Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 172 of 199
Found at i:50273698 original size:19 final size:19
Alignment explanation
Indices: 50273632--50273698 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
50273622 AGTTAATTGG
* *
50273632 CACGTAAGTGCATACTGGCG
1 CACG-AAGTGCATTCTGGCA
* *
50273652 CTCGAAGTGCGTAT-TGGCA
1 CACGAAGTGCAT-TCTGGCA
50273671 CAC-ATAGTGCATTCTGGCA
1 CACGA-AGTGCATTCTGGCA
50273690 CACGAAGTG
1 CACGAAGTG
50273699 AATCTTGGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.05
19 31 0.84
20 4 0.11
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (19 bp):
CACGAAGTGCATTCTGGCA
Found at i:50273869 original size:25 final size:25
Alignment explanation
Indices: 50273836--50273891 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
50273826 TTTTCAATCA
* *
50273836 TATCCACCATCGTTATTCAATTCGT
1 TATCAACCATCGTAATTCAATTCGT
50273861 TATCAACCATCGTAATTCAATTCGT
1 TATCAACCATCGTAATTCAATTCGT
50273886 TATCAA
1 TATCAA
50273892 GTCATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (25 bp):
TATCAACCATCGTAATTCAATTCGT
Found at i:50274659 original size:3 final size:3
Alignment explanation
Indices: 50274651--50274723 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
50274641 ACCCTTCAAT
50274651 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
50274699 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
50274724 TTTCCATCTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:50275631 original size:26 final size:28
Alignment explanation
Indices: 50275595--50275655 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
50275585 TGAAAAAATC
50275595 AAAAAT-TAAAATCAA-T-AAA-AATGAT
1 AAAAATATAAAAT-AATTAAAATAATGAT
*
50275620 AAAAATATAAAATAATTAAAATAATTAT
1 AAAAATATAAAATAATTAAAATAATGAT
50275648 AAAAATAT
1 AAAAATAT
50275656 GTAAAAGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 8 0.26
26 7 0.23
27 3 0.10
28 13 0.42
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAATATAAAATAATTAAAATAATGAT
Found at i:50275895 original size:8 final size:9
Alignment explanation
Indices: 50275876--50275900 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
50275866 TCTTACACTA
50275876 TTTTTAATT
1 TTTTTAATT
50275885 TTTTTAATT
1 TTTTTAATT
50275894 TTTTTAA
1 TTTTTAA
50275901 AAAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:50275930 original size:32 final size:31
Alignment explanation
Indices: 50275883--50275942 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
50275873 CTATTTTTAA
*
50275883 TTTTTTTAATTTTTTTAAAAAATTTCTACAG
1 TTTTTTTAATATTTTTAAAAAATTTCTACAG
* *
50275914 TTTTTTATAATATTTTTATAAATTTTCTA
1 TTTTTT-TAATATTTTTAAAAAATTTCTA
50275943 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (31 bp):
TTTTTTTAATATTTTTAAAAAATTTCTACAG
Found at i:50291045 original size:120 final size:120
Alignment explanation
Indices: 50290879--50291705 Score: 1595
Period size: 120 Copynumber: 6.9 Consensus size: 120
50290869 ACTAGCATCA
*
50290879 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAACATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
50290944 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
50290999 ACAGTATCATATATTATGATTTGAGTAAATCAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
50291064 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
50291119 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
50291184 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
50291239 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
50291304 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
50291359 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
50291424 AATTATATAG-TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
50291478 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
50291543 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
50291598 ACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
50291663 AATTATATA-TTGTAATTAAAATATATTTAATAATAATTATGTT
66 AATTATATAGTT-TAATTAAAATATATTTAATAATAATTATGTT
50291706 TAAATATGAT
Statistics
Matches: 700, Mismatches: 5, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
119 121 0.17
120 579 0.83
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (120 bp):
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
Found at i:50291902 original size:44 final size:45
Alignment explanation
Indices: 50291853--50291943 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
50291843 ACCTCTATTC
* * *
50291853 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
50291897 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
50291942 CA
1 CA
50291944 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:50291945 original size:16 final size:16
Alignment explanation
Indices: 50291924--50291992 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
50291914 GATTAGCTAT
50291924 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
50291940 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
50291957 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
50291973 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
50291989 TACA
1 TACA
50291993 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:50291966 original size:33 final size:32
Alignment explanation
Indices: 50291924--50291992 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
50291914 GATTAGCTAT
50291924 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
50291957 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
50291989 TACA
1 TACA
50291993 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:50303417 original size:146 final size:146
Alignment explanation
Indices: 50303153--50303453 Score: 584
Period size: 146 Copynumber: 2.1 Consensus size: 146
50303143 TACATATAAC
*
50303153 CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGTTCAT
1 CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGCTCAT
50303218 ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCA
66 ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCA
50303283 GTGCAACCTTAGCAAT
131 GTGCAACCTTAGCAAT
50303299 CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGCTCAT
1 CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGCTCAT
*
50303364 ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCC
66 ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCA
50303429 GTGCAACCTTAGCAAT
131 GTGCAACCTTAGCAAT
50303445 CAATTCAGT
1 CAATTCAGT
50303454 GAAAATGGGC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 153 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (146 bp):
CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGCTCAT
ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCA
GTGCAACCTTAGCAAT
Found at i:50305155 original size:92 final size:92
Alignment explanation
Indices: 50305037--50305237 Score: 280
Period size: 92 Copynumber: 2.2 Consensus size: 92
50305027 GTATTTTGGA
* * *
50305037 AATTGAGTAC-AAAAAAAGGAGCATGGGCTTAATTGCTT-TTGTTAAAAAAATTTTAGGGTCTTT
1 AATTGAGTACAAAAAAAAGGAGCATGGGCTTAATTGCTTGTT-TTAAAAAAATTTGAGAGCCTTT
* *
50305100 TTGATGCATTTTGACAGTTCAAGTACCC
65 TTGATGCATTTTAAAAGTTCAAGTACCC
* *
50305128 AATTGAGTACAAAAAAAAGGAGCATGGGCTTAATTGCTTGTTTTGAAAAAGTTTGAGAGCCTTTT
1 AATTGAGTACAAAAAAAAGGAGCATGGGCTTAATTGCTTGTTTTAAAAAAATTTGAGAGCCTTTT
*
50305193 TGATGCATTTTAAAAGTTTAAGTACCC
66 TGATGCATTTTAAAAGTTCAAGTACCC
* **
50305220 AATTAAGTGTAAAAAAAA
1 AATTGAGTACAAAAAAAA
50305238 AGAGTTTAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 10 0.10
92 85 0.88
93 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (92 bp):
AATTGAGTACAAAAAAAAGGAGCATGGGCTTAATTGCTTGTTTTAAAAAAATTTGAGAGCCTTTT
TGATGCATTTTAAAAGTTCAAGTACCC
Found at i:50319372 original size:33 final size:33
Alignment explanation
Indices: 50319335--50319400 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
50319325 GTTGTTTGTT
* *
50319335 TTTGCTCATGTTTGCTGCGATTTTGTTCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
50319368 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
50319401 AATGGTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (33 bp):
TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
Found at i:50321216 original size:18 final size:19
Alignment explanation
Indices: 50321193--50321231 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
50321183 GAGGCATTTT
* *
50321193 AAGCTTTTGCA-AAATTCA
1 AAGCTTTGGCAGAAAATCA
50321211 AAGCTTTGGCAGAAAATCA
1 AAGCTTTGGCAGAAAATCA
50321230 AA
1 AA
50321232 TAGGCTGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (19 bp):
AAGCTTTGGCAGAAAATCA
Found at i:50323882 original size:33 final size:33
Alignment explanation
Indices: 50323845--50323910 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
50323835 GTTGTTTGTG
* *
50323845 TTTGCTCATGTTTGCTGTCATTTTGTTCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
50323878 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
50323911 GATATAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.45
Consensus pattern (33 bp):
TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
Found at i:50327520 original size:24 final size:24
Alignment explanation
Indices: 50327488--50327543 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
50327478 TAACAGGACT
* *
50327488 ACCACAAAATAGGATTGAGAATAA
1 ACCACAAAATAGGATTAACAATAA
50327512 ACCACAAAATAGGATTAACAATAA
1 ACCACAAAATAGGATTAACAATAA
50327536 ACCACAAA
1 ACCACAAA
50327544 TTAGAAGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.14
Consensus pattern (24 bp):
ACCACAAAATAGGATTAACAATAA
Found at i:50327692 original size:127 final size:127
Alignment explanation
Indices: 50327531--50327790 Score: 466
Period size: 127 Copynumber: 2.0 Consensus size: 127
50327521 TAGGATTAAC
*
50327531 AATAAACCACAAATTAGAAGTAAATCGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
1 AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
* * *
50327596 CGGATTCTTAAAAATACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCTAGAG
66 AGGATTCTTAAAAAAACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
*
50327658 AATAAACCACAATTTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
1 AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
*
50327723 ATGATTCTTAAAAAAACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
66 AGGATTCTTAAAAAAACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
50327785 AATAAA
1 AATAAA
50327791 TTATTCTTTG
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 127 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (127 bp):
AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
AGGATTCTTAAAAAAACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
Found at i:50328638 original size:41 final size:41
Alignment explanation
Indices: 50328524--50328737 Score: 272
Period size: 41 Copynumber: 5.3 Consensus size: 41
50328514 GCACCTAATA
* * * * *
50328524 TTTGCGGCATTTAGGGGAAAAACGTCGTTATTGCTTTACCT
1 TTTGCGGCGTTTATGAGAAAAACGTTGCTATTGCTTTACCT
* *
50328565 TTAGCGGCGTTTATGA-AAAAATGTTGCTATTGCTTTACCT
1 TTTGCGGCGTTTATGAGAAAAACGTTGCTATTGCTTTACCT
* * *
50328605 TTTGCGGTGTTTATGAGAAAAACGTCGCTATTGCTTTATCT
1 TTTGCGGCGTTTATGAGAAAAACGTTGCTATTGCTTTACCT
* *
50328646 TTTGCGGCATTTATGAGAAAAACGTTGCTATTACTTTACCT
1 TTTGCGGCGTTTATGAGAAAAACGTTGCTATTGCTTTACCT
* *
50328687 TTTGCGGCGTTTATG-CAAAAACGTTGCTAATGC-TTACCT
1 TTTGCGGCGTTTATGAGAAAAACGTTGCTATTGCTTTACCT
*
50328726 TTTGCAGCGTTT
1 TTTGCGGCGTTT
50328738 TTGATCCAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
39 17 0.11
40 50 0.33
41 83 0.55
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (41 bp):
TTTGCGGCGTTTATGAGAAAAACGTTGCTATTGCTTTACCT
Found at i:50328659 original size:81 final size:81
Alignment explanation
Indices: 50328524--50328730 Score: 274
Period size: 81 Copynumber: 2.6 Consensus size: 81
50328514 GCACCTAATA
* * * * * *
50328524 TTTGCGGCATTTAGGGGAAAAACGTCGTTATTGCTTTACCTTTAGCGGCGTTTATGA-AAAAATG
1 TTTGCGGCGTTTA-TGGAAAAACGTCGCTATTGCTTTACCTTTTGCGGCATTTATGAGAAAAACG
*
50328588 TTGCTATTGCTTTACCT
65 TTGCTATTACTTTACCT
* *
50328605 TTTGCGGTGTTTATGAGAAAAACGTCGCTATTGCTTTATCTTTTGCGGCATTTATGAGAAAAACG
1 TTTGCGGCGTTTATG-GAAAAACGTCGCTATTGCTTTACCTTTTGCGGCATTTATGAGAAAAACG
50328670 TTGCTATTACTTTACCT
65 TTGCTATTACTTTACCT
* * *
50328687 TTTGCGGCGTTTATGCAAAAACGTTGCTAATGC-TTACCTTTTGC
1 TTTGCGGCGTTTATGGAAAAACGTCGCTATTGCTTTACCTTTTGC
50328731 AGCGTTTTTG
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 11 0.10
81 63 0.57
82 36 0.33
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (81 bp):
TTTGCGGCGTTTATGGAAAAACGTCGCTATTGCTTTACCTTTTGCGGCATTTATGAGAAAAACGT
TGCTATTACTTTACCT
Found at i:50338940 original size:6 final size:6
Alignment explanation
Indices: 50338929--50338982 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
50338919 ACGCCAAAGG
* * * *
50338929 AGGAGT AGGAGT GGGAGT GGGAGT GGGAGT GGGAGT AGGAGT AGGAGT
1 AGGAGT AGGAGT AGGAGT AGGAGT AGGAGT AGGAGT AGGAGT AGGAGT
50338977 AGGAGT
1 AGGAGT
50338983 GAGAGTAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.26, C:0.00, G:0.57, T:0.17
Consensus pattern (6 bp):
AGGAGT
Found at i:50338951 original size:12 final size:12
Alignment explanation
Indices: 50338929--50338990 Score: 79
Period size: 12 Copynumber: 5.2 Consensus size: 12
50338919 ACGCCAAAGG
*
50338929 AGGAGTAGGAGT
1 AGGAGTGGGAGT
*
50338941 GGGAGTGGGAGT
1 AGGAGTGGGAGT
*
50338953 GGGAGTGGGAGT
1 AGGAGTGGGAGT
*
50338965 AGGAGTAGGAGT
1 AGGAGTGGGAGT
*
50338977 AGGAGTGAGAGT
1 AGGAGTGGGAGT
50338989 AG
1 AG
50338991 ATATGGAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.27, C:0.00, G:0.56, T:0.16
Consensus pattern (12 bp):
AGGAGTGGGAGT
Found at i:50338957 original size:18 final size:18
Alignment explanation
Indices: 50338930--50338990 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
50338920 CGCCAAAGGA
50338930 GGAGTAGGAGTGGGAGTG
1 GGAGTAGGAGTGGGAGTG
* *
50338948 GGAGTGGGAGTGGGAGTA
1 GGAGTAGGAGTGGGAGTG
*
50338966 GGAGTAGGAGTAGGAGTG
1 GGAGTAGGAGTGGGAGTG
*
50338984 AGAGTAG
1 GGAGTAG
50338991 ATATGGAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.26, C:0.00, G:0.57, T:0.16
Consensus pattern (18 bp):
GGAGTAGGAGTGGGAGTG
Found at i:50353347 original size:24 final size:24
Alignment explanation
Indices: 50353319--50353378 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
50353309 AGTTTTTAGT
*
50353319 AAAAATCTCAACTACTCAAATCCA
1 AAAAATCTCAACTAATCAAATCCA
* * *
50353343 GAAAATCTCAACTAATTAAATCGA
1 AAAAATCTCAACTAATCAAATCCA
50353367 AAAAATCTCAAC
1 AAAAATCTCAAC
50353379 AAAATAATCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.52, C:0.23, G:0.03, T:0.22
Consensus pattern (24 bp):
AAAAATCTCAACTAATCAAATCCA
Found at i:50353393 original size:23 final size:24
Alignment explanation
Indices: 50353319--50353393 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
50353309 AGTTTTTAGT
* *
50353319 AAAAATCTCAAC-TACTCAAATCCA
1 AAAAATCTCAACAAAAT-AAATCCA
* * * *
50353343 GAAAATCTCAACTAATTAAATCGA
1 AAAAATCTCAACAAAATAAATCCA
*
50353367 AAAAATCTCAACAAAAT-AATCCT
1 AAAAATCTCAACAAAATAAATCCA
50353390 AAAA
1 AAAA
50353394 GATAAAGATC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 8 0.20
24 31 0.76
25 2 0.05
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (24 bp):
AAAAATCTCAACAAAATAAATCCA
Found at i:50354893 original size:43 final size:43
Alignment explanation
Indices: 50354836--50355020 Score: 226
Period size: 43 Copynumber: 4.3 Consensus size: 43
50354826 TTTTTCACAT
* * * *
50354836 AAACGCTGGTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * *
50354879 AAACGCCGATAAAGATCATTACCTTTAGCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
50354922 AATCGCCGCTAAAGAAAATAACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
50354965 AAGCGTCGCTAAATAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* *
50355008 AAATGCTGCTAAA
1 AAACGCCGCTAAA
50355021 AGTACCATTT
Statistics
Matches: 120, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:50360852 original size:9 final size:9
Alignment explanation
Indices: 50360838--50361197 Score: 266
Period size: 9 Copynumber: 41.1 Consensus size: 9
50360828 TAAGTATAAC
50360838 TAAGTTATG
1 TAAGTTATG
50360847 TAAGTTATG
1 TAAGTTATG
* * *
50360856 ATATGATATA
1 -TAAGTTATG
*
50360866 T-ATTTATG
1 TAAGTTATG
50360874 T-A-TTATG
1 TAAGTTATG
50360881 TAAGTTATG
1 TAAGTTATG
50360890 TAAGTTATG
1 TAAGTTATG
*
50360899 TGAGTTATG
1 TAAGTTATG
*
50360908 TAAATTATG
1 TAAGTTATG
*
50360917 TAAGTTTTG
1 TAAGTTATG
* * *
50360926 ATATGATATA
1 -TAAGTTATG
*
50360936 T-ATTTATG
1 TAAGTTATG
*
50360944 TAATTTATG
1 TAAGTTATG
*
50360953 TAAGTTGTG
1 TAAGTTATG
50360962 TAAGTTATG
1 TAAGTTATG
50360971 TAAGTTA--
1 TAAGTTATG
*
50360978 T-ATTTATG
1 TAAGTTATG
*
50360986 T-A-TTACG
1 TAAGTTATG
50360993 TAAGTTATG
1 TAAGTTATG
50361002 TAAGTTATG
1 TAAGTTATG
*
50361011 TAAATTATG
1 TAAGTTATG
50361020 TAAGTTATG
1 TAAGTTATG
50361029 T-A-TTATG
1 TAAGTTATG
**
50361036 TAAGTATAAA
1 TAAGT-TATG
50361046 TAAGTTATG
1 TAAGTTATG
*
50361055 TAAGTTCT-
1 TAAGTTATG
* *
50361063 TATA-TGATA
1 TA-AGTTATG
*
50361072 TATATTTATG
1 TA-AGTTATG
50361082 T-A-TTATG
1 TAAGTTATG
50361089 TAAGTTATG
1 TAAGTTATG
*
50361098 TGAGTTATG
1 TAAGTTATG
*
50361107 TGAGTTATG
1 TAAGTTATG
50361116 TAAGTTATG
1 TAAGTTATG
*
50361125 TAAATTATG
1 TAAGTTATG
50361134 TAAGTTATG
1 TAAGTTATG
*
50361143 TAAGTTTTG
1 TAAGTTATG
* * *
50361152 ATATGATATA
1 -TAAGTTATG
*
50361162 T-ATTTATG
1 TAAGTTATG
*
50361170 TAAATTATG
1 TAAGTTATG
50361179 TAAGTTATG
1 TAAGTTATG
*
50361188 TATGTTATG
1 TAAGTTATG
50361197 T
1 T
50361198 GGAAATTAGT
Statistics
Matches: 279, Mismatches: 53, Indels: 38
0.75 0.14 0.10
Matches are distributed among these distances:
6 4 0.01
7 24 0.09
8 25 0.09
9 199 0.71
10 27 0.10
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:50361184 original size:208 final size:207
Alignment explanation
Indices: 50360812--50361186 Score: 524
Period size: 208 Copynumber: 1.8 Consensus size: 207
50360802 ATTTACACAG
* * *
50360812 GTAAGTTTTTTATTTGTAAGTATAACTAAGTTATGTAAGTTATGATATGATATATATTTATGTAT
1 GTAAGTTATGTATTTGTAAGTATAAATAAGTTATGTAAGTTATGATATGATATATATTTATGTAT
* * *
50360877 TATGTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGTAAGTTTTGATATGATATATATTTA
66 TATGTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGTAAATTATGATAAGATATATATTTA
* * * *
50360942 TGTAATTTATGTAAGTTGTGTAAGTTATGTAAGTTATATTTATGTATTACGTAAGTTATGTAAGT
131 TGTAATATATATAAGTTATGTAAATTATGTAAGTTATATTTATGTATTACGTAAGTTATGTAAGT
50361007 TATGTAAATTAT
196 TATGTAAATTAT
* *
50361019 GTAAGTTATGTATTATGTAAGTATAAATAAGTTATGTAAGTTCTTATATGATATATATTTATGTA
1 GTAAGTTATGTATT-TGTAAGTATAAATAAGTTATGTAAGTTATGATATGATATATATTTATGTA
* * * *
50361084 TTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGTAAATTATG-TAAGTTATGTAAGT
65 TTATGTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGTAAATTATGATAAGATATAT-A-T
*
50361148 TT-TG--ATATGATATATATTTATGTAAATTATGTAAGTTAT
128 TTATGTAATAT-ATATA-AGTTATGTAAATTATGTAAGTTAT
50361187 GTATGTTATG
Statistics
Matches: 146, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
206 3 0.02
207 23 0.16
208 117 0.80
209 3 0.02
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.48
Consensus pattern (207 bp):
GTAAGTTATGTATTTGTAAGTATAAATAAGTTATGTAAGTTATGATATGATATATATTTATGTAT
TATGTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGTAAATTATGATAAGATATATATTTA
TGTAATATATATAAGTTATGTAAATTATGTAAGTTATATTTATGTATTACGTAAGTTATGTAAGT
TATGTAAATTAT
Found at i:50361558 original size:17 final size:17
Alignment explanation
Indices: 50361511--50361558 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
50361501 AATTTTAATA
50361511 TATTTTTAAAATACATTT
1 TATTTTTAAAATA-ATTT
50361529 T-TTTTT--AAT--TTT
1 TATTTTTAAAATAATTT
50361541 TATTTTTAAAATAATTT
1 TATTTTTAAAATAATTT
50361558 T
1 T
50361559 TTAGTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 11
0.69 0.00 0.31
Matches are distributed among these distances:
12 4 0.16
13 5 0.20
15 6 0.24
17 9 0.36
18 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTAAAATAATTT
Found at i:50361698 original size:18 final size:18
Alignment explanation
Indices: 50361675--50361710 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50361665 CAGGCCCAGG
*
50361675 CCTAGGATGCGGGCTGAA
1 CCTAGGATGCGGGATGAA
50361693 CCTAGGATGCGGGATGAA
1 CCTAGGATGCGGGATGAA
50361711 ATTTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (18 bp):
CCTAGGATGCGGGATGAA
Found at i:50362039 original size:21 final size:21
Alignment explanation
Indices: 50362014--50362061 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
50362004 TCCATACTAT
50362014 AATATAGGTTAT-ATATTAAAA
1 AATATAGGTTATAATATT-AAA
* *
50362035 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
50362056 AATATA
1 AATATA
50362062 ATATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:50362220 original size:122 final size:123
Alignment explanation
Indices: 50361757--50362275 Score: 841
Period size: 123 Copynumber: 4.2 Consensus size: 123
50361747 AGCACCTCTA
* *
50361757 ATCCATACTAATATAGGTTATATATTAAAAATATAGGTTTTAAGTCATTTAAAAATATAATAATT
1 ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTTAAAAATATAATAATT
*
50361822 ATAATTATTTTTAAAATTTAAAAATTTATTAGTAATGAATTTGAAATGTAGGTTATAT
66 ATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTTGAAATGTAGGTTATAT
*
50361880 ATCCATACTAATATAGGTTCTATATTAAAAATATAAGTTTTAAGTTATTTAAAAATATAATAATT
1 ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTTAAAAATATAATAATT
*
50361945 ATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTTGAAAGGTAGGTTATAT
66 ATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTTGAAATGTAGGTTATAT
*
50362003 ATCCATACTATAATATAGGTTATATATTAAAAAATATAGGTTTTAA--TATTT-AAAATATAATA
1 ATCCATAC--TAATATAGGTTATATATT-AAAAATATAAGTTTTAAGTTATTTAAAAATATAATA
* *
50362065 TTTATAATTATTTTTAAAATTTAAAAATTTATTAGTAATGAATTTGAAATGTAGGTTATAT
63 ATTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTTGAAATGTAGGTTATAT
50362126 ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTT-AAAATATAATAATT
1 ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTTAAAAATATAATAATT
* * * *
50362190 ATAATTATTTTTAAACTTTAAAAACTTATTAGAAATAAATTTGAAATATAGGTTACT-T
66 ATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTTGAAATGTAGGTTA-TAT
* *
50362248 ATCCATATTAATATAGGTTACATATTAA
1 ATCCATACTAATATAGGTTATATATTAA
50362276 TTCTTCAAAG
Statistics
Matches: 371, Mismatches: 19, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
120 16 0.04
121 18 0.05
122 95 0.26
123 204 0.55
124 5 0.01
125 17 0.05
126 16 0.04
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (123 bp):
ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTTAAAAATATAATAATT
ATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTTGAAATGTAGGTTATAT
Found at i:50364114 original size:39 final size:39
Alignment explanation
Indices: 50364055--50364132 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 39
50364045 ATTTGATACA
50364055 TTAATATGACATTATTTTTAATTGTTAAATTTTTAAAATTT
1 TTAATATGACATTA-TTTTAATTGTTAAA-TTTTAAAATTT
*
50364096 TTAATATGACATTA-TTTAATTGTTCAATTTTAAAATT
1 TTAATATGACATTATTTTAATTGTTAAATTTTAAAATT
50364133 GAATATAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 10 0.28
39 12 0.33
41 14 0.39
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (39 bp):
TTAATATGACATTATTTTAATTGTTAAATTTTAAAATTT
Found at i:50364504 original size:8 final size:7
Alignment explanation
Indices: 50364486--50364684 Score: 62
Period size: 7 Copynumber: 27.4 Consensus size: 7
50364476 TAGACCAAAA
*
50364486 AAACTCT
1 AAACCCT
50364493 AAACCCCT
1 AAA-CCCT
*
50364501 AAACCTT
1 AAACCCT
*
50364508 AAATCCT
1 AAACCCT
*
50364515 AAAATCCT
1 -AAACCCT
*
50364523 AAACCAT
1 AAACCCT
50364530 AAACCCT
1 AAACCCT
*
50364537 AAACACTCA
1 AAAC-C-CT
50364546 AAACCCCTT
1 AAA-CCC-T
* *
50364555 AAATCCA
1 AAACCCT
50364562 AAACCCCT
1 AAA-CCCT
***
50364570 AAACTAG
1 AAACCCT
**
50364577 AAACTTT
1 AAACCCT
*
50364584 AAACACT
1 AAACCCT
*
50364591 AATCCCT
1 AAACCCT
50364598 AAACCCAT
1 AAACCC-T
*
50364606 AACCCCT
1 AAACCCT
*
50364613 AAACCTT
1 AAACCCT
**
50364620 AAACATT
1 AAACCCT
* *
50364627 AATCTCT
1 AAACCCT
50364634 AAA-CCT
1 AAACCCT
50364640 AAAACCCT
1 -AAACCCT
50364648 AAACCAC-
1 AAACC-CT
50364655 AAA-CCT
1 AAACCCT
* **
50364661 ACACTGT
1 AAACCCT
50364668 AAACCCT
1 AAACCCT
*
50364675 AAACCTT
1 AAACCCT
50364682 AAA
1 AAA
50364685 TCTCAAACCA
Statistics
Matches: 140, Mismatches: 39, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
5 1 0.01
6 5 0.04
7 93 0.66
8 32 0.23
9 8 0.06
10 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:50364523 original size:22 final size:22
Alignment explanation
Indices: 50364498--50364539 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50364488 ACTCTAAACC
* *
50364498 CCTAAACCTTAAATCCTAAAAT
1 CCTAAACCATAAACCCTAAAAT
50364520 CCTAAACCATAAACCCTAAA
1 CCTAAACCATAAACCCTAAA
50364540 CACTCAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
CCTAAACCATAAACCCTAAAAT
Found at i:50364622 original size:36 final size:35
Alignment explanation
Indices: 50364577--50364652 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 35
50364567 CCTAAACTAG
* *
50364577 AAACTTTAAACACTAATCCCTAAACCCATAACCCCT
1 AAACCTTAAACACTAATCCCTAAACCCA-AAACCCT
* * *
50364613 AAACCTTAAACATTAATCTCTAAACCTAAAACCCT
1 AAACCTTAAACACTAATCCCTAAACCCAAAACCCT
50364648 AAACC
1 AAACC
50364653 ACAAACCTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 11 0.31
36 24 0.69
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (35 bp):
AAACCTTAAACACTAATCCCTAAACCCAAAACCCT
Found at i:50365106 original size:40 final size:40
Alignment explanation
Indices: 50365015--50365117 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
50365005 TTTGCGGTGT
* **
50365015 TTTCC-AAAAAGTGCCGCTAATACTTTATCTATAGCGGCG
1 TTTCCTAAAAAGCGCCGCTAATACTCAATCTATAGCGGCG
* * *
50365054 TTTCCTAGAAAGCGCCGCTAATTCTCAATCTATTGCGGCG
1 TTTCCTAAAAAGCGCCGCTAATACTCAATCTATAGCGGCG
**
50365094 TTTGTTAAAAAGCGCCAG-TAATAC
1 TTTCCTAAAAAGCGCC-GCTAATAC
50365118 CACTAAAGCT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 5 0.10
40 46 0.88
41 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (40 bp):
TTTCCTAAAAAGCGCCGCTAATACTCAATCTATAGCGGCG
Found at i:50365787 original size:15 final size:15
Alignment explanation
Indices: 50365767--50365795 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50365757 TTGCTTAAGA
50365767 ATATGTTTATGATTT
1 ATATGTTTATGATTT
50365782 ATATGTTTATGATT
1 ATATGTTTATGATT
50365796 AATAACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (15 bp):
ATATGTTTATGATTT
Found at i:50366490 original size:3 final size:3
Alignment explanation
Indices: 50366482--50366515 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
50366472 TAAAGAATGC
50366482 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
50366516 TCCATCCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:50378058 original size:16 final size:16
Alignment explanation
Indices: 50378037--50378071 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
50378027 AACTTCATGC
50378037 TATCATTTATTACTAA
1 TATCATTTATTACTAA
50378053 TATCATTTATTACTAA
1 TATCATTTATTACTAA
50378069 TAT
1 TAT
50378072 TACTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (16 bp):
TATCATTTATTACTAA
Found at i:50385233 original size:20 final size:20
Alignment explanation
Indices: 50385208--50385280 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
50385198 TGCATAACAA
*
50385208 AGGCACCAAAGTACAGACAG
1 AGGCACCAAAGTGCAGACAG
*
50385228 AGGCA-CAAATGTGCA-ATCGG
1 AGGCACCAAA-GTGCAGA-CAG
**
50385248 AGGCACTGAAGTGCAGACAG
1 AGGCACCAAAGTGCAGACAG
*
50385268 AGGCACCGAAGTG
1 AGGCACCAAAGTG
50385281 TAATCCCATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.12
20 35 0.81
21 3 0.07
ACGTcount: A:0.37, C:0.22, G:0.32, T:0.10
Consensus pattern (20 bp):
AGGCACCAAAGTGCAGACAG
Found at i:50394390 original size:12 final size:12
Alignment explanation
Indices: 50394358--50394395 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
50394348 ATTTTATTTA
*
50394358 TTATTACTATT-
1 TTATTATTATTG
*
50394369 TTATTTTTATTG
1 TTATTATTATTG
50394381 TTATTATTATTG
1 TTATTATTATTG
50394393 TTA
1 TTA
50394396 GTTCTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:50396073 original size:44 final size:45
Alignment explanation
Indices: 50396008--50396111 Score: 192
Period size: 44 Copynumber: 2.3 Consensus size: 45
50395998 CCAATAAAAC
*
50396008 TAAAACTAAAGTCTACCCAAACCCAATTATCATTTACCAACCCAA
1 TAAAACTAAAGTCTACCCAAACCCAATTACCATTTACCAACCCAA
50396053 T-AAACTAAAGTCTACCCAAACCCAATTACCATTTACCAACCCAA
1 TAAAACTAAAGTCTACCCAAACCCAATTACCATTTACCAACCCAA
50396097 TAAAACTAAAGTCTA
1 TAAAACTAAAGTCTA
50396112 AAAATAAAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
44 43 0.75
45 14 0.25
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.22
Consensus pattern (45 bp):
TAAAACTAAAGTCTACCCAAACCCAATTACCATTTACCAACCCAA
Found at i:50396074 original size:25 final size:25
Alignment explanation
Indices: 50396010--50396078 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 25
50396000 AATAAAACTA
50396010 AAACTAAAGTCTACCCAAACCCAAT
1 AAACTAAAGTCTACCCAAACCCAAT
* * *
50396035 -TA-T-CA-TTTA-CC-AACCCAAT
1 AAACTAAAGTCTACCCAAACCCAAT
50396054 AAACTAAAGTCTACCCAAACCCAAT
1 AAACTAAAGTCTACCCAAACCCAAT
50396079 TACCATTTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
19 8 0.25
20 3 0.09
21 4 0.12
22 2 0.06
23 4 0.12
24 3 0.09
25 8 0.25
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (25 bp):
AAACTAAAGTCTACCCAAACCCAAT
Found at i:50399802 original size:20 final size:20
Alignment explanation
Indices: 50399779--50399915 Score: 67
Period size: 20 Copynumber: 7.3 Consensus size: 20
50399769 TATGTGTTAA
50399779 TTTTAAGACTTATGTAATGT
1 TTTTAAGACTTATGTAATGT
* * **
50399799 TTTT-A-A-TTATATACTCA
1 TTTTAAGACTTATGTAATGT
**
50399816 TTCAAAGACTTATGTAATGT
1 TTTTAAGACTTATGTAATGT
* *
50399836 TTTT-A-A-TTATGTAGTGA
1 TTTTAAGACTTATGTAATGT
**
50399853 TTCAAAGACTTATGTAAT-T
1 TTTTAAGACTTATGTAATGT
* * *
50399872 TTTTTA-A-TTATGTAGTGA
1 TTTTAAGACTTATGTAATGT
** *
50399890 TTCAAAGACTTATGTAATTT
1 TTTTAAGACTTATGTAATGT
50399910 TTTTAA
1 TTTTAA
50399916 TTATGTAGTG
Statistics
Matches: 77, Mismatches: 31, Indels: 18
0.61 0.25 0.14
Matches are distributed among these distances:
17 28 0.36
18 8 0.10
19 8 0.10
20 33 0.43
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (20 bp):
TTTTAAGACTTATGTAATGT
Found at i:50399824 original size:37 final size:37
Alignment explanation
Indices: 50399783--50399931 Score: 253
Period size: 37 Copynumber: 4.0 Consensus size: 37
50399773 TGTTAATTTT
* * *
50399783 AAGACTTATGTAATGTTTTTAATTATATACTCATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
50399820 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
50399857 AAGACTTATGTAATTTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
50399894 AAGACTTATGTAATTTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
50399931 A
1 A
50399932 TTCGGTTAAA
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:50399847 original size:17 final size:17
Alignment explanation
Indices: 50399825--50399922 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
50399815 ATTCAAAGAC
50399825 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
50399842 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
50399861 CTTATGTAATTTTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
50399879 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
50399898 CTTATGTAATTTTTTTAA
1 -TTATGTAATGTTTTTAA
50399916 TTATGTA
1 TTATGTA
50399923 GTGATTCAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 24 0.43
18 8 0.14
19 8 0.14
20 16 0.29
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:50403658 original size:16 final size:16
Alignment explanation
Indices: 50403632--50403668 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
50403622 TAAACCAAAT
50403632 TTAAT-TAATTAAACC
1 TTAATCTAATTAAACC
*
50403647 TTAATCTAATTAAATC
1 TTAATCTAATTAAACC
50403663 TTAATC
1 TTAATC
50403669 ACATTTAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAATCTAATTAAACC
Found at i:50403867 original size:12 final size:12
Alignment explanation
Indices: 50403850--50403877 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50403840 AACTTTAATA
50403850 AACTTTTATACT
1 AACTTTTATACT
50403862 AACTTTTATACT
1 AACTTTTATACT
50403874 AACT
1 AACT
50403878 CCATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (12 bp):
AACTTTTATACT
Found at i:50412444 original size:12 final size:12
Alignment explanation
Indices: 50412424--50412460 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
50412414 TTATTTAGCC
50412424 ATGGATTCCACT
1 ATGGATTCCACT
*
50412436 ATGGGTTCCACT
1 ATGGATTCCACT
*
50412448 GTGGATTCCACT
1 ATGGATTCCACT
50412460 A
1 A
50412461 CCTTTATCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (12 bp):
ATGGATTCCACT
Found at i:50415879 original size:10 final size:10
Alignment explanation
Indices: 50415863--50415920 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
50415853 CAACTCCGAC
50415863 CAGCTCAATT
1 CAGCTCAATT
* *
50415873 GAGCTCATTT
1 CAGCTCAATT
50415883 CAGCTCAA-T
1 CAGCTCAATT
50415892 CGAGCTCAATT
1 C-AGCTCAATT
*
50415903 TAGCTACAATT
1 CAGCT-CAATT
50415914 CAGCTCA
1 CAGCTCA
50415921 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:50415886 original size:20 final size:20
Alignment explanation
Indices: 50415863--50415923 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
50415853 CAACTCCGAC
50415863 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
50415883 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
50415904 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
50415924 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:50417861 original size:31 final size:31
Alignment explanation
Indices: 50417804--50417869 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
50417794 ATAAAATGAT
* *
50417804 ACTAAATTATTTGAAAGATTTCATTTAAGTC
1 ACTAAACTATTCGAAAGATTTCATTTAAGTC
*
50417835 ACTAAACTATTCGAAA-ACTTTTATTTAAGTC
1 ACTAAACTATTCGAAAGA-TTTCATTTAAGTC
50417866 ACTA
1 ACTA
50417870 GACTTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (31 bp):
ACTAAACTATTCGAAAGATTTCATTTAAGTC
Found at i:50419204 original size:19 final size:20
Alignment explanation
Indices: 50419180--50419221 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
50419170 AATTTTCAAT
50419180 ATTTTTAAAT-ATAAAAATA
1 ATTTTTAAATAATAAAAATA
50419199 ATTTTTAAATAAATAAAAATA
1 ATTTTTAAAT-AATAAAAATA
50419220 AT
1 AT
50419222 CAATAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTTTAAATAATAAAAATA
Found at i:50419228 original size:21 final size:21
Alignment explanation
Indices: 50419190--50419229 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50419180 ATTTTTAAAT
***
50419190 ATAAAAATAATTTTTAAATAA
1 ATAAAAATAATCAATAAATAA
50419211 ATAAAAATAATCAATAAAT
1 ATAAAAATAATCAATAAAT
50419230 CATACATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAATAATCAATAAATAA
Found at i:50425371 original size:21 final size:22
Alignment explanation
Indices: 50425342--50425391 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
50425332 TTTCAACTAG
*
50425342 TATAATAATAAACAATA-ATAA
1 TATACTAATAAACAATATATAA
**
50425363 TATACTAATAAGTAATATATAA
1 TATACTAATAAACAATATATAA
*
50425385 TGTACTA
1 TATACTA
50425392 CTATTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (22 bp):
TATACTAATAAACAATATATAA
Found at i:50425385 original size:14 final size:14
Alignment explanation
Indices: 50425343--50425385 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
50425333 TTCAACTAGT
*
50425343 ATAATAATAAAC-A
1 ATAATAATATACTA
50425356 ATAATAATATACTA
1 ATAATAATATACTA
50425370 ATAAGTAATATA-TA
1 ATAA-TAATATACTA
50425384 AT
1 AT
50425386 GTACTACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.41
14 9 0.33
15 7 0.26
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (14 bp):
ATAATAATATACTA
Found at i:50425668 original size:233 final size:231
Alignment explanation
Indices: 50425251--50426343 Score: 1021
Period size: 233 Copynumber: 4.6 Consensus size: 231
50425241 ATCACTAAAA
* * * * *
50425251 ATATGATTTGATATAGCATTATAAAATATAGTAGGAGGGCTAACTTTTAAATGTAGGAAAAGTAT
1 ATATGATATGATATAGCATTATATAATATAGTAGGAAGGCTAACTTTCAAATGTATGAAAAGTAT
* * * * * *
50425316 AAGAACTTTGAGTATATTTCAACTAGTATAATAATAAACAATAA-TAATATACTAATAAGTAATA
66 AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATTAAAATA-TAA-AA-TAATA
*
50425380 TATAATGTACTACTATTAT-TATATTATATATTATAATAAAAGATATAGTATTACATGATATTAT
128 TATAATGTACTACTATTATATA-ACTAT-TATTATAATAAAAGATATAGTATTACATGATATTAT
* *
50425444 AATGTTTAATCATTTATGCATATAT-ATATAAACCAGTA-AT
191 AATGTTTAATCATTGATG-ATATATAATATAAACTAGTAGAT
*
50425484 ATATGATATGATATAGCATCATATAATATAGTAGGAAGGCTAACTTTCAAATGTATGAAAAGTAT
1 ATATGATATGATATAGCATTATATAATATAGTAGGAAGGCTAACTTTCAAATGTATGAAAAGTAT
* * *
50425549 AGGGACTTATAGCATATTTCAACTAGTATAATAATAAACAATAATGTAAAATATAAAATAATATG
66 AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAAT-TAAAATATAAAATAATATA
* * *
50425614 TAATGTACTACTATTATATAACTATTATTAT-ATTATAGATAGTAGTACATTACAT-ATTATTTT
130 TAATGTACTACTATTATATAACTATTATTATAATAAAAGATA-TAGT--ATTACATGA-TATTAT
*
50425677 ATAT-TTT-A-CATT-ATTGTTATATAATAGTAGGAGAGCTATGATATGATAT
191 A-ATGTTTAATCATTGA-TGATATATAATA-TA--A-A-CTA-G-TA-G--AT
* * * * *
50425726 AATATAATATGATATAGCATTATATAATATAG-CGGGAGAGTTAACTTTCAAATGTACGATAAA-
1 -ATATGATATGATATAGCATTATATAATATAGTAGGAAG-GCTAACTTTCAAATGTATGA-AAAG
* * * * * * *
50425789 TATAGTGACTTAGAGCAGATTTCAACCAGTATAATAACAAACAATAATATATAGTATTAATTAAT
63 TATAGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAAT-TAAAATATAAAATAAT
* * *
50425854 ATATAATTTACTACTATTATATATAACTATTATTATAATAAAATATACAGTATTACATGATATTA
127 ATATAATGTACTACTA-T-TATATAACTATTATTATAATAAAAGATATAGTATTACATGATATTA
* * * *
50425919 TAATATTTAATCATTGATGCATATATAAACTGTTATA-TATTAGAT
190 TAATGTTTAATCATTGATG-ATATAT-AA-T-ATAAACTAGTAGAT
* * *
50425964 ATTACTTGATATGATATAACATTATATAATATAGTAGGAGGGCTAACTTTCAAATATATGAAAAG
1 A-TA--TGATATGATATAGCATTATATAATATAGTAGGAAGGCTAACTTTCAAATGTATGAAAAG
* *
50426029 TATAGGGACTTAGAACATATTTCAACCAGTATAATAATAAACATTAA-T--AAT-TAATAATTAA
63 TATAGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATTAAAATATAA-AA-TAA
* * * * *
50426090 TATAAAATGTACTACTATTATATTA-TA-GATTATAATAAAAGGTATAGTATTGCATGATATTAT
126 TATATAATGTACTACTATTATATAACTATTATTATAATAAAAGATATAGTATTACATGATATTAT
* * *
50426153 AATGTTTAATCATAGATG-TATAT-ATATAAGCTATTA-AT
191 AATGTTTAATCATTGATGATATATAATATAAACTAGTAGAT
* * * * * *
50426191 ATATTATATGCCATATGGTATGATATGACATTATGGTA-GAAGGATTAACTTTCAAATGTATGAA
1 ATATGATATG--ATATAGCATTATAT-A-A-TATAGTAGGAAGG-CTAACTTTCAAATGTATGAA
* * *
50426255 AAGTCTAGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAGTAA-T-ATATGATAATAA
60 AAGTATAGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATTAAAAT-ATAA-AA
50426318 TTAATATATAATGTACTACTATTATA
