Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 35 of 141
Found at i:11666220 original size:94 final size:94
Alignment explanation
Indices: 11666059--11666297 Score: 334
Period size: 94 Copynumber: 2.5 Consensus size: 94
11666049 TACTCTAACA
* * * * * * ** *
11666059 ACTACCCCATGTTTAATGTCCCAACGGACTCTCTATGCTATCATAGTTGAGTTATGGTCGTACAC
1 ACTACCCCATGTTTAATGTCTCGACAGACTCTCTATGTTGTTATAGCCGAGCTATGGTCGTACAC
* *
11666124 ATGTAACCACATGTTTAATGTTCTAGCGG
66 ATGTAACCACACGTTTAATGTTCTAGCAG
* * *
11666153 ACTACCCCGTGTTTAATGTCTCGACAGACTCTCTATGTTGTTATAACCGAGCTATGGTCTTACAC
1 ACTACCCCATGTTTAATGTCTCGACAGACTCTCTATGTTGTTATAGCCGAGCTATGGTCGTACAC
*
11666218 ATGTAACCCCACGTTTAATGTTCTAGCAG
66 ATGTAACCACACGTTTAATGTTCTAGCAG
*
11666247 ACTACCCCATGTTTAATGTCTCGACAGACTCTTTATGTTGTTATAGCCGAG
1 ACTACCCCATGTTTAATGTCTCGACAGACTCTCTATGTTGTTATAGCCGAG
11666298 TCAAATAAAA
Statistics
Matches: 127, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 127 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (94 bp):
ACTACCCCATGTTTAATGTCTCGACAGACTCTCTATGTTGTTATAGCCGAGCTATGGTCGTACAC
ATGTAACCACACGTTTAATGTTCTAGCAG
Found at i:11666274 original size:27 final size:27
Alignment explanation
Indices: 11666223--11666276 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11666213 TACACATGTA
*
11666223 ACCCCACGTTTAATGTTCTAGCAGACT
1 ACCCCACGTTTAATGTTCGAGCAGACT
*
11666250 ACCCCATGTTTAATGTCTCGA-CAGACT
1 ACCCCACGTTTAATGT-TCGAGCAGACT
11666277 CTTTATGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
ACCCCACGTTTAATGTTCGAGCAGACT
Found at i:11666373 original size:13 final size:14
Alignment explanation
Indices: 11666350--11666378 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11666340 ATCAAATATT
11666350 GAAACAATAAAGAA
1 GAAACAATAAAGAA
11666364 GAAA-AATAAAGAA
1 GAAACAATAAAGAA
11666377 GA
1 GA
11666379 TAGATGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (14 bp):
GAAACAATAAAGAA
Found at i:11670881 original size:39 final size:39
Alignment explanation
Indices: 11670829--11670907 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
11670819 ATTGGACAGG
11670829 TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGATGGT
1 TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGATGGT
*
11670868 TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGTTGGT
1 TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGATGGT
11670907 T
1 T
11670908 ATGATTTACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.16, C:0.10, G:0.20, T:0.53
Consensus pattern (39 bp):
TGTTGTGTTTATTCTTTGTTAAAGCTTACTTCAGATGGT
Found at i:11672564 original size:20 final size:20
Alignment explanation
Indices: 11672539--11672579 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11672529 CTAAGTATTG
11672539 ATTAAGGTTAAGTTAATTAA
1 ATTAAGGTTAAGTTAATTAA
* *
11672559 ATTAAGTTTATGTTAATTAA
1 ATTAAGGTTAAGTTAATTAA
11672579 A
1 A
11672580 CCAATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (20 bp):
ATTAAGGTTAAGTTAATTAA
Found at i:11673752 original size:6 final size:6
Alignment explanation
Indices: 11673730--11673770 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
11673720 TTTCAAATGA
11673730 TTTCATT TTTCCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCA-T TTT-CAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
11673771 GGAGAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 24 0.73
7 7 0.21
8 2 0.06
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCAT
Found at i:11673770 original size:69 final size:69
Alignment explanation
Indices: 11673677--11673827 Score: 187
Period size: 69 Copynumber: 2.2 Consensus size: 69
11673667 AAAACATAAA
* * ** * * * *
11673677 TTCATTTTCA-ATTCATTTTCATTTTAGATAAAACCTTATTCATTTTCAAATGATTTCATTTTTC
1 TTCATTTTCATTTTCATTTTCATTTTAGAGAAAACCACATTCATTTTAAAATAATTCCATTTCTC
11673741 CATT
66 CATT
* *
11673745 TTCATTTTCATTTTCATTTTCATTTTGGAGAAAATCACATTCATTTTAAAATAATTCCATTTCTC
1 TTCATTTTCATTTTCATTTTCATTTTAGAGAAAACCACATTCATTTTAAAATAATTCCATTTCTC
11673810 CATT
66 CATT
**
11673814 TTGTTTTTCATTTT
1 TTCATTTTCATTTT
11673828 AGAGAAAATC
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
68 10 0.14
69 60 0.86
ACGTcount: A:0.26, C:0.16, G:0.04, T:0.54
Consensus pattern (69 bp):
TTCATTTTCATTTTCATTTTCATTTTAGAGAAAACCACATTCATTTTAAAATAATTCCATTTCTC
CATT
Found at i:11673864 original size:17 final size:18
Alignment explanation
Indices: 11673842--11673885 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
11673832 AAAATCATTA
11673842 TCATTTCTATATGTT-AC
1 TCATTTCTATATGTTCAC
* *
11673859 TCATTTCTTTATTTTCAC
1 TCATTTCTATATGTTCAC
11673877 -CATTTCTAT
1 TCATTTCTAT
11673886 TCATTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.57
Consensus pattern (18 bp):
TCATTTCTATATGTTCAC
Found at i:11675064 original size:21 final size:19
Alignment explanation
Indices: 11675034--11675077 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
11675024 ATTTCATGCC
11675034 ATCAAGTTCAATCCATCACAT
1 ATCAAGTTCAAT--ATCACAT
*
11675055 ATCAATTTCAATATCACAT
1 ATCAAGTTCAATATCACAT
11675074 -TCAA
1 ATCAA
11675078 ATCTCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
21 11 0.50
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (19 bp):
ATCAAGTTCAATATCACAT
Found at i:11679545 original size:43 final size:43
Alignment explanation
Indices: 11679484--11679605 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
11679474 CCAACACTAT
* * * *
11679484 GTGTGCGAGTATAATTGCTTCGATTTG-TCCGATGATGCACCTC
1 GTGTGCCAATATAATTGCTTCGACTTGCT-CGATGATACACCTC
* * *
11679527 GTGTGCCAATATAATTGCTTCGGCTTGCTCGATGGTACACCTT
1 GTGTGCCAATATAATTGCTTCGACTTGCTCGATGATACACCTC
* *
11679570 GTGTGCCAATATAATTGCTTCGACTTACTCAATGAT
1 GTGTGCCAATATAATTGCTTCGACTTGCTCGATGAT
11679606 GCAATATCTA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 66 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (43 bp):
GTGTGCCAATATAATTGCTTCGACTTGCTCGATGATACACCTC
Found at i:11685097 original size:154 final size:155
Alignment explanation
Indices: 11684816--11685125 Score: 559
Period size: 154 Copynumber: 2.0 Consensus size: 155
11684806 AGGCTCTCTA
11684816 TTACACTTAAAGAGCTTATTCTCAAGCAATTTAAATTTATTTTTCATAGTTTTTGCTTTATTTTA
1 TTACACTTAAAGAGCTTATTCTCAAGCAATTTAAATTTATTTTTCATAGTTTTTGCTTTATTTTA
*
11684881 GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTTATTTTGAGATCCAAATTAGCCAAATG
66 GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTCATTTTGAGATCCAAATTAGCCAAATG
*
11684946 CACCATTTGGAACCTAATGATCGAT
131 CACCATTTGAAACCTAATGATCGAT
* **
11684971 TTACACTTAAAGAGCTTATTTTCAAGCGTTTTAAATTTA-TTTTCATAGTTTTTGCTTTATTTTA
1 TTACACTTAAAGAGCTTATTCTCAAGCAATTTAAATTTATTTTTCATAGTTTTTGCTTTATTTTA
11685035 GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTCATTTTGAGATCCAAATTAGCCAAATG
66 GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTCATTTTGAGATCCAAATTAGCCAAATG
*
11685100 CACCATTTGAAAGCTAATGATCGAT
131 CACCATTTGAAACCTAATGATCGAT
11685125 T
1 T
11685126 AATTGTTGTA
Statistics
Matches: 149, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
154 113 0.76
155 36 0.24
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (155 bp):
TTACACTTAAAGAGCTTATTCTCAAGCAATTTAAATTTATTTTTCATAGTTTTTGCTTTATTTTA
GTTCTTTCATTTTAATAAGTATTTAATCATTTTGTACTCATTTTGAGATCCAAATTAGCCAAATG
CACCATTTGAAACCTAATGATCGAT
Found at i:11690299 original size:19 final size:19
Alignment explanation
Indices: 11690275--11690312 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11690265 TGCTATCAAG
11690275 TAAGCATTAGAATATGTTT
1 TAAGCATTAGAATATGTTT
11690294 TAAGCATTAGAATATGTTT
1 TAAGCATTAGAATATGTTT
11690313 ATCTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (19 bp):
TAAGCATTAGAATATGTTT
Found at i:11692056 original size:142 final size:143
Alignment explanation
Indices: 11691893--11692181 Score: 571
Period size: 142 Copynumber: 2.0 Consensus size: 143
11691883 TTTATATTTT
11691893 TTTTAAATTAATATATATATATATATACAAATTAATTTTTTTATAAAAATTTAAAACATAAATTA
1 TTTTAAATTAATATATATATATATATACAAATTAATTTTTTTATAAAAATTTAAAACATAAATTA
11691958 ATAAAAAAATACAATTTTTCATATCATGAATAAACTTGGAGAAACGGTTGTCTAAATTTAGAAGA
66 ATAAAAAAATACAATTTTTCATATCATGAATAAACTTGGAGAAACGGTTGTCTAAATTTAGAAGA
11692023 ACTTAGACAATTA
131 ACTTAGACAATTA
11692036 TTTTAAATT-ATATATATATATATATACAAATTAATTTTTTTATAAAAATTTAAAACATAAATTA
1 TTTTAAATTAATATATATATATATATACAAATTAATTTTTTTATAAAAATTTAAAACATAAATTA
11692100 ATAAAAAAATACAATTTTTCATATCATGAATAAACTTGGAGAAACGGTTGTCTAAATTTAGAAGA
66 ATAAAAAAATACAATTTTTCATATCATGAATAAACTTGGAGAAACGGTTGTCTAAATTTAGAAGA
11692165 ACTTAGACAATTA
131 ACTTAGACAATTA
11692178 TTTT
1 TTTT
11692182 TCTAGATTCT
Statistics
Matches: 146, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
142 137 0.94
143 9 0.06
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (143 bp):
TTTTAAATTAATATATATATATATATACAAATTAATTTTTTTATAAAAATTTAAAACATAAATTA
ATAAAAAAATACAATTTTTCATATCATGAATAAACTTGGAGAAACGGTTGTCTAAATTTAGAAGA
ACTTAGACAATTA
Found at i:11693770 original size:16 final size:16
Alignment explanation
Indices: 11693751--11693782 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11693741 AGTAAAGCTG
11693751 AAAACAATTAAATAAA
1 AAAACAATTAAATAAA
*
11693767 AAAACAGTTAAATAAA
1 AAAACAATTAAATAAA
11693783 TCTGAAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAACAATTAAATAAA
Found at i:11695544 original size:22 final size:25
Alignment explanation
Indices: 11695501--11695546 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11695491 TCATCATCAA
*
11695501 ATAATTACACATCTATAGCAAAATC
1 ATAATTACACAACTATAGCAAAATC
11695526 ATAATTACA-AAC-ATA-CAAAAT
1 ATAATTACACAACTATAGCAAAAT
11695547 AACTAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 2 0.10
25 9 0.45
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.26
Consensus pattern (25 bp):
ATAATTACACAACTATAGCAAAATC
Found at i:11704564 original size:13 final size:13
Alignment explanation
Indices: 11704543--11704574 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11704533 GCTTGGATCA
*
11704543 TCATCAAATAAAT
1 TCATAAAATAAAT
11704556 TCATAAAATAAAT
1 TCATAAAATAAAT
11704569 TCATAA
1 TCATAA
11704575 TTGCTGTAAA
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:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11704821 original size:30 final size:30
Alignment explanation
Indices: 11704786--11704843 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
11704776 CCTCGACTCT
*
11704786 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
*
11704816 AACTTTTACAAAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11704844 AAGGCTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11710394 original size:22 final size:22
Alignment explanation
Indices: 11710369--11710412 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11710359 CATCTAGTAG
11710369 CTTTGATTTCATGAATGAGCAT
1 CTTTGATTTCATGAATGAGCAT
*
11710391 CTTTGATTTCATGAATTAGCAT
1 CTTTGATTTCATGAATGAGCAT
11710413 ACAAACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (22 bp):
CTTTGATTTCATGAATGAGCAT
Found at i:11710809 original size:1 final size:1
Alignment explanation
Indices: 11710803--11710844 Score: 66
Period size: 1 Copynumber: 42.0 Consensus size: 1
11710793 TTCTATTATC
* *
11710803 AAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11710845 GGAGAAGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:11717697 original size:21 final size:21
Alignment explanation
Indices: 11717642--11717686 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
11717632 AAGTAATGTT
11717642 AAAAAAT-TCAATTAGAAATAA
1 AAAAAATAT-AATTAGAAATAA
*
11717663 AAAAAATATAATTAGTAATAA
1 AAAAAATATAATTAGAAATAA
11717684 AAA
1 AAA
11717687 CATTTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAAATATAATTAGAAATAA
Found at i:11719686 original size:24 final size:25
Alignment explanation
Indices: 11719637--11719684 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11719627 GAAAAATATT
11719637 AAATATATATATATTTTTATTTTTA
1 AAATATATATATATTTTTATTTTTA
*
11719662 AAATATA-ATAGTTTTTTTATTTT
1 AAATATATATA-TATTTTTATTTT
11719685 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
AAATATATATATATTTTTATTTTTA
Found at i:11726786 original size:39 final size:39
Alignment explanation
Indices: 11726670--11726787 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 39
11726660 AGATGTTTTA
* * *
11726670 GAGTATTGTGGTATATGCTTGAATGTTATGTGATTTTAC
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
* * * * * * *
11726709 AAGTATTATGAAATATGCTTAAACGTCATGAGATTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
* * *
11726748 GAGTATTGTGATATATGCTTGTATGTTAGGTGACTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
11726787 G
1 G
11726788 TTAAATATGA
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (39 bp):
GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
Found at i:11732179 original size:21 final size:21
Alignment explanation
Indices: 11732114--11732179 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
11732104 AAAAATATAG
*
11732114 TGAAACATCACATCGAATTTA
1 TGAAACATCACATCAAATTTA
* * * * *
11732135 TGAATCAT-ATAACAAACATAA
1 TGAAACATCACATCAAA-TTTA
*
11732156 TGAAACATCACATCTAATTTA
1 TGAAACATCACATCAAATTTA
11732177 TGA
1 TGA
11732180 CTCAAACATA
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
20 5 0.16
21 21 0.68
22 5 0.16
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.29
Consensus pattern (21 bp):
TGAAACATCACATCAAATTTA
Found at i:11740097 original size:13 final size:13
Alignment explanation
Indices: 11740081--11740107 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11740071 TGATATTGTG
11740081 TTGGGCCATTGCT
1 TTGGGCCATTGCT
11740094 TTGGGCCATTGCT
1 TTGGGCCATTGCT
11740107 T
1 T
11740108 ATTTCGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.22, G:0.30, T:0.41
Consensus pattern (13 bp):
TTGGGCCATTGCT
Found at i:11740734 original size:44 final size:44
Alignment explanation
Indices: 11740627--11741525 Score: 602
Period size: 44 Copynumber: 20.4 Consensus size: 44
11740617 GACTGGATAT
* * * * **
11740627 GATCTGCTATTTTTGATCTACTTCACTGCCAGTACAGGAAGGTAA
1 GATCTGCTATCTTCGATCTACTTCA-TGCCAATACATGAAGACAA
*
11740672 GATCTGTTATCCTT-GATCTACTTCATGCCAATACATGAAGACAA
1 GATCTGCTAT-CTTCGATCTACTTCATGCCAATACATGAAGACAA
* ** * * ***
11740716 GATTTATTTTCTTCGATCTATTTC--GCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCATGCCA--A-TACATGAAGACAA
* **
11740761 GATCTGCTATCTTTGATCTACTTCACACCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* ** *
11740805 GATATG-TCATCTTCGATCTACTTCACACCAATACGTGAAGACAA
1 GATCTGCT-ATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* * * *
11740849 GATCTGCTACCTTTGATCTACTTCATGCCGATAAATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* * * * *** *
11740893 GATCTGCTTTTTTCGATCTACTTCGTCACCAATATGGGGAGACAA
1 GATCTGCTATCTTCGATCTACTTCAT-GCCAATACATGAAGACAA
* * * *
11740938 GATCTGC-ATCTTCGATCCACTTCCTACCAATATATGAAGAC-A
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* *
11740980 GGTCTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC-A
1 GATC-TGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* ***
11741024 -A---G--ATCTTCGTTCTACTT--TGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCATGCCA--A-TACATGAAGACAA
* * * * * * *
11741063 GATCTGC-ATCTTCGATCCACTTCCTACTAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* * ***
11741106 GTTGTGCTATCTTCGATCTAACTT--TGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCT-ACTTCATGCCA--A-TACATGAAGACAA
* * * * * * *
11741152 GATCTGC-ATCTTCGATCCACTTCCTACTAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* ***
11741195 GATTTGCTATCTTCGATCTAACTT--TGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCT-ACTTCATGCCA--A-TACATGAAGACAA
* **
11741241 TATCTATTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* * * * *
11741285 GATTTACTATATTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* * ***
11741329 GATCTGCTTTCTTCGATCCACTTC--GCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCATGCCA--A-TACATGAAGACAA
*
11741374 GATCTGCTTTCTTCGATCTACTTCATGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* * * * * *
11741418 GATTTACTATATTTGATCTACTTCACGCCAATACATGAAGATAA
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
* * *
11741462 GATCTGCTACCTTTGATCTACTTCATGCCAATACATGAAAAGATAA
1 GATCTGCTATCTTCGATCTACTTCATGCCAATACATG--AAGACAA
*
11741508 GATCTGCTATCTTTGATC
1 GATCTGCTATCTTCGATC
11741526 CCCTCCGCTG
Statistics
Matches: 681, Mismatches: 129, Indels: 87
0.76 0.14 0.10
Matches are distributed among these distances:
35 4 0.01
37 15 0.02
38 8 0.01
39 2 0.00
40 1 0.00
42 12 0.02
43 60 0.09
44 365 0.54
45 128 0.19
46 74 0.11
47 12 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAA
Found at i:11740867 original size:133 final size:130
Alignment explanation
Indices: 11740627--11741525 Score: 609
Period size: 133 Copynumber: 6.8 Consensus size: 130
11740617 GACTGGATAT
* * * ** *
11740627 GATCTGCTATTTTTGATCTACTTCACTGCCAGTACAGGAAGGTAAGATCTGTTATCCTT-GATCT
1 GATCTGCTATCTTTGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTG-CAT-CTTCGATCT
* * ** * * ***
11740691 ACTT-CATGCCAATACATGAAGACAAGATTTATTTTCTTCGATCTATTTC-GCCACCAGTATGGG
63 ACTTCCA--CCAATACGTGAAGACAAGATCTGCTATCTTCGATCTACTTCAGCCA-CA-TACATG
11740754 AAGACAA
124 AAGACAA
* *
11740761 GATCTGCTATCTTTGATCTACTTCACACCAATACATGAAGACAAGATATGTCATCTTCGATCTAC
1 GATCTGCTATCTTTGATCTACTTCACACCAATACAGGAAGACAAGATCTG-CATCTTCGATCTAC
* * * *
11740826 TTCACACCAATACGTGAAGACAAGATCTGCTACCTTTGATCTACTTCATGCC-GATAAATGAAGA
65 TTC-CACCAATACGTGAAGACAAGATCTGCTATCTTCGATCTACTTCA-GCCACATACATGAAGA
11740890 CAA
128 CAA
* * ** * *
11740893 GATCTGCT-TTTTTCGATCTACTTCGTCACCAATATGGGGAGACAAGATCTGCATCTTCGATCCA
1 GATCTGCTATCTTT-GATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCATCTTCGATCTA
** *
11740957 CTTCCTACCAATATATGAAGAC-AGGTCTTGCTATCTTCGATCTACTTCACGCCA-ATACATGAA
64 CTTCC-ACCAATACGTGAAGACAAGATC-TGCTATCTTCGATCTACTTCA-GCCACATACATGAA
11741020 GACAA
126 GACAA
* * ** *
11741025 GA--T-CT-TC---GTTCTACTTTGC-CACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCA
1 GATCTGCTATCTTTGATCTAC-TT-CACACCAATACAGGAAGACAAGATCTGCATCTTCGATCTA
* * * * * * ***
11741082 CTTCCTACTAATATAG-GAAGACAGGTTGTGCTATCTTCGATCTAACTT-TGCCACCAGTATGGG
64 CTTCC-ACCAATA-CGTGAAGACAAGATCTGCTATCTTCGATCT-ACTTCAGCCA-CA-TACATG
11741145 AAGACAA
124 AAGACAA
* * * * * *
11741152 GATCTGC-ATCTTCGATCCACTTC-CTACTAATATAGGAAGACAGGATTTGCTATCTTCGATCTA
1 GATCTGCTATCTTTGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGC-ATCTTCGATCT-
* * * * **
11741215 ACTTTGCCACCAGTATGGGAAGACAATATCTATTATCTTCGATCTACTTCATGCCA-ATACATGA
63 AC-TT-CCACCAATACGTGAAGACAAGATCTGCTATCTTCGATCTACTTCA-GCCACATACATGA
11741279 AGACAA
125 AGACAA
* * * * * * *
11741285 GATTTACTATATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCAC
1 GATCTGCTATCTTTGATCTACTTCACACCAATACAGGAAGACAAGATCTGC-ATCTTCGATCTAC
* * * *
11741350 TTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCATGCCA-ATACATGAAG
65 TT--CCACCAATACGTGAAGACAAGATCTGCTATCTTCGATCTACTTCA-GCCACATACATGAAG
11741414 ACAA
127 ACAA
* * * * * * * *
11741418 GATTTACTATATTTGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTACCTTTGATCTAC
1 GATCTGCTATCTTTGATCTACTTCACACCAATACAGGAAGACAAGATCTGC-ATCTTCGATCTAC
* * *
11741483 TT-CATGCCAATACATGAAAAGATAAGATCTGCTATCTTTGATC
65 TTCCA--CCAATACGTG--AAGACAAGATCTGCTATCTTCGATC
11741526 CCCTCCGCTG
Statistics
Matches: 626, Mismatches: 99, Indels: 80
0.78 0.12 0.10
Matches are distributed among these distances:
124 4 0.01
125 75 0.12
126 9 0.01
127 13 0.02
129 4 0.01
130 6 0.01
131 11 0.02
132 128 0.20
133 239 0.38
134 97 0.15
135 34 0.05
136 6 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (130 bp):
GATCTGCTATCTTTGATCTACTTCACACCAATACAGGAAGACAAGATCTGCATCTTCGATCTACT
TCCACCAATACGTGAAGACAAGATCTGCTATCTTCGATCTACTTCAGCCACATACATGAAGACAA
Found at i:11741148 original size:89 final size:89
Alignment explanation
Indices: 11741026--11741393 Score: 413
Period size: 89 Copynumber: 4.1 Consensus size: 89
11741016 TGAAGACAAG
*
11741026 ATCTTCGTTCT-ACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
1 ATCTTCGATCTAACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
11741090 TAATATAGGAAGACAGG-TTGTGCT
66 TAATATAGGAAGACAGGATT-TGCT
11741114 ATCTTCGATCTAACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
1 ATCTTCGATCTAACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
11741179 TAATATAGGAAGACAGGATTTGCT
66 TAATATAGGAAGACAGGATTTGCT
* ** * * *
11741203 ATCTTCGATCTAACTTTGCCACCAGTATGGGAAGACAATATCTATTATCTTCGATCTACTTCATG
1 ATCTTCGATCTAACTTTGCCACCAGTATGGGAAGACAAGATCT-GCATCTTCGATCCACTTCCTA
* * * * *
11741268 CCAATACATGAAGACAAGATTTACT
65 CTAATATAGGAAGACAGGATTTGCT
* * * * *** *
11741293 ATATTTGATCT-AC-TT-CACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTCGC
1 ATCTTCGATCTAACTTTGC-CACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
* * * * * *
11741355 CACCAGTATGGGAAGACAAGATCTGCT
63 TACTAATATAGGAAGACAGGATTTGCT
*
11741382 TTCTTCGATCTA
1 ATCTTCGATCTA
11741394 CTTCATGCCA
Statistics
Matches: 237, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
87 1 0.00
88 44 0.19
89 145 0.61
90 47 0.20
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (89 bp):
ATCTTCGATCTAACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTAC
TAATATAGGAAGACAGGATTTGCT
Found at i:11741438 original size:177 final size:177
Alignment explanation
Indices: 11740753--11741526 Score: 493
Period size: 177 Copynumber: 4.4 Consensus size: 177
11740743 ACCAGTATGG
* * *
11740753 GAAGACAAGATCTGCTATC-TTTGATCTACTTCACACCAATACATGAAGACAAGATATG-TCATC
1 GAAGACAAGATCTACTA-CATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-ATC
* * * * *
11740816 TTCGATCTACTTCACACCAATA-CGTGAAGACAAGATCTGCTACCTTTGATCT-ACTTCATGCC-
64 TTCGATCCACTTCCCACCAATATAG-GAAGACAAGATCTGCTATCTTCGATCTAACTT--TGCCA
* * * * * * * * ***
11740878 GA-TAAATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGTCACCAATATGG
126 CAGTACAGGAAGACAAGATCTACTATATTCGATCTACTTC-ACGCCAATACAT
* * * * * * *
11740930 GGAGACAAGATCTGC-ATC-TTCGATCCACTTC-CTACCAATATATGAAGAC-AGGTCTTGCTAT
1 GAAGACAAGATCTACTA-CATTTGATCTACTTCAC-GCCAATACATGAAGACAAGATC-TGCTAT
* * * * * *
11740991 CTTCGATCTACTTCACGCCAATACATGAAGAC-A-A---G--ATCTTCGTTCT-ACTTTGCCACC
63 CTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAACTTTGCCA-C
** * * * * * * *
11741048 AGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACTAATATAG
127 AGTACAGGAAGACAAGATCTACTATATTCGATCTACTTCAC-GCCAATACAT
* * * * * * * ***
11741098 GAAGACAGGTTGTGCTATC-TTCGATCTAACTTTGC-CACCAGTATGGGAAGACAAGATCTGC-A
1 GAAGACAAGATCTACTA-CATTTGATCT-AC-TT-CACGCCAATACATGAAGACAAGATCTGCTA
* * * *
11741160 TCTTCGATCCACTTCCTACTAATATAGGAAGACAGGATTTGCTATCTTCGATCTAACTTTGCCAC
62 TCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAACTTTGCCA-
** * * * *
11741225 CAGTATGGGAAGACAATATCTATTATCTTCGATCTACTTCATGCCAATACAT
126 CAGTACAGGAAGACAAGATCTACTATATTCGATCTACTTCACGCCAATACAT
* * *
11741277 GAAGACAAGATTTACTATATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTACTACATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
* * *
11741342 CGATCCACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCT-ACTTCATGCCA-A
66 CGATCCACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAACTT--TGCCACA
* * *
11741405 -TACATGAAGACAAGATTTACTATATTTGATCTACTTCACGCCAATACAT
128 GTACAGGAAGACAAGATCTACTATATTCGATCTACTTCACGCCAATACAT
* * * * *
11741454 GAAGATAAGATCTGCTACCTTTGATCTACTTCATGCCAATACATGAAAAGATAAGATCTGCTATC
1 GAAGACAAGATCTACTACATTTGATCTACTTCACGCCAATACATG--AAGACAAGATCTGCTATC
*
11741519 TTTGATCC
64 TTCGATCC
11741527 CCTCCGCTGC
Statistics
Matches: 481, Mismatches: 85, Indels: 60
0.77 0.14 0.10
Matches are distributed among these distances:
167 5 0.01
168 19 0.04
169 36 0.07
170 46 0.10
171 19 0.04
172 7 0.01
174 1 0.00
175 6 0.01
176 62 0.13
177 127 0.26
178 52 0.11
179 96 0.20
180 5 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (177 bp):
GAAGACAAGATCTACTACATTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
CGATCCACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAACTTTGCCACAGTA
CAGGAAGACAAGATCTACTATATTCGATCTACTTCACGCCAATACAT
Found at i:11749786 original size:23 final size:23
Alignment explanation
Indices: 11749760--11749812 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
11749750 ATAAGTGCCA
11749760 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11749783 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11749806 CACTGAT
1 CACTGAT
11749813 CAATAACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11771825 original size:22 final size:23
Alignment explanation
Indices: 11771800--11771856 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 23
11771790 TGCACTAATG
11771800 AACAGAGAGCACTAAA-GTGCTA
1 AACAGAGAGCACTAAATGTGCTA
11771822 AACAGAGAGCAC-AAATGTGCTA
1 AACAGAGAGCACTAAATGTGCTA
*
11771844 AACGGAGAGCACT
1 AACAGAGAGCACT
11771857 GTCGTACTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACTAAATGTGCTA
Found at i:11772798 original size:16 final size:17
Alignment explanation
Indices: 11772777--11772812 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11772767 TCCTTCTTTC
11772777 TCTTTTTC-TTTTTCTT
1 TCTTTTTCGTTTTTCTT
*
11772793 TCTTTTTCGTTTTTGTT
1 TCTTTTTCGTTTTTCTT
11772810 TCT
1 TCT
11772813 CTGTTTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (17 bp):
TCTTTTTCGTTTTTCTT
Found at i:11772869 original size:5 final size:5
Alignment explanation
Indices: 11772859--11772887 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
11772849 TTTATTTGTT
11772859 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
11772888 TATTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:11773962 original size:50 final size:50
Alignment explanation
Indices: 11773894--11773992 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
11773884 TTAATTGTCC
11773894 TAACAACCTTAACGAAAAAGTGAGGT-AGAACATTAATTCAAGGGTTAATG
1 TAACAACCTTAACGAAAAAGTGAGGTGAG-ACATTAATTCAAGGGTTAATG
* *
11773944 TAACAACCTTAATGAAAAAGTGAGGTGAGACGTTAATTCAAGGGTTAAT
1 TAACAACCTTAACGAAAAAGTGAGGTGAGACATTAATTCAAGGGTTAAT
11773993 ATCCAATTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 44 0.96
51 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.25
Consensus pattern (50 bp):
TAACAACCTTAACGAAAAAGTGAGGTGAGACATTAATTCAAGGGTTAATG
Found at i:11774685 original size:2 final size:2
Alignment explanation
Indices: 11774678--11774707 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11774668 TGCGTAGATC
11774678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11774708 CACATGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11776402 original size:4 final size:4
Alignment explanation
Indices: 11776370--11776462 Score: 127
Period size: 4 Copynumber: 23.8 Consensus size: 4
11776360 GTCCTTGAGG
* * * * *
11776370 TATC TATC CATC CATC CATC CATC CATC TATC TATC TATC TATC TA--
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
11776416 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
11776463 GTCTAATGCA
Statistics
Matches: 85, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
2 2 0.02
4 83 0.98
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (4 bp):
TATC
Found at i:11781460 original size:29 final size:29
Alignment explanation
Indices: 11781416--11781480 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
11781406 TGGTTTAGCT
11781416 TGAGCAACCCTAATCACTGTCAACTTGTG
1 TGAGCAACCCTAATCACTGTCAACTTGTG
* *
11781445 TGAGCAACCCTGATCACTGTCAGCTTGTG
1 TGAGCAACCCTAATCACTGTCAACTTGTG
11781474 TGAGCAA
1 TGAGCAA
11781481 TATAGTCTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (29 bp):
TGAGCAACCCTAATCACTGTCAACTTGTG
Found at i:11786824 original size:34 final size:34
Alignment explanation
Indices: 11786781--11786852 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
11786771 AAAAATAAAG
11786781 TATAAGTCAAATGCCGTGTAGGATTTCAGTAATA
1 TATAAGTCAAATGCCGTGTAGGATTTCAGTAATA
11786815 TATAAGTCAAATGCCGTGTAGGATTTCAGTAATA
1 TATAAGTCAAATGCCGTGTAGGATTTCAGTAATA
11786849 TATA
1 TATA
11786853 TTTTATCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (34 bp):
TATAAGTCAAATGCCGTGTAGGATTTCAGTAATA
Found at i:11787536 original size:62 final size:57
Alignment explanation
Indices: 11787438--11787561 Score: 167
Period size: 62 Copynumber: 2.1 Consensus size: 57
11787428 AATATTTAAT
* * * *
11787438 TAATATAATATTTATCAAGATAAATATTATATTAAATTTAATATTAAATCTTATTAAAA
1 TAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATACTAAA-C-TATTAAAA
11787497 TAATAGAATATTTATCTATAAGATAAACATTAAATTAAATTTAATACTAAACTATTAAAA
1 TAATAGAATATTTATC---AAGATAAACATTAAATTAAATTTAATACTAAACTATTAAAA
11787557 TAATA
1 TAATA
11787562 TTATTTTTGG
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
59 15 0.26
60 13 0.22
61 1 0.02
62 29 0.50
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (57 bp):
TAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATACTAAACTATTAAAA
Found at i:11791546 original size:19 final size:19
Alignment explanation
Indices: 11791509--11791546 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11791499 CTAATTAATT
*
11791509 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
11791528 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
11791547 GAAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:11792233 original size:23 final size:24
Alignment explanation
Indices: 11792202--11792256 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
11792192 GGCTTTGCCG
* *
11792202 ATCATGCACTTTATGTGTCGTA-T
1 ATCAGGCACTTTATGTGTAGTACT
11792225 ATCAGGCACTTTATGTGTAGTACT
1 ATCAGGCACTTTATGTGTAGTACT
11792249 -TCAGGCAC
1 ATCAGGCAC
11792257 CCCGTGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (24 bp):
ATCAGGCACTTTATGTGTAGTACT
Found at i:11792485 original size:6 final size:6
Alignment explanation
Indices: 11792477--11792511 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
11792467 ATTGTTGATT
*
11792477 GAAATT GAAATTG GAAATG GAAATG GAAATG GAAA
1 GAAATG GAAA-TG GAAATG GAAATG GAAATG GAAA
11792512 ACATGAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (6 bp):
GAAATG
Found at i:11797563 original size:10 final size:10
Alignment explanation
Indices: 11797548--11797588 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
11797538 TTTAACAAAA
11797548 TAAAATATTT
1 TAAAATATTT
11797558 TAAAATATTT
1 TAAAATATTT
11797568 TAAAA-A--T
1 TAAAATATTT
*
11797575 TAAAAAATTT
1 TAAAATATTT
11797585 TAAA
1 TAAA
11797589 TTTAACTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 6 0.21
8 1 0.04
9 1 0.04
10 20 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAATATTT
Found at i:11797787 original size:22 final size:22
Alignment explanation
Indices: 11797761--11797811 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
11797751 AAACAACGGT
11797761 GAAAATTTCGAACAAAACTT-A
1 GAAAATTTCGAACAAAACTTGA
11797782 GGAAAATTTCGAACAAAACTTGA
1 -GAAAATTTCGAACAAAACTTGA
11797805 GAAAATT
1 GAAAATT
11797812 GAGAGTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.24
Consensus pattern (22 bp):
GAAAATTTCGAACAAAACTTGA
Found at i:11809999 original size:17 final size:18
Alignment explanation
Indices: 11809974--11810013 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11809964 ATTTTAAACG
* *
11809974 TAAATTTTTAAATTATA-
1 TAAAATTTTAAAATATAT
11809991 TAAAATTTTAAAATATAT
1 TAAAATTTTAAAATATAT
11810009 TAAAA
1 TAAAA
11810014 ATAGTGGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAATTTTAAAATATAT
Found at i:11813043 original size:69 final size:70
Alignment explanation
Indices: 11812932--11813086 Score: 215
Period size: 69 Copynumber: 2.2 Consensus size: 70
11812922 ATCATGATGT
* * *
11812932 GCCTCCAAATAGTTAGCGAGAGTTAAAAGCTCCCTCCTGTAATTTCAAGGCTCGTTGATTTCATA
1 GCCTCTAAATAGTTAGCAAGAGTTAAAAGCTCCCACCTGTAATTTCAAGGCTCGTTGATTTCATA
11812997 TCG-C
66 TCGTC
* * *
11813001 GCCTCTAAATAGTTAGCAAGA-TTCAAAAGCTCCCAGCTGTAATTTTAAGGCTTGTTGATTTCAT
1 GCCTCTAAATAGTTAGCAAGAGTT-AAAAGCTCCCACCTGTAATTTCAAGGCTCGTTGATTTCAT
*
11813065 ATCGTG
65 ATCGTC
*
11813071 GCCTCTAAACAGTTAG
1 GCCTCTAAATAGTTAG
11813087 TGTAACGACT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
68 2 0.03
69 59 0.78
70 15 0.20
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (70 bp):
GCCTCTAAATAGTTAGCAAGAGTTAAAAGCTCCCACCTGTAATTTCAAGGCTCGTTGATTTCATA
TCGTC
Found at i:11814283 original size:340 final size:340
Alignment explanation
Indices: 11813663--11814342 Score: 1360
Period size: 340 Copynumber: 2.0 Consensus size: 340
11813653 GAAAGTATAG
11813663 GGTTTTTCCATGAGAGCATATTAGTTTTTCTTGAAGTTTAATAGAAGAAAATGAACCCTTGTTGT
1 GGTTTTTCCATGAGAGCATATTAGTTTTTCTTGAAGTTTAATAGAAGAAAATGAACCCTTGTTGT
11813728 TAAATAAATAACTTCTGTTAAGTGAGTTTTGATGAAATTGTTAATTAGGGGTTTTGTGATCAATG
66 TAAATAAATAACTTCTGTTAAGTGAGTTTTGATGAAATTGTTAATTAGGGGTTTTGTGATCAATG
11813793 TGTGAATTTATGGAATATATGGGCTTATATGAGCATATATAATTTTTGGCTAGGCTTGGATGTAG
131 TGTGAATTTATGGAATATATGGGCTTATATGAGCATATATAATTTTTGGCTAGGCTTGGATGTAG
11813858 TGAAATTTCATGAATTTCATTTTTTACGAGCCTAGGGACTAAATTGTAAAAAGGTCAAATGTTTA
196 TGAAATTTCATGAATTTCATTTTTTACGAGCCTAGGGACTAAATTGTAAAAAGGTCAAATGTTTA
11813923 GGGGAAAAATGGTAATTTTCCATAACATGAAATTGGATTGAATTGAATAGAATAAATATTAAACT
261 GGGGAAAAATGGTAATTTTCCATAACATGAAATTGGATTGAATTGAATAGAATAAATATTAAACT
11813988 AGTTAAATTTGATTA
326 AGTTAAATTTGATTA
11814003 GGTTTTTCCATGAGAGCATATTAGTTTTTCTTGAAGTTTAATAGAAGAAAATGAACCCTTGTTGT
1 GGTTTTTCCATGAGAGCATATTAGTTTTTCTTGAAGTTTAATAGAAGAAAATGAACCCTTGTTGT
11814068 TAAATAAATAACTTCTGTTAAGTGAGTTTTGATGAAATTGTTAATTAGGGGTTTTGTGATCAATG
66 TAAATAAATAACTTCTGTTAAGTGAGTTTTGATGAAATTGTTAATTAGGGGTTTTGTGATCAATG
11814133 TGTGAATTTATGGAATATATGGGCTTATATGAGCATATATAATTTTTGGCTAGGCTTGGATGTAG
131 TGTGAATTTATGGAATATATGGGCTTATATGAGCATATATAATTTTTGGCTAGGCTTGGATGTAG
11814198 TGAAATTTCATGAATTTCATTTTTTACGAGCCTAGGGACTAAATTGTAAAAAGGTCAAATGTTTA
196 TGAAATTTCATGAATTTCATTTTTTACGAGCCTAGGGACTAAATTGTAAAAAGGTCAAATGTTTA
11814263 GGGGAAAAATGGTAATTTTCCATAACATGAAATTGGATTGAATTGAATAGAATAAATATTAAACT
261 GGGGAAAAATGGTAATTTTCCATAACATGAAATTGGATTGAATTGAATAGAATAAATATTAAACT
11814328 AGTTAAATTTGATTA
326 AGTTAAATTTGATTA
11814343 TATATAGATC
Statistics
Matches: 340, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
340 340 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.38
Consensus pattern (340 bp):
GGTTTTTCCATGAGAGCATATTAGTTTTTCTTGAAGTTTAATAGAAGAAAATGAACCCTTGTTGT
TAAATAAATAACTTCTGTTAAGTGAGTTTTGATGAAATTGTTAATTAGGGGTTTTGTGATCAATG
TGTGAATTTATGGAATATATGGGCTTATATGAGCATATATAATTTTTGGCTAGGCTTGGATGTAG
TGAAATTTCATGAATTTCATTTTTTACGAGCCTAGGGACTAAATTGTAAAAAGGTCAAATGTTTA
GGGGAAAAATGGTAATTTTCCATAACATGAAATTGGATTGAATTGAATAGAATAAATATTAAACT
AGTTAAATTTGATTA
Found at i:11816167 original size:70 final size:70
Alignment explanation
Indices: 11816073--11816609 Score: 528
Period size: 70 Copynumber: 7.7 Consensus size: 70
11816063 GGTAAGTGAT
* * * * *
11816073 AGTTAAAAGCTCCTAACTATAATTTCAAGGCTCGCTGATTTCACATCGCGGCCTCTAAATAGTTA
1 AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCTAAACAGTTA
11816138 GCTAG
66 GCTAG
* * * *
11816143 AGTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAGTTA
1 AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCTAAACAGTTA
11816208 G-TA-
66 GCTAG
** * * * * *
11816211 AGTTAAAAGCTCTTAACTGTAATTTCAAGGCTTGTTGATTTCATATTGCGGCCTCCAAACAGTTA
1 AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCTAAACAGTTA
*
11816276 GCGAG
66 GCTAG
* * * * **
11816281 AGTTAAAAGCTCTCAGCTATAATTTCAAGGCTTGTTGATTTCATATCGCAACCT-TCAAACAGTT
1 AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCT-AAACAGTT
* *
11816345 AGCAAT
65 AGCTAG
* * * * *
11816351 AGTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGTGG-CTTTCAAACAATT
1 AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCT-AAACAGTT
11816415 AG-TGAG
65 AGCT-AG
* * * * * **
11816421 AGCTAAACGCTCCCAGCTGTAATTTCAAGACTCACTGATTTCATATTGCAACCT-TCAAACAGTT
1 AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCT-AAACAGTT
* *
11816485 AGCAAT
65 AGCTAG
* * * ** * * *
11816491 AGTTAAAAGCTCCCAGTTGTAATTCCAAGGCTCGCTGATTTCATATTGTAGTCTTTAAACTGTTA
1 AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCTAAACAGTTA
*
11816556 GCGAG
66 GCTAG
* * * *
11816561 ACTTAAAAGCTCCCAACTGTAATTGCAAGGCTAGCTGATTTCATATCGC
1 AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGC
11816610 TAGAATTAAA
Statistics
Matches: 387, Mismatches: 72, Indels: 16
0.81 0.15 0.03
Matches are distributed among these distances:
68 57 0.15
69 5 0.01
70 322 0.83
71 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (70 bp):
AGTTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCCTCTAAACAGTTA
GCTAG
Found at i:11816438 original size:140 final size:140
Alignment explanation
Indices: 11816071--11816609 Score: 620
Period size: 140 Copynumber: 3.9 Consensus size: 140
11816061 ATGGTAAGTG
* * * * *
11816071 ATAGTTAAAAGCTCCTAACTATAATTTCAAGGCTCGCTGATTTCACATCGCGGC-CTCTAAATAG
1 ATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCTTTC-AAACAG
* * * * * *
11816135 TTAGCTAGAGTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCA
65 TTAGCGAGAGCTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACCTTCA
*
11816200 AACAGTTAG-T
130 AACAGTTAGCA
** * * * * *
11816210 A-AGTTAAAAGCTCTTAACTGTAATTTCAAGGCTTGTTGATTTCATATTGCGGCCTCCAAACAGT
1 ATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCTTTCAAACAGT
* * * * *
11816274 TAGCGAGAGTTAAAAGCTCTCAGCTATAATTTCAAGGCTTGTTGATTTCATATCGCAACCTTCAA
66 TAGCGAGAGCTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACCTTCAA
11816339 ACAGTTAGCA
131 ACAGTTAGCA
** * * *
11816349 ATAGTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGTGGCTTTCAAACAAT
1 ATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCTTTCAAACAGT
* * * * *
11816414 TAGTGAGAGCTAAACGCTCCCAGCTGTAATTTCAAGACTCACTGATTTCATATTGCAACCTTCAA
66 TAGCGAGAGCTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACCTTCAA
11816479 ACAGTTAGCA
131 ACAGTTAGCA
** * * * * *
11816489 ATAGTTAAAAGCTCCCAGTTGTAATTCCAAGGCTCGCTGATTTCATATTGTAGTCTTT-AAACTG
1 ATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATCG-CGGCTTTCAAACAG
* * *
11816553 TTAGCGAGA-CTTAAAAGCTCCCAACTGTAATTGCAAGGCTAGCTGATTTCATATCGC
65 TTAGCGAGAGC-TAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGC
11816610 TAGAATTAAA
Statistics
Matches: 339, Mismatches: 56, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
138 116 0.34
139 4 0.01
140 214 0.63
141 5 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (140 bp):
ATAGTTAAAAGCTCCCAACTGTAATTTCAAGGCTCGCTGATTTCATATCGCGGCTTTCAAACAGT
TAGCGAGAGCTAAAAGCTCCCAGCTGTAATTTCAAGGCTCGCTGATTTCATATCGCAACCTTCAA
ACAGTTAGCA
Found at i:11816532 original size:210 final size:208
Alignment explanation
Indices: 11816016--11816609 Score: 643
Period size: 210 Copynumber: 2.8 Consensus size: 208
11816006 AAGCTCGTGT
* * * * **
11816016 TGTAATTTCAAGGCTCACT-AGTTTCATATTGCGATCTCCAAACAAATGGTAAGTGATAGTTAAA
1 TGTAATTTCAAGACTCACTGA-TTTCATATTGCAACCTCCAAAC--A--GTTAGCAATAGTTAAA
* * * * * *
11816080 AGCTCCTAACTATAATTTCAAGGCTCGCTGATTTCACATCGCGGCC-TCTAAATAGTTAGCTAGA
61 AGCTCCCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAGCCTTC-AAACAGTTAGCAAGA
*
11816144 GTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAGTTAG
125 GTTAAAAGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAATTAG
* **
11816209 TAAGTTAAAAGCTCTTAAC
190 TAAGCTAAAAGCTCCCAAC
* *** ** * *
11816228 TGTAATTTCAAGGCTTGTTGATTTCATATTGCGGCCTCCAAACAGTTAGCGAGAGTTAAAAGCTC
1 TGTAATTTCAAGACTCACTGATTTCATATTGCAACCTCCAAACAGTTAGCAATAGTTAAAAGCTC
* * * * *
11816293 TCAGCTATAATTTCAAGGCTTGTTGATTTCATATCGCAACCTTCAAACAGTTAGCAATAGTTAAA
66 CCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAGCCTTCAAACAGTTAGCAAGAGTTAAA
* * * *
11816358 AGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGTGGCTTTCAAACAATTAGTGAGAG
131 AGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAATTAGT-A-AG
* *
11816423 CTAAACGCTCCCAGC
194 CTAAAAGCTCCCAAC
*
11816438 TGTAATTTCAAGACTCACTGATTTCATATTGCAACCTTCAAACAGTTAGCAATAGTTAAAAGCTC
1 TGTAATTTCAAGACTCACTGATTTCATATTGCAACCTCCAAACAGTTAGCAATAGTTAAAAGCTC
* * * * * * * * * *
11816503 CCAGTTGTAATTCCAAGGCTCGCTGATTTCATATTGTAGTCTTTAAACTGTTAGCGAGACTTAAA
66 CCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAGCCTTCAAACAGTTAGCAAGAGTTAAA
** * * *
11816568 AGCTCCCAACTGTAATTGCAAGGCTAGCTGATTTCATATCGC
131 AGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGC
11816610 TAGAATTAAA
Statistics
Matches: 319, Mismatches: 59, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
208 124 0.39
209 3 0.01
210 155 0.49
212 36 0.11
213 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (208 bp):
TGTAATTTCAAGACTCACTGATTTCATATTGCAACCTCCAAACAGTTAGCAATAGTTAAAAGCTC
CCAGCTATAATTTCAAGGCTCGCTGATTTCATATCGCAGCCTTCAAACAGTTAGCAAGAGTTAAA
AGCTCCCAGTTGTAATTTCAAGGCTCGCTAATTTCATATCGCGACCTCCAAACAATTAGTAAGCT
AAAAGCTCCCAAC
Found at i:11816643 original size:52 final size:52
Alignment explanation
Indices: 11816563--11816662 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
11816553 TTAGCGAGAC
*
11816563 TTAAAAGCTCCCAACTGTAATTGCAAGGCTAGCTGATTTCATATCGCTAGAA
1 TTAAAAGCTCCCAACTGTAATTGCAAGGCTAGCTGATTCCATATCGCTAGAA
* * * *
11816615 TTAAAAGCTCTCACCTGTAATTTG-AAGGCTCGTTGATTCCATATCGCT
1 TTAAAAGCTCCCAACTGTAA-TTGCAAGGCTAGCTGATTCCATATCGCT
11816663 GCCTCCAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 39 0.93
53 3 0.07
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (52 bp):
TTAAAAGCTCCCAACTGTAATTGCAAGGCTAGCTGATTCCATATCGCTAGAA
Found at i:11816777 original size:58 final size:58
Alignment explanation
Indices: 11816682--11816967 Score: 302
Period size: 58 Copynumber: 4.9 Consensus size: 58
11816672 TAGCTTGAGT
* * * * * *
11816682 ATTTATATTCTCAACTGATTATTTTAGAAAATATGTTTAAGTTCAGAACAACTTGCAG
1 ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
* * * * * *
11816740 ATTTATATTCCCAGTTGATGATTTTGGAAAATTTGTTTAAGCTCAGAACAGCTCGCGG
1 ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
* * * * * *
11816798 ATTTATATTCCCAGCTAATGATTTTTTGAATATTTGTTAAAGTTTAAAACAGCTCGCAG
1 ATTTATATTCCCAGCTGATTA-TTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
* * * * *
11816857 ATTTATATTCCCAACTGATTATTTTAGAAAATATGCTTAAGTTCAAAATAGCTCGCAA
1 ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
* * * ** *
11816915 ATTTATATTCCTAGCTGATTATTTTGGAAAAATTGCATAAGTTCAAAATAGCT
1 ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCT
11816968 TGCGGACTCA
Statistics
Matches: 191, Mismatches: 36, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
58 143 0.75
59 48 0.25
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (58 bp):
ATTTATATTCCCAGCTGATTATTTTAGAAAATTTGTTTAAGTTCAAAACAGCTCGCAG
Found at i:11830446 original size:17 final size:17
Alignment explanation
Indices: 11830426--11830461 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11830416 TTAGAATTAG
11830426 ATTGAAAATTTTATTTA
1 ATTGAAAATTTTATTTA
11830443 ATTGAAAATTTTATTTA
1 ATTGAAAATTTTATTTA
11830460 AT
1 AT
11830462 AAATAATATT
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:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTGAAAATTTTATTTA
Found at i:11831828 original size:27 final size:27
Alignment explanation
Indices: 11831806--11831863 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
11831796 TACATGGTTC
*
11831806 GCATGAAATGCATGTGTTGCATGGAAT
1 GCATGAAATGCATATGTTGCATGGAAT
* *
11831833 GCATGAAATGCATATTTTGCATGGAAC
1 GCATGAAATGCATATGTTGCATGGAAT
11831860 GCAT
1 GCAT
11831864 AGTGTGCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (27 bp):
GCATGAAATGCATATGTTGCATGGAAT
Found at i:11839839 original size:20 final size:22
Alignment explanation
Indices: 11839799--11839841 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
11839789 TGTTAAATTT
11839799 TTTTGAAGTTTTCATTGATGAA
1 TTTTGAAGTTTTCATTGATGAA
*
11839821 TTTTGAA-TTTTTA-TGATGAA
1 TTTTGAAGTTTTCATTGATGAA
11839841 T
1 T
11839842 GCCATGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 5 0.25
22 7 0.35
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (22 bp):
TTTTGAAGTTTTCATTGATGAA
Found at i:11840606 original size:35 final size:36
Alignment explanation
Indices: 11840537--11840611 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
11840527 TACTCTCTGT
* * *
11840537 TTGGCGTGTTTCAGTTGGACTAGCTTTTATGAGC-A
1 TTGGCGTATTTCAGTTGGACTAGCTCTTACGAGCAA
* * *
11840572 TTGGCGTATTTCGGTTGGATTAGCTCTTGCGAGCAA
1 TTGGCGTATTTCAGTTGGACTAGCTCTTACGAGCAA
11840608 TTGG
1 TTGG
11840612 TGTGTTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 28 0.85
36 5 0.15
ACGTcount: A:0.16, C:0.15, G:0.31, T:0.39
Consensus pattern (36 bp):
TTGGCGTATTTCAGTTGGACTAGCTCTTACGAGCAA
Found at i:11845357 original size:28 final size:28
Alignment explanation
Indices: 11845326--11845380 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
11845316 TAATAATGAT
*
11845326 AAAATTACACTTTAA-CCTCTAAAAATAAA
1 AAAATTA-A-TTTAATCCTATAAAAATAAA
11845355 AAAATTAATTTAATCCTATAAAAATA
1 AAAATTAATTTAATCCTATAAAAATA
11845381 TAGAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 12 0.50
29 7 0.29
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATTAATTTAATCCTATAAAAATAAA
Found at i:11847763 original size:13 final size:13
Alignment explanation
Indices: 11847745--11847774 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11847735 ACTGAATCCC
11847745 AATTGAATTAGGA
1 AATTGAATTAGGA
*
11847758 AATTGAATTTGGA
1 AATTGAATTAGGA
11847771 AATT
1 AATT
11847775 ATCAAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (13 bp):
AATTGAATTAGGA
Found at i:11848956 original size:27 final size:27
Alignment explanation
Indices: 11848926--11848981 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
11848916 ATATTTATGA
11848926 GGTTAGTTTAGTAATAAATTAGATCTT
1 GGTTAGTTTAGTAATAAATTAGATCTT
*
11848953 GGTTAGTTTAGTAATGAATTAGATCTT
1 GGTTAGTTTAGTAATAAATTAGATCTT
11848980 GG
1 GG
11848982 CTAAGTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.43
Consensus pattern (27 bp):
GGTTAGTTTAGTAATAAATTAGATCTT
Found at i:11849160 original size:3 final size:3
Alignment explanation
Indices: 11849152--11849202 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
11849142 AAATGCATGT
11849152 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11849199 ATA A
1 ATA A
11849203 CAACAAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11852235 original size:17 final size:17
Alignment explanation
Indices: 11852215--11852275 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
11852205 TTAATACGAT
11852215 TAAATAATTCAATAATA
1 TAAATAATTCAATAATA
* *
11852232 TAAATAGTACAA-AATGTA
1 TAAATAATTCAATAA--TA
* *
11852250 AAATATAATTTAATAATA
1 TAA-ATAATTCAATAATA
11852268 TAAATAAT
1 TAAATAAT
11852276 AGACATAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
16 2 0.06
17 15 0.45
18 8 0.24
19 6 0.18
20 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:11858732 original size:21 final size:20
Alignment explanation
Indices: 11858694--11858733 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11858684 AATTTTAAAA
*
11858694 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
11858714 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
11858734 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:11859474 original size:21 final size:21
Alignment explanation
Indices: 11859436--11859503 Score: 91
Period size: 21 Copynumber: 3.1 Consensus size: 21
11859426 CCCGGCCCAT
* * *
11859436 TTTTTAATAAACATAAAAAATT
1 TTTTTAA-AAATAAAAAAAATA
11859458 TATTTTAAAAATAAAAAAAATA
1 T-TTTTAAAAATAAAAAAAATA
11859480 TTTTTAAAAATAAAAAAAATA
1 TTTTTAAAAATAAAAAAAATA
11859501 TTT
1 TTT
11859504 ATAATATTCG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 23 0.55
22 13 0.31
23 6 0.14
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTTTAAAAATAAAAAAAATA
Found at i:11859773 original size:107 final size:107
Alignment explanation
Indices: 11859576--11859775 Score: 276
Period size: 107 Copynumber: 1.9 Consensus size: 107
11859566 CATTTTGGGT
* * *
11859576 CTCGTTTTTTTGCCCAAGCCCATATTTCGGGCTTATATTTTTACCTGAATCCTCACATATTTCGG
1 CTCGTTTTTTTGCCCAAACCCATATTTCAGGCTTATATTTTTACCTGAATCCTCACATATTTCGA
* **
11859641 GCGGGCCGTCGGGCCAGGCTGGGCCGCCTTTTCTAAACGGGC
66 GCGGGCCATCGGGCCAGGCCAGGCCGCCTTTTCTAAACGGGC
* ** *
11859683 CTCGTTTTTTTGCTCAAACCCATATTTCAGGCTTATATTTTTATCC-GAATCCTCTTATATTTTG
1 CTCGTTTTTTTGCCCAAACCCATATTTCAGGCTTATATTTTTA-CCTGAATCCTCACATATTTCG
* *
11859747 AGCGGGTCATCGGGCCGGGCCAGGCCGCC
65 AGCGGGCCATCGGGCCAGGCCAGGCCGCC
11859776 CGGCCCATGA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 78 0.98
108 2 0.03
ACGTcount: A:0.16, C:0.28, G:0.23, T:0.34
Consensus pattern (107 bp):
CTCGTTTTTTTGCCCAAACCCATATTTCAGGCTTATATTTTTACCTGAATCCTCACATATTTCGA
GCGGGCCATCGGGCCAGGCCAGGCCGCCTTTTCTAAACGGGC
Found at i:11860986 original size:21 final size:21
Alignment explanation
Indices: 11860955--11861001 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
11860945 TTTTTAAGAA
11860955 TTTTATATTTCTT-T-AATTT
1 TTTTATATTTCTTATGAATTT
11860974 TTTTATAATTTTCTTATGAATTT
1 TTTTAT-A-TTTCTTATGAATTT
11860997 TTTTA
1 TTTTA
11861002 AATATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
21 6 0.25
22 1 0.04
23 10 0.42
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATATTTCTTATGAATTT
Found at i:11861014 original size:24 final size:21
Alignment explanation
Indices: 11860962--11861027 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 21
11860952 GAATTTTATA
11860962 TTTCTT-TAATTTTTTTATAAT
1 TTTCTTATAATTTTTTTA-AAT
11860983 TTTCTTATGAATTTTTTTAAAT
1 TTTCTTAT-AATTTTTTTAAAT
* *
11861005 ATATTTTTATATTTTTTATTAAA
1 -T-TTCTTATAATTTTT-TTAAA
11861028 ATTTAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.16
22 4 0.11
23 17 0.45
24 11 0.29
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTCTTATAATTTTTTTAAAT
Found at i:11872131 original size:29 final size:27
Alignment explanation
Indices: 11872099--11872172 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 27
11872089 TTTTAATCTA
11872099 AAAAGTAGAGGGACTAAATTCTTAAAAAT
1 AAAAGTA-A-GGACTAAATTCTTAAAAAT
11872128 AAAAGT-A-GACTAAATTCTTAAAAAT
1 AAAAGTAAGGACTAAATTCTTAAAAAT
11872153 AAAAGTACAGAGACTAAATT
1 AAAAGTA-AG-GACTAAATT
11872173 GCAAATTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
25 24 0.59
27 2 0.05
29 15 0.37
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (27 bp):
AAAAGTAAGGACTAAATTCTTAAAAAT
Found at i:11872138 original size:25 final size:25
Alignment explanation
Indices: 11872110--11872159 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11872100 AAAGTAGAGG
11872110 GACTAAATTCTTAAAAATAAAAGTA
1 GACTAAATTCTTAAAAATAAAAGTA
11872135 GACTAAATTCTTAAAAATAAAAGTA
1 GACTAAATTCTTAAAAATAAAAGTA
11872160 CAGAGACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (25 bp):
GACTAAATTCTTAAAAATAAAAGTA
Found at i:11877342 original size:38 final size:39
Alignment explanation
Indices: 11877289--11877370 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
11877279 TAATGTTGTC
* *
11877289 AATTATATGAATAAATAATGATATTATGAACAAGAAT-A
1 AATTATATGAATAAATAATGACACTATGAACAAGAATCA
** *
11877327 AATTATATGGCTAAATAATGACACTATGCACAAGAATCA
1 AATTATATGAATAAATAATGACACTATGAACAAGAATCA
11877366 AATTA
1 AATTA
11877371 GGTCAAATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 32 0.84
39 6 0.16
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (39 bp):
AATTATATGAATAAATAATGACACTATGAACAAGAATCA
Found at i:11878672 original size:39 final size:38
Alignment explanation
Indices: 11878613--11878711 Score: 126
Period size: 39 Copynumber: 2.6 Consensus size: 38
11878603 TAATTACCCG
* * * *
11878613 ATTATAATTACCATATTTATAATAATGTTTGATTGAAAA
1 ATTATAATTACAATAATTATAATAATATTTGATCG-AAA
* *
11878652 ATTACAATTACAATAATTATAATAATATTTGATCGTAA
1 ATTATAATTACAATAATTATAATAATATTTGATCGAAA
*
11878690 ATTATAATAACAATAATTATAA
1 ATTATAATTACAATAATTATAA
11878712 CAAGGATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 22 0.42
39 30 0.58
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (38 bp):
ATTATAATTACAATAATTATAATAATATTTGATCGAAA
Found at i:11880629 original size:24 final size:24
Alignment explanation
Indices: 11880549--11880849 Score: 185
Period size: 24 Copynumber: 12.5 Consensus size: 24
11880539 CAAGCTATGT
* *
11880549 AGCAAAAAATTATGCTAGTTGTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* * * * *
11880573 AGC-GAAAAATTTTGCAAACTCTAC
1 AGCAG-AAAATTATGCTAGCTGTGC
* *
11880597 AACAAAAAATTATGCTAGCTGTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* * * **
11880621 AGTAGAAAATTATGCGAACTGTAT
1 AGCAGAAAATTATGCTAGCTGTGC
* *
11880645 AGCAGAAAGTTATGCTAGCTGTGG
1 AGCAGAAAATTATGCTAGCTGTGC
* * *
11880669 AGTAGAAGATTATGCTAGCTCTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* * **
11880693 AACA-AAAATTGTG-TGAATTGTGC
1 AGCAGAAAATTATGCT-AGCTGTGC
* *
11880716 AACAGAAAATTATGCTAGCTGTGT
1 AGCAGAAAATTATGCTAGCTGTGC
* * * *
11880740 AGTAGAAAATTATGCAAGCTATAC
1 AGCAGAAAATTATGCTAGCTGTGC
* * **
11880764 AACAGAAAATTATGCTAGCTATAT
1 AGCAGAAAATTATGCTAGCTGTGC
* * * * *
11880788 AGAAAAAAAATTATGCGAGCTATAC
1 AG-CAGAAAATTATGCTAGCTGTGC
*
11880813 AGCAGAAAATTATGCTAGCTTTGC
1 AGCAGAAAATTATGCTAGCTGTGC
* *
11880837 AGTAGAAATTTAT
1 AGCAGAAAATTAT
11880850 CCGAACTGTA
Statistics
Matches: 206, Mismatches: 65, Indels: 12
0.73 0.23 0.04
Matches are distributed among these distances:
22 1 0.00
23 16 0.08
24 168 0.82
25 21 0.10
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (24 bp):
AGCAGAAAATTATGCTAGCTGTGC
Found at i:11880768 original size:48 final size:48
Alignment explanation
Indices: 11880715--11880875 Score: 189
Period size: 48 Copynumber: 3.3 Consensus size: 48
11880705 GTGAATTGTG
*
11880715 CAACAGAAAATTATGCTAGCTGTGTAGTAGAAAATTATGCAAGCTATA
1 CAACAGAAAATTATGCTAGCTATGTAGTAGAAAATTATGCAAGCTATA
* * * *
11880763 CAACAGAAAATTATGCTAGCTATATAGAAAAAAAATTATGCGAGCTATA
1 CAACAGAAAATTATGCTAGCTATGTAG-TAGAAAATTATGCAAGCTATA
* * * * * *
11880812 CAGCAGAAAATTATGCTAGCTTTGCAGTAGAAATTTATCCGAA-CTGTA
1 CAACAGAAAATTATGCTAGCTATGTAGTAGAAAATTATGC-AAGCTATA
*
11880860 CAACAAAAAATTATGC
1 CAACAGAAAATTATGC
11880876 GAGTTGGTGA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
48 52 0.55
49 42 0.45
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (48 bp):
CAACAGAAAATTATGCTAGCTATGTAGTAGAAAATTATGCAAGCTATA
Found at i:11880819 original size:49 final size:48
Alignment explanation
Indices: 11880715--11880832 Score: 173
Period size: 49 Copynumber: 2.4 Consensus size: 48
11880705 GTGAATTGTG
* * * *
11880715 CAACAGAAAATTATGCTAGCTGTGTAGTAGAAAATTATGCAAGCTATA
1 CAACAGAAAATTATGCTAGCTATATAGAAAAAAATTATGCAAGCTATA
*
11880763 CAACAGAAAATTATGCTAGCTATATAGAAAAAAAATTATGCGAGCTATA
1 CAACAGAAAATTATGCTAGCTATATAG-AAAAAAATTATGCAAGCTATA
*
11880812 CAGCAGAAAATTATGCTAGCT
1 CAACAGAAAATTATGCTAGCT
11880833 TTGCAGTAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 25 0.40
49 38 0.60
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (48 bp):
CAACAGAAAATTATGCTAGCTATATAGAAAAAAATTATGCAAGCTATA
Found at i:11881238 original size:54 final size:53
Alignment explanation
Indices: 11881163--11881369 Score: 173
Period size: 54 Copynumber: 3.8 Consensus size: 53
11881153 TCGGCATCAA
* * * * * *
11881163 CAAGATTCTAAAATCTTGTAAG-CGGTAGGTTGCGATTGTAAATCGATAAACTG
1 CAAGATTTTAAAATCTTGTAAGTAGG-AGGTTGCAATCGTAAATCAATAAACCG
*
11881216 TAAGATTTTAAAAATCTTGTAAGTAGGAGGTTGCAATCGTAAATCAATAAACCG
1 CAAGATTTT-AAAATCTTGTAAGTAGGAGGTTGCAATCGTAAATCAATAAACCG
* ** * * ** *
11881270 CGAGATTTTGAAAATCTCATAAGTAAGAGGTTGCGATCGTAAATCAGCAAATCG
1 CAAGATTTT-AAAATCTTGTAAGTAGGAGGTTGCAATCGTAAATCAATAAACCG
** * ** * *
11881324 TGAGATTCTAAAAATCTCATAAGTAGGAGTTTGCGATCGTAAATCA
1 CAAGATT-TTAAAATCTTGTAAGTAGGAGGTTGCAATCGTAAATCA
11881370 CAAATCGCGA
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
53 7 0.05
54 120 0.92
55 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (53 bp):
CAAGATTTTAAAATCTTGTAAGTAGGAGGTTGCAATCGTAAATCAATAAACCG
Found at i:11881399 original size:53 final size:53
Alignment explanation
Indices: 11881226--11881421 Score: 221
Period size: 54 Copynumber: 3.7 Consensus size: 53
11881216 TAAGATTTTA
** * * * *
11881226 AAAATCTTGTAAGTAGGAGGTTGCAATCGTAAATCAATAAACCGCGAGATTTTG
1 AAAATCTCATAAGTAGGAGGTTGCGATCGTAAATC-ACAAATCGCGAGATTCTG
* * *
11881280 AAAATCTCATAAGTAAGAGGTTGCGATCGTAAATCAGCAAATCGTGAGATTCTA
1 AAAATCTCATAAGTAGGAGGTTGCGATCGTAAATCA-CAAATCGCGAGATTCTG
* * *
11881334 AAAATCTCATAAGTAGGAGTTTGCGATCGTAAATCACAAATCGCGATATTCCG
1 AAAATCTCATAAGTAGGAGGTTGCGATCGTAAATCACAAATCGCGAGATTCTG
* * ** *
11881387 AAAATCTTATAAGTAAGAGGTCACGATCATAAATC
1 AAAATCTCATAAGTAGGAGGTTGCGATCGTAAATC
11881422 GGTGAATCGT
Statistics
Matches: 120, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
53 43 0.36
54 77 0.64
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (53 bp):
AAAATCTCATAAGTAGGAGGTTGCGATCGTAAATCACAAATCGCGAGATTCTG
Found at i:11881465 original size:107 final size:109
Alignment explanation
Indices: 11881215--11881475 Score: 280
Period size: 107 Copynumber: 2.4 Consensus size: 109
11881205 TCGATAAACT
* * * * **
11881215 GTAAGATTTTAAAAATCTTGTA-AGTAGGAGGTTGCAATCGTAAATCAATAAACCGCGAGATTTT
1 GTAAAATTCTAAAAATCTTGTATAGTAGGAGGTTGCGATCGTAAATCAACAAACCGCGAGATTCC
** *
11881279 GAAAATCTCATAAGTAAGAGGTTGCGATCGTAAATCAGCAAATC
66 GAAAATCTCATAAGTAAGAGGTCACGATCATAAATCAGCAAATC
* * ** * * *
11881323 GTGAGATTCTAAAAATCTCATA-AGTAGGAGTTTGCGATCGTAAATC-ACAAATCGCGATATTCC
1 GTAAAATTCTAAAAATCTTGTATAGTAGGAGGTTGCGATCGTAAATCAACAAACCGCGAGATTCC
* * **
11881386 GAAAATCTTATAAGTAAGAGGTCACGATCATAAATCGGTGAATC
66 GAAAATCTCATAAGTAAGAGGTCACGATCATAAATCAGCAAATC
* *
11881430 GTAAAATTCTGAAAATCTTGTATA-T-GAGAGGTTGCGATCATAAATC
1 GTAAAATTCTAAAAATCTTGTATAGTAG-GAGGTTGCGATCGTAAATC
11881476 CGTGAATCCA
Statistics
Matches: 126, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
106 1 0.01
107 84 0.67
108 41 0.33
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (109 bp):
GTAAAATTCTAAAAATCTTGTATAGTAGGAGGTTGCGATCGTAAATCAACAAACCGCGAGATTCC
GAAAATCTCATAAGTAAGAGGTCACGATCATAAATCAGCAAATC
Found at i:11890775 original size:68 final size:68
Alignment explanation
Indices: 11890673--11890803 Score: 154
Period size: 68 Copynumber: 1.9 Consensus size: 68
11890663 GGACTTCCTT
* * * * * *
11890673 TGTTGCCATAGCCCAATTATGGTTTTACATAATATGGTCCCATATTTACAGTTCTGGCGGACTCC
1 TGTTGCCATAGCCCAACTATAGTCTTACACAATATGATCCCATATTTACAGTCCTGGCGGACTCC
11890738 ATA
66 ATA
* * * * * *
11890741 TGTTGCCATAGCTCAGCTATAGTCTTACACAATATGATCTCATGTTTACTGTCCTGGTGGACT
1 TGTTGCCATAGCCCAACTATAGTCTTACACAATATGATCCCATATTTACAGTCCTGGCGGACT
11890804 TTCGATTCCG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (68 bp):
TGTTGCCATAGCCCAACTATAGTCTTACACAATATGATCCCATATTTACAGTCCTGGCGGACTCC
ATA
Found at i:11894085 original size:16 final size:16
Alignment explanation
Indices: 11894064--11894114 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
11894054 TAATCACATT
11894064 AATATTAAATTAATAA
1 AATATTAAATTAATAA
11894080 AATATT--ATCTAGAT-A
1 AATATTAAAT-TA-ATAA
11894095 AATATTAAATTAATAA
1 AATATTAAATTAATAA
11894111 AATA
1 AATA
11894115 CTATCTAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
14 2 0.07
15 11 0.37
16 15 0.50
17 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
AATATTAAATTAATAA
Found at i:11894099 original size:15 final size:15
Alignment explanation
Indices: 11894079--11894132 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
11894069 TAAATTAATA
11894079 AAATATTATCTAGAT
1 AAATATTATCTAGAT
11894094 AAATATTAAAT-TA-AT
1 AAATATT--ATCTAGAT
*
11894109 AAAATACTATCTAGAT
1 -AAATATTATCTAGAT
11894125 AAATATTA
1 AAATATTA
11894133 AATTAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 2 0.06
15 18 0.56
16 10 0.31
17 2 0.06
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (15 bp):
AAATATTATCTAGAT
Found at i:11894099 original size:31 final size:31
Alignment explanation
Indices: 11894064--11894138 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
11894054 TAATCACATT
*
11894064 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATACTATCTAGATA
11894095 AATATTAAATTAATAAAATACTATCTAGATA
1 AATATTAAATTAATAAAATACTATCTAGATA
11894126 AATATTAAATTAA
1 AATATTAAATTAA
11894139 ATTTAATATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (31 bp):
AATATTAAATTAATAAAATACTATCTAGATA
Found at i:11894180 original size:23 final size:22
Alignment explanation
Indices: 11894120--11894182 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 22
11894110 AAATACTATC
* *
11894120 TAGATAAATATTAAATTAAATT
1 TAGATAAATCTTAAATTAAATA
**
11894142 TA-AT--ATCTTATTTTAATATA
1 TAGATAAATCTTAAATTAA-ATA
11894162 TAGATAAATCTTAAATTAAAT
1 TAGATAAATCTTAAATTAAAT
11894183 TAAATATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
19 9 0.29
20 4 0.13
21 4 0.13
22 4 0.13
23 10 0.32
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (22 bp):
TAGATAAATCTTAAATTAAATA
Found at i:11904988 original size:26 final size:26
Alignment explanation
Indices: 11904941--11904991 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
11904931 ATACATGTAA
11904941 AAAAAATAATTACATATGAAAATTAT
1 AAAAAATAATTACATATGAAAATTAT
*
11904967 AAAAAA-AATTACATTATTAAAATTA
1 AAAAAATAATTACA-TATGAAAATTA
11904992 ATTAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAAAATAATTACATATGAAAATTAT
Found at i:11906104 original size:14 final size:14
Alignment explanation
Indices: 11906085--11906112 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11906075 GGTTTCTGAT
11906085 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
11906099 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
11906113 CCGTCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTGTTTTGGGCCA
Found at i:11906596 original size:44 final size:44
Alignment explanation
Indices: 11906494--11906830 Score: 221
Period size: 44 Copynumber: 7.7 Consensus size: 44
11906484 CGGCTTTAAC
* * * *
11906494 CTGCTCCACTACAACTTCAGGGAGATAGGATTTGC-CATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AGT
*
11906539 CTGC-CTCACTGCAACTTCAGGAAGATAAGACTTGCTTACTTAGT
1 CTGCTC-CACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGT
* ** * * *
11906583 CTGCTCCACTGCAACTTTAGGGAGATAAGACCAG-ATGC-GA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGT
* * * * *
11906624 CTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTG-TGATTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCTTACTTAGT
** * * * *** ** *
11906666 CCACTCCACTGTAACTTTAGGGAGATAAGA-TTATCGGCCCCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTACTTAGT
* *
11906710 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC-CATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AGT
* *
11906755 CTAC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTTCTTAGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGT
*
11906799 CTGCTCCACTGCAACTTTAGGGAGATAAGACT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT
11906831 AGATGCGATC
Statistics
Matches: 225, Mismatches: 50, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
40 22 0.10
41 7 0.03
42 6 0.03
43 23 0.10
44 95 0.42
45 71 0.32
46 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGT
Found at i:11906749 original size:216 final size:216
Alignment explanation
Indices: 11906372--11906960 Score: 916
Period size: 216 Copynumber: 2.7 Consensus size: 216
11906362 CTTCAATCTA
* * *
11906372 CTCCTCTGCAACTTCAGGGAGATAAGA-C--TTGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTTAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * ** ** *
11906434 GATCCAAG-GTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGC
66 GAT-C-TGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGC
* * *
11906498 TCCACTACAACTTCAGGGAGATAGGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAAG
129 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAAG
11906563 ATAAGACTTGCTTACTTAGTCTG
194 ATAAGACTTGCTTACTTAGTCTG
11906586 CTCCACTGCAACTTTAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTTAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* * * *
11906651 GATCTGTGATTTAATCCACTCCACTGTAACTTTAGGGAGATAAGATTATCGGCCCCAATCTGCTC
66 GATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGCTC
*
11906716 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGAT
131 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAAGAT
*
11906781 AAGACTTGCTTTCTTAGTCTG
196 AAGACTTGCTTACTTAGTCTG
* *
11906802 CTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAA
1 CTCCACTGCAACTTTAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
* *
11906867 GATCTGTGATTTAATCCACTCCATTGCAACTTCAGGGAGATAGGATTATTGGCTCCAATCTGCTC
66 GATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGCTC
*
11906932 CACTGCAACTTTAGGGAGATAAGATTTGC
131 CACTGCAACTTCAGGGAGATAAGATTTGC
11906961 TGGCTACCGA
Statistics
Matches: 343, Mismatches: 28, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
214 25 0.07
215 2 0.01
216 280 0.82
217 36 0.10
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (216 bp):
CTCCACTGCAACTTTAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
GATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCCAATCTGCTC
CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAAGAT
AAGACTTGCTTACTTAGTCTG
Found at i:11914801 original size:24 final size:24
Alignment explanation
Indices: 11914773--11914818 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11914763 ATCATTTTTT
*
11914773 GCTGCTCATTCATTTGCTTTTGAC
1 GCTGCTCATGCATTTGCTTTTGAC
* *
11914797 GCTGCTCCTGCATTTTCTTTTG
1 GCTGCTCATGCATTTGCTTTTG
11914819 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.26, G:0.17, T:0.48
Consensus pattern (24 bp):
GCTGCTCATGCATTTGCTTTTGAC
Found at i:11918036 original size:18 final size:17
Alignment explanation
Indices: 11917995--11918049 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 17
11917985 TAGATTATAA
11917995 AAAATAATTACA-TA-T
1 AAAATAATTACATTATT
*
11918010 AAAAAAATTACATTATT
1 AAAATAATTACATTATT
11918027 AAAATTAATTA-ATT-TT
1 AAAA-TAATTACATTATT
*
11918043 AAGATAA
1 AAAATAA
11918050 ATAAAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 14 0.41
16 7 0.21
17 8 0.24
18 5 0.15
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAATAATTACATTATT
Found at i:11919152 original size:14 final size:14
Alignment explanation
Indices: 11919133--11919160 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11919123 GGTTTTTGAT
11919133 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
11919147 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
11919161 CCGTCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTGTTTTGGGCCA
Found at i:11941073 original size:18 final size:17
Alignment explanation
Indices: 11941047--11941085 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11941037 ATTTTCCTTC
11941047 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
11941064 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
11941082 CACA
1 CACA
11941086 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:11948073 original size:23 final size:23
Alignment explanation
Indices: 11948047--11948141 Score: 117
Period size: 23 Copynumber: 4.3 Consensus size: 23
11948037 ATAAGTGCCA
11948047 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
* *
11948070 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
*
11948093 CACTGATATGT-GCT---TCTAC
1 CACTGATATGTAGCTGAAGCTAC
* *
11948112 CACTGAAATGTAGCAGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
11948135 CACTGAT
1 CACTGAT
11948142 CAATAACACT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
19 14 0.23
20 2 0.03
22 2 0.03
23 42 0.70
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (23 bp):
CACTGATATGTAGCTGAAGCTAC
Found at i:11948379 original size:18 final size:17
Alignment explanation
Indices: 11948353--11948391 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11948343 ATTTTCCTTC
11948353 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
11948370 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
11948388 CACA
1 CACA
11948392 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:11952012 original size:22 final size:24
Alignment explanation
Indices: 11951984--11952029 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
11951974 TTTGAAAGGT
*
11951984 TTTTTC-TTTCTTGGTTT-TTTTC
1 TTTTTCTTTTCTCGGTTTCTTTTC
11952006 TTTTTCTTTTCTCGGTTTCTTTTC
1 TTTTTCTTTTCTCGGTTTCTTTTC
11952030 ATTTCTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 10 0.48
24 5 0.24
ACGTcount: A:0.00, C:0.17, G:0.09, T:0.74
Consensus pattern (24 bp):
TTTTTCTTTTCTCGGTTTCTTTTC
Found at i:11952034 original size:23 final size:23
Alignment explanation
Indices: 11951986--11952035 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
11951976 TGAAAGGTTT
* *
11951986 TTTC-TTTCTTGGTTTTTTTCTT
1 TTTCTTTTCTCGGTTTTTTTCTA
11952008 TTTCTTTTCTCGGTTTCTTTTC-A
1 TTTCTTTTCTCGGTTT-TTTTCTA
11952031 TTTCT
1 TTTCT
11952036 ATTTTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 15 0.62
24 5 0.21
ACGTcount: A:0.02, C:0.18, G:0.08, T:0.72
Consensus pattern (23 bp):
TTTCTTTTCTCGGTTTTTTTCTA
Found at i:11958965 original size:6 final size:7
Alignment explanation
Indices: 11958927--11958970 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
11958917 TTCGAGTCAA
11958927 AAAAAGTG
1 AAAAA-TG
11958935 AAAAATG
1 AAAAATG
11958942 AAAAA-G
1 AAAAATG
11958948 AGAAAATG
1 A-AAAATG
*
11958956 AAAAATA
1 AAAAATG
11958963 AAAAATG
1 AAAAATG
11958970 A
1 A
11958971 TGGAGAGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.06
7 23 0.72
8 7 0.22
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:11959478 original size:10 final size:10
Alignment explanation
Indices: 11959463--11959525 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
11959453 TTTAGAATAC
11959463 TTTTTTTAAA
1 TTTTTTTAAA
11959473 TTTTTTT-AA
1 TTTTTTTAAA
*
11959482 --TTTTAAAA
1 TTTTTTTAAA
*
11959490 TATTTTTAAAA
1 T-TTTTTTAAA
*
11959501 TACTTTTTAAA
1 T-TTTTTTAAA
*
11959512 TTTTTTTTAA
1 TTTTTTTAAA
11959522 TTTT
1 TTTT
11959526 AAAATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 4 0.09
8 2 0.05
9 2 0.05
10 18 0.41
11 18 0.41
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:11959479 original size:41 final size:41
Alignment explanation
Indices: 11959442--11959557 Score: 184
Period size: 40 Copynumber: 2.9 Consensus size: 41
11959432 TTTTTTTAAT
* *
11959442 TTTAAAATACTTTTAGAATACTTTTTTTAAATTTTTTTAAT
1 TTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTTAAT
11959483 TTTAAAATATTTTTAAAATAC--TTTTTAAATTTTTTTTAAT
1 TTTAAAATATTTTTAAAATACTTTTTTTAAA-TTTTTTTAAT
11959523 TTTAAAATATTTTTAAAATACTTTTTTT-AATTTTT
1 TTTAAAATATTTTTAAAATACTTTTTTTAAATTTTT
11959558 AAAATAAATT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
39 8 0.11
40 36 0.51
41 21 0.30
42 5 0.07
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (41 bp):
TTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTTAAT
Found at i:11959536 original size:11 final size:11
Alignment explanation
Indices: 11959482--11959548 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
11959472 ATTTTTTTAA
11959482 TTTTAAAATAT
1 TTTTAAAATAT
11959493 TTTTAAAATACT
1 TTTTAAAATA-T
11959505 TTTT-AAAT-T
1 TTTTAAAATAT
* *
11959514 TTTT---TTAA
1 TTTTAAAATAT
11959522 TTTTAAAATAT
1 TTTTAAAATAT
11959533 TTTTAAAATACT
1 TTTTAAAATA-T
11959545 TTTT
1 TTTT
11959549 TTAATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
9 5 0.11
11 26 0.57
12 10 0.22
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:11959569 original size:21 final size:21
Alignment explanation
Indices: 11959531--11959570 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11959521 ATTTTAAAAT
**
11959531 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
11959552 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
11959571 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:11959577 original size:22 final size:21
Alignment explanation
Indices: 11959530--11959588 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
11959520 AATTTTAAAA
* *
11959530 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
11959550 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
11959573 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
11959589 GGGCCAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:11960775 original size:129 final size:129
Alignment explanation
Indices: 11960534--11960825 Score: 444
Period size: 129 Copynumber: 2.3 Consensus size: 129
11960524 GTTCCCCAGA
* * * * *
11960534 GAATAGATCTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCG
1 GAATAGAT-TGGGAAATTATAGATCTTGTCTCCCTAAGCAATAGCGGAGCAAATCGAAGACAGCA
*
11960599 AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTG
65 AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGCCCTATATCCCTGATCAGCAGTG
* *
11960664 GAATAGGTTGGGAAATTATAGATCTTGTCTCCCTAAGCAATAGCGGAGCAAATCGAAGACAGTAA
1 GAATAGATTGGGAAATTATAGATCTTGTCTCCCTAAGCAATAGCGGAGCAAATCGAAGACAGCAA
* *
11960729 ATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGCCCTATATCCCTGGTCAGCAGTG
66 ATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGCCCTATATCCCTGATCAGCAGTG
* *
11960793 GAATAGATT--GAAGATTTTAGATCTTATCTCCCT
1 GAATAGATTGGGAA-ATTATAGATCTTGTCTCCCT
11960826 GAGGTTACAG
Statistics
Matches: 148, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
127 3 0.02
128 18 0.12
129 120 0.81
130 7 0.05
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (129 bp):
GAATAGATTGGGAAATTATAGATCTTGTCTCCCTAAGCAATAGCGGAGCAAATCGAAGACAGCAA
ATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGCCCTATATCCCTGATCAGCAGTG
Found at i:11961124 original size:44 final size:43
Alignment explanation
Indices: 11960812--11961187 Score: 171
Period size: 44 Copynumber: 8.7 Consensus size: 43
11960802 GAAGATTTTA
* * ** ***
11960812 GATCTTATCTCCCTGAGGTTACAGTGGAGCATATCGAAGCCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
* * * * *
11960855 TAGTCCTATTTCCCTGACATTACAGTGGAGCGGATTAAAATAAAG
1 GA-TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAG
* * * * * * *
11960900 GATCTTATCTCTCTGAAATTACAGTAGAGTAGA-TCACATCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
** * *
11960942 G-TCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAG
* * * *
11960987 GATCTTATCTCCCTAAGA--AGTAGTGGAGCTA-ATCGAAAAT-GG
1 GATCTTATCTCCCTGAGATTA-CAGTGGAGC-AGAT-TAAAATAAG
* **
11961029 TGAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AG
1 -G-ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * *
11961074 TAATCTTATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAG
* * * * *** *
11961119 GATCTTGTCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAG
11961161 G-TCTTATCTCCCTGAGATTACAGTGGA
1 GATCTTATCTCCCTGAGATTACAGTGGA
11961188 ATAAACCGAA
Statistics
Matches: 249, Mismatches: 62, Indels: 46
0.70 0.17 0.13
Matches are distributed among these distances:
41 48 0.19
42 8 0.03
43 14 0.06
44 129 0.52
45 30 0.12
46 20 0.08
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
Found at i:11961201 original size:219 final size:219
Alignment explanation
Indices: 11960813--11961215 Score: 680
Period size: 219 Copynumber: 1.8 Consensus size: 219
11960803 AAGATTTTAG
* * * *
11960813 ATCTTATCTCCCTGAGGTTACAGTGGAGCATATCGAAGCCAGTAGTCCTATTTCCCTGACATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCCAGTAATCCTATTTCCCTGACATTAC
11960878 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCACATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCACATCAGG
* * *
11960943 TCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTCAGATCTTATCTCCCTAAGAAGT
131 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATTACAGATCTTATCTCCCTAAGAAGT
11961008 AGTGGAGCTAATCGAAAATGGTGA
196 AGTGGAGCTAATCGAAAATGGTGA
* * * *
11961032 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCCAGTAATCCTATTTCCCTGACATTAC
* * *
11961097 AGTGGAGCGGATTAAAATAAAGGATCTTGTCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCACATCAGG
11961162 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATTACAGATCTTATCT
131 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATTACAGATCTTATCT
11961216 TCCCAGGCGG
Statistics
Matches: 170, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
219 170 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (219 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCCAGTAATCCTATTTCCCTGACATTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCACATCAGG
TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATTACAGATCTTATCTCCCTAAGAAGT
AGTGGAGCTAATCGAAAATGGTGA
Found at i:11961387 original size:100 final size:101
Alignment explanation
Indices: 11961207--11961401 Score: 275
Period size: 100 Copynumber: 1.9 Consensus size: 101
11961197 AGAATTACAG
* * * * ** *
11961207 ATCTTATCTTCCCAGGCGGTGTAGTGGAACATATTAAAGCCACAACGGCGAATCTTGTTTTCCCG
1 ATCTTATCTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATACTTCCCCG
*
11961272 AAAATGCAGTTAAAAAGATTAAAGCTACAACAGCGA
66 AAAATGCAGTTAAAAAGATTAAAGCCACAACAGCGA
* *
11961308 ATCTTA-CTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGTGAATCATACTTCCCCG
1 ATCTTATCTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATACTTCCCCG
* *
11961372 ACATTGCAGTTAAAAAGATTAAAGCCACAA
66 AAAATGCAGTTAAAAAGATTAAAGCCACAA
11961402 TGGCAAATCC
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 76 0.93
101 6 0.07
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (101 bp):
ATCTTATCTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATACTTCCCCG
AAAATGCAGTTAAAAAGATTAAAGCCACAACAGCGA
Found at i:11961416 original size:50 final size:50
Alignment explanation
Indices: 11961239--11961401 Score: 173
Period size: 50 Copynumber: 3.3 Consensus size: 50
11961229 AGTGGAACAT
* ** * *
11961239 ATTAAAGCCACAACGGCGAATCTTGTTTTCCCGAAAATGCAGTTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACAATGCAGTTAAAAAG
* ** * ** ** *
11961289 ATTAAAGCTACAACAGCGAATCTTACTTCCTAGGCGGTGCAGTGGAACAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACAATGCAGTTAAAAAG
* * *
11961339 ATTAAAGCCACAACAGTGAATCATACTTCCCCGACATTGCAGTTAAAAAG
1 ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACAATGCAGTTAAAAAG
11961389 ATTAAAGCCACAA
1 ATTAAAGCCACAA
11961402 TGGCAAATCC
Statistics
Matches: 88, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (50 bp):
ATTAAAGCCACAACAGCGAATCTTACTTCCCCGACAATGCAGTTAAAAAG
Found at i:11961960 original size:22 final size:21
Alignment explanation
Indices: 11961935--11961981 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
11961925 TCCAGCTGGA
*
11961935 CTCCTCCATACGCGCACGCCTT
1 CTCCTCCATACGAGCACG-CTT
* *
11961957 CTCCTCCGTATGAGCACGCTT
1 CTCCTCCATACGAGCACGCTT
11961978 CTCC
1 CTCC
11961982 CCACGTACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.13, C:0.47, G:0.15, T:0.26
Consensus pattern (21 bp):
CTCCTCCATACGAGCACGCTT
Found at i:11962288 original size:17 final size:17
Alignment explanation
Indices: 11962266--11962298 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11962256 GTGATTTGCA
11962266 GTTTTTT-TTCTTTCTTG
1 GTTTTTTCTT-TTTCTTG
11962283 GTTTTTTCTTTTTCTT
1 GTTTTTTCTTTTTCTT
11962299 TTCTCGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (17 bp):
GTTTTTTCTTTTTCTTG
Found at i:11963625 original size:16 final size:15
Alignment explanation
Indices: 11963606--11963649 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
11963596 ATTTTGCTTA
11963606 ATATATATTATTATGT
1 ATATATATTATTAT-T
*
11963622 ATATATATTATCATT
1 ATATATATTATTATT
11963637 -TATACTATTATTA
1 ATATA-TATTATTA
11963650 ATTTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.16
15 8 0.32
16 13 0.52
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (15 bp):
ATATATATTATTATT
Found at i:11965872 original size:32 final size:33
Alignment explanation
Indices: 11965805--11965876 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
11965795 TAGAAAAATT
* * *
11965805 AATATTTTCTGGTGTTTGGATAAATTTGTGTAA
1 AATATTTTCTAGTGTTTGGACAAATTTCTGTAA
*
11965838 AATATTTTCTATTGTTTGG-CAAATTTCT-TAAA
1 AATATTTTCTAGTGTTTGGACAAATTTCTGT-AA
11965870 AATATTT
1 AATATTT
11965877 CATAAAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.03
32 16 0.47
33 17 0.50
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.50
Consensus pattern (33 bp):
AATATTTTCTAGTGTTTGGACAAATTTCTGTAA
Found at i:11966537 original size:56 final size:55
Alignment explanation
Indices: 11966475--11966586 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 55
11966465 AATAAGTAAA
11966475 GATTTTAACATGAATGTCTAACTAGAAAAAGAACCAAGTAGCAAAACACAACATAT
1 GATTTTAACATGAATGTCTAACTAGAAAAAGAACCAAGTAGC-AAACACAACATAT
* *
11966531 GATTTTAACATGAATGTCTAACTAGAAAAAGAACCATGTAGCGAACACAACATAT
1 GATTTTAACATGAATGTCTAACTAGAAAAAGAACCAAGTAGCAAACACAACATAT
11966586 G
1 G
11966587 TAATATAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
55 13 0.24
56 41 0.76
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.22
Consensus pattern (55 bp):
GATTTTAACATGAATGTCTAACTAGAAAAAGAACCAAGTAGCAAACACAACATAT
Found at i:11968570 original size:18 final size:18
Alignment explanation
Indices: 11968547--11968603 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
11968537 TTATTATTAA
11968547 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
11968565 ATATAATTTAAT-AGAAT
1 ATATAATTTAATAAAAAT
* *
11968582 ATATGAATTTACTAAAATT
1 ATAT-AATTTAATAAAAAT
11968601 ATA
1 ATA
11968604 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 8 0.24
18 19 0.58
19 6 0.18
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:11971695 original size:6 final size:6
Alignment explanation
Indices: 11971684--11971721 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
11971674 TTTGCAACCC
*
11971684 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
11971722 GAAGAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:11971707 original size:18 final size:18
Alignment explanation
Indices: 11971684--11971719 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11971674 TTTGCAACCC
11971684 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
11971702 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
11971720 GAGAAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:11971728 original size:18 final size:18
Alignment explanation
Indices: 11971689--11971730 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11971679 AACCCAAGGG
**
11971689 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
11971707 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
11971725 GAAGGG
1 GAAGGG
11971731 TAACCAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:11980339 original size:159 final size:159
Alignment explanation
Indices: 11980134--11980443 Score: 491
Period size: 159 Copynumber: 1.9 Consensus size: 159
11980124 TAATTTTTTT
11980134 AAAAAAAAAAGAAAGTTTAGATTTTAAAAATAAAAATATATATTTTTTAGTCATCTTAAAGGAAA
1 AAAAAAAAAAGAAAGTTTAGATTTTAAAAATAAAAATATATATTTTTTAGTCATCTTAAAGGAAA
*
11980199 -GTTTAAAATTTTAAAACAAAGTTTTG-ATTCTTTTCAACTATTTCGAAATAAAAGCTTTGATCT
66 GGTTTAAAATTTTAAAACAAAGTTTTGAACT-TTTTCAACTATTTCGAAATAAAA-CTTTGATCT
11980262 TTAAGAAAAGTAGTGATTTTTTTAAAAAAAG
129 TTAAGAAAAGTAGTGATTTTTTTAAAAAAAG
* * * * *
11980293 AAAAGAAAGAGAAAGTTTAGATTTTTAAGAATAAAAATCTAT-TTTTTTAGTCATTTTAAAGGAA
1 AAAAAAAAAAGAAAGTTTAGA-TTTTAAAAATAAAAATATATATTTTTTAGTCATCTTAAAGGAA
* *
11980357 AGGTTTAAAATTTTAAAACAAAGTTTTTAACTTTTTCAACTATTTCGAAATTAAACTTTGATCTT
65 AGGTTTAAAATTTTAAAACAAAGTTTTGAACTTTTTCAACTATTTCGAAATAAAACTTTGATCTT
*
11980422 TAAGAAAATTAGTGATTTTTTT
130 TAAGAAAAGTAGTGATTTTTTT
11980444 GGAAAAGAAA
Statistics
Matches: 139, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
159 72 0.52
160 65 0.47
161 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (159 bp):
AAAAAAAAAAGAAAGTTTAGATTTTAAAAATAAAAATATATATTTTTTAGTCATCTTAAAGGAAA
GGTTTAAAATTTTAAAACAAAGTTTTGAACTTTTTCAACTATTTCGAAATAAAACTTTGATCTTT
AAGAAAAGTAGTGATTTTTTTAAAAAAAG
Found at i:11980575 original size:12 final size:12
Alignment explanation
Indices: 11980558--11980582 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11980548 TGGCCAACAT
11980558 AAAAGGAGGAAG
1 AAAAGGAGGAAG
11980570 AAAAGGAGGAAG
1 AAAAGGAGGAAG
11980582 A
1 A
11980583 GTTTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
AAAAGGAGGAAG
Found at i:11986638 original size:17 final size:17
Alignment explanation
Indices: 11986608--11986641 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11986598 GCTTGTGAAT
11986608 CAGCCGTGTAAGGCACA
1 CAGCCGTGTAAGGCACA
* *
11986625 CAGCCTTGTGAGGCACA
1 CAGCCGTGTAAGGCACA
11986642 TAATTGTGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.15
Consensus pattern (17 bp):
CAGCCGTGTAAGGCACA
Found at i:11988350 original size:7 final size:7
Alignment explanation
Indices: 11988340--11988366 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11988330 TTGATTTTTG
11988340 ATTTATA
1 ATTTATA
11988347 ATTTATA
1 ATTTATA
11988354 ATTTATA
1 ATTTATA
11988361 ATTTAT
1 ATTTAT
11988367 TTATGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTTATA
Found at i:11988961 original size:28 final size:28
Alignment explanation
Indices: 11988921--11988979 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
11988911 CGAGAAGTAA
11988921 GATTCACTCTCAAAGTTTACTTTTTGAT
1 GATTCACTCTCAAAGTTTACTTTTTGAT
*
11988949 GATTCACTCTCAAAGTTTGCTTTTTGAT
1 GATTCACTCTCAAAGTTTACTTTTTGAT
11988977 GAT
1 GAT
11988980 CTATTTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.46
Consensus pattern (28 bp):
GATTCACTCTCAAAGTTTACTTTTTGAT
Found at i:12016842 original size:7 final size:7
Alignment explanation
Indices: 12016830--12016863 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
12016820 GGGGAGGATG
12016830 ATGAAAA
1 ATGAAAA
12016837 ATG-AAA
1 ATGAAAA
12016843 ATGAAAA
1 ATGAAAA
12016850 ATGAAAAA
1 ATG-AAAA
12016858 ATGAAA
1 ATGAAA
12016864 GAGTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:12016872 original size:15 final size:15
Alignment explanation
Indices: 12016830--12016863 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
12016820 GGGGAGGATG
12016830 ATGAAAAATG--AAA
1 ATGAAAAATGAAAAA
12016843 ATGAAAAATGAAAAA
1 ATGAAAAATGAAAAA
12016858 ATGAAA
1 ATGAAA
12016864 GAGTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
15 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (15 bp):
ATGAAAAATGAAAAA
Found at i:12023124 original size:18 final size:18
Alignment explanation
Indices: 12023103--12023142 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
12023093 AAGAAGTGAT
12023103 TGAAGATGGTTATGATGA
1 TGAAGATGGTTATGATGA
12023121 TGAAGATGGTTATGATGA
1 TGAAGATGGTTATGATGA
12023139 TGAA
1 TGAA
12023143 CCTGTTCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (18 bp):
TGAAGATGGTTATGATGA
Done.