Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 24 of 228
Found at i:7679977 original size:15 final size:14
Alignment explanation
Indices: 7679958--7679997 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
7679948 TTAACCTTTA
*
7679958 ATTAATTATAATTT
1 ATTAATTAAAATTT
7679972 ACTTAATTAAAATTT
1 A-TTAATTAAAATTT
7679987 GATTAATTAAA
1 -ATTAATTAAA
7679998 CATGAATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (14 bp):
ATTAATTAAAATTT
Found at i:7681489 original size:881 final size:881
Alignment explanation
Indices: 7680302--7682066 Score: 3494
Period size: 881 Copynumber: 2.0 Consensus size: 881
7680292 GAGCACTGAA
7680302 ATGAGAAAGGCTTGTAGACTCGTGATGTTGAATGACACATTCGAAAACTAAAGCGCACACTAAAA
1 ATGAGAAAGGCTTGTAGACTCGTGATGTTGAATGACACATTCGAAAACTAAAGCGCACACTAAAA
7680367 AATGCTTCGAAAGGTGTCAGTAGGTGCGCGGAGCCGAAGCCCTGCATGTTCGCCTGCTGGGCCCT
66 AATGCTTCGAAAGGTGTCAGTAGGTGCGCGGAGCCGAAGCCCTGCATGTTCGCCTGCTGGGCCCT
*
7680432 GTGTTCGCCCACTTCAGAGTCTTCGCCTTTAGATAACAAAAAGTGTTCGCCCAGGTTGCCAAACT
131 CTGTTCGCCCACTTCAGAGTCTTCGCCTTTAGATAACAAAAAGTGTTCGCCCAGGTTGCCAAACT
7680497 ACGACGAGATTTTTGCCACTAAAAAACGAGTTGTTATAGCATAAACATCCAATAAACTAGTAGGG
196 ACGACGAGATTTTTGCCACTAAAAAACGAGTTGTTATAGCATAAACATCCAATAAACTAGTAGGG
7680562 ATTAAGAATAAAACCAAGTGCAACAACAACCAACTTCAAGTTTGAAAACAATATATGCACAAAGT
261 ATTAAGAATAAAACCAAGTGCAACAACAACCAACTTCAAGTTTGAAAACAATATATGCACAAAGT
7680627 GACTGCATAAAAAATCTGGAACTGATCAGTAAGAGCAACGATCAAAAACCAAATTAGTATCATAT
326 GACTGCATAAAAAATCTGGAACTGATCAGTAAGAGCAACGATCAAAAACCAAATTAGTATCATAT
*
7680692 TTTGTTGATATCATCTTCTCTCCGTGCCAGTTCATAATCTTACTCTATTTTCAAACGAGTCTCTC
391 TTTGTTGATATCATCTTCTCTCCGTGCCAGTTCATAATCTTACTCTATTTTCAAACGAGTCTCCC
7680757 GATCAATATGTTTGTTCATCCCATTGTCCATCAAGCGTACACACATTCTTAAAATTAATTTCAAG
456 GATCAATATGTTTGTTCATCCCATTGTCCATCAAGCGTACACACATTCTTAAAATTAATTTCAAG
7680822 AGATATAGAGCATGACAAATAAGTTGAACATAAATCATATAGTATCTAACAAAAACAACATTAAG
521 AGATATAGAGCATGACAAATAAGTTGAACATAAATCATATAGTATCTAACAAAAACAACATTAAG
7680887 TTGCATAAAGAGATCACCATATAAAGAATAAATCAACATCTACCATTTGCTTTGCCAGGTTGACT
586 TTGCATAAAGAGATCACCATATAAAGAATAAATCAACATCTACCATTTGCTTTGCCAGGTTGACT
7680952 CCTTTGACAAAGCATAAACCAACAGCTATCAATATTACCCATGTCAATTTAATACAATTTTTGTC
651 CCTTTGACAAAGCATAAACCAACAGCTATCAATATTACCCATGTCAATTTAATACAATTTTTGTC
7681017 ATATTTCCTTAGCCCTACAACATCGACTACAAGAGACTCCTCATCTAAATTTTTTATTGGACTTT
716 ATATTTCCTTAGCCCTACAACATCGACTACAAGAGACTCCTCATCTAAATTTTTTATTGGACTTT
*
7681082 ATTCAACACTAGAATTCCTTTTTGTTGCTTTCTTCACTCTCACCATACTTGTCAAATTGTTTTCA
781 ATTCAACACTAGAATTCCTTTTTGTTGCTTTCTTCACCCTCACCATACTTGTCAAATTGTTTTCA
7681147 TAAATTTATCACATCATACAAAACATAACTTTCAAT
846 TAAATTTATCACATCATACAAAACATAACTTTCAAT
7681183 ATGAGAAAGGCTTGTAGACTCGTGATGTTGAATGACACATTCGAAAACTAAAGCGCACACTAAAA
1 ATGAGAAAGGCTTGTAGACTCGTGATGTTGAATGACACATTCGAAAACTAAAGCGCACACTAAAA
7681248 AATGCTTCGAAAGGTGTCAGTAGGTGCGCGGAGCCGAAGCCCTGCATGTTCGCCTGCTGGGCCCT
66 AATGCTTCGAAAGGTGTCAGTAGGTGCGCGGAGCCGAAGCCCTGCATGTTCGCCTGCTGGGCCCT
7681313 CTGTTCGCCCACTTCAGAGTCTTCGCCTTTAGATAACAAAAAGTGTTCGCCCAGGTTGCCAAACT
131 CTGTTCGCCCACTTCAGAGTCTTCGCCTTTAGATAACAAAAAGTGTTCGCCCAGGTTGCCAAACT
7681378 ACGACGAGATTTTTGCCACTAAAAAACGAGTTGTTATAGCATAAACATCCAATAAACTAGTAGGG
196 ACGACGAGATTTTTGCCACTAAAAAACGAGTTGTTATAGCATAAACATCCAATAAACTAGTAGGG
7681443 ATTAAGAATAAAACCAAGTGCAACAACAACCAACTTCAAGTTTGAAAACAATATATGCACAAAGT
261 ATTAAGAATAAAACCAAGTGCAACAACAACCAACTTCAAGTTTGAAAACAATATATGCACAAAGT
*
7681508 GACTGCATAAAAAATCTGGAACTGATTAGTAAGAGCAACGATCAAAAACCAAATTAGTATCATAT
326 GACTGCATAAAAAATCTGGAACTGATCAGTAAGAGCAACGATCAAAAACCAAATTAGTATCATAT
7681573 TTTGTTGATATCATCTTCTCTCCGTGCCAGTTCATAATCTTACTCTATTTTCAAACGAGTCTCCC
391 TTTGTTGATATCATCTTCTCTCCGTGCCAGTTCATAATCTTACTCTATTTTCAAACGAGTCTCCC
7681638 GATCAATATGTTTGTTCATCCCATTGTCCATCAAGCGTACACACATTCTTAAAATTAATTTCAAG
456 GATCAATATGTTTGTTCATCCCATTGTCCATCAAGCGTACACACATTCTTAAAATTAATTTCAAG
7681703 AGATATAGAGCATGACAAATAAGTTGAACATAAATCATATAGTATCTAACAAAAACAACATTAAG
521 AGATATAGAGCATGACAAATAAGTTGAACATAAATCATATAGTATCTAACAAAAACAACATTAAG
7681768 TTGCATAAAGAGATCACCATATAAAGAATAAATCAACATCTACCATTTGCTTTGCCAGGTTGACT
586 TTGCATAAAGAGATCACCATATAAAGAATAAATCAACATCTACCATTTGCTTTGCCAGGTTGACT
7681833 CCTTTGACAAAGCATAAACCAACAGCTATCAATATTACCCATGTCAATTTAATACAATTTTTGTC
651 CCTTTGACAAAGCATAAACCAACAGCTATCAATATTACCCATGTCAATTTAATACAATTTTTGTC
7681898 ATATTTCCTTAGCCCTACAACATCGACTACAAGAGACTCCTCATCTAAATTTTTTATTGGACTTT
716 ATATTTCCTTAGCCCTACAACATCGACTACAAGAGACTCCTCATCTAAATTTTTTATTGGACTTT
7681963 ATTCAACACTAGAATTCCTTTTTGTTGCTTTCTTCACCCTCACCATACTTGTCAAATTGTTTTCA
781 ATTCAACACTAGAATTCCTTTTTGTTGCTTTCTTCACCCTCACCATACTTGTCAAATTGTTTTCA
7682028 TAAATTTATCACATCATACAAAACATAACTTTCAAT
846 TAAATTTATCACATCATACAAAACATAACTTTCAAT
7682064 ATG
1 ATG
7682067 GTGTGCCCTC
Statistics
Matches: 880, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
881 880 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (881 bp):
ATGAGAAAGGCTTGTAGACTCGTGATGTTGAATGACACATTCGAAAACTAAAGCGCACACTAAAA
AATGCTTCGAAAGGTGTCAGTAGGTGCGCGGAGCCGAAGCCCTGCATGTTCGCCTGCTGGGCCCT
CTGTTCGCCCACTTCAGAGTCTTCGCCTTTAGATAACAAAAAGTGTTCGCCCAGGTTGCCAAACT
ACGACGAGATTTTTGCCACTAAAAAACGAGTTGTTATAGCATAAACATCCAATAAACTAGTAGGG
ATTAAGAATAAAACCAAGTGCAACAACAACCAACTTCAAGTTTGAAAACAATATATGCACAAAGT
GACTGCATAAAAAATCTGGAACTGATCAGTAAGAGCAACGATCAAAAACCAAATTAGTATCATAT
TTTGTTGATATCATCTTCTCTCCGTGCCAGTTCATAATCTTACTCTATTTTCAAACGAGTCTCCC
GATCAATATGTTTGTTCATCCCATTGTCCATCAAGCGTACACACATTCTTAAAATTAATTTCAAG
AGATATAGAGCATGACAAATAAGTTGAACATAAATCATATAGTATCTAACAAAAACAACATTAAG
TTGCATAAAGAGATCACCATATAAAGAATAAATCAACATCTACCATTTGCTTTGCCAGGTTGACT
CCTTTGACAAAGCATAAACCAACAGCTATCAATATTACCCATGTCAATTTAATACAATTTTTGTC
ATATTTCCTTAGCCCTACAACATCGACTACAAGAGACTCCTCATCTAAATTTTTTATTGGACTTT
ATTCAACACTAGAATTCCTTTTTGTTGCTTTCTTCACCCTCACCATACTTGTCAAATTGTTTTCA
TAAATTTATCACATCATACAAAACATAACTTTCAAT
Found at i:7683270 original size:53 final size:53
Alignment explanation
Indices: 7683190--7683308 Score: 213
Period size: 53 Copynumber: 2.3 Consensus size: 53
7683180 AGGGAGGTAT
*
7683190 TCATCAGCCCAAACAAACATCCAAGCCATCGATAACAACACTACCAAAGTTGC
1 TCATCAGCCCAAACAAACATCCAAGCCATAGATAACAACACTACCAAAGTTGC
*
7683243 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTACCAAAGTTGC
1 TCATCAGCCCAAACAAACATCCAAGCCATAGATAACAACACTACCAAAGTTGC
7683296 TCATCAG-CCAAAC
1 TCATCAGCCCAAAC
7683309 CATTCGTTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 6 0.09
53 58 0.91
ACGTcount: A:0.41, C:0.34, G:0.10, T:0.15
Consensus pattern (53 bp):
TCATCAGCCCAAACAAACATCCAAGCCATAGATAACAACACTACCAAAGTTGC
Found at i:7689237 original size:14 final size:14
Alignment explanation
Indices: 7689218--7689246 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7689208 CAATAACAAC
7689218 AAAAAAATTT-ATT
1 AAAAAAATTTCATT
7689231 AAAAAAATTTCATT
1 AAAAAAATTTCATT
7689245 AA
1 AA
7689247 TTGGAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAAAATTTCATT
Found at i:7692373 original size:25 final size:25
Alignment explanation
Indices: 7692339--7692389 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7692329 GGATACCCAA
7692339 CTTAGTTTTCTAAGTTCAATGTGGT
1 CTTAGTTTTCTAAGTTCAATGTGGT
7692364 CTTAGTTTTCTAAGTTCAATGTGGT
1 CTTAGTTTTCTAAGTTCAATGTGGT
7692389 C
1 C
7692390 AAACAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.47
Consensus pattern (25 bp):
CTTAGTTTTCTAAGTTCAATGTGGT
Found at i:7695603 original size:21 final size:21
Alignment explanation
Indices: 7695573--7695674 Score: 60
Period size: 21 Copynumber: 4.9 Consensus size: 21
7695563 GCTAAATGAG
*
7695573 AACCCGTAAGGGTTAAACGGA
1 AACCCATAAGGGTTAAACGGA
* ** * * *
7695594 AGCTTATAAGAGCTGAACGGA
1 AACCCATAAGGGTTAAACGGA
**
7695615 AACCCATAAGGGTTAAACTTA
1 AACCCATAAGGGTTAAACGGA
* * * * * *
7695636 AGCTCAAAAGAGCTAAACTGA
1 AACCCATAAGGGTTAAACGGA
*
7695657 AACCCAGAAGGGTTAAAC
1 AACCCATAAGGGTTAAAC
7695675 TAAAACTCAT
Statistics
Matches: 55, Mismatches: 26, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
AACCCATAAGGGTTAAACGGA
Found at i:7695625 original size:42 final size:42
Alignment explanation
Indices: 7695573--7695674 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
7695563 GCTAAATGAG
* * * *
7695573 AACCCGTAAGGGTTAAACGGAAGCTTATAAGAGCTGAACGGA
1 AACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTAAACGGA
** *
7695615 AACCCATAAGGGTTAAACTTAAGCTCAAAAGAGCTAAACTGA
1 AACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTAAACGGA
*
7695657 AACCCAGAAGGGTTAAAC
1 AACCCATAAGGGTTAAAC
7695675 TAAAACTCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (42 bp):
AACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTAAACGGA
Found at i:7695718 original size:21 final size:21
Alignment explanation
Indices: 7695599--7695719 Score: 91
Period size: 21 Copynumber: 5.8 Consensus size: 21
7695589 ACGGAAGCTT
* * *
7695599 ATAAGAGCTGAACGGAAACCC
1 ATAAGAGCTAAACTGAAACTC
* * * *
7695620 ATAAGGGTTAAACTTAAGCTC
1 ATAAGAGCTAAACTGAAACTC
* *
7695641 AAAAGAGCTAAACTGAAACCC
1 ATAAGAGCTAAACTGAAACTC
* * * *
7695662 AGAAGGGTTAAACTAAAACTC
1 ATAAGAGCTAAACTGAAACTC
* * *
7695683 ATATGAG-TTAACTGAAGCTC
1 ATAAGAGCTAAACTGAAACTC
7695703 ATAAGAGCTAAACTGAA
1 ATAAGAGCTAAACTGAA
7695720 TGCAAACACG
Statistics
Matches: 73, Mismatches: 26, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
20 16 0.22
21 57 0.78
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (21 bp):
ATAAGAGCTAAACTGAAACTC
Found at i:7704072 original size:22 final size:23
Alignment explanation
Indices: 7704047--7704094 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
7704037 ACCAATTTGT
7704047 TTGA-AAAAATTACAAGTGTACA
1 TTGACAAAAATTACAAGTGTACA
7704069 TTGACGAAAAATTACAAGTGTACA
1 TTGAC-AAAAATTACAAGTGTACA
7704093 TT
1 TT
7704095 ACCCTCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
24 20 0.83
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (23 bp):
TTGACAAAAATTACAAGTGTACA
Found at i:7707488 original size:14 final size:14
Alignment explanation
Indices: 7707466--7707495 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7707456 TATTGTTTAA
*
7707466 GACTTCTTAAGAGG
1 GACTGCTTAAGAGG
7707480 GACTGCTTAAGAGG
1 GACTGCTTAAGAGG
7707494 GA
1 GA
7707496 GCTAATCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.23
Consensus pattern (14 bp):
GACTGCTTAAGAGG
Found at i:7713701 original size:47 final size:47
Alignment explanation
Indices: 7713645--7713741 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
7713635 GATTTCGTAC
7713645 GAAATAATAGCAAACTCCAATACAACCATGACAAAACAAAAAAATAA
1 GAAATAATAGCAAACTCCAATACAACCATGACAAAACAAAAAAATAA
7713692 GAAATAATAGCAAACTCCAATACAACCATGACAAAACAAAAAAATAA
1 GAAATAATAGCAAACTCCAATACAACCATGACAAAACAAAAAAATAA
7713739 GAA
1 GAA
7713742 CAAAAACGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.62, C:0.19, G:0.07, T:0.12
Consensus pattern (47 bp):
GAAATAATAGCAAACTCCAATACAACCATGACAAAACAAAAAAATAA
Found at i:7721410 original size:17 final size:18
Alignment explanation
Indices: 7721385--7721423 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7721375 AATTTTAATT
*
7721385 TTAACTTAATATTT-AAA
1 TTAACTTAAGATTTAAAA
*
7721402 TTAATTTAAGATTTAAAA
1 TTAACTTAAGATTTAAAA
7721420 TTAA
1 TTAA
7721424 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TTAACTTAAGATTTAAAA
Found at i:7740032 original size:10 final size:10
Alignment explanation
Indices: 7740017--7740105 Score: 57
Period size: 11 Copynumber: 9.3 Consensus size: 10
7740007 GATAATCAAT
7740017 AAAAATTATA
1 AAAAATTATA
*
7740027 AAAAA-TATT
1 AAAAATTATA
*
7740036 AAAAATTAGAA
1 AAAAATTA-TA
7740047 AAAAATTAT-
1 AAAAATTATA
*
7740056 -AAAATCATAA
1 AAAAATTAT-A
7740066 AAAAATTAT-
1 AAAAATTATA
*
7740075 AAATA-TAT-
1 AAAAATTATA
*
7740083 AGAAA-TATA
1 AAAAATTATA
7740092 GAAAAATTATA
1 -AAAAATTATA
7740103 AAA
1 AAA
7740106 TTTTATAAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
8 16 0.26
9 12 0.20
10 14 0.23
11 19 0.31
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:7740038 original size:19 final size:18
Alignment explanation
Indices: 7740016--7740105 Score: 90
Period size: 19 Copynumber: 4.8 Consensus size: 18
7740006 TGATAATCAA
7740016 TAAAAATTATAAAAAATAT
1 TAAAAATTATAAAAAA-AT
*
7740035 TAAAAATTAGAAAAAAAT
1 TAAAAATTATAAAAAAAT
*
7740053 TATAAAATCATAAAAAAAT
1 TA-AAAATTATAAAAAAAT
* * *
7740072 TATAAATATATAGAAATAT
1 TAAAAAT-TATAAAAAAAT
*
7740091 AGAAAAATTATAAAA
1 -TAAAAATTATAAAA
7740106 TTTTATAAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
18 8 0.14
19 45 0.78
20 5 0.09
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAAATTATAAAAAAAT
Found at i:7740070 original size:30 final size:30
Alignment explanation
Indices: 7740017--7740073 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7740007 GATAATCAAT
*
7740017 AAAAATTATAAAAAATATTAAAAATTAGAA
1 AAAAATTATAAAAAATATAAAAAATTAGAA
*
7740047 AAAAATTATAAAATCATA-AAAAAATTA
1 AAAAATTATAAAA-AATATAAAAAATTA
7740074 TAAATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (30 bp):
AAAAATTATAAAAAATATAAAAAATTAGAA
Found at i:7740083 original size:27 final size:26
Alignment explanation
Indices: 7740049--7740133 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 26
7740039 AATTAGAAAA
7740049 AAATTATAAAATCATAAAAAAATTAT
1 AAATTATAAAATCATAAAAAAATTAT
*
7740075 AAATATATAGAAAT-ATAGAAAAATTAT
1 AAAT-TATA-AAATCATAAAAAAATTAT
* * *
7740102 AAAATTTTATAAAGTCGTAAGAAAATTAT
1 -AAA--TTATAAAATCATAAAAAAATTAT
7740131 AAA
1 AAA
7740134 AAAATGTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 4 0.08
27 16 0.33
28 13 0.27
29 14 0.29
30 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (26 bp):
AAATTATAAAATCATAAAAAAATTAT
Found at i:7740381 original size:21 final size:21
Alignment explanation
Indices: 7740344--7740383 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7740334 TTAAATGGTC
7740344 TTTTTAATGCATTTTATAATT
1 TTTTTAATGCATTTTATAATT
*
7740365 TTTTTTATG-ATTCTTATAA
1 TTTTTAATGCATT-TTATAA
7740384 AATTTCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTTAATGCATTTTATAATT
Found at i:7741039 original size:18 final size:19
Alignment explanation
Indices: 7741004--7741044 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7740994 TTTGAGATGG
*
7741004 TTATAGCAAAAATATTATA
1 TTATAACAAAAATATTATA
*
7741023 TTATAACAAAAA-CTTATA
1 TTATAACAAAAATATTATA
7741041 TTAT
1 TTAT
7741045 TTAAATCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (19 bp):
TTATAACAAAAATATTATA
Found at i:7742952 original size:72 final size:76
Alignment explanation
Indices: 7742833--7743009 Score: 165
Period size: 77 Copynumber: 2.4 Consensus size: 76
7742823 CTTTAGAATG
* * * * *
7742833 TTTTTAAGATTTA-AATAATAAAAAATTTTGTTATAACTTTATAAAATA-T-A-TAAATT-ATTT
1 TTTTTAAGATTTATAAT-AT-AATAATTTTTTTATAACATCATAAAATACTAATTAAATTCATAT
7742893 TTATAATATAATT
64 TTATAATATAATT
* *
7742906 TTTTTAAGATTTATAATATAATAATTTTTTTATAATCATCCT-AAATACTCAATTATATTCATAT
1 TTTTTAAGATTTATAATATAATAATTTTTTTATAA-CATCATAAAATACT-AATTAAATTCATAT
7742970 TTATAATATAATT
64 TTATAATATAATT
* *
7742983 TTTATAA-CTTATATAA-A-AATAATTTTT
1 TTTTTAAGATT-TATAATATAATAATTTTT
7743010 AAAATTTAGA
Statistics
Matches: 87, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
72 19 0.22
73 19 0.22
74 3 0.03
75 11 0.13
76 8 0.09
77 27 0.31
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (76 bp):
TTTTTAAGATTTATAATATAATAATTTTTTTATAACATCATAAAATACTAATTAAATTCATATTT
ATAATATAATT
Found at i:7750081 original size:178 final size:178
Alignment explanation
Indices: 7749782--7750137 Score: 685
Period size: 178 Copynumber: 2.0 Consensus size: 178
7749772 TGTATTTCTT
* *
7749782 CCATTCTAGTGTTTCTAGAATTTGTACTTGGTTCTGTAAGAAAAATAGAAATATGAACGATTTTC
1 CCATTCTAGTGTTTCTAGAATTTCTACTTGGTTATGTAAGAAAAATAGAAATATGAACGATTTTC
7749847 ATTCCTATTGGTATATAATTTGTACTTATATTATCCTCTTCTTCCTCTATTGGAGTATTTAAGGG
66 ATTCCTATTGGTATATAATTTGTACTTATATTATCCTCTTCTTCCTCTATTGGAGTATTTAAGGG
7749912 TAAAATTAAATTGTCATTTATATTTGTTCTAGCAATATTTTTAAAATA
131 TAAAATTAAATTGTCATTTATATTTGTTCTAGCAATATTTTTAAAATA
7749960 CCATTCTAGTGTTTCTAGAATTTCTACTTGGTTATGTAAGAAAAATAGAAATATGAACGATTTTC
1 CCATTCTAGTGTTTCTAGAATTTCTACTTGGTTATGTAAGAAAAATAGAAATATGAACGATTTTC
7750025 ATTCCTATTGGTATATAATTTGTACTTATATTATCCTCTTCTTCCTCTATTGGAGTATTTAAGGG
66 ATTCCTATTGGTATATAATTTGTACTTATATTATCCTCTTCTTCCTCTATTGGAGTATTTAAGGG
*
7750090 TAAAATTAAATTGTCATTTATATTTGTTTTAGCAATATTTTTAAAATA
131 TAAAATTAAATTGTCATTTATATTTGTTCTAGCAATATTTTTAAAATA
7750138 TAATTTATCT
Statistics
Matches: 175, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 175 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (178 bp):
CCATTCTAGTGTTTCTAGAATTTCTACTTGGTTATGTAAGAAAAATAGAAATATGAACGATTTTC
ATTCCTATTGGTATATAATTTGTACTTATATTATCCTCTTCTTCCTCTATTGGAGTATTTAAGGG
TAAAATTAAATTGTCATTTATATTTGTTCTAGCAATATTTTTAAAATA
Found at i:7750794 original size:31 final size:32
Alignment explanation
Indices: 7750758--7750822 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
7750748 CTTAGATAAT
7750758 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
7750789 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
7750821 TT
1 TT
7750823 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:7751377 original size:10 final size:10
Alignment explanation
Indices: 7751358--7751408 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
7751348 TTCTTTAAAT
*
7751358 AAAAGTAAAA
1 AAAAGCAAAA
* *
7751368 AAAGGAAAAA
1 AAAAGCAAAA
7751378 AAACAGC-AAA
1 AAA-AGCAAAA
*
7751388 AACAGCAAAA
1 AAAAGCAAAA
7751398 AAAAGCAAAA
1 AAAAGCAAAA
7751408 A
1 A
7751409 GCGCAAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 3 0.09
10 29 0.88
11 1 0.03
ACGTcount: A:0.76, C:0.10, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAGCAAAA
Found at i:7751388 original size:19 final size:18
Alignment explanation
Indices: 7751366--7751455 Score: 69
Period size: 20 Copynumber: 4.9 Consensus size: 18
7751356 ATAAAAGTAA
7751366 AAAAAGGAAAAAAAACAGC
1 AAAAAGGAAAAAAAA-AGC
* *
7751385 AAAAACAGCAAAAAAAAGC
1 AAAAA-GGAAAAAAAAAGC
* *
7751404 AAAAAGCG-CAAAAGAA--
1 AAAAAG-GAAAAAAAAAGC
*
7751420 AAAAAGAAAAAAAAAAGC
1 AAAAAGGAAAAAAAAAGC
7751438 AAAAAGCGCAAAAAAAAA
1 AAAAAG-G-AAAAAAAAA
7751456 AGTTGCCTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
16 12 0.22
18 12 0.22
19 14 0.25
20 17 0.31
ACGTcount: A:0.76, C:0.11, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAGGAAAAAAAAAGC
Found at i:7758748 original size:19 final size:19
Alignment explanation
Indices: 7758703--7758748 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7758693 ATAATTTTTT
7758703 ATATTATTACTAATATATA
1 ATATTATTACTAATATATA
* *
7758722 ATAATATTAACTAATTTA-A
1 ATATTATT-ACTAATATATA
7758741 ATATTATT
1 ATATTATT
7758749 TAAATGCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTATTACTAATATATA
Found at i:7762277 original size:21 final size:21
Alignment explanation
Indices: 7762251--7762291 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7762241 AGACGAGCAA
* *
7762251 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
7762272 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
7762292 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:7776957 original size:8 final size:7
Alignment explanation
Indices: 7776922--7776947 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7776912 GAAATTATTG
7776922 AAAAATT
1 AAAAATT
7776929 AAAAATT
1 AAAAATT
7776936 AAAAATT
1 AAAAATT
7776943 AAAAA
1 AAAAA
7776948 AATATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:7776971 original size:25 final size:24
Alignment explanation
Indices: 7776922--7776971 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
7776912 GAAATTATTG
* *
7776922 AAAAATTAAAAATTAAAAATTAAA
1 AAAAATTAAAAAATAAAAATGAAA
7776946 AAAATATTAAAAAATAGAAAA-GAAA
1 AAAA-ATTAAAAAATA-AAAATGAAA
7776971 A
1 A
7776972 GGAATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAAATTAAAAAATAAAAATGAAA
Found at i:7777918 original size:17 final size:17
Alignment explanation
Indices: 7777896--7777940 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
7777886 GTGAATCGGG
*
7777896 TTTCTATTTTTTTATAT
1 TTTCTATTTTTTGATAT
*
7777913 TTTCTATTCTTTTGATTT
1 TTTCTATT-TTTTGATAT
*
7777931 TTTTTATTTT
1 TTTCTATTTT
7777941 ATAAGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTCTATTTTTTGATAT
Found at i:7778580 original size:3 final size:3
Alignment explanation
Indices: 7778572--7778628 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
7778562 TATTACTTGT
* * *
7778572 TTA TTA TTA TTA TTA TTA TTA TTA TCTA CTA TTA CTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* *
7778618 TGA TTG TTA TT
1 TTA TTA TTA TT
7778629 TTCATGTACA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 41 0.95
4 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:7791262 original size:134 final size:134
Alignment explanation
Indices: 7790879--7791897 Score: 1549
Period size: 134 Copynumber: 7.6 Consensus size: 134
