Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 76 of 175
Found at i:23009607 original size:94 final size:94
Alignment explanation
Indices: 23009496--23009678 Score: 357
Period size: 94 Copynumber: 1.9 Consensus size: 94
23009486 CTGTACACAC
23009496 ATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGAT
1 ATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGAT
*
23009561 GTGAAAGTGTATATATGTGATAAGGCCGA
66 GTGAAAGTGTATAAATGTGATAAGGCCGA
23009590 ATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGAT
1 ATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGAT
23009655 GTGAAAGTGTATAAATGTGATAAG
66 GTGAAAGTGTATAAATGTGATAAG
23009679 TCCCGAAGGG
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.32, C:0.09, G:0.33, T:0.27
Consensus pattern (94 bp):
ATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGAT
GTGAAAGTGTATAAATGTGATAAGGCCGA
Found at i:23012066 original size:40 final size:40
Alignment explanation
Indices: 23012021--23012212 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
23012011 ATAACCACAA
* *
23012021 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
23012061 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * *
23012101 GCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * * * *
23012141 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
23012181 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
23012213 CATTCAAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:23012105 original size:80 final size:80
Alignment explanation
Indices: 23011992--23012211 Score: 239
Period size: 80 Copynumber: 2.8 Consensus size: 80
23011982 ACCCAAGTTT
* * * * * * * * *
23011992 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
23012055 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * * *
23012071 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
23012135 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
23012151 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
23012212 TCATTCAAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 12 0.10
80 96 0.83
81 7 0.06
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:23013930 original size:40 final size:40
Alignment explanation
Indices: 23013839--23014008 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
23013829 TCCTCGTTCA
* * * * *
23013839 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
23013878 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
23013918 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
23013958 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
23013998 AAGGCCTTCGG
1 AATGCCTTCGG
23014009 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23021207 original size:40 final size:40
Alignment explanation
Indices: 23021116--23021285 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
23021106 TCCTCGTTCA
* * * * *
23021116 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
23021155 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
23021195 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
23021235 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
23021275 AAGGCCTTCGG
1 AATGCCTTCGG
23021286 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23025285 original size:50 final size:50
Alignment explanation
Indices: 23025228--23025352 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
23025218 TATCCAAGAT
* ** * * * *
23025228 ATGGTCTTATATGGGAGTTCTCATATTGGTGCCCACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATCTCCCAAAC
* ** *
23025278 ATTGTCTTACCGGGGACCTCTCATCTCGGTGCCAACGCCATCTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATCTCCCAAAC
23025328 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
23025353 ATCTCAATGA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATCTCCCAAAC
Found at i:23030146 original size:13 final size:13
Alignment explanation
Indices: 23030128--23030153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23030118 ATTCTAAGAG
23030128 GAAATAATTTCAA
1 GAAATAATTTCAA
23030141 GAAATAATTTCAA
1 GAAATAATTTCAA
23030154 TTTTTCGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
GAAATAATTTCAA
Found at i:23030875 original size:3 final size:3
Alignment explanation
Indices: 23030862--23030911 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
23030852 CTCTATGAGA
* *
23030862 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCTT TCT TCT ACT TC- TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT
23030907 TCT TC
1 TCT TC
23030912 GGGATCCTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:23052997 original size:50 final size:50
Alignment explanation
Indices: 23052863--23053104 Score: 229
Period size: 50 Copynumber: 4.7 Consensus size: 50
23052853 GATAATAACA
* * * * *
23052863 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACT-TCTAATCT-CGG
* * * * * *
23052912 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTAATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTAATCTCGG
* * * *
23052962 TGCCCATGCCATGTCTCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTAATCTCGG
* *
23053012 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-CT-TC-TAATCTC--GG
*
23053067 ATGCCAATGCCATATCCCAAACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
23053105 TCTCTTTACC
Statistics
Matches: 160, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 75 0.47
51 1 0.01
52 2 0.01
53 6 0.04
55 2 0.01
56 35 0.22
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTAATCTCGG
Found at i:23055968 original size:18 final size:18
Alignment explanation
Indices: 23055946--23055989 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23055936 CTCTTTCTTT
*
23055946 CTCTTCTTCAACAACTTC
1 CTCTTCTGCAACAACTTC
* * *
23055964 TTCTTCAGCAACAATTTC
1 CTCTTCTGCAACAACTTC
23055982 CTCTTCTG
1 CTCTTCTG
23055990 TAGCAGCAGC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.05, T:0.41
Consensus pattern (18 bp):
CTCTTCTGCAACAACTTC
Found at i:23066838 original size:25 final size:25
Alignment explanation
Indices: 23066809--23066928 Score: 134
Period size: 25 Copynumber: 4.8 Consensus size: 25
23066799 GCAAATACTC
* *
23066809 TATAGCTCGTGAGAGCATACTGATT
1 TATAGCTCGTAAGAGCATACCGATT
* *
23066834 TATAGCTCGTAAGACCATACCAATT
1 TATAGCTCGTAAGAGCATACCGATT
* *
23066859 TATAGCTCGTGAGAGCATACCGATC
1 TATAGCTCGTAAGAGCATACCGATT
*
23066884 TACAGCTCG-AATGAGCATACCGATT
1 TATAGCTCGTAA-GAGCATACCGATT
* * *
23066909 CACAGCTCGTATGAGCATAC
1 TATAGCTCGTAAGAGCATAC
23066929 ATTTGCATGA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
24 1 0.01
25 78 0.98
26 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (25 bp):
TATAGCTCGTAAGAGCATACCGATT
Found at i:23067604 original size:22 final size:22
Alignment explanation
Indices: 23067560--23067600 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23067550 TATGTATATA
23067560 AGTAACCTTAAAATGGTTGATG
1 AGTAACCTTAAAATGGTTGATG
*
23067582 AGTAA-CTTAATATGGTTGA
1 AGTAACCTTAAAATGGTTGA
23067601 ATGATGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (22 bp):
AGTAACCTTAAAATGGTTGATG
Found at i:23072155 original size:47 final size:47
Alignment explanation
Indices: 23072097--23072592 Score: 821
Period size: 47 Copynumber: 10.5 Consensus size: 47
23072087 ATTCAGCCAA
23072097 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
23072144 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
23072191 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
23072238 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
23072287 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
23072336 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
23072383 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
23072430 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
23072477 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
23072524 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
23072571 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
23072593 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 332 0.78
49 96 0.22
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:23072767 original size:37 final size:37
Alignment explanation
Indices: 23072711--23072789 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
23072701 CCGAGCTCTA
* *
23072711 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
23072748 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23072785 AAGAC
1 AAGAC
23072790 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23074730 original size:29 final size:29
Alignment explanation
Indices: 23074695--23074768 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
23074685 GTTGTGAGAT
* *
23074695 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
23074724 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
23074753 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23074769 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:23078838 original size:96 final size:96
Alignment explanation
Indices: 23078722--23078925 Score: 385
Period size: 96 Copynumber: 2.1 Consensus size: 96
23078712 ATTCAGCCAA
23078722 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
23078785 GATAAGGCCTAATGGCCGATGTGATGAATGT
66 GATAAGGCCTAATAGCCGATGTGATGAATGT
23078816 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
23078881 GATAAGGCCTAATAGCCGATGTGATGAATGT
66 GATAAGGCCTAATAGCCGATGTGATGAATGT
23078912 GAAAGTGTATATAT
1 GAAAGTGTATATAT
23078926 GTGATGTGAT
Statistics
Matches: 107, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
94 7 0.07
96 100 0.93
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (96 bp):
GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:23078848 original size:49 final size:47
Alignment explanation
Indices: 23078722--23078930 Score: 391
Period size: 47 Copynumber: 4.4 Consensus size: 47
23078712 ATTCAGCCAA
23078722 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
23078769 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
23078816 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
23078865 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
23078912 GAAAGTGTATATATGTGAT
1 GAAAGTGTATATATGTGAT
23078931 GTGATGAATG
Statistics
Matches: 159, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
47 112 0.70
49 47 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:23078929 original size:16 final size:16
Alignment explanation
Indices: 23078908--23078955 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
23078898 GATGTGATGA
23078908 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
*
23078924 ATGTG-ATGTG-ATGA-
1 ATGTGAAAGTGTAT-AT
23078938 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
23078954 AT
1 AT
23078956 ATGTGATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 7 0.27
15 10 0.38
16 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (16 bp):
ATGTGAAAGTGTATAT
Found at i:23078951 original size:126 final size:126
Alignment explanation
Indices: 23078802--23079196 Score: 610
Period size: 126 Copynumber: 3.0 Consensus size: 126
23078792 CCTAATGGCC
23078802 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
23078867 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
66 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
23078928 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
23078993 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
66 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * * *
23079054 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCG
1 GAT---G--TGAT-G--AATGTGA--AA-GT----GTATATATATGTGATAAGGCCTAATGGCCG
*
23079119 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
51 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
23079184 TGTATATATGT
116 TGTATATATGT
23079195 GA
1 GA
23079197 CAGGGCCGAG
Statistics
Matches: 249, Mismatches: 5, Indels: 15
0.93 0.02 0.06
Matches are distributed among these distances:
126 129 0.52
129 1 0.00
131 3 0.01
132 1 0.00
134 6 0.02
136 2 0.01
137 2 0.01
141 105 0.42
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (126 bp):
GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
Found at i:23078962 original size:32 final size:30
Alignment explanation
Indices: 23078898--23078955 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
23078888 CCTAATAGCC
23078898 GATGTGATGAATGTGAAAGTGTATATATGT
1 GATGTGATGAATGTGAAAGTGTATATATGT
23078928 GATGTGATGAATGTGAAAGTGTATATAT
1 GATGTGATGAATGTGAAAGTGTATATAT
23078956 ATGTGATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.36
Consensus pattern (30 bp):
GATGTGATGAATGTGAAAGTGTATATATGT
Found at i:23079025 original size:47 final size:47
Alignment explanation
Indices: 23078928--23079247 Score: 514
Period size: 47 Copynumber: 6.8 Consensus size: 47
23078918 GTATATATGT
23078928 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
23078977 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
23079024 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
23079071 GATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
23079118 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
23079165 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * * *
23079212 AACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
23079248 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 235 0.92
49 21 0.08
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:23079422 original size:37 final size:37
Alignment explanation
Indices: 23079366--23079444 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
23079356 CCGAGCTCTA
* *
23079366 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
23079403 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23079440 AAGAC
1 AAGAC
23079445 TTTGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23086409 original size:21 final size:22
Alignment explanation
Indices: 23086373--23086413 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23086363 TATGTATATA
23086373 AGTAACCTTAAAATGGTTGACG
1 AGTAACCTTAAAATGGTTGACG
*
23086395 AGTAA-CTTAATATGGTTGA
1 AGTAACCTTAAAATGGTTGA
23086414 ATGATGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (22 bp):
AGTAACCTTAAAATGGTTGACG
Found at i:23090245 original size:28 final size:29
Alignment explanation
Indices: 23090213--23090311 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
23090203 ATAATAAGCC
*
23090213 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
23090241 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
23090269 CGTACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
23090298 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23090312 CAATCTCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:23092150 original size:14 final size:14
Alignment explanation
Indices: 23092131--23092178 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
23092121 TTCAAAGCAA
23092131 TCCAATTTCTCATT
1 TCCAATTTCTCATT
*
23092145 TCCAA-TT-TCA-A
1 TCCAATTTCTCATT
*
23092156 GCCAATTTCTCATT
1 TCCAATTTCTCATT
23092170 TCCAATTTC
1 TCCAATTTC
23092179 AAGTCAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 5 0.19
14 13 0.48
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (14 bp):
TCCAATTTCTCATT
Found at i:23092162 original size:25 final size:25
Alignment explanation
Indices: 23092132--23092186 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
23092122 TCAAAGCAAT
23092132 CCAATTTCTCATTTCCAATTTCAAG
1 CCAATTTCTCATTTCCAATTTCAAG
23092157 CCAATTTCTCATTTCCAATTTCAAG
1 CCAATTTCTCATTTCCAATTTCAAG
*
23092182 TCAAT
1 CCAAT
23092187 CTTCAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.40
Consensus pattern (25 bp):
CCAATTTCTCATTTCCAATTTCAAG
Found at i:23096178 original size:77 final size:80
Alignment explanation
Indices: 23096019--23096186 Score: 198
Period size: 77 Copynumber: 2.1 Consensus size: 80
23096009 GGACTAAGAT
* *
23096019 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTA
* *
23096084 AATCCGGGTTAAGTC
66 AAACCGGGCTAAGTC
** * * * * *
23096099 CCGAAGGCATTCGTGCGTTAT-TAAA-TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTA
1 CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTA
* *
23096161 AAACTGGGCTATGTC
66 AAACCGGGCTAAGTC
23096176 CCGAAGGCATT
1 CCGAAGGCATT
23096187 TGAACGAGGA
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
77 36 0.48
78 18 0.24
79 3 0.04
80 18 0.24
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTA
AAACCGGGCTAAGTC
Found at i:23096183 original size:39 final size:39
Alignment explanation
Indices: 23096019--23096186 Score: 169
Period size: 40 Copynumber: 4.3 Consensus size: 39
23096009 GGACTAAGAT
* * * *
23096019 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGTGAGTTACTAAA-TCCGGGTTATGTC
* * * *
23096059 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGTGAGTTACTAAATCCGGGTTATGTC
* * *
23096099 CCGAAGGCATT-CGTGCGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTGTGTGAGTTACTAAATCCGGGTTATGTC
* * *
23096137 CCGAAGGCATTGTGTGAGTTACTAAAACTGGGCTATGTC
1 CCGAAGGCATTGTGTGAGTTACTAAATCCGGGTTATGTC
23096176 CCGAAGGCATT
1 CCGAAGGCATT
23096187 TGAACGAGGA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
38 32 0.29
39 35 0.32
40 39 0.35
41 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGTGAGTTACTAAATCCGGGTTATGTC
Found at i:23103622 original size:40 final size:39
Alignment explanation
Indices: 23103585--23103762 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 39
23103575 ATATCCGGAC
23103585 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
23103625 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
23103665 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * * *
23103705 TATGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
23103744 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
23103763 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 34 0.28
40 83 0.69
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:23103687 original size:80 final size:79
Alignment explanation
Indices: 23103591--23103760 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 79
23103581 GGACTAAGAT
* * *
23103591 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATGGTGCGAGATACT
* *
23103655 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
23103671 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATGGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATGGTGCGAGATACTAA
*
23103736 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
23103750 CCGAAGGCATT
1 CCGAAGGCATT
23103761 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 36 0.47
80 38 0.49
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATGGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:23105636 original size:15 final size:15
Alignment explanation
Indices: 23105616--23105646 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23105606 CTTTTTCCCT
23105616 AAATCTGTCCAACAC
1 AAATCTGTCCAACAC
*
23105631 AAATCTGTCCTACAC
1 AAATCTGTCCAACAC
23105646 A
1 A
23105647 TGTAGCACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.32, G:0.06, T:0.23
Consensus pattern (15 bp):
AAATCTGTCCAACAC
Found at i:23136204 original size:50 final size:51
Alignment explanation
Indices: 23136135--23136266 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
23136125 ATCATTCGAT
* * * * ** *
23136135 ACACGTAGTAGCCTTCACATAGTACTACACACATGATCAAAA-TTTTTGGT
1 ACACATAGTAGCCTCCACATAGTACTACACACATGACCAAAACCTTTCAGC
* *
23136185 TCACATAGTAGCCTCCACATATTACTACACACATGACCAAAACCTTTCAGC
1 ACACATAGTAGCCTCCACATAGTACTACACACATGACCAAAACCTTTCAGC
*
23136236 ACACATAGTAGCCTGCACATAGTACTACACA
1 ACACATAGTAGCCTCCACATAGTACTACACA
23136267 TGTGGCCATT
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 37 0.54
51 32 0.46
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (51 bp):
ACACATAGTAGCCTCCACATAGTACTACACACATGACCAAAACCTTTCAGC
Found at i:23138272 original size:21 final size:20
Alignment explanation
Indices: 23138243--23138288 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
23138233 CGAAAGGCAA
23138243 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
23138264 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
23138284 T-AACC
1 TCAACC
23138289 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:23138893 original size:14 final size:14
Alignment explanation
Indices: 23138874--23138900 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23138864 CATTTCTTGT
23138874 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
23138888 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
23138901 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:23142634 original size:13 final size:14
Alignment explanation
Indices: 23142606--23142645 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
23142596 ATAAAGCTGA
23142606 TAATAATTAATATAT
1 TAATAATT-ATATAT
*
23142621 ATTATAATTATATAT
1 -TAATAATTATATAT
23142636 TAATAATTAT
1 TAATAATTAT
23142646 CACCTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
15 6 0.27
16 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATAATTATATAT
Found at i:23150876 original size:19 final size:20
Alignment explanation
Indices: 23150838--23150876 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
23150828 ATTTTTAAGG
*
23150838 TTAAAATGGTAAATAGGTAA
1 TTAAAATGGTAAATAAGTAA
*
23150858 TTAAAAT-GTAATTAAGTAA
1 TTAAAATGGTAAATAAGTAA
23150877 AGAAAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
TTAAAATGGTAAATAAGTAA
Found at i:23151532 original size:42 final size:43
Alignment explanation
Indices: 23151461--23151580 Score: 143
Period size: 42 Copynumber: 2.7 Consensus size: 43
23151451 TTCTTAGGGT
* * * *
23151461 GCAAGTCAGTGAGTTACACAGCTTGGCACACGAGCATGT-GGA
1 GCAACTCAGTGAGTTACACTGCCTAGCACACGAGCATGTCGGA
* *
23151503 GTAACTCAGTGAGTTACACTGCCTAGCACACGGGCATGTCACACGGA
1 GCAACTCAGTGAGTTACACTGCCTAGCACACGAGCATGT----CGGA
23151550 GCAACTCAGTGAGTTACACTGCCTAGCACAC
1 GCAACTCAGTGAGTTACACTGCCTAGCACAC
23151581 AGGCTTGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 33 0.50
47 33 0.50
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (43 bp):
GCAACTCAGTGAGTTACACTGCCTAGCACACGAGCