 final size:21
Alignment explanation
Indices: 23285764--23285828 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 21
23285754 TATGTTAAGT
23285764 TAAATTGTATGATACTCATGC
1 TAAATTGTATGATACTCATGC
* * *
23285785 TAAA-TGT-TGCTTAAT-AT-T
1 TAAATTGTATG-ATACTCATGC
23285803 TAAATTGTATGATACTCATGC
1 TAAATTGTATGATACTCATGC
23285824 TAAAT
1 TAAAT
23285829 GTTGCTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
18 4 0.12
19 10 0.30
20 10 0.30
21 9 0.27
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (21 bp):
TAAATTGTATGATACTCATGC
Found at i:23285807 original size:39 final size:39
Alignment explanation
Indices: 23285763--23285841 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
23285753 TTATGTTAAG
23285763 TTAAATTGTATGATACTCATGCTAAATGTTGCTTAATAT
1 TTAAATTGTATGATACTCATGCTAAATGTTGCTTAATAT
23285802 TTAAATTGTATGATACTCATGCTAAATGTTGCTTAATAT
1 TTAAATTGTATGATACTCATGCTAAATGTTGCTTAATAT
23285841 T
1 T
23285842 GTTTATTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (39 bp):
TTAAATTGTATGATACTCATGCTAAATGTTGCTTAATAT
Found at i:23287200 original size:30 final size:30
Alignment explanation
Indices: 23287143--23287200 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
23287133 TTTTCAGACC
* **
23287143 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
23287173 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
23287201 ATATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:23287676 original size:46 final size:46
Alignment explanation
Indices: 23287593--23287709 Score: 155
Period size: 46 Copynumber: 2.5 Consensus size: 46
23287583 GAGAGCTAGC
* *
23287593 GTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACG-AGCGCCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATTGGCATCGAGACGTA-AGCCAGT
* * *
23287641 GTAAGACATGTGTAGGACATGCATTGGCCTCGAGACGTAAGCCAGT
1 GTAAGACATGTCTGGGACATGCATTGGCATCGAGACGTAAGCCAGT
23287687 GTAAGACATGTCTGGGACATGCA
1 GTAAGACATGTCTGGGACATGCA
23287710 ACGACTATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
46 42 0.69
47 13 0.21
48 6 0.10
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATTGGCATCGAGACGTAAGCCAGT
Found at i:23291042 original size:13 final size:13
Alignment explanation
Indices: 23291024--23291052 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23291014 GGTTGTTTAT
23291024 TAAACTAATTAAC
1 TAAACTAATTAAC
23291037 TAAACTAATTAAC
1 TAAACTAATTAAC
23291050 TAA
1 TAA
23291053 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:23293398 original size:31 final size:31
Alignment explanation
Indices: 23293357--23293420 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
23293347 CCTTTTCATA
* *
23293357 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
23293388 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
23293419 TT
1 TT
23293421 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:23293656 original size:25 final size:23
Alignment explanation
Indices: 23293613--23293806 Score: 228
Period size: 25 Copynumber: 8.0 Consensus size: 23
23293603 TGCTTTATCA
*
23293613 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
23293637 TAGTAACTGGGGCAAAAGCCCTTTT
1 TA-TAACTGGGGCATAAGCCC-TTT
23293662 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
23293685 ATCACAACTGGGGCATAAGCCCTTCAT
1 -T-ATAACTGGGGCATAAGCCCTT--T
*
23293712 CATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
23293735 ATCATAACTGGGGCATAAGCCCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
* *
23293760 AATAACTAGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
23293783 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
23293806 T
1 T
23293807 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
23 47 0.31
24 24 0.16
25 78 0.52
27 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:23293880 original size:20 final size:20
Alignment explanation
Indices: 23293852--23293935 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
23293842 GCATTTATGA
*
23293852 ACATCTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
23293872 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
23293892 ACATATCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
23293912 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
23293932 ACAT
1 ACAT
23293936 ACCATGTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATGTCATGTGCATATCAT
Found at i:23293907 original size:11 final size:11
Alignment explanation
Indices: 23293857--23293931 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
23293847 TATGAACATC
23293857 TCATGTGCATA
1 TCATGTGCATA
* *
23293868 TCA--TACATG
1 TCATGTGCATA
23293877 TCATGTGCATA
1 TCATGTGCATA
*
23293888 TCA--TACATA
1 TCATGTGCATA
23293897 TCATGTGCATA
1 TCATGTGCATA
* *
23293908 TCA--TACATG
1 TCATGTGCATA
23293917 TCATGTGCATA
1 TCATGTGCATA
23293928 TCAT
1 TCAT
23293932 ACATACCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:23294007 original size:25 final size:25
Alignment explanation
Indices: 23293979--23294026 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23293969 ATGTATAAAC
* *
23293979 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
23294004 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
23294027 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:23295215 original size:25 final size:27
Alignment explanation
Indices: 23295187--23295249 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
23295177 GGGCATATTC
23295187 GTCATTTTACCATACAGGGG-TAT-CG
1 GTCATTTTACCATACAGGGGCTATACG
* * *
23295212 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTATACG
*
23295239 GTCTTTTTACC
1 GTCATTTTACC
23295250 TAATAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 18 0.58
26 2 0.06
27 11 0.35
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTATACG
Found at i:23295530 original size:27 final size:27
Alignment explanation
Indices: 23295288--23295532 Score: 160
Period size: 27 Copynumber: 9.0 Consensus size: 27
23295278 TACAAAGGTG
* *
23295288 TTTTGGTAAATCTACAAA-CTAAGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
** ** * *
23295315 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
23295342 TTTCT-ATAATTTTTAGAAAGTCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTA
* ** *
23295371 TTTCT-GTAACTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTACAAATCAAGGGTA
**
23295398 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * *
23295425 TTTCGGTAATTTCACAAACCGAA-GGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
*
23295452 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
23295479 TTTTGGTAATTTTACAAA-CTAAGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
* ** *
23295506 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
23295533 AAACAGTAAT
Statistics
Matches: 172, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
26 3 0.02
27 138 0.80
28 16 0.09
29 15 0.09
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:23295540 original size:27 final size:27
Alignment explanation
Indices: 23295510--23295719 Score: 232
Period size: 27 Copynumber: 7.9 Consensus size: 27
23295500 AGGGTATTTT
*
23295510 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
**
23295537 AGTAATTCTGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
23295564 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
23295591 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
23295618 GGTAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
23295645 -GATAATTATGT-AATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
23295671 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
23295698 -GCTAATTCTGTAAATCG-GGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
23295720 CTTTGGTAAT
Statistics
Matches: 162, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
25 1 0.01
26 28 0.17
27 133 0.82
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:23295542 original size:54 final size:54
Alignment explanation
Indices: 23295484--23295706 Score: 166
Period size: 54 Copynumber: 4.1 Consensus size: 54
23295474 GGGTATTTTG
* **** * *
23295484 GTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTACAAACTAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
** * *
23295538 GTAATTCTGTAAATTAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTACAAACTAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* * ** *
23295592 GTAATTCTATAAA-TCGAGGGTAAAATGGTAATTCTATAAGTCGAGGGTAAAAC-
1 GTAATTCTACAAACT-AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* ** * * * * * *
23295645 GATAATTATGTAATC-AGGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAAC-
1 G-TAATTCTACAAACTAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
23295698 GCTAATTCT
1 G-TAATTCT
23295707 GTAAATCGGG
Statistics
Matches: 138, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
53 40 0.29
54 98 0.71
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTCTACAAACTAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:23295542 original size:81 final size:81
Alignment explanation
Indices: 23295391--23295543 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 81
23295381 TTTGTAAATC
* * * ****
23295391 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCGAAGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCGAAGGTAAAAC
*
23295456 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
* *** * *
23295472 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCGAAGGTAAAAC
23295537 AGTAATT
66 AGTAATT
23295544 CTGTAAATTA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCGAAGGTAAAAC
AGTAATTTTACAAACT
Found at i:23295755 original size:27 final size:26
Alignment explanation
Indices: 23295725--23295814 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
23295715 GGGTACTTTG
23295725 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
23295752 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
23295779 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
23295806 GTAATTTTA
1 GTAATTTTA
23295815 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:23295766 original size:53 final size:54
Alignment explanation
Indices: 23295709--23295814 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
23295699 CTAATTCTGT
* *
23295709 AAATCG-GGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
23295762 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
23295815 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 12 0.27
54 33 0.73
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:23295828 original size:27 final size:27
Alignment explanation
Indices: 23295725--23295829 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
23295715 GGGTACTTTG
* *
23295725 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
23295752 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
23295779 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
23295806 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
23295830 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:23300508 original size:30 final size:30
Alignment explanation
Indices: 23300451--23300508 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
23300441 ATTTTGAGCC
* * **
23300451 TAGGGGTAGAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
*
23300481 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
23300509 ATATGAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:23303262 original size:15 final size:16
Alignment explanation
Indices: 23303242--23303271 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23303232 CTGTAAAGAT
23303242 TATACATT-TCATATA
1 TATACATTCTCATATA
23303257 TATACATTCTCATAT
1 TATACATTCTCATAT
23303272 CTCGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:23305312 original size:36 final size:36
Alignment explanation
Indices: 23305261--23305336 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
23305251 CTCGAGTATC
*
23305261 TGAATAATCCGTTCAGATTGACCATCTGTTTGTGGA
1 TGAATAATCCATTCAGATTGACCATCTGTTTGTGGA
23305297 TGAATAATCCATTCAGATTGACCATCTGTTTGTGGA
1 TGAATAATCCATTCAGATTGACCATCTGTTTGTGGA
23305333 TGAA
1 TGAA
23305337 AAGCAGTGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (36 bp):
TGAATAATCCATTCAGATTGACCATCTGTTTGTGGA
Found at i:23305696 original size:42 final size:42
Alignment explanation
Indices: 23305637--23305723 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
23305627 TTTGGAATCA
*
23305637 TAATCGGTTCTAATAACCCAGATGACACTTGATGTTCTGCTT
1 TAATCGGTTCTAATAACCCAGATGACACTTGATGTTCAGCTT
23305679 TAATCGGTTCTAATAACCCAGATGACACTTGATGTTCAGCTT
1 TAATCGGTTCTAATAACCCAGATGACACTTGATGTTCAGCTT
23305721 TAA
1 TAA
23305724 CTTGCTGATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (42 bp):
TAATCGGTTCTAATAACCCAGATGACACTTGATGTTCAGCTT
Done.