7790869 GAAAAGCGGT
* *
7790879 AGATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCGAAGATAACGGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTATT
* *
7790944 GGCATGAAGTAGATTAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAAGA
66 GGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
7791009 TAAC
131 TAAC
* *
7791013 AGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAAC-AGAT-TTGTCTTAATGTAT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGA-ATCTTGTCTTCATGTAT
* * * * * *
7791076 TGGAATGAAATAGATCAGAGATAACAAATCTTGCCTTCCTGTACTGGCAGCGAAGTAAATCAAAG
65 TGGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAG
7791141 ATAAC
130 ATAAC
* * *
7791146 AGATCTTGACTTCCCATACTAGTGCCGAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTATT
*
7791211 GGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGAAGCGAAGTAGATCAAAGA
66 GGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
7791276 TAAC
131 TAAC
* * *
7791280 AGATCTTGTCTTCGCATACTGGTGGCGAAGTAGATTGAAGATAACGGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTATT
* *
7791345 GGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGTAGCGAAATAGATCAAAGA
66 GGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
7791410 TAAC
131 TAAC
* * * *
7791414 AGATCTTGACTTCCTATACTGGTGGCAAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTGTT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTATT
*
7791479 GGCATGAAGTAGATTAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
66 GGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
7791544 TAAC
131 TAAC
* * * * *
7791548 AGATCTTGTCTTTCCATACTGGTGGTGAAGTAGATCGAAGATAACGGATCTTGCCTTCATGTGTT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTATT
*
7791613 GGCATGAAGTAGATCAGAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
66 GGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
7791678 TAAC
131 TAAC
* * *
7791682 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGGATCTTGTCTTCCTGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTATT
* * * * ** **
7791747 GGCAGCGAAGTAGATCAAAGATAACAGATCTCGTCTTCCCATACTGGTGGCGAAGTAGATCAAAA
66 GGCA-TGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATC-AAA
* *
7791812 AATAGC
129 GATAAC
* *
7791818 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAGC-AGATCTTGTCTTCCTGTAT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGA-ATCTTGTCTTCATGTAT
7791882 TGGCAGTGAAGTAGAT
65 TGGCA-TGAAGTAGAT
7791898 TGAAGATTTT
Statistics
Matches: 807, Mismatches: 72, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
133 118 0.15
134 560 0.69
135 47 0.06
136 82 0.10
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (134 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAACGAATCTTGTCTTCATGTATT
GGCATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
TAAC
Found at i:7791893 original size:45 final size:45
Alignment explanation
Indices: 7790879--7791904 Score: 947
Period size: 45 Copynumber: 22.9 Consensus size: 45
7790869 GAAAAGCGGT
* ** **
7790879 AGATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* * * * * *
7790924 GGATCTTGTCTTCATGTATTGGCA-TGAAGTAGAT-TAGAGATAGC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGA-AGATAAC
* *
7790968 AGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* ** **
7791013 AGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
** * ** *
7791058 AGAT-TTGTCTTAATGTATTGG-AATGAAATAGATC-AGAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGA-AGATAAC
* * * *
7791101 AAATCTTGCCTTCCTGTACTGGCAGCGAAGTAAATCAAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* **
7791146 AGATCTTGACTTCCCATACTAGTGC--CGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTGTACT-G-GCAGCGAAGTAGATCGAAGATAAC
* * * *
7791191 -GAATCTTGTCTTCATGTATTGGCA-TGAAGTAGATC-AGAGATAGC
1 AG-ATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGA-AGATAAC
* *
7791235 AGATCTTGTCTTCCTGTACTGGAAGCGAAGTAGATCAAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* ** *
7791280 AGATCTTGTCTTCGC-ATACTGGTGGCGAAGTAGATTGAAGATAAC
1 AGATCTTGTCTTC-CTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* * * * *
7791325 GGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATC-AGAGATAGC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGA-AGATAAC
* * *
7791369 AGATCTTGTCTTCCTGTACTGGTAGCGAAATAGATCAAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* * ** *
7791414 AGATCTTGACTTCCTATACTGGTGGCAAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* ** * * *
7791459 -GAATCTTGTCTTCATGTGTTGGCA-TGAAGTAGAT-TAGAGATAGC
1 AG-ATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGA-AGATAAC
*
7791503 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* ** *
7791548 AGATCTTGTCTTTCC-ATACTGGTGGTGAAGTAGATCGAAGATAAC
1 AGATCTTGTC-TTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* * * ** * *
7791593 GGATCTTGCCTTCATGTGTTGGCA-TGAAGTAGATCAGAA-ATAGC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATC-GAAGATAAC
*
7791637 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
** **
7791682 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* *
7791727 GGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAAC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* ** ** * * *
7791772 AGATCTCGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAATAGC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATC-GAAGATAAC
** ** *
7791818 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
* * *
7791863 AGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTGAAGAT
1 AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGAT
7791905 TTTTCTTATC
Statistics
Matches: 796, Mismatches: 154, Indels: 62
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.00
43 25 0.03
44 206 0.26
45 509 0.64
46 53 0.07
47 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
AGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAGATAAC
Found at i:7793377 original size:3 final size:3
Alignment explanation
Indices: 7793369--7793422 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
7793359 TATTACTTGT
* * *
7793369 TTA TTA TTA TTA TTA TTA TTA TCTA TTA TTA CTA TTA ATA TTA TGA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
7793415 TTG TTA TT
1 TTA TTA TT
7793423 TTCATGTACA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:7798994 original size:25 final size:24
Alignment explanation
Indices: 7798960--7799007 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
7798950 ATAAAACAAC
*
7798960 AAAAAGAAAATCTATTCTAAAAAG
1 AAAAAGAAAATCTAATCTAAAAAG
7798984 AAAAGAGAAAATCTAATCTAAAAA
1 AAAA-AGAAAATCTAATCTAAAAA
7799008 AAGTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (24 bp):
AAAAAGAAAATCTAATCTAAAAAG
Found at i:7801305 original size:20 final size:20
Alignment explanation
Indices: 7801277--7801317 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7801267 TTTAATTAAT
*
7801277 TTAGCTTAATTAAGTTAAAC
1 TTAGCTTAATTAAATTAAAC
*
7801297 TTAGTTTAATTAAATTAAAC
1 TTAGCTTAATTAAATTAAAC
7801317 T
1 T
7801318 AATCATTAAG
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (20 bp):
TTAGCTTAATTAAATTAAAC
Found at i:7803897 original size:13 final size:13
Alignment explanation
Indices: 7803879--7803929 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
7803869 AAAATAAAGA
7803879 TTAATTAATTAAT
1 TTAATTAATTAAT
* *
7803892 TTAATTAATCAAA
1 TTAATTAATTAAT
*
7803905 TTAACTAAATTAAT
1 TTAA-TTAATTAAT
*
7803919 TT-CTTAATTAA
1 TTAATTAATTAA
7803930 ATGATTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 7 0.23
13 15 0.50
14 8 0.27
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:7809124 original size:13 final size:13
Alignment explanation
Indices: 7809108--7809145 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
7809098 TTTAAACTAA
7809108 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
7809121 ACTTTTTCACAA-C
1 AC-TTTTCAAAAGC
7809134 ACTTTTCAAAAG
1 ACTTTTCAAAAG
7809146 TATTGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 8 0.38
13 5 0.24
14 8 0.38
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7812495 original size:12 final size:12
Alignment explanation
Indices: 7812474--7812508 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7812464 ACCCTATTTT
*
7812474 AAAATTATATAA
1 AAAATAATATAA
7812486 AAAATAATATAA
1 AAAATAATATAA
*
7812498 AAATTAATATA
1 AAAATAATATA
7812509 GGCGGGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:7812835 original size:8 final size:8
Alignment explanation
Indices: 7812822--7812858 Score: 60
Period size: 7 Copynumber: 4.9 Consensus size: 8
7812812 AATTTATTTT
7812822 AAAAATAA
1 AAAAATAA
7812830 AAAAAT-A
1 AAAAATAA
7812837 AAAAAT-A
1 AAAAATAA
7812844 AAAAATAA
1 AAAAATAA
7812852 AAAAATA
1 AAAAATA
7812859 TTTTAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:7812878 original size:10 final size:11
Alignment explanation
Indices: 7812852--7812877 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7812842 TAAAAAATAA
7812852 AAAAATATTTT
1 AAAAATATTTT
7812863 AAAAATATTTT
1 AAAAATATTTT
7812874 AAAA
1 AAAA
7812878 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:7814011 original size:27 final size:27
Alignment explanation
Indices: 7813981--7814036 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
7813971 CATAGTGGAC
7813981 TTAAGCGGGTTGAATAGTGGTATTCGA
1 TTAAGCGGGTTGAATAGTGGTATTCGA
7814008 TTAAGCGGGTTGAATAGTGGTATTCGA
1 TTAAGCGGGTTGAATAGTGGTATTCGA
7814035 TT
1 TT
7814037 CCTTACTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.32, T:0.36
Consensus pattern (27 bp):
TTAAGCGGGTTGAATAGTGGTATTCGA
Found at i:7842836 original size:113 final size:114
Alignment explanation
Indices: 7842636--7842944 Score: 401
Period size: 113 Copynumber: 2.7 Consensus size: 114
7842626 CTTTCGGGGA
* * * * * * * * *
7842636 TTTAGCGGCGTTTCCTCA-AAAACGCCGCAAGAAA-TCCTAAACCCAATGACACCGTTTTGTTAG
1 TTTAGCGGCGTTT-TTGAGAAAGCGCCGCAAAAAACT-CTAAGCCCAACGACGCCGTTTTCTAAG
* * *
7842699 CTTTCGGGGATTTAGTGGCGTTTTTTAAGAAAGCGTCGCTAATGCT-AGGGC
64 CTTTCGGGGATTTAGCGGC-ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
7842750 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACT-TGAGCCCAACGACGCCGTTTTCTAAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACTCTAAGCCCAACGACGCCGTTTTCTAAGCT
7842814 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
