Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 80 of 255
Found at i:24176862 original size:24 final size:22
Alignment explanation
Indices: 24176835--24176881 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
24176825 GGTAAGTCCA
24176835 TTTTGCTCTATTTTTGATGATTTT
1 TTTTGCTC-ATTTTTGA-GATTTT
*
24176859 TTTTGCTCGTTTTTGAGATTTT
1 TTTTGCTCATTTTTGAGATTTT
24176881 T
1 T
24176882 ATGTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 7 0.32
24 8 0.36
ACGTcount: A:0.11, C:0.09, G:0.15, T:0.66
Consensus pattern (22 bp):
TTTTGCTCATTTTTGAGATTTT
Found at i:24179506 original size:48 final size:49
Alignment explanation
Indices: 24179387--24179665 Score: 264
Period size: 48 Copynumber: 5.8 Consensus size: 49
24179377 TAAGATGCCA
* *
24179387 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCG-GTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-TCTCACATATCGAG-GCCG
* * * *
24179437 ATGCCATGTTCCAAACATGGTCTTACACTAGTC-CACATGTCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCGAGGCCG
* * *
24179485 ATGCCATGTCCCAGACATGGTCTTACACTA-TCTCTCATATAGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCGAGGCCG
* * * * * * *
24179533 ATGCCATGTTCCAAAAATAGTCTTACACT-GCCTCACGTATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCGAGGCCG
* * ** ** *
24179581 ATGCCATGTCCCAGACATGGTCTTACAGTAGT-TCTCATATAAATACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCGAGGCCG
* * *
24179629 ATGCCATGTTCCAAACATGGTCTTACACT-GGCTCACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACA
24179666 AAACCTTAGT
Statistics
Matches: 182, Mismatches: 42, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
47 3 0.02
48 146 0.80
49 4 0.02
50 29 0.16
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGTCTCACATATCGAGGCCG
Found at i:24179586 original size:96 final size:96
Alignment explanation
Indices: 24179387--24179665 Score: 391
Period size: 96 Copynumber: 2.9 Consensus size: 96
24179377 TAAGATGCCA
* * *
24179387 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGCCAATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATA--GATGCCGATGCCATGTTCCAAA
* *
24179452 CATGGTCTTACACTAGTC-CACATGTCGAGGTCG
64 CATGGTCTTACACT-GCCTCACATATCGAGGTCG
*
24179485 ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATAGATGCCGATGCCATGTTCCAAAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATAGATGCCGATGCCATGTTCCAAACA
* *
24179550 TAGTCTTACACTGCCTCACGTATCGAGGTCG
66 TGGTCTTACACTGCCTCACATATCGAGGTCG
* * * *
24179581 ATGCCATGTCCCAGACATGGTCTTACAGTAGT-TCTCATATAAATACTGATGCCATGTTCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTA-TCTCTCATATAGATGCCGATGCCATGTTCCAAAC
*
24179645 ATGGTCTTACACTGGCTCACA
65 ATGGTCTTACACTGCCTCACA
24179666 AAACCTTAGT
Statistics
Matches: 163, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
95 2 0.01
96 120 0.74
97 1 0.01
98 40 0.25
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATAGATGCCGATGCCATGTTCCAAACA
TGGTCTTACACTGCCTCACATATCGAGGTCG
Found at i:24181793 original size:12 final size:12
Alignment explanation
Indices: 24181776--24181801 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24181766 CATTCCGAAG
24181776 TATATATATACA
1 TATATATATACA
24181788 TATATATATACA
1 TATATATATACA
24181800 TA
1 TA
24181802 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:24182332 original size:27 final size:28
Alignment explanation
Indices: 24182248--24182345 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
24182238 CATGAGATTG
* * * *
24182248 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
24182277 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24182305 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24182332 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
24182346 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24182356 original size:27 final size:27
Alignment explanation
Indices: 24182276--24182358 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
24182266 TAAATTGTAC
* *
24182276 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
24182304 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
24182331 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
24182358 A
1 A
24182359 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:24187679 original size:16 final size:16
Alignment explanation
Indices: 24187660--24187690 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24187650 CTTCTTCACT
24187660 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
24187676 TACTTACTTACTTAA
1 TACTCACTTACTTAA
24187691 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:24187696 original size:20 final size:20
Alignment explanation
Indices: 24187657--24187696 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24187647 AAACTTCTTC
* *
24187657 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
24187677 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
24187697 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:24188070 original size:55 final size:53
Alignment explanation
Indices: 24187882--24188137 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
24187872 ACACGGGTAC
* * * *
24187882 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* ** *
24187931 CTTACCATTGCCATGTATTGACATGGTCTTACATGGTAGCCTTACCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
24187984 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * * *
24188039 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGAC
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
24188093 CTTACCAACTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTG
24188138 AACCCTAATG
Statistics
Matches: 171, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 43 0.25
54 15 0.09
55 74 0.43
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:24188073 original size:108 final size:110
Alignment explanation
Indices: 24187929--24188129 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
24187919 ATCCTTTTGA
* *
24187929 AACTTACCATTGCCATGTATTGACATGGTCTTACATGGTAGCCTTACCTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTA-GAGACCTCACCAA
24187992 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 CTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * ** * *
24188037 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAAC
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTAGAGACCTCACCAAC
24188102 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
24188130 TATCCTTGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 2 0.02
108 45 0.55
109 7 0.09
110 28 0.34
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTAGAGACCTCACCAAC
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:24204542 original size:20 final size:20
Alignment explanation
Indices: 24204496--24204533 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24204486 TGTAATATTA
*
24204496 ATATTTAAT-ATTAAATAAG
1 ATATTTATTAATTAAATAAG
24204515 ATATTTATTAATTAAATAA
1 ATATTTATTAATTAAATAA
24204534 TTATATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
ATATTTATTAATTAAATAAG
Found at i:24205512 original size:15 final size:15
Alignment explanation
Indices: 24205489--24205536 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
24205479 TATCAAATTT
24205489 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
24205504 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
24205519 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
24205533 ATAT
1 ATAT
24205537 AATATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:24206058 original size:18 final size:19
Alignment explanation
Indices: 24206037--24206077 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
24206027 AATGAAATGA
24206037 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
24206055 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
24206074 GAAA
1 GAAA
24206078 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:24217718 original size:55 final size:55
Alignment explanation
Indices: 24217623--24217737 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 55
24217613 GCCCACACCT
* * *
24217623 GTGTTAATCTGACAGGTTCGCCCACGGTTGCTCAGTACGGGCGTGTCGCATGCCC
1 GTGTTAATCTGACAGGTTCGCCCACAGTTGCTCAGCACGGGCGTGTCGCACGCCC
* * * *
24217678 GTGTTAATTTGATAGGTTCGGCCACAGTTTC-CAGGCACGGGCGTGTCGCACGCCC
1 GTGTTAATCTGACAGGTTCGCCCACAGTTGCTCA-GCACGGGCGTGTCGCACGCCC
24217733 GTGTT
1 GTGTT
24217738 GTTTTGGCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 2 0.04
55 50 0.96
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (55 bp):
GTGTTAATCTGACAGGTTCGCCCACAGTTGCTCAGCACGGGCGTGTCGCACGCCC
Found at i:24228274 original size:30 final size:30
Alignment explanation
Indices: 24228229--24228286 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24228219 CACAGTCATT
*
24228229 ACACAAGGGCGTGTGGCCTACCCGTGTGTC
1 ACACAAGGGCATGTGGCCTACCCGTGTGTC
* **
24228259 ACACACGGGCATGTGGGTTACCCGTGTG
1 ACACAAGGGCATGTGGCCTACCCGTGTG
24228287 AAAATGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.21
Consensus pattern (30 bp):
ACACAAGGGCATGTGGCCTACCCGTGTGTC
Found at i:24239275 original size:19 final size:20
Alignment explanation
Indices: 24239251--24239288 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
24239241 GGTACCACCA
24239251 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
24239270 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
24239289 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:24239633 original size:93 final size:93
Alignment explanation
Indices: 24239518--24239688 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
24239508 GCCCCTAAGT
* *
24239518 GAACTCGGACTCAACCCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24239583 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
24239611 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
24239676 CGTGTTCGGATGC
66 CGAGTTCGGATGC
24239689 TCAACCTTCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24239685 original size:46 final size:46
Alignment explanation
Indices: 24239513--24239685 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
24239503 AACCCGCCCC
* * * *
24239513 TAAGTGAACTCGGACTCAACCCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
24239559 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
24239607 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
24239652 TAAGTGAACTCGGACTCAACTCAACGTGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24239686 TGCTCAACCT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.56
47 29 0.28
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:24253758 original size:34 final size:34
Alignment explanation
Indices: 24253712--24253816 Score: 156
Period size: 34 Copynumber: 3.1 Consensus size: 34
24253702 AGTCCAGCAC
* *
24253712 CAGTGTGGGCCTTATCCCATTACAACAACAGTAT
1 CAGTGTGGGCCTTAGCCCATTACAATAACAGTAT
* *
24253746 CAGTGTGAGCCTTAGCCCATTACAATAATAGTAT
1 CAGTGTGGGCCTTAGCCCATTACAATAACAGTAT
**
24253780 CAGTGTGGGTTTTAGCCCATTACAATAACAGTAT
1 CAGTGTGGGCCTTAGCCCATTACAATAACAGTAT
24253814 CAG
1 CAG
24253817 AAAATGCAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATTACAATAACAGTAT
Found at i:24253991 original size:21 final size:21
Alignment explanation
Indices: 24253945--24253991 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
24253935 TGGCACTGAT
* *
24253945 CAGTGATTGCAGCAGAGCTGC
1 CAGTAATTACAGCAGAGCTGC
* *
24253966 AAGTAATTACAGCAGAGCTTC
1 CAGTAATTACAGCAGAGCTGC
24253987 CAGTA
1 CAGTA
24253992 CAGTACACTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (21 bp):
CAGTAATTACAGCAGAGCTGC
Found at i:24269971 original size:17 final size:16
Alignment explanation
Indices: 24269951--24269992 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
24269941 GTTTCGGCTA
24269951 GAAGAAAAAGCAAAAAG
1 GAAGAAAAAG-AAAAAG
24269968 GAAG--AAAGAAAAAG
1 GAAGAAAAAGAAAAAG
*
24269982 GAGGAAAAAGA
1 GAAGAAAAAGA
24269993 GAGGAAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 5 0.23
17 4 0.18
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAGAAAAAG
Found at i:24274140 original size:30 final size:30
Alignment explanation
Indices: 24274106--24274163 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24274096 CTTTAATACG
** *
24274106 AACTTTTGGAAAATTACATTTTTGCCCCCA
1 AACTTTTACAAAATTACACTTTTGCCCCCA
*
24274136 AACTTTTACATAATTACACTTTTGCCCC
1 AACTTTTACAAAATTACACTTTTGCCCC
24274164 TAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTACAAAATTACACTTTTGCCCCCA
Found at i:24276868 original size:12 final size:13
Alignment explanation
Indices: 24276851--24276879 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24276841 TACAGAAGGC
24276851 ACCTTGCTTA-AT
1 ACCTTGCTTACAT
24276863 ACCTTGCTTACAT
1 ACCTTGCTTACAT
24276876 ACCT
1 ACCT
24276880 ACAACATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.38
Consensus pattern (13 bp):
ACCTTGCTTACAT
Found at i:24277242 original size:55 final size:53
Alignment explanation
Indices: 24277130--24277318 Score: 220
Period size: 55 Copynumber: 3.5 Consensus size: 53
24277120 AACTTACCAT
* * *
24277130 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCGTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
24277183 TGCCATG-CATTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGTC-TTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * *
24277238 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* **
24277292 TGCCATGCCTTCTCATGGTCTTACATG
1 TGCCATGTCTTGACATGGTCTTACATG
24277319 ATATCCTTAT
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
52 3 0.03
53 33 0.28
54 34 0.29
55 44 0.38
56 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:24277360 original size:47 final size:47
Alignment explanation
Indices: 24277305--24277426 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
24277295 CATGCCTTCT
* *
24277305 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
24277352 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
24277399 CATGATCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
24277427 GTGCTAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:24283847 original size:53 final size:52
Alignment explanation
Indices: 24283769--24283919 Score: 162
Period size: 53 Copynumber: 2.8 Consensus size: 52
24283759 TCGAAAACCT
* * *
24283769 TTTCCTTTTTGAACTTACCATTGCCATGTCTTGACATGGTCTTACGT-GGTATCC
1 TTTCC-TTTTGAACTCACCAATGCCATGTCTTGACATGGTCTTACATAGG-A-CC
* *
24283823 TTTCCTTATGAACTCACCAATGCCATG-CATTGGCATGGTCTTACATAGGACC
1 TTTCCTTTTGAACTCACCAATGCCATGTC-TTGACATGGTCTTACATAGGACC
* *
24283875 TTTGCCTTTTAGTAACTCATCAATACCATGTCTTGACATGGTCTT
1 TTT-CCTTTT-G-AACTCACCAATGCCATGTCTTGACATGGTCTT
24283920 TGTGACACCC
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
52 6 0.07
53 40 0.49
54 8 0.10
55 27 0.33
56 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (52 bp):
TTTCCTTTTGAACTCACCAATGCCATGTCTTGACATGGTCTTACATAGGACC
Found at i:24286529 original size:47 final size:47
Alignment explanation
Indices: 24286413--24286706 Score: 408
Period size: 47 Copynumber: 6.2 Consensus size: 47
24286403 ATTCTAAATC
24286413 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
* *
24286462 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
24286509 GCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
* **
24286558 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGC
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24286605 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
24286652 GTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24286699 GTGATAAG
1 GTGATAAG
24286707 TCCCGAAGGG
Statistics
Matches: 219, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
47 137 0.63
49 82 0.37
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:24286559 original size:96 final size:96
Alignment explanation
Indices: 24286415--24286691 Score: 441
Period size: 96 Copynumber: 2.9 Consensus size: 96
24286405 TCTAAATCGT
24286415 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
24286480 CGATGTGATGAATGTGAAAGTGTATATGTGC
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
*
24286511 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
24286576 CGATGTGATGAATGTGAAAGTGTATATGCGT
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
* * * ** *
24286607 GATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
* *
24286670 CAATGTGATGGATGTGAAAGTG
66 CGATGTGATGAATGTGAAAGTG
24286692 CATAAATGTG
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 40 0.24
96 129 0.76
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGCGC
Found at i:24288778 original size:43 final size:43
Alignment explanation
Indices: 24288730--24289004 Score: 487
Period size: 43 Copynumber: 6.4 Consensus size: 43
24288720 TTGGTTTTCA
*
24288730 GCACTAAGTGTGCGGGCAATAAGTATTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
24288773 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
24288816 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
24288859 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
24288902 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
* * *
24288945 GCACTAAGTGTGCGGGCAATAAGTATTCATGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
24288988 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
24289005 TTGAAATGCA
Statistics
Matches: 224, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 224 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
Found at i:24289019 original size:29 final size:29
Alignment explanation
Indices: 24288986--24289059 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
24288976 GTTGTGAGAT
* *
24288986 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
24289015 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
24289044 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24289060 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:24289137 original size:40 final size:40
Alignment explanation
Indices: 24289082--24289279 Score: 299
Period size: 40 Copynumber: 5.0 Consensus size: 40
24289072 AAGCACTATG
*
24289082 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
24289122 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
24289162 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
24289202 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGTATT
1 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * * *
24289242 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
24289280 ATTGAGCTTG
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 141 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
Found at i:24289303 original size:40 final size:40
Alignment explanation
Indices: 24289082--24289322 Score: 286
Period size: 40 Copynumber: 6.0 Consensus size: 40
24289072 AAGCACTATG
* * *
24289082 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
24289122 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
24289162 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* * *
24289202 TGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGG-TAT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* * *
24289241 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 T-GTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* ** * * * *
24289282 TGAGCTTGTGGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG-GCAAT
24289323 CATGCTGGTG
Statistics
Matches: 177, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 166 0.94
41 8 0.05
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:24293001 original size:47 final size:47
Alignment explanation
Indices: 24292885--24293178 Score: 408
Period size: 47 Copynumber: 6.2 Consensus size: 47
24292875 ATTCTAAATC
24292885 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
* *
24292934 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
24292981 GCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT
* **
24293030 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGC
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24293077 GTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
24293124 GTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAAT
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24293171 GTGATAAG
1 GTGATAAG
24293179 TCCCGAAGGG
Statistics
Matches: 219, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
47 137 0.63
49 82 0.37
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:24293031 original size:96 final size:96
Alignment explanation
Indices: 24292887--24293163 Score: 441
Period size: 96 Copynumber: 2.9 Consensus size: 96
24292877 TCTAAATCGT
24292887 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
24292952 CGATGTGATGAATGTGAAAGTGTATATGTGC
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
*
24292983 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
24293048 CGATGTGATGAATGTGAAAGTGTATATGCGT
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
* * * ** *
24293079 GATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