123 -TAATATATAATGTACTACTATTATA
50426344 ACATGATATT
Statistics
Matches: 718, Mismatches: 89, Indels: 107
0.79 0.10 0.12
Matches are distributed among these distances:
224 6 0.01
226 12 0.02
227 6 0.01
228 11 0.02
229 73 0.10
230 16 0.02
231 24 0.03
232 62 0.09
233 165 0.23
234 8 0.01
235 15 0.02
236 6 0.01
237 20 0.03
238 7 0.01
239 3 0.00
240 86 0.12
241 5 0.01
242 8 0.01
243 134 0.19
244 6 0.01
245 27 0.04
246 13 0.02
247 2 0.00
248 3 0.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (231 bp):
ATATGATATGATATAGCATTATATAATATAGTAGGAAGGCTAACTTTCAAATGTATGAAAAGTAT
AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATTAAAATATAAAATAATATAT
AATGTACTACTATTATATAACTATTATTATAATAAAAGATATAGTATTACATGATATTATAATGT
TTAATCATTGATGATATATAATATAAACTAGTAGAT
Found at i:50436098 original size:18 final size:19
Alignment explanation
Indices: 50436069--50436138 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 19
50436059 ATAGTGATTC
*
50436069 AATTC-GGTTAATTAGGGT
1 AATTCTGGTTAATTCGGGT
*
50436087 AATTCTGG-TAATTCGAGT
1 AATTCTGGTTAATTCGGGT
*
50436105 AA-TCCGGTTAATTCGGGT
1 AATTCTGGTTAATTCGGGT
50436123 AATT-TGGTTAATTCGG
1 AATTCTGGTTAATTCGG
50436139 TTAACCGACC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.09
18 37 0.84
19 3 0.07
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (19 bp):
AATTCTGGTTAATTCGGGT
Found at i:50436139 original size:27 final size:27
Alignment explanation
Indices: 50436069--50436142 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
50436059 ATAGTGATTC
* * *
50436069 AATTCGGTTAATTAGGGTAATTCTGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
*
50436096 AATTCGAG-TAATCCGGTTAATTCGGGT
1 AATTCG-GTTAATTCGGTTAATTCGGGT
*
50436123 AATTTGGTTAATTCGGTTAA
1 AATTCGGTTAATTCGGTTAA
50436143 CCGACCGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGGGT
Found at i:50436140 original size:9 final size:9
Alignment explanation
Indices: 50436069--50436142 Score: 71
Period size: 9 Copynumber: 8.2 Consensus size: 9
50436059 ATAGTGATTC
50436069 AATTCGGTT
1 AATTCGGTT
* *
50436078 AATTAGGGT
1 AATTCGGTT
50436087 AATTCTGG-T
1 AATTC-GGTT
50436096 AATTCGAG-T
1 AATTCG-GTT
*
50436105 AATCCGGTT
1 AATTCGGTT
*
50436114 AATTCGGGT
1 AATTCGGTT
*
50436123 AATTTGGTT
1 AATTCGGTT
50436132 AATTCGGTT
1 AATTCGGTT
50436141 AA
1 AA
50436143 CCGACCGAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
8 2 0.04
9 49 0.92
10 2 0.04
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:50441225 original size:27 final size:26
Alignment explanation
Indices: 50441178--50441231 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 26
50441168 ACAAATGCTC
50441178 ATTTTTATATAATTAAAATAT-TCAT
1 ATTTTTATATAATTAAAATATGTCAT
*
50441203 ATTTTTATACTAGGTTAAAATATGTCAT
1 ATTTTTATA-TA-ATTAAAATATGTCAT
50441231 A
1 A
50441232 AGTCTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 9 0.36
28 5 0.20
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (26 bp):
ATTTTTATATAATTAAAATATGTCAT
Found at i:50441607 original size:15 final size:15
Alignment explanation
Indices: 50441584--50441621 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
50441574 TATATACTAC
50441584 AAAATATTTACTATT
1 AAAATATTTACTATT
* *
50441599 AATATATTTATTATT
1 AAAATATTTACTATT
50441614 AAAATATT
1 AAAATATT
50441622 AATATTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATATTTACTATT
Found at i:50441666 original size:13 final size:13
Alignment explanation
Indices: 50441648--50441686 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
50441638 CAATAATGAA
50441648 TATTATTTAAAAT
1 TATTATTTAAAAT
*
50441661 TATTATTTTAAATT
1 TATTA-TTTAAAAT
50441675 TATTA-TTAAAAT
1 TATTATTTAAAAT
50441687 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:50441703 original size:13 final size:13
Alignment explanation
Indices: 50441679--50441719 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
50441669 TAAATTTATT
50441679 ATTAAAAT--AAA
1 ATTAAAATAAAAA
50441690 ATTAAAATAAAAA
1 ATTAAAATAAAAA
* *
50441703 ATTATATTAAAAA
1 ATTAAAATAAAAA
50441716 ATTA
1 ATTA
50441720 TTATATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 8 0.31
13 18 0.69
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAAAATAAAAA
Found at i:50441823 original size:6 final size:6
Alignment explanation
Indices: 50441814--50441844 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
50441804 TAAGCATTTT
50441814 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
50441845 TTATTATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:50442338 original size:91 final size:90
Alignment explanation
Indices: 50442209--50442409 Score: 235
Period size: 91 Copynumber: 2.2 Consensus size: 90
50442199 GTAATATATA
*** * * *
50442209 TTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGTATCAAAAAA-TCCCTC-AAACTTTA
1 TTTTTTTGCACTCAATTGCACACTTAAACTATCAAAATGCAT-AAAAAAGACCCTCAAAACTTTA
* *
50442272 AAAAAAAGTAATTAAGCCCCTGTTTTTT
65 AAAAAAAGAAATTAAGCCCC--TATTTT
* * * **
50442300 TTTTTTTGCACTCAATTGCACACTTGAGCTATCAAAATGCATAAAAAAGACCCTCAAAATTTTTT
1 TTTTTTTGCACTCAATTGCACACTTAAACTATCAAAATGCATAAAAAAGACCCTCAAAACTTTAA
*
50442365 TAAAAAGAAATTAAGCCCCTATTTT
66 AAAAAAGAAATTAAGCCCCTATTTT
50442390 TTTTTTTGCACTCAATTGCA
1 TTTTTTTGCACTCAATTGCA
50442410 AAAATGTATC
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
90 31 0.33
91 40 0.43
92 23 0.24
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (90 bp):
TTTTTTTGCACTCAATTGCACACTTAAACTATCAAAATGCATAAAAAAGACCCTCAAAACTTTAA
AAAAAAGAAATTAAGCCCCTATTTT
Found at i:50442591 original size:26 final size:26
Alignment explanation
Indices: 50442562--50442622 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
50442552 TAAAAATTAT
*
50442562 TAAAAT-TGTTAAAATTTAATAAAATA
1 TAAAATAT-TTAAAATTTAATAAAAAA
*
50442588 TAAAATATTTAAAATTTACTAAAAAA
1 TAAAATATTTAAAATTTAATAAAAAA
50442614 TAGAAATAT
1 TA-AAATAT
50442623 ATAATTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (26 bp):
TAAAATATTTAAAATTTAATAAAAAA
Found at i:50442644 original size:33 final size:33
Alignment explanation
Indices: 50442579--50442645 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
50442569 GTTAAAATTT
*
50442579 AATAAAATATAAAATATTTAAAATTTACTAAAA
1 AATAAAATATAAAATATGTAAAATTTACTAAAA
*
50442612 AATAGAAATATATAAT-TGTAAAATTTTA-TAAAA
1 AATA-AAATATAAAATATGTAAAA-TTTACTAAAA
50442645 A
1 A
50442646 TCATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 16 0.53
34 14 0.47
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (33 bp):
AATAAAATATAAAATATGTAAAATTTACTAAAA
Found at i:50442660 original size:20 final size:20
Alignment explanation
Indices: 50442637--50442675 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50442627 TTGTAAAATT
50442637 TTATAAAAAT-CATAAAAAAA
1 TTAT-AAAATGCATAAAAAAA
50442657 TTATAAAATGCATAAAAAA
1 TTATAAAATGCATAAAAAA
50442676 GGCCTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
TTATAAAATGCATAAAAAAA
Found at i:50442974 original size:19 final size:19
Alignment explanation
Indices: 50442932--50442978 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
50442922 TTTTCTATAT
50442932 ATTTTATAATTTTTTACGA
1 ATTTTATAATTTTTTACGA
* *
50442951 TTTTTATAATCTTTTT-CTA
1 ATTTTATAAT-TTTTTACGA
50442970 ATTTT-TAAT
1 ATTTTATAAT
50442979 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 15 0.62
20 5 0.21
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTATAATTTTTTACGA
Found at i:50442975 original size:21 final size:20
Alignment explanation
Indices: 50442915--50442980 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
50442905 TAAAAAATTA
* *
50442915 TATATTTTTTTCTATATATTT
1 TATAATTTTTTCTA-ATTTTT
*
50442936 TATAATTTTTTAC-GA-TTTT
1 TATAATTTTTT-CTAATTTTT
50442955 TATAATCTTTTTCTAATTTTT
1 TATAAT-TTTTTCTAATTTTT
*
50442976 AATAA
1 TATAA
50442981 AAATTAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 10 0.28
20 7 0.19
21 18 0.50
22 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (20 bp):
TATAATTTTTTCTAATTTTT
Found at i:50443032 original size:9 final size:9
Alignment explanation
Indices: 50443018--50443070 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
50443008 TTAAAATTTA
50443018 ATAATTTTT
1 ATAATTTTT
50443027 ATAATTTTT
1 ATAATTTTT
*
50443036 ATAACTTTT
1 ATAATTTTT
*
50443045 ATTGATTTTT
1 A-TAATTTTT
50443055 AT--TTTTT
1 ATAATTTTT
*
50443062 ATCATTTTT
1 ATAATTTTT
50443071 TGTCACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
7 7 0.18
9 24 0.63
10 7 0.18
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (9 bp):
ATAATTTTT
Found at i:50443044 original size:18 final size:19
Alignment explanation
Indices: 50443002--50443056 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
50442992 TTATTATATT
* *
50443002 CTTTTATTAAAATTTAATAA
1 CTTTTATT-AATTTTTATAA
*
50443022 TTTTTA-TAATTTTTATAA
1 CTTTTATTAATTTTTATAA
*
50443040 CTTTTATTGATTTTTAT
1 CTTTTATTAATTTTTAT
50443057 TTTTTATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 14 0.48
19 10 0.34
20 5 0.17
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
CTTTTATTAATTTTTATAA
Found at i:50445642 original size:11 final size:11
Alignment explanation
Indices: 50445594--50445644 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
50445584 AGAATAAAAA
50445594 TTAAATTTATT
1 TTAAATTTATT
*
50445605 TTAAAATTATT
1 TTAAATTTATT
*
50445616 ATTTAA-TTA-T
1 -TTAAATTTATT
50445626 TTAAATTTATT
1 TTAAATTTATT
50445637 TTAAATTT
1 TTAAATTT
50445645 GTAATTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 22 0.65
12 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTAAATTTATT
Found at i:50445652 original size:32 final size:30
Alignment explanation
Indices: 50445594--50445669 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 30
50445584 AGAATAAAAA
*
50445594 TTAAATTTATTTTAAAATTATTATTTAATTAT
1 TTAAATTTATTTTAAAATTATAATTT-ATT-T
* *
50445626 TTAAATTTATTTTAAATTTGTAATTTATTT
1 TTAAATTTATTTTAAAATTATAATTTATTT
**
50445656 TTAAAAATATTTTA
1 TTAAATTTATTTTA
50445670 TATTATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 13 0.33
31 3 0.08
32 23 0.59
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
TTAAATTTATTTTAAAATTATAATTTATTT
Found at i:50448452 original size:23 final size:23
Alignment explanation
Indices: 50448424--50448471 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
50448414 GGATAACCAT
* *
50448424 ATATCGGAAAGTTCAAGCGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
* *
50448447 ATATCGGGAAGCTCTAGAGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
50448470 AT
1 AT
50448472 TAATCAGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (23 bp):
ATATCGGAAAGCTCAAGAGAGCC
Found at i:50449033 original size:5 final size:5
Alignment explanation
Indices: 50449004--50449042 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
50448994 TAAATTTAGC
* *
50449004 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
50449043 CATCTTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:50456224 original size:23 final size:23
Alignment explanation
Indices: 50456196--50456243 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
50456186 GGATAACCAT
* *
50456196 ATATCGGAAAGTTCAAGCGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
* *
50456219 ATATCGGGAAGCTCTAGAGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
50456242 AT
1 AT
50456244 TAATCAGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (23 bp):
ATATCGGAAAGCTCAAGAGAGCC
Found at i:50456805 original size:5 final size:5
Alignment explanation
Indices: 50456776--50456814 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
50456766 TAAATTTAGC
* *
50456776 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
50456815 CATCTTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:50463712 original size:24 final size:24
Alignment explanation
Indices: 50463649--50463717 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 24
50463639 GTTGTATTAC
*
50463649 AGGAAGATCAT-AAGAGCCATAAT
1 AGGAAGCTCATGAAGAGCCATAAT
* *
50463672 GGGAAGCTCATG-CGAGCCAATAAT
1 AGGAAGCTCATGAAGAGCC-ATAAT
* *
50463696 AGGTAGCTC-TGAAGAGCTATAA
1 AGGAAGCTCATGAAGAGCCATAA
50463718 CGAGAAGCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
23 20 0.56
24 16 0.44
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (24 bp):
AGGAAGCTCATGAAGAGCCATAAT
Found at i:50463767 original size:23 final size:23
Alignment explanation
Indices: 50463739--50463787 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
50463729 GGATAACCAT
* *
50463739 ATATCGGAAAGTTCAAGCGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
* *
50463762 ATATCGGGAAGCTCTAGAGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
50463785 ATA
1 ATA
50463788 ATCAGAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (23 bp):
ATATCGGAAAGCTCAAGAGAGCC
Found at i:50471480 original size:23 final size:23
Alignment explanation
Indices: 50471452--50471499 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
50471442 GGATAACCAT
* *
50471452 ATATCGGAAAGTTCAAGCGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
* *
50471475 ATATCGGGAAGCTCTAGAGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
50471498 AT
1 AT
50471500 TAATCAGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (23 bp):
ATATCGGAAAGCTCAAGAGAGCC
Found at i:50472061 original size:5 final size:5
Alignment explanation
Indices: 50472032--50472070 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
50472022 TAAATTTAGC
* *
50472032 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
50472071 CATCTTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:50479155 original size:24 final size:23
Alignment explanation
Indices: 50479121--50479193 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 23
50479111 TCCGGGCTGT
*
50479121 ATAACAGGAAGCTCATAAGAGCC
1 ATAATAGGAAGCTCATAAGAGCC
*
50479144 ATAATTAGGAAGCTCATGAGAGCC
1 ATAA-TAGGAAGCTCATAAGAGCC
* **
50479168 AATAATAGGTAGCTCCGAAGAGCC
1 -ATAATAGGAAGCTCATAAGAGCC
50479192 AT
1 AT
50479194 TAACGGGAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
23 6 0.14
24 32 0.76
25 4 0.10
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (23 bp):
ATAATAGGAAGCTCATAAGAGCC
Found at i:50479800 original size:5 final size:5
Alignment explanation
Indices: 50479773--50479811 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
50479763 TAAATTTAGC
* *
50479773 TCAAT TCAAT ACAAT TAATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
50479812 CATCCTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (5 bp):
TCAAT
Found at i:50481709 original size:59 final size:60
Alignment explanation
Indices: 50481644--50481760 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
50481634 ATCACTTTAA
* * * * *
50481644 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATCTAAGATAAACATTAAACTAAATTTAATATTAAATCT
* *
50481703 TATTAAAATAATAAAATGTTTATCTATAATATAAACATTAAACTAAATTTAATATTAA
1 TATTAAAATAATAAAATATTTATC--TAAGATAAACATTAAACTAAATTTAATATTAA
50481761 GATAATCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (60 bp):
TATTAAAATAATAAAATATTTATCTAAGATAAACATTAAACTAAATTTAATATTAAATCT
Found at i:50482630 original size:45 final size:45
Alignment explanation
Indices: 50482579--50482668 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
50482569 CATGGAGTCA
50482579 GTCTACAAGAAGTACCATGATTGTAAACTCCTTATTGTATACTCT
1 GTCTACAAGAAGTACCATGATTGTAAACTCCTTATTGTATACTCT
50482624 GTCTACAAGAAGTACCATGATTGTAAACTCCTTATTGTATACTCT
1 GTCTACAAGAAGTACCATGATTGTAAACTCCTTATTGTATACTCT
50482669 TTACGGAAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (45 bp):
GTCTACAAGAAGTACCATGATTGTAAACTCCTTATTGTATACTCT
Found at i:50483776 original size:14 final size:14
Alignment explanation
Indices: 50483734--50483789 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
50483724 TAAATTTCTT
50483734 TTTATAATTTTTAAA
1 TTTAT-ATTTTTAAA
50483749 CTTT-T-TTTTATAAA
1 -TTTATATTTT-TAAA
50483763 TTTATATTTTTAAA
1 TTTATATTTTTAAA
*
50483777 TATATTATTTTTA
1 TTTA-TATTTTTA
50483790 TTTCTAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 13 0.37
16 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATATTTTTAAA
Found at i:50493515 original size:989 final size:989
Alignment explanation
Indices: 50491599--50493579 Score: 3899
Period size: 989 Copynumber: 2.0 Consensus size: 989
50491589 TACCCTACCG
*
50491599 TTACACACCATAATTGAGAGTTCCTCGGAACTCCAACCACTAGAAGACTAGATTGTGGATTAACC
1 TTACACACCATAATTGAGAATTCCTCGGAACTCCAACCACTAGAAGACTAGATTGTGGATTAACC
50491664 ACCATTAGTTTGAAGTTTTTACTGCCAACGTCTGTGGACACACAACAAAATGATGCAGTTGGAAT
66 ACCATTAGTTTGAAGTTTTTACTGCCAACGTCTGTGGACACACAACAAAATGATGCAGTTGGAAT
*
50491729 CTACTTTGTTTATAGGTACACAACAGAATATTGCAAATGAAACTTGCCAATGGCCGTGGAAACAC
131 CTACTTTGGTTATAGGTACACAACAGAATATTGCAAATGAAACTTGCCAATGGCCGTGGAAACAC
50491794 AACATACACGTACATAAAAGCTATCAAAGGGTTATGAATGCATGGTAAAATGACGCAGTTGGAAT
196 AACATACACGTACATAAAAGCTATCAAAGGGTTATGAATGCATGGTAAAATGACGCAGTTGGAAT
50491859 CTGCTTTGGATGTGAGTACACAACAAACATTTAAATGCAAATATACTGTCATTGCTTCCTCCGAT
261 CTGCTTTGGATGTGAGTACACAACAAACATTTAAATGCAAATATACTGTCATTGCTTCCTCCGAT
50491924 CATACCGGCCCAACCCATGCAGTGCAATACAGTCAATTTAATACATTCATATATTGTAACATTTA
326 CATACCGGCCCAACCCATGCAGTGCAATACAGTCAATTTAATACATTCATATATTGTAACATTTA
*
50491989 ATGTTCTAACACATGGCAATTAGGTAGCAAAGTCAAGCTCTTCATATATTTTGGTTGACAATAAA
391 ATGTTCTAACACATGGCAATCAGGTAGCAAAGTCAAGCTCTTCATATATTTTGGTTGACAATAAA
50492054 TTAGGGCATGTTTTTCATATGATTTCAAACATATATATAAGGTAACATATATTATTTATAATCCA
456 TTAGGGCATGTTTTTCATATGATTTCAAACATATATATAAGGTAACATATATTATTTATAATCCA
50492119 CACAAATATTCATAGATACAAATAAATACAGTATTAATTTAATCATTCATGGATTCTAGCATGTC
521 CACAAATATTCATAGATACAAATAAATACAGTATTAATTTAATCATTCATGGATTCTAGCATGTC
*
50492184 ATATATCATTAGGGACCTAATTGCATAATTTAATTCACTAAAAAATAGTTTAAAACCTATCTAGG
586 ATATATCATCAGGGACCTAATTGCATAATTTAATTCACTAAAAAATAGTTTAAAACCTATCTAGG
50492249 GAATAAATTGATCAAAATATAAAATTTTGGGTCAAAACTATAATCCCTTGGTTCCAAGGGACACA
651 GAATAAATTGATCAAAATATAAAATTTTGGGTCAAAACTATAATCCCTTGGTTCCAAGGGACACA
50492314 AGGTCGTGTGATTGAGCTGTGTGGAAAGCCTTAGGCTCTGTGGAAGGGGTACACGACCGTGTGGC
716 AGGTCGTGTGATTGAGCTGTGTGGAAAGCCTTAGGCTCTGTGGAAGGGGTACACGACCGTGTGGC
50492379 TAGGTCGTGTGAAAGATTGAGGTCGTGTGACATTTGAAATTTCAATATAAAGGGAGACATAGGCA
781 TAGGTCGTGTGAAAGATTGAGGTCGTGTGACATTTGAAATTTCAATATAAAGGGAGACATAGGCA
50492444 TATGGGAGGCCGTGTGAAAGTCGAATATCCTAGGGTTTTAGGGGTGACATGGCCGCATGTGAGAC
846 TATGGGAGGCCGTGTGAAAGTCGAATATCCTAGGGTTTTAGGGGTGACATGGCCGCATGTGAGAC
50492509 CATGCAGTCCACACAAAGCGGCCCACACATCCGTGTGGTAGGTTGTGTGGTCTAGGCTTGGTTCA
911 CATGCAGTCCACACAAAGCGGCCCACACATCCGTGTGGTAGGTTGTGTGGTCTAGGCTTGGTTCA
50492574 GTTTTACCTTAATT
976 GTTTTACCTTAATT
50492588 TTACACACCATAATTGAGAATTCCTCGGAACTCCAACCACTAGAAGACTAGATTGTGGATTAACC
1 TTACACACCATAATTGAGAATTCCTCGGAACTCCAACCACTAGAAGACTAGATTGTGGATTAACC
50492653 ACCATTAGTTTGAAGTTTTTACTGCCAACGTCTGTGGACACACAACAAAATGATGCAGTTGGAAT
66 ACCATTAGTTTGAAGTTTTTACTGCCAACGTCTGTGGACACACAACAAAATGATGCAGTTGGAAT
50492718 CTACTTTGGTTATAGGTACACAACAGAATATTGCAAATGAAACTTGCCAATGGCCGTGGAAACAC
131 CTACTTTGGTTATAGGTACACAACAGAATATTGCAAATGAAACTTGCCAATGGCCGTGGAAACAC
50492783 AACATACACGTACATAAAAGCTATCAAAGGGTTATGAATGCATGGTAAAATGACGCAGTTGGAAT
196 AACATACACGTACATAAAAGCTATCAAAGGGTTATGAATGCATGGTAAAATGACGCAGTTGGAAT
50492848 CTGCTTTGGATGTGAGTACACAACAAACATTTAAATGCAAATATACTGTCATTGCTTCCTCCGAT
261 CTGCTTTGGATGTGAGTACACAACAAACATTTAAATGCAAATATACTGTCATTGCTTCCTCCGAT
50492913 CATACCGGCCCAACCCATGCAGTGCAATACAGTCAATTTAATACATTCATATATTGTAACATTTA
326 CATACCGGCCCAACCCATGCAGTGCAATACAGTCAATTTAATACATTCATATATTGTAACATTTA
50492978 ATGTTCTAACACATGGCAATCAGGTAGCAAAGTCAAGCTCTTCATATATTTTGGTTGACAATAAA
391 ATGTTCTAACACATGGCAATCAGGTAGCAAAGTCAAGCTCTTCATATATTTTGGTTGACAATAAA
50493043 TTAGGGCATGTTTTTCATATGATTTCAAACATATATATAAGGTAACATATATTATTTATAATCCA
456 TTAGGGCATGTTTTTCATATGATTTCAAACATATATATAAGGTAACATATATTATTTATAATCCA
50493108 CACAAATATTCATAGATACAAATAAATACAGTATTAATTTAATCATTCATGGATTCTAGCATGTC
521 CACAAATATTCATAGATACAAATAAATACAGTATTAATTTAATCATTCATGGATTCTAGCATGTC
50493173 ATATATCATCAGGGACCTAATTGCATAATTTAATTCACTAAAAAATAGTTTAAAACCTATCTAGG
586 ATATATCATCAGGGACCTAATTGCATAATTTAATTCACTAAAAAATAGTTTAAAACCTATCTAGG
50493238 GAATAAATTGATCAAAATATAAAATTTTGGGTCAAAACTATAATCCCTTGGTTCCAAGGGACACA
651 GAATAAATTGATCAAAATATAAAATTTTGGGTCAAAACTATAATCCCTTGGTTCCAAGGGACACA
* *
50493303 AGGTCGTGTGATTGGGCTGTGTGGAAAGCCTTAGGCTGTGTGGAAGGGGTACACGACCGTGTGGC
716 AGGTCGTGTGATTGAGCTGTGTGGAAAGCCTTAGGCTCTGTGGAAGGGGTACACGACCGTGTGGC
*
50493368 TAGGTCGTGTGAGAGATTGAGGTCGTGTGACATTTGAAATTTCAATATAAAGGGAGACATAGGCA
781 TAGGTCGTGTGAAAGATTGAGGTCGTGTGACATTTGAAATTTCAATATAAAGGGAGACATAGGCA
50493433 TATGGGAGGCCGTGTGAAAGTCGAATATCCTAGGGTTTTAGGGGTGACATGGCCGCATGTGAGAC
846 TATGGGAGGCCGTGTGAAAGTCGAATATCCTAGGGTTTTAGGGGTGACATGGCCGCATGTGAGAC
50493498 CATGCAGTCCACACAAAGCGGCCCACACATCCGTGTGGTAGGTTGTGTGGTCTAGGCTTGGTTCA
911 CATGCAGTCCACACAAAGCGGCCCACACATCCGTGTGGTAGGTTGTGTGGTCTAGGCTTGGTTCA
50493563 GTTTTACCTTAATT
976 GTTTTACCTTAATT
50493577 TTA
1 TTA
50493580 TTGTAAAAGA
Statistics
Matches: 985, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
989 985 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (989 bp):
TTACACACCATAATTGAGAATTCCTCGGAACTCCAACCACTAGAAGACTAGATTGTGGATTAACC
ACCATTAGTTTGAAGTTTTTACTGCCAACGTCTGTGGACACACAACAAAATGATGCAGTTGGAAT
CTACTTTGGTTATAGGTACACAACAGAATATTGCAAATGAAACTTGCCAATGGCCGTGGAAACAC
AACATACACGTACATAAAAGCTATCAAAGGGTTATGAATGCATGGTAAAATGACGCAGTTGGAAT
CTGCTTTGGATGTGAGTACACAACAAACATTTAAATGCAAATATACTGTCATTGCTTCCTCCGAT
CATACCGGCCCAACCCATGCAGTGCAATACAGTCAATTTAATACATTCATATATTGTAACATTTA
ATGTTCTAACACATGGCAATCAGGTAGCAAAGTCAAGCTCTTCATATATTTTGGTTGACAATAAA
TTAGGGCATGTTTTTCATATGATTTCAAACATATATATAAGGTAACATATATTATTTATAATCCA
CACAAATATTCATAGATACAAATAAATACAGTATTAATTTAATCATTCATGGATTCTAGCATGTC
ATATATCATCAGGGACCTAATTGCATAATTTAATTCACTAAAAAATAGTTTAAAACCTATCTAGG
GAATAAATTGATCAAAATATAAAATTTTGGGTCAAAACTATAATCCCTTGGTTCCAAGGGACACA
AGGTCGTGTGATTGAGCTGTGTGGAAAGCCTTAGGCTCTGTGGAAGGGGTACACGACCGTGTGGC
TAGGTCGTGTGAAAGATTGAGGTCGTGTGACATTTGAAATTTCAATATAAAGGGAGACATAGGCA
TATGGGAGGCCGTGTGAAAGTCGAATATCCTAGGGTTTTAGGGGTGACATGGCCGCATGTGAGAC
CATGCAGTCCACACAAAGCGGCCCACACATCCGTGTGGTAGGTTGTGTGGTCTAGGCTTGGTTCA
GTTTTACCTTAATT
Found at i:50496076 original size:2 final size:2
Alignment explanation
Indices: 50496069--50496093 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50496059 ATTGAAGGTG
50496069 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
50496094 CAGCTGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50500881 original size:9 final size:9
Alignment explanation
Indices: 50500867--50500899 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
50500857 TGCGACTTCA
50500867 AATTAAAGT
1 AATTAAAGT
50500876 AATTAAAGT
1 AATTAAAGT
*
50500885 AATTAAACT
1 AATTAAAGT
50500894 AATTAA
1 AATTAA
50500900 CCTAAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (9 bp):
AATTAAAGT
Found at i:50503246 original size:42 final size:44
Alignment explanation
Indices: 50503168--50503265 Score: 130
Period size: 42 Copynumber: 2.3 Consensus size: 44
50503158 AGATGTGGTT
* *
50503168 TTACATGT-AATCAAATAACGATGCCACTGTCCCAAACAAGGTC
1 TTACACGTAAATCAAATAACGATGCCAATGTCCCAAACAAGGTC
* * *
50503211 TTACACG-AAATCATAT-ACGATGCCAATGTCTCAAACATGGTC
1 TTACACGTAAATCAAATAACGATGCCAATGTCCCAAACAAGGTC
50503253 TTACACGTAAATC
1 TTACACGTAAATC
50503266 TCAAATCGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (44 bp):
TTACACGTAAATCAAATAACGATGCCAATGTCCCAAACAAGGTC
Found at i:50516865 original size:48 final size:47
Alignment explanation
Indices: 50516743--50516970 Score: 158
Period size: 48 Copynumber: 4.7 Consensus size: 47
50516733 GATGTATATA
* * * * *
50516743 GGGAGGCTTATAGAAGAG-AATAATATAGTCCTGCTCCTAGATGCAT-G
1 GGGAGGCTTACAGAA-AGTAATAATAT-GACCTACTCCCAAATGCATAG
* * ***
50516790 GGGGGAGCTTAC-GAAAGGTAATCATATGACCATACTTTTAAATGCATAG
1 GGGAG-GCTTACAGAAA-GTAATAATATGACC-TACTCCCAAATGCATAG
* * * * * ** *
50516839 GGGAGGCTTATAGAAAATAATAATATGTCCCTACTTCCAGACACATGG
1 GGGAGGCTTACAGAAAGTAATAATATG-ACCTACTCCCAAATGCATAG
* *
50516887 GGTGAGGCTTACAGAACGTAATAATATAGTCCTACTCCCAAATGCATAG
1 GG-GAGGCTTACAGAAAGTAATAATAT-GACCTACTCCCAAATGCATAG
*
50516936 GGGAGACTTACA-ACAAGTAATAATATGACCTACTC
1 GGGAGGCTTACAGA-AAGTAATAATATGACCTACTC
50516971 TTAAACACAT
Statistics
Matches: 140, Mismatches: 31, Indels: 20
0.73 0.16 0.10
Matches are distributed among these distances:
46 1 0.01
47 20 0.14
48 70 0.50
49 48 0.34
50 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (47 bp):
GGGAGGCTTACAGAAAGTAATAATATGACCTACTCCCAAATGCATAG
Found at i:50517535 original size:13 final size:13
Alignment explanation
Indices: 50517517--50517578 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
50517507 AACATGGAGT
50517517 TAAGTGGTACCGC
1 TAAGTGGTACCGC
* *
50517530 TAAGTGTTACCTC
1 TAAGTGGTACCGC
* **
50517543 TAAGTGATACCAT
1 TAAGTGGTACCGC
*
50517556 TAAGTGGTATCG-
1 TAAGTGGTACCGC
50517568 TAAGGTGGTAC
1 TAA-GTGGTAC
50517579 TGCGAACTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 3 0.08
13 36 0.92
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (13 bp):
TAAGTGGTACCGC
Found at i:50537759 original size:19 final size:19
Alignment explanation
Indices: 50537735--50537789 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
50537725 CATAATGAAA
50537735 ATTTAATATATATTTTATT
1 ATTTAATATATATTTTATT
* * *
50537754 ATTTAATATAAAATATATT
1 ATTTAATATATATTTTATT
* *
50537773 ATTTATTATTTATTTTA
1 ATTTAATATATATTTTA
50537790 CGTATATAAG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTAATATATATTTTATT
Found at i:50539229 original size:18 final size:16
Alignment explanation
Indices: 50539189--50539246 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 16
50539179 TATAATCGTA
50539189 TTTA-AATATTTTATAT
1 TTTATAATA-TTTATAT
50539205 TTATATAATATGTTAATAT
1 TT-TATAATAT-TT-ATAT
* *
50539224 TTTATACTATTTGTAT
1 TTTATAATATTTATAT
50539240 TTTATAA
1 TTTATAA
50539247 AAATATACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 11 0.31
17 5 0.14
18 13 0.37
19 6 0.17
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTATAATATTTATAT
Found at i:50539313 original size:8 final size:8
Alignment explanation
Indices: 50539302--50539326 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50539292 TTTAAAACAA
50539302 TTTTATTT
1 TTTTATTT
50539310 TTTTATTT
1 TTTTATTT
50539318 TTTTATTT
1 TTTTATTT
50539326 T
1 T
50539327 ATTGTACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:50543662 original size:15 final size:15
Alignment explanation
Indices: 50543607--50543663 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
50543597 TTTATACTAC
*
50543607 AAAATATTTATTGTT
1 AAAATATTTATTATT
* *
50543622 AATATATTTATAATCGT
1 AAAATATTTATTAT--T
50543639 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
50543656 AAAATATT
1 AAAATATT
50543664 AATATTGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 18 0.55
16 1 0.03
17 2 0.06
18 1 0.03
19 11 0.33
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:50543727 original size:16 final size:16
Alignment explanation
Indices: 50543696--50543732 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
50543686 ATGTGAAGAA
50543696 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
50543712 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
50543728 TATTA
1 TATTA
50543733 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:50543783 original size:16 final size:16
Alignment explanation
Indices: 50543755--50543801 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
50543745 AATATTAAAT
50543755 AATT-TATTAAATAATA
1 AATTATATT-AATAATA
*
50543771 AATTATATTAATAATT
1 AATTATATTAATAATA
* *
50543787 TATTATATGAATAAT
1 AATTATATTAATAAT
50543802 TATAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTATATTAATAATA
Found at i:50543787 original size:28 final size:29
Alignment explanation
Indices: 50543746--50543805 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
50543736 TAAATTTAGA
50543746 ATATTAAATAATTTATTAAAT-AATAAATT
1 ATATTAAATAATTTATTAAATGAAT-AATT
*
50543775 ATATT-AATAATTTATTATATGAATAATT
1 ATATTAAATAATTTATTAAATGAATAATT
50543803 ATA
1 ATA
50543806 ATATTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
ATATTAAATAATTTATTAAATGAATAATT
Found at i:50543802 original size:16 final size:15
Alignment explanation
Indices: 50543752--50543802 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 15
50543742 TAGAATATTA
*
50543752 AATAATTTATTAAAT
1 AATAATTTATTATAT
*
50543767 AATAAATTA-TAT-T
1 AATAATTTATTATAT
50543780 AATAATTTATTATAT
1 AATAATTTATTATAT
50543795 GAATAATT
1 -AATAATT
50543803 ATAATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 9 0.30
14 5 0.17
15 9 0.30
16 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AATAATTTATTATAT
Found at i:50543814 original size:22 final size:22
Alignment explanation
Indices: 50543781--50543834 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
50543771 AATTATATTA
50543781 ATAAT-TTATTATATGAATAATT
1 ATAATATT-TTATATGAATAATT
* * *
50543803 ATAATATTTTATTTTAATATTT
1 ATAATATTTTATATGAATAATT
*
50543825 TTAATATTTT
1 ATAATATTTT
50543835 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATAATATTTTATATGAATAATT
Found at i:50547402 original size:22 final size:23
Alignment explanation
Indices: 50547376--50547424 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
50547366 AATAATTTAG
*
50547376 TTTAGATTTATTTTTATT-TAAA
1 TTTAGATATATTTTTATTATAAA
*
50547398 TTTAGATATATTTTTATTATTAA
1 TTTAGATATATTTTTATTATAAA
50547421 TTTA
1 TTTA
50547425 TTGTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTAGATATATTTTTATTATAAA
Found at i:50559650 original size:60 final size:60
Alignment explanation
Indices: 50559526--50559727 Score: 198
Period size: 60 Copynumber: 3.4 Consensus size: 60
50559516 TAGGCCATCT
* * *
50559526 TAAATCTTATTTGAAACAC-CCAGCAGATA-CCA-AGGTCAGCCAAACC-AATAAGCAGTCC
1 TAAATCTTACTTGAAACTCTCAAGCAGATAGCCACA--TCAGCCAAACCTAATAAGCAGTCC
* * * * *
50559584 TAAATCTTACTTGAAACTCTCAAGCATATATCCACATCAGCCAAGCCTAATAAGCACTCG
1 TAAATCTTACTTGAAACTCTCAAGCAGATAGCCACATCAGCCAAACCTAATAAGCAGTCC
* * * *
50559644 TAAATCTTCCTTGAAA-TGGTCATGCAGATAGCCACATCAGCCAAACATAATAAGCAGTCC
1 TAAATCTTACTTGAAACT-CTCAAGCAGATAGCCACATCAGCCAAACCTAATAAGCAGTCC
* ** *
50559704 TAAAACAAACTTGTAACTCTCAAG
1 TAAATCTTACTTGAAACTCTCAAG
50559728 TAGACATGAA
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
58 17 0.15
59 19 0.17
60 77 0.67
61 2 0.02
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (60 bp):
TAAATCTTACTTGAAACTCTCAAGCAGATAGCCACATCAGCCAAACCTAATAAGCAGTCC
Found at i:50563208 original size:33 final size:32
Alignment explanation
Indices: 50563136--50563205 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
50563126 AATAAATACC
**** *
50563136 AAAAATTTATTTTAAAAATTAAAACAAAAATAA
1 AAAAATTTATTTTAAAAA-TATTTTAAAATTAA
50563169 AAAAATTTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTATTTTAAAAATATTTTAAAATTAA
50563201 AAAAA
1 AAAAA
50563206 ATTAAAAGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (32 bp):
AAAAATTTATTTTAAAAATATTTTAAAATTAA
Found at i:50563231 original size:12 final size:11
Alignment explanation
Indices: 50563176--50563288 Score: 52
Period size: 11 Copynumber: 11.2 Consensus size: 11
50563166 TAAAAAAATT
50563176 TATTTTAAAAA
1 TATTTTAAAAA
50563187 TATTTT--AAA
1 TATTTTAAAAA
50563196 -A--TTAAAAA
1 TATTTTAAAAA
** *
50563204 -AAATTAAAAG
1 TATTTTAAAAA
50563214 TATTTTAAAAA
1 TATTTTAAAAA
*
50563225 TATTTT-TAAA
1 TATTTTAAAAA
50563235 -A--TTAAAAA
1 TATTTTAAAAA
* *
50563243 AATTTAAAAAAA
1 TATTT-TAAAAA
*
50563255 GTATTTTAAAAG
1 -TATTTTAAAAA
50563267 TATTTT-AAAA
1 TATTTTAAAAA
*
50563277 T-TTATAAAAA
1 TATTTTAAAAA
50563287 TA
1 TA
50563289 AAAAAAAATA
Statistics
Matches: 77, Mismatches: 12, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 8 0.10
9 8 0.10
10 18 0.23
11 26 0.34
12 9 0.12
13 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:50563271 original size:42 final size:41
Alignment explanation
Indices: 50563143--50563294 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 41
50563133 ACCAAAAATT
*
50563143 TATTTTAAAAATTAAAACAAAAATAAAAAAATTTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAAAATAAAAAAA-GTATTTTAAAAA
*
50563187 TATTTTAAAATT-AAAAAAAAT--TAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAATAAAAAAAGTATTTTAAAAA
** *
50563225 TATTTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAG
1 TA-TTTTAAAATTAAAAAAAAATAAAAAAAGTATTTTAAAAA
* *
50563267 TATTTTAAAATT-TATAAAAATAAAAAAA
1 TATTTTAAAATTAAAAAAAAATAAAAAAA
50563295 AATAAAAAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
38 13 0.14
39 14 0.15
40 19 0.20
41 16 0.17
42 20 0.21
43 6 0.06
44 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAAAATAAAAAAAGTATTTTAAAAA
Found at i:50563272 original size:80 final size:82
Alignment explanation
Indices: 50563143--50563292 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 82
50563133 ACCAAAAATT
*
50563143 TATTTTAAAAATTAAAACAAAAATAAAAAAATTTATTTTAAAAATATTTTAAAATTAAAAAAAAT
1 TATTTTAAAAATTAAAACAAAAATAAAAAAATGTATTTTAAAAATATTTTAAAATTAAAAAAAAT
*
50563208 TAAAAGTATTTTAAAAA
66 AAAAAGTATTTTAAAAA
* ** * * *
50563225 TATTTTTAAAATTAAAA-AAATTTAAAAAAA-GTATTTTAAAAGTATTTTAAAATTTATAAAAAT
1 TATTTTAAAAATTAAAACAAAAATAAAAAAATGTATTTTAAAAATATTTTAAAATTAAAAAAAAT
50563288 AAAAA
66 AAAAA
50563293 AAAATAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 33 0.55
81 11 0.18
82 16 0.27
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.37
Consensus pattern (82 bp):
TATTTTAAAAATTAAAACAAAAATAAAAAAATGTATTTTAAAAATATTTTAAAATTAAAAAAAAT
AAAAAGTATTTTAAAAA
Found at i:50574698 original size:31 final size:31
Alignment explanation
Indices: 50574663--50574730 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
50574653 AAAAATACTC
50574663 AATAGCTC-AATAACTTAAATAAAAACTTTTG
1 AATAG-TCAAATAACTTAAATAAAAACTTTTG
* *
50574694 AATAGTCAAATGACTTAAATGAAAACTTTTG
1 AATAGTCAAATAACTTAAATAAAAACTTTTG
50574725 AATAGT
1 AATAGT
50574731 TCAGTAATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.32
Consensus pattern (31 bp):
AATAGTCAAATAACTTAAATAAAAACTTTTG
Found at i:50579853 original size:27 final size:27
Alignment explanation
Indices: 50579823--50579874 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
50579813 AGGGCTGAAG
50579823 GTGGTGCCAATGAGAATGGCGGCACCA
1 GTGGTGCCAATGAGAATGGCGGCACCA
50579850 GTGGTGCCAATGAGAATGGCGGCAC
1 GTGGTGCCAATGAGAATGGCGGCAC
50579875 AGGACTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.38, T:0.15
Consensus pattern (27 bp):
GTGGTGCCAATGAGAATGGCGGCACCA
Found at i:50583193 original size:5 final size:5
Alignment explanation
Indices: 50583183--50583245 Score: 101
Period size: 5 Copynumber: 12.8 Consensus size: 5
50583173 TACTTTAAAT
* *
50583183 ATATA ATATA ATATT TTA-A ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
50583232 ATATA ATATA ATAT
1 ATATA ATATA ATAT
50583246 TTTAGTTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
4 2 0.04
5 51 0.96
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:50584928 original size:3 final size:3
Alignment explanation
Indices: 50584922--50584971 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
50584912 TTTTTTAATG
* * *
50584922 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTG CTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50584969 TTA
1 TTA
50584972 ATATAATTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:50595245 original size:99 final size:97
Alignment explanation
Indices: 50595077--50595306 Score: 302
Period size: 99 Copynumber: 2.4 Consensus size: 97
50595067 TCAGCTGACC
* * * * * *
50595077 TGGGAACAGATCCATCTTCTT-TAGGGAAAACCTCTATTTTGGGTGCAAACATATCATTCGTACT
1 TGGGAACAGATCCATCTTCTTCAATGAAAAACCTCTATTTCGGGTGCAAACATATCAATCGTACA
* *
50595141 GCAGTCAGCTGAGCCAGAGGTTGACGACGACT
66 GCAGTCAGCTGAGCCAGAAGTTGAAGACGACT
* * *
50595173 TGGGAACAGATCCATCTTCTTCAATGAAAAACTCCTCTATTTCGGTTGGAACCATATCAATCGTA
1 TGGGAACAGATCCATCTTCTTCAATGAAAAA--CCTCTATTTCGGGTGCAAACATATCAATCGTA
* *
50595238 CAGCAGTCAGCTGAGCCAGAATTTGAAGACGATT
64 CAGCAGTCAGCTGAGCCAGAAGTTGAAGACGACT
*
50595272 TGGGAACAGATCCATCTTCTTCAATG-GAAACCTCT
1 TGGGAACAGATCCATCTTCTTCAATGAAAAACCTCT
50595307 TCCCTTTCGG
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
96 26 0.22
97 6 0.05
98 3 0.03
99 82 0.70
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (97 bp):
TGGGAACAGATCCATCTTCTTCAATGAAAAACCTCTATTTCGGGTGCAAACATATCAATCGTACA
GCAGTCAGCTGAGCCAGAAGTTGAAGACGACT
Found at i:50596050 original size:31 final size:31
Alignment explanation
Indices: 50595983--50596050 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
50595973 TTACAGTGTT
* * *
50595983 AATAAATAAACTTAAAATTTTAAATTCAAAA
1 AATAAATAAACTTAAAATCTAAAAATCAAAA
50596014 AATAAATAAAC-TAAAATCCTAAAAAT-AAAA
1 AATAAATAAACTTAAAAT-CTAAAAATCAAAA
50596044 ATATAAA
1 A-ATAAA
50596051 AATTAAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.26
Consensus pattern (31 bp):
AATAAATAAACTTAAAATCTAAAAATCAAAA
Found at i:50598663 original size:20 final size:20
Alignment explanation
Indices: 50598629--50598670 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50598619 AACTATTTAA
** *
50598629 ATAATATTATTTGAATATTT
1 ATAATATTAAATGAATAATT
50598649 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
50598669 AT
1 AT
50598671 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:50612467 original size:26 final size:26
Alignment explanation
Indices: 50612438--50612506 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
50612428 AAGAGTGCGT
*
50612438 CACAAAGTCTTTCTTTCATATTACAC
1 CACAAAGGCTTTCTTTCATATTACAC
**
50612464 CACAAAGGCTTTCTTTCATATTATTC
1 CACAAAGGCTTTCTTTCATATTACAC
*
50612490 GACAAAGGCTTTCTTTC
1 CACAAAGGCTTTCTTTC
50612507 CTAATGTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (26 bp):
CACAAAGGCTTTCTTTCATATTACAC
Found at i:50616205 original size:14 final size:14
Alignment explanation
Indices: 50616183--50616215 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
50616173 AAAGTAGGAT
*
50616183 TTATAAATACAACC
1 TTATTAATACAACC
50616197 TTATTAATACAACC
1 TTATTAATACAACC
50616211 TTATT
1 TTATT
50616216 TTTGTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (14 bp):
TTATTAATACAACC
Found at i:50641235 original size:17 final size:18
Alignment explanation
Indices: 50641203--50641236 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50641193 AAAAAAAGAA
*
50641203 TTCTATCCTCATTTTTTT
1 TTCTATACTCATTTTTTT
50641221 TTCTATACT-ATTTTTT
1 TTCTATACTCATTTTTT
50641237 GGTAGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTATACTCATTTTTTT
Found at i:50641636 original size:18 final size:17
Alignment explanation
Indices: 50641605--50641639 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
50641595 GGTTTAGGGT
50641605 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
50641622 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
50641640 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Done.