7842863 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAATTCTAAGCCCAACGACGCCGTTTTTTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACTCTAAGCCCAACGACGCCGTTTTCTAAGCT
**
7842928 TTTAGGGATTTAGCGGC
66 TTCGGGGATTTAGCGGC
7842945 CAAAAATGCT
Statistics
Matches: 172, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
112 24 0.14
113 80 0.47
114 67 0.39
115 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACTCTAAGCCCAACGACGCCGTTTTCTAAGCT
TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:7843545 original size:14 final size:15
Alignment explanation
Indices: 7843510--7843551 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
7843500 TATTTTAAGG
*
7843510 TTTAGGGAGTATGAA
1 TTTAGGGATTATGAA
7843525 TTTAGGGATTATGAA
1 TTTAGGGATTATGAA
7843540 -TTAGGGATTATG
1 TTTAGGGATTATG
7843552 GTTTAAGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
TTTAGGGATTATGAA
Found at i:7843570 original size:14 final size:15
Alignment explanation
Indices: 7843553--7843641 Score: 62
Period size: 14 Copynumber: 6.1 Consensus size: 15
7843543 GGGATTATGG
7843553 TTTAAGGGTT-GGGA
1 TTTAAGGGTTAGGGA
*
7843567 TTTAAGGTTTAGGGA
1 TTTAAGGGTTAGGGA
*
7843582 -TTAGGGGTTTAGGG-
1 TTTAAGGG-TTAGGGA
* *
7843596 GTT-AGATGTTAGGG-
1 TTTAAG-GGTTAGGGA
* *
7843610 GTTAAGAGTTAGGGA
1 TTTAAGGGTTAGGGA
*
7843625 TTTAAGGTTTAGGGA
1 TTTAAGGGTTAGGGA
7843640 TT
1 TT
7843642 CAGGGATCGA
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
14 31 0.52
15 29 0.48
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (15 bp):
TTTAAGGGTTAGGGA
Found at i:7843583 original size:15 final size:15
Alignment explanation
Indices: 7843553--7843641 Score: 64
Period size: 15 Copynumber: 6.1 Consensus size: 15
7843543 GGGATTATGG
*
7843553 TTTAAGGGTT-GGGA
1 TTTAAGGTTTAGGGA
7843567 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
*
7843582 -TTAGGGGTTTAGGG-
1 TTTA-AGGTTTAGGGA
* *
7843596 GTT-AGATGTTAGGG-
1 TTTAAGGT-TTAGGGA
*
7843610 GTTAAGAG-TTAGGGA
1 TTTAAG-GTTTAGGGA
7843625 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
7843640 TT
1 TT
7843642 CAGGGATCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
13 2 0.03
14 28 0.46
15 31 0.51
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (15 bp):
TTTAAGGTTTAGGGA
Found at i:7844443 original size:108 final size:107
Alignment explanation
Indices: 7844312--7844528 Score: 346
Period size: 109 Copynumber: 2.0 Consensus size: 107
7844302 AAAGGTAAGC
* *
7844312 AATAGCGGCGTTTTTTTAAAAAACGCCGCAAAAAATAAATCAATTTAT-AAAAAATAAAATAAAA
1 AATAGCGGCGTTTTTTTAAAAAACGCCGCAAAAAACAAATCAATATATAAAAAAATAAAATAAAA
*** *
7844376 ATTTTTTAGCATAGCAAAACGGTGTCATTTTGCTGAAAATGA
66 ATTTTTTAGCATAGCAAAACCACGTCATTTTGCTCAAAATGA
7844418 AATAGCGGCGTTTTTTTTATAAAAACGCCGCAAAAAACAAATCAATATATAAAAAAATAAAATAA
1 AATAGCGGCG-TTTTTTTA-AAAAACGCCGCAAAAAACAAATCAATATATAAAAAAATAAAATAA
*
7844483 AAATTTTTTAGCATAGCAAAACCACGTCATTTTGTTCAAAATGA
64 AAATTTTTTAGCATAGCAAAACCACGTCATTTTGCTCAAAATGA
7844527 AA
1 AA
7844529 ATTTTTTTGC
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
106 10 0.10
107 8 0.08
108 28 0.28
109 55 0.54
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (107 bp):
AATAGCGGCGTTTTTTTAAAAAACGCCGCAAAAAACAAATCAATATATAAAAAAATAAAATAAAA
ATTTTTTAGCATAGCAAAACCACGTCATTTTGCTCAAAATGA
Found at i:7844711 original size:106 final size:108
Alignment explanation
Indices: 7844573--7844788 Score: 301
Period size: 107 Copynumber: 2.0 Consensus size: 108
7844563 AAAGGTAAGC
* * * *
7844573 AATAACGGCGTTTTTTTTAAAAACGCCACAAAAAATAAATTAATTTAT-AAAAAAATAAAATAAA
1 AATAACGGCGTTTTTTATAAAAACGCCACAAAAAACAAATCAATATATAAAAAAAATAAAATAAA
* ** *
7844637 ATTTTTTTAGCATAGCAAAAAGGTGTCATTTTGCTGAAAATGA
66 ATATTTTTAGCATAGCAAAAAGACGTCATTTTGCTCAAAATGA
* * *
7844680 AATAGCGGCG-TTTTTATAAAAATGCCGCAAAAAACAAATCAATATATAAAAAAAATAAAATAAA
1 AATAACGGCGTTTTTTATAAAAACGCCACAAAAAACAAATCAATATATAAAAAAAATAAAATAAA
* *
7844744 ATATTTTTAGCATAGCAAAACGACGTCATTTTGTTCAAAATGA
66 ATATTTTTAGCATAGCAAAAAGACGTCATTTTGCTCAAAATGA
7844787 AA
1 AA
7844789 AATTTTTTGC
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 31 0.33
107 64 0.67
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (108 bp):
AATAACGGCGTTTTTTATAAAAACGCCACAAAAAACAAATCAATATATAAAAAAAATAAAATAAA
ATATTTTTAGCATAGCAAAAAGACGTCATTTTGCTCAAAATGA
Found at i:7844826 original size:260 final size:258
Alignment explanation
Indices: 7844196--7844829 Score: 1056
Period size: 261 Copynumber: 2.4 Consensus size: 258
7844186 ATTTTATAAG
* * *
7844196 AAATCAATTTATAAAAATA-AAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
1 AAATCAATATATAAAAAAATAAAAT-AAAAATTTTTAGCATAGCAAAACGACGTCATTTTGTTCA
* * *
7844260 AAATGAAAAATTTTCTGCGGCGTTTCTCATAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTT
65 AAATGAAAAATTTTTTGCGGCGTTTCTCAAAAAAACGCCGCTAAAGGTAAGCAATAACGGCGTTT
*
7844325 TTTTAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAATTTTTTAGCATAG
130 TTTTAAAAAACGCCACAAAAAATAAATCAATTTATAAAAAATAAAATAAAAATTTTTTAGCATAG
*
7844390 CAAAACGGTGTCATTTTGCTGAAAATGAAATAGCGGCGTTTTTTTTATAAAAACGCCGCAAAAAA
195 CAAAAAGGTGTCATTTTGCTGAAAATGAAATAGCGGCG--TTTTTTATAAAAACGCCGCAAAAAA
7844455 C
258 C
*
7844456 AAATCAATATATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACCACGTCATTTTGTTCA
1 AAATCAATATATAAAAAAATAAAATAAAAA-TTTTTAGCATAGCAAAACGACGTCATTTTGTTCA
* *
7844521 AAATGAAAATTTTTTTGCGGCGTTTCTCAAAAAACCGCCGCTAAAGGTAAGCAATAACGGCGTTT
65 AAATGAAAAATTTTTTGCGGCGTTTCTCAAAAAAACGCCGCTAAAGGTAAGCAATAACGGCGTTT
* * *
7844586 TTTTTAAAAACGCCACAAAAAATAAATTAATTTATAAAAAAATAAAATAAAATTTTTTTAGCATA
130 TTTTAAAAAACGCCACAAAAAATAAATCAATTTAT-AAAAAATAAAATAAAAATTTTTTAGCATA
*
7844651 GCAAAAAGGTGTCATTTTGCTGAAAATGAAATAGCGGCG-TTTTTATAAAAATGCCGCAAAAAAC
194 GCAAAAAGGTGTCATTTTGCTGAAAATGAAATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAAC
7844715 AAATCAATATATAAAAAAAATAAAATAAAATATTTTTAGCATAGCAAAACGACGTCATTTTGTTC
1 AAATCAATATAT-AAAAAAATAAAATAAAA-ATTTTTAGCATAGCAAAACGACGTCATTTTGTTC
7844780 AAAATGAAAAATTTTTTGCGGCGTTTCTCAAAAAAACGCCGCTAAAGGTA
64 AAAATGAAAAATTTTTTGCGGCGTTTCTCAAAAAAACGCCGCTAAAGGTA
7844830 TAAAAACGCC
Statistics
Matches: 351, Mismatches: 18, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
259 36 0.10
260 119 0.34
261 130 0.37
262 66 0.19
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (258 bp):
AAATCAATATATAAAAAAATAAAATAAAAATTTTTAGCATAGCAAAACGACGTCATTTTGTTCAA
AATGAAAAATTTTTTGCGGCGTTTCTCAAAAAAACGCCGCTAAAGGTAAGCAATAACGGCGTTTT
TTTAAAAAACGCCACAAAAAATAAATCAATTTATAAAAAATAAAATAAAAATTTTTTAGCATAGC
AAAAAGGTGTCATTTTGCTGAAAATGAAATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAAC
Found at i:7844948 original size:95 final size:95
Alignment explanation
Indices: 7844830--7845038 Score: 276
Period size: 95 Copynumber: 2.2 Consensus size: 95
7844820 GCTAAAGGTA
* *
7844830 TAAAAACGCCGCAAAAAACAAATCAATATATAAAAAAATAAAATAAAA-ATTTTTAGCATAGCAA
1 TAAAAACGCCGCAAAAAACAAATCAATATAT-AAAAAACAAAATAAAATATTTTTAGAATAGCAA
*
7844894 AACGACGTCATTTTGTTCAAAATGAAATAGC
65 AACGACGTCATTTTATTCAAAATGAAATAGC
*** * *
7844925 TAAAAACGCCGCAAAATTTAAATCAATTTATAAAAAACAAAATAAAATTTTTTTAGAATAGCAAA
1 TAAAAACGCCGCAAAAAACAAATCAATATATAAAAAACAAAATAAAATATTTTTAGAATAGCAAA
* * **
7844990 ACGGCGTCATTTTATTCAAAATGAAAAAATT
66 ACGACGTCATTTTATTCAAAATG-AAATAGC
*
7845021 TAAAAACACCGCAAAAAA
1 TAAAAACGCCGCAAAAAA
7845039 ATTATATAGC
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
94 15 0.15
95 63 0.65
96 19 0.20
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (95 bp):
TAAAAACGCCGCAAAAAACAAATCAATATATAAAAAACAAAATAAAATATTTTTAGAATAGCAAA
ACGACGTCATTTTATTCAAAATGAAATAGC
Found at i:7849211 original size:43 final size:43
Alignment explanation
Indices: 7849150--7849263 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
7849140 GACTTATAAT
* *
7849150 GGCGTTTGTGGTAGAAGCGCCGCTAAAGAACATGATATTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGATATTTAGC
* * ** * *
7849193 GGCGTTTATGGGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGATATTTAGC
* *
7849236 GGCGTTTGTAGG-AATGCGCCGCTAAAGA
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGA
7849264 TGATGGTCTG
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 13 0.22
43 45 0.78
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGATATTTAGC
Found at i:7849270 original size:42 final size:43
Alignment explanation
Indices: 7849164--7849328 Score: 149
Period size: 42 Copynumber: 3.9 Consensus size: 43
7849154 TTTGTGGTAG
* * * *
7849164 AAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTATGGGAA
1 AAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTATAGGAA
* * *
7849207 AAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAGG-A
1 AAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTATAGGAA
* * * ***
7849249 ATGCGCCGCTAAAGATGATGGTCTGTAGC-GCGATTT-TCTCACA
1 AAGCGCCGCTAAAGATCATGGTCTTTAGCGGCG-TTTATAGGA-A
* *
7849292 AA-CGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTAT
1 AAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTAT
7849329 TTCTGAAAAC
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 4 0.04
42 53 0.55
43 40 0.41
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
AAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTATAGGAA
Found at i:7854875 original size:7 final size:7
Alignment explanation
Indices: 7854858--7854905 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
7854848 ACTTGAGCTT
7854858 TTTTTTC
1 TTTTTTC
7854865 -TTTTTC
1 TTTTTTC
7854871 TTTTTT-
1 TTTTTTC
7854877 TTCTTTTCC
1 TT-TTTT-C
*
7854886 CTTTTTC
1 TTTTTTC
7854893 TTTTTTC
1 TTTTTTC
7854900 TTTTTT
1 TTTTTT
7854906 TTTCTACTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
6 8 0.23
7 22 0.63
8 4 0.11
9 1 0.03
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:7854875 original size:15 final size:15
Alignment explanation
Indices: 7854855--7854907 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
7854845 ACTACTTGAG
7854855 CTTTTTTTTCTTTTT
1 CTTTTTTTTCTTTTT
*
7854870 CTTTTTTTTCTTTTC
1 CTTTTTTTTCTTTTT
* *
7854885 CCTTTTTCT-TTTTT
1 CTTTTTTTTCTTTTT
7854899 CTTTTTTTT
1 CTTTTTTTT
7854908 TCTACTGTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTTTTCTTTTT
Found at i:7855053 original size:14 final size:13
Alignment explanation
Indices: 7855026--7855050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7855016 CTGCTGTTGT
7855026 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
7855039 TTTTTTTCTTTT
1 TTTTTTTCTTTT
