Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 217 of 259
Found at i:68747608 original size:15 final size:15
Alignment explanation
Indices: 68747588--68747619 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
68747578 ATTTGCTCTT
68747588 ATCATCACCACCATC
1 ATCATCACCACCATC
68747603 ATCATCACCACCATC
1 ATCATCACCACCATC
68747618 AT
1 AT
68747620 GACTCTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (15 bp):
ATCATCACCACCATC
Found at i:68748199 original size:2 final size:2
Alignment explanation
Indices: 68748192--68748221 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
68748182 TTCTCATTTG
68748192 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
68748222 GTGTATGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:68751461 original size:6 final size:6
Alignment explanation
Indices: 68751450--68751474 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
68751440 CGTGCAACAG
68751450 ACCACA ACCACA ACCACA ACCACA A
1 ACCACA ACCACA ACCACA ACCACA A
68751475 TAAAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCACA
Found at i:68754019 original size:22 final size:22
Alignment explanation
Indices: 68753994--68754038 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
68753984 AGTGTAATTG
68753994 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
68754016 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
68754038 T
1 T
68754039 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:68757796 original size:22 final size:22
Alignment explanation
Indices: 68757768--68757812 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
68757758 AGGGGGAGTG
68757768 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
68757790 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
68757812 T
1 T
68757813 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:68760227 original size:70 final size:70
Alignment explanation
Indices: 68760114--68760256 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
68760104 GAGCTATGAT
68760114 GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCAATCCCTA
1 GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCAATCCCTA
68760179 AAGTG
66 AAGTG
*
68760184 GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCACTCCCTA
1 GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCAATCCCTA
68760249 AAGTG
66 AAGTG
68760254 GAG
1 GAG
68760257 GATATTACGC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (70 bp):
GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCAATCCCTA
AAGTG
Found at i:68766021 original size:6 final size:6
Alignment explanation
Indices: 68765994--68766063 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
68765984 TGACAAAAGT
* * *
68765994 AAATAA AAGA-AA AATTAGA AAATAA AAATTA AACTAA AAAT-A AAATAA
1 AAATAA AA-ATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA
* * *
68766042 AAATTA TAATAG AAATAA AAAT
1 AAATAA AAATAA AAATAA AAAT
68766064 GGCTAAATTA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
5 5 0.10
6 37 0.77
7 6 0.12
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:68766033 original size:12 final size:12
Alignment explanation
Indices: 68765997--68766063 Score: 64
Period size: 12 Copynumber: 5.5 Consensus size: 12
68765987 CAAAAGTAAA
*
68765997 TAAAAGAAAAAT
1 TAAAATAAAAAT
68766009 TAGAAAATAAAAAT
1 T--AAAATAAAAAT
*
68766023 TAAACTAAAAA-
1 TAAAATAAAAAT
68766034 TAAAATAAAAAT
1 TAAAATAAAAAT
* *
68766046 TATAATAGAAAT
1 TAAAATAAAAAT
*
68766058 AAAAAT
1 TAAAAT
68766064 GGCTAAATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
11 10 0.22
12 24 0.53
14 11 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (12 bp):
TAAAATAAAAAT
Found at i:68766038 original size:23 final size:23
Alignment explanation
Indices: 68766012--68766061 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
68766002 GAAAAATTAG
68766012 AAAATAAAAATTA-AACTAAAAAT
1 AAAATAAAAATTATAA-TAAAAAT
*
68766035 AAAATAAAAATTATAATAGAAAT
1 AAAATAAAAATTATAATAAAAAT
68766058 AAAA
1 AAAA
68766062 ATGGCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAATAAAAATTATAATAAAAAT
Found at i:68770052 original size:30 final size:30
Alignment explanation
Indices: 68770008--68770086 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
68769998 TAGGCACTTC
* * *
68770008 CACATGGGTAAACCACACGCCCGTATGAGG
1 CACACGGGCAAACCACACGCCCGTATAAGG
* *
68770038 CACACGGGCAAACCACACGTCCGTGTAAGG
1 CACACGGGCAAACCACACGCCCGTATAAGG
* *
68770068 CACACAGGCAGACCACACG
1 CACACGGGCAAACCACACG
68770087 TTCGTGTGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.32, C:0.34, G:0.25, T:0.09
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTATAAGG
Found at i:68770087 original size:30 final size:30
Alignment explanation
Indices: 68770017--68770093 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
68770007 CCACATGGGT
* * * *
68770017 AAACCACACGCCCGTATGAGGCACACGGGC
1 AAACCACACGTCCGTGTAAGGCACACAGGC
68770047 AAACCACACGTCCGTGTAAGGCACACAGGC
1 AAACCACACGTCCGTGTAAGGCACACAGGC
* *
68770077 AGACCACACGTTCGTGT
1 AAACCACACGTCCGTGT
68770094 GTCATGACCG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.12
Consensus pattern (30 bp):
AAACCACACGTCCGTGTAAGGCACACAGGC
Found at i:68776551 original size:55 final size:55
Alignment explanation
Indices: 68776464--68776600 Score: 141
Period size: 55 Copynumber: 2.5 Consensus size: 55
68776454 TATGTAGGCC
* * * * *
68776464 CACGCCCGTGGTAATTTAACAGGTTCGACCACAGGTGCTAGACACGGGGGTGTCG
1 CACGCCCGTGTTAATTTGACAGTTTCGACCACAGGTGCAAGACACGGGCGTGTCG
* * *
68776519 CACGCCCGTGTTAATTTGACAGTTTC-AGCCACAGTTTCAAGGCACGGGCGTGTCG
1 CACGCCCGTGTTAATTTGACAGTTTCGA-CCACAGGTGCAAGACACGGGCGTGTCG
* * ** *
68776574 CACTCTCGTGTTGTTTTGGCAGTTTCG
1 CACGCCCGTGTTAATTTGACAGTTTCG
68776601 CTCACGACCA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
54 1 0.01
55 66 0.99
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.27
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTGACAGTTTCGACCACAGGTGCAAGACACGGGCGTGTCG
Found at i:68783626 original size:12 final size:12
Alignment explanation
Indices: 68783609--68783637 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
68783599 ATTTTTGGAT
68783609 GATTTATCATAA
1 GATTTATCATAA
68783621 GATTTATCATAA
1 GATTTATCATAA
68783633 GATTT
1 GATTT
68783638 GATAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (12 bp):
GATTTATCATAA
Found at i:68783841 original size:15 final size:15
Alignment explanation
Indices: 68783823--68783856 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
68783813 CACACATTAC
68783823 CAAACTTTAGTTGGA
1 CAAACTTTAGTTGGA
*
68783838 CAAACTTTTGTTGGA
1 CAAACTTTAGTTGGA
68783853 CAAA
1 CAAA
68783857 ACACACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (15 bp):
CAAACTTTAGTTGGA
Found at i:68785318 original size:3 final size:3
Alignment explanation
Indices: 68785310--68785344 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
68785300 TCCATCCAAG
*
68785310 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGT AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
68785345 TGAATAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:68785976 original size:25 final size:25
Alignment explanation
Indices: 68785948--68785998 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
68785938 TTTCTTTTCA
* *
68785948 AAGTGCTCAAATTATATTTATATAT
1 AAGTGATCAAATTATACTTATATAT
*
68785973 AAGTGATGAAATTATACTTATATAT
1 AAGTGATCAAATTATACTTATATAT
68785998 A
1 A
68785999 TTTTCTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (25 bp):
AAGTGATCAAATTATACTTATATAT
Found at i:68786293 original size:2 final size:2
Alignment explanation
Indices: 68786286--68786322 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
68786276 GCCATTGTGA
*
68786286 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
68786323 CATATATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:68792387 original size:3 final size:3
Alignment explanation
Indices: 68792379--68792436 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
68792369 AAAAGAATTT
*
68792379 GAA GAA GAA GAA GAA TAA 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
68792427 GAA GAA GAA G
1 GAA GAA GAA G
68792437 GGTGTGGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:68793159 original size:19 final size:19
Alignment explanation
Indices: 68793111--68793168 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
68793101 ATATTTAGTT
68793111 AATTTTTAAAAAATTTAA-A
1 AATTTTTAAAAAA-TTAATA
***
68793130 AATTCAAAAAAAATTAATA
1 AATTTTTAAAAAATTAATA
68793149 AATTTTTAAAAAA-TAATA
1 AATTTTTAAAAAATTAATA
68793167 AA
1 AA
68793169 ATGTTAACAC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 11 0.34
19 21 0.66
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTTTTAAAAAATTAATA
Found at i:68793175 original size:18 final size:19
Alignment explanation
Indices: 68793137--68793175 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
68793127 AAAAATTCAA
* *
68793137 AAAAAATTAATAAATTTTT
1 AAAAAATTAATAAAATGTT
68793156 AAAAAA-TAATAAAATGTT
1 AAAAAATTAATAAAATGTT
68793174 AA
1 AA
68793176 CACGTGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAAATTAATAAAATGTT
Found at i:68803830 original size:205 final size:205
Alignment explanation
Indices: 68803470--68804047 Score: 829
Period size: 204 Copynumber: 2.8 Consensus size: 205
68803460 AAATTTGCTT
68803470 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
68803535 GTGAAAGCCAAATCAGCTACGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
* *
68803600 GGATCTTCTTCAGTATAATCATCTGAAGGTGAGATCTGCAATGTATCTGCTCCCCGTCGAA-GTG
131 GGATCTTCTTCAGTATAAACATCTGAAGGTG-GATCTGCAATGTATCTGCTCCCCGTCGAATATG
*
68803664 GAGATGCCAGA
195 GAGATGCAAGA
* * * *
68803675 CTTCGATTTGTTCTCT-AGCAATACAGAGATGCCAAATCATCATACATTTGCTTTATCGTAAACA
1 CTTCGATTTGTTCTCTGA-CAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCA
* ** * * **
68803739 CGTGAAAGCCAAATCAGCTATGTTTTTTATTCGCTCCTTGTAAGTACAAGGATGCCAAATCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
* * ** * *
68803804 TGGATCTTCTTCGGTATAAACATCTGAACGT-GATCTGTTATGTATCTGCTCTCTGTCGAATATG
130 TGGATCTTCTTCAGTATAAACATCTGAAGGTGGATCTGCAATGTATCTGCTCCCCGTCGAATATG
68803868 GAGATGCAAGA
195 GAGATGCAAGA
* * * *
68803879 CTTTGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
68803944 GTGAAAACCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
*
68804009 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGC
131 GGATCTTCTTCAGTATAAACATCTGAAGG-TGGATCTGC
68804048 TATGCTGCAG
Statistics
Matches: 324, Mismatches: 44, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
203 25 0.08
204 149 0.46
205 144 0.44
206 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
GGATCTTCTTCAGTATAAACATCTGAAGGTGGATCTGCAATGTATCTGCTCCCCGTCGAATATGG
AGATGCAAGA
Found at i:68827899 original size:14 final size:14
Alignment explanation
Indices: 68827844--68827899 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
68827834 AAATAAAAAT
68827844 ATATAATGATATA-A
1 ATATAAT-ATATATA
*
68827858 ATTATGAAAATATATA
1 A-TAT-AATATATATA
* *
68827874 ATACAATGTATATA
1 ATATAATATATATA
68827888 ATATAATATATA
1 ATATAATATATA
68827900 AAAAATATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 19 0.58
15 10 0.30
16 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (14 bp):
ATATAATATATATA
Found at i:68830580 original size:29 final size:29
Alignment explanation
Indices: 68830547--68830605 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
68830537 TCTCTCTCTC
68830547 TCTCCCTCTCTCCATATATATTAACACTT
1 TCTCCCTCTCTCCATATATATTAACACTT
68830576 TCTCCCTCTCTCCATATATATTAACACTT
1 TCTCCCTCTCTCCATATATATTAACACTT
68830605 T
1 T
68830606 GCTTTTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (29 bp):
TCTCCCTCTCTCCATATATATTAACACTT
Found at i:68832074 original size:27 final size:29
Alignment explanation
Indices: 68832043--68832110 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 29
68832033 TGCTTTAGTT
68832043 ATCATAA-TC-TAACTAATTTTAGATATA
1 ATCATAACTCATAACTAATTTTAGATATA
68832070 ATCATAACTCAAGTAACTAATTTTAGATATA
1 ATCATAACTC-A-TAACTAATTTTAGATATA
68832101 ATCATAACTC
1 ATCATAACTC
68832111 TTTGACTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.19
28 2 0.05
31 28 0.76
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (29 bp):
ATCATAACTCATAACTAATTTTAGATATA
Found at i:68832127 original size:30 final size:31
Alignment explanation
Indices: 68832052--68832110 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
68832042 TATCATAATC
68832052 TAACTAATTTTAGATATAATCATAACTCAAG
1 TAACTAATTTTAGATATAATCATAACTCAAG
68832083 TAACTAATTTTAGATATAATCATAACTC
1 TAACTAATTTTAGATATAATCATAACTC
68832111 TTTGACTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (31 bp):
TAACTAATTTTAGATATAATCATAACTCAAG
Found at i:68840590 original size:361 final size:362
Alignment explanation
Indices: 68839883--68840608 Score: 1213
Period size: 361 Copynumber: 2.0 Consensus size: 362
68839873 CACAGAAGCA
68839883 TGAGTTTATCCATGATGAGTTTGAAAATTGTGCTTCTTACAAACTTGTCTTAACAATTTAAGAAA
1 TGAGTTTATCCATGATGAGTTTGAAAATTGTGCTTCTTACAAACTTGTCTTAACAATTTAAGAAA
* *
68839948 CCAACATCTCAGCAAGCATATTTTGGTAGAAGAAATTTAAAATCAAACCATACATTATACTAGTT
66 CCAACATCTCAGCAAGCATATTTTGGCAAAAGAAATTTAAAATCAAACCATAC--TATA-TAGTT
68840013 TCAGACAACAGCTACACTAGTAACATAAGAAAAACACTTTTGGTGTATCCCTTCAAAATTTAACA
128 TCAGACAACAGCTACACTAGTAACATAAGAAAAACACTTTTGGTGTATCCCTTCAAAATTTAACA
68840078 ATATTTTGAGAAAGAAAAAGATAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTCGATG
193 ATATTTTGAGAAAGAAAAAGATAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTCGATG
*
68840143 TTACTCTGCTCTGTAATTGCATAAATTCTCTCCAAATGCTTTGTTAAAGTTACCATATAGTTAAA
258 TTACTCTGCTCTGTAATTGCATAAATTCTCCCCAAATGCTTTGTTAAAGTTACCATATAGTTAAA
68840208 TAACCTAACTGTATACACAGACAGCCAGAGGCAAATCTAG
323 TAACCTAACTGTATACACAGACAGCCAGAGGCAAATCTAG
* *
68840248 TGAGTTTATCCATGATGTGTTTGAAAATTGTGCTTCTTACAAACTTGTTTTAACAATTTAAGAAA
1 TGAGTTTATCCATGATGAGTTTGAAAATTGTGCTTCTTACAAACTTGTCTTAACAATTTAAGAAA
* *
68840313 CCAACATCTCAGCAAGTATATTTTGGCAAAAGAAATTTAAAATCATACCATAC-AT-TAGTTTCA
66 CCAACATCTCAGCAAGCATATTTTGGCAAAAGAAATTTAAAATCAAACCATACTATATAGTTTCA
* * * *
68840376 GTCAACAGCTACACTATTAACATAATAAAAACACTTTTGGTGTATCCCTTTAAAATTTAACAATA
131 GACAACAGCTACACTAGTAACATAAGAAAAACACTTTTGGTGTATCCCTTCAAAATTTAACAATA
* * *
68840441 TTTTGAGCAGGAAAAAGATTAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTTGATGTT
196 TTTTGAGAAAGAAAAAGA-TAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTCGATGTT
* * *
68840506 ACTCTGCTTTGTAATTGCATATATTCTCCCCAAATGCTTTGTTAAAGTTATCATATAGTTAAATA
260 ACTCTGCTCTGTAATTGCATAAATTCTCCCCAAATGCTTTGTTAAAGTTACCATATAGTTAAATA
* * **
68840571 ACCTAACTGTATTCACAGACAGTCAGAGGTGAATCTAG
325 ACCTAACTGTATACACAGACAGCCAGAGGCAAATCTAG
68840609 GGGGCAGGCA
Statistics
Matches: 339, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
360 85 0.25
361 140 0.41
362 2 0.01
365 112 0.33
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (362 bp):
TGAGTTTATCCATGATGAGTTTGAAAATTGTGCTTCTTACAAACTTGTCTTAACAATTTAAGAAA
CCAACATCTCAGCAAGCATATTTTGGCAAAAGAAATTTAAAATCAAACCATACTATATAGTTTCA
GACAACAGCTACACTAGTAACATAAGAAAAACACTTTTGGTGTATCCCTTCAAAATTTAACAATA
TTTTGAGAAAGAAAAAGATAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTCGATGTTA
CTCTGCTCTGTAATTGCATAAATTCTCCCCAAATGCTTTGTTAAAGTTACCATATAGTTAAATAA
CCTAACTGTATACACAGACAGCCAGAGGCAAATCTAG
Found at i:68851371 original size:23 final size:23
Alignment explanation
Indices: 68851327--68851373 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
68851317 ACTTAAGTTA
**
68851327 ATTAATTAAATTTATATTTATTT
1 ATTAATTAAATTTATAACTATTT
68851350 ATTAATTTAAATTT-TAACTATTT
1 ATTAA-TTAAATTTATAACTATTT
68851373 A
1 A
68851374 ATAGTCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTAATTAAATTTATAACTATTT
Found at i:68854506 original size:326 final size:326
Alignment explanation
Indices: 68853908--68854535 Score: 755
Period size: 326 Copynumber: 1.9 Consensus size: 326
68853898 TCTTTTTAGC
* * * ** *
68853908 TAAAAATATTTATTTTATTGTTGTTTATTTATATACATATTGCTAATGATCACTCTTCCATCTAT
1 TAAAAATATTTATTTTATTGATATTTATTTATAAACATATTGCTAACAATCACTCTTCCACCTAT
* * * * *
68853973 AAGTACCTAATCCTTCAAGAAAAATGAGATAAGCAAGAACAAATGACGAAAACTTAGCTCGAGTG
66 AAATACCTAATCCTTCAAAAAAAATGAGATAAACAAAAACAAATGACGAAAACTTAGCTCGAGTA
* *** * * **
68854038 TAACCTTGACCTTCTAAAACCATTGAGTATAGTAACTCTCCACACCATCTATGTTGTGAATTGCT
131 TAACCTCGACCTTCTAAAACCACCAAATATAGCAACTCTCCACACCATCTATGTTGTGAACCGCT
* * * * *
68854103 CCCATTTTAATGGCTATCCATACCTCATACAATGTGAATTACCCTCATTGTATTATTCGACATCT
196 CCCATTTTAACGGCTATCCACACCTCATACAATATGAACTACCCCCATTGTATTATTCGACATCT
*
68854168 TGTGATACTTAATTGATATAATAA-AAATAAGATGAATATTTATTTATTGTTATTTATCGTTATA
261 TGTGATACTTAATTGATATAATAATAAAAAAGATGAATATTTATTTATTGTTATTTATCGTTATA
68854232 A
326 A
* **
68854233 TAAAAATATTTATTTTATTGATATTTATTTATAAACATTTTGCTCGCAATCACT-TCTCCACCTA
1 TAAAAATATTTATTTTATTGATATTTATTTATAAACATATTGCTAACAATCACTCT-TCCACCTA
* * * * * *
68854297 TAAATACTTCATCC-TCTAAAAATAAATGGGCTAAACAAAAAGAAA-GTACGAAAGCTTAGCTCG
65 TAAATACCTAATCCTTC-AAAAA-AAATGAGATAAACAAAAACAAATG-ACGAAAACTTAGCTCG
* * *
68854360 AGTATAACCTCGACCTTCTAAAACCACCAAATCTAGCGACTCTTCACACCATCTATAG-TGTGAA
127 AGTATAACCTCGACCTTCTAAAACCACCAAATATAGCAACTCTCCACACCATCTAT-GTTGTGAA
** * * * **
68854424 CCGCTCCCATTTTGGCGGCTCTCTACACCTCGTATGATATGAACTACCCCCATTGTATTATTCGA
191 CCGCTCCCATTTTAACGGCTATCCACACCTCATACAATATGAACTACCCCCATTGTATTATTCGA
*
68854489 CATCTTGTG-TAACTTAATTGTTATAATAATAAAAAAGATGAATATTT
256 CATCTTGTGAT-ACTTAATTGATATAATAATAAAAAAGATGAATATTT
68854536 GATACATTGT
Statistics
Matches: 251, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
324 3 0.01
325 70 0.28
326 161 0.64
327 17 0.07
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (326 bp):
TAAAAATATTTATTTTATTGATATTTATTTATAAACATATTGCTAACAATCACTCTTCCACCTAT
AAATACCTAATCCTTCAAAAAAAATGAGATAAACAAAAACAAATGACGAAAACTTAGCTCGAGTA
TAACCTCGACCTTCTAAAACCACCAAATATAGCAACTCTCCACACCATCTATGTTGTGAACCGCT
CCCATTTTAACGGCTATCCACACCTCATACAATATGAACTACCCCCATTGTATTATTCGACATCT
TGTGATACTTAATTGATATAATAATAAAAAAGATGAATATTTATTTATTGTTATTTATCGTTATA
A
Found at i:68860521 original size:92 final size:92
Alignment explanation
Indices: 68860412--68860689 Score: 407
Period size: 92 Copynumber: 3.0 Consensus size: 92
68860402 ATCAACCCAA
* *
68860412 AACAAGTTTCAAAAAATCAAAATAACTTAAAATAGTGCAATGCTAAAAATAAGTGCGACTTCTCG
1 AACAAGTTTCAAAAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCTCG
*
68860477 CCAAGATTTATTAAGTAGTGAAATTGC
66 ACAAGATTTATTAAGTAGTGAAATTGC
* *
68860504 AACAAGTTTCAAGAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCTTG
1 AACAAGTTTCAAAAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCTCG
*
68860569 ACAAGATTTATTAAGTAGTGAAATCGC
66 ACAAGATTTATTAAGTAGTGAAATTGC
* * * * ** *
68860596 AATAAGTTTCAAAAAACCAAAACAACTT-AGATAATGCAATGCTAAAAATAAAAGCCACTT-TCC
1 AACAAGTTTCAAAAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCT-C
*
68860659 GACAAAATTTATTAAGTAGTGAAATTGC
65 GACAAGATTTATTAAGTAGTGAAATTGC
68860687 AAC
1 AAC
68860690 GTGAATTATG
Statistics
Matches: 167, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
90 1 0.01
91 55 0.33
92 111 0.66
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (92 bp):
AACAAGTTTCAAAAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCTCG
ACAAGATTTATTAAGTAGTGAAATTGC
Found at i:68895542 original size:41 final size:41
Alignment explanation
Indices: 68895487--68895725 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
68895477 GAATGTAATA
* *
68895487 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
68895528 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
68895569 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
68895610 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
68895651 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
68895692 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
68895726 ATCTGTTTAA
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 168 0.93
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:68903169 original size:41 final size:41
Alignment explanation
Indices: 68903114--68903352 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
68903104 GAATGTAATA
* *
68903114 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
68903155 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
68903196 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
68903237 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
68903278 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
68903319 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
68903353 ATCTGTTTAA
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 168 0.93
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:68904649 original size:15 final size:15
Alignment explanation
Indices: 68904603--68904649 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
68904593 ATAATTATAA
*
68904603 TAAATGTTTTAATTTT
1 TAAATATTTTAA-TTT
*
68904619 TAAATATATTT-TTTT
1 TAAATAT-TTTAATTT
68904634 TAAATATTTTAATTT
1 TAAATATTTTAATTT
68904649 T
1 T
68904650 TTAGAAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 3 0.12
15 14 0.54
16 6 0.23
17 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TAAATATTTTAATTT
Found at i:68905452 original size:76 final size:76
Alignment explanation
Indices: 68905329--68905488 Score: 266
Period size: 76 Copynumber: 2.1 Consensus size: 76
68905319 ATATTTTTAA
** * *
68905329 AATTATTATTAGAAGAATAGTAATGATTTGTTTCTTAATTAACAATATTTTAAAATTTTTATTTT
1 AATT-TTATTAGAAGAATAGTAATGATTTGTTTAATAATTAACAATATTTTAAAAATTATATTTT
*
68905394 TAATAGTATTTT
65 GAATAGTATTTT
68905406 AATTTTATTAGAAGAATAGTAATGATTTGTTTAATAATTAACAATATTTTAAAAATTATATTTTG
1 AATTTTATTAGAAGAATAGTAATGATTTGTTTAATAATTAACAATATTTTAAAAATTATATTTTG
68905471 AATAGTATTTT
66 AATAGTATTTT
68905482 AATTTTA
1 AATTTTA
68905489 AAAACTACTA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 74 0.95
77 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (76 bp):
AATTTTATTAGAAGAATAGTAATGATTTGTTTAATAATTAACAATATTTTAAAAATTATATTTTG
AATAGTATTTT
Found at i:68916471 original size:16 final size:15
Alignment explanation
Indices: 68916431--68916471 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
68916421 CAAAAACTTC
68916431 TATTTAGAATAATAT
1 TATTTAGAATAATAT
68916446 TATTTAAGAATAATTAT
1 TATTT-AGAATAA-TAT
*
68916463 TGTTTAGAA
1 TATTTAGAA
68916472 CAAAAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (15 bp):
TATTTAGAATAATAT
Found at i:68924948 original size:7 final size:7
Alignment explanation
Indices: 68924938--68925024 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
68924928 CACTAAACTT
68924938 TAAACCA
1 TAAACCA
*
68924945 TAAATTC-
1 TAAA-CCA
*
68924952 TAAACCC
1 TAAACCA
68924959 TAAACCA
1 TAAACCA
*
68924966 TAAACTA
1 TAAACCA
* *
68924973 TATACAA
1 TAAACCA
68924980 TAAACC-
1 TAAACCA
68924986 TAAACCA
1 TAAACCA
*
68924993 TAAACCC
1 TAAACCA
* *
68925000 TAATCCC
1 TAAACCA
*
68925007 TAAACCT
1 TAAACCA
*
68925014 TAAACCT
1 TAAACCA
68925021 TAAA
1 TAAA
68925025 TGATGCAAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
6 7 0.11
7 57 0.88
8 1 0.02
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:68924948 original size:21 final size:21
Alignment explanation
Indices: 68924924--68924970 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
68924914 TATTTATCCC
**
68924924 TAAACACTAAACTTTAAACCA
1 TAAACACTAAACCCTAAACCA
**
68924945 TAAATTCTAAACCCTAAACCA
1 TAAACACTAAACCCTAAACCA
68924966 TAAAC
1 TAAAC
68924971 TATATACAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACACTAAACCCTAAACCA
Found at i:68925097 original size:41 final size:41
Alignment explanation
Indices: 68925029--68925129 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
68925019 CTTAAATGAT
* * * *
68925029 GCAAGAGGTCAAGCAGTAGCGGTGTTTGTGATAAAAAC-ACC
1 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACGA-C
68925070 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACGAC
1 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACGAC
** *
68925111 GGTAAAGGTCAAGCCATAA
1 GCAAAAGGTCAAGCAATAA
68925130 AAAATAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 51 0.98
42 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.18
Consensus pattern (41 bp):
GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACGAC
Found at i:68925187 original size:7 final size:7
Alignment explanation
Indices: 68925160--68925226 Score: 62
Period size: 7 Copynumber: 9.4 Consensus size: 7
68925150 GGGTTTAGAT
*
68925160 TTTAAGA
1 TTTAAGG
*
68925167 TTTAATG
1 TTTAAGG
68925174 TTTAAGG
1 TTTAAGG
68925181 TTTAAGG
1 TTTAAGG
* *
68925188 TCTATGG
1 TTTAAGG
*
68925195 TTTATGG
1 TTTAAGG
68925202 TTTTAAGG
1 -TTTAAGG
*
68925210 TTTATGG
1 TTTAAGG
*
68925217 TTTAATG
1 TTTAAGG
68925224 TTT
1 TTT
68925227 TGTAACAGCC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
7 43 0.88
8 6 0.12
ACGTcount: A:0.24, C:0.01, G:0.22, T:0.52
Consensus pattern (7 bp):
TTTAAGG
Found at i:68925227 original size:22 final size:22
Alignment explanation
Indices: 68925159--68925227 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
68925149 AGGGTTTAGA
*
68925159 TTTTAAGATTTAAT-GTTTAA-G
1 TTTTAAGGTTT-ATGGTTTAATG
* *
68925180 GTTTAAGGTCTATGGTTT-ATGG
1 TTTTAAGGTTTATGGTTTAAT-G
68925202 TTTTAAGGTTTATGGTTTAATG
1 TTTTAAGGTTTATGGTTTAATG
68925224 TTTT
1 TTTT
68925228 GTAACAGCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.08
21 12 0.31
22 22 0.56
23 2 0.05
ACGTcount: A:0.23, C:0.01, G:0.22, T:0.54
Consensus pattern (22 bp):
TTTTAAGGTTTATGGTTTAATG
Found at i:68928120 original size:29 final size:29
Alignment explanation
Indices: 68928084--68928163 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 29
68928074 CACTTTGTGC
*
68928084 TATTCTGGTGTGTTTTGGATGGATTGTAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
*
68928113 TATTCTGGTGTGTTTGGGA-GGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
* * *
68928141 GATACTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTTGGATGGA
68928164 CATTTTGGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
28 23 0.52
29 21 0.48
ACGTcount: A:0.15, C:0.04, G:0.34, T:0.47
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGATGGATTATAT
Found at i:68928386 original size:22 final size:23
Alignment explanation
Indices: 68928349--68928393 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
68928339 GCTTTACTGA
68928349 TCAGACACTTTATGTGTCGTATT
1 TCAGACACTTTATGTGTCGTATT
*
68928372 TCAGGCAC-TTATGTGTCGTATT
1 TCAGACACTTTATGTGTCGTATT
68928394 CTTATCAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (23 bp):
TCAGACACTTTATGTGTCGTATT
Found at i:68934224 original size:18 final size:18
Alignment explanation
Indices: 68934174--68934224 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
68934164 TCCCCCAACA
* * *
68934174 AAATTTCCCCAATTTCCT
1 AAATTTTCCCAAATCCCT
*
68934192 AAATTTTCCCTAATCCCT
1 AAATTTTCCCAAATCCCT
68934210 AAATTTTCCCAAATC
1 AAATTTTCCCAAATC
68934225 AAAATCCCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTTCCCAAATCCCT
Found at i:68940852 original size:29 final size:29
Alignment explanation
Indices: 68940810--68940865 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
68940800 GGAAACACCT
68940810 GATGAGCCTGCAAAAATTCAAAGTAATCC
1 GATGAGCCTGCAAAAATTCAAAGTAATCC
68940839 GATGAGCCTGCAAAAATTCAAAGTAAT
1 GATGAGCCTGCAAAAATTCAAAGTAAT
68940866 GTTAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (29 bp):
GATGAGCCTGCAAAAATTCAAAGTAATCC
Found at i:68943418 original size:32 final size:32
Alignment explanation
Indices: 68943316--68943429 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
68943306 GTACCTAAAA
* *
68943316 TGTACAACTGGAAAAGGAAATGTACACTGTGTG
1 TGTACAACTTGAAAAGGAAATGTACCCT-TGTG
* * * *
68943349 TGTACAACTTAAAAAAGAAACGTACACTTTGTG
1 TGTACAACTTGAAAAGGAAATGTAC-CCTTGTG
68943382 TGTAC-ACTTGAAAAGGAAATGTACGCCTTGTG
1 TGTACAACTTGAAAAGGAAATGTAC-CCTTGTG
68943414 TGTACAA-TGTGAAAAG
1 TGTACAACT-TGAAAAG
68943430 TGGTAGCTTC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 28 0.42
33 38 0.57
34 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (32 bp):
TGTACAACTTGAAAAGGAAATGTACCCTTGTG
Found at i:68943459 original size:31 final size:31
Alignment explanation
Indices: 68943422--68943507 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 31
68943412 TGTGTACAAT
*
68943422 GTGAAAAGTGGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
68943453 GTGAAAAGTAGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
68943484 GTGAATAGTGATAGCTTCGGCTAC
1 GTGAAAAGTGGTAGCTTCGGCTAC
68943508 AAGTGACAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:68943627 original size:27 final size:27
Alignment explanation
Indices: 68943597--68943648 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
68943587 TAGTTGAACT
*
68943597 ATGGAAAAGTGATAAAGTGTGCCAATC
1 ATGGAAAAATGATAAAGTGTGCCAATC
*
68943624 ATGGAAAAATGATATAGTGTGCCAA
1 ATGGAAAAATGATAAAGTGTGCCAA
68943649 ACATAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (27 bp):
ATGGAAAAATGATAAAGTGTGCCAATC
Found at i:68943782 original size:29 final size:31
Alignment explanation
Indices: 68943716--68943777 Score: 79
Period size: 34 Copynumber: 1.9 Consensus size: 31
68943706 CATGGCAAAG
68943716 TGTGAAACGTAGGTATGGTATTTCCATACCAAGC
1 TGTGAAACGTAGGTATGGTATTTCCAT---AAGC
* *
68943750 TGTGAAATGTAGGTATGGTGTTTCCATA
1 TGTGAAACGTAGGTATGGTATTTCCATA
68943778 CTGTGTTGCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 1 0.04
34 25 0.96
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (31 bp):
TGTGAAACGTAGGTATGGTATTTCCATAAGC
Found at i:68945669 original size:13 final size:14
Alignment explanation
Indices: 68945653--68945681 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68945643 TTTTAAATAT
68945653 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
68945666 TTATAATGGTTTAA
1 TTATAATGGTTTAA
68945680 TT
1 TT
68945682 CTCCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:68946543 original size:43 final size:43
Alignment explanation
Indices: 68946495--68946605 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
68946485 TGTAAAAGCA
* * *
68946495 CCGCTAAAGGTCATATTCTTTAATGGTGTTTGTATGAAAAGTG
1 CCGCTAAAGGTCACATTCTTTAACGGCGTTTGTATGAAAAGTG
* * * * *
68946538 GCGCTAAAAGTCACGTTCTTTAGCGGCGTTTGTATGGAAAGTG
1 CCGCTAAAGGTCACATTCTTTAACGGCGTTTGTATGAAAAGTG
* *
68946581 CCGCTAAAGGTCACGTTTTTTAACG
1 CCGCTAAAGGTCACATTCTTTAACG
68946606 ACGCTTTCTC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
CCGCTAAAGGTCACATTCTTTAACGGCGTTTGTATGAAAAGTG
Found at i:68955964 original size:45 final size:45
Alignment explanation
Indices: 68955900--68956087 Score: 304
Period size: 45 Copynumber: 4.2 Consensus size: 45
68955890 ATAGGTGAAT
68955900 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
68955945 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
68955990 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * * * *
68956035 AGAAAGCATTTGGCCAACATCATGCATAATTTAAGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
68956080 AGGAAGCA
1 AGGAAGCA
68956088 CCATGGCCGA
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:68956745 original size:16 final size:16
Alignment explanation
Indices: 68956724--68956755 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
68956714 TAATGTGTTT
68956724 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
68956740 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
68956756 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:68957117 original size:46 final size:46
Alignment explanation
Indices: 68957031--68957142 Score: 208
Period size: 46 Copynumber: 2.5 Consensus size: 46
68957021 TTCGGCCGTG
*
68957031 ATGCTTCCTCAAATTCTTCC-ATGAATTATGCATGATGTTGGTCAA
1 ATGCTTCCTCAAATTCTTCCAATGAATTATGCATGATGTTGGCCAA
68957076 ATGCTTCCTCAAATTCTTCCAATGAATTATGCATGATGTTGGCCAA
1 ATGCTTCCTCAAATTCTTCCAATGAATTATGCATGATGTTGGCCAA
68957122 ATGCTTCCTCAAATTCTTCCA
1 ATGCTTCCTCAAATTCTTCCA
68957143 GAACAAATTA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
45 20 0.31
46 45 0.69
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (46 bp):
ATGCTTCCTCAAATTCTTCCAATGAATTATGCATGATGTTGGCCAA
Found at i:68957204 original size:45 final size:45
Alignment explanation
Indices: 68957153--68957340 Score: 304
Period size: 45 Copynumber: 4.2 Consensus size: 45
68957143 GAACAAATTA
68957153 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
68957198 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
68957243 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * * * *
68957288 AGGAAACATTTGGCCAACATCATGCATAATTTAAGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
68957333 AGGAAGCA
1 AGGAAGCA
68957341 CCATGGCCGA
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:68957682 original size:20 final size:20
Alignment explanation
Indices: 68957659--68957705 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
68957649 AACTGAGCTT
* *
68957659 GAATGAGCTGACTTGAGCAC
1 GAATGAGCTAACTTGACCAC
*
68957679 GAATGAGCTAACTTGACCTC
1 GAATGAGCTAACTTGACCAC
68957699 GAATGAG
1 GAATGAG
68957706 TTGAACCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (20 bp):
GAATGAGCTAACTTGACCAC
Found at i:68957921 original size:30 final size:30
Alignment explanation
Indices: 68957887--68957946 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
68957877 TTCCATGAAT
*
68957887 TATGCATGATGTTGGTCAAATGCTTCCTCA
1 TATGCATGATGTTGGCCAAATGCTTCCTCA
68957917 TATGCATGATGTTGGCCAAATGCTTCCTCA
1 TATGCATGATGTTGGCCAAATGCTTCCTCA
68957947 AATTCTTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (30 bp):
TATGCATGATGTTGGCCAAATGCTTCCTCA
Found at i:68957929 original size:75 final size:75
Alignment explanation
Indices: 68957842--68957989 Score: 278
Period size: 75 Copynumber: 2.0 Consensus size: 75
68957832 TCATGTAAAT
*
68957842 TATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
68957907 TGCTTCCTCA
66 TGCTTCCTCA
*
68957917 TATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATGACTTATGCATGATGTTGGTCAAA
1 TATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
68957982 TGCTTCCT
66 TGCTTCCT
68957990 TAATTTGTTC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (75 bp):
TATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
TGCTTCCTCA
Found at i:68957972 original size:45 final size:45
Alignment explanation
Indices: 68957917--68958020 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
68957907 TGCTTCCTCA
** *
68957917 TATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATGACT
1 TATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCACAAAT
* * * *
68957962 TATGCATGATGTTGGTCAAATGCTTCCTTAATTTGTTCCACAAAT
1 TATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCACAAAT
68958007 TATGCATGATGTTG
1 TATGCATGATGTTG
68958021 TCCACCTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (45 bp):
TATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCACAAAT
Found at i:68958155 original size:16 final size:16
Alignment explanation
Indices: 68958134--68958165 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
68958124 CATTCTGCAT
68958134 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
68958150 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
68958166 AAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:68960571 original size:13 final size:13
Alignment explanation
Indices: 68960553--68960578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68960543 GGTGGCGGAC
68960553 ATTGCCCCACAAG
1 ATTGCCCCACAAG
68960566 ATTGCCCCACAAG
1 ATTGCCCCACAAG
68960579 GCGAAGTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (13 bp):
ATTGCCCCACAAG
Found at i:68963259 original size:14 final size:14
Alignment explanation
Indices: 68963230--68963259 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
68963220 TTTATTATCT
68963230 AAAACAAAACCAAA
1 AAAACAAAACCAAA
68963244 AAAACCAAAACCAAA
1 AAAA-CAAAACCAAA
68963259 A
1 A
68963260 CCAAAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAACAAAACCAAA
Found at i:68964828 original size:17 final size:18
Alignment explanation
Indices: 68964766--68964829 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 18
68964756 TGTTATATTT
*
68964766 TTTTAAGAATTTAAAATA
1 TTTTAAAAATTTAAAATA
** *
68964784 TAATAGAAATTATAAAATA
1 TTTTAAAAATT-TAAAATA
*
68964803 TTGTAAAAATTTAAAA-A
1 TTTTAAAAATTTAAAATA
68964820 TTTTAAAAAT
1 TTTTAAAAAT
68964830 ATCTTGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 10 0.27
18 12 0.32
19 15 0.41
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
TTTTAAAAATTTAAAATA
Found at i:68970918 original size:28 final size:28
Alignment explanation
Indices: 68970887--68970978 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 28
68970877 TTATAGTATC
*
68970887 TTAATATTTTTAGGTATCTGTGTGATAT
1 TTAAAATTTTTAGGTATCTGTGTGATAT
** ** *
68970915 TTAAAATTTAAACGGTA-CT-AAT-ATAAA
1 TTAAAATTTTTA-GGTATCTGTGTGAT-AT
*
68970942 TTAAATTTTTTAGGTATCTGTGTGATAT
1 TTAAAATTTTTAGGTATCTGTGTGATAT
68970970 TTAAAATTT
1 TTAAAATTT
68970979 AAACAGTAAT
Statistics
Matches: 46, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
26 6 0.13
27 13 0.28
28 21 0.46
29 6 0.13
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (28 bp):
TTAAAATTTTTAGGTATCTGTGTGATAT
Found at i:68970975 original size:55 final size:55
Alignment explanation
Indices: 68970893--68971005 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
68970883 TATCTTAATA
* *
68970893 TTTTTAGGTATCTGTGTGATATTTAAAATTTAAACGGTACTAATATAAATTAAAT
1 TTTTTAGGTATCTGTGTGATATTTAAAATTTAAACAGTAATAATATAAATTAAAT
68970948 TTTTTAGGTATCTGTGTGATATTTAAAATTTAAACAGTAATAATATAAATTAAAT
1 TTTTTAGGTATCTGTGTGATATTTAAAATTTAAACAGTAATAATATAAATTAAAT
68971003 TTT
1 TTT
68971006 GAAATTGTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (55 bp):
TTTTTAGGTATCTGTGTGATATTTAAAATTTAAACAGTAATAATATAAATTAAAT
Found at i:68975381 original size:3 final size:3
Alignment explanation
Indices: 68975373--68975421 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
68975363 GAGAGATAGG
*
68975373 AGA AGA AGA AGA CGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
68975421 A
1 A
68975422 AGTGAAGTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:68986853 original size:21 final size:21
Alignment explanation
Indices: 68986828--68986892 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
68986818 TAGCCTTCGG
68986828 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
68986849 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
68986867 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
68986888 GCTTC
1 GCTTC
68986893 AGCTAGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:68986856 original size:39 final size:39
Alignment explanation
Indices: 68986810--68986909 Score: 173
Period size: 39 Copynumber: 2.6 Consensus size: 39
68986800 GCTCTGATGA
*
68986810 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
68986849 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
68986888 GCTTCAGCTAGACTTCGGGCTT
1 GCTTCAGTTAGCCTTCGGGCTT
68986910 TATATCACGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.12, C:0.26, G:0.25, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:68988846 original size:25 final size:25
Alignment explanation
Indices: 68988818--68988871 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
68988808 TTTCTATTTC
68988818 TGTTAAAGATTTCATGAAATACCAT
1 TGTTAAAGATTTCATGAAATACCAT
68988843 TGTTAAAGATTTCATGAAATACCAT
1 TGTTAAAGATTTCATGAAATACCAT
68988868 TGTT
1 TGTT
68988872 GATATCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (25 bp):
TGTTAAAGATTTCATGAAATACCAT
Found at i:68989587 original size:43 final size:42
Alignment explanation
Indices: 68989475--68989587 Score: 97
Period size: 42 Copynumber: 2.7 Consensus size: 42
68989465 GAAATTTAAG
* * * * * *
68989475 TGTAATACCATGTCTGGGACATCGGCATCGTATCTGTTTTCG
1 TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTGATTACA
* *
68989517 TATAAGACC-CTGTCTGGGACAG-AGGCATCG-ATACTGAATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTCGGCATCGTAT-CTG-ATTACA
68989560 TGTAAGACCACGTCTGGGACGTCGGCAT
1 TGTAAGACCACGTCTGGGACGTCGGCAT
68989588 TATACTTGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
41 2 0.04
42 27 0.49
43 25 0.45
44 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTGATTACA
Found at i:68990053 original size:12 final size:13
Alignment explanation
Indices: 68990036--68990067 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
68990026 GCAAATGTTA
68990036 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
68990048 AGTTTTGATGCAT
1 AGTTTTGATGCAT
68990061 -GTTTTGA
1 AGTTTTGA
68990068 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:68990988 original size:45 final size:45
Alignment explanation
Indices: 68990931--68991020 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
68990921 TTGAACCCAA
68990931 ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
1 ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
*
68990976 ATACATTACCCATAATGGAAGTAAACATGTTAGTAATAGAACCTT
1 ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
68991021 CTTCAAAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (45 bp):
ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
Found at i:68991696 original size:15 final size:14
Alignment explanation
Indices: 68991657--68991699 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
68991647 AAATAATACT
*
68991657 AATATATATTAGAA
1 AATATATAATAGAA
* *
68991671 TATATAGAATAGATA
1 AATATATAATAGA-A
68991686 AATATATAATAGAA
1 AATATATAATAGAA
68991700 TTAATATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (14 bp):
AATATATAATAGAA
Found at i:68992361 original size:209 final size:209
Alignment explanation
Indices: 68992001--68992420 Score: 815
Period size: 209 Copynumber: 2.0 Consensus size: 209
68991991 ATGGATGGTG
68992001 TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAAATTTTTATTTATCCACTTCCTATTTTG
1 TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAAATTTTTATTTATCCACTTCCTATTTTG
68992066 AAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCACT
66 AAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCACT
*
68992131 TGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCCATTTCTTATTGAATTAACCGATCATC
131 TGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCCATTTCTTATTGAATTAACCGATCAAC
68992196 CTCCTGTCGAAGAT
196 CTCCTGTCGAAGAT
68992210 TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAACA-TTTTATTTATCCACTTCCTATTTT
1 TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAA-ATTTTTATTTATCCACTTCCTATTTT
68992274 GAAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCAC
65 GAAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCAC
68992339 TTGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCCATTTCTTATTGAATTAACCGATCAA
130 TTGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCCATTTCTTATTGAATTAACCGATCAA
68992404 CCTCCTGTCGAAGAT
195 CCTCCTGTCGAAGAT
68992419 TT
1 TT
68992421 ATTTTGTATT
Statistics
Matches: 209, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
209 208 1.00
210 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (209 bp):
TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAAATTTTTATTTATCCACTTCCTATTTTG
AAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCACT
TGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCCATTTCTTATTGAATTAACCGATCAAC
CTCCTGTCGAAGAT
Found at i:68995528 original size:21 final size:21
Alignment explanation
Indices: 68995502--68995544 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
68995492 TCACCGAATT
68995502 TGTGAGTGTGTTATAATCTAG
1 TGTGAGTGTGTTATAATCTAG
*
68995523 TGTGAGTTTGTTATAATCTAG
1 TGTGAGTGTGTTATAATCTAG
68995544 T
1 T
68995545 AAATGTAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.47
Consensus pattern (21 bp):
TGTGAGTGTGTTATAATCTAG
Found at i:69003312 original size:155 final size:155
Alignment explanation
Indices: 69003055--69003364 Score: 584
Period size: 155 Copynumber: 2.0 Consensus size: 155
69003045 TTCAAGTTTT
69003055 AAAGCGTATTGTACAATTAAGGTTAATGCATATTTCTAAAGAAGAAAATAAATATATAAATTTCC
1 AAAGCGTATTGTACAATTAAGGTTAATGCATATTTCTAAAGAAGAAAATAAATATATAAATTTCC
69003120 TAACTAAAATGGTTTCAGATAAGAAGAAAGGTGTTTAGATTTTTGACGAAGCTCGAGCTCATAGC
66 TAACTAAAATGGTTTCAGATAAGAAGAAAGGTGTTTAGATTTTTGACGAAGCTCGAGCTCATAGC
69003185 TAATATTAAAAGTTTGATTTAATAA
131 TAATATTAAAAGTTTGATTTAATAA
* * * *
69003210 AAAGCGTATTGTACAATTAAGGTTAATGCATGTTTTTAGAGAAGAAAATAAATATATAAATTTTC
1 AAAGCGTATTGTACAATTAAGGTTAATGCATATTTCTAAAGAAGAAAATAAATATATAAATTTCC
69003275 TAACTAAAATGGTTTCAGATAAGAAGAAAGGTGTTTAGATTTTTGACGAAGCTCGAGCTCATAGC
66 TAACTAAAATGGTTTCAGATAAGAAGAAAGGTGTTTAGATTTTTGACGAAGCTCGAGCTCATAGC
69003340 TAATATTAAAAGTTTGATTTAATAA
131 TAATATTAAAAGTTTGATTTAATAA
69003365 GCAATGAATT
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
155 151 1.00
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (155 bp):
AAAGCGTATTGTACAATTAAGGTTAATGCATATTTCTAAAGAAGAAAATAAATATATAAATTTCC
TAACTAAAATGGTTTCAGATAAGAAGAAAGGTGTTTAGATTTTTGACGAAGCTCGAGCTCATAGC
TAATATTAAAAGTTTGATTTAATAA
Found at i:69004787 original size:3 final size:3
Alignment explanation
Indices: 69004773--69004802 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
69004763 CACTCATGAA
69004773 ATT ATCT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT
69004803 AAGGAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:69010681 original size:33 final size:34
Alignment explanation
Indices: 69010642--69010718 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
69010632 TAACTTGAAA
69010642 GTGTCTTCAACAGAGT-ACTC-TAATACTTCATTG
1 GTGTCTTCAACAGA-TAACTCTTAATACTTCATTG
* *
69010675 GTGTCTTCAACATATAACTCTTATTACTTCATTG
1 GTGTCTTCAACAGATAACTCTTAATACTTCATTG
69010709 GTGTCTTCAA
1 GTGTCTTCAA
69010719 AACTTTCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 1 0.03
33 17 0.43
34 22 0.55
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (34 bp):
GTGTCTTCAACAGATAACTCTTAATACTTCATTG
Found at i:69027240 original size:14 final size:14
Alignment explanation
Indices: 69027221--69027248 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
69027211 ATTTAGCCAA
69027221 AAAATTGCAAATGG
1 AAAATTGCAAATGG
69027235 AAAATTGCAAATGG
1 AAAATTGCAAATGG
69027249 TTTTGAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AAAATTGCAAATGG
Found at i:69032968 original size:14 final size:15
Alignment explanation
Indices: 69032938--69032970 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
69032928 AGCCTAAATT
*
69032938 TTTATAGTTTTAGCA
1 TTTATAGTTTTACCA
69032953 TTTATA-TTTTACCA
1 TTTATAGTTTTACCA
69032967 TTTA
1 TTTA
69032971 ACAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTATAGTTTTACCA
Found at i:69042560 original size:12 final size:13
Alignment explanation
Indices: 69042545--69042576 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
69042535 ATAACACATT
69042545 TCAAAAC-ATGCA
1 TCAAAACTATGCA
69042557 TCAAAACTATGCA
1 TCAAAACTATGCA
69042570 -CAAAACT
1 TCAAAACT
69042577 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:69043175 original size:44 final size:41
Alignment explanation
Indices: 69043062--69043182 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 41
69043052 GTAATTCAGT
* * * *
69043062 ATCGATGCCTCTGTCCCAGACAGGGTCTTATACGAAAATAG
1 ATCGATGCCTGTGTCCCAGACACGGTCTTACACGAAAATAA
* *
69043103 ATACGATGCC-GATGTCCCAGACATGGTCTTACACGTAAATTTCAA
1 AT-CGATGCCTG-TGTCCCAGACACGGTCTTACACG-AAA-AT-AA
*
69043148 ATCGATGCCTGTGTCCCAGGCACGGTCTTACACGA
1 ATCGATGCCTGTGTCCCAGACACGGTCTTACACGA
69043183 TAATTCAGGT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 2 0.03
42 28 0.42
43 4 0.06
44 29 0.43
45 4 0.06
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (41 bp):
ATCGATGCCTGTGTCCCAGACACGGTCTTACACGAAAATAA
Found at i:69045542 original size:79 final size:81
Alignment explanation
Indices: 69045433--69045615 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
69045423 TACTCGTTCA
* *
69045433 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
69045496 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
69045513 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
69045576 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
69045592 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69045616 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:69045615 original size:40 final size:40
Alignment explanation
Indices: 69045412--69045615 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
69045402 CGGAATTTAA
** *
69045412 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69045452 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69045492 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
69045531 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69045571 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
69045611 CCGGA
1 CCGGA
69045616 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69055354 original size:128 final size:127
Alignment explanation
Indices: 69054973--69055356 Score: 585
Period size: 128 Copynumber: 3.0 Consensus size: 127
69054963 TTATATTGAT
*
69054973 GATACTAAATAGAATAATGTTGATAATATCACCAAGGCTAATGA---TTATTTGACCTTCAATTG
1 GATACTAAATAGAA-AATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
*
69055035 GCTAGCATGATCTTATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
* ** * * *
69055098 AATACTAAATAGAGTGATGCTGATAATATCACCAAGGCTAATGATCTCTATTTAACTTTCAATTG
1 GATACTAAATAGA-AAATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
** * *
69055163 GCTAGCATGATCTCATAAAAATTAAGGTACATTACAATATCACTGATAATGACGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
69055226 GATACTAAATAGAAAATTGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
1 GATACTAAATAGAAAA-TGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
* * *
69055291 GCTAGCCTGATCTCATAAAACCCAAGGCACATTATAATATCACTGATAATGATGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
69055354 GAT
1 GAT
69055357 TTACCTTCTT
Statistics
Matches: 229, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
125 39 0.17
127 1 0.00
128 189 0.83
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (127 bp):
GATACTAAATAGAAAATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTGG
CTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
Found at i:69069249 original size:6 final size:6
Alignment explanation
Indices: 69069238--69069269 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
69069228 AGTCGAAAAA
69069238 TAACAG TAACAG TAACAG TAACAG TAACAG TA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TA
69069270 CGGTACAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
TAACAG
Found at i:69070204 original size:15 final size:15
Alignment explanation
Indices: 69070194--69070243 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 15
69070184 TCTTTTTTTT
69070194 TATTATGTTTTATTA
1 TATTATGTTTTATTA
*
69070209 TATTA--TATTATTA
1 TATTATGTTTTATTA
* *
69070222 TATTAATATATTATTA
1 TATT-ATGTTTTATTA
69070238 TATTAT
1 TATTAT
69070244 ATACTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 11 0.35
14 1 0.03
15 7 0.23
16 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTATGTTTTATTA
Found at i:69070219 original size:13 final size:13
Alignment explanation
Indices: 69070203--69070245 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
69070193 TTATTATGTT
69070203 TTATTATATTATA
1 TTATTATATTATA
69070216 TTATTATATTAATATA
1 TTATTATA-T--TATA
69070232 TTATTATATTATA
1 TTATTATATTATA
69070245 T
1 T
69070246 ACTTAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
15 1 0.04
16 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:69070220 original size:8 final size:8
Alignment explanation
Indices: 69070209--69070243 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
69070199 TGTTTTATTA
69070209 TATTATAT
1 TATTATAT
69070217 TATTATAT
1 TATTATAT
*
69070225 TAATATAT
1 TATTATAT
69070233 TATTATAT
1 TATTATAT
69070241 TAT
1 TAT
69070244 ATACTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:69070231 original size:16 final size:15
Alignment explanation
Indices: 69070203--69070246 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
69070193 TTATTATGTT
69070203 TTATTATA-T-TATA
1 TTATTATATTATATA
69070216 TTATTATATTAATATA
1 TTATTATATT-ATATA
69070232 TTATTATATTATATA
1 TTATTATATTATATA
69070247 CTTAAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.29
14 1 0.04
15 5 0.18
16 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATATTATATA
Found at i:69076587 original size:49 final size:49
Alignment explanation
Indices: 69076526--69076649 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
69076516 TGTTGTGTGT
* * * *
69076526 CAGTGTAAGACCTGTCTGAGACATGACATTGATAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGAAATCGA-ACTCGATAGATGAAAGC
* * * *
69076575 TAGTGTAAGACCTGTCTGGGACATGAAATCGACCTCGCTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGAAATCGAACTCGATAGATGAAAGC
69076624 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGACC-TGTCTGGGACATG
69076650 GCGTCGGCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 50 0.78
50 13 0.20
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGAAATCGAACTCGATAGATGAAAGC
Found at i:69078054 original size:47 final size:47
Alignment explanation
Indices: 69077929--69078102 Score: 203
Period size: 47 Copynumber: 3.7 Consensus size: 47
69077919 ATAATTTCAC
* *
69077929 CCATAATAAACTCGGAACGCAACTCAACGAGCTCAGG-TG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC-GGATGCTTCACAT
* *
69077975 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * *
69078021 CCATAAGTGAACTCGGAACGCAACTCAAAGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCA-CAT
* * *
69078070 TC-TCACGAACTCGGAACGCAACTCAACGAGTTC
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC
69078103 AGATCTCAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
45 2 0.02
46 42 0.38
47 61 0.55
48 2 0.02
49 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:69085515 original size:47 final size:46
Alignment explanation
Indices: 69085388--69085525 Score: 177
Period size: 46 Copynumber: 3.0 Consensus size: 46
69085378 ACTATCATAA
* * * * *
69085388 TTTCACCCATAATGAACTCAGAACGCAACTCAACGAGCTCAGATGT
1 TTTCATCCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGT
** * *
69085434 TCACATCCATAATGAACTCGGAATACAACTCAACGAGTTGGGATGT
1 TTTCATCCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGT
*
69085480 TTTCATCCATAAGTGAACTCGGAACACAAGTCAACGAGTTCGGATG
1 TTTCATCCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATG
69085526 CCTCATAATT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 47 0.61
47 30 0.39
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (46 bp):
TTTCATCCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGT
Found at i:69103734 original size:18 final size:18
Alignment explanation
Indices: 69103711--69103748 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
69103701 ATTTAATTTA
* *
69103711 TTTTCTTTTTCTTTTGAT
1 TTTTCTTTTTATTTTCAT
69103729 TTTTCTTTTTATTTTCAT
1 TTTTCTTTTTATTTTCAT
69103747 TT
1 TT
69103749 CAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTTATTTTCAT
Found at i:69109757 original size:109 final size:109
Alignment explanation
Indices: 69109557--69109776 Score: 370
Period size: 109 Copynumber: 2.0 Consensus size: 109
69109547 TGTGCCTGAG
69109557 TAGAACCACACAAATCATCAATCTTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
1 TAGAACCACACAAATCATCAATCTTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
* *
69109622 GCAGCGAGGTTGAAAACACCAGCTGCTTTCGTCGGCTTTGTCCT
66 GCAGCGAGGTTGAAAACACCAGCTGCTTTCATCGACTTTGTCCT
* *
69109666 TAGAACCACTCAAATCATCAATCTTTTTATTTAAGAGTTCTACTTGGTTAGATAGCATAATAATC
1 TAGAACCACACAAATCATCAATCTTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
* *
69109731 GCATCGAGGTTGAAATCACC-GACTGCTTTCATCGACTTTGTCCT
66 GCAGCGAGGTTGAAAACACCAG-CTGCTTTCATCGACTTTGTCCT
69109775 TA
1 TA
69109777 TAACTTGCCA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
108 1 0.01
109 103 0.99
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (109 bp):
TAGAACCACACAAATCATCAATCTTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
GCAGCGAGGTTGAAAACACCAGCTGCTTTCATCGACTTTGTCCT
Found at i:69111041 original size:27 final size:27
Alignment explanation
Indices: 69111003--69111058 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
69110993 TAACTAAACT
69111003 AAGAACGCATAGAAAGGAAATTTGAAA
1 AAGAACGCATAGAAAGGAAATTTGAAA
69111030 AAGAACGCATAGAAAGGAAATTTGAAA
1 AAGAACGCATAGAAAGGAAATTTGAAA
69111057 AA
1 AA
69111059 AACTTTTGAA
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (27 bp):
AAGAACGCATAGAAAGGAAATTTGAAA
Found at i:69112282 original size:46 final size:46
Alignment explanation
Indices: 69112215--69112520 Score: 160
Period size: 46 Copynumber: 6.5 Consensus size: 46
69112205 TATGTGTGCT
69112215 AGTGTAAGACATGTCTGGGACATACATCAGTCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATACATCAGTCACAGTATGAGAGCC
* ** * * *
69112261 AGTGTAAGACATGTCTGGGACATGCATCAG-CATTGAAACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATACATCAGTCACAG-TATGAGAGCC
* ** * *
69112307 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCAC-G-ATGTACAAGCT
1 AGTGTAAGACATGTCTGGGACATACATCAG--TCACAGTATG-A-GAGCC
* * ** * * *
69112355 AGTGTAAGACCTGTCTGGGACATGGCATCAG-CTTA-T-TGTGTGTC
1 AGTGTAAGACATGTCTGGGACAT-ACATCAGTCACAGTATGAGAGCC
* * * * *
69112399 AGTGTAAGACCTGTCTGAGACATGACATTA-ACACCAATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-ACATCAGTCA-CAGT--ATGAGAGCC
* * * * *
69112448 AGTGTAAGACCTGTCTAGGACATAGCATCGGCCTCGCTA-TATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATA-CATCAG--TCAC-AGTATGAGAGCC
*
69112497 AATGTAAGACAATGTCTGGGACAT
1 AGTGTAAGAC-ATGTCTGGGACAT
69112521 GGCGTCAACA
Statistics
Matches: 200, Mismatches: 39, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
44 29 0.14
45 4 0.02
46 70 0.35
47 1 0.00
48 28 0.14
49 53 0.26
50 11 0.05
51 2 0.01
52 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATACATCAGTCACAGTATGAGAGCC
Found at i:69113017 original size:33 final size:33
Alignment explanation
Indices: 69112980--69113046 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
69112970 GATCTTGCTT
69112980 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
1 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
69113013 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
1 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
69113046 T
1 T
69113047 ATTAGCTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
Found at i:69114465 original size:27 final size:27
Alignment explanation
Indices: 69114435--69114751 Score: 382
Period size: 27 Copynumber: 11.7 Consensus size: 27
69114425 TTAGTTTACC
69114435 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
69114462 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
69114489 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
69114516 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
69114543 AAATTACCAAAAAATCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * **
69114570 AAATTACTAAAATACCTTTTGTTCATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
69114597 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
69114624 AAATTACCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
69114651 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
69114678 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
69114705 AAATTACTGAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
69114732 AAATTACTGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
69114752 TAGGGTAGAA
Statistics
Matches: 247, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 247 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:69114763 original size:27 final size:27
Alignment explanation
Indices: 69114705--69114819 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 27
69114695 CTGATTTGTG
** *
69114705 AAATTACTGAAATACCCCTG-ATTTGTG
1 AAATTACTGAAATACCCCTGTA-GGGTA
69114732 AAATTACTGAAATACCCCTGTAGGGTA
1 AAATTACTGAAATACCCCTGTAGGGTA
* * *
69114759 GAATTATTGAAATACCCTTGTAGGGTA
1 AAATTACTGAAATACCCCTGTAGGGTA
* * * *
69114786 AAATTACCGAGATACCCTTGTGGGGTA
1 AAATTACTGAAATACCCCTGTAGGGTA
69114813 AAATTAC
1 AAATTAC
69114820 CATTTTACCC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
27 75 0.99
28 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTGTAGGGTA
Found at i:69115169 original size:31 final size:32
Alignment explanation
Indices: 69115131--69115194 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
69115121 CTCGCTGCAA
* *
69115131 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
* *
69115162 TCTGGTGGCCTAGCCACAATATCTGTATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
69115194 T
1 T
69115195 GACTTCGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:69115341 original size:6 final size:6
Alignment explanation
Indices: 69115332--69115512 Score: 104
Period size: 6 Copynumber: 29.3 Consensus size: 6
69115322 TTGCATTCAC
* * *
69115332 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
69115382 ATTCTG ATTCTG GTTCTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * * *
69115431 -TTACCTA ATTCTA ATTCTG ATTTTG ATTTTG ATTCT- ATCACCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
69115481 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
69115513 AATGTTTCTT
Statistics
Matches: 136, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
5 11 0.08
6 104 0.76
7 13 0.10
8 8 0.06
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:69115363 original size:25 final size:25
Alignment explanation
Indices: 69115335--69115452 Score: 119
Period size: 25 Copynumber: 4.5 Consensus size: 25
69115325 CATTCACATT
*
69115335 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
*
69115360 CTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGTTA-C-----CTGATA
*
69115391 CTGGTTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
* * *
69115416 CTGATTTTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTGATA
*
69115441 CTAATTCTGATT
1 CTGATTCTGATT
69115453 TTGATTTTGA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
25 53 0.69
26 1 0.01
30 1 0.01
31 22 0.29
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:69115367 original size:31 final size:30
Alignment explanation
Indices: 69115332--69115429 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
69115322 TTGCATTCAC
69115332 ATTCTGATTCTAATTCTGTTACCTGATACTG
1 ATTCTGATTCT-ATTCTGTTACCTGATACTG
* *
69115363 ATTCTG-----ATTCTGTTACCTAATTCTG
1 ATTCTGATTCTATTCTGTTACCTGATACTG
*
69115388 ATTCTGGTTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCT-ATTCTGTTACCTGATACTG
*
69115419 ATTTTGATTCT
1 ATTCTGATTCT
69115430 GTTACCTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 23 0.42
31 32 0.58
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTATTCTGTTACCTGATACTG
Found at i:69115418 original size:56 final size:56
Alignment explanation
Indices: 69115332--69115458 Score: 209
Period size: 56 Copynumber: 2.3 Consensus size: 56
69115322 TTGCATTCAC
*
69115332 ATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
* * *
69115388 ATTCTGGTTCTGATTCTGTTACCTGATACTGATTTTGATTCTGTTACCTAATTCTA
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
*
69115444 ATTCTGATTTTGATT
1 ATTCTGATTCTGATT
69115459 TTGATTCTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (56 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
Found at i:69115430 original size:31 final size:31
Alignment explanation
Indices: 69115354--69115491 Score: 129
Period size: 31 Copynumber: 4.5 Consensus size: 31
69115344 ATTCTGTTAC
* *
69115354 CTGATACTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGATTCTATTACCTAATT
* * * *
69115385 CTGATTCTGGTTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGATTCTATTACCTAATT
*
69115416 CTGATTTTGATTCTG-TTACCTAATT--CTAATT
1 CTGATTCTGATTCTGATT--CT-ATTACCTAATT
* * * *
69115447 CTGATTTTGATTTTGATTCTATCACCTGATT
1 CTGATTCTGATTCTGATTCTATTACCTAATT
69115478 CTGATTCTGATTCT
1 CTGATTCTGATTCT
69115492 CATTTTGATT
Statistics
Matches: 87, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
29 2 0.02
30 4 0.05
31 75 0.86
32 4 0.05
33 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
CTGATTCTGATTCTGATTCTATTACCTAATT
Found at i:69115451 original size:37 final size:37
Alignment explanation
Indices: 69115410--69115504 Score: 127
Period size: 37 Copynumber: 2.6 Consensus size: 37
69115400 ATTCTGTTAC
* * *
69115410 CTGATACTGATTTTGATTCTGTTACCTAATTCTAATT
1 CTGATTCTGATTTTGATTCTATCACCTAATTCTAATT
* * *
69115447 CTGATTTTGATTTTGATTCTATCACCTGATTCTGATT
1 CTGATTCTGATTTTGATTCTATCACCTAATTCTAATT
*
69115484 CTGATTCTCATTTTGATTCTA
1 CTGATTCTGATTTTGATTCTA
69115505 GTTCTGATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.51
Consensus pattern (37 bp):
CTGATTCTGATTTTGATTCTATCACCTAATTCTAATT
Found at i:69120958 original size:183 final size:183
Alignment explanation
Indices: 69120607--69121146 Score: 936
Period size: 183 Copynumber: 2.9 Consensus size: 183
69120597 GCTTACATAG
69120607 CCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACATG
1 CCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACATG
* *
69120672 GCCGTGTGTCCCTATTTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTAAAAATTTTCT
66 GCCGTGTGTCCCTA-TTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTCT
* * *
69120737 ACTTTTTCAGAAAAATTCTTTGAGTTTCCAATTTAGTCCTGACTGCTCACACAA
130 ACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACTGCTCACACAA
*
69120791 CCTAGCATACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACATG
1 CCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACATG
69120856 GCCGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTCTA
66 GCCGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTCTA
*
69120921 CTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACTGCTCACACAG
131 CTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACTGCTCACACAA
** *
69120974 CCTAGCACATAGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTTAGACATG
1 CCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACATG
* * *
69121039 GCTGTGTGTCCCTATTTCGAATACCCACACGACCGTGTGACCCCTGCAGCTTTGAAATTTTTCTA
66 GCCGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTCTA
* *
69121104 CTTTTTCAGAAAATTTTTTTGAGTTTTCGATTTAGTCCCGACT
131 CTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACT
69121147 TGTTTCTAAT
Statistics
Matches: 340, Mismatches: 16, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
183 262 0.77
184 78 0.23
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (183 bp):
CCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACATG
GCCGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTCTA
CTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACTGCTCACACAA
Found at i:69123293 original size:3 final size:3
Alignment explanation
Indices: 69123287--69123318 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
69123277 CTCCTTAAAC
69123287 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
69123319 ACACCAACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:69130574 original size:29 final size:29
Alignment explanation
Indices: 69130516--69130586 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
69130506 TATTATAAGG
* **
69130516 AATAGATCAAATTAGTCCCTTCACTGTTA
1 AATAGATCAAATTAATCCCTTCACCATTA
*
69130545 AATAGATCAATTTAATCCCTGT-ACCATTA
1 AATAGATCAAATTAATCCCT-TCACCATTA
*
69130574 AAAAGAATCAAAT
1 AATAG-ATCAAAT
69130587 GATACCAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (29 bp):
AATAGATCAAATTAATCCCTTCACCATTA
Found at i:69132641 original size:12 final size:12
Alignment explanation
Indices: 69132626--69132658 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
69132616 AGAGCCAGAT
69132626 TCATCTTCATCC
1 TCATCTTCATCC
*
69132638 TCATCTTCGTCC
1 TCATCTTCATCC
69132650 TCATCTTCA
1 TCATCTTCA
69132659 AACTTCTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.39, G:0.03, T:0.42
Consensus pattern (12 bp):
TCATCTTCATCC
Found at i:69134529 original size:95 final size:95
Alignment explanation
Indices: 69134419--69134605 Score: 365
Period size: 95 Copynumber: 2.0 Consensus size: 95
69134409 TCGAATAACC
69134419 AATCGATTAATTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
1 AATCGATTAATTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
69134484 GTGAATTCTCAACCGTCAACTAGGTTTATT
66 GTGAATTCTCAACCGTCAACTAGGTTTATT
*
69134514 AATCGATTATTTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
1 AATCGATTAATTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
69134579 GTGAATTCTCAACCGTCAACTAGGTTT
66 GTGAATTCTCAACCGTCAACTAGGTTT
69134606 TTTTTATGTT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (95 bp):
AATCGATTAATTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
GTGAATTCTCAACCGTCAACTAGGTTTATT
Found at i:69134533 original size:17 final size:17
Alignment explanation
Indices: 69134511--69134544 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
69134501 AACTAGGTTT
69134511 ATTAATCGATTATTTGA
1 ATTAATCGATTATTTGA
69134528 ATTAATCGATTATTTGA
1 ATTAATCGATTATTTGA
69134545 TTTTAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTAATCGATTATTTGA
Found at i:69135646 original size:45 final size:46
Alignment explanation
Indices: 69135595--69135684 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
69135585 TCTCCCATCC
* * *
69135595 ATGGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACT
1 ATGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
* * * *
69135640 ATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 ATGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAAC
69135685 CATGTCATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 14 0.38
46 23 0.62
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (46 bp):
ATGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
Found at i:69135691 original size:29 final size:29
Alignment explanation
Indices: 69135658--69135718 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
69135648 ACTCATTTTC
69135658 TGTCATGTTGCCATGGTATCTTTCAACCA
1 TGTCATGTTGCCATGGTATCTTTCAACCA
69135687 TGTCATGTTGCCATGGTATCTTTCAACCA
1 TGTCATGTTGCCATGGTATCTTTCAACCA
69135716 TGT
1 TGT
69135719 TCTTTTTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (29 bp):
TGTCATGTTGCCATGGTATCTTTCAACCA
Found at i:69135729 original size:75 final size:75
Alignment explanation
Indices: 69135615--69135763 Score: 208
Period size: 75 Copynumber: 2.0 Consensus size: 75
69135605 TTATCTTTGA
* * * * *
69135615 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATGTCACGCTGCCATGGTATCTT
69135680 TCAACCATGT
66 TCAACCATGT
* * * **
69135690 CATGTTGCCATGGTATCTTTCAACCATGTTCTTTTTCATTTTATGTCACGCTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATGTCACGCTGCCATGGTATCTT
69135755 TCAACCATG
66 TCAACCATG
69135764 GTCTTATTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (75 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATGTCACGCTGCCATGGTATCTT
TCAACCATGT
Found at i:69135745 original size:46 final size:46
Alignment explanation
Indices: 69135686--69135815 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
69135676 TCTTTCAACC
* *
69135686 ATGTCATGTTGCCATGGTATCTTTCAACCATGTTCTTTTTCATTTT
1 ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
* *
69135732 ATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
1 ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
**
69135778 CCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
69135816 CACATTTCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.43
Consensus pattern (46 bp):
ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
Found at i:69141900 original size:27 final size:27
Alignment explanation
Indices: 69141870--69141922 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
69141860 CTAATTTTTT
* * *
69141870 TGTTTATTTTCTTTCTCTTTTTCTTTC
1 TGTTTAGTTTCTTGCTCTGTTTCTTTC
*
69141897 TGTTTCGTTTCTTGCTCTGTTTCTTT
1 TGTTTAGTTTCTTGCTCTGTTTCTTT
69141923 GTTTCTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.02, C:0.19, G:0.09, T:0.70
Consensus pattern (27 bp):
TGTTTAGTTTCTTGCTCTGTTTCTTTC
Found at i:69141977 original size:8 final size:8
Alignment explanation
Indices: 69141959--69141997 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
69141949 CTTTATATTT
69141959 TAATCATAA
1 TAAT-ATAA
69141968 TAATATAA
1 TAATATAA
*
69141976 TAATGTAA
1 TAATATAA
*
69141984 TGATATAA
1 TAATATAA
69141992 TAATAT
1 TAATAT
69141998 TTACTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (8 bp):
TAATATAA
Found at i:69142798 original size:17 final size:17
Alignment explanation
Indices: 69142773--69142834 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
69142763 CCGTGTCATG
* *
69142773 CAACTGTGTGGGACATA
1 CAACCGTGTGGGACACA
69142790 CAACCGTGTGGGACACA
1 CAACCGTGTGGGACACA
*
69142807 CAGCCGTGTGGGACACA
1 CAACCGTGTGGGACACA
*
69142824 CAGCCGTGTGG
1 CAACCGTGTGG
69142835 CAGATCGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.24, C:0.26, G:0.34, T:0.16
Consensus pattern (17 bp):
CAACCGTGTGGGACACA
Found at i:69143431 original size:40 final size:40
Alignment explanation
Indices: 69143385--69143475 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
69143375 GTGACAACCT
** *
69143385 TTTTCAACCTTTTCATTGGATATCCATTTTGGATATATCC
1 TTTTCAACCTTTTCATTGGATATCCATTTCAGATATACCC
* * *
69143425 TTTTCAACCATTTCATTTGATATCTATTTCAGATATACCC
1 TTTTCAACCTTTTCATTGGATATCCATTTCAGATATACCC
69143465 TTTTCAACCTT
1 TTTTCAACCTT
69143476 GTAACACCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.47
Consensus pattern (40 bp):
TTTTCAACCTTTTCATTGGATATCCATTTCAGATATACCC
Found at i:69145715 original size:11 final size:11
Alignment explanation
Indices: 69145699--69145724 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69145689 CCATGGTGTC
69145699 TTTTAATATTA
1 TTTTAATATTA
69145710 TTTTAATATTA
1 TTTTAATATTA
69145721 TTTT
1 TTTT
69145725 TCATACTTTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATATTA
Done.