Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 288 of 344
Found at i:96501956 original size:23 final size:25
Alignment explanation
Indices: 96501930--96501976 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
96501920 TATCATTCAT
*
96501930 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
96501953 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
96501977 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:96502297 original size:46 final size:46
Alignment explanation
Indices: 96502237--96502585 Score: 417
Period size: 46 Copynumber: 8.0 Consensus size: 46
96502227 TTTGACGTGA
* * * * ** * *
96502237 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
96502283 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
96502329 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
96502374 TGCCATGGTATCTTTCAATAATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
96502420 TGCCATGGTATCTTTCAACCATAGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
96502458 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
96502504 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
96502542 TCCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
96502586 AGAGCATACT
Statistics
Matches: 264, Mismatches: 22, Indels: 34
0.82 0.07 0.11
Matches are distributed among these distances:
38 63 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 43 0.16
46 140 0.53
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:96502466 original size:38 final size:38
Alignment explanation
Indices: 96502415--96502574 Score: 221
Period size: 38 Copynumber: 4.0 Consensus size: 38
96502405 CATTTCATAT
*
96502415 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
96502453 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
*
96502498 TCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
96502537 CAGGTTCCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
96502575 TTTCATATCA
Statistics
Matches: 110, Mismatches: 4, Indels: 16
0.85 0.03 0.12
Matches are distributed among these distances:
38 68 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 32 0.29
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:96502510 original size:84 final size:84
Alignment explanation
Indices: 96502369--96502584 Score: 387
Period size: 84 Copynumber: 2.6 Consensus size: 84
96502359 ACATTCATAT
** *
96502369 CAGGTTGCCATGGTATCTTTCAATAATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
96502434 TCAACCATAGTCTTACACA
66 TCAACCATAGTCTTACACA
96502453 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
*
96502518 TCAACCATGGTCTTACACA
66 TCAACCATAGTCTTACACA
*
96502537 CAGGTTCCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
96502585 GAGAGCATAC
Statistics
Matches: 127, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 127 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
TCAACCATAGTCTTACACA
Found at i:96504800 original size:31 final size:32
Alignment explanation
Indices: 96504724--96504800 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
96504714 CTAATAAAAT
*
96504724 AATAATAAAATATCTTATTAAAGTATTAATAA
1 AATAATAAAATATCTAATTAAAGTATTAATAA
**
96504756 AATAAT-ATTTATCTAATTAAA-TAATT-ATAA
1 AATAATAAAATATCTAATTAAAGT-ATTAATAA
*
96504786 AATATTAAAATATCT
1 AATAATAAAATATCT
96504801 CTAGCATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 10 0.27
31 21 0.57
32 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (32 bp):
AATAATAAAATATCTAATTAAAGTATTAATAA
Found at i:96509795 original size:34 final size:33
Alignment explanation
Indices: 96509739--96509821 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 33
96509729 CCTCTCTCTG
* * * *
96509739 TTTCTTTTCTTTGTTTATTGATCGACTCTTCCATT
1 TTTCTTTTC-TTATTTATTGATCAACGCTT-CATC
*
96509774 TTTCTTTTCTTATTTATTGATCAACGCTTTATC
1 TTTCTTTTCTTATTTATTGATCAACGCTTCATC
*
96509807 TTTGTTTTCTTATTT
1 TTTCTTTTCTTATTT
96509822 GTGATGTAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 16 0.38
34 17 0.40
35 9 0.21
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (33 bp):
TTTCTTTTCTTATTTATTGATCAACGCTTCATC
Found at i:96514550 original size:36 final size:36
Alignment explanation
Indices: 96514505--96514573 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
96514495 TTAGTTTGAG
*
96514505 TGCTCGAGTAATTTGGTTGAGGATTTAGAGTTCTTT
1 TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTCTTT
* * *
96514541 TGCTTGAGTAAGTTGGTTGAGGCTTTAGGGTTC
1 TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTC
96514574 CTTCAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (36 bp):
TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTCTTT
Found at i:96519010 original size:12 final size:12
Alignment explanation
Indices: 96518992--96519032 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
96518982 ACAAGAATTA
96518992 CAAAAAAAA-AT
1 CAAAAAAAATAT
*
96519003 CAAAAAAATTAT
1 CAAAAAAAATAT
*
96519015 -AAAAAAAATTT
1 CAAAAAAAATAT
96519026 CAAAAAA
1 CAAAAAA
96519033 TTTCAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAAAAATAT
Found at i:96519012 original size:22 final size:22
Alignment explanation
Indices: 96518987--96519041 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
96518977 CTTCAACAAG
96518987 AATTACAAAAAAAA-ATCAAAAA
1 AATTACAAAAAAAATATC-AAAA
* *
96519009 AATTATAAAAAAAATTTCAAAA
1 AATTACAAAAAAAATATCAAAA
*
96519031 AATTTCAAAAA
1 AATTACAAAAA
96519042 TTCTAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
AATTACAAAAAAAATATCAAAA
Found at i:96519043 original size:9 final size:10
Alignment explanation
Indices: 96519017--96519041 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
96519007 AAAATTATAA
96519017 AAAAAATTTC
1 AAAAAATTTC
96519027 AAAAAATTTC
1 AAAAAATTTC
96519037 AAAAA
1 AAAAA
96519042 TTCTAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:96522134 original size:13 final size:13
Alignment explanation
Indices: 96522116--96522140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96522106 TAATATATTT
96522116 ATTAATTAAAAAC
1 ATTAATTAAAAAC
96522129 ATTAATTAAAAA
1 ATTAATTAAAAA
96522141 AACTTGAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:96523275 original size:7 final size:7
Alignment explanation
Indices: 96523263--96523287 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96523253 ATTTGTATGA
96523263 ATGAAAT
1 ATGAAAT
96523270 ATGAAAT
1 ATGAAAT
96523277 ATGAAAT
1 ATGAAAT
96523284 ATGA
1 ATGA
96523288 TGATTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
ATGAAAT
Found at i:96524838 original size:144 final size:144
Alignment explanation
Indices: 96524577--96524862 Score: 518
Period size: 144 Copynumber: 2.0 Consensus size: 144
96524567 AACTCTGACC
96524577 CTTCCTATTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
1 CTTCCTATTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
* *
96524642 GAAGACCACCCTTGTCACTAACCAGTGCTGCATGGCATATAACATCTCCCGTTGCTACATAAGCA
66 GAAGACCACCCTTGTCACTAACCAGTACTACATGGCATATAACATCTCCCGTTGCTACATAAGCA
*
96524707 TTATCACTTCCATA
131 TTATCACCTCCATA
*
96524721 CTTCCTCTTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
1 CTTCCTATTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
* *
96524786 GAAGACCACCCTTGTTACTAACCAGTACTACATGGCATATAACATCTTCCGTTGCTACATAAGCA
66 GAAGACCACCCTTGTCACTAACCAGTACTACATGGCATATAACATCTCCCGTTGCTACATAAGCA
96524851 TTATCACCTCCA
131 TTATCACCTCCA
96524863 AACATAGACA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 136 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (144 bp):
CTTCCTATTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
GAAGACCACCCTTGTCACTAACCAGTACTACATGGCATATAACATCTCCCGTTGCTACATAAGCA
TTATCACCTCCATA
Found at i:96524915 original size:19 final size:19
Alignment explanation
Indices: 96524887--96524933 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
96524877 CTGACCAGGG
* *
96524887 CATAACTCTGAGTTATGGC
1 CATAAATCTGACTTATGGC
96524906 CATAAATCTGACTTATGGC
1 CATAAATCTGACTTATGGC
96524925 CATAAATCT
1 CATAAATCT
96524934 CGTACTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (19 bp):
CATAAATCTGACTTATGGC
Found at i:96536527 original size:13 final size:13
Alignment explanation
Indices: 96536509--96536533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96536499 GGCCACAATG
96536509 TTGAAAGTAATTA
1 TTGAAAGTAATTA
96536522 TTGAAAGTAATT
1 TTGAAAGTAATT
96536534 TTTTAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGAAAGTAATTA
Found at i:96537288 original size:168 final size:171
Alignment explanation
Indices: 96537075--96537405 Score: 429
Period size: 170 Copynumber: 1.9 Consensus size: 171
96537065 TATAAAATGT
* **
96537075 ATAAACATCAATCAAGGATTTTCTAAAGAAAATACCAAAAGAAATTATTTTGCTTT-CATTTTTT
1 ATAAACATCAATCAAGAATTTTCTAAAGAAAATACCAAAAGAAATTATTTCCCTTTCCATTTTTT
* * * *
96537139 GTCATTTAAGTATAATTTTATA-AAAAATCTGATTTTATATTCATCATATCAA-AAGATTCACCT
66 GTCATTTAAGTAGAACTTTACAGAAAAATCTGATTTTATATTCATCATATAAATAAG-TTCACCT
* * *
96537202 AAAATAGGGTATAAACTTTTTCA-AAAAAAAAAGAAGAAGAC
130 AAAAAAAGGTATAAACATTTTCACAAAAAAAAAGAAGAAGAC
* *
96537243 ATAAACATCAATCAAGAATTTTCTGAAGAAAAATACC-AAAGAAATTATTTCCCTTTCCTTTTTT
1 ATAAACATCAATCAAGAATTTTCTAAAG-AAAATACCAAAAGAAATTATTTCCCTTTCCATTTTT
** * * * * *
96537307 TGTCATTTACTTCGAACTTTACAGAACAATTTGATTTTATGTTCATCATATAAATAAGTTCTCCT
65 TGTCATTTAAGTAGAACTTTACAGAAAAATCTGATTTTATATTCATCATATAAATAAGTTCACCT
96537372 AAAAAAAGGTATAAACATTTTCACCAAAAAAAAA
130 AAAAAAAGGTATAAACATTTTCA-CAAAAAAAAA
96537406 TATAAATATC
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
168 43 0.31
169 31 0.22
170 52 0.38
171 3 0.02
172 9 0.07
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (171 bp):
ATAAACATCAATCAAGAATTTTCTAAAGAAAATACCAAAAGAAATTATTTCCCTTTCCATTTTTT
GTCATTTAAGTAGAACTTTACAGAAAAATCTGATTTTATATTCATCATATAAATAAGTTCACCTA
AAAAAAGGTATAAACATTTTCACAAAAAAAAAGAAGAAGAC
Found at i:96538847 original size:3 final size:3
Alignment explanation
Indices: 96538839--96538868 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
96538829 TATTCCAATG
96538839 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
96538869 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:96539652 original size:105 final size:105
Alignment explanation
Indices: 96539461--96539666 Score: 349
Period size: 105 Copynumber: 2.0 Consensus size: 105
96539451 AAAATTTTTC
* *
96539461 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGGT
1 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
* * *
96539526 TTCTTGTTCGACCAAATAGCCAAATATCCTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAACTTT
*
96539566 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
96539631 TTCTCGTTCGACTAAACAGCCAAATATCCTCTTAAA
66 TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAA
96539667 GCTTCAAAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 94 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (105 bp):
TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAACTTT
Found at i:96550121 original size:1 final size:1
Alignment explanation
Indices: 96550115--96550146 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
96550105 TACTTTGCCT
96550115 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
96550147 GGGAGAGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:96551128 original size:44 final size:43
Alignment explanation
Indices: 96551056--96551845 Score: 682
Period size: 44 Copynumber: 18.3 Consensus size: 43
96551046 GATTGAAGTC
* * *
96551056 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCG-GAAGTAGATCG
* * * * *
96551100 AAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGGAAGTAGATCG
* *
96551144 AAGATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CG-GAAGTAGATCG
* * * * * * *
96551188 AAGATTGCAGATCTTGCCTTCCTGTATTGGCAGCAAAGCAGGTTG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGC-G-GAAGTAGATCG
* * * ** * ** *
96551233 AAGATGGCGGATTTTACCTCCCTGATA-CAGTGGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCT-ATATTGGCGGAAGTAGATCG
*
96551276 AAGAT-GCAGATC-TGTCTTCC-ATATTGGTGGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGGAAGTAGATCG
*
96551316 AAGA-AGCAGATCTTGTCTT-C-ATATTGGTGGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGGAAGTAGATCG
* * *
96551356 AAGATAGCAGATC-TATCTTCCTATATTGGTAGGAAAT-GATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGGAAGTAGATCG
*
96551398 AAGAT-GCAGATCTTGTCTTCC-ATATTGGTGGGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGGAAGTAGATCG
* *
96551440 AAGA-AGCAGATCTTGTCTTCATGTATTGGCGGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGGAAGTAGATCG
* * * * * *
96551482 AAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGGAAGTAGATCG
*
96551526 AAGAT-GCAGATCTTGTCTTCC-ATATTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CG-GAAGTAGATCG
* *
96551569 AAGA-AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCG-GAAGTAGATCG
* * * * * *
96551612 AAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGGAAGTAGATCG
* *
96551656 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC-
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CG-GAAGTAGATCG
* * *
96551699 AAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCG-GAAGTAGATCG
* * * * * *
96551743 AAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGGAAGTAGATCG
* * * *
96551787 AAGATA-CAAATCTTGTCTTCCCATACTGGTGGTAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGG--AAGTAGATCG
*
96551831 AAGAAAGCAGATCTT
1 AAGATAGCAGATCTT
96551846 ATCCCTGTAT
Statistics
Matches: 605, Mismatches: 111, Indels: 59
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.00
40 55 0.09
41 40 0.07
42 80 0.13
43 176 0.29
44 191 0.32
45 58 0.10
46 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
AAGATAGCAGATCTTGTCTTCCTATATTGGCGGAAGTAGATCG
Found at i:96551756 original size:131 final size:130
Alignment explanation
Indices: 96551060--96551845 Score: 1148
Period size: 131 Copynumber: 6.1 Consensus size: 130
96551050 GAAGTCAAGA
* *
96551060 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTAT
* *
96551125 ATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAA
66 ATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTT-CCATATTGGTGGCGAAGTAGATCGAA
96551190 G
130 G
* * * ** * * * * * ** * *
96551191 ATTGCAGATCTTGCCTTCCTGTATTGGCAGCAAAGCAGGTTGAAGATGGCGGATTTTACCTCCCT
1 A-AGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCT
** * *
96551256 GATA-CAGT-GGAAGTAGATCGAAGATGCAGATC-TGTCTTCCATATTGGT-G-GAAGTAGATCG
64 -ATATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCATATTGGTGGCGAAGTAGATCG
96551316 AAG
128 AAG
* *
96551319 AAGCAGATCTTGTCTTCA--TATTGGTG-GAAGTAGATCGAAGATAGCAGAT-CTATCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTAT
96551380 ATTGGTAGGAAAT-GATCGAAGATGCAGATCTTGTCTTCCATATTGGTGG-GAAGTAGATCGAAG
66 ATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCATATTGGTGGCGAAGTAGATCGAAG
96551443 AAGCAGATCTTGTCTTCATGTATTGGCG-GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTAT
96551507 ATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCATATTGGTGGCGAAGTAGATCGAAG
66 ATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCATATTGGTGGCGAAGTAGATCGAAG
96551572 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTAT
1 AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTAT
96551637 ATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC-AA
66 ATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTT-CCATATTGGTGGCGAAGTAGATCGAA
96551701 G
130 G
96551702 AGAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTA
1 A-AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTA
* * * **
96551767 TATTGGTAGGAAATGGATCGAAGATACAAATCTTGTCTTCCCATACTGGTGGTAAAGTAGATCGA
65 TATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTT-CCATATTGGTGGCGAAGTAGATCGA
96551832 AG
129 AG
96551834 AAAGCAGATCTT
1 -AAGCAGATCTT
96551846 ATCCCTGTAT
Statistics
Matches: 596, Mismatches: 42, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
121 3 0.01
122 26 0.04
123 38 0.06
124 34 0.06
125 6 0.01
126 29 0.05
127 39 0.07
128 51 0.09
129 43 0.07
130 88 0.15
131 151 0.25
132 58 0.10
133 27 0.05
134 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (130 bp):
AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCTGATCCTATCTTCCTAT
ATTGGTAGGAAATGGATCGAAGATGCAGATCTTGTCTTCCATATTGGTGGCGAAGTAGATCGAAG
Found at i:96553735 original size:3 final size:3
Alignment explanation
Indices: 96553727--96553756 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
96553717 TATTCCAATG
96553727 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
96553757 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:96554540 original size:105 final size:105
Alignment explanation
Indices: 96554349--96554554 Score: 349
Period size: 105 Copynumber: 2.0 Consensus size: 105
96554339 AAAATTTTTC
* *
96554349 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGGT
1 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
* * *
96554414 TTCTTGTTCGACCAAATAGCCAAATATCCTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAACTTT
*
96554454 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
96554519 TTCTCGTTCGACTAAACAGCCAAATATCCTCTTAAA
66 TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAA
96554555 GCTTCAAAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 94 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (105 bp):
TAAATAAAGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAACTTT
Found at i:96555173 original size:15 final size:15
Alignment explanation
Indices: 96555153--96555193 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
96555143 TATTTCTTTG
96555153 TTTATTTTTTTCATT
1 TTTATTTTTTTCATT
* *
96555168 TTTATTTATTTCCTT
1 TTTATTTTTTTCATT
96555183 TCTTATTTTTT
1 T-TTATTTTTT
96555194 CGAATTACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTTTCATT
Found at i:96555887 original size:15 final size:16
Alignment explanation
Indices: 96555867--96555901 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
96555857 TTGAGTTTTA
96555867 TATTTACTATTA-TAT
1 TATTTACTATTAGTAT
*
96555882 TATTTATTATTAGTAT
1 TATTTACTATTAGTAT
96555898 TATT
1 TATT
96555902 ATTTTCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (16 bp):
TATTTACTATTAGTAT
Found at i:96555891 original size:3 final size:3
Alignment explanation
Indices: 96555874--96555953 Score: 51
Period size: 3 Copynumber: 27.0 Consensus size: 3
96555864 TTATATTTAC
* * * *
96555874 TAT TA- TAT TATT TAT TAT TAG TAT TAT TAT T-T TCAT TAT AAC TGT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
* *
96555919 CAT CAT TAT TAT TAT T-T TATT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
96555954 ACTATTATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
2 8 0.13
3 44 0.73
4 8 0.13
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:96555898 original size:9 final size:8
Alignment explanation
Indices: 96555874--96555962 Score: 51
Period size: 9 Copynumber: 10.9 Consensus size: 8
96555864 TTATATTTAC
96555874 TATTATAT
1 TATTATAT
96555882 TATT-TAT
1 TATTATAT
96555889 TATTAGTAT
1 TATTA-TAT
*
96555898 TATTATTT
1 TATTATAT
*
96555906 TCATTATAAC
1 T-ATTAT-AT
* *
96555916 TGTCATCAT
1 TATTAT-AT
96555925 TATTATTAT
1 TATTA-TAT
96555934 T-TTAT-T
1 TATTATAT
96555940 TATTATTAT
1 TATTA-TAT
*
96555949 T-TTATAC
1 TATTATAT
96555956 TATTATA
1 TATTATA
96555963 AGCATTATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
6 2 0.03
7 14 0.23
8 19 0.31
9 25 0.40
10 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (8 bp):
TATTATAT
Found at i:96555942 original size:15 final size:15
Alignment explanation
Indices: 96555924--96555953 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
96555914 ACTGTCATCA
96555924 TTATTATTATTTTAT
1 TTATTATTATTTTAT
96555939 TTATTATTATTTTAT
1 TTATTATTATTTTAT
96555954 ACTATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTATTATTTTAT
Found at i:96556104 original size:21 final size:21
Alignment explanation
Indices: 96556075--96556132 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
96556065 AATGCATTAA
*
96556075 TATTATTATCTTTTA-TTTTGT
1 TATTATTAT-TATTATTTTTGT
*
96556096 TATTGTTATTATTATTTTTGT
1 TATTATTATTATTATTTTTGT
* *
96556117 TACTATAATTATTATT
1 TATTATTATTATTATT
96556133 ATCATACTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (21 bp):
TATTATTATTATTATTTTTGT
Found at i:96556419 original size:3 final size:3
Alignment explanation
Indices: 96556411--96556455 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
96556401 GACTTTGTCA
96556411 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96556456 CATCATCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:96558796 original size:19 final size:20
Alignment explanation
Indices: 96558755--96558799 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
96558745 CGTCTCTTTG
*
96558755 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCATGCATA
*
96558774 TGCATTGCATTTCAT-TATA
1 TGCATTGCATTTCATGCATA
96558793 TGCATTG
1 TGCATTG
96558800 AATATCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.44
Consensus pattern (20 bp):
TGCATTGCATTTCATGCATA
Found at i:96560600 original size:15 final size:15
Alignment explanation
Indices: 96560580--96560630 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 15
96560570 TCTAATAATT
96560580 AATAATTTTAATAGA
1 AATAATTTTAATAGA
96560595 AATAA-TTTAATA-A
1 AATAATTTTAATAGA
*
96560608 AATGATATTTTGGATAGA
1 AAT-A-ATTTT-AATAGA
96560626 AATAA
1 AATAA
96560631 AATGGGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 4 0.13
14 8 0.27
15 6 0.20
16 4 0.13
17 4 0.13
18 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AATAATTTTAATAGA
Found at i:96561495 original size:18 final size:18
Alignment explanation
Indices: 96561472--96561508 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
96561462 GGATTGATGG
96561472 GGTTCCTGAATCGGTGAA
1 GGTTCCTGAATCGGTGAA
96561490 GGTTCCTGAATCGGTGAA
1 GGTTCCTGAATCGGTGAA
96561508 G
1 G
96561509 AAGATGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (18 bp):
GGTTCCTGAATCGGTGAA
Found at i:96570261 original size:105 final size:105
Alignment explanation
Indices: 96570092--96570303 Score: 397
Period size: 105 Copynumber: 2.0 Consensus size: 105
96570082 CATAAATAAT
* *
96570092 GAAGCTTCTGACTGTAGCAAAAATGGAAGAAACACGAAAACAAAACAATAAAACACAGAGTAGGT
1 GAAGCTTCTGAATGTAGCAAAAATGGAAGAAACACGAAAACAAAACAATAAAACACAGAATAGGT
96570157 AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
66 AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
*
96570197 GAAGCTTCTGAATGTAGCAAAAATGGAAGAAACATGAAAACAAAACAATAAAACACAGAATAGGT
1 GAAGCTTCTGAATGTAGCAAAAATGGAAGAAACACGAAAACAAAACAATAAAACACAGAATAGGT
96570262 AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
66 AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
96570302 GA
1 GA
96570304 TATACAGTAG
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (105 bp):
GAAGCTTCTGAATGTAGCAAAAATGGAAGAAACACGAAAACAAAACAATAAAACACAGAATAGGT
AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
Found at i:96578003 original size:16 final size:17
Alignment explanation
Indices: 96577972--96578004 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96577962 TTTATAAGTA
96577972 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
96577989 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
96578005 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:96578350 original size:46 final size:46
Alignment explanation
Indices: 96578263--96578650 Score: 487
Period size: 46 Copynumber: 8.5 Consensus size: 46
96578253 CGTCTCCCAT
* * * * *
96578263 CCATGGTCTTATTTATCTT--TGACATGATGCCATAGTGTCTTTCAA
1 CCATGGTCTTATTCAT-TTCATGTCATGTTGCCATGGTATCTTTCAA
* ** **
96578308 CTATGGTCTTACGCATTTTTTGTCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
* * *
96578354 CCATGGTCTTATTCATTTCATTTCACGCTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
* *
96578400 CTATGGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCGTTCAA
1 CCATGGTCTTATTCA-TTTCATGTCATGTTGCCATGGTATCTTTCAA
*
96578446 CCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
*
96578492 CCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
* *
96578538 CCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
* ** * *
96578584 CCATAGTCTTACACATTTCATATCAGGTCT-CCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGT-TGCCATGGTATCTTTCAA
**
96578630 CCATGGTCTTACACATTTCAT
1 CCATGGTCTTATTCATTTCAT
96578651 ATCAGAGAGC
Statistics
Matches: 304, Mismatches: 34, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
44 2 0.01
45 16 0.05
46 281 0.92
47 5 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
Found at i:96583440 original size:12 final size:12
Alignment explanation
Indices: 96583425--96583449 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96583415 AAATATAGGG
96583425 AAATATATATAT
1 AAATATATATAT
96583437 AAATATATATAT
1 AAATATATATAT
96583449 A
1 A
96583450 TAACCTCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATATATAT
Found at i:96584544 original size:22 final size:21
Alignment explanation
Indices: 96584512--96584586 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 21
96584502 ATATATCTAG
96584512 TAAA-ATATATGTGGTAAATTA
1 TAAATATATATGTGGTAAA-TA
96584533 TAAATATATA--TGGTAACATA
1 TAAATATATATGTGGTAA-ATA
* * *
96584553 -AATTATATTTTATGGTAAAATA
1 TAAATATA-TATGTGGT-AAATA
96584575 TAAATATATATG
1 TAAATATATATG
96584587 GTAATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
19 6 0.14
20 9 0.21
21 5 0.12
22 14 0.33
23 8 0.19
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (21 bp):
TAAATATATATGTGGTAAATA
Found at i:96584588 original size:20 final size:20
Alignment explanation
Indices: 96584514--96584596 Score: 87
Period size: 20 Copynumber: 4.0 Consensus size: 20
96584504 ATATCTAGTA
* *
96584514 AAATATATGTGGTAAATTAT
1 AAATATATATGGTAAAATAT
*
96584534 AAATATATATGGTAACATA-
1 AAATATATATGGTAAAATAT
*
96584553 AATTATATTTTATGGTAAAATAT
1 AA--ATA-TATATGGTAAAATAT
*
96584576 AAATATATATGGTAATATAT
1 AAATATATATGGTAAAATAT
96584596 A
1 A
96584597 TGTATGTGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.04
20 30 0.58
21 6 0.12
22 12 0.23
23 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (20 bp):
AAATATATATGGTAAAATAT
Found at i:96588821 original size:17 final size:18
Alignment explanation
Indices: 96588796--96588829 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
96588786 TAGAATTGGG
*
96588796 TTGAGAAAATT-ATTTAA
1 TTGAAAAAATTAATTTAA
96588813 TTGAAAAAATTAATTTA
1 TTGAAAAAATTAATTTA
96588830 TCTAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTGAAAAAATTAATTTAA
Found at i:96589681 original size:11 final size:11
Alignment explanation
Indices: 96589665--96589705 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
96589655 TTTTTCCTTT
*
96589665 AATCAAACAAG
1 AATCAAGCAAG
96589676 AATCAAGCTAA-
1 AATCAAGC-AAG
96589687 AATCAAGCAAG
1 AATCAAGCAAG
96589698 AATCAAGC
1 AATCAAGC
96589706 TCTTTCCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 2 0.07
11 23 0.85
12 2 0.07
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (11 bp):
AATCAAGCAAG
Found at i:96589697 original size:22 final size:22
Alignment explanation
Indices: 96589665--96589706 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
96589655 TTTTTCCTTT
96589665 AATCAAACAAGAATCAAGCTAA
1 AATCAAACAAGAATCAAGCTAA
*
96589687 AATCAAGCAAGAATCAAGCT
1 AATCAAACAAGAATCAAGCT
96589707 CTTTCCACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.19, G:0.12, T:0.14
Consensus pattern (22 bp):
AATCAAACAAGAATCAAGCTAA
Found at i:96593975 original size:64 final size:64
Alignment explanation
Indices: 96593874--96594058 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 64
96593864 AGTAACTTCG
** * * * * *
96593874 CATATACTCATTGACAAGCTAATGTTCTTAAAGACAAAAGAAAATGTAAGAGATGACATATTAA
1 CATATACTTGTTGACAAGCTAATGTTATTGAAGACAAAAGAAAGTGCAAGAGAGGACATATTAA
* * *
96593938 CATATGCTTGTTGACAAGCTAATGTTATTGAAGACAAAAGAAAGTGCAAGAGAGGACTTATTCA
1 CATATACTTGTTGACAAGCTAATGTTATTGAAGACAAAAGAAAGTGCAAGAGAGGACATATTAA
* *
96594002 CATATACTTGTTGACAAGCTAATGTCATTGAAGAAAAAAGAAAGTGCAAGAGAGGAC
1 CATATACTTGTTGACAAGCTAATGTTATTGAAGACAAAAGAAAGTGCAAGAGAGGAC
96594059 CTATGTATTA
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 108 1.00
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.25
Consensus pattern (64 bp):
CATATACTTGTTGACAAGCTAATGTTATTGAAGACAAAAGAAAGTGCAAGAGAGGACATATTAA
Found at i:96595333 original size:24 final size:25
Alignment explanation
Indices: 96595277--96595339 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
96595267 CAGACACACC
* * * *
96595277 ACAGCTCGCATGAGTTTTCGATTAT
1 ACAGCTCACATGAGCTTCCCATTAT
*
96595302 ATAGCTCACATGAGCTTCCCATT-T
1 ACAGCTCACATGAGCTTCCCATTAT
*
96595326 ACAGCTCATATGAG
1 ACAGCTCACATGAG
96595340 TATACAAGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (25 bp):
ACAGCTCACATGAGCTTCCCATTAT
Found at i:96599428 original size:26 final size:26
Alignment explanation
Indices: 96599391--96599525 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
96599381 TGATACAAAT
* *
96599391 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96599417 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
96599443 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
96599468 TGATAATGGGTTAGGTAAAGGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96599494 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96599520 TGATAA
1 TGATAA
96599526 GAATATCATG
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:96599492 original size:51 final size:51
Alignment explanation
Indices: 96599391--96599525 Score: 234
Period size: 51 Copynumber: 2.6 Consensus size: 51
96599381 TGATACAAAT
*
96599391 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAAGGTTTCA
96599443 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAAGGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAAGGTTTCA
*
96599494 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATG-TTCATGATAA
96599526 GAATATCATG
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
51 47 0.59
52 33 0.41
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.36
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAAGGTTTCA
Found at i:96601160 original size:27 final size:27
Alignment explanation
Indices: 96601119--96601239 Score: 161
Period size: 27 Copynumber: 4.4 Consensus size: 27
96601109 GAGGAAGCGT
*
96601119 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
96601146 TCTGGTGGCTCTGCCATAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
96601173 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
96601200 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
96601228 TCTGGTGACTCT
1 TCTGGTGGCTCT
96601240 ATCACATTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 70 0.86
28 11 0.14
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:96601248 original size:27 final size:27
Alignment explanation
Indices: 96601119--96601253 Score: 141
Period size: 27 Copynumber: 5.0 Consensus size: 27
96601109 GAGGAAGCGT
* *
96601119 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* * *
96601146 TCTGGTGGCTCTGCCATAAATATTTG-A
1 TCTGGTGGCTCTGCCA-CATTATCTGTA
96601173 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
96601200 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* **
96601228 TCTGGTGACTCTATCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGT
96601254 TTTGGCAGCC
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
26 1 0.01
27 77 0.82
28 16 0.17
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:96602242 original size:16 final size:16
Alignment explanation
Indices: 96602221--96602252 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
96602211 AATGGGTTTA
*
96602221 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
96602237 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
96602253 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:96605209 original size:26 final size:26
Alignment explanation
Indices: 96605122--96605255 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
96605112 TGATACAAAT
96605122 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
96605148 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
96605172 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
96605198 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
96605224 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
96605250 TGATAA
1 TGATAA
96605256 GAATATCATG
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 9 0.09
25 30 0.29
26 65 0.62
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:96606886 original size:27 final size:27
Alignment explanation
Indices: 96606839--96606978 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 27
96606829 GAGGAAGCGT
* *
96606839 TCTGGTGGCTATGGCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
96606866 TCTGGTGGCTCTACCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
96606893 TCTGGTGGCTCTGCTACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
96606920 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
96606948 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
96606974 TCTGG
1 TCTGG
96606979 CAGCCATGCT
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
26 5 0.05
27 75 0.79
28 15 0.16
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:96606924 original size:54 final size:55
Alignment explanation
Indices: 96606839--96606978 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 55
96606829 GAGGAAGCGT
* * * *
96606839 TCTGGTGGCTATGGC-ACAAATATCTGATCTGGTGGCTCTACCATAAATATCTG-A
1 TCTGGTGGCTCT-GCTACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTA
* * *
96606893 TCTGGTGGCTCTGCTACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCTACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTA
*
96606948 TCTGGTGACTCTG-TCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCT-ACATATATCTGTTCTGG
96606979 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
53 2 0.03
54 56 0.75
55 17 0.23
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCTACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTA
Found at i:96608178 original size:18 final size:18
Alignment explanation
Indices: 96608133--96608168 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
96608123 AGGAAAAACA
96608133 ACCATATAAGCAACTAAT
1 ACCATATAAGCAACTAAT
96608151 ACCATATAAGCAACTAAT
1 ACCATATAAGCAACTAAT
96608169 GCTTAGTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (18 bp):
ACCATATAAGCAACTAAT
Found at i:96615938 original size:7 final size:7
Alignment explanation
Indices: 96615926--96615982 Score: 96
Period size: 7 Copynumber: 8.0 Consensus size: 7
96615916 AATCTAAATC
96615926 AAACCCT
1 AAACCCT
96615933 AAACCCT
1 AAACCCT
*
96615940 AAACTCT
1 AAACCCT
96615947 AAACCCT
1 AAACCCT
96615954 AAACCCT
1 AAACCCT
96615961 AAACCCT
1 AAACCCT
96615968 AAAACCCT
1 -AAACCCT
96615976 AAACCCT
1 AAACCCT
96615983 GAAGAATATC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
7 40 0.85
8 7 0.15
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:96615951 original size:21 final size:21
Alignment explanation
Indices: 96615919--96615982 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
96615909 GCCTAAGAAT
96615919 CTAAA-TC-AAACCCTAAACC
1 CTAAACTCTAAACCCTAAACC
96615938 CTAAACTCTAAACCCTAAACC
1 CTAAACTCTAAACCCTAAACC
*
96615959 CTAAACCCTAAAACCCTAAACC
1 CTAAACTCT-AAACCCTAAACC
96615981 CT
1 CT
96615983 GAAGAATATC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
19 5 0.12
20 2 0.05
21 20 0.49
22 14 0.34
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (21 bp):
CTAAACTCTAAACCCTAAACC
Found at i:96617154 original size:31 final size:32
Alignment explanation
Indices: 96617113--96617178 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
96617103 TTTAAATTAA
*
96617113 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
96617144 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
96617178 T
1 T
96617179 ATTTAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:96620079 original size:61 final size:62
Alignment explanation
Indices: 96619946--96620080 Score: 143
Period size: 60 Copynumber: 2.2 Consensus size: 62
96619936 ACTGGGCGTA
* * *
96619946 AGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATATGGGCCAT
1 AGCCCTATTACA-AAATCAGAGTTAACTGGGCCTTAGACCATATCAATATCAATATAGGCCAT
* * * * * *
96620008 AGCCC-CTTACAATATCAGAG-TATACTGGGCC-TAGACCATATCAGTGTCAATCTAGGCCGT
1 AGCCCTATTACAAAATCAGAGTTA-ACTGGGCCTTAGACCATATCAATATCAATATAGGCCAT
96620068 AGCCCTATTACAA
1 AGCCCTATTACAA
96620081 GTCGAGATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
60 29 0.48
61 24 0.40
62 7 0.12
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (62 bp):
AGCCCTATTACAAAATCAGAGTTAACTGGGCCTTAGACCATATCAATATCAATATAGGCCAT
Found at i:96620144 original size:19 final size:20
Alignment explanation
Indices: 96620101--96620146 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
96620091 GTTGGGTCTT
96620101 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
96620121 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
96620140 GCCCATA
1 GCCCATA
96620147 ACAAAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:96621941 original size:104 final size:104
Alignment explanation
Indices: 96621823--96622031 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
96621813 CTTAAGCTCT
96621823 ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACACGCTTACCTTGTGACTTGAAC
1 ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACACGCTTACCTTGTGACTTGAAC
96621888 TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
66 TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
*
96621927 ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACATGCTTACCTTGTGACTTGAAC
1 ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACACGCTTACCTTGTGACTTGAAC
96621992 TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
66 TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
96622031 A
1 A
96622032 CCTAGGTGGC
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.20
Consensus pattern (104 bp):
ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACACGCTTACCTTGTGACTTGAAC
TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
Found at i:96622440 original size:46 final size:46
Alignment explanation
Indices: 96622390--96622599 Score: 332
Period size: 46 Copynumber: 4.6 Consensus size: 46
96622380 AAATGTCTAC
* *
96622390 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGTAA
*
96622436 GACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGTAA
*
96622482 GACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGCAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGTAA
*
96622528 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAGTGAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA-TGAGTAA
* * *
96622574 GACCATAGTTGAAAGACACTATGGCA
1 GACCATGGTTGAAAGATACCATGGCA
96622600 TCATGTCGAA
Statistics
Matches: 153, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.03
46 149 0.97
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.20
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGTAA
Found at i:96622745 original size:26 final size:26
Alignment explanation
Indices: 96622688--96622782 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 26
96622678 TCAAATGATG
* *
96622688 AATGGTTTTATGAATTGGTTATACAA
1 AATGGTTGTATGAAATGGTTATACAA
96622714 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTGTATGAAATGGTTATACAA
** * *
96622738 TAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTGTAT-GAAATGGT-TATACAA
*
96622767 AATAGTTGTATGAAAT
1 AATGGTTGTATGAAAT
96622783 AATTAAGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (26 bp):
AATGGTTGTATGAAATGGTTATACAA
Found at i:96624976 original size:5 final size:5
Alignment explanation
Indices: 96624947--96624996 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
96624937 TATAAATTTA
* * *
96624947 ATTAT GTTAA ATTAT AATA- ATTAT ATTAT AATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT ATTAT ATTAT
96624997 GAAATAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (5 bp):
ATTAT
Found at i:96625414 original size:3 final size:3
Alignment explanation
Indices: 96625397--96625436 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
96625387 AAATAAATAT
96625397 TTA TTA -TA TTA -TA TTA TTTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
96625437 GTTAACTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:96626344 original size:21 final size:21
Alignment explanation
Indices: 96626318--96626424 Score: 110
Period size: 21 Copynumber: 5.1 Consensus size: 21
96626308 GGCTTTGCCG
96626318 ATCAGGCACTTTCTGTGTCGT
1 ATCAGGCACTTTCTGTGTCGT
*
96626339 ATCAGGCAC-CTCGTGTGTCGT
1 ATCAGGCACTTTC-TGTGTCGT
* * * *
96626360 TTCAAGCACTTTATGTGTCGC
1 ATCAGGCACTTTCTGTGTCGT
*
96626381 ATCAGGCAC-CTCGTGTGTCGT
1 ATCAGGCACTTTC-TGTGTCGT
* *
96626402 TTCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTCTGTGTCGT
96626423 AT
1 AT
96626425 ATTGCTTTTG
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.04
21 62 0.93
22 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTTCTGTGTCGT
Found at i:96626385 original size:42 final size:42
Alignment explanation
Indices: 96626323--96626421 Score: 171
Period size: 42 Copynumber: 2.4 Consensus size: 42
96626313 TGCCGATCAG
* *
96626323 GCACTTTCTGTGTCGTATCAGGCACCTCGTGTGTCGTTTCAA
1 GCACTTTATGTGTCGCATCAGGCACCTCGTGTGTCGTTTCAA
*
96626365 GCACTTTATGTGTCGCATCAGGCACCTCGTGTGTCGTTTCAG
1 GCACTTTATGTGTCGCATCAGGCACCTCGTGTGTCGTTTCAA
96626407 GCACTTTATGTGTCG
1 GCACTTTATGTGTCG
96626422 TATATTGCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.35
Consensus pattern (42 bp):
GCACTTTATGTGTCGCATCAGGCACCTCGTGTGTCGTTTCAA
Found at i:96627319 original size:14 final size:13
Alignment explanation
Indices: 96627300--96627329 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
96627290 TTATGTGTTC
96627300 TTTATTTTATTTAT
1 TTTATTTTATTT-T
96627314 TTTATTTTATTTT
1 TTTATTTTATTTT
96627327 TTT
1 TTT
96627330 CACAAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:96631718 original size:14 final size:13
Alignment explanation
Indices: 96631699--96631728 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
96631689 TTGTGTGTTC
96631699 TTTATTTTATTTAT
1 TTTATTTTATTT-T
96631713 TTTATTTTATTTT
1 TTTATTTTATTTT
96631726 TTT
1 TTT
96631729 CACAGATACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:96639928 original size:24 final size:24
Alignment explanation
Indices: 96639895--96639961 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
96639885 TACATCATAG
96639895 AATACGCCACAAAGGCAATTACAA
1 AATACGCCACAAAGGCAATTACAA
* * * *
96639919 AATACACCACAGAGGCATTTACAG
1 AATACGCCACAAAGGCAATTACAA
96639943 AATACGCCACAAAGGCAAT
1 AATACGCCACAAAGGCAAT
96639962 CATAGATAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.25, G:0.15, T:0.13
Consensus pattern (24 bp):
AATACGCCACAAAGGCAATTACAA
Found at i:96642879 original size:60 final size:60
Alignment explanation
Indices: 96642813--96642933 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
96642803 AAAACGCACT
96642813 TTGAATCACTCAATTTCGAGTCTAAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
1 TTGAATCACTCAATTTCGAGTCTAAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
*
96642873 TTGAATCACTCAATTTCGAGTCTGAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
1 TTGAATCACTCAATTTCGAGTCTAAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
96642933 T
1 T
96642934 GAGCAGAATC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (60 bp):
TTGAATCACTCAATTTCGAGTCTAAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
Found at i:96648003 original size:23 final size:23
Alignment explanation
Indices: 96647954--96648023 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
96647944 AAATGTAAAA
* *
96647954 AAAATTATATATAATAATTATAG
1 AAAATTAAAAATAATAATTATAG
* * *
96647977 AAAATTAAAAATAATATTTTTAT
1 AAAATTAAAAATAATAATTATAG
*
96648000 AAAATTTTAAAATATATAATTATA
1 AAAA-TTAAAAATA-ATAATTATA
96648024 AATTTTTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 22 0.59
24 8 0.22
25 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (23 bp):
AAAATTAAAAATAATAATTATAG
Found at i:96648024 original size:23 final size:23
Alignment explanation
Indices: 96647962--96648030 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
96647952 AAAAAATTAT
* *
96647962 ATATAATAATTATAGAAAATTAAAA
1 ATAT-ATAATTATA-AAATTTTAAA
**
96647987 ATAATATTTTTATAAAATTTTAAA
1 AT-ATATAATTATAAAATTTTAAA
*
96648011 ATATATAATTATAAATTTTT
1 ATATATAATTATAAAATTTT
96648031 TTATTTTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 15 0.42
24 10 0.28
25 9 0.25
26 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
ATATATAATTATAAAATTTTAAA
Found at i:96649120 original size:52 final size:52
Alignment explanation
Indices: 96649042--96649144 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
96649032 TTTCTCATTG
96649042 ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATATGATGACTAAA
1 ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATATGATGACTAAA
*
96649094 ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATGTGATGACTAA
1 ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATATGATGACTAA
96649145 CCATTTACAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (52 bp):
ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATATGATGACTAAA
Found at i:96655626 original size:27 final size:27
Alignment explanation
Indices: 96655596--96655659 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
96655586 GGTACTGTAT
96655596 TGGTAGCTTTGCCACATATACT-ATCAC
1 TGGTAGCTTTGCCACATATACTAAT-AC
*
96655623 TGGT-GTCTTTGCCACATATATTAATAC
1 TGGTAG-CTTTGCCACATATACTAATAC
*
96655650 TGGCAGCTTT
1 TGGTAGCTTT
96655660 ACTGTGTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 1 0.03
27 28 0.88
28 3 0.09
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (27 bp):
TGGTAGCTTTGCCACATATACTAATAC
Found at i:96658165 original size:73 final size:73
Alignment explanation
Indices: 96658078--96658220 Score: 268
Period size: 73 Copynumber: 2.0 Consensus size: 73
96658068 TTATCAGGGC
* *
96658078 ATCGATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCTATTTCATTCCCAACCAAA
1 ATCGATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCCATTTCATGCCCAACCAAA
96658143 TTTTGGGT
66 TTTTGGGT
96658151 ATCGATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCCATTTCATGCCCAACCAAA
1 ATCGATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCCATTTCATGCCCAACCAAA
96658216 TTTTG
66 TTTTG
96658221 ATTCAAAAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (73 bp):
ATCGATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCCATTTCATGCCCAACCAAA
TTTTGGGT
Found at i:96659060 original size:66 final size:65
Alignment explanation
Indices: 96658948--96659109 Score: 234
Period size: 66 Copynumber: 2.4 Consensus size: 65
96658938 CTTATCGATA
* * * * * *
96658948 TATTTGGCACCCAGTGTCTCATCAGATATATCGAAGTAATTTAATTGCACCCAACGCTGATTGAT
1 TATTTGGCACCCAGTG-CTCATCGGATAAATCGAAGTAAGTCAATTGCACCCAACACTCATTGAT
96659013 G
65 G
*
96659014 TATTTGGCACCAAGTGCATCATCGGATAAATCGAAGTAAGTCAATTGCACCCAACACTCATTGAT
1 TATTTGGCACCCAGTGC-TCATCGGATAAATCGAAGTAAGTCAATTGCACCCAACACTCATTGAT
96659079 G
65 G
96659080 TATTTGGCACCCAGTGCCTCATCGGATAAA
1 TATTTGGCACCCAGTG-CTCATCGGATAAA
96659110 CTGAAATTAT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 1 0.01
66 84 0.98
67 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (65 bp):
TATTTGGCACCCAGTGCTCATCGGATAAATCGAAGTAAGTCAATTGCACCCAACACTCATTGATG
Found at i:96659126 original size:29 final size:29
Alignment explanation
Indices: 96659093--96659149 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
96659083 TTGGCACCCA
*
96659093 GTGCCTCATCGGATAAACTGAAATTATTG
1 GTGCCTCATCGAATAAACTGAAATTATTG
* *
96659122 GTGCCTCATTGAATAAACTGAAGTTATT
1 GTGCCTCATCGAATAAACTGAAATTATT
96659150 CAATTACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (29 bp):
GTGCCTCATCGAATAAACTGAAATTATTG
Found at i:96661309 original size:13 final size:14
Alignment explanation
Indices: 96661293--96661334 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
96661283 TTTCAATTTT
96661293 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
96661306 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
96661321 ATTTTAAATAATAT
1 ATTTT-AATAATAT
96661335 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:96661319 original size:16 final size:16
Alignment explanation
Indices: 96661297--96661333 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
96661287 AATTTTATTT
96661297 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
96661314 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
96661329 TAATA
1 TAATA
96661334 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:96661386 original size:15 final size:15
Alignment explanation
Indices: 96661366--96661422 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
96661356 ATTCAACATT
96661366 AATATTTTAATAATA
1 AATATTTTAATAATA
*
96661381 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
96661400 AATATATTAATAATA
1 AATATTTTAATAATA
*
96661415 AATGTTTT
1 AATATTTT
96661423 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:96663017 original size:21 final size:21
Alignment explanation
Indices: 96662991--96663043 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
96662981 AACAGCGGTG
* *
96662991 GCGGTGAGATTGGTTACTGTA
1 GCGGTGAGATTGGATACTATA
96663012 GCGGTGAGATTGGATACTATA
1 GCGGTGAGATTGGATACTATA
96663033 GCGGTGAGATT
1 GCGGTGAGATT
96663044 AGAAACAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.09, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTGGATACTATA
Found at i:96665123 original size:32 final size:32
Alignment explanation
Indices: 96665056--96665214 Score: 230
Period size: 32 Copynumber: 5.0 Consensus size: 32
96665046 CATAAAAAAT
* *
96665056 ATCATACATTAGGTTTACCTAT-AAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
96665087 ATCATACATTAGTTTTGCATATAAAAAAGTAT
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
96665119 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
96665151 ATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
96665183 ATTATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
96665215 CATGGTTATA
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
31 19 0.17
32 93 0.83
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:96665166 original size:64 final size:64
Alignment explanation
Indices: 96665054--96665214 Score: 261
Period size: 64 Copynumber: 2.5 Consensus size: 64
96665044 AACATAAAAA
*
96665054 ATATCATACATTAGGTTTACCTAT-AAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
1 ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
* *
96665117 ATATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGT
1 ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
* * *
96665181 AGATTATACATTAGTTTTACATATAAAAAAGTAG
1 ATATCATACATTAGGTTTACATATAAAAAAGTAG
96665215 CATGGTTATA
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 22 0.24
64 68 0.76
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (64 bp):
ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
Found at i:96669977 original size:21 final size:21
Alignment explanation
Indices: 96669951--96670005 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
96669941 ACAGTGGTGG
*
96669951 CGGTGAGATTAGTTACTGTAA
1 CGGTGAGATTAGATACTGTAA
*
96669972 CGGTGAGATTAGATACTGTAG
1 CGGTGAGATTAGATACTGTAA
*
96669993 CAGTGAGATTAGA
1 CGGTGAGATTAGA
96670006 AACAATAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAA
Found at i:96670309 original size:14 final size:13
Alignment explanation
Indices: 96670278--96670315 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
96670268 TAGAAAAATA
*
96670278 ATAAATATTTGAT
1 ATAAATATTTTAT
96670291 A-AAATATTTTATT
1 ATAAATATTTTA-T
96670304 ATAAATATTTTA
1 ATAAATATTTTA
96670316 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 9 0.41
13 3 0.14
14 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATAAATATTTTAT
Found at i:96670809 original size:17 final size:18
Alignment explanation
Indices: 96670789--96670825 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
96670779 AACTTTTTTG
*
96670789 TTAATTTAATTATTT-AA
1 TTAATATAATTATTTGAA
96670806 TTAATATAATTATTTGAA
1 TTAATATAATTATTTGAA
96670824 TT
1 TT
96670826 GGTTATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTAATATAATTATTTGAA
Found at i:96671826 original size:21 final size:21
Alignment explanation
Indices: 96671809--96671862 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
96671799 AAGATTATTA
96671809 TTAAAAATAATTTAATTATAT
1 TTAAAAATAATTTAATTATAT
* * *
96671830 TTTAATATAATTTAATAATAT
1 TTAAAAATAATTTAATTATAT
* *
96671851 TTTAATATAATT
1 TTAAAAATAATT
96671863 ATTTTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAAAATAATTTAATTATAT
Found at i:96671857 original size:11 final size:11
Alignment explanation
Indices: 96671804--96671857 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
96671794 TTAATAAGAT
*
96671804 TATTATTAAAAA
1 TATT-TTAATAA
* *
96671816 TAATTTAATTA
1 TATTTTAATAA
96671827 TATTTTAAT-A
1 TATTTTAATAA
*
96671837 TAATTTAATAA
1 TATTTTAATAA
96671848 TATTTTAATA
1 TATTTTAATA
96671858 TAATTATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 9 0.26
11 23 0.66
12 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:96674953 original size:31 final size:31
Alignment explanation
Indices: 96674886--96674954 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
96674876 AACCATGTGA
* *
96674886 CTAAAATGAGAATAGTTTTTAACAATAGTGC
1 CTAAAATGAAAATAATTTTTAACAATAGTGC
* * ** *
96674917 TTAAAATGAAAATAATTTTTGACTGTGGTGC
1 CTAAAATGAAAATAATTTTTAACAATAGTGC
96674948 CTAAAAT
1 CTAAAAT
96674955 AGAATTTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.35
Consensus pattern (31 bp):
CTAAAATGAAAATAATTTTTAACAATAGTGC
Found at i:96680132 original size:17 final size:17
Alignment explanation
Indices: 96680110--96680142 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
96680100 AAAACACATC
96680110 AATATGT-TATTATATAT
1 AATATGTGT-TTATATAT
96680127 AATATGTGTTTATATA
1 AATATGTGTTTATATA
96680143 AAACTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
AATATGTGTTTATATAT
Found at i:96687661 original size:21 final size:21
Alignment explanation
Indices: 96687637--96687676 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96687627 TCAATCCTCA
* *
96687637 ATTTCCAATTTTCTATTTTCT
1 ATTTCCAATCTTCAATTTTCT
*
96687658 ATTTTCAATCTTCAATTTT
1 ATTTCCAATCTTCAATTTT
96687677 TAATCCTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTCCAATCTTCAATTTTCT
Found at i:96705471 original size:44 final size:45
Alignment explanation
Indices: 96705422--96705987 Score: 245
Period size: 44 Copynumber: 12.5 Consensus size: 45
96705412 CTTATCTCTT
**
96705422 TGAAGTTGCAGTGGAGCAAGA-TGAAGCTACAAATCCTATATCCC
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCTATATCCC
* * * *
96705466 TGAAGTTGCAGTGGA-TTAGATTAAAGATACAATTCTTATA-CCTC
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCTATATCC-C
** * *
96705510 TGAAGTTGGGGTGG-GTTAGAATGAAGCTACAACAACAAATCT-TATCTCTC
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAA-ATC----CTATATC-C-C
* * *
96705560 TGAAGTTGTAGTGGAG-TAGACTGAAGCTACAAAT-CTCATCTCCC
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCT-ATATCCC
* * * * * *
96705604 TGAAGTTACAATGGAG-TAGATTGAA-ATAACAAATCTTATCTCCT
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCT-ACAAATCCTATATCCC
* * ** * *
96705648 TGAAGTTGTAGTGGAGTAAGA-CAAAGCTACAATTCCTATACCCC
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCTATATCCC
** * ** * **
96705692 TGAAGTTATAGTGG-GTTTGATTGAATTTATTATAGTAAAACT-TATCTCC
1 TGAAGTTGCAGTGGAGTTAGATTGAA---GCTACA--AATCCTATATC-CC
* ** *
96705741 TTCAAGTTGCAGTGGAGCGAGA-TGAAGTTACAAATCCTATATCCC
1 -TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCTATATCCC
* * * * *
96705786 TGAAGTTGTAGTGGA-TCAGATTAAAGCTACAATTCCTATACCCC
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCTATATCCC
** * * * *
96705830 TGAAGTTGTGGTGCA-TTAGAATGAATCTACAACAACAAATCT-TATCTCC
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAA-ATC----CTATATC-CC
* * * * *
96705879 TTAAAGTTGTAGTGAAG-TAGATTGAATCTACAAAT-CTCATCTCCC
1 -TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCT-ATATCCC
* * * *
96705924 TAAAGTTGCAGTGGAG-TAGATTGAAACTACAATTCCTATACCCC
1 TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCTATATCCC
*
96705968 TAAAGTTGCAGTGG-GTTAGA
1 TGAAGTTGCAGTGGAGTTAGA
96705988 ATAAGGCTAC
Statistics
Matches: 393, Mismatches: 89, Indels: 80
0.70 0.16 0.14
Matches are distributed among these distances:
43 14 0.04
44 247 0.63
45 18 0.05
46 10 0.03
47 7 0.02
48 8 0.02
49 13 0.03
50 72 0.18
51 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
TGAAGTTGCAGTGGAGTTAGATTGAAGCTACAAATCCTATATCCC
Found at i:96705585 original size:50 final size:50
Alignment explanation
Indices: 96705494--96705591 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
96705484 GATTAAAGAT
* *
96705494 ACAATTCTTATACCTCTGAAGTTGGGGTGGGTTAGAATGAAGCTACAACA
1 ACAAATCTTATACCTCTGAAGTTGGAGTGGGTTAGAATGAAGCTACAACA
* *
96705544 ACAAATCTTAT-CTCTCTGAAGTTGTAGTGGAG-TAGACTGAAGCTACAA
1 ACAAATCTTATAC-CTCTGAAGTTGGAGTGG-GTTAGAATGAAGCTACAA
96705592 ATCTCATCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 40 0.95
51 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (50 bp):
ACAAATCTTATACCTCTGAAGTTGGAGTGGGTTAGAATGAAGCTACAACA
Found at i:96705604 original size:138 final size:138
Alignment explanation
Indices: 96705407--96705655 Score: 344
Period size: 138 Copynumber: 1.8 Consensus size: 138
96705397 TTTATTATAG
*
96705407 CAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGT
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGT
* * * *
96705472 TGCAGTGGATTAGATTAAAGAT-ACAATTCTTAT-ACCTCTGAAGTTGGGGTGGGTTAGAATGAA
66 TACAATGGAGTAGATTAAA-ATAACAAATCTTATCACCT-TGAAGTTGGGGTGGGTTAGAATGAA
96705535 GCTACAACAA
129 GCTACAACAA
* * *
96705545 CAAATCTTATCTCTCTGAAGTTGTAGTGGAG-TAGACTGAAGCTACAAAT-CTCATCTCCCTGAA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACAAATCCT-ATATCCCTGAA
* *
96705608 GTTACAATGGAGTAGATTGAAATAACAAATCTTATCTCCTTGAAGTTG
64 GTTACAATGGAGTAGATTAAAATAACAAATCTTATCACCTTGAAGTTG
96705656 TAGTGGAGTA
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
137 7 0.07
138 87 0.90
139 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (138 bp):
CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGT
TACAATGGAGTAGATTAAAATAACAAATCTTATCACCTTGAAGTTGGGGTGGGTTAGAATGAAGC
TACAACAA
Found at i:96705855 original size:138 final size:138
Alignment explanation
Indices: 96705632--96706027 Score: 401
Period size: 138 Copynumber: 2.9 Consensus size: 138
96705622 GATTGAAATA
* * *
96705632 ACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGA-CAAAGCTACAATTCCTATACCCCTGAA
1 ACAAATCCTATCTCCCTGAAGTTGTAGTGGAGT-AGATTAAAGCTACAATTCCTATACCCCTGAA
* ** * * * ** * ** * *
96705696 GTTATAGTGGGTTTGATTGAATTTATTATAGTAAAACTTATCTCCTTCAAGTTGCAGTGGAGCGA
65 GTTGTAGTGCATTAGAATGAATCTACAACAACAAAACTTATCTCCTTAAAGTTGCAGTGAAG-GA
96705761 GA-TGAAGT-T
129 GATTGAA-TCT
*
96705770 ACAAATCCTATATCCCTGAAGTTGTAGTGGA-TCAGATTAAAGCTACAATTCCTATACCCCTGAA
1 ACAAATCCTATCTCCCTGAAGTTGTAGTGGAGT-AGATTAAAGCTACAATTCCTATACCCCTGAA
* * * *
96705834 GTTGTGGTGCATTAGAATGAATCTACAACAACAAATCTTATCTCCTTAAAGTTGTAGTGAAGTAG
65 GTTGTAGTGCATTAGAATGAATCTACAACAACAAAACTTATCTCCTTAAAGTTGCAGTGAAGGAG
96705899 ATTGAATCT
130 ATTGAATCT
* * *
96705908 ACAAAT-CTCATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAA-CTACAATTCCTATACCCCTAA
1 ACAAATCCT-ATCTCCCTGAAGTTGTAGTGGAGTAGATT-AAAGCTACAATTCCTATACCCCTGA
* ** * * * *
96705971 AGTTGCAGTGGGTTAGAAT-AAGGCTACAACAACAAATCTTATCTCTTTGAAGTTGCA
64 AGTTGTAGTGCATTAGAATGAA-TCTACAACAACAAAACTTATCTCCTTAAAGTTGCA
96706028 ATAGAGCAAG
Statistics
Matches: 217, Mismatches: 34, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
137 12 0.06
138 201 0.93
139 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (138 bp):
ACAAATCCTATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCTACAATTCCTATACCCCTGAAG
TTGTAGTGCATTAGAATGAATCTACAACAACAAAACTTATCTCCTTAAAGTTGCAGTGAAGGAGA
TTGAATCT
Found at i:96705941 original size:320 final size:320
Alignment explanation
Indices: 96705356--96705949 Score: 956
Period size: 320 Copynumber: 1.9 Consensus size: 320
96705346 CAGTGACACC
* *
96705356 ACAATTCCTATACCCCTGAAGTTACAGTGGGTTAGATTGAATTTATTATAGCAAATCTTATCTCT
1 ACAATTCCTATACCCCTGAAGTTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
* *
96705421 TTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATTAGA
66 TTCAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
* * **
96705486 TTAAAGATACAATTCTTATACCTCTGAAGTTGGGGTGGGTTAGAATGAAGCTACAACAACAAATC
131 TTAAAGATACAATTCCTATACCCCTGAAGTTGGGGTGCATTAGAATGAAGCTACAACAACAAATC
* * *
96705551 TTATCTCTCTGAAGTTGTAGTGGAGTAGACTGAAGCTACAAATCTCATCTCCCTGAAGTTACAAT
196 TTATCTCTCTAAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAAT
96705616 GGAGTAGATTGAAATAACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGACAAAGCT
261 GGAGTAGATTGAAATAACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGACAAAGCT
* * *
96705676 ACAATTCCTATACCCCTGAAGTTATAGTGGGTTTGATTGAATTTATTATAGTAAAACTTATCTCC
1 ACAATTCCTATACCCCTGAAGTTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
* * *
96705741 TTCAAGTTGCAGTGGAGCGAGATGAAGTTACAAATCCTATATCCCTGAAGTTGTAGTGGATCAGA
66 TTCAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
* * *
96705806 TTAAAGCTACAATTCCTATACCCCTGAAGTTGTGGTGCATTAGAATGAATCTACAACAACAAATC
131 TTAAAGATACAATTCCTATACCCCTGAAGTTGGGGTGCATTAGAATGAAGCTACAACAACAAATC
* * * *
96705871 TTATCTC-CTTAAAGTTGTAGTGAAGTAGATTGAATCTACAAATCTCATCTCCCTAAAGTTGCAG
196 TTATCTCTC-TAAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAA
96705935 TGGAGTAGATTGAAA
260 TGGAGTAGATTGAAA
96705950 CTACAATTCC
Statistics
Matches: 249, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
319 1 0.00
320 248 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (320 bp):
ACAATTCCTATACCCCTGAAGTTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
TTCAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
TTAAAGATACAATTCCTATACCCCTGAAGTTGGGGTGCATTAGAATGAAGCTACAACAACAAATC
TTATCTCTCTAAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAAT
GGAGTAGATTGAAATAACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGACAAAGCT
Found at i:96707716 original size:3 final size:3
Alignment explanation
Indices: 96707710--96707748 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
96707700 TTTTGCTTTC
96707710 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
96707749 TCATTATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:96709015 original size:16 final size:17
Alignment explanation
Indices: 96708996--96709029 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
96708986 ATAAAATCAA
96708996 TTAA-AAATTAATATTT
1 TTAATAAATTAATATTT
*
96709012 TTAATAATTTAATATTT
1 TTAATAAATTAATATTT
96709029 T
1 T
96709030 ACACATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATAAATTAATATTT
Found at i:96717056 original size:40 final size:40
Alignment explanation
Indices: 96717012--96717106 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
96717002 TATCATAGAT
* *
96717012 GGTACCATTAGGAGTTGTACCATGGATG-CTACCATGGAAG
1 GGTACCATTAGGAGTTGTAACATGGACGAC-ACCATGGAAG
* * * * *
96717052 GGTACCATTAAGAATTGTAACATGGGCGACACCGTGGAGG
1 GGTACCATTAGGAGTTGTAACATGGACGACACCATGGAAG
96717092 GGTACCATTAGGAGT
1 GGTACCATTAGGAGT
96717107 CATATCATGG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (40 bp):
GGTACCATTAGGAGTTGTAACATGGACGACACCATGGAAG
Found at i:96717757 original size:67 final size:62
Alignment explanation
Indices: 96717651--96717780 Score: 163
Period size: 67 Copynumber: 2.0 Consensus size: 62
96717641 AATATTAAAT
* *
96717651 TAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCTTATTAAAATAATA
1 TAATATAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAA-C-TACTAAAATAATA
* *
96717715 TAATATAATGTTTATCTACAAGATAAACATTTA-ATTTAATTTAATATTAAACTACTAAAATAAT
1 TAATATAATATTTA--T-CAAGATAAACA-TTAGATTAAATTTAATATTAAACTACTAAAATAAT
96717779 A
62 A
96717780 T
1 T
96717781 TATTTTTGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
64 13 0.22
65 13 0.22
66 2 0.03
67 27 0.47
68 3 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (62 bp):
TAATATAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAACTACTAAAATAATA
Found at i:96721443 original size:42 final size:44
Alignment explanation
Indices: 96721378--96721478 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 44
96721368 ACTAATTATG
* *
96721378 GGCACTTGGTGTGC-AGAATCGAGATAATTTCAG-ATATATATT
1 GGCACTTAGTGTGCGAGAACCGAGATAATTTCAGCATATATATT
* *
96721420 GGCACTTAGTGTGCGAG-ACCGAGATAGTTTTAGCTATATATATT
1 GGCACTTAGTGTGCGAGAACCGAGATAATTTCAGC-ATATATATT
96721464 GGCACTTAGTGTGCG
1 GGCACTTAGTGTGCG
96721479 TGATTGAGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
42 26 0.50
43 2 0.04
44 24 0.46
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (44 bp):
GGCACTTAGTGTGCGAGAACCGAGATAATTTCAGCATATATATT
Found at i:96721501 original size:44 final size:44
Alignment explanation
Indices: 96721411--96721503 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
96721401 ATAATTTCAG
***
96721411 ATATATATTGGCACTTAGTGTGCGAGACCGAGATAGTTTTAGCT
1 ATATATATTGGCACTTAGTGTGCGAGACCGAGATAGTCCGAGCT
* **
96721455 ATATATATTGGCACTTAGTGTGCGTGATTGAGATAGCTCCGA-CT
1 ATATATATTGGCACTTAGTGTGCGAGACCGAGATAG-TCCGAGCT
96721499 ATATA
1 ATATA
96721504 AATATATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (44 bp):
ATATATATTGGCACTTAGTGTGCGAGACCGAGATAGTCCGAGCT
Found at i:96721759 original size:24 final size:24
Alignment explanation
Indices: 96721732--96721780 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
96721722 CTTGTGAATG
96721732 AAATTGTAATAAGATGATGATTCC
1 AAATTGTAATAAGATGATGATTCC
*
96721756 AAATTGTAATAGGATGATGATTCC
1 AAATTGTAATAAGATGATGATTCC
96721780 A
1 A
96721781 TATATGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (24 bp):
AAATTGTAATAAGATGATGATTCC
Found at i:96723444 original size:40 final size:39
Alignment explanation
Indices: 96723400--96723488 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 39
96723390 AGTTGTGTCG
96723400 TGGATGGTACTATAAAAGGGTACCATTAGGAGACATACCA
1 TGGATGGTAC-ATAAAAGGGTACCATTAGGAGACATACCA
* ** * *
96723440 TGGATGGTACGTGGAGGGGTACCATTAGGAGCCATACCA
1 TGGATGGTACATAAAAGGGTACCATTAGGAGACATACCA
*
96723479 AGGATAGGTA
1 TGGAT-GGTA
96723489 TTGTAACGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 28 0.67
40 14 0.33
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (39 bp):
TGGATGGTACATAAAAGGGTACCATTAGGAGACATACCA
Found at i:96725060 original size:17 final size:18
Alignment explanation
Indices: 96725047--96725171 Score: 100
Period size: 19 Copynumber: 6.9 Consensus size: 18
96725037 TAATCTTCAA
96725047 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
96725066 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
96725083 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
96725102 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
96725118 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
96725137 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
96725155 TGATATACAATCTTAGA
1 TGATATGCAATCTTAGA
96725172 AGATATGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.26
18 28 0.31
19 30 0.33
20 4 0.04
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:96725116 original size:35 final size:35
Alignment explanation
Indices: 96725054--96725171 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
96725044 CAATGATATG
*
96725054 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
96725090 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
96725125 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
96725162 CAATCTTAGA
1 CAATCTTAGA
96725172 AGATATGATT
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 51 0.65
36 15 0.19
37 13 0.16
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:96726445 original size:25 final size:26
Alignment explanation
Indices: 96726417--96726564 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
96726407 CCTCTTTAAT
* *
96726417 AACTAGGGCA-AAGCCCTTTTCTGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
***
96726442 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
96726467 AACTGGGACATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
96726493 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
96726518 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
96726544 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
96726565 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
25 54 0.49
26 56 0.51
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:96726485 original size:51 final size:50
Alignment explanation
Indices: 96726411--96726564 Score: 231
Period size: 51 Copynumber: 3.0 Consensus size: 50
96726401 GCCTAGCCTC
*
96726411 TTTAAT-AACTAGGGCA-AAGCCCTTTTCTGTAAACTGGGGCAAAGCCCTT
1 TTTAATAAACT-GGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
96726460 TTTAATAAACTGGGACATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
1 TTTAATAAACTGGG-CATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
**
96726511 TTCGATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
1 TTTAATAAACT-GGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTT
96726563 TT
1 TT
96726565 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 3, Indels: 7
0.91 0.03 0.07
Matches are distributed among these distances:
49 9 0.09
50 6 0.06
51 69 0.71
52 13 0.13
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (50 bp):
TTTAATAAACTGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
Found at i:96726636 original size:20 final size:20
Alignment explanation
Indices: 96726613--96726679 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
96726603 TTTAGAATTC
*
96726613 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
96726633 ATCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
96726653 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
96726673 ATCATGT
1 ATCATGT
96726680 AGATCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:96726642 original size:11 final size:11
Alignment explanation
Indices: 96726628--96726680 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
96726618 GTGCATTTCA
96726628 TACATATCATG
1 TACATATCATG
96726639 TACATATCA--
1 TACATATCATG
96726648 TACATATCATG
1 TACATATCATG
* *
96726659 TGCATATCATA
1 TACATATCATG
96726670 T-CA-ATCATG
1 TACATATCATG
96726679 TA
1 TA
96726681 GATCATATCC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
9 15 0.42
10 2 0.06
11 19 0.53
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (11 bp):
TACATATCATG
Found at i:96730694 original size:16 final size:16
Alignment explanation
Indices: 96730673--96730703 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96730663 CAAATATTGG
*
96730673 CATGACATTTTGCATA
1 CATGACATGTTGCATA
96730689 CATGACATGTTGCAT
1 CATGACATGTTGCAT
96730704 TGGGTTGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:96730766 original size:26 final size:26
Alignment explanation
Indices: 96730737--96730911 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
96730727 GAGGAAGTGC
**
96730737 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
96730763 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* ***
96730789 GAAAGGGCTTATGCCCCAGTTTGTTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
96730815 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
96730841 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
96730867 AAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
96730892 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
96730912 ATTAAAGAGG
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
25 30 0.23
26 100 0.77
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:96730816 original size:52 final size:52
Alignment explanation
Indices: 96730737--96730911 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
96730727 GAGGAAGTGC
96730737 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* * *
96730789 GAAAGGGCTTATGCCCCAGTTTGTTGAAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
96730841 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
96730892 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
96730912 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 10 0.09
51 22 0.19
52 83 0.72
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:96731121 original size:42 final size:42
Alignment explanation
Indices: 96731056--96731147 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
96731046 TAGTCTCCCC
* * ** *
96731056 AAATGGGCTTGCATAGATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
96731098 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
96731140 AAATGGGC
1 AAATGGGC
96731148 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:96731210 original size:31 final size:31
Alignment explanation
Indices: 96731175--96731249 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
96731165 TACAGTAAAG
96731175 GCTTTGGCCCAATGATATGATTTATGAAAAA
1 GCTTTGGCCCAATGATATGATTTATGAAAAA
*
96731206 GCTTTGGCCCAATGATATGATTTATGAAAAG
1 GCTTTGGCCCAATGATATGATTTATGAAAAA
*
96731237 GCTTCGGCCCAAT
1 GCTTTGGCCCAAT
96731250 AACCGTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (31 bp):
GCTTTGGCCCAATGATATGATTTATGAAAAA
Found at i:96732675 original size:81 final size:81
Alignment explanation
Indices: 96732475--96732687 Score: 223
Period size: 81 Copynumber: 2.6 Consensus size: 81
96732465 AATACTTTAG
* * * *
96732475 TTTACCAAATTACTGAAATGCCCTCAAATT-GTAAAATTACCAAAGTACCCTCGATTTATAGAAT
1 TTTACAAAATTACTGAAATACCCTC-GATTAGTAAAATTACCAAAGTACCCTCGATTTACAGAAT
*
96732539 TACCATTTTACCCTCGA
65 TACCATTTCACCCTCGA
* *** * * *** *
96732556 TTTACAAAATTACCGTTTTACCCTCGATTTA-TAGAATTACTATTTTACCCTTGATTTACAGAAT
1 TTTACAAAATTACTGAAATACCCTCGA-TTAGTAAAATTACCAAAGTACCCTCGATTTACAGAAT
**
96732620 TACTGTTTCACCCTCGA
65 TACCATTTCACCCTCGA
* *
96732637 TTTACAAAATTACTAAAATACCCTCGATTAGTAAAATTACCAAAATACCCT
1 TTTACAAAATTACTGAAATACCCTCGATTAGTAAAATTACCAAAGTACCCT
96732688 AGTTTGTAAA
Statistics
Matches: 102, Mismatches: 27, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
80 4 0.04
81 98 0.96
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTCGATTAGTAAAATTACCAAAGTACCCTCGATTTACAGAATT
ACCATTTCACCCTCGA
Found at i:96732681 original size:27 final size:27
Alignment explanation
Indices: 96732503--96732847 Score: 223
Period size: 27 Copynumber: 12.8 Consensus size: 27
96732493 TGCCCTCAAA
*
96732503 TTGTAAAATTACCAAAGTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
* * ***
96732530 TTATAGAATTACCATTTTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
** ****
96732557 TTACAAAATTACCGTTTTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
* * * *** *
96732584 TTATAGAATTACTATTTTACCCTTGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
** * ****
96732611 TTACAGAATTA-CTGTTTCACCCTCGAT
1 TTGTAAAATTACCAAAAT-ACCCTCGAT
** *
96732638 TTACAAAATTACTAAAATACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
* *
96732665 TAGTAAAATTACCAAAATACCCTAG-T
1 TTGTAAAATTACCAAAATACCCTCGAT
* *
96732691 TTGTAAAATTACTAAAATACCC-CTGGT
1 TTGTAAAATTACCAAAATACCCTC-GAT
* * **
96732718 TTGTAAAATTATCGAAATACCCTTAAT
1 TTGTAAAATTACCAAAATACCCTCGAT
*
96732745 TTGTAAAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACCAAAATACCCTCGA-T
*
96732772 TTGTAAAATTACCAAAATACCACTAG-T
1 TTGTAAAATTACCAAAATACC-CTCGAT
* * * **
96732799 TTGTGAAATTATCGAAATACCCTTAAT
1 TTGTAAAATTACCAAAATACCCTCGAT
96732826 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCAAAATACCC
96732848 CTGATTTACA
Statistics
Matches: 257, Mismatches: 52, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
26 28 0.11
27 227 0.88
28 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTCGAT
Found at i:96732687 original size:54 final size:54
Alignment explanation
Indices: 96732629--96732958 Score: 235
Period size: 54 Copynumber: 6.1 Consensus size: 54
96732619 TTACTGTTTC
* *
96732629 ACCCTCGATTTACAAAATTACTAAAATACCCTCGATTAGTAAAATTACCAAAAT
1 ACCCTAGATTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAAT
** * * *
96732683 ACCCTAG-TTTGTAAAATTACTAAAATACCC-CTGGTTTGTAAAATTATCGAAAT
1 ACCCTAGATTTACAAAATTACTAAAATACCCTC-GATTTGTAAAATTACCAAAAT
** * *
96732736 ACCCTTA-ATTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAAT
1 ACCC-TAGATTTACAAAATTACTAAAATACCCTCGA-TTTGTAAAATTACCAAAAT
*** * **
96732790 ACCACTAG-TTTGTGAAATTA-TCGAAATACCCTTAATTTGTAAAATTACCAAAAT
1 ACC-CTAGATTTACAAAATTACT-AAAATACCCTCGATTTGTAAAATTACCAAAAT
* * * **
96732844 ACCCCT-GATTTACAAAGTTA-TAGAAATACCCTTGACTTTCTAAAAATTATGAAAAT
1 A-CCCTAGATTTACAAAATTACTA-AAATACCCTCGA-TTTGT-AAAATTACCAAAAT
* * * * * * * * * *
96732900 ACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACTAAAAC
1 ACCCTAGATTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAAT
96732954 ACCCT
1 ACCCT
96732959 TGTAGGATGA
Statistics
Matches: 223, Mismatches: 38, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
52 1 0.00
53 43 0.19
54 127 0.57
55 15 0.07
56 36 0.16
57 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
ACCCTAGATTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAAT
Found at i:96732854 original size:27 final size:26
Alignment explanation
Indices: 96732642--96732854 Score: 230
Period size: 27 Copynumber: 7.9 Consensus size: 26
96732632 CTCGATTTAC
* * *
96732642 AAAATTACTAAAATACCCTCGATTAGT
1 AAAATTACCAAAATACCC-CTATTTGT
96732669 AAAATTACCAAAATA-CCCTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* *
96732695 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCT-ATTTGT
* * *
96732722 AAAATTATCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCCT-ATTTGT
96732749 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
*
96732776 AAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* * * *
96732803 GAAATTATCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCCT-ATTTGT
96732830 AAAATTACCAAAATACCCCTGATTT
1 AAAATTACCAAAATACCCCT-ATTT
96732855 ACAAAGTTAT
Statistics
Matches: 156, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 21 0.13
27 132 0.85
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTATTTGT
Found at i:96732873 original size:81 final size:81
Alignment explanation
Indices: 96732652--96732849 Score: 326
Period size: 81 Copynumber: 2.5 Consensus size: 81
96732642 AAAATTACTA
** * * *
96732652 AAATACCCTCGATTAGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACTAAAATACCCCTG
1 AAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCACTA
96732716 GTTTGTAAAATTATCG
66 GTTTGTAAAATTATCG
*
96732732 AAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTA
1 AAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCACTA
*
96732797 GTTTGTGAAATTATCG
66 GTTTGTAAAATTATCG
96732813 AAATACCCTTAATTTGTAAAATTACCAAAATACCCCT
1 AAATACCCTTAATTTGTAAAATTACCAAAATACCCCT
96732850 GATTTACAAA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 29 0.26
81 81 0.74
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCACTA
GTTTGTAAAATTATCG
Found at i:96732926 original size:27 final size:27
Alignment explanation
Indices: 96732886--96732937 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
96732876 TGACTTTCTA
96732886 AAAATTATGAAAATACCATTGGTTTAC
1 AAAATTATGAAAATACCATTGGTTTAC
*
96732913 AAAATTACTG-AAATACCCTTGGTTT
1 AAAATTA-TGAAAATACCATTGGTTT
96732938 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATGAAAATACCATTGGTTTAC
Done.