7855051 TCTGCTGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:7855293 original size:6 final size:6
Alignment explanation
Indices: 7855284--7855353 Score: 52
Period size: 6 Copynumber: 10.8 Consensus size: 6
7855274 TTGCTCTTCT
* * *
7855284 TTTTTC TTTTTA TTTTTC TTTCTTTC TTTTGT- TTTCTCTC TCTTTC TTCTTCC
1 TTTTTC TTTTTC TTTTTC -TT-TTTC TTTT-TC TTT-T-TC TTTTTC TT-TTTC
7855337 TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTT
7855354 TTTCAAACCC
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
6 32 0.63
7 13 0.25
8 6 0.12
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:7855293 original size:19 final size:20
Alignment explanation
Indices: 7855271--7855313 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
7855261 ATATTTTTAT
*
7855271 TTTTTGCTCTTCTTT-TTTC
1 TTTTTACTCTTCTTTCTTTC
* *
7855290 TTTTTATTTTTCTTTCTTTC
1 TTTTTACTCTTCTTTCTTTC
7855310 TTTT
1 TTTT
7855314 GTTTTCTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTACTCTTCTTTCTTTC
Found at i:7856015 original size:29 final size:30
Alignment explanation
Indices: 7855962--7856080 Score: 118
Period size: 29 Copynumber: 4.0 Consensus size: 30
7855952 TAGAGGACAC
* *
7855962 AAAACTTTTGAGGTCAAAATGTAATTTTAAG
1 AAAA-TTTAGAGGTCAAAATATAATTTTAAG
7855993 AAAATTTAG-GGTCAAAATATAATTTTAAG
1 AAAATTTAGAGGTCAAAATATAATTTTAAG
* * *
7856022 AAAGTTGAGATGTCAAAATATAATTTT-A-
1 AAAATTTAGAGGTCAAAATATAATTTTAAG
* * *
7856050 AAAAGTTAGGTGGTCAAAATGTAAATTTTAA
1 AAAATTTA-GAGGTCAAAATAT-AATTTTAA
7856081 ATTTTATATT
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 5 0.07
29 37 0.51
30 26 0.36
31 5 0.07
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.34
Consensus pattern (30 bp):
AAAATTTAGAGGTCAAAATATAATTTTAAG
Found at i:7881618 original size:20 final size:20
Alignment explanation
Indices: 7881593--7881631 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7881583 GCTACTCATA
7881593 TTTTTA-AAAACTTATCAGAG
1 TTTTTAGAAAACTTA-CAGAG
*
7881613 TTTTTAGAACACTTACAGA
1 TTTTTAGAAAACTTACAGA
7881632 ATCGGTGCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
TTTTTAGAAAACTTACAGAG
Found at i:7888559 original size:6 final size:6
Alignment explanation
Indices: 7888548--7888598 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
7888538 TTGAGCTCTT
*
7888548 TTTTTC TTTTTC TTTTT- TTTTTCCC TTTATC TTTTT- TTTTTC TTTTT-
1 TTTTTC TTTTTC TTTTTC TTTTT--C TTTTTC TTTTTC TTTTTC TTTTTC
7888595 TTTT
1 TTTT
7888599 CTACTGTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 14 0.36
6 21 0.54
8 4 0.10
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:7888575 original size:19 final size:19
Alignment explanation
Indices: 7888553--7888589 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7888543 CTCTTTTTTT
*
7888553 CTTTTTCTTTTTTTTTTCC
1 CTTTATCTTTTTTTTTTCC
7888572 CTTTATCTTTTTTTTTTC
1 CTTTATCTTTTTTTTTTC
7888590 TTTTTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (19 bp):
CTTTATCTTTTTTTTTTCC
Found at i:7888975 original size:11 final size:10
Alignment explanation
Indices: 7888952--7889029 Score: 52
Period size: 11 Copynumber: 7.5 Consensus size: 10
7888942 CCGACTATAT
*
7888952 TTTTTTATT-
1 TTTTTTCTTC
7888961 TTTTTCTCTTC
1 TTTTT-TCTTC
*
7888972 TTTTTTCTTTT
1 TTTTTTC-TTC
7888983 TTTTTTCTTTCC
1 TTTTTTC-TT-C
*
7888995 TTTTTTATCTC
1 TTTTTTCT-TC
*
7889006 TTTCTTCTTC
1 TTTTTTCTTC
*
7889016 CTTTTTCTT-
1 TTTTTTCTTC
7889025 TTTTT
1 TTTTT
7889030 CAAACCCTAG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
9 9 0.16
10 14 0.25
11 25 0.45
12 7 0.13
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:7888977 original size:12 final size:11
Alignment explanation
Indices: 7888960--7889029 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
7888950 ATTTTTTTAT
7888960 TTTTTTCTCTTC
1 TTTTTTCT-TTC
*
7888972 TTTTTTCTTTT
1 TTTTTTCTTTC
7888983 TTTTTTCTTTCC
1 TTTTTTCTTT-C
* *
7888995 TTTTTTATCTC
1 TTTTTTCTTTC
*
7889006 TTTCTTC-TTC
1 TTTTTTCTTTC
*
7889016 CTTTTTCTTT-
1 TTTTTTCTTTC
7889026 TTTT
1 TTTT
7889030 CAAACCCTAG
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
10 10 0.22
11 20 0.43
12 16 0.35
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:7888985 original size:23 final size:22
Alignment explanation
Indices: 7888951--7889000 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
7888941 CCCGACTATA
7888951 TTTTTTTATTTTTTTCTCTT-CT
1 TTTTTTTATTTTTTTCT-TTCCT
*
7888973 TTTTTCTTTTTTTTTTCTTTCCT
1 TTTTT-TTATTTTTTTCTTTCCT
7888996 TTTTT
1 TTTTT
7889001 ATCTCTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTTATTTTTTTCTTTCCT
Found at i:7898226 original size:54 final size:54
Alignment explanation
Indices: 7898124--7898231 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
7898114 TGGATTTATA
* * * *
7898124 CACTTAATAATTTTAAATGAAATTTTATTTAAAAAAGGTATTTTAATCTTAAAT
1 CACTTAATAATCTTAAATGAAATTTGATTTAAAAAAGGGATTTCAATCTTAAAT
*
7898178 CACTTAATAATCTTAAATCG-AATTTGA-TTAGAAACAGGGATTTCAATCTTAAAT
1 CACTTAATAATCTTAAAT-GAAATTTGATTTA-AAAAAGGGATTTCAATCTTAAAT
7898232 TAGTGACGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 3 0.06
54 43 0.91
55 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (54 bp):
CACTTAATAATCTTAAATGAAATTTGATTTAAAAAAGGGATTTCAATCTTAAAT
Found at i:7900028 original size:17 final size:17
Alignment explanation
Indices: 7900007--7900040 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7899997 TTATTATTAA
7900007 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7900024 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7900041 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7906254 original size:6 final size:6
Alignment explanation
Indices: 7906243--7906295 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
7906233 TTGAGCTCTT
*
7906243 TTTTTC TTTTTC --TTT- TTTTTC TTTTCCC TTTTTC TTTTTTC TTTTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTT-TC TTTTTC -TTTTTC TTTTTC
7906289 TTTTTC T
1 TTTTTC T
7906296 ACTATTGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
4 3 0.08
5 8 0.21
6 17 0.44
7 11 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:7906259 original size:7 final size:7
Alignment explanation
Indices: 7906242--7906293 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
7906232 CTTGAGCTCT
7906242 TTTTTTC
1 TTTTTTC
7906249 -TTTTTC
1 TTTTTTC
7906255 TTTTTT-
1 TTTTTTC
7906261 TTCTTTTCC
1 TT-TTTT-C
*
7906270 CTTTTTC
1 TTTTTTC
7906277 TTTTTTC
1 TTTTTTC
7906284 TTTTTT-
1 TTTTTTC
7906290 TTTT
1 TTTT
7906294 CTACTATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 12 0.31
7 22 0.56
8 4 0.10
9 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:7906261 original size:15 final size:15
Alignment explanation
Indices: 7906241--7906291 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
7906231 ACTTGAGCTC
7906241 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTCT
* *
7906256 TTTTTTTCTTTTCCC
1 TTTTTTTCTTTTTCT
*
7906271 TTTTTCT-TTTTTCT
1 TTTTTTTCTTTTTCT
7906285 TTTTTTT
1 TTTTTTT
7906292 TTCTACTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTCTTTTTCT
Found at i:7906430 original size:13 final size:13
Alignment explanation
Indices: 7906412--7906436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7906402 TGCTGTTGTT
7906412 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
7906425 TTTTTTTCTTTT
1 TTTTTTTCTTTT
7906437 TTCTGCTGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:7906502 original size:19 final size:21
Alignment explanation
Indices: 7906470--7906508 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
7906460 GGATGCCTAC
*
7906470 GCTGGGCTGTCTGGCCTGCTT
1 GCTGGGCTGTCTGGCATGCTT
7906491 GCTGGG-TG-CTGGCATGCT
1 GCTGGGCTGTCTGGCATGCT
7906509 GTTAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.03, C:0.26, G:0.41, T:0.31
Consensus pattern (21 bp):
GCTGGGCTGTCTGGCATGCTT
Found at i:7906679 original size:6 final size:6
Alignment explanation
Indices: 7906670--7906743 Score: 53
Period size: 6 Copynumber: 11.7 Consensus size: 6
7906660 TTGCTCTTCT
* * *
7906670 TTTTTC TTTTTA TTTTTC TTTCTTTC TTTTGT- TTTCTCTC TCTTTC TTCTTCC
1 TTTTTC TTTTTC TTTTTC -TT-TTTC TTTT-TC TTT-T-TC TTTTTC TT-TTTC
7906723 TTTTTC TTTTTC TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTT
7906744 CAAACCCTAG
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
5 4 0.07
6 32 0.58
7 13 0.24
8 6 0.11
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:7906679 original size:19 final size:20
Alignment explanation
Indices: 7906657--7906699 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
7906647 ATATTTTTAT
*
7906657 TTTTTGCTCTTCTTT-TTTC
1 TTTTTACTCTTCTTTCTTTC
* *
7906676 TTTTTATTTTTCTTTCTTTC
1 TTTTTACTCTTCTTTCTTTC
7906696 TTTT
1 TTTT
7906700 GTTTTCTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTACTCTTCTTTCTTTC
Found at i:7907399 original size:29 final size:30
Alignment explanation
Indices: 7907346--7907464 Score: 118
Period size: 29 Copynumber: 4.0 Consensus size: 30
7907336 TAGAGGACAC
* *
7907346 AAAACTTTTGAGGTCAAAATGTAATTTTAAG
1 AAAA-TTTAGAGGTCAAAATATAATTTTAAG
7907377 AAAATTTAG-GGTCAAAATATAATTTTAAG
1 AAAATTTAGAGGTCAAAATATAATTTTAAG
* * *
7907406 AAAGTTGAGATGTCAAAATATAATTTT-A-
1 AAAATTTAGAGGTCAAAATATAATTTTAAG
* * *
7907434 AAAAGTTAGGTGGTCAAAATGTAAATTTTAA
1 AAAATTTA-GAGGTCAAAATAT-AATTTTAA
7907465 ATTTTATATT
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 5 0.07
29 37 0.51
30 26 0.36
31 5 0.07
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.34
Consensus pattern (30 bp):
AAAATTTAGAGGTCAAAATATAATTTTAAG
Found at i:7917564 original size:8 final size:8
Alignment explanation
Indices: 7917551--7917611 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
7917541 GCTAGGGTTT
7917551 GAAAAAAA
1 GAAAAAAA
7917559 GAAAAAGGAA
1 GAAAAA--AA
7917569 GAAGAAAGAGA
1 GAA-AAA-A-A
*
7917580 TAAAAAAA
1 GAAAAAAA
*
7917588 GGAAAGAAA
1 -GAAAAAAA
7917597 GAAAAAAA
1 GAAAAAAA
7917605 GAAAAAA
1 GAAAAAA
7917612 GAAGAGAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 21 0.48
9 7 0.16
10 10 0.23
11 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (8 bp):
GAAAAAAA
Found at i:7917592 original size:17 final size:17
Alignment explanation
Indices: 7917581--7917614 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7917571 AGAAAGAGAT
7917581 AAAAAAAGGAAAGAAAG
1 AAAAAAAGGAAAGAAAG
7917598 AAAAAAA-GAAA-AAAG
1 AAAAAAAGGAAAGAAAG
7917613 AA
1 AA
7917615 GAGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAAGGAAAGAAAG
Found at i:7917593 original size:28 final size:27
Alignment explanation
Indices: 7917552--7917632 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
7917542 CTAGGGTTTG
* * *
7917552 AAAAAAAGAAAAAGGAAGAAGAAAGAGA
1 AAAAAAAGAGAAAGAAAGAA-AAAAAGA
7917580 TAAAAAAAG-GAAAGAAAGAAAAAAAGA
1 -AAAAAAAGAGAAAGAAAGAAAAAAAGA
* *
7917607 AAAAAGAAGAGAAAAAAATAAAAAAA
1 AAAAA-AAGAGAAAGAAAGAAAAAAA
7917633 TATAGTCGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.11
27 9 0.20
28 23 0.51
29 8 0.18
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (27 bp):
AAAAAAAGAGAAAGAAAGAAAAAAAGA
Found at i:7917619 original size:20 final size:19
Alignment explanation
Indices: 7917552--7917631 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 19
7917542 CTAGGGTTTG
7917552 AAAA-AAAGAAAAAGGAAGAA
1 AAAAGAAAGAAAAA--AAGAA
* * *
7917572 GAAAGAGATAAAAAAAG--
1 AAAAGAAAGAAAAAAAGAA
*
7917589 GAAAGAAAGAAAAAAAGAA
1 AAAAGAAAGAAAAAAAGAA
*
7917608 AAAAGAAGAGAAAAAAATAA
1 AAAAGAA-AGAAAAAAAGAA
7917628 AAAA
1 AAAA
7917632 ATATAGTCGG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
17 15 0.31
19 9 0.18
20 18 0.37
21 7 0.14
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (19 bp):
AAAAGAAAGAAAAAAAGAA
Found at i:7917624 original size:21 final size:21
Alignment explanation
Indices: 7917560--7917632 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
7917550 TGAAAAAAAG
* *
7917560 AAAAAGGAAGAAGAAAGAGATAA
1 AAAAAGAAAAAAG-AAGAGA-AA
*
7917583 AAAAAG--GAAAGAA-AG-AA
1 AAAAAGAAAAAAGAAGAGAAA
7917600 AAAAAGAAAAAAGAAGAGAAA
1 AAAAAGAAAAAAGAAGAGAAA
7917621 AAAATA-AAAAAA
1 AAAA-AGAAAAAA
7917633 TATAGTCGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
17 8 0.19
19 8 0.19
20 4 0.10
21 15 0.36
22 1 0.02
23 6 0.14
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (21 bp):
AAAAAGAAAAAAGAAGAGAAA
Found at i:7918020 original size:21 final size:22
Alignment explanation
Indices: 7917988--7918028 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7917978 CAGTAGAAAA
*
7917988 AAAAGAAAAAAAAGATAAAGGG
1 AAAAGAAAAAAAAGAAAAAGGG
7918010 AAAAG-AAAAAAAGAAAAAG
1 AAAAGAAAAAAAAGAAAAAG
7918029 AAAAAAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAAAAAGAAAAAGGG
Found at i:7925622 original size:18 final size:18
Alignment explanation
Indices: 7925596--7925630 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7925586 ATATGGGTCG
*
7925596 GGCTTGAGCTTGAAAATA
1 GGCTCGAGCTTGAAAATA
7925614 GGCTCGAGCTTGAAAAT
1 GGCTCGAGCTTGAAAAT
7925631 TCAAGCCTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (18 bp):
GGCTCGAGCTTGAAAATA
Found at i:7936451 original size:54 final size:54
Alignment explanation
Indices: 7936349--7936456 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
7936339 TGGATTTATA
* * * *
7936349 CACTTAATAATTTTAAATCAAATTTTATTTAAAAAAGGTATTTTAATCTTAAAT
1 CACTTAATAATCTTAAATCAAATTTGATTTAAAAAAGGGATTTCAATCTTAAAT
* *
7936403 CACTTAATAATCTTAAATCGAATTTGA-TTAGAAACAGGGATTTCAATCTTAAAT
1 CACTTAATAATCTTAAATCAAATTTGATTTA-AAAAAGGGATTTCAATCTTAAAT
7936457 TAGTGACGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.06
54 44 0.94
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (54 bp):
CACTTAATAATCTTAAATCAAATTTGATTTAAAAAAGGGATTTCAATCTTAAAT
Found at i:7938253 original size:17 final size:17
Alignment explanation
Indices: 7938232--7938265 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7938222 TTATTATTAA
7938232 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7938249 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7938266 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7942657 original size:14 final size:14
Alignment explanation
Indices: 7942640--7942690 Score: 68
Period size: 13 Copynumber: 3.6 Consensus size: 14
7942630 CTACTTGAGC
7942640 TCTTTTTTTCTTTT
1 TCTTTTTTTCTTTT
7942654 TCTTTTTTTC-TTT
1 TCTTTTTTTCTTTT
**
7942667 TCCCTTTTTCTTTTT
1 TCTTTTTTTC-TTTT
7942682 TCTTTTTTT
1 TCTTTTTTT
7942691 TCTACTATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 11 0.35
14 10 0.32
15 10 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TCTTTTTTTCTTTT
Found at i:7942660 original size:7 final size:7
Alignment explanation
Indices: 7942643--7942689 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
7942633 CTTGAGCTCT
7942643 TTTTTTC
1 TTTTTTC
7942650 -TTTTTC
1 TTTTTTC
7942656 TTTTTT-
1 TTTTTTC
*
7942662 TCTTTTCC
1 T-TTTTTC
*
7942670 CTTTTTC
1 TTTTTTC
7942677 TTTTTTC
1 TTTTTTC
7942684 TTTTTT
1 TTTTTT
7942690 TTCTACTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 7 0.21
7 26 0.79
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:7942673 original size:21 final size:20
Alignment explanation
Indices: 7942649--7942687 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7942639 CTCTTTTTTT
7942649 CTTTTTCTTTTTTTCTTTTCC
1 CTTTTTC-TTTTTTCTTTTCC
7942670 CTTTTTCTTTTTTCTTTT
1 CTTTTTCTTTTTTCTTTT
7942688 TTTTCTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTTTCTTTTTTCTTTTCC
Found at i:7942828 original size:13 final size:13
Alignment explanation
Indices: 7942810--7942834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7942800 TGCTGTTGTT
7942810 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
7942823 TTTTTTTCTTTT
1 TTTTTTTCTTTT
7942835 TTCTGCTGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:7954418 original size:18 final size:18
Alignment explanation
Indices: 7954391--7954425 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7954381 CGAGGCTTGA
*
7954391 ATTTTCAAGCTCGAGCCT
1 ATTTTCAAGCTCAAGCCT
*
7954409 ATTTTTAAGCTCAAGCC
1 ATTTTCAAGCTCAAGCC
7954426 CGACCCATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (18 bp):
ATTTTCAAGCTCAAGCCT
Found at i:7962380 original size:12 final size:11
Alignment explanation
Indices: 7962363--7962434 Score: 51
Period size: 12 Copynumber: 6.4 Consensus size: 11
7962353 ATTTTTTTAT
7962363 TTTTTTCTCTTC
1 TTTTTTCT-TTC
*
7962375 TTTTTTCTTTT
1 TTTTTTCTTTC
7962386 TTTCTTTCTTTCC
1 TTT-TTTCTTT-C
7962399 TTTTTT-TATCTC
1 TTTTTTCT-T-TC
*
7962411 TTTCTTC-TTC
1 TTTTTTCTTTC
*
7962421 CTTTTTCTTT-
1 TTTTTTCTTTC
7962431 TTTT
1 TTTT
7962435 CAAACCCTAG
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
10 10 0.21
11 9 0.19
12 25 0.52
13 4 0.08
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:7962380 original size:20 final size:19
Alignment explanation
Indices: 7962355--7962396 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
7962345 CCGACTATAT
7962355 TTTTTTATTTTTTTCTCTTC
1 TTTTTTATTTTTTTCT-TTC
*
7962375 TTTTTTCTTTTTTTCTTTC
1 TTTTTTATTTTTTTCTTTC
7962394 TTT
1 TTT
7962397 CCTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTATTTTTTTCTTTC
Found at i:7962386 original size:8 final size:8
Alignment explanation
Indices: 7962375--7962435 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
7962365 TTTTCTCTTC
7962375 TTTTTTCT
1 TTTTTTCT
7962383 TTTTTTCT
1 TTTTTTCT
*
7962391 TTCTTTCCTT
1 TT-TTTTC-T
7962401 TTTTTATCT
1 TTTTT-TCT
*
7962410 CTTTCTTCT
1 -TTTTTTCT
7962419 TCCTTTTTCT
1 T--TTTTTCT
7962429 TTTTTTC
1 TTTTTTC
7962436 AAACCCTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 17 0.40
9 11 0.26
10 15 0.35
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCT
Found at i:7962397 original size:28 final size:28
Alignment explanation
Indices: 7962354--7962434 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
7962344 CCCGACTATA
* *
7962354 TTTTTTTATTTTTTTCTCTTCTTTTT-TC
1 TTTTTTTCTTTCTTTCTCTT-TTTTTATC
7962382 TTTTTTTCTTTCTTTC-CTTTTTTTATC
1 TTTTTTTCTTTCTTTCTCTTTTTTTATC
* * *
7962409 TCTTTCTTCTTCCTTTTTCTTTTTTT
1 T-TTTTTTCTTTCTTTCTCTTTTTTT
7962435 CAAACCCTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.11
27 6 0.13
28 26 0.58
29 8 0.18
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTTTTTCTTTCTTTCTCTTTTTTTATC
Found at i:7962412 original size:17 final size:17
Alignment explanation
Indices: 7962381--7962414 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7962371 CTTCTTTTTT
* *
7962381 CTTTTTTTCTTTCTTTC
1 CTTTTTTTATCTCTTTC
7962398 CTTTTTTTATCTCTTTC
1 CTTTTTTTATCTCTTTC
7962415 TTCTTCCTTT
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:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (17 bp):
CTTTTTTTATCTCTTTC
Found at i:7962426 original size:39 final size:37
Alignment explanation
Indices: 7962362--7962435 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 37
7962352 TATTTTTTTA
* *
7962362 TTTTTTTCTCTTCTTTTTTCTTTTTTTCTTTCTTTCCT
1 TTTTTTTCTCTTCTTTCTTC-CTTTTTCTTTCTTTCCT
*
7962400 TTTTTTATCTCTT-TCTTCTTCCTTTTTCTTTTTTTC
1 TTTTTT-TCTCTTCT-TTCTTCCTTTTTCTTTCTTTC
7962436 AAACCCTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 20 0.65
39 11 0.35
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (37 bp):
TTTTTTTCTCTTCTTTCTTCCTTTTTCTTTCTTTCCT
Found at i:7988696 original size:24 final size:22
Alignment explanation
Indices: 7988669--7988712 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
7988659 AAAATTCAAA
7988669 ATTTTTCTTTCCATTTATTAAAAG
1 ATTTTTC--TCCATTTATTAAAAG
*
7988693 ATTTTTCTGCATTTATTAAA
1 ATTTTTCTCCATTTATTAAA
7988713 TCTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
24 7 0.37
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTTCTCCATTTATTAAAAG
Found at i:7991237 original size:34 final size:32
Alignment explanation
Indices: 7991197--7991278 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 32
7991187 GATCCAAAGT
*
7991197 TTTATGTAAGTTATGATATGATATAT-ATTTATGTA
1 TTTATGTAAGTTATGATAAG-T-TATGA--TATGTA
7991232 -TTATGTAAGTTATG-TAAGTTATGATATGTA
1 TTTATGTAAGTTATGATAAGTTATGATATGTA
7991262 TTTATGTAAGTTATGAT
1 TTTATGTAAGTTATGAT
7991279 CTAAAGTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
30 6 0.14
31 17 0.40
32 3 0.07
33 3 0.07
34 14 0.33
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (32 bp):
TTTATGTAAGTTATGATAAGTTATGATATGTA
Found at i:7992291 original size:20 final size:20
Alignment explanation
Indices: 7992262--7992300 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7992252 TTTAAAATTA
7992262 TAAAAATAAAAAAATAAAAT
1 TAAAAATAAAAAAATAAAAT
* *
7992282 TAAAATTAAAAATATAAAA
1 TAAAAATAAAAAAATAAAA
7992301 AATTCATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAAATAAAAAAATAAAAT
Found at i:8002204 original size:18 final size:18
Alignment explanation
Indices: 8002181--8002215 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8002171 CGAGGCTTGA
*
8002181 ATTTTCAAGCTCGAGCCT
1 ATTTTCAAGCTCAAGCCT
8002199 ATTTTCAAGCTCAAGCC
1 ATTTTCAAGCTCAAGCC
8002216 CGACCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (18 bp):
ATTTTCAAGCTCAAGCCT
Found at i:8003797 original size:13 final size:13
Alignment explanation
Indices: 8003779--8003829 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
8003769 AAAATAAATA
8003779 TTAATTAATTAAT
1 TTAATTAATTAAT
* *
8003792 TTAATTAATCAAA
1 TTAATTAATTAAT
*
8003805 TTAACTAAATTAAT
1 TTAA-TTAATTAAT
*
8003819 TT-CTTAATTAA
1 TTAATTAATTAA
8003830 ATAGTTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 7 0.23
13 15 0.50
14 8 0.27
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:8006186 original size:43 final size:43
Alignment explanation
Indices: 8006128--8006209 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
8006118 CGCTTTAGTG
**
8006128 GAAGAGCCGCTAAAGACCCTGATCTTTAGCGACGTTTTTGGGA
1 GAAGAGCCGCTAAAGACCAGGATCTTTAGCGACGTTTTTGGGA
* * * *
8006171 GAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTT
1 GAAGAGCCGCTAAAGACCAGGATCTTTAGCGACGTTTTT
8006210 TTCTCAAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (43 bp):
GAAGAGCCGCTAAAGACCAGGATCTTTAGCGACGTTTTTGGGA
Found at i:8006262 original size:43 final size:43
Alignment explanation
Indices: 8006214--8006485 Score: 226
Period size: 43 Copynumber: 6.3 Consensus size: 43
8006204 GTTTTTTTCT
* * *
8006214 CAAACGCCGC-AATAGACCCTGATCTATACCGGCGCTTTGACCA
1 CAAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTTGACCA
* * * ** *
8006257 TAAACGCC-ATGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCT
1 CAAACGCCGCT-AAAGACCCTAATCTTTAGCGGCGCTTTGACCA
* * * *
8006300 CAAACACTGC-AATAGACCCTAATCTATAGCGGCGCTTCGACCA
1 CAAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTTGACCA
* * * * **
8006343 CAAACACCACTAAAGAACCTAATCTTTAGCGGTGCTTTCCCCA
1 CAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTGACCA
* * * * **
8006386 CAAACGCCGCTAAAGACCATGATCTTTAGTGGCGTTTTTTCCA
1 CAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTGACCA
* * *
8006429 CAAACGCCGCTAAAGACCCTTATCTTTAGTGGCGCTTTGACAA
1 CAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTGACCA
* *
8006472 AAAACGCCACTAAA
1 CAAACGCCGCTAAA
8006486 TATGGCAGAT
Statistics
Matches: 179, Mismatches: 45, Indels: 10
0.76 0.19 0.04
Matches are distributed among these distances:
42 2 0.01
43 173 0.97
44 4 0.02
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (43 bp):
CAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTGACCA
Found at i:8006430 original size:86 final size:86
Alignment explanation
Indices: 8006214--8006466 Score: 258
Period size: 86 Copynumber: 2.9 Consensus size: 86
8006204 GTTTTTTTCT
* * * * * * *
8006214 CAAACGCCGCAATAGACCCTGATCTATACCGGCGCTTTGACCATAAACGCCA-TGAAAGAACCTA
1 CAAACACCGCAATAGACCATAATCTATAGCGGCGCTTCGACCACAAACACCACT-AAAGAACCTA
*
8006278 ATCTTTAGCGGCGCTTTCCCCT
65 ATCTTTAGCGGCGCTTTCCCCA
* *
8006300 CAAACACTGCAATAGACCCTAATCTATAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTAA
1 CAAACACCGCAATAGACCATAATCTATAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTAA
*
8006365 TCTTTAGCGGTGCTTTCCCCA
66 TCTTTAGCGGCGCTTTCCCCA
* * * * * *** * * * *
8006386 CAAACGCCGCTAA-AGACCATGATCTTTAGTGGCGTTTTTTCCACAAACGCCGCTAAAGACCCTT
1 CAAACACCGC-AATAGACCATAATCTATAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTA
*
8006450 ATCTTTAGTGGCGCTTT
65 ATCTTTAGCGGCGCTTT
8006467 GACAAAAAAC
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
86 137 0.98
87 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (86 bp):
CAAACACCGCAATAGACCATAATCTATAGCGGCGCTTCGACCACAAACACCACTAAAGAACCTAA
TCTTTAGCGGCGCTTTCCCCA
Found at i:8006827 original size:21 final size:21
Alignment explanation
Indices: 8006793--8006852 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
8006783 TTTGACGCTG
* *
8006793 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCTCTCGCTGCAGC
* * *
8006814 CTGTACTTCTCTCGTTGCCGC
1 CTCTACTTCTCTCGCTGCAGC
* *
8006835 CTCTGCTTCTCTTGCTGC
1 CTCTACTTCTCTCGCTGC
8006853 TGCATCTGCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.03, C:0.42, G:0.18, T:0.37
Consensus pattern (21 bp):
CTCTACTTCTCTCGCTGCAGC
Found at i:8006911 original size:66 final size:66
Alignment explanation
Indices: 8006834--8006999 Score: 210
Period size: 66 Copynumber: 2.5 Consensus size: 66
8006824 CTCGTTGCCG
* *
8006834 CCTCTGCTTCTCTTGCTGCTGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
8006897 GAA
64 GAA
* * * *
8006900 CCTCAGCTTCTCTCGTTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
8006965 A
66 A
* * * *
8006966 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
8007000 TTGTGTAATT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 82 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:8012427 original size:9 final size:9
Alignment explanation
Indices: 8012391--8012752 Score: 170
Period size: 9 Copynumber: 43.0 Consensus size: 9
8012381 AATTGCACGG
8012391 GTAAGTTAT
1 GTAAGTTAT
*
8012400 GT-A-TTGT
1 GTAAGTTAT
*
8012407 GTAAGCTAT
1 GTAAGTTAT
*
8012416 GTAAGTTGT
1 GTAAGTTAT
8012425 GT-A-TTAT
1 GTAAGTTAT
8012432 GTAAGTTAT
1 GTAAGTTAT
8012441 -T-A-TTAT
1 GTAAGTTAT
8012447 GCTTTAAGTTAT
1 G---TAAGTTAT
*
8012459 GTAAGTAAT
1 GTAAGTTAT
8012468 GT-A-TTAT
1 GTAAGTTAT
*
8012475 GTAAGTTGT
1 GTAAGTTAT
*
8012484 GT-A-TAAT
1 GTAAGTTAT
*
8012491 GTTAGTTAT
1 GTAAGTTAT
**
8012500 CAAAGTTAT
1 GTAAGTTAT
8012509 GT-A-TTAT
1 GTAAGTTAT
8012516 GTAAGTTAT
1 GTAAGTTAT
*
8012525 TTAAGTTAT
1 GTAAGTTAT
*
8012534 GTAA--CAT
1 GTAAGTTAT
*
8012541 GTAAATTAT
1 GTAAGTTAT
*
8012550 GTAAGTTGT
1 GTAAGTTAT
*
8012559 GT-A-TAAT
1 GTAAGTTAT
*
8012566 GTTAGTTAT
1 GTAAGTTAT
**
8012575 CAAAGTTAT
1 GTAAGTTAT
8012584 GT-A-TTAT
1 GTAAGTTAT
8012591 GTAAGTTAT
1 GTAAGTTAT
*
8012600 TTAAGTTAT
1 GTAAGTTAT
*
8012609 GTAA--CAT
1 GTAAGTTAT
*
8012616 GTAAATTAT
1 GTAAGTTAT
8012625 GTAAGTTAT
1 GTAAGTTAT
* *
8012634 GTAGGCTAT
1 GTAAGTTAT
* *
8012643 GTATGTTAA
1 GTAAGTTAT
*
8012652 GTAAGTAAT
1 GTAAGTTAT
8012661 GT-A-TTAT
1 GTAAGTTAT
*
8012668 GTAAGTTGT
1 GTAAGTTAT
*
8012677 GT-A-TAAT
1 GTAAGTTAT
*
8012684 GTTAGTTAT
1 GTAAGTTAT
**
8012693 CAAAGTTAT
1 GTAAGTTAT
8012702 GT-A-TTAT
1 GTAAGTTAT
***
8012709 GTGTTTCTAT
1 GTAAGT-TAT
*
8012719 TTAAGTTAT
1 GTAAGTTAT
*
8012728 GTAAGTTGT
1 GTAAGTTAT
8012737 GT-A-TTAT
1 GTAAGTTAT
8012744 GTAAGTTAT
1 GTAAGTTAT
8012753 TAAAAATTGA
Statistics
Matches: 258, Mismatches: 62, Indels: 66
0.67 0.16 0.17
Matches are distributed among these distances:
6 4 0.02
7 68 0.26
8 22 0.09
9 152 0.59
10 6 0.02
11 1 0.00
12 5 0.02
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:8012432 original size:16 final size:16
Alignment explanation
Indices: 8012413--8012692 Score: 99
Period size: 16 Copynumber: 17.8 Consensus size: 16
8012403 TTGTGTAAGC
*
8012413 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
8012429 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
*
8012444 TATGCT---TTAAG--T
1 TATG-TAAGTTATGTAT
*
8012456 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
8012472 TATGTAAGTTGTGTA-
1 TATGTAAGTTATGTAT
*
8012487 TA---ATGTTA-G--T
1 TATGTAAGTTATGTAT
**
8012497 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
8012513 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
8012531 TATGTAA--CATGTAAAT
1 TATGTAAGTTATGT--AT
*
8012547 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * **
8012563 AATGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
8012581 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
8012597 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
8012613 CATGTAAATTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
8012631 TATGTAGGCTATGTATGT
1 TATGTAAGTTATGTA--T
* *
8012649 TAAGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
8012665 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* *
8012681 AATGTTAGTTAT
1 TATGTAAGTTAT
8012693 CAAAGTTATG
Statistics
Matches: 193, Mismatches: 44, Indels: 54
0.66 0.15 0.19
Matches are distributed among these distances:
10 2 0.01
11 2 0.01
12 9 0.05
13 8 0.04
14 4 0.02
15 9 0.05
16 105 0.54
17 9 0.05
18 45 0.23
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:8012499 original size:25 final size:25
Alignment explanation
Indices: 8012451--8012679 Score: 189
Period size: 25 Copynumber: 9.1 Consensus size: 25
8012441 TATTATGCTT
8012451 TAAGTTATGTAAGTAATGT-A-TTATG
1 TAAGTTATGT-A-TAATGTAAGTTATG
* * *
8012476 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTAAGTTATG
* * *
8012501 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTAAGTTATG
*
8012526 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTAAGTTATG
* * *
8012551 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTAAGTTATG
* * *
8012576 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTAAGTTATG
*
8012601 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTAAGTTATG
* *
8012626 TAAGTTATGTAGGCT-ATGTATGTTAAG
1 TAAGTTATGTA---TAATGTAAGTTATG
* * *
8012653 TAAGTAATGTATTATGTAAGTTGTG
1 TAAGTTATGTATAATGTAAGTTATG
8012678 TA
1 TA
8012680 TAATGTTAGT
Statistics
Matches: 163, Mismatches: 31, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
23 6 0.04
24 3 0.02
25 134 0.82
26 1 0.01
27 19 0.12
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATAATGTAAGTTATG
Found at i:8012530 original size:50 final size:50
Alignment explanation
Indices: 8012471--8012710 Score: 171
Period size: 50 Copynumber: 4.9 Consensus size: 50
8012461 AAGTAATGTA
*
8012471 TTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
* * * ** * * *
8012521 TTATTTAAGTTATGTA-ACATGTAAATTATGTAAGTTGTGTATAATGTTAG
1 TTATGTAAGTTATGTATA-ATGTTAGTTATCAAAGTTATGTATTATGTAAG
** * * ** ** *
8012571 TTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTATGTAACATGTAAA
1 TTATGTAAGTTATGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
*
8012621 TTATGTAAGTTATGTAGGCT-ATG-TA-TGT-T--AAG-TAAGTA--ATGT-A-
1 TTATGTAAGTTATGTA---TAATGTTAGT-TATCAAAGTTATGTATTATGTAAG
*
8012664 TTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGT
1 TTATGTAAGTTATGTATAATGTTAGTTATCAAAGTTATGTATTATGT
8012711 GTTTCTATTT
Statistics
Matches: 150, Mismatches: 25, Indels: 32
0.72 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 3 0.02
43 17 0.11
44 1 0.01
45 7 0.05
46 5 0.03
47 5 0.03
48 7 0.05
49 1 0.01
50 94 0.63
51 2 0.01
52 3 0.02
53 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (50 bp):
TTATGTAAGTTATGTATAATGTTAGTTATCAAAGTTATGTATTATGTAAG
Found at i:8012530 original size:75 final size:74
Alignment explanation
Indices: 8012449--8012636 Score: 306
Period size: 75 Copynumber: 2.5 Consensus size: 74
8012439 ATTATTATGC
8012449 TTTAAGTTATGTAAGTAATGT-ATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTAT
1 TTTAAGTTATGTAA--AATGTAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTAT
8012513 TATGTAAGTTA
64 TATGTAAGTTA
*
8012524 TTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
1 TTTAAGTTATGTAAAATGT-AATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
8012589 ATGTAAGTTA
65 ATGTAAGTTA
* *
8012599 TTTAAGTTATGTAACATGTAAATTATGTAAGTTATGTA
1 TTTAAGTTATGTAAAATGT-AATTATGTAAGTTGTGTA
8012637 GGCTATGTAT
Statistics
Matches: 109, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
73 4 0.04
75 105 0.96
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.46
Consensus pattern (74 bp):
TTTAAGTTATGTAAAATGTAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTA
TGTAAGTTA
Found at i:8012737 original size:26 final size:25
Alignment explanation
Indices: 8012508--8012752 Score: 85
Period size: 25 Copynumber: 9.7 Consensus size: 25
8012498 ATCAAAGTTA
* *
8012508 TGTATTATGTAAGTTATTTAAGT-TA
1 TGTATTATGTAAGTTATGT-AGTATG
** *
8012533 TGTAACATGTAAATTATGTAAGT-TG
1 TGTATTATGTAAGTTATGT-AGTATG
* * ** *
8012558 TGTATAATGTTAGTTATCAAAGT-TA
1 TGTATTATGTAAGTTAT-GTAGTATG
* *
8012583 TGTATTATGTAAGTTATTTAAGT-TA
1 TGTATTATGTAAGTTATGT-AGTATG
** *
8012608 TGTAACATGTAAATTATGTAAGTTATG
1 TGTATTATGTAAGTTATGT-AG-TATG
** * * *
8012635 TAG-GCTATGTATGTTAAGTAAGTA-A
1 T-GTATTATGTAAGTTATGT-AGTATG
*
8012660 TGTATTATGTAAGTTGTGTA-TAATG
1 TGTATTATGTAAGTTATGTAGT-ATG
** *
8012685 T-TAGTTATCAAAGTTATGTATTATG
1 TGTA-TTATGTAAGTTATGTAGTATG
* *
8012710 TGTTTCTATTTAAGTTATGTAAGT-TG
1 TGTAT-TATGTAAGTTATGT-AGTATG
8012736 TGTATTATGTAAGTTAT
1 TGTATTATGTAAGTTAT
8012753 TAAAAATTGA
Statistics
Matches: 164, Mismatches: 43, Indels: 26
0.70 0.18 0.11
Matches are distributed among these distances:
23 1 0.01
24 5 0.03
25 117 0.71
26 23 0.14
27 17 0.10
28 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (25 bp):
TGTATTATGTAAGTTATGTAGTATG
Found at i:8012847 original size:27 final size:27
Alignment explanation
Indices: 8012809--8012864 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
8012799 TATATTAAAA
*
8012809 ATATAGGTTTTAATATTTTAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
8012836 ATATAGGTTTTAATATTTAAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
8012863 AT
1 AT
8012865 TTACAATTAT
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:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (27 bp):
ATATAGGTTTTAATATTTAAAAATAAC
Found at i:8012968 original size:121 final size:121
Alignment explanation
Indices: 8012836--8013060 Score: 407
Period size: 121 Copynumber: 1.9 Consensus size: 121
8012826 TTAAAATAAC
*
8012836 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATT-TCT
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGAC-
8012900 AATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
65 AATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
* *
8012957 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATCAAATTTATTGACA
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACA
8013022 ATAAAATTGAAATATAGGTTATATATCCATACCATATAT
66 ATAAAATTGAAATATAGGTTATATATCCATACCATATAT
8013061 ATAAATTTTT
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
121 99 0.99
122 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (121 bp):
ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACA
ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
Found at i:8013115 original size:18 final size:18
Alignment explanation
Indices: 8013092--8013180 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
8013082 ATATAAAAAG
8013092 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
8013110 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
**
8013132 TTTTTGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
8013149 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
8013167 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
8013181 GTAAGTAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 30 0.49
19 3 0.05
20 3 0.05
21 4 0.07
22 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:8013170 original size:35 final size:37
Alignment explanation
Indices: 8013096--8013329 Score: 177
Period size: 39 Copynumber: 6.0 Consensus size: 37
8013086 AAAAAGTTTA
8013096 AGTAATGTAATATATTTAAGTAATGTAAGTTATAAATTTT
1 AGTAA-GTAATATATTTAAGTAATGTAAG-TAT-AATTTT
*
8013136 TGTAAGTAATATATTTAAGTAATGTAA-TAT-ATTTT
1 AGTAAGTAATATATTTAAGTAATGTAAGTATAATTTT
* ** * * *
8013171 AGTAAGTAATGTAAGTAATGTAATATATACTTTAATTTT
1 AGTAAGTAATATATTTAA-GTAATGTA-AGTATAATTTT
* * * ** *
8013210 AGTAAGTCATGTATTTAAGTAATATATTTAATCCAATTCT
1 AGTAAGTAATATATTTAAGTAATGTAAGT-AT--AATTTT
* *
8013250 AGTAAGTAATGTATTTAAGTAATATATTTAAGTA-AATTTT
1 AGTAAGTAATATATTTAAG---TA-ATGTAAGTATAATTTT
*
8013290 AGTAATTAATATATTTAAGTAATGTAAGTTATAAATTTT
1 AGTAAGTAATATATTTAAGTAATGTAAG-TAT-AATTTT
8013329 A
1 A
8013330 AAAATATATA
Statistics
Matches: 158, Mismatches: 22, Indels: 29
0.76 0.11 0.14
Matches are distributed among these distances:
35 19 0.12
36 13 0.08
37 9 0.06
38 11 0.07
39 49 0.31
40 49 0.31
43 3 0.02
44 5 0.03
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (37 bp):
AGTAAGTAATATATTTAAGTAATGTAAGTATAATTTT
Found at i:8013175 original size:31 final size:31
Alignment explanation
Indices: 8013094--8013198 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
8013084 ATAAAAAGTT
8013094 TAAGTAATGTAATATA--TT--TAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
* * *
8013121 TAAGT--TATAA-ATTTTTGTAAGTAA-TATATT
1 TAAGTAATGTAATATATTT-T-AGTAAGTA-ATG
8013151 TAAGTAATGTAATATATTTTAGTAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
8013182 TAAGTAATGTAATATAT
1 TAAGTAATGTAATATAT
8013199 ACTTTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 1 0.02
27 6 0.10
29 2 0.03
30 10 0.16
31 24 0.39
32 7 0.11
33 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAGTAATGTAATATATTTTAGTAAGTAATG
Found at i:8013237 original size:13 final size:13
Alignment explanation
Indices: 8013221--8013312 Score: 73
Period size: 13 Copynumber: 6.9 Consensus size: 13
8013211 GTAAGTCATG
8013221 TATTTAAGTAATA
1 TATTTAAGTAATA
8013234 TATTTAA-TCCAAT-
1 TATTTAAGT--AATA
* * *
8013247 TCTAGTAAGTAATG
1 TAT-TTAAGTAATA
8013261 TATTTAAGTAATA
1 TATTTAAGTAATA
8013274 TATTTAAGTAA-A
1 TATTTAAGTAATA
* *
8013286 TTTTAGTAATTAATA
1 TATT--TAAGTAATA
8013301 TATTTAAGTAAT
1 TATTTAAGTAAT
8013313 GTAAGTTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
12 5 0.08
13 38 0.61
14 14 0.23
15 5 0.08
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:8013262 original size:40 final size:39
Alignment explanation
Indices: 8013206--8013329 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 39
8013196 TATACTTTAA
* *
8013206 TTTTAGTAAGTCATGTATTTAAGTAATATATTTAATCCAA
1 TTTTAGTAAGTAATGTATTTAAGTAATATATTTAAT-AAA
*
8013246 TTCTAGTAAGTAATGTATTTAAGTAATATATTTAAGTAAA
1 TTTTAGTAAGTAATGTATTTAAGTAATATATTTAA-TAAA
* * * *
8013286 TTTTAGTAATTAATATATTTAAGTAATGTAAGTT-ATAAA
1 TTTTAGTAAGTAATGTATTTAAGTAATAT-ATTTAATAAA
8013325 TTTTA
1 TTTTA
8013330 AAAATATATA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 9 0.12
40 61 0.82
41 4 0.05
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.46
Consensus pattern (39 bp):
TTTTAGTAAGTAATGTATTTAAGTAATATATTTAATAAA
Found at i:8013378 original size:11 final size:11
Alignment explanation
Indices: 8013347--8013379 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
8013337 ATATATTAAT
8013347 AATTCATTGAC
1 AATTCATTGAC
8013358 -ATTCATTGAC
1 AATTCATTGAC
*
8013368 AATTCACTGAC
1 AATTCATTGAC
8013379 A
1 A
8013380 GTCAACCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:8016315 original size:8 final size:8
Alignment explanation
Indices: 8016304--8016338 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
8016294 TTTTTATTTC
8016304 ATTTTTAT
1 ATTTTTAT
8016312 ATTTTTAT
1 ATTTTTAT
*
8016320 ATTTTTTT
1 ATTTTTAT
*
8016328 ATTTTTTT
1 ATTTTTAT
8016336 ATT
1 ATT
8016339 CCAAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
ATTTTTAT
Found at i:8016954 original size:15 final size:15
Alignment explanation
Indices: 8016934--8017028 Score: 113
Period size: 15 Copynumber: 6.4 Consensus size: 15
8016924 TTAATTGACA
8016934 CCCTAAATTCCTAAC
1 CCCTAAATTCCTAAC
* *
8016949 CCCT-AACTCTTAAC
1 CCCTAAATTCCTAAC
* *
8016963 CCTTAAATCTCCTAGC
1 CCCTAAAT-TCCTAAC
8016979 CCCTAAATTCCTAAC
1 CCCTAAATTCCTAAC
*
8016994 CCCT-AACTCCTAAC
1 CCCTAAATTCCTAAC
*
8017008 CCCTAAATCCCTAAC
1 CCCTAAATTCCTAAC
8017023 CCCTAA
1 CCCTAA
8017029 CCCCTAAACC
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
14 24 0.36
15 30 0.45
16 12 0.18
ACGTcount: A:0.31, C:0.43, G:0.01, T:0.25
Consensus pattern (15 bp):
CCCTAAATTCCTAAC
Found at i:8016962 original size:14 final size:14
Alignment explanation
Indices: 8016942--8017035 Score: 98
Period size: 14 Copynumber: 6.4 Consensus size: 14
8016932 CACCCTAAAT
8016942 TCCTAACCCCTAAC
1 TCCTAACCCCTAAC
* *
8016956 TCTTAACCCTTAAATC
1 TCCTAACCCCT-AA-C
* *
8016972 TCCTAGCCCCTAAAT
1 TCCTAACCCCT-AAC
8016987 TCCTAACCCCTAAC
1 TCCTAACCCCTAAC
*
8017001 TCCTAACCCCTAAA
1 TCCTAACCCCTAAC
8017015 TCCCTAACCCCTAAC
1 T-CCTAACCCCTAAC
*
8017030 CCCTAA
1 TCCTAA
8017036 ACCATATATC
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
14 30 0.45
15 24 0.36
16 12 0.18
ACGTcount: A:0.30, C:0.45, G:0.01, T:0.24
Consensus pattern (14 bp):
TCCTAACCCCTAAC
Found at i:8016983 original size:45 final size:44
Alignment explanation
Indices: 8016934--8017028 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 44
8016924 TTAATTGACA
* * *
8016934 CCCTAAATTCCTAACCCCTAACTCTTAACCCTTAAATCTCCTAGC
1 CCCTAAATTCCTAACCCCTAACTCCTAACCCCTAAATC-CCTAAC
8016979 CCCTAAATTCCTAACCCCTAACTCCTAACCCCTAAATCCCTAAC
1 CCCTAAATTCCTAACCCCTAACTCCTAACCCCTAAATCCCTAAC
8017023 CCCTAA
1 CCCTAA
8017029 CCCCTAAACC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 11 0.23
45 36 0.77
ACGTcount: A:0.31, C:0.43, G:0.01, T:0.25
Consensus pattern (44 bp):
CCCTAAATTCCTAACCCCTAACTCCTAACCCCTAAATCCCTAAC
Done.