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 154 of 259
Found at i:50516363 original size:40 final size:40
Alignment explanation
Indices: 50516302--50516519 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
50516292 AAGCCAAGTA
* * *
50516302 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
* * ** *
50516341 CCTTCAGGACATAGCCTAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
50516381 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
50516421 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * * * *
50516461 CCTTTGGGACTTAGCCCGGA-ACTAATCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
50516501 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50516520 TTATCATCCA
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.08
40 144 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:50517802 original size:11 final size:10
Alignment explanation
Indices: 50517772--50517810 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
50517762 ACATGAGAGC
50517772 CTTTCTTTTT
1 CTTTCTTTTT
*
50517782 TTTTCTTTTT
1 CTTTCTTTTT
50517792 CTTTCTCTTTT
1 CTTTCT-TTTT
50517803 CTTT-TTTT
1 CTTTCTTTT
50517811 CATCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 15 0.58
11 8 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:50545943 original size:11 final size:11
Alignment explanation
Indices: 50545927--50545953 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50545917 ATGAATTGAA
50545927 ATTTTTATTTT
1 ATTTTTATTTT
50545938 ATTTTTATTTT
1 ATTTTTATTTT
50545949 ATTTT
1 ATTTT
50545954 ACTTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:50549503 original size:30 final size:30
Alignment explanation
Indices: 50549469--50549526 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
50549459 CCGAGCCTAG
50549469 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * *
50549499 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
50549527 GAGTTAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:50550142 original size:64 final size:64
Alignment explanation
Indices: 50549988--50550301 Score: 278
Period size: 64 Copynumber: 4.8 Consensus size: 64
50549978 ATACAGATGG
* * * * *
50549988 TATGTAGCTAGGTCACATGTGTAATACGA-GATGTATACCATGT-GTACAAGAGAGCTATGAGAC
1 TATGTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAG--
50550051 ATTA
62 A-TA
* *
50550055 TGAGGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC-AGGAT
1 T-ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGA-GAT
50550119 A
64 A
50550120 TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* ** * * * * * * * *
50550184 AATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACTCCATGTAAACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
50550249 TA
63 TA
* * * * * *
50550251 -AAGTGGCTAGGTCACATAGGTGGTACTAAGTGTTCACCATGT-GTACAAGAG
1 TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAG
50550302 TGCCAAAATT
Statistics
Matches: 203, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
63 15 0.07
64 78 0.38
65 12 0.06
66 18 0.09
67 31 0.15
68 47 0.23
69 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:50554282 original size:42 final size:41
Alignment explanation
Indices: 50554233--50554347 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 41
50554223 CTTCGTTTTC
* * *
50554233 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAG-CCAGCTATGGTCTTACACATATTCACAT-A
*
50554276 T-GATGCCATAGCGCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGC-CAGCTATGGTCTTACACATATTCACATA
50554317 TCGATGCCATAGCCTAGCTATGGTCTTACAC
1 TCGATGCCATAGCC-AGCTATGGTCTTACAC
50554348 GAATCACATA
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
41 3 0.05
42 61 0.94
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (41 bp):
TCGATGCCATAGCCAGCTATGGTCTTACACATATTCACATA
Found at i:50554501 original size:31 final size:31
Alignment explanation
Indices: 50554466--50554676 Score: 316
Period size: 31 Copynumber: 6.8 Consensus size: 31
50554456 CTTGTCACTT
* *
50554466 GTAGCCGAAGCTACCAGTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
50554497 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
50554528 GTAGCCGGAGCTACCACTTTTTACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
50554559 GTAGTCGGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CCGAAGCTACCACTTTTCACTGATCAG
*
50554590 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
50554621 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
50554652 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
50554677 TGTCATTTGT
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
30 4 0.02
31 161 0.96
32 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:50554758 original size:50 final size:51
Alignment explanation
Indices: 50554652--50554780 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
50554642 CACTGATCAG
* * * *
50554652 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
*
50554703 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAAATAAGT
50554753 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
50554781 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
Found at i:50557635 original size:14 final size:15
Alignment explanation
Indices: 50557611--50557639 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50557601 CATATTACTA
50557611 AATTAATAATTAAAT
1 AATTAATAATTAAAT
50557626 AATT-ATAATTAAAT
1 AATTAATAATTAAAT
50557640 TTATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTAATAATTAAAT
Found at i:50558339 original size:9 final size:9
Alignment explanation
Indices: 50558327--50558352 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
50558317 TCATCATCTT
50558327 ATTATTATA
1 ATTATTATA
50558336 ATTATTATA
1 ATTATTATA
50558345 ATTATTAT
1 ATTATTAT
50558353 TTACATGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATTATA
Found at i:50558814 original size:15 final size:15
Alignment explanation
Indices: 50558794--50558823 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50558784 AAAAAGTTAA
50558794 ATTTTATATTGAAAT
1 ATTTTATATTGAAAT
*
50558809 ATTTTATATTTAAAT
1 ATTTTATATTGAAAT
50558824 TACTGTGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
ATTTTATATTGAAAT
Found at i:50561040 original size:46 final size:46
Alignment explanation
Indices: 50560990--50561165 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
50560980 TGGTTGAGCA
50560990 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50561036 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50561081 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
50561129 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50561166 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50561146 original size:93 final size:93
Alignment explanation
Indices: 50560987--50561158 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50560977 GGATGGTTGA
* *
50560987 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50561052 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
50561080 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50561145 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
50561159 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50562859 original size:453 final size:453
Alignment explanation
Indices: 50562013--50562920 Score: 1708
Period size: 453 Copynumber: 2.0 Consensus size: 453
50562003 TCCCCTGTTC
*
50562013 CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAGAA
1 CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAAAA
*
50562078 TACTTATTGAGTCTAGTTTCAGGATAAATAAACCTCATAGTCATATGGATTTTCTACAGAGAGAA
66 TACTTATTGAGTCTAGTTTCAGGAGAAATAAACCTCATAGTCATATGGATTTTCTACAGAGAGAA
50562143 ATGTGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
131 ATGTGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
50562208 AAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
196 AAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
*
50562273 GATTTAGGGAAAATTTACAGATCTTGATTTTGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
261 GATTTAGGGAAAATTTACAGATCTTGATTTCGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
*
50562338 ACTGTAATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
326 ACTATAATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
50562403 TAAATTAAGCTTAGTAACACCTCATACTCGACTCCAGCGACAGTCTCGGGCGTGGGGGCGTTA
391 TAAATTAAGCTTAGTAACACCTCATACTCGACTCCAGCGACAGTCTCGGGCGTGGGGGCGTTA
50562466 CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAAAA
1 CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAAAA
* *
50562531 TCCTTATTGAGTCTAGTTTCAGGAGAAATAAACCTCATAGTCATATGGATTTTGTACAGAGAGAA
66 TACTTATTGAGTCTAGTTTCAGGAGAAATAAACCTCATAGTCATATGGATTTTCTACAGAGAGAA
50562596 ATGTGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
131 ATGTGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
* *
50562661 AAACTGTACTAATTGGCCTAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
196 AAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
*
50562726 GATTTAGGGAAAATTTACGGATCTTGATTTCGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
261 GATTTAGGGAAAATTTACAGATCTTGATTTCGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
*
50562791 ACTATGATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
326 ACTATAATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
* *
50562856 TAAATTAAGCTTAGTAACACCTCATACTCGACTCCGGCGACGGTCTCGGGCGTGGGGGCGTTA
391 TAAATTAAGCTTAGTAACACCTCATACTCGACTCCAGCGACAGTCTCGGGCGTGGGGGCGTTA
50562919 CA
1 CA
50562921 GGGTTTACAC
Statistics
Matches: 443, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
453 443 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (453 bp):
CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAAAA
TACTTATTGAGTCTAGTTTCAGGAGAAATAAACCTCATAGTCATATGGATTTTCTACAGAGAGAA
ATGTGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
AAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
GATTTAGGGAAAATTTACAGATCTTGATTTCGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
ACTATAATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
TAAATTAAGCTTAGTAACACCTCATACTCGACTCCAGCGACAGTCTCGGGCGTGGGGGCGTTA
Found at i:50563075 original size:62 final size:62
Alignment explanation
Indices: 50562938--50563075 Score: 172
Period size: 62 Copynumber: 2.2 Consensus size: 62
50562928 CACGGGCAAC
* * *
50562938 GGACACGAGTGTGTGTCTAAGCCGTGTAACTTACTGTTTATGGTATAAAACCACACGGCTAG
1 GGACACGAGCGTGTGCCTAAGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCTAG
* ** * *
50563000 GGACACG-GACGTGTGCCTAGGTTGTGTAACTCACTGTTTGTGGTATAAAACTACACGG-TCAG
1 GGACACGAG-CGTGTGCCTAAGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCT-AG
50563062 GGACACGAGCGTGT
1 GGACACGAGCGTGT
50563076 ACCCAGGCGT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
61 2 0.03
62 62 0.95
63 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (62 bp):
GGACACGAGCGTGTGCCTAAGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCTAG
Found at i:50565511 original size:43 final size:43
Alignment explanation
Indices: 50565368--50565522 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 43
50565358 TGTGTTCTCG
* * *
50565368 TGTAATACCACGTCTGAGACGTTGGCATCGACT-TATGA-TACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGATTACA
* * * ** * * *
50565410 TATAAGACCATGGT-TGGGACATCAGTATCG-TATTTGATTTCG
1 TGTAAGACCA-CGTCTGGGACGTTGGCATCGATATTTGATTACA
*
50565452 TGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
50565495 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
50565523 TTTATGAGTT
Statistics
Matches: 83, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
40 1 0.01
41 5 0.06
42 41 0.49
43 35 0.42
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:50567748 original size:40 final size:40
Alignment explanation
Indices: 50567698--50567814 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 40
50567688 CGTTTGGAGC
* * **
50567698 AAAAGCGCCGCTAAAGAGTGAGCAATAGCGGCGTTTAATT
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
50567738 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
50567778 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
50567815 TAGATAACGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
Found at i:50568148 original size:110 final size:111
Alignment explanation
Indices: 50567762--50568679 Score: 1583
Period size: 110 Copynumber: 8.3 Consensus size: 111
50567752 AGAGTGAGCA
** *
50567762 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50567827 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
50567873 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
50567938 CAAATAATACACCCAGACGGTACCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
* *
50567985 TTAGTGGCATTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCATTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50568050 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
*
50568095 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGGTAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50568160 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
* *
50568205 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50568270 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
*
50568317 TTAGTGGCGTTTATTGCAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50568382 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
*
50568427 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50568492 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
* ** * * * *
50568538 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCC
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AGATAACGCC
* *
50568603 GCAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGG-C
65 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
*
50568649 ATTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 -TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
50568680 TCTAGGTGTT
Statistics
Matches: 774, Mismatches: 27, Indels: 11
0.95 0.03 0.01
Matches are distributed among these distances:
110 322 0.42
111 157 0.20
112 295 0.38
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (111 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC
Found at i:50568188 original size:222 final size:221
Alignment explanation
Indices: 50567762--50568679 Score: 1586
Period size: 222 Copynumber: 4.1 Consensus size: 221
50567752 AGAGTGAGCA
** * *
50567762 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
50567827 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
50567892 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGACG
131 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGACG
*
50567957 GTACCGTTTTGTGGCCTTTGGGGGGGAC
196 GTGCCGTTTTGTGGCCTTT--GGGGGAC
* * *
50567985 TTAGTGGCATTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCATTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
50568050 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGACTTAGTGGCGTTTATTGTAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
*
50568114 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGGTAACGCCGCAAATAATACACCCAGACG
131 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGACG
50568179 GTGCCGTTTTGTGGCCTTTGGGGGAC
196 GTGCCGTTTTGTGGCCTTTGGGGGAC
*
50568205 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
*
50568270 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGCA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGACTTAGTGGCGTTTATTGTA
50568335 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
130 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
50568400 GGTGCCGTTTTGTGGCCTTTGGGGGAC
195 GGTGCCGTTTTGTGGCCTTTGGGGGAC
50568427 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
50568492 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
* ** * * * * *
50568557 AGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCCGCAAATAATACTCCCAGAC
131 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AGATAACGCCGCAAATAATACACCCAGAC
* *
50568622 GGTGCCGTTTTGTGTCCTTTGGGGGGC
195 GGTGCCGTTTTGTGGCCTTTGGGGGAC
*
50568649 ATTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 -TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
50568680 TCTAGGTGTT
Statistics
Matches: 665, Mismatches: 26, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
220 106 0.16
221 57 0.09
222 375 0.56
223 127 0.19
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (221 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGACG
GTGCCGTTTTGTGGCCTTTGGGGGAC
Found at i:50568372 original size:332 final size:333
Alignment explanation
Indices: 50567762--50568679 Score: 1633
Period size: 332 Copynumber: 2.8 Consensus size: 333
50567752 AGAGTGAGCA
** *
50567762 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50567827 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
* *
50567892 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGACG
131 AGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCGCAAATAATACACCCAGACG
* *
50567957 GTACCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCATTTATTGTAAAGCGCCGCTAAAGAGTGA
196 GTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGA
50568022 GCATTAGTGGCATTTATAGATAACGCCGCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTT
261 GCATTAGTGGCATTTATAGATAACGCCGCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTT
50568087 TGGGGGAC
326 TGGGGGAC
*
50568095 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGGTAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50568160 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGACTTAGTGGCGTTTATTGTAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
50568224 AGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCGCAAATAATACACCCAGACG
131 AGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCGCAAATAATACACCCAGACG
*
50568289 GTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGCAAAGCGCCGCTAAAGAGTGA
196 GTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGA
*
50568354 GCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTT
261 GCATTAGTGGCATTTATAGATAACGCCGCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTT
50568419 TGGGGGAC
326 TGGGGGAC
*
50568427 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
50568492 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
* * * * * *
50568557 AGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCCGCAAATAATACTCCCAGAC
131 AGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTAT-AAATAACGCCGCAAATAATACACCCAGAC
* * *
50568622 GGTGCCGTTTTGTGTCCTTTGGGGGGCA-TTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
195 GGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAA
50568680 TCTAGGTGTT
Statistics
Matches: 561, Mismatches: 22, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
332 324 0.58
333 185 0.33
334 52 0.09
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (333 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
AGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCGCAAATAATACACCCAGACG
GTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGA
GCATTAGTGGCATTTATAGATAACGCCGCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTT
TGGGGGAC
Found at i:50569304 original size:12 final size:12
Alignment explanation
Indices: 50569287--50569312 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50569277 ATATATAATT
50569287 GTAAAAGAGGTC
1 GTAAAAGAGGTC
50569299 GTAAAAGAGGTC
1 GTAAAAGAGGTC
50569311 GT
1 GT
50569313 GCTATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.19
Consensus pattern (12 bp):
GTAAAAGAGGTC
Found at i:50569790 original size:84 final size:83
Alignment explanation
Indices: 50569695--50569895 Score: 330
Period size: 84 Copynumber: 2.4 Consensus size: 83
50569685 TAGTTAAACT
* *
50569695 TTTAGTGGCGTTTTTAAGAAAATGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTAA-AAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
50569760 TCTGTTCACAGCTGTAATA
65 TCTGTTCACAGCTGTAATA
* *
50569779 TTTAGTGGCGTTTTTCTAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTTGTT
1 TTTAGTGGCGTTTTT-AAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
50569844 TCTGTTCACAGCTGTAATA
65 TCTGTTCACAGCTGTAATA
50569863 TTTAGTGGCGTTTTTACCAAAAACGCCACAAAA
1 TTTAGTGGCGTTTTTA--AAAAACGCCACAAAA
50569896 CGGTGTTAAT
Statistics
Matches: 109, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
84 93 0.85
85 16 0.15
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (83 bp):
TTTAGTGGCGTTTTTAAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTTT
CTGTTCACAGCTGTAATA
Found at i:50571131 original size:11 final size:11
Alignment explanation
Indices: 50571094--50571133 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
50571084 GAATATCTCA
50571094 AACT-ATGGGT
1 AACTAATGGGT
*
50571104 AACTAGTGGGT
1 AACTAATGGGT
50571115 AACTAATGGGT
1 AACTAATGGGT
50571126 AACTAATG
1 AACTAATG
50571134 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:50572493 original size:17 final size:17
Alignment explanation
Indices: 50572471--50572712 Score: 144
Period size: 17 Copynumber: 13.6 Consensus size: 17
50572461 GTTAAATTTA
50572471 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
50572488 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
50572505 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
50572528 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
50572545 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
50572568 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
50572585 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
50572602 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
50572615 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
50572629 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
50572646 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
50572669 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
50572686 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
50572703 TTACTAAAAT
1 TTACTAAAAT
50572713 TTGTTTAAAT
Statistics
Matches: 182, Mismatches: 12, Indels: 62
0.71 0.05 0.24
Matches are distributed among these distances:
10 4 0.02
11 1 0.01
13 4 0.02
14 4 0.02
16 10 0.05
17 113 0.62
23 37 0.20
24 9 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:50572524 original size:23 final size:23
Alignment explanation
Indices: 50572497--50572577 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
50572487 CTTACTAAAA
50572497 TAAA-TTACTTACTAAAATTTGTT
1 TAAATTTA-TTACTAAAATTTGTT
50572520 TAAATTTATTACTAAAA------
1 TAAATTTATTACTAAAATTTGTT
*
50572537 TACA-TTACTTACTAAAATTTGTT
1 TAAATTTA-TTACTAAAATTTGTT
50572560 TAAATTTATTACTAAAAT
1 TAAATTTATTACTAAAAT
50572578 ACATTACTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
16 3 0.06
17 12 0.26
23 26 0.55
24 6 0.13
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (23 bp):
TAAATTTATTACTAAAATTTGTT
Found at i:50572544 original size:40 final size:40
Alignment explanation
Indices: 50572488--50572594 Score: 205
Period size: 40 Copynumber: 2.7 Consensus size: 40
50572478 AATACATTAC
*
50572488 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
50572528 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
50572568 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
50572595 ACATTACTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:50572589 original size:57 final size:60
Alignment explanation
Indices: 50572528--50572655 Score: 217
Period size: 57 Copynumber: 2.2 Consensus size: 60
50572518 TTTAAATTTA
50572528 TTACTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTAC
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTAC
*
50572585 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTAC
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTAC
50572646 TTACTAAAAT
1 TTACTAAAAT
50572656 TTGTTTAAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 36 0.55
59 1 0.02
60 2 0.03
61 27 0.41
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (60 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTAC
Found at i:50572659 original size:101 final size:101
Alignment explanation
Indices: 50572462--50572728 Score: 488
Period size: 101 Copynumber: 2.7 Consensus size: 101
50572452 CGATTGAATG
*
50572462 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAA--T
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
50572525 -TT-ATTACTAAAATACATTACTTACTAAAATTTGT
66 ATTAATTACTAAAATACATTACTTACTAAAATTTGT
50572559 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
50572624 ATTAATTACTTAAATACATTACTTACTAAAATTTGT
66 ATTAATTACTAAAATACATTACTTACTAAAATTTGT
50572660 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
50572725 ATTA
66 ATTA
50572729 CTTAAATATG
Statistics
Matches: 164, Mismatches: 2, Indels: 4
0.96 0.01 0.02
Matches are distributed among these distances:
97 61 0.37
99 1 0.01
100 2 0.01
101 100 0.61
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.44
Consensus pattern (101 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
ATTAATTACTAAAATACATTACTTACTAAAATTTGT
Found at i:50572672 original size:40 final size:43
Alignment explanation
Indices: 50572580--50572695 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
50572570 ACTAAAATAC
*
50572580 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
50572624 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
50572666 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
50572696 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:50572699 original size:57 final size:57
Alignment explanation
Indices: 50572624--50572745 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
50572614 GTTTAAATTT
* *
50572624 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
50572681 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
50572738 GTTACTTA
1 ATTACTTA
50572746 AATTTATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:50572735 original size:13 final size:13
Alignment explanation
Indices: 50572717--50572787 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
50572707 TAAAATTTGT
50572717 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
50572730 TTAAATATGTTAC
1 TTAAATTTATTAC
50572743 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
50572756 TTAAATATGTTAC
1 TTAAATTTATTAC
50572769 TTAAATTTATTAC
1 TTAAATTTATTAC
50572782 TTAAAT
1 TTAAAT
50572788 AATTATAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:50572753 original size:26 final size:26
Alignment explanation
Indices: 50572717--50572788 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
50572707 TAAAATTTGT
50572717 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
50572743 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
50572769 TTAAATTTATTACTTAAATA
1 TTAAATTTATTACTTAAATA
50572789 ATTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAATTTATTACTTAAATATGTTAC
Found at i:50573017 original size:73 final size:73
Alignment explanation
Indices: 50572934--50573083 Score: 291
Period size: 73 Copynumber: 2.1 Consensus size: 73
50572924 TAAAATAAAA
50572934 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
50572999 TTAATAAT
66 TTAATAAT
*
50573007 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATGAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
50573072 TTAATAAT
66 TTAATAAT
50573080 TATA
1 TATA
50573084 TTAGTAATGT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:50573164 original size:25 final size:25
Alignment explanation
Indices: 50573120--50573567 Score: 609
Period size: 26 Copynumber: 18.1 Consensus size: 25
50573110 ATTTTATTAA
50573120 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-ATAACTTACAACTTAC
*
50573146 ATAATACATTTAACTTACATTACTTAC
1 ATAATACATATAACTTACA--ACTTAC
50573173 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-ATAACTTACAACTTAC
*
50573199 ATAATACATTTAACTTACAACTTAC
1 ATAATACATATAACTTACAACTTAC
50573224 ATAATAC--AT---TT--AACTTAC
1 ATAATACATATAACTTACAACTTAC
*
50573242 ATAATACATTTAACTTACAACTTAC
1 ATAATACATATAACTTACAACTTAC
*
50573267 ACAATACATAATAACTTACAACTTAC
1 ATAATACAT-ATAACTTACAACTTAC
50573293 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-ATAACTTACAACTTAC
50573319 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-ATAACTTACAACTTAC
*
50573345 ATAATACATTTAACTTACAACTTAC
1 ATAATACATATAACTTACAACTTAC
*
50573370 ATAATACATTTAACTTACAACTTAC
1 ATAATACATATAACTTACAACTTAC
50573395 ATAATAC--AT---TT--AACTTAC
1 ATAATACATATAACTTACAACTTAC
*
50573413 ATAATACATTTAACTTACAACTTAC
1 ATAATACATATAACTTACAACTTAC
*
50573438 ACAATACATAATAACTTACAACTTAC
1 ATAATACAT-ATAACTTACAACTTAC
50573464 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-ATAACTTACAACTTAC
*
50573490 ATAATACATTTAACTTACAACTTAC
1 ATAATACATATAACTTACAACTTAC
* *
50573515 ACAATACATTTAACTTACAACTTAC
1 ATAATACATATAACTTACAACTTAC
50573540 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-ATAACTTACAACTTAC
50573566 AT
1 AT
50573568 TTAACTTACA
Statistics
Matches: 384, Mismatches: 18, Indels: 40
0.87 0.04 0.09
Matches are distributed among these distances:
18 28 0.07
20 6 0.02
23 6 0.02
25 155 0.40
26 165 0.43
27 15 0.04
28 9 0.02
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATACATATAACTTACAACTTAC
Found at i:50573404 original size:171 final size:170
Alignment explanation
Indices: 50573120--50573604 Score: 822
Period size: 171 Copynumber: 2.9 Consensus size: 170
50573110 ATTTTATTAA
*
50573120 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAAT
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACA--ACTTACATAATACAT-TT
50573185 AACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACA
63 AACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACA
50573250 TTTAACTTACAACTTACACAATACATAATAACTTACAACTTAC
128 TTTAACTTACAACTTACACAATACATAATAACTTACAACTTAC
*
50573293 ATAATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAA
1 ATAATACATAATAACTTACAACTTACATAATACAT-TTAACTTACAACTTACATAATACATTTAA
50573358 CTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACATT
65 CTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACATT
50573423 TAACTTACAACTTACACAATACATAATAACTTACAACTTAC
130 TAACTTACAACTTACACAATACATAATAACTTACAACTTAC
*
50573464 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACACAATACATTTAAC
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAAC
*
50573529 TTACAACTTACATAATACA--TAA--T--AACTTACA-ACTTACATTTAACTTACATAATACATT
66 TTACAACTTACATAATACATTTAACTTACAACTTACATA-ATACATTTAACTTACATAATACATT
50573587 TAACTTACATAACTTACA
130 TAACTTAC--AACTTACA
50573605 TAACTTACCA
Statistics
Matches: 303, Mismatches: 5, Indels: 15
0.94 0.02 0.05
Matches are distributed among these distances:
163 1 0.00
164 40 0.13
166 9 0.03
168 3 0.01
170 47 0.16
171 144 0.48
172 15 0.05
173 35 0.12
174 9 0.03
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (170 bp):
ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAAC
TTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACATTT
AACTTACAACTTACACAATACATAATAACTTACAACTTAC
Found at i:50573575 original size:11 final size:10
Alignment explanation
Indices: 50573559--50573612 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
50573549 AATAACTTAC
50573559 AACTTACATTT
1 AACTTACA-TT
50573570 AACTTACA-T
1 AACTTACATT
50573579 AA--TACATTT
1 AACTTACA-TT
50573588 AACTTACA-T
1 AACTTACATT
50573597 AACTTACA-T
1 AACTTACATT
50573606 AACTTAC
1 AACTTAC
50573613 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:50579100 original size:21 final size:21
Alignment explanation
Indices: 50579076--50579133 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
50579066 CAGAGGCGGA
*
50579076 AGCGAGGGAAGCAGCGACTGC
1 AGCGAGGGAAGCAGAGACTGC
* * *
50579097 AGCGAGGAAAGCGGAGGCTGC
1 AGCGAGGGAAGCAGAGACTGC
* *
50579118 AGCAAGAGAAGCAGAG
1 AGCGAGGGAAGCAGAG
50579134 CAGAGCAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.43, T:0.03
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGACTGC
Found at i:50579566 original size:42 final size:42
Alignment explanation
Indices: 50579458--50579662 Score: 277
Period size: 42 Copynumber: 4.9 Consensus size: 42
50579448 TTTTGTATAA
* * * * ***
50579458 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-TTTGTAAA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
** * * *
50579499 AAATGCCACTAAAGAACATGTTCTTTAGCGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
50579541 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
50579583 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* *
50579625 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
50579663 GTTTGTAAAC
Statistics
Matches: 148, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 29 0.20
42 119 0.80
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
Found at i:50581648 original size:17 final size:19
Alignment explanation
Indices: 50581608--50581650 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
50581598 TCAAATATAT
*
50581608 TTTTTAAAATTTTATTTTA
1 TTTTTAAAATTTTATTTAA
50581627 TTTTTAAAA-TTT-TTTAA
1 TTTTTAAAATTTTATTTAA
50581644 TTTTTAA
1 TTTTTAA
50581651 TATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 3 0.13
19 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAAAATTTTATTTAA
Found at i:50581660 original size:29 final size:29
Alignment explanation
Indices: 50581606--50581664 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
50581596 TTTCAAATAT
* *
50581606 ATTTTTTAAAATTTTATTTTATTTTTAAA
1 ATTTTTTAAAATTTTAATATATTTTTAAA
*
50581635 ATTTTTT-AATTTTTAATATATATTTTAAA
1 ATTTTTTAAAATTTTAATATAT-TTTTAAA
50581664 A
1 A
50581665 AATATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTTTTAAAATTTTAATATATTTTTAAA
Found at i:50593079 original size:19 final size:20
Alignment explanation
Indices: 50593055--50593092 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50593045 GGTACCACCA
50593055 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
50593074 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
50593093 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:50593387 original size:46 final size:45
Alignment explanation
Indices: 50593320--50593488 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
50593310 CGCCCCTAAG
* *
50593320 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTT-ACATCCATAAA
*
50593366 TGAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--A-C--GTTACATCCATAAA
* * * *
50593413 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTACATCCATAAA
50593459 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
50593489 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.54
47 29 0.27
48 1 0.01
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTACATCCATAAA
Found at i:50593436 original size:93 final size:93
Alignment explanation
Indices: 50593321--50593489 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
50593311 GCCCCTAAGT
* *
50593321 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
50593386 CGAGTTCGGATACCTAGTTACATCTCAC
66 CGAGTTCGGATACCTAGTTACATCTCAC
* ** *
50593414 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
50593479 CGAGTTCGGAT
66 CGAGTTCGGAT
50593490 GCTCAACCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATACCTAGTTACATCTCAC
Found at i:50593944 original size:30 final size:30
Alignment explanation
Indices: 50593910--50593969 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50593900 ATTTAATATG
50593910 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
50593940 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
50593970 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:50616698 original size:19 final size:20
Alignment explanation
Indices: 50616674--50616711 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50616664 GGTACCACCA
50616674 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
50616693 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
50616712 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:50617005 original size:46 final size:45
Alignment explanation
Indices: 50616938--50617106 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
50616928 CGCCCCTAAG
* *
50616938 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTT-ACATCCATAAA
*
50616984 TGAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--A-C--GTTACATCCATAAA
* * * *
50617031 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTACATCCATAAA
50617077 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
50617107 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.54
47 29 0.27
48 1 0.01
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTACATCCATAAA
Found at i:50617054 original size:93 final size:93
Alignment explanation
Indices: 50616939--50617107 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
50616929 GCCCCTAAGT
* *
50616939 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
50617004 CGAGTTCGGATACCTAGTTACATCTCAC
66 CGAGTTCGGATACCTAGTTACATCTCAC
* ** *
50617032 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
50617097 CGAGTTCGGAT
66 CGAGTTCGGAT
50617108 GCTCAACCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATACCTAGTTACATCTCAC
Found at i:50617563 original size:30 final size:30
Alignment explanation
Indices: 50617529--50617588 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50617519 ATTTAATATG
50617529 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
50617559 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
50617589 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:50624283 original size:19 final size:20
Alignment explanation
Indices: 50624259--50624296 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50624249 GGTACCATCA
50624259 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
50624278 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
50624297 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:50624640 original size:93 final size:93
Alignment explanation
Indices: 50624525--50624695 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
50624515 GCCCCTAAGT
* *
50624525 GAACTCGGACTCAACTCAACGAGCTC-AGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGA-ACATTCGCATCCATAAATGAACTCGGACTCAACTCA
50624589 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
50624618 GAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
50624683 CGAGTTCGGATGC
66 CGAGTTCGGATGC
50624696 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50624685 original size:46 final size:47
Alignment explanation
Indices: 50624520--50624690 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 47
50624510 AACCCGCCCC
* * * *
50624520 TAAGTGAACTCGGACTCAACTCAACGAGCTC-AGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCA
* * * *
50624566 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC-ATTTGCATCCA
* *
50624614 TCA-CGAACTCGGACTCAACTCAACGAGTTCGA-ACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCA
*
50624659 TAAGTGAACTTGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
50624691 GATGCTCAAC
Statistics
Matches: 103, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 26 0.25
48 3 0.03
49 3 0.03
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCA
Found at i:50625149 original size:30 final size:30
Alignment explanation
Indices: 50625115--50625174 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50625105 ATTTAATACG
50625115 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
50625145 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
50625175 GGCTCGGGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:50627332 original size:44 final size:44
Alignment explanation
Indices: 50627283--50627373 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
50627273 GTAGGTTAAA
* * *
50627283 TAATATTAAAATATCCTATATTAATCAAATTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAATTTTAAGTGGGAAAC
*
50627327 TAATATTAAAATAACCTACACTAATCAGATTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAATTTTAAGTGGGAAAC
50627371 TAA
1 TAA
50627374 AAACAGAGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAATTTTAAGTGGGAAAC
Found at i:50633103 original size:292 final size:292
Alignment explanation
Indices: 50632578--50633124 Score: 862
Period size: 292 Copynumber: 1.9 Consensus size: 292
50632568 GGTAATAACT
* *
50632578 AAAATTTGTTCCATAGGGTATGAGCTCCAAAGATCGCAATTCCGTCAACGGTTGGAGAAGTTACA
1 AAAATTTGTTCCATAGGGTATGAGCTCCAAAGATCGCAATTCCATCAAAGGTTGGAGAAGTTACA
* * *
50632643 AGTGAAAAATGAATTATTTGGGCAATGGCTCATTAAAATCCCATTTGAATCTTAGGGCCATTTAT
66 AGTGAAAAATGAATTATATAGGCAATGGCTCATTAAAATCCCACTTGAATCTTAGGGCCATTTAT
* * *
50632708 GCAATAAACATGAAAGGGGCTGATAAGGGCATATGACAACCAACCTAGTGAAGGCCGTGAATTTT
131 ACAATAAACATGAAAGGGGCCGATAAGGGCATATGACAACCAACCTAGTGAAGGCCATGAATTTT
* * * * *
50632773 GTTATGAAGGGGGCGCGTCAGTTGCCCATACCTTTTGTGTTCACTTCTACTTTTCAGAGAAGTTA
196 ATTATGAAGGGGACGCATCACTTGCCCATACATTTTGTGTTCACTTCTACTTTTCAGAGAAGTTA
50632838 CGAGTGAAAAATGACTTAACTGGGCATGAACC
261 CGAGTGAAAAATGACTTAACTGGGCATGAACC
* * *
50632870 AAAATTTTTTCCATAGGGTATGAGCTCCAAAGATCTCAATTCCATCAAAGGTTGGAGAAGTTACG
1 AAAATTTGTTCCATAGGGTATGAGCTCCAAAGATCGCAATTCCATCAAAGGTTGGAGAAGTTACA
*
50632935 AGTGAAAAATGACTTATATAGGCAATGGCT-AGTTAAAATCCCACTTGAATCTTAGGGCCATTTA
66 AGTGAAAAATGAATTATATAGGCAATGGCTCA-TTAAAATCCCACTTGAATCTTAGGGCCATTTA
* * * * *
50632999 TACAATGAACATGAAGGGGGCCGATATGGGCATATGACAACCAACTTGGTGAAGGCCATGAATTT
130 TACAATAAACATGAAAGGGGCCGATAAGGGCATATGACAACCAACCTAGTGAAGGCCATGAATTT
* *
50633064 TATTGTGAAGGGGACGCATCACTTGCCCATACATTTTGTGTTCACTTCTACTTTTCGGAGA
195 TATTATGAAGGGGACGCATCACTTGCCCATACATTTTGTGTTCACTTCTACTTTTCAGAGA
50633125 TAGGTTGCTT
Statistics
Matches: 230, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
291 1 0.00
292 229 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (292 bp):
AAAATTTGTTCCATAGGGTATGAGCTCCAAAGATCGCAATTCCATCAAAGGTTGGAGAAGTTACA
AGTGAAAAATGAATTATATAGGCAATGGCTCATTAAAATCCCACTTGAATCTTAGGGCCATTTAT
ACAATAAACATGAAAGGGGCCGATAAGGGCATATGACAACCAACCTAGTGAAGGCCATGAATTTT
ATTATGAAGGGGACGCATCACTTGCCCATACATTTTGTGTTCACTTCTACTTTTCAGAGAAGTTA
CGAGTGAAAAATGACTTAACTGGGCATGAACC
Found at i:50636111 original size:20 final size:20
Alignment explanation
Indices: 50636065--50636118 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
50636055 TAAACTTACC
*
50636065 CCAA-GTATCGATACTTGGG
1 CCAAGGTATCGATACTTGAG
50636084 CCAAGGTATCGATACTTGAG
1 CCAAGGTATCGATACTTGAG
***
50636104 CTGTGGTATCGATAC
1 CCAAGGTATCGATAC
50636119 CAATTCTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (20 bp):
CCAAGGTATCGATACTTGAG
Found at i:50636947 original size:34 final size:34
Alignment explanation
Indices: 50636904--50636972 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
50636894 TAGCTAAAAC
* *
50636904 TCTCTAACACACCACATATACATATCCTGATGAA
1 TCTCCAACACACCACACATACATATCCTGATGAA
*
50636938 TCTCCAACACACCATACATACATATCCTGATGAA
1 TCTCCAACACACCACACATACATATCCTGATGAA
50636972 T
1 T
50636973 GGAGCTTAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.30, G:0.06, T:0.26
Consensus pattern (34 bp):
TCTCCAACACACCACACATACATATCCTGATGAA
Found at i:50637227 original size:19 final size:18
Alignment explanation
Indices: 50637203--50637245 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
50637193 TTCAGAACAA
50637203 TCATTTA-TCAAATATCAT
1 TCATTTAGT-AAATATCAT
50637221 CTCATTTTAGTAAATATCAT
1 -TCA-TTTAGTAAATATCAT
50637241 TCATT
1 TCATT
50637246 CACATTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.09
19 6 0.27
20 13 0.59
21 1 0.05
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (18 bp):
TCATTTAGTAAATATCAT
Found at i:50638711 original size:23 final size:23
Alignment explanation
Indices: 50638681--50638803 Score: 108
Period size: 23 Copynumber: 5.3 Consensus size: 23
50638671 CTGATGAACA
*
50638681 ATAAGCTCTATTGAGCTGAAAAG
1 ATAAGCTCTATCGAGCTGAAAAG
* *
50638704 ATAAGCTCTATCGAGTTGAAATG
1 ATAAGCTCTATCGAGCTGAAAAG
* *
50638727 ATAAGCTCTATCGAGTTGAACAG
1 ATAAGCTCTATCGAGCTGAAAAG
* *
50638750 -TAAGCTC-ACACGAGCTGAAACG
1 ATAAGCTCTA-TCGAGCTGAAAAG
* * *
50638772 GTAAGCTCCAAT-GAGCTGAAAAT
1 ATAAGCT-CTATCGAGCTGAAAAG
50638795 AGTAAGCTC
1 A-TAAGCTC
50638804 CTATGAGTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.01
22 16 0.20
23 57 0.70
24 7 0.09
25 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (23 bp):
ATAAGCTCTATCGAGCTGAAAAG
Found at i:50638769 original size:45 final size:46
Alignment explanation
Indices: 50638681--50638803 Score: 117
Period size: 45 Copynumber: 2.7 Consensus size: 46
50638671 CTGATGAACA
* * * *
50638681 ATAAGCTCTATTGAGCTGAAAAGATAAGCTCTATCGAGTTGAAATG
1 ATAAGCTCTATCGAGCTGAAAAGATAAGCTCTAACGAGCTGAAACG
* *
50638727 ATAAGCTCTATCGAGTTGAACAG-TAAGCTC-ACACGAGCTGAAACG
1 ATAAGCTCTATCGAGCTGAAAAGATAAGCTCTA-ACGAGCTGAAACG
* * *
50638772 GTAAGCTCCAAT-GAGCTGAAAATAGTAAGCTC
1 ATAAGCT-CTATCGAGCTGAAAAGA-TAAGCTC
50638804 CTATGAGTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
44 1 0.02
45 31 0.50
46 23 0.37
47 7 0.11
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (46 bp):
ATAAGCTCTATCGAGCTGAAAAGATAAGCTCTAACGAGCTGAAACG
Found at i:50640391 original size:42 final size:43
Alignment explanation
Indices: 50640330--50640435 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 43
50640320 TATGATTTAC
* *
50640330 GTGTAAGACCATGTTTGGGACA-TCGACATC-ATATTTGATTCT
1 GTGTAAGACCATATCTGGGACAGT-GACATCAATATTTGATTCT
* * **
50640372 GTGTAAGACCCTATCTGGGACAGTGGCATCAATATTTGATTAA
1 GTGTAAGACCATATCTGGGACAGTGACATCAATATTTGATTCT
*
50640415 ATGTAAGACCA-ATTCTGGGAC
1 GTGTAAGACCATA-TCTGGGAC
50640436 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 25 0.47
43 28 0.53
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACAGTGACATCAATATTTGATTCT
Found at i:50643183 original size:8 final size:8
Alignment explanation
Indices: 50643167--50643198 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
50643157 CTCATATATG
*
50643167 TTCATAAT
1 TTCACAAT
50643175 TTCACAAT
1 TTCACAAT
50643183 TTCACAAT
1 TTCACAAT
50643191 TTCACAAT
1 TTCACAAT
50643199 CATACATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (8 bp):
TTCACAAT
Found at i:50653138 original size:187 final size:183
Alignment explanation
Indices: 50652793--50653146 Score: 435
Period size: 187 Copynumber: 1.9 Consensus size: 183
50652783 AAAGTTTTGA
* *
50652793 GAGAGTAAAATATTGAGGGAAATTAAATGAGAGAGTAAAATTTTAGAGGGAAAATATTAAAAAAA
1 GAGAGTAAAATATTGAGGGAAAGTAAATGAGAGAGTAAAATTTTAGAGAGAAAATATTAAAAAAA
* * *
50652858 TGTGGGGGATAGATTTGGAGTAGATGGGAGGTGGAATGAGAGGAGAGTAAAAATTTTAGGGGTAG
66 TGTGGGGGATAGATTTGGAGTAGATGGGAGGTGGAATGAGAGGAGAGTAAAAATTTTAGAGGAAA
* * *
50652923 AGTGGGAGGGAGTAAAAATTTAGGGGGAAAA-TAAAATATTTTAAGGGTTTTT
131 AGTGAGAAGGAATAAAAATTTAGGGGGAAAAGTAAAATATTTTAAGGGTTTTT
* * * *
50652975 GAGAGTAAAATTTTGAGGGAAAGTAGATG-GGGAGTAAAATTTTTGAGAGAAAATACTTTAAAAA
1 GAGAGTAAAATATTGAGGGAAAGTAAATGAGAGAGTAAAATTTTAGAGAGAAAATA--TTAAAAA
* * * * * * *
50653039 AATTTGGTGGGAAATGGATTTGGGGTAGATGGGGGGTTGGGATGAGAGGTGAGTAAAAGTTTT-G
64 AATGTGG-GGG--ATAGATTTGGAGTAGATGGGAGG-TGGAATGAGAGGAGAGTAAAAATTTTAG
* *
50653103 TAGGAAAAGTGAGAAGGAATAAAATTTTTGGGGGAAAAGTAAAA
125 -AGGAAAAGTGAGAAGGAATAAAAATTTAGGGGGAAAAGTAAAA
50653147 CGGTTTGGGG
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
181 23 0.16
182 26 0.18
183 13 0.09
184 3 0.02
186 21 0.15
187 52 0.36
188 5 0.03
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (183 bp):
GAGAGTAAAATATTGAGGGAAAGTAAATGAGAGAGTAAAATTTTAGAGAGAAAATATTAAAAAAA
TGTGGGGGATAGATTTGGAGTAGATGGGAGGTGGAATGAGAGGAGAGTAAAAATTTTAGAGGAAA
AGTGAGAAGGAATAAAAATTTAGGGGGAAAAGTAAAATATTTTAAGGGTTTTT
Found at i:50654570 original size:20 final size:20
Alignment explanation
Indices: 50654545--50654583 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
50654535 TCAATTTATT
50654545 AAAAGAAAGTCCAAAAATTC
1 AAAAGAAAGTCCAAAAATTC
50654565 AAAAGAAAGTCCAAAAATT
1 AAAAGAAAGTCCAAAAATT
50654584 TAAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.15
Consensus pattern (20 bp):
AAAAGAAAGTCCAAAAATTC
Found at i:50655791 original size:16 final size:16
Alignment explanation
Indices: 50655770--50655804 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
50655760 CAAAGCTCAA
50655770 AAATCAGACCCAAACT
1 AAATCAGACCCAAACT
*
50655786 AAATCAGGCCCAAACT
1 AAATCAGACCCAAACT
50655802 AAA
1 AAA
50655805 ACATTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.29, G:0.09, T:0.11
Consensus pattern (16 bp):
AAATCAGACCCAAACT
Found at i:50656861 original size:3 final size:3
Alignment explanation
Indices: 50656853--50656915 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
50656843 TACTTATACG
* * *
50656853 TTA TTA TTA TTA TTA TTA TTA TCA -AA TTAA TCA TT- TT- TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT-A TTA
50656897 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
50656916 GTTTCTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 5 0.10
3 42 0.82
4 4 0.08
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:50656987 original size:17 final size:18
Alignment explanation
Indices: 50656945--50656987 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
50656935 ACCTAAAATT
*
50656945 TTTATATACATTTATTTTA
1 TTTATAT-CATTTATTCTA
50656964 TTT-TATCATTTA-TCTA
1 TTTATATCATTTATTCTA
50656980 TTTATATC
1 TTTATATC
50656988 CTTTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 10 0.45
18 3 0.14
19 3 0.14
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATCATTTATTCTA
Found at i:50681102 original size:24 final size:24
Alignment explanation
Indices: 50681066--50681227 Score: 96
Period size: 24 Copynumber: 6.8 Consensus size: 24
50681056 GAGCCAACAT
* *
50681066 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
50681090 TGGCACTATGTGTGCGAAATCGAT
1 TGGCACTATGTGTGCGAATTTGAA
* *
50681114 TGGCACTATGTATGCTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* ** ** * * *
50681138 TGTCAAAAAATGAGTGAATTTCCAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * *
50681163 -AGCACTATGTGTGC-AGTTTAGCA
1 TGGCACTATGTGTGCGAATTT-GAA
*
50681186 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
*
50681210 TAGCACTATGTGTGCGAA
1 TGGCACTATGTGTGCGAA
50681228 ATCAGTTGAG
Statistics
Matches: 96, Mismatches: 37, Indels: 10
0.67 0.26 0.07
Matches are distributed among these distances:
23 6 0.06
24 83 0.86
25 7 0.07
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:50686509 original size:108 final size:108
Alignment explanation
Indices: 50686320--50686538 Score: 420
Period size: 108 Copynumber: 2.0 Consensus size: 108
50686310 TTGACGAATT
50686320 TCAGGGGATAATCTTAAGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
1 TCAGGGGATAATCTTAAGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
*
50686385 TTTCTTCACTAACATTGGATTGAGTTTTTAGCAATGTTGATGG
66 TTTCTTCACTAACATTGGATTGAGTTTTCAGCAATGTTGATGG
*
50686428 TCAGGGGATAATCTTAGGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
1 TCAGGGGATAATCTTAAGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
50686493 TTTCTTCACTAACATTGGATTGAGTTTTCAGCAATGTTGATGG
66 TTTCTTCACTAACATTGGATTGAGTTTTCAGCAATGTTGATGG
50686536 TCA
1 TCA
50686539 ATGAAGTATC
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (108 bp):
TCAGGGGATAATCTTAAGGTAATTGTTAAATCTAGTGGCAATATTCCCACATCCAACAGATAGTG
TTTCTTCACTAACATTGGATTGAGTTTTCAGCAATGTTGATGG
Found at i:50693192 original size:13 final size:14
Alignment explanation
Indices: 50693166--50693194 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
50693156 ACTAATGATG
50693166 AATTAAACCATTAT
1 AATTAAACCATTAT
50693180 AATTAAA-CATTAT
1 AATTAAACCATTAT
50693193 AA
1 AA
50693195 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:50698328 original size:46 final size:47
Alignment explanation
Indices: 50698254--50698366 Score: 174
Period size: 46 Copynumber: 2.4 Consensus size: 47
50698244 TGTAAGTTAT
* *
50698254 GATATGATATATATTTACGTATTATGTAAGTTATATAAATTATGTAA
1 GATATGATATATATTTACGTATAATGTAAATTATATAAATTATGTAA
* *
50698301 GATATGATA-ATATTTATGTATAATGTAAATTATGTAAATTATGTAA
1 GATATGATATATATTTACGTATAATGTAAATTATATAAATTATGTAA
*
50698347 GATATGATATATATCTACGT
1 GATATGATATATATTTACGT
50698367 TGATGGGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 42 0.71
47 17 0.29
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (47 bp):
GATATGATATATATTTACGTATAATGTAAATTATATAAATTATGTAA
Found at i:50698352 original size:18 final size:18
Alignment explanation
Indices: 50698274--50698346 Score: 62
Period size: 18 Copynumber: 4.0 Consensus size: 18
50698264 ATATTTACGT
* *
50698274 ATTATGTAAGTTATATAA
1 ATTATGTAAGATATGTAA
50698292 ATTATGTAAGATATGATAA
1 ATTATGTAAGATATG-TAA
*
50698311 TATTTATGT-ATA-ATGTAA
1 -A-TTATGTAAGATATGTAA
50698329 ATTATGTAA-ATTATGTAA
1 ATTATGTAAGA-TATGTAA
50698347 GATATGATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 7 0.15
17 2 0.04
18 22 0.48
19 6 0.13
20 3 0.07
21 6 0.13
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
ATTATGTAAGATATGTAA
Found at i:50699471 original size:25 final size:25
Alignment explanation
Indices: 50699438--50699485 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
50699428 GTAAAATATC
*
50699438 GAATTAGTAGAATCAAACTATTATG
1 GAATAAGTAGAATCAAACTATTATG
* * *
50699463 GAATAAGTATAATTAAATTATTA
1 GAATAAGTAGAATCAAACTATTA
50699486 CAACACAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (25 bp):
GAATAAGTAGAATCAAACTATTATG
Found at i:50703003 original size:5 final size:5
Alignment explanation
Indices: 50702995--50703019 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
50702985 AAAAATACTA
50702995 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
50703020 TAAAATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:50703455 original size:38 final size:40
Alignment explanation
Indices: 50703392--50703471 Score: 128
Period size: 38 Copynumber: 2.0 Consensus size: 40
50703382 ACCCATACCG
50703392 TAAACTTAACATATATACTATACCATTGAACCCTAAACCA
1 TAAACTTAACATATATACTATACCATTGAACCCTAAACCA
* *
50703432 TAAACTTAA-A-ATATATTCTACCATTGAACCCTAAACCA
1 TAAACTTAACATATATACTATACCATTGAACCCTAAACCA
50703470 TA
1 TA
50703472 GGCTTTAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 28 0.74
39 1 0.03
40 9 0.24
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (40 bp):
TAAACTTAACATATATACTATACCATTGAACCCTAAACCA
Found at i:50703665 original size:21 final size:21
Alignment explanation
Indices: 50703626--50703692 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
50703616 GATTTAGGGT
* *
50703626 TTTAGAGTTTATGGATTAGTG
1 TTTAGGGTTTATGGTTTAGTG
* * **
50703647 TTTATGGTTTATGTTTTAGAA
1 TTTAGGGTTTATGGTTTAGTG
* *
50703668 TTTAGGGTTTAGGGTTTAATG
1 TTTAGGGTTTATGGTTTAGTG
50703689 TTTA
1 TTTA
50703693 AGATTTAAGG
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.52
Consensus pattern (21 bp):
TTTAGGGTTTATGGTTTAGTG
Found at i:50704315 original size:41 final size:41
Alignment explanation
Indices: 50703995--50704327 Score: 355
Period size: 41 Copynumber: 8.2 Consensus size: 41
50703985 AACTTTTTGC
* *
50703995 GGCGTTTGGACCAAAAACGCCGCTATTCACAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
** * * *
50704036 GGCGTTTGGAAGAAAAAAGCCGTTATTGATTAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * *
50704077 GGCGTTTGGGCCAAAAACGCCACTATTCATAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* ** *
50704118 GGTGTTTGGAAGAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * * *
50704159 GGCGCTTGGGCCAAAAACACTGCTATTGATAAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * * * *
50704200 GGTGTTT-GTCCAAAAATGCTGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * * *
50704240 GGCG-TTGGTCTAAAAATGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
* * * * * *
50704280 GGCGTTTGGGCCAAAAACGCCGTTATTGTTTAGTTTTTTGC
1 GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
50704321 GGCGTTT
1 GGCGTTT
50704328 TTATTAAACG
Statistics
Matches: 243, Mismatches: 47, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
39 2 0.01
40 67 0.28
41 174 0.72
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.35
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCGCTATTGATAAGTTTTTAGT
Found at i:50707490 original size:47 final size:47
Alignment explanation
Indices: 50707435--50707849 Score: 695
Period size: 47 Copynumber: 8.8 Consensus size: 47
50707425 ATTTAGGATT
*
50707435 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
50707482 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
50707529 CGATCTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
50707578 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
50707625 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
50707672 CGATGTGATGAATCTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
50707719 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * *
50707766 CGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
50707813 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
50707850 TCCCGAAGGG
Statistics
Matches: 347, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 302 0.87
49 45 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:50708024 original size:37 final size:37
Alignment explanation
Indices: 50707968--50708046 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
50707958 CCGAGCTCTA
* * * *
50707968 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTACGGGT
*
50708005 AAGACCCGATAACTTCGTGTGGAGATTATGTACGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTACGGGT
50708042 AAGAC
1 AAGAC
50708047 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTACGGGT
Found at i:50710989 original size:28 final size:28
Alignment explanation
Indices: 50710949--50711044 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
50710939 AGCGTCCTGG
*
50710949 TGGCTATGCCACAAATTATCTGATT-TGA
1 TGGCTCTGCCACAAATTATCTG-TTCTGA
* *
50710977 TGGCTCTGCCACATA-TATCTGTTCTGG
1 TGGCTCTGCCACAAATTATCTGTTCTGA
* *
50711004 TGGCTCTGCCAC-GATTATCTGTATCTGG
1 TGGCTCTGCCACAAATTATCTGT-TCTGA
* *
50711032 TGACTCTGTCACA
1 TGGCTCTGCCACA
50711045 TTATTTGTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.05
27 27 0.47
28 28 0.48
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (28 bp):
TGGCTCTGCCACAAATTATCTGTTCTGA
Found at i:50711007 original size:27 final size:26
Alignment explanation
Indices: 50710945--50711053 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 26
50710935 AGGAAGCGTC
*
50710945 CTGGTGGCTATGCCACAAATTATCTGATT
1 CTGGTGGCTCTGCCAC--ATTATCTG-TT
*
50710974 -TGATGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
50711000 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
50711028 CTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
50711054 TTGGCAGCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
26 5 0.07
27 35 0.50
28 30 0.43
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:50711039 original size:55 final size:54
Alignment explanation
Indices: 50710945--50711053 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 54
50710935 AGGAAGCGTC
* *
50710945 CTGGTGGCTATGCCACAAATTATCTGATTTGATGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGATGACTCTGCCACAT-TATCTGTT
* * * * *
50711000 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGATGACTCTGCCACATTATCTGTT
50711054 TTGGCAGCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
54 15 0.33
55 31 0.67
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGATGACTCTGCCACATTATCTGTT
Found at i:50718658 original size:47 final size:47
Alignment explanation
Indices: 50718518--50719257 Score: 1158
Period size: 47 Copynumber: 15.7 Consensus size: 47
50718508 TTAGGATTCT
* * *
50718518 ATGTGATGGATGTGAACATGTATATATATGTTATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-A-GTGTATATATGTGATAAGGCCTAATGGCCG
50718567 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
50718616 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
50718663 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
50718710 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
50718757 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCG
50718808 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
50718857 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
50718904 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
50718951 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
50718998 A--TG-TG-A--TG-AA-TG--TATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
50719035 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
50719082 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
50719129 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
50719176 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
** * *
50719223 ACATGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
50719258 TCCCGAAGGG
Statistics
Matches: 651, Mismatches: 24, Indels: 34
0.92 0.03 0.05
Matches are distributed among these distances:
37 25 0.04
39 4 0.01
40 4 0.01
41 3 0.00
43 3 0.00
44 4 0.01
45 3 0.00
47 447 0.69
48 1 0.00
49 110 0.17
51 47 0.07
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:50718901 original size:241 final size:238
Alignment explanation
Indices: 50718518--50719257 Score: 1204
Period size: 241 Copynumber: 3.2 Consensus size: 238
50718508 TTAGGATTCT
*
50718518 ATGTGATGGATGTGAACATGTATATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGGATGTGAA-ATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
50718583 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
65 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
50718648 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATG
130 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
50718713 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
195 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
50718757 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 ATGTGATGGATGTGAAA-TG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
50718822 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
63 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
50718887 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCGA
128 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
50718952 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
193 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
50718998 A--TG-T-GA--TG-AATG----TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
50719052 --GTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
66 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
50719115 AGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
131 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
50719180 GATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
196 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
**
50719223 ACATGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGGATGTGAAA-TGTATATATATGTGATAAG
50719258 TCCCGAAGGG
Statistics
Matches: 472, Mismatches: 14, Indels: 34
0.91 0.03 0.07
Matches are distributed among these distances:
225 164 0.35
227 43 0.09
228 1 0.00
229 2 0.00
231 2 0.00
232 2 0.00
233 4 0.01
234 2 0.00
235 12 0.03
236 1 0.00
237 1 0.00
238 2 0.00
239 19 0.04
241 217 0.46
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (238 bp):
ATGTGATGGATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:50719016 original size:37 final size:37
Alignment explanation
Indices: 50718973--50719094 Score: 145
Period size: 37 Copynumber: 3.0 Consensus size: 37
50718963 TGAAAGTGTA
*
50718973 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
50719010 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAA--T----G
50719053 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 ----TATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
50719094 T
1 T
50719095 GAAAGTGTAT
Statistics
Matches: 74, Mismatches: 1, Indels: 20
0.78 0.01 0.21
Matches are distributed among these distances:
37 35 0.47
39 1 0.01
41 1 0.01
43 1 0.01
45 1 0.01
47 35 0.47
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (37 bp):
TATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
Found at i:50719432 original size:37 final size:37
Alignment explanation
Indices: 50719376--50719454 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
50719366 CCGAGCTCTA
* * *
50719376 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
50719413 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
50719450 AAGAC
1 AAGAC
50719455 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:50721736 original size:25 final size:24
Alignment explanation
Indices: 50721630--50721775 Score: 197
Period size: 25 Copynumber: 6.0 Consensus size: 24
50721620 GCTTTATCAT
*
50721630 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
50721655 ATAACTAGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
50721678 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
50721702 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
50721727 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
50721752 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
50721776 CACTTCCTCC
Statistics
Matches: 113, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 18 0.16
24 40 0.35
25 55 0.49
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:50721849 original size:20 final size:20
Alignment explanation
Indices: 50721824--50721870 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
50721814 TTATGAATAC
50721824 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
50721844 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50721864 ACCATGT
1 ATCATGT
50721871 TTACTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:50741861 original size:40 final size:40
Alignment explanation
Indices: 50741806--50742022 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
50741796 TGGATGATAA
* * *
50741806 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
50741846 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50741886 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50741926 CCGGGCTAAGTGCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50741966 CCGGGCTATGTCCC-AAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
50742005 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50742023 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 10 0.06
39 27 0.17
40 120 0.76
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50752022 original size:24 final size:23
Alignment explanation
Indices: 50751977--50752028 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
50751967 TAATTTCCTC
*
50751977 TTAATTTTAATTTCTTTCAATTA
1 TTAATTTTAATTTCATTCAATTA
*
50752000 GTTAATTTTCAA-TTCATTGAATTA
1 -TTAATTTT-AATTTCATTCAATTA
50752024 TTAAT
1 TTAAT
50752029 AATTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 18 0.72
25 2 0.08
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.56
Consensus pattern (23 bp):
TTAATTTTAATTTCATTCAATTA
Found at i:50753948 original size:27 final size:26
Alignment explanation
Indices: 50753892--50753948 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
50753882 CAACCTTAAC
* * *
50753892 CCTAGGGGTATATTAGTAATTTTGCT
1 CCTAGGGGTAAATTAGTAATTTTCCA
50753918 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTCCA
50753945 CCTA
1 CCTA
50753949 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTCCA
Found at i:50767536 original size:22 final size:22
Alignment explanation
Indices: 50767508--50767549 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50767498 AGCTTATCGT
50767508 TTCAGCTAG-TATGAGCTTACTG
1 TTCAGCTAGATA-GAGCTTACTG
*
50767530 TTCAGCTCGATAGAGCTTAC
1 TTCAGCTAGATAGAGCTTAC
50767550 CATTTTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (22 bp):
TTCAGCTAGATAGAGCTTACTG
Found at i:50770704 original size:28 final size:28
Alignment explanation
Indices: 50770637--50770773 Score: 80
Period size: 28 Copynumber: 4.9 Consensus size: 28
50770627 GAGTTACTGA
* * * *
50770637 GATGGCACTTAGTGTGCGAAACATCCAG
1 GATGGCACTTAATGAGTGAGACATCCAG
* * * *
50770665 AAATGGCTCTTAATGAGTGA-ATTATCGAG
1 -GATGGCACTTAATGAGTGAGA-CATCCAG
* *
50770694 GATGGCACTTAGTGTGTGAGACATCCAG
1 GATGGCACTTAATGAGTGAGACATCCAG
* * *
50770722 GATGGCACTTAGTGTGTGATACATCC-G
1 GATGGCACTTAATGAGTGAGACATCCAG
* * * *
50770749 TGAAGGCACTAAATGTGTGAAACAT
1 -GATGGCACTTAATGAGTGAGACAT
50770774 TGAGAAGAAT
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
27 1 0.01
28 66 0.76
29 20 0.23
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (28 bp):
GATGGCACTTAATGAGTGAGACATCCAG
Found at i:50774180 original size:57 final size:57
Alignment explanation
Indices: 50774091--50774204 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
50774081 GTCAATTTTG
* * * * *
50774091 AGAAATGGCACTTAGTGTGCGAGTTATTGAGGATGGCACTTAGTGTGCGAAACATCC
1 AGAAATGGCACATAGTGAGCGAATTATCGAGGATGACACTTAGTGTGCGAAACATCC
* * *
50774148 AGAAATGGCTCATAGTGAGTGAATTATCGAGGATGACACTTAGTGTGCGATACATCC
1 AGAAATGGCACATAGTGAGCGAATTATCGAGGATGACACTTAGTGTGCGAAACATCC
50774205 GTGAAGGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (57 bp):
AGAAATGGCACATAGTGAGCGAATTATCGAGGATGACACTTAGTGTGCGAAACATCC
Found at i:50788784 original size:37 final size:37
Alignment explanation
Indices: 50788734--50788812 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
50788724 TTATTACGAA
* *
50788734 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
* *
50788771 GTCTTACCTGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
50788808 GTCTT
1 GTCTT
50788813 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:50789009 original size:47 final size:47
Alignment explanation
Indices: 50788931--50789374 Score: 735
Period size: 47 Copynumber: 9.4 Consensus size: 47
50788921 CCCTTCGGGA
* * * * * * *
50788931 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50788978 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50789025 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50789072 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50789119 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50789168 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50789215 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50789262 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50789309 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50789356 CTTATCGCATATATACACT
1 CTTATCACATATATACACT
50789375 GTCTTGGCTA
Statistics
Matches: 377, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 331 0.88
49 46 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50789269 original size:190 final size:190
Alignment explanation
Indices: 50788931--50789374 Score: 752
Period size: 190 Copynumber: 2.4 Consensus size: 190
50788921 CCCTTCGGGA
* * * * * * * *
50788931 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
50788994 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
50789059 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
50789119 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
50789184 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
50789249 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
50789309 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTATCGCATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
50789372 ACT
66 ACT
50789375 GTCTTGGCTA
Statistics
Matches: 242, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
188 65 0.27
189 1 0.00
190 176 0.73
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:50793155 original size:27 final size:27
Alignment explanation
Indices: 50793121--50793271 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
50793111 TAAATTGTAC
* *
50793121 AGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
50793147 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
50793175 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
50793203 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
50793230 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
50793257 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50793272 GGCTCAATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.78
28 23 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:50793218 original size:55 final size:54
Alignment explanation
Indices: 50793120--50793271 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 54
50793110 TTAAATTGTA
** *
50793120 CAGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACG
* * * **
50793174 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
50793229 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
50793272 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 38 0.46
55 44 0.53
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:50793262 original size:82 final size:82
Alignment explanation
Indices: 50793121--50793271 Score: 187
Period size: 82 Copynumber: 1.8 Consensus size: 82
50793111 TAAATTGTAC
* * *
50793121 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
50793186 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
** * * ** * *
50793203 AGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTGCGAATTGACCATACAGCACTAAGT
50793267 GTGCG
65 GTGCG
50793272 GGCTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 1 0.02
82 56 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:50793282 original size:27 final size:27
Alignment explanation
Indices: 50793176--50793282 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
50793166 TGACCATGCG
* * * *
50793176 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
50793204 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
50793231 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
50793258 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
50793283 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:50796278 original size:40 final size:40
Alignment explanation
Indices: 50796234--50796363 Score: 206
Period size: 40 Copynumber: 3.2 Consensus size: 40
50796224 TCTTCGAGGT
* * * *
50796234 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
*
50796274 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
*
50796314 TTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
50796354 TTAGCCCGGA
1 TTAGCCCGGA
50796364 CATCATTCGA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
Found at i:50796708 original size:29 final size:29
Alignment explanation
Indices: 50796669--50796747 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
50796659 CTTAATAATC
*
50796669 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
50796699 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
50796728 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
50796748 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:50796793 original size:43 final size:43
Alignment explanation
Indices: 50796729--50796831 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
50796719 TGCATTTCAA
50796729 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
50796772 GCCCACACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
50796815 GTCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
50796832 TGAAAACCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:50798746 original size:37 final size:37
Alignment explanation
Indices: 50798696--50798774 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
50798686 TTATTACGAA
* *
50798696 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
50798733 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
50798770 GTCTT
1 GTCTT
50798775 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:50798971 original size:47 final size:47
Alignment explanation
Indices: 50798893--50799416 Score: 868
Period size: 47 Copynumber: 11.1 Consensus size: 47
50798883 CCCTTCGGGA
* * * * * * *
50798893 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
50798940 CCTGTCACATATATACACTTTCACATTCATCAAATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50798987 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50799034 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50799081 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50799128 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50799175 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50799224 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50799271 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50799318 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50799365 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50799412 CTTAT
1 CTTAT
50799417 ACACTGTCTT
Statistics
Matches: 451, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 405 0.90
49 46 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50799306 original size:237 final size:235
Alignment explanation
Indices: 50798893--50799416 Score: 886
Period size: 237 Copynumber: 2.2 Consensus size: 235
50798883 CCCTTCGGGA
* * * * * * * * *
50798893 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
50798958 TTTCACATTCATCAAATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCAAATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
50799023 GGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
50799088 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
50799128 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
50799193 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCAAATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
50799258 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
50799323 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
194 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
50799365 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
50799417 ACACTGTCTT
Statistics
Matches: 270, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
235 45 0.17
237 225 0.83
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (235 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCAAATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:50808362 original size:6 final size:6
Alignment explanation
Indices: 50808351--50808460 Score: 84
Period size: 6 Copynumber: 17.8 Consensus size: 6
50808341 TTTCATAACT
* *
50808351 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC AGAA-C
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
50808399 AAGAATC AGAATT AGGTAA-C AGGATC AGAATC AGTATC AGGTAA-C AGAATC
1 -AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
50808450 AGAATC AGAAT
1 AGAATC AGAAT
50808461 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
5 5 0.06
6 65 0.78
7 9 0.11
8 4 0.05
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:50808386 original size:19 final size:19
Alignment explanation
Indices: 50808362--50808432 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
50808352 GAATCAGAAT
*
50808362 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
*
50808381 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
50808398 CAAGAATCAGAATTAGGTAA
1 C-AGAATCAGAATCAGGTAA
*
50808418 CAGGATCAGAATCAG
1 CAGAATCAGAATCAG
50808433 TATCAGGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.05
18 12 0.28
19 26 0.60
20 3 0.07
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.15
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:50808387 original size:31 final size:31
Alignment explanation
Indices: 50808346--50808460 Score: 112
Period size: 31 Copynumber: 3.7 Consensus size: 31
50808336 AACATTTTCA
50808346 TAACTAGAATCAGAATCAGAATCAGAATCAGG
1 TAAC-AGAATCAGAATCAGAATCAGAATCAGG
* *
50808378 TGACAGAATCAAAATCAGAA-CAAGAATCA-G
1 TAACAGAATCAGAATCAGAATC-AGAATCAGG
* * *
50808408 -AATTAGGTAA-CAGGATCAGAATCAGTATCAGG
1 TAA-CA-G-AATCAGAATCAGAATCAGAATCAGG
50808440 TAACAGAATCAGAATCAGAAT
1 TAACAGAATCAGAATCAGAAT
50808461 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
29 1 0.02
30 5 0.08
31 50 0.76
32 8 0.12
33 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
TAACAGAATCAGAATCAGAATCAGAATCAGG
Found at i:50808395 original size:37 final size:37
Alignment explanation
Indices: 50808353--50808451 Score: 112
Period size: 37 Copynumber: 2.6 Consensus size: 37
50808343 TCATAACTAG
*
50808353 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* * *
50808390 AATCAGAA-CAAGAATCAGAATTAGGTAACAGGATCAG
1 AATCAGAATC-AGAATCAGAATCAGGTAACAGAATCAA
*
50808427 AATCAGTATCAGGTAA-CAGAATCAG
1 AATCAGAATCA-G-AATCAGAATCAG
50808452 AATCAGAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
36 1 0.02
37 39 0.75
38 10 0.19
39 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.17
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:50808430 original size:25 final size:25
Alignment explanation
Indices: 50808400--50808460 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
50808390 AATCAGAACA
* *
50808400 AGAATCAGAATTAGGTAACAGGATC
1 AGAATCAGAATCAGGTAACAGAATC
*
50808425 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
50808450 AGAATCAGAAT
1 AGAATCAGAAT
50808461 GTGAATGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:50808865 original size:27 final size:27
Alignment explanation
Indices: 50808835--50809082 Score: 263
Period size: 27 Copynumber: 9.2 Consensus size: 27
50808825 AGGTATCTCG
* *
50808835 GTAATTCCACCCTGCAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
*
50808862 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
50808889 GTAATTCTACCCTATAGGGGTA-TTGC
1 GTAATTCTACCCTACAGGGGTATTTTA
**
50808915 GATAATTCTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTTA
**
50808943 GTAATTCTACCCTACAGGGGTA-TTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
*
50808969 GTAATTCTACCTTACTA-GGGTATTTTA
1 GTAATTCTACCCTAC-AGGGGTATTTTA
*
50808996 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* ** *
50809023 GTAATTTTA-CAAACTAGGGGTGTTTT-
1 GTAATTCTACCCTAC-AGGGGTATTTTA
* *
50809049 GATAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTTA
50809077 GTAATT
1 GTAATT
50809083 TCACGATCGA
Statistics
Matches: 188, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
26 31 0.16
27 151 0.80
28 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:50808893 original size:54 final size:55
Alignment explanation
Indices: 50808834--50809082 Score: 294
Period size: 54 Copynumber: 4.6 Consensus size: 55
50808824 AAGGTATCTC
* * *
50808834 GGTAATTCCACCCTGCAGGGGTATTTTAGTAATTCTACCCTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTAGGGGTATTTT
* * *
50808888 GGTAATTCTACCCTATAGGGGTATTGC-GATAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACTAGGGGTATTTT
* *
50808942 GGTAATTCTACCCTACAGGGGTA-TTCGGTAATTCTACCTTACTA-GGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTAGGGGTATTTT
* * * * ** *
50808995 AGTAATTCTACCCTACAAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTGTTTT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTAGGGGTATTTT
* *
50809049 GATAATTCTACCCTATAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATT
50809083 TCACGATCGA
Statistics
Matches: 167, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
53 50 0.30
54 117 0.70
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (55 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTAGGGGTATTTT
Found at i:50809053 original size:134 final size:134
Alignment explanation
Indices: 50808808--50809082 Score: 358
Period size: 134 Copynumber: 2.1 Consensus size: 134
50808798 AGGGCACAAT
* *
50808808 GGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTGCAGGGGTATTTTAGTAATTCTACC
1 GGTAATTCTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
* * **
50808873 CTACAGGGGTATTTTGGTAATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTACAGGGGTA
66 CTACAAGGGTATTTTAGTAATTCTACCAAATAGGGGTATTGCGATAATTCTACCCTACAGGGGTA
50808938 TTTC
131 TTTC
* * * *
50808942 GGTAATTCTACCCTACAGGGGTAT-TCGGTAATTCTACCTTACTA-GGGTATTTTAGTAATTCTA
1 GGTAATTCTACCCCACA-AGGTATCTCGGTAATTCCACCCTAC-AGGGGTATTTTAGTAATTCTA
* * ** *
50809005 CCCTACAAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTGTTTTGATAATTCTACCCTATAGGG
64 CCCTACAAGGGTATTTTAGTAATTCTACCAAA-TAGGGGTATTGCGATAATTCTACCCTACAGGG
50809069 GTATTTC
128 GTATTTC
*
50809076 AGTAATT
1 GGTAATT
50809083 TCACGATCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
133 2 0.02
134 114 0.93
135 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (134 bp):
GGTAATTCTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
CTACAAGGGTATTTTAGTAATTCTACCAAATAGGGGTATTGCGATAATTCTACCCTACAGGGGTA
TTTC
Found at i:50809139 original size:27 final size:27
Alignment explanation
Indices: 50809088--50809502 Score: 293
Period size: 27 Copynumber: 15.4 Consensus size: 27
50809078 TAATTTCACG
* *
50809088 ATCGAGGGTAAAA-CGTAATTTTGTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
*
50809114 ATCAAGGGTAAAATAGTAATTCTGTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
*
50809141 ATCGAGGGTAAAATAGTAATTCTATAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
* *** * *
50809168 ACCGAGGGTACTTTGGTAATT-TTTACCA
1 ATCGAGGGTAAAATAGTAATTCTGTA--A
* ** * **
50809196 GTCGAGGGT-ATTTCAGTAATTTTACAA
1 ATCGAGGGTAAAAT-AGTAATTCTGTAA
* ***
50809223 ATCAGGGGGTATTTTAGTAATT-T-TACA
1 ATC-GAGGGTAAAATAGTAATTCTGTA-A
* * *** * *
50809250 AACCAGTGGTATTTTAGTAATTTTCTAA
1 ATCGAG-GGTAAAATAGTAATTCTGTAA
* * *
50809278 TTCGAGGGTAAAATGGTAATTCTCTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
* *
50809305 ATCGAGGGTAAAATGGTAATTCTATAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
* **
50809332 ATCGAGGGTAGAACGGTAATTCTGTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
* *
50809359 ATCGAGGGTAAAATAGT-ATTTTCTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
* * * *
50809385 TTCAAGAGTAAAATAGTAACTCTGTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
* *
50809412 ATCGAGGGTAAAATAGTAATTTTCTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
* *
50809439 ATCGATGGTAAAACAGTAATTCTGTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
* * *
50809466 ATCAAGGGTAAAATGGTAATTTTGTAA
1 ATCGAGGGTAAAATAGTAATTCTGTAA
*
50809493 ATCGAAGGTA
1 ATCGAGGGTA
50809503 CTTTGATAAT
Statistics
Matches: 312, Mismatches: 65, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
26 38 0.12
27 236 0.76
28 31 0.10
29 7 0.02
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (27 bp):
ATCGAGGGTAAAATAGTAATTCTGTAA
Found at i:50809187 original size:54 final size:54
Alignment explanation
Indices: 50809088--50809502 Score: 329
Period size: 54 Copynumber: 7.7 Consensus size: 54
50809078 TAATTTCACG
* * * *
50809088 ATCGAGGGTAAAA-CGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAA
1 ATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAA
* * *** *
50809141 ATCGAGGGTAAAATAGTAATTCTATAAACCGAGGGTACTTTGGTAATT-TTTACCA
1 ATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTA--A
* ** * * *** *
50809196 GTCGAGGGT-ATTTCAGTAATTTTACAAATCAGGGGGTATTTTAGTAATT-T-TACA
1 ATCGAGGGTAAAAT-AGTAATTTTATAAATC-GAGGGTAAAATGGTAATTCTGTA-A
* * *** * * *
50809250 AACCAGTGGTATTTTAGTAATTTTCTAATTCGAGGGTAAAATGGTAATTCTCTAA
1 ATCGAG-GGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAA
* * * *
50809305 ATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAACGGTAATTCTGTAA
1 ATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAA
* * * * * *
50809359 ATCGAGGGTAAAATAGT-ATTTTCTAATTCAAGAGTAAAATAGTAACTCTGTAA
1 ATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAA
* * **
50809412 ATCGAGGGTAAAATAGTAATTTTCTAAATCGATGGTAAAACAGTAATTCTGTAA
1 ATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAA
* * * *
50809466 ATCAAGGGTAAAATGGTAATTTTGTAAATCGAAGGTA
1 ATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTA
50809503 CTTTGATAAT
Statistics
Matches: 289, Mismatches: 63, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
53 60 0.21
54 162 0.56
55 46 0.16
56 21 0.07
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (54 bp):
ATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAA
Found at i:50809232 original size:28 final size:27
Alignment explanation
Indices: 50809201--50809273 Score: 110
Period size: 28 Copynumber: 2.7 Consensus size: 27
50809191 TACCAGTCGA
* *
50809201 GGGTATTTCAGTAATTTTACAAATCAGG
1 GGGTATTTTAGTAATTTTACAAACCA-G
50809229 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAG
*
50809256 TGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
50809274 CTAATTCGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 18 0.43
28 24 0.57
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAG
Found at i:50809413 original size:107 final size:108
Alignment explanation
Indices: 50809264--50809488 Score: 326
Period size: 107 Copynumber: 2.1 Consensus size: 108
50809254 AGTGGTATTT
* * * * *
50809264 TAGTAATTTTCTAATTCGAGGGTAAAATGGTAATTCTCTAAATCGAGGGTAAAATGGTAATTCTA
1 TAGTAATTTTCTAATTCAAGAGTAAAATAGTAACTCTCTAAATCGAGGGTAAAATAGTAATTCTA
* * *
50809329 TAAATCGAGGGTAGAACGGTAATTCTGTAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
* * *
50809372 TAGT-ATTTTCTAATTCAAGAGTAAAATAGTAACTCTGTAAATCGAGGGTAAAATAGTAATTTTC
1 TAGTAATTTTCTAATTCAAGAGTAAAATAGTAACTCTCTAAATCGAGGGTAAAATAGTAATTCTA
*
50809436 TAAATCGATGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
66 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
*
50809479 TGGTAATTTT
1 TAGTAATTTT
50809489 GTAAATCGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 94 0.91
108 9 0.09
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (108 bp):
TAGTAATTTTCTAATTCAAGAGTAAAATAGTAACTCTCTAAATCGAGGGTAAAATAGTAATTCTA
TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
Found at i:50809566 original size:27 final size:27
Alignment explanation
Indices: 50809523--50809647 Score: 107
Period size: 27 Copynumber: 4.7 Consensus size: 27
50809513 TTTACATGTC
* *
50809523 GAGGG-ATTTCAATAATTTTGCAAACT
1 GAGGGTATTTCGATAATTTTACAAACT
50809549 GAGGGTATTTCGATAATTTTACAAA-T
1 GAGGGTATTTCGATAATTTTACAAACT
* * * * *
50809575 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCGATAATTTTACAAACT
*
50809603 GAGGGTACTTT-GGTAATTTTAC-AACT
1 GAGGGTA-TTTCGATAATTTTACAAACT
*
50809629 GAGGATATTTC-AGTAATTT
1 GAGGGTATTTCGA-TAATTT
50809648 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
25 3 0.04
26 21 0.26
27 54 0.67
28 3 0.04
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
GAGGGTATTTCGATAATTTTACAAACT
Found at i:50809654 original size:53 final size:54
Alignment explanation
Indices: 50809481--50809654 Score: 192
Period size: 53 Copynumber: 3.3 Consensus size: 54
50809471 GGGTAAAATG
* * ** *
50809481 GTAATTTTGTAAATCGAAGGTACTTTGATAATTTTACATGTCGAGG-GATTTCA
1 GTAATTTTGTAAACCGAGGGTACTTTGATAATTTTACAAATCGAGGATATTTCA
* * * **
50809534 ATAATTTTGCAAACTGAGGGTA-TTTCGATAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTGTAAACCGAGGGTACTTT-GATAATTTTACAAATCGAGGATATTTCA
* * *
50809588 GTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAACT-GAGGATATTTCA
1 GTAATTTTGTAAACCGAGGGTACTTTGATAATTTTACAAATCGAGGATATTTCA
*
50809641 GTAATTTGGTAAAC
1 GTAATTTTGTAAAC
50809655 TAAAGTATTC
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
52 3 0.03
53 57 0.58
54 35 0.36
55 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
GTAATTTTGTAAACCGAGGGTACTTTGATAATTTTACAAATCGAGGATATTTCA
Done.