* *
24293142 CAATGTGATGGATGTGAAAGTG
66 CGATGTGATGAATGTGAAAGTG
24293164 CATAAATGTG
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 40 0.24
96 129 0.76
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGCGC
Found at i:24303660 original size:25 final size:25
Alignment explanation
Indices: 24303586--24303661 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
24303576 AGACCATGGT
* *
24303586 TGAAAGATACCATGACAACATGATA
1 TGAAAGATATCATGGCAACATGATA
* * * * *
24303611 TGAAAGGTGT-A-AG-ACCATGGT-
1 TGAAAGATATCATGGCAACATGATA
24303632 TGAAAGATATCATGGCAACATGATA
1 TGAAAGATATCATGGCAACATGATA
24303657 TGAAA
1 TGAAA
24303662 TGTGTAAAAC
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
21 8 0.23
22 7 0.20
23 1 0.03
24 7 0.20
25 12 0.34
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (25 bp):
TGAAAGATATCATGGCAACATGATA
Found at i:24303812 original size:138 final size:137
Alignment explanation
Indices: 24303574--24303923 Score: 513
Period size: 138 Copynumber: 2.5 Consensus size: 137
24303564 ATGAAATATG
* * *
24303574 TAAGACCATGGTTGAAAGATACCATGACAACATGATATGAAAGGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACA-GAAATGAGTAAGACCATGGTTGAAAGA
* * ** *
24303639 TATCATGGCAACATGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGAAACGTGACAT
65 TACCATGGCAACATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGAAACATGACAT
24303704 GAAAAGAA
130 GAAAAGAA
* *
24303712 TAAGACAATGGTTGAAAGATACCATGACAACATGACGAGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGAC-AGAAATGAGTAAGACCATGGTTGAAAGA
* *
24303777 TACCATGG-AAGCGTGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACA
65 TACCATGGCAA-CATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGAAACATGACA
24303841 TGAAAAGAA
129 TGAAAAGAA
* *
24303850 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACAG-AAATGAGTAAGACCATGGTTGAAAGA
* *
24303915 CACTATGGC
65 TACCATGGC
24303924 TTCATGTCAA
Statistics
Matches: 190, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
137 4 0.02
138 185 0.97
139 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGACAACATGACAGAAATGAGTAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGAAACATGACATG
AAAAGAA
Found at i:24303923 original size:46 final size:47
Alignment explanation
Indices: 24303574--24303923 Score: 441
Period size: 46 Copynumber: 7.6 Consensus size: 47
24303564 ATGAAATATG
* * *
24303574 TAAGACCATGGTTGAAAGATACCATGACAACATGATATGAAAGGTG--
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA-ATGAA
* * **
24303620 TAAGACCATGGTTGAAAGATATCATGGCAACATGATATG-AAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
* * *
24303666 TAAAACCATGGTTGAAAGATACCATGGAAACGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
* *
24303712 TAAGACAATGGTTGAAAGATACCATGACAACATGAC--GAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA-AAATGAA
*
24303758 TAAGACCATGGTTGAAAGATACCATGG-AAGCGTGACATG-AAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAA-CATGACATGAAAATGAA
*
24303804 TAAAACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
*
24303850 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
* * *
24303896 TAAGACCATAGTTGAAAGACACTATGGC
1 TAAGACCATGGTTGAAAGATACCATGGC
24303924 TTCATGTCAA
Statistics
Matches: 268, Mismatches: 25, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
44 4 0.01
45 12 0.04
46 243 0.91
47 8 0.03
48 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.20
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
Found at i:24311115 original size:13 final size:13
Alignment explanation
Indices: 24311097--24311121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24311087 TAAATCTTTA
24311097 AAAAAATAAAAAT
1 AAAAAATAAAAAT
24311110 AAAAAATAAAAA
1 AAAAAATAAAAA
24311122 GTAGTTTGAA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:24314885 original size:4 final size:4
Alignment explanation
Indices: 24314869--24314921 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
24314859 AGAAGGAAAA
* * *
24314869 AAAT AAAT TAAT AAAT AATAA AAAT AAAT AAAT AAAT AAA- AATT AAATT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T
24314918 AAAT
1 AAAT
24314922 TGCAAGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
3 2 0.05
4 31 0.77
5 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:24314893 original size:21 final size:19
Alignment explanation
Indices: 24314866--24314919 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
24314856 AAGAGAAGGA
24314866 AAAAAATAAATTAATAAAT
1 AAAAAATAAATTAATAAAT
*
24314885 AATAAAAATAAATAAATAAAT
1 -A-AAAAATAAATTAATAAAT
*
24314906 AAAAATTAAATTAA
1 AAAAAATAAATTAA
24314920 ATTGCAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAATAAATTAATAAAT
Found at i:24314898 original size:17 final size:18
Alignment explanation
Indices: 24314873--24314921 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
24314863 GGAAAAAAAT
*
24314873 AAATTAATAAAT-AATAA
1 AAATAAATAAATAAATAA
24314890 AAATAAATAAATAAATAA
1 AAATAAATAAATAAATAA
24314908 AAATTAAATTAAAT
1 AAA-TAAA-TAAAT
24314922 TGCAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.39
18 8 0.29
19 4 0.14
20 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATAAATAAATAA
Found at i:24314898 original size:25 final size:24
Alignment explanation
Indices: 24314865--24314921 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
24314855 TAAGAGAAGG
*
24314865 AAAA-AAATAAATTAATAAATAATA
1 AAAATAAATAAATAAATAAA-AATA
*
24314889 AAAATAAATAAATAAATAAAAATT
1 AAAATAAATAAATAAATAAAAATA
*
24314913 AAATTAAAT
1 AAAATAAAT
24314922 TGCAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAATAAATAAATAAATAAAAATA
Found at i:24316486 original size:47 final size:47
Alignment explanation
Indices: 24316431--24316552 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
24316421 CATGCCTTGG
* *
24316431 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
24316478 CATGGTCTTACATGGTATTCTTGTCTGACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
24316525 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
24316553 GTGCCAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:24316740 original size:44 final size:44
Alignment explanation
Indices: 24316691--24316775 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
24316681 ATCCTTAACC
* *
24316691 GTCAATTCCTCCTTAAATGCCATGTTATAAACATGGACTTTTCT
1 GTCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTTTCT
* * * *
24316735 GTCAATTCTTCCTTAATTGCCGTGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTT
24316776 GAGACATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAAACATGGACTTTTCT
Found at i:24317358 original size:30 final size:31
Alignment explanation
Indices: 24317315--24317372 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
24317305 CTAACTCAAA
24317315 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
* ** *
24317346 CTTT-GCAGAATTATGATTTTTCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
24317373 GGCTCGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:24320911 original size:21 final size:21
Alignment explanation
Indices: 24320887--24320939 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
24320877 CTGACCATGG
24320887 CCTCTCGGTGGCTGCTGAACA
1 CCTCTCGGTGGCTGCTGAACA
*
24320908 CCTCTCAGTGGCTGCTGAACA
1 CCTCTCGGTGGCTGCTGAACA
*
24320929 CCTCTAGGTGG
1 CCTCTCGGTGG
24320940 GTGGACAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.32, G:0.28, T:0.25
Consensus pattern (21 bp):
CCTCTCGGTGGCTGCTGAACA
Found at i:24323029 original size:34 final size:34
Alignment explanation
Indices: 24322956--24323032 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
24322946 AGTTACAGTC
*
24322956 CAGTACCAGTGTAGGCCTTAGCCCATTACAATAA
1 CAGTATCAGTGTAGGCCTTAGCCCATTACAATAA
* *
24322990 CAGTATCAGTGTGGGCTTTAGCCCATTACAATAA
1 CAGTATCAGTGTAGGCCTTAGCCCATTACAATAA
*
24323024 TAGTATCAG
1 CAGTATCAG
24323033 AAAATGCAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTAGGCCTTAGCCCATTACAATAA
Found at i:24323195 original size:21 final size:21
Alignment explanation
Indices: 24323166--24323205 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24323156 CTAATTAGTG
*
24323166 ATTGTAGCAGAGCTGCCAGTA
1 ATTGCAGCAGAGCTGCCAGTA
*
24323187 ATTGCAGCAGAGCTTCCAG
1 ATTGCAGCAGAGCTGCCAG
24323206 CACAGTACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.23
Consensus pattern (21 bp):
ATTGCAGCAGAGCTGCCAGTA
Found at i:24328630 original size:43 final size:43
Alignment explanation
Indices: 24328569--24328733 Score: 264
Period size: 43 Copynumber: 3.9 Consensus size: 43
24328559 GAATATTCAG
24328569 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
24328612 ATGATAACCGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
24328655 ATGATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
24328698 AT-AT--CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
24328734 AGCTATATCC
Statistics
Matches: 114, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
40 29 0.25
42 2 0.02
43 83 0.73
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:24331943 original size:49 final size:49
Alignment explanation
Indices: 24331769--24332390 Score: 1072
Period size: 49 Copynumber: 12.9 Consensus size: 49
24331759 CCCTTCGGGA
* * *
24331769 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
24331816 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24331863 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24331910 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24331959 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24332008 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24332055 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24332102 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24332151 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24332200 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24332247 CTTATCACATATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24332296 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24332345 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
24332391 CGCCATACTA
Statistics
Matches: 553, Mismatches: 13, Indels: 16
0.95 0.02 0.03
Matches are distributed among these distances:
46 3 0.01
47 229 0.41
49 321 0.58
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24332041 original size:145 final size:146
Alignment explanation
Indices: 24331769--24332390 Score: 1068
Period size: 145 Copynumber: 4.3 Consensus size: 146
24331759 CCCTTCGGGA
* * * * *
24331769 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTT-GGCCCTGTCAC--ATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATA
24331829 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCAT
65 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCAT
24331893 CACATCGGCCATTAGGC
130 CACATCGGCCATTAGGC
24331910 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
24331975 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATC
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
24332039 ACATCGGCCATTAGGC
131 ACATCGGCCATTAGGC
24332055 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
24332118 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCAT
*
24332183 CACATCGGCTATTAGGC
130 CACATCGGCCATTAGGC
24332200 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
24332263 ACACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCAT
*
24332328 CACATCGGCTATTAGGC
130 CACATCGGCCATTAGGC
24332345 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
24332391 CGCCATACTA
Statistics
Matches: 465, Mismatches: 7, Indels: 12
0.96 0.01 0.02
Matches are distributed among these distances:
141 10 0.02
142 3 0.01
143 132 0.28
145 284 0.61
147 36 0.08
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (146 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
ACATCGGCCATTAGGC
Found at i:24332107 original size:192 final size:192
Alignment explanation
Indices: 24331769--24332390 Score: 1124
Period size: 192 Copynumber: 3.2 Consensus size: 192
24331759 CCCTTCGGGA
* * * * *
24331769 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTT-GGCCCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATA
24331831 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
24331896 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24331959 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
24332024 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
24332089 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24332151 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
24332216 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACATTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
24332281 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
129 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24332345 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
24332391 CGCCATACTA
Statistics
Matches: 418, Mismatches: 9, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
190 10 0.02
191 3 0.01
192 274 0.66
194 131 0.31
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (192 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24337523 original size:50 final size:49
Alignment explanation
Indices: 24337457--24337592 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 49
24337447 TTCATTAAAA
* *
24337457 GATGCAAACTTTAACTACCATGGGAGTTACATAATGCACGAT-ATAATTTAT
1 GATGCAATC-TTAACTA-CATGAGAGTTACATAATGCACG-TCATAATTTAT
* *
24337508 GATGCAATCTTAACTAACATGAGAGTTACATAATGCATGTCATTATTTAT
1 GATGCAATCTTAACT-ACATGAGAGTTACATAATGCACGTCATAATTTAT
*
24337558 GATGC-ATGCTTAACTA-ATGAAAGTTACATAATGCA
1 GATGCAAT-CTTAACTACATGAGAGTTACATAATGCA
24337593 TGACTTTATT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
48 18 0.23
49 4 0.05
50 46 0.60
51 9 0.12
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (49 bp):
GATGCAATCTTAACTACATGAGAGTTACATAATGCACGTCATAATTTAT
Found at i:24337602 original size:48 final size:50
Alignment explanation
Indices: 24337438--24337602 Score: 158
Period size: 50 Copynumber: 3.3 Consensus size: 50
24337428 TTACTAATTC
* * * * * **
24337438 ATGCATGACTTCATTAAAAGATGCAAACTTTAACTACCATGGGAGTTACATA
1 ATGCATGACTTTATT-TATGATGCAATC-TTAACTAACATGAAAGTTACATA
* * *
24337490 ATGCACGA-TATAATTTATGATGCAATCTTAACTAACATGAGAGTTACATA
1 ATGCATGACT-TTATTTATGATGCAATCTTAACTAACATGAAAGTTACATA
* *
24337540 ATGCATGTCATTATTTATGATGC-ATGCTTAACT-A-ATGAAAGTTACATA
1 ATGCATGACTTTATTTATGATGCAAT-CTTAACTAACATGAAAGTTACATA
24337588 ATGCATGACTTTATT
1 ATGCATGACTTTATT
24337603 AAATGCAGAG
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
48 26 0.27
49 3 0.03
50 46 0.48
51 10 0.10
52 11 0.11
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (50 bp):
ATGCATGACTTTATTTATGATGCAATCTTAACTAACATGAAAGTTACATA
Found at i:24343487 original size:27 final size:26
Alignment explanation
Indices: 24343470--24343532 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
24343460 ATATTAAGTC
24343470 CGCACACTCAATGCTATATAATCAACT
1 CGCACACTCAATGCTATAT-ATCAACT
* *
24343497 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAATGCTATAT-ATC-AACT
24343525 CGCACACT
1 CGCACACT
24343533 TAGTGCTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (26 bp):
CGCACACTCAATGCTATATATCAACT
Found at i:24343533 original size:28 final size:28
Alignment explanation
Indices: 24343470--24343567 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
24343460 ATATTAAGTC
* *
24343470 CGCACACTCAATGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
24343497 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
24343525 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
24343554 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24343568 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24351767 original size:27 final size:26
Alignment explanation
Indices: 24351750--24351819 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
24351740 ATATTAAGTC
24351750 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
24351777 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
24351805 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
24351820 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:24351813 original size:28 final size:28
Alignment explanation
Indices: 24351750--24351847 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
24351740 ATATTAAGTC
*
24351750 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
24351777 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
24351805 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
24351834 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24351848 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24352311 original size:12 final size:12
Alignment explanation
Indices: 24352294--24352320 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24352284 TGGGCATACT
24352294 TATGTATATATA
1 TATGTATATATA
24352306 TATGTATATATA
1 TATGTATATATA
24352318 TAT
1 TAT
24352321 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:24354173 original size:39 final size:39
Alignment explanation
Indices: 24354129--24354443 Score: 531
Period size: 39 Copynumber: 8.1 Consensus size: 39
24354119 ATGCAAGACA
24354129 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
24354168 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
24354207 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
24354246 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
24354285 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
24354324 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
24354363 CTGGAAATGTATCTGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
24354402 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
24354441 CTG
1 CTG
24354444 ATAATATAAT
Statistics
Matches: 258, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 258 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:24362334 original size:48 final size:49
Alignment explanation
Indices: 24362282--24362499 Score: 230
Period size: 48 Copynumber: 4.5 Consensus size: 49
24362272 AGATCCCATG
* * *
24362282 TAAGACTATGTCTGGGACATGGCATTGGCATCGAGATGAGATCCT-GTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGTGATCCTAGTA
* ** * * * *
24362330 TAAGACCATGTCTAGGACATGGCATCGATATTGATATGTG-TGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGTGATCCTAGTA
* * *
24362378 TAAGACCATGTCTGGGACATGGCATCAGCCTCGACG-TGTGAGCC-AGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGA-GATGTGATCCTAGTA
* * * *
24362426 TAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAT-TTCGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGTGATCCTAGTA
*
24362474 TAAGACTATGTCTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
24362500 ATTATGAAAC
Statistics
Matches: 137, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
47 3 0.02
48 133 0.97
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGTGATCCTAGTA
Found at i:24362399 original size:96 final size:96
Alignment explanation
Indices: 24362280--24362500 Score: 293
Period size: 96 Copynumber: 2.3 Consensus size: 96
24362270 TGAGATCCCA
** * *
24362280 TGTAAGACTATGTCTGGGACATGGCATTGGCATCGA-GATGAGATCCTGTATAAGACCATGTCTA
1 TGTAAGACTATGTCTGGGACATGGCATCAGCATCGACG-TGAGAGCCAGTATAAGACCATGTCTA
* *
24362344 GGACATGGCATCGATATTGATATGTG-TGCTAG
65 GGACATGGCATCGACATCGATATGTGAT-CTAG
* * * *
24362376 TGTAAGACCATGTCTGGGACATGGCATCAGCCTCGACGTGTGAGCCAGTATAAGACCATGTCTGG
1 TGTAAGACTATGTCTGGGACATGGCATCAGCATCGACGTGAGAGCCAGTATAAGACCATGTCTAG
* * *
24362441 GACATGGCATCGGCATCGATATGTGATTTCG
66 GACATGGCATCGACATCGATATGTGATCTAG
24362472 TGTAAGACTATGTCTGGGACATGGCATCA
1 TGTAAGACTATGTCTGGGACATGGCATCA
24362501 TTATGAAACA
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
96 107 0.98
97 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (96 bp):
TGTAAGACTATGTCTGGGACATGGCATCAGCATCGACGTGAGAGCCAGTATAAGACCATGTCTAG
GACATGGCATCGACATCGATATGTGATCTAG
Found at i:24369392 original size:49 final size:50
Alignment explanation
Indices: 24369312--24369544 Score: 215
Period size: 49 Copynumber: 4.7 Consensus size: 50
24369302 ATCTATTGTA
* * * *
24369312 AGGTCACGTGTGTAGTACTAAGTGTAAGCTACTACATGTGCCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
* *
24369362 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACT--ATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATG--TACCGGATAA-TT
* * ** * * * * **
24369412 CA-ATCACGTGTGTAGTACTAAGTATAGTCTACTACGTGTATCAGATGGTT
1 -AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
* * *
24369462 AGGTCACATGTGTAGTACTAGGTGCAGGCTACTACGTGTACCGTATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
*
24369512 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
24369545 TGCATACCAA
Statistics
Matches: 145, Mismatches: 30, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
47 3 0.02
49 68 0.47
50 41 0.28
51 31 0.21
53 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
Found at i:24369495 original size:101 final size:100
Alignment explanation
Indices: 24369315--24369495 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 100
24369305 TATTGTAAGG
* * * *
24369315 TCACGTGTGTAGTACTAAGTGTAAGCTACTACATGTGCCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTATAAGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
24369380 AAGTGCAGGCTACTATGCATACCCGATAACTTCAA
66 AAGTGCAGGCTACTATGCATACCCGATAACTTCAA
* * **
24369415 TCACGTGTGTAGTACTAAGTAT-AGTCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTATAAG-CTACTACATGTACCAGATAATT-GGTCACATGTGTAGTA
*
24369479 CTAGGTGCAGGCTACTA
64 CTAAGTGCAGGCTACTA
24369496 CGTGTACCGT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
99 2 0.03
100 37 0.53
101 31 0.44
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTATAAGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGATAACTTCAA
Found at i:24375003 original size:26 final size:26
Alignment explanation
Indices: 24374974--24375055 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
24374964 TGATAAAAAT
*
24374974 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24375000 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24375026 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24375052 TGAT
1 TGAT
24375056 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24376731 original size:27 final size:26
Alignment explanation
Indices: 24376652--24376766 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
24376642 TGGAGGAAGC
* *
24376652 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
24376679 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
24376706 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* * * *
24376733 ATATATGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
24376760 GTTCTGG
1 GTTCTGG
24376767 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 5 0.07
27 54 0.72
28 16 0.21
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:24376759 original size:54 final size:54
Alignment explanation
Indices: 24376652--24376766 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
24376642 TGGAGGAAGC
* *
24376652 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATATGGTGACTCTGCCACATATATCT
* * * * *
24376706 GTTCTGGTGGCTCTGCCACGATTATCTATATATGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCT-GATATGGTGACTCTGCCACATATATCT
24376760 GTTCTGG
1 GTTCTGG
24376767 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATATGGTGACTCTGCCACATATATCT
Found at i:24379624 original size:27 final size:26
Alignment explanation
Indices: 24379560--24379671 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
24379550 AGCATGGCTG
* *
24379560 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
24379586 CCATATATAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
24379614 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
24379641 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
24379668 CCAG
1 CCAG
24379672 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.05
27 54 0.73
28 16 0.22
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:24379624 original size:54 final size:54
Alignment explanation
Indices: 24379560--24379671 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
24379550 AGCATGGCTG
* * *
24379560 CCAGAACAGATA-ATGTGACAGAGTCACCATATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
24379614 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
24379668 CCAG
1 CCAG
24379672 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:24380080 original size:8 final size:8
Alignment explanation
Indices: 24380064--24380093 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24380054 CTCAAAATAC
24380064 CGGCTTTT
1 CGGCTTTT
*
24380072 CGGCATTT
1 CGGCTTTT
24380080 CGGCTTTT
1 CGGCTTTT
24380088 CGGCTT
1 CGGCTT
24380094 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:24381302 original size:26 final size:26
Alignment explanation
Indices: 24381272--24381353 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
24381262 TGAAATGCCC
24381272 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24381298 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
24381324 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24381350 ATCA
1 ATCA
24381354 ATTTTTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24392376 original size:28 final size:28
Alignment explanation
Indices: 24392319--24392382 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
24392309 TGGGAAGTAG
***
24392319 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACAAGA
*
24392347 TTGGGCCTGATGGGCCATGTGAACAAGA
1 TTGGGCCTGATGGGCCATATGAACAAGA
24392375 TTGGGCCT
1 TTGGGCCT
24392383 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACAAGA
Found at i:24392729 original size:27 final size:27
Alignment explanation
Indices: 24392699--24393291 Score: 584
Period size: 27 Copynumber: 22.1 Consensus size: 27
24392689 TAATAAAGTG
**
24392699 AAATTACTGAAATACCCTCGATTTAAA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
24392726 AAATTA-TCAAAACACCCTCG--TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
24392751 AAATTCCTGAAATACCTTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24392778 AAATTACCGAAATACCCTCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24392805 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
24392832 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
24392858 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24392885 AAATTACTGAAATAACCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24392911 AAATTATTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
24392938 AAATTA-TCAAAATACTCC-CAATTTGTG
1 AAATTACT-GAAATAC-CCTCGATTTGTA
*
24392965 AAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
24392992 AAATTCCTGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
24393019 AAATTACCAAAATACCCTC-AATTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
** *
24393045 AAATTACAAAAATACCCTCGATTTGAA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
24393072 AAATTACTAAAATACTCTCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24393099 AAATTA-TCGAAACACCCTGGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
24393126 AAATTA-TCGAAACACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
24393153 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
24393180 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24393207 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24393234 AAATTA-TCGAAATACCCT-TATAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
* *
24393261 AAATTACCGAAATACCCTTG-TATTGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
24393288 AAAT
1 AAAT
24393292 GACCAACATA
Statistics
Matches: 476, Mismatches: 73, Indels: 34
0.82 0.13 0.06
Matches are distributed among these distances:
25 15 0.03
26 76 0.16
27 381 0.80
28 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:24392897 original size:107 final size:107
Alignment explanation
Indices: 24392699--24393278 Score: 645
Period size: 107 Copynumber: 5.4 Consensus size: 107
24392689 TAATAAAGTG
* * ** * * *
24392699 AAATTACTGAAATACCCTCGATTTAAAAAATTATCAAAACACCCTCG-TTGTGAAATTCCTGAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTACTGAAA
* * * *
24392763 TACCTTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTG
66 TACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* *
24392805 AAATTACCGAAACACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTACTGAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTACTGAAA
* *
24392870 TACCCTCGATTTGTAAAATTACTGAAATAACCTCGA-TTGTG
66 TACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
** * *
24392911 AAATTATTGAAATACCCTCAATTTGTAAAATTATCAAAATACTCC-CAATTTGTGAAATTA-TCG
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC-CCTCGA-TTGTGAAATTACT-G
* * *
24392974 AAACACCCTCGATTTGTAAAATTCCTGAAATACCCCCGATTTGTA
63 AAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * *
24393019 AAATTACCAAAATACCCTCAA-TTGTGAAATTACAAAAATACCCTCGATT-TGAAAAATTACTAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTGTG--AAATTACTGA
* * * *
24393082 AATACTCTCGATTTGTGAAATTA-TCGAAACACCCTGGATTTGTA
64 AATACCCTCGATTTGTAAAATTACT-GAAATACCCTCGATTTGTA
* * ** * * *
24393126 AAATTATCGAAACACCCTCAATTTGTAAAATTACTGAAACACCCTCGATTTGTAAAATTACTAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAA
* *
24393191 ATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTA
65 ATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * *
24393234 AAATTATCGAAATACCCT-TATAGTGTAAAATTACCGAAATACCCT
1 AAATTACCGAAATACCCTCAAT-TTGTAAAATTACCAAAATACCCT
24393279 TGTATTGTAA
Statistics
Matches: 405, Mismatches: 54, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
105 2 0.00
106 91 0.22
107 178 0.44
108 131 0.32
109 2 0.00
110 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (107 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTACTGAAA
TACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:24393316 original size:54 final size:54
Alignment explanation
Indices: 24393150--24393318 Score: 130
Period size: 54 Copynumber: 3.1 Consensus size: 54
24393140 CCCTCAATTT
* * * * * * **
24393150 GTAAAATTACTGAAACACCCTCGATTTGTAAAATTA-CTAAAATACCCTCGAT-TT
1 GTAAAATTACCGAAACACCCTCGATTTGTAAAATGATC-CAAATAACAT-TATAGG
* * * * *
24393204 GTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTATAGT
1 GTAAAATTACCGAAACACCCTCGATTTGTAAAATGATCCAAATAACATTATAGG
* * *
24393258 GTAAAATTACCGAAATACCCTTG-TATTGTAAAATGA-CCAACATAACATTGTAGG
1 GTAAAATTACCGAAACACCCTCGAT-TTGTAAAATGATCCAA-ATAACATTATAGG
24393312 GTAAAAT
1 GTAAAAT
24393319 GATTGTTTTG
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 6 0.06
54 92 0.93
55 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (54 bp):
GTAAAATTACCGAAACACCCTCGATTTGTAAAATGATCCAAATAACATTATAGG
Found at i:24400851 original size:16 final size:18
Alignment explanation
Indices: 24400823--24400862 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
24400813 AATTATTGTT
24400823 TTTC-TTTTCTCTCA-A-
1 TTTCTTTTTCTCTCATAC
*
24400838 TTTCTTTTTGTCTCATAC
1 TTTCTTTTTCTCTCATAC
24400856 TTTCTTT
1 TTTCTTT
24400863 ACAAGATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 9 0.43
17 1 0.05
18 7 0.33
ACGTcount: A:0.10, C:0.23, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTTTTTCTCTCATAC
Found at i:24403388 original size:43 final size:43
Alignment explanation
Indices: 24403334--24403456 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
24403324 TCATACAATA
* * *
24403334 CCAACGTCCCAGACGTGGTCTTACATGTAGTCACATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACGTAATCACATAACGATG
24403377 CC-ACTGTCCCAG--GTAGGGTCTTACACGTAATCACATAACGATG
1 CCAAC-GTCCCAGACGT--GGTCTTACACGTAATCACATAACGATG
*
24403420 CCAACGTCCCAGACGTGGTGTTACACG-AATACACATA
1 CCAACGTCCCAGACGTGGTCTTACACGTAAT-CACATA
24403457 TCGGAATCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
41 2 0.03
42 5 0.07
43 58 0.84
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
CCAACGTCCCAGACGTGGTCTTACACGTAATCACATAACGATG
Found at i:24405853 original size:16 final size:17
Alignment explanation
Indices: 24405819--24405857 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
24405809 GATATAGGGA
*
24405819 TATTTTATTGAAATATT
1 TATTTTATTAAAATATT
*
24405836 TATTTT-TTAAAATTTT
1 TATTTTATTAAAATATT
24405852 TATTTT
1 TATTTT
24405858 CTTTTCCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTTATTAAAATATT
Found at i:24407381 original size:16 final size:16
Alignment explanation
Indices: 24407357--24407390 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24407347 CTTTTAACAA
24407357 AATGATTTACAAAAAT
1 AATGATTTACAAAAAT
* *
24407373 AATGGTTTACACAAAT
1 AATGATTTACAAAAAT
24407389 AA
1 AA
24407391 CTATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (16 bp):
AATGATTTACAAAAAT
Found at i:24408706 original size:50 final size:50
Alignment explanation
Indices: 24408645--24408769 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
24408635 GTTGCAAACT
24408645 TTAACTAACATGGGAGTTACATAATGCACGACATAATTTATGATGCA-ATC
1 TTAACTAACATGGGAGTTACATAATGCACGACATAATTTATGATGCATA-C
* * * *
24408695 TTAACTAACATGAGAGTTACATAATGCATGTCATTATTTATGATGCATAC
1 TTAACTAACATGGGAGTTACATAATGCACGACATAATTTATGATGCATAC
* *
24408745 TTAACTAACATAGAAGTTACATAAT
1 TTAACTAACATGGGAGTTACATAAT
24408770 CCATGACTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 66 0.99
51 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (50 bp):
TTAACTAACATGGGAGTTACATAATGCACGACATAATTTATGATGCATAC
Found at i:24415339 original size:31 final size:31
Alignment explanation
Indices: 24415298--24415361 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
24415288 CCTTTTCATA
* *
24415298 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
24415329 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
24415360 TT
1 TT
24415362 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:24415607 original size:24 final size:24
Alignment explanation
Indices: 24415555--24415744 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
24415545 GCTTTATCAT
*
24415555 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
24415580 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
24415604 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
24415627 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
24415651 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
24415675 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
24415699 ATAACTGGGGCATAAGCCC-TTGA
1 ATAACTGGGGCATAAGCCCTTTTA
24415722 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
24415745 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:24415631 original size:47 final size:48
Alignment explanation
Indices: 24415554--24415745 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 48
24415544 TGCTTTATCA
* *
24415554 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
24415603 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
24415650 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
24415698 GATAACTGGGGCATAAGCCC-TTGAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
24415745 T
1 T
24415746 CACTTCCTCC
Statistics
Matches: 134, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
47 70 0.52
48 51 0.38
49 13 0.10
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:24415655 original size:71 final size:72
Alignment explanation
Indices: 24415555--24415745 Score: 282
Period size: 71 Copynumber: 2.7 Consensus size: 72
24415545 GCTTTATCAT
* * *
24415555 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
24415619 GCCC-TTTA
64 GCCCTTTTA
*
24415627 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
24415692 CCTTTTG
66 CCTTTTA
24415699 ATAACTGGGGCATAAGCCC--TTGAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG-ATAACTGGGGCATAAGCCCTTTTT
24415746 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
70 3 0.03
71 73 0.66
72 34 0.31
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:24415819 original size:20 final size:20
Alignment explanation
Indices: 24415794--24415860 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
24415784 TTATGATTAC
24415794 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
24415814 ATCATGTGCGTATCATACAT
1 ATCATGTGCATATCATACAT
*
24415834 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
24415854 ACCATGT
1 ATCATGT
24415861 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:24417138 original size:27 final size:26
Alignment explanation
Indices: 24417103--24417180 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
24417093 GGGCATATTC
24417103 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
24417130 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
*
24417157 GTCTTTTTACCTGATAGGGGTATT
1 GTCATTTTACCT-ATAGGGGTATT
24417181 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 4 0.10
27 35 0.83
28 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:24417251 original size:27 final size:27
Alignment explanation
Indices: 24417225--24417603 Score: 194
Period size: 27 Copynumber: 14.0 Consensus size: 27
24417215 ATCTACAAAC
* *
24417225 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
24417252 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTTC-AGTAA-TTTTATAAA-T
** * *
24417281 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** *
24417308 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
** * * *
24417335 TGAGGGTATTTCGGTAATTTCATAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
** *
24417362 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCAGTAATTTTATAAAT
* * *
24417388 CTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTATAAAT
* *** *
24417416 CGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
** *
24417443 CAAGGGTAAAAT-AGTAATTCTATAAAT
1 CAAGGGT-ATTTCAGTAATTTTATAAAT
* ** *
24417470 CAAAGGTAAAAT-AGTAATTCTATAAAT
1 CAAGGGT-ATTTCAGTAATTTTATAAAT
* *** * * *
24417497 CGAGGGTAAAACTGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* * * *
24417524 CGAGGGTACTTT-GGTAATTTTACAAGT
1 CAAGGGTA-TTTCAGTAATTTTATAAAT
*
24417551 CGAA-GGTATTTCAGTAATTTTACAAAT
1 C-AAGGGTATTTCAGTAATTTTATAAAT
* **
24417578 CGAGGGTATTTGGGTAATTTTATAAA
1 CAAGGGTATTTCAGTAATTTTATAAA
24417604 CCGGGGGTAC
Statistics
Matches: 278, Mismatches: 62, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
26 8 0.03
27 238 0.86
28 19 0.07
29 13 0.05
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAT
Found at i:24417770 original size:81 final size:81
Alignment explanation
Indices: 24417401--24417826 Score: 360
Period size: 81 Copynumber: 5.3 Consensus size: 81
24417391 GGGGTATTTT
* * ** * * *
24417401 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTAT
1 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTAT
* * *
24417466 AAATCAAAGGTAAAAT
66 AAATCGAGGGTAAAAC
* ***
24417482 AGTAATTCTATAAATCGAGGGTAAAACT-GTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTA
1 AGTAATTCTATAAATCGAGGGTAAAA-TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTA
* * * ***
24417546 CAAGTCGAAGGTATTTC
65 TAAATCGAGGGTAAAAC
* * ** * * * ***
24417563 AGTAATTTTACAAATCGAGGGT-ATTTGGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTA
1 AGTAATTCTATAAATCGAGGGTAAAAT-GGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTA
* * * ****
24417627 CAACT-GGGGGTATTTT
65 TAAATCGAGGGTAAAAC
* * *
24417643 AGTAATT-TCAT-AATAGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTT
1 AGTAATTCT-ATAAATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTT
*
24417705 GTAAATCGAGGGTAAAAC
64 ATAAATCGAGGGTAAAAC
* * *
24417723 AATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGT
1 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTAT
*
24417788 AAATCGAGGGTGAAAC
66 AAATCGAGGGTAAAAC
*
24417804 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
24417827 CTTTGGTAAT
Statistics
Matches: 280, Mismatches: 55, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.00
79 43 0.15
80 32 0.11
81 203 0.73
82 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTAT
AAATCGAGGGTAAAAC
Found at i:24417834 original size:27 final size:27
Alignment explanation
Indices: 24417318--24417845 Score: 300
Period size: 27 Copynumber: 19.6 Consensus size: 27
24417308 CAGGGGTATT
* * *
24417318 TTGGTAATTTTACAAATTGAGGGT-AT
1 TTGGTAATTTTATAAATCGAGGGTAAA
* * * **
24417344 TTCGGTAATTTCATAAACCAAGGGTATT
1 TT-GGTAATTTTATAAATCGAGGGTAAA
* * **
24417372 TTGGTAATTTTACAAA-CTAGGGGTATT
1 TTGGTAATTTTATAAATCGA-GGGTAAA
* *
24417399 TTAGTAATTTTGTAAATCGAGGGTAAA
1 TTGGTAATTTTATAAATCGAGGGTAAA
*** * *
24417426 ACAGTAATTCTATAAATCAAGGGTAAA
1 TTGGTAATTTTATAAATCGAGGGTAAA
* * * * *
24417453 ATAGTAATTCTATAAATCAAAGGTAAA
1 TTGGTAATTTTATAAATCGAGGGTAAA
* * *
24417480 ATAGTAATTCTATAAATCGAGGGTAAAA
1 TTGGTAATTTTATAAATCGAGGGT-AAA
* * * **
24417508 CT-GTAATTCTGTAAATCGAGGGTACT
1 TTGGTAATTTTATAAATCGAGGGTAAA
* * * *
24417534 TTGGTAATTTTACAAGTCGAAGGT-AT
1 TTGGTAATTTTATAAATCGAGGGTAAA
* * *
24417560 TTCAGTAATTTTACAAATCGAGGGT-AT
1 TT-GGTAATTTTATAAATCGAGGGTAAA
* * **
24417587 TTGGGTAATTTTATAAACCGGGGGTACT
1 TT-GGTAATTTTATAAATCGAGGGTAAA
* * * **
24417615 TTGGTAATTTTACAACT-GGGGGTATT
1 TTGGTAATTTTATAAATCGAGGGTAAA
* * *
24417641 TTAGTAATTTCAT-AATAGAGGGTAAA
1 TTGGTAATTTTATAAATCGAGGGTAAA
* *
24417667 ATGGTAATTTTGTAAA-CTGAGGGTAAA
1 TTGGTAATTTTATAAATC-GAGGGTAAA
* *
24417694 ATGGTAATTTTGTAAATCGAGGGTAAA
1 TTGGTAATTTTATAAATCGAGGGTAAA
**** * *
24417721 ACAATAATTCTGTAAATCGAGGGTAAA
1 TTGGTAATTTTATAAATCGAGGGTAAA
* *
24417748 ATGGTAATTCTATAAATCGAGGGTAAA
1 TTGGTAATTTTATAAATCGAGGGTAAA
* *
24417775 ATGGTAATTTTGTAAATCGAGGGTGAAA
1 TTGGTAATTTTATAAATCGAGGGT-AAA
* * **
24417803 -CGGTAATTCTATAAATCGAGGGTACT
1 TTGGTAATTTTATAAATCGAGGGTAAA
*
24417829 TTGGTAATTTTACAAAT
1 TTGGTAATTTTATAAAT
24417846 TGAAGACATT
Statistics
Matches: 410, Mismatches: 78, Indels: 27
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.00
26 43 0.10
27 349 0.85
28 16 0.04
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34
Consensus pattern (27 bp):
TTGGTAATTTTATAAATCGAGGGTAAA
Found at i:24417839 original size:54 final size:54
Alignment explanation
Indices: 24417400--24417826 Score: 337
Period size: 54 Copynumber: 7.9 Consensus size: 54
24417390 AGGGGTATTT
** *
24417400 TAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
* * * * *
24417454 TAGTAATTCTATAAATCAAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
* *** * * * * **
24417508 CT-GTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAAGGT-ATT
1 -TAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
** ** * * * ***
24417561 TCAGTAATTTTACAAATCGAGGGT-ATTTGGGTAATTTTATAAACCGGGGGTACTT
1 T-AGTAATTTTGTAAATCGAGGGTAAAAT-GGTAATTCTATAAATCGAGGGTAAAA
* ** * * *** * *
24417616 TGGTAATTTTACAACT-GGGGGTATTTTAGTAATT-TCAT-AATAGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCT-ATAAATCGAGGGTAAAA
* * *
24417668 TGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
* * *
24417722 CAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
* * *
24417776 TGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTA
1 TAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
24417827 CTTTGGTAAT
Statistics
Matches: 299, Mismatches: 62, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
52 22 0.07
53 31 0.10
54 241 0.81
55 5 0.02
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (54 bp):
TAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
Found at i:24417863 original size:81 final size:81
Alignment explanation
Indices: 24417691--24417871 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 81
24417681 AACTGAGGGT
* *
24417691 AAAATGGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATGGTAAT
1 AAAATAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAAT
* * **
24417756 TCTATAAATCGAGGGT
66 TCTACAAATCGAAGAC
* * ** ***
24417772 AAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTACTTTGGTAAT
1 AAAATAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAAT
* *
24417837 TTTACAAATTGAAGAC
66 TCTACAAATCGAAGAC
*** *
24417853 ATTTTAGTAATTTGGTAAA
1 AAAATAGTAATTTTGTAAA
24417872 CTAAAGTATT
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (81 bp):
AAAATAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAAT
TCTACAAATCGAAGAC
Found at i:24422721 original size:27 final size:27
Alignment explanation
Indices: 24422698--24422751 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
24422688 GTGAAATTAT
24422698 CGTAAAACCCCTGTAGGGTAAAATGAC
1 CGTAAAACCCCTGTAGGGTAAAATGAC
* *
24422725 CGTAATACCCCTGTATGGTAAAATGAC
1 CGTAAAACCCCTGTAGGGTAAAATGAC
24422752 GATTATGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
CGTAAAACCCCTGTAGGGTAAAATGAC
Found at i:24422978 original size:27 final size:27
Alignment explanation
Indices: 24422887--24422987 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
24422877 ATGGAGGAAG
* * *
24422887 TACTG-TACTGGTGACTATGTCACATT
1 TACTGTTACTGGTGGCTTTGCCACATT
* * *
24422913 CACTATTACTGGTGG-TTATGCCACAAT
1 TACTGTTACTGGTGGCTT-TGCCACATT
*
24422940 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTTTGCCACATT
* **
24422967 TACTGTTTCTGGCAGCTTTGC
1 TACTGTTACTGGTGGCTTTGC
24422988 TACAATATCG
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
26 4 0.07
27 52 0.90
28 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACATT
Found at i:24435351 original size:17 final size:16
Alignment explanation
Indices: 24435324--24435357 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
24435314 TATTTAACCA
*
24435324 AAATTAAATTAGTTAT
1 AAATTAAATTAATTAT
24435340 AAATTAAAATTAATTAT
1 AAATT-AAATTAATTAT
24435357 A
1 A
24435358 TTATGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATTAAATTAATTAT
Found at i:24435361 original size:22 final size:22
Alignment explanation
Indices: 24435323--24435368 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
24435313 TTATTTAACC
*
24435323 AAAATTAAATTAGTTATAAATT
1 AAAATTAAATTAATTATAAATT
*
24435345 AAAATT-AATTATATTATGAATT
1 AAAATTAAATTA-ATTATAAATT
24435367 AA
1 AA
24435369 TATACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
AAAATTAAATTAATTATAAATT
Found at i:24438413 original size:16 final size:16
Alignment explanation
Indices: 24438389--24438423 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
24438379 CTTTTTCCTT
*
24438389 TTTCTTTCTTTCTTTA
1 TTTCCTTCTTTCTTTA
24438405 TTTCCTTCTTTCTTTA
1 TTTCCTTCTTTCTTTA
24438421 TTT
1 TTT
24438424 TTTTGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCCTTCTTTCTTTA
Found at i:24442782 original size:22 final size:22
Alignment explanation
Indices: 24442754--24442800 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
24442744 CCTTTTTGAA
24442754 CCCTTACCATTTCGTACCAAAT
1 CCCTTACCATTTCGTACCAAAT
*
24442776 CCCTTACCATTTCGTACCAATT
1 CCCTTACCATTTCGTACCAAAT
24442798 CCC
1 CCC
24442801 AAATACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.32
Consensus pattern (22 bp):
CCCTTACCATTTCGTACCAAAT
Found at i:24443120 original size:14 final size:14
Alignment explanation
Indices: 24443100--24443149 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
24443090 TAGGTACGTA
24443100 AAAAAAAAGAGTTCG
1 AAAAAAAA-AGTTCG
* *
24443115 AAAAAAAAATTTTG
1 AAAAAAAAAGTTCG
*
24443129 AAAAAAAAAATT--
1 AAAAAAAAAGTTCG
24443141 AAAAAAAAA
1 AAAAAAAAA
24443150 ATTGCATACG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 9 0.28
14 15 0.47
15 8 0.25
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (14 bp):
AAAAAAAAAGTTCG
Found at i:24443137 original size:15 final size:14
Alignment explanation
Indices: 24443115--24443152 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
24443105 AAAGAGTTCG
24443115 AAAAAAAAATTTTGA
1 AAAAAAAAATTTT-A
24443130 AAAAAAAAA--TTA
1 AAAAAAAAATTTTA
24443142 AAAAAAAAATT
1 AAAAAAAAATT
24443153 GCATACGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
15 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAAAAAAAATTTTA
Found at i:24447770 original size:22 final size:22
Alignment explanation
Indices: 24447742--24447788 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
24447732 CCTTTTTGAA
24447742 CCCTTACCATTTCGTACCAAAT
1 CCCTTACCATTTCGTACCAAAT
*
24447764 CCCTTACCATTTCGTACCAATT
1 CCCTTACCATTTCGTACCAAAT
24447786 CCC
1 CCC
24447789 AAATACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.32
Consensus pattern (22 bp):
CCCTTACCATTTCGTACCAAAT
Found at i:24455609 original size:34 final size:34
Alignment explanation
Indices: 24455571--24455637 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
24455561 ATATCAATGG
24455571 CAATAACAGTGTGGGTCTTAGCCC-ATTACAGTAA
1 CAATAACAGTGTGGGTCTTAGCCCAATT-CAGTAA
*
24455605 CAATATCAGTGTGGGTCTTAGCCCAATTCAGTA
1 CAATAACAGTGTGGGTCTTAGCCCAATTCAGTA
24455638 CAGTATCAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 28 0.90
35 3 0.10
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (34 bp):
CAATAACAGTGTGGGTCTTAGCCCAATTCAGTAA
Found at i:24463400 original size:47 final size:47
Alignment explanation
Indices: 24463342--24464078 Score: 1251
Period size: 47 Copynumber: 15.6 Consensus size: 47
24463332 TATTTGAATA
24463342 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
24463389 AATATGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24463438 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAAT-TGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24463484 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24463533 AATGTGAAAATGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24463580 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24463627 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24463674 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24463723 AATGTGAAAGTGTATATATTTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24463770 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
24463817 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24463864 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24463911 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
24463958 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
24464005 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
24464052 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
24464079 TCCCGAAGGG
Statistics
Matches: 653, Mismatches: 30, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
46 17 0.03
47 502 0.77
48 27 0.04
49 107 0.16
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:24465801 original size:27 final size:27
Alignment explanation
Indices: 24465770--24465833 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
24465760 CCCCAAGACT
24465770 GGTAAAATGACCAAAATACCCCTAAAG
1 GGTAAAATGACCAAAATACCCCTAAAG
* ** **
24465797 GGTAAAATGACTAATTTACCCCTCGAG
1 GGTAAAATGACCAAAATACCCCTAAAG
24465824 GGT-AAATGAC
1 GGTAAAATGAC
24465834 ATATATGTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.22
27 25 0.78
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCTAAAG
Found at i:24469959 original size:39 final size:39
Alignment explanation
Indices: 24469916--24469993 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
24469906 CTAAACCGAG
*
24469916 CTCATACATAATTTTCAAAAACTTAAACATTTTTTCTAA
1 CTCATACATAATTTTCAAAAACTGAAACATTTTTTCTAA
*
24469955 CTCATACATAATTTTCAGAAACTGAAACATTTTTTCTAA
1 CTCATACATAATTTTCAAAAACTGAAACATTTTTTCTAA
24469994 GTGTTAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.40
Consensus pattern (39 bp):
CTCATACATAATTTTCAAAAACTGAAACATTTTTTCTAA
Found at i:24469977 original size:21 final size:20
Alignment explanation
Indices: 24469916--24469977 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
24469906 CTAAACCGAG
24469916 CTCATACATAATTTTCAAAAA
1 CTCATACATAATTTTC-AAAA
* * * *
24469937 CTTAAACAT-TTTTTC-TAA
1 CTCATACATAATTTTCAAAA
24469955 CTCATACATAATTTTCAGAAA
1 CTCATACATAATTTTCA-AAA
24469976 CT
1 CT
24469978 GAAACATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
18 9 0.30
19 5 0.17
20 5 0.17
21 11 0.37
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.39
Consensus pattern (20 bp):
CTCATACATAATTTTCAAAA
Found at i:24469984 original size:21 final size:20
Alignment explanation
Indices: 24469916--24469984 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
24469906 CTAAACCGAG
*
24469916 CTCATACATAATTTTCAAAAA
1 CTCAAACATAATTTTC-AAAA
* * *
24469937 CTTAAACAT-TTTTTC-TAA
1 CTCAAACATAATTTTCAAAA
*
24469955 CTCATACATAATTTTCAGAAA
1 CTCAAACATAATTTTCA-AAA
*
24469976 CTGAAACAT
1 CTCAAACAT
24469985 TTTTTCTAAG
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
18 9 0.26
19 5 0.14
20 5 0.14
21 16 0.46
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (20 bp):
CTCAAACATAATTTTCAAAA
Found at i:24480675 original size:21 final size:21
Alignment explanation
Indices: 24480644--24480704 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
24480634 CCCTTGAAAC
24480644 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
24480664 AGGGCAACACGCCTGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
24480685 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
24480705 CCACTATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.21, C:0.28, G:0.39, T:0.11
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:24485542 original size:48 final size:46
Alignment explanation
Indices: 24485537--24485702 Score: 119
Period size: 48 Copynumber: 3.6 Consensus size: 46
24485527 CCTCATAGCG
* * *
24485537 ATGCCATGTCCCAAACATGGTCTTACAC-GAAATCTCAT--AT-CA
1 ATGCCATGTCCCAGACATGGTCTTACACTGAAACCACATACATGCA
* * * *
24485579 ACGCCATATCCCAGACATGGTCTTACA-TGAAATCACATACCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAAACCACATA-C-ATG-CA
* * ** * *
24485627 ATGCCATATCCCAGATATGGTCTTACACTGGCA-CACATATTAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAAACCACATA--CATG-CA
24485675 ATGCCATGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
24485703 GAGATCTCAT
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
42 33 0.33
46 2 0.02
48 63 0.62
49 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGAAACCACATACATGCA
Found at i:24485555 original size:42 final size:42
Alignment explanation
Indices: 24485493--24485610 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
24485483 ATGTCGGTGC
*
24485493 CAATGCCATGTCCCAGACATGGTCTTACAC-AGGACCTCATAG
1 CAATGCCATGTCCCAGACATGGTCTTACACGA-AACCTCATAG
* * * *
24485535 CGATGCCATGTCCCAAACATGGTCTTACACGAAATCTCATAT
1 CAATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATAG
* * *
24485577 CAACGCCATATCCCAGACATGGTCTTACATGAAA
1 CAATGCCATGTCCCAGACATGGTCTTACACGAAA
24485611 TCACATACCG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 64 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATAG
Found at i:24485557 original size:90 final size:90
Alignment explanation
Indices: 24485400--24485574 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 90
24485390 CCAAATAGAA
* ** ** ** * *
24485400 TGCCAAAGCCATGTCCCCGACATGGTCTTACGTGGGTCTACATATTGATGCCATATCCTAAATAT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACCAGGACCTACATAGCGATGCCATATCCCAAACAT
* *
24485465 GGTTTTATAC-AAAGTCTCATGTCGG
66 GGTCTTACACGAAA-TCTCATGTCGG
* *
24485490 TGCCAATGCCATGTCCCAGACATGGTCTTACACAGGACCT-CATAGCGATGCCATGTCCCAAACA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-CAGGACCTACATAGCGATGCCATATCCCAAACA
24485554 TGGTCTTACACGAAATCTCAT
65 TGGTCTTACACGAAATCTCAT
24485575 ATCAACGCCA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
90 63 0.90
91 7 0.10
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (90 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACCAGGACCTACATAGCGATGCCATATCCCAAACAT
GGTCTTACACGAAATCTCATGTCGG
Found at i:24489176 original size:27 final size:26
Alignment explanation
Indices: 24489146--24489217 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
24489136 AAAGCGTTCA
** *
24489146 TTTCATATTTTTCCACAAAGGTTTTTC
1 TTTCATATTACTCCACAAA-GTCTTTC
*
24489173 TTTCATATTACTCGACAAAGTCTTTC
1 TTTCATATTACTCCACAAAGTCTTTC
* *
24489199 -TTCATATTACGCCATAAAG
1 TTTCATATTACTCCACAAAG
24489218 GTTATCATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 16 0.42
26 6 0.16
27 16 0.42
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (26 bp):
TTTCATATTACTCCACAAAGTCTTTC
Found at i:24495993 original size:40 final size:40
Alignment explanation
Indices: 24495949--24496190 Score: 355
Period size: 40 Copynumber: 6.0 Consensus size: 40
24495939 CAGGATTTAA
*
24495949 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
**
24495989 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24496029 CCGGATATAGTAACTCGCACAAATGCCTTCTGAACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24496069 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24496109 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
24496149 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
24496189 CC
1 CC
24496191 CGTTATCATC
Statistics
Matches: 189, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 187 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:24504058 original size:36 final size:36
Alignment explanation
Indices: 24503959--24504153 Score: 208
Period size: 37 Copynumber: 5.4 Consensus size: 36
24503949 AAACCAAGTA
* * * *
24503959 CCTTCGGATTTAACCGGATATAGCACTCGCTCAAATG
1 CCTTCGGACTTAGCCGGATATAGTA-TCGCACAAATG
24503996 CCTTCGGGACTTAGCCCGGATATAGTATCGCAC-AATG
1 CCTTC-GGACTTAG-CCGGATATAGTATCGCACAAATG
24504033 CCTTCGGGACTTAGCCGGATATAGTAATCGCACAAATG
1 CCTTC-GGACTTAGCCGGATATAGT-ATCGCACAAATG
*
24504071 CCTTCGGACTTAGCCCGAT-TAGTA-CTG--C-AATG
1 CCTTCGGACTTAGCCGGATATAGTATC-GCACAAATG
*
24504103 CCTTCGGACTTAGCC-GA-ATAGTCACTAGCACAAATG
1 CCTTCGGACTTAGCCGGATATAGT-A-TCGCACAAATG
24504139 CCTTCGGACTTAGCC
1 CCTTCGGACTTAGCC
24504154 CGTTATCATC
Statistics
Matches: 140, Mismatches: 6, Indels: 25
0.82 0.04 0.15
Matches are distributed among these distances:
31 6 0.04
32 20 0.14
33 2 0.01
34 1 0.01
35 3 0.02
36 34 0.24
37 43 0.31
38 20 0.14
39 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (36 bp):
CCTTCGGACTTAGCCGGATATAGTATCGCACAAATG
Found at i:24515705 original size:24 final size:25
Alignment explanation
Indices: 24515663--24515710 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
24515653 CCTTCTCATA
*
24515663 TCTTCACTTCTCTCTCATTTTTCTC
1 TCTTCACTTCTCTCTCATTGTTCTC
24515688 TCTTCA-TTCTCT-TCCATTGTTCT
1 TCTTCACTTCTCTCT-CATTGTTCT
24515711 TCATTTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 14 0.67
25 6 0.29
ACGTcount: A:0.08, C:0.33, G:0.02, T:0.56
Consensus pattern (25 bp):
TCTTCACTTCTCTCTCATTGTTCTC
Found at i:24517476 original size:40 final size:40
Alignment explanation
Indices: 24517264--24517469 Score: 335
Period size: 40 Copynumber: 5.2 Consensus size: 40
24517254 AACCTAAGTA
* *
24517264 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
24517303 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
24517343 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
24517383 CCTTCGGGACTTAGCCCAGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
24517423 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
24517463 CCTTCGG
1 CCTTCGG
24517470 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.08
40 142 0.91
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:24518901 original size:13 final size:13
Alignment explanation
Indices: 24518885--24518912 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24518875 TTTATTATTT
24518885 TTAACACAAAATA
1 TTAACACAAAATA
24518898 TTAACACAAAATA
1 TTAACACAAAATA
24518911 TT
1 TT
24518913 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:24522572 original size:30 final size:29
Alignment explanation
Indices: 24522501--24522633 Score: 176
Period size: 29 Copynumber: 4.5 Consensus size: 29
24522491 TCGGCTATCG
* *
24522501 ATTATAAAAAGGGATGCTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
* * *
24522530 ACTATGAGAAGGGATGGTGACGACCATTGA
1 ATTATGAAAAGGGATGGTGACGACCA-TCA
*
24522560 ATTATGAAAAGGGATGGTGATGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
*
24522589 ACTATGAAAAGGGATGGTGACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATC-A
*
24522619 ATTATGAAAAAGGAT
1 ATTATGAAAAGGGAT
24522634 AGCTTTGGCT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
29 50 0.56
30 39 0.44
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACCATCA
Found at i:24522572 original size:59 final size:59
Alignment explanation
Indices: 24522497--24522633 Score: 213
Period size: 59 Copynumber: 2.3 Consensus size: 59
24522487 AGCTTCGGCT
* *
24522497 ATCG-ATTATAAAAAGGGATGCTGACGACCATCAACTATGAGAAGGGATGGTGACGACC
1 ATCGAATTATGAAAAGGGATGCTGACGACCATCAACTATGAAAAGGGATGGTGACGACC
* * *
24522555 ATTGAATTATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGACC
1 ATCGAATTATGAAAAGGGATGCTGACGACCATCAACTATGAAAAGGGATGGTGACGACC
*
24522614 ATCGAATTATGAAAAAGGAT
1 ATCGAATTATGAAAAGGGAT
24522634 AGCTTTGGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 3 0.04
59 68 0.96
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (59 bp):
ATCGAATTATGAAAAGGGATGCTGACGACCATCAACTATGAAAAGGGATGGTGACGACC
Found at i:24522734 original size:59 final size:57
Alignment explanation
Indices: 24522532--24522751 Score: 194
Period size: 59 Copynumber: 3.8 Consensus size: 57
24522522 GACCATCAAC
* * * * * * *
24522532 TATGAGAAGGGATGGTGACGACCATTGAATTATGAAAAGGGAT-GGTGATGACCATCAA
1 TATGAAAAGGAATGGTGACGACCATTGAATTATGAAAAGGAATAGCT--TGGCTATCGA
* *
24522590 CTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAAGG-ATAGCTTTGGCTATCGGA
1 -TATGAAAAGGAATGGTGACGACCATTGAATTATG-AAAAGGAATAGC-TTGGCTATC-GA
* * *
24522650 TATTGAAAATGAATTGTGATGACCATTGAATTATGAAAAGGAATAGCTTCGGCTATCGA
1 TA-TGAAAAGGAATGGTGACGACCATTGAATTATGAAAAGGAATAGCTT-GGCTATCGA
* * * *
24522709 TTATGAAAAGGAATGGCGACGACCA-TCAACTATGAACAGGAAT
1 -TATGAAAAGGAATGGTGACGACCATTGAATTATGAAAAGGAAT
24522752 GGTGACGGCC
Statistics
Matches: 135, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
58 15 0.11
59 70 0.52
60 49 0.36
61 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.24
Consensus pattern (57 bp):
TATGAAAAGGAATGGTGACGACCATTGAATTATGAAAAGGAATAGCTTGGCTATCGA
Found at i:24522742 original size:29 final size:29
Alignment explanation
Indices: 24522653--24522765 Score: 84
Period size: 29 Copynumber: 3.9 Consensus size: 29
24522643 TATCGGATAT
* * * *
24522653 TGAAAATGAATTGTGATGACCATTGAATTA
1 TGAAAAGGAATGGTGACGACCA-TCAATTA
* * * * *
24522683 TGAAAAGGAATAGCT-TCGGCTATCGATTA
1 TGAAAAGGAAT-GGTGACGACCATCAATTA
* *
24522712 TGAAAAGGAATGGCGACGACCATCAACTA
1 TGAAAAGGAATGGTGACGACCATCAATTA
* *
24522741 TGAACAGGAATGGTGACGGCCATCA
1 TGAAAAGGAATGGTGACGACCATCA
24522766 TGATTCCACT
Statistics
Matches: 62, Mismatches: 19, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
28 1 0.02
29 47 0.76
30 13 0.21
31 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (29 bp):
TGAAAAGGAATGGTGACGACCATCAATTA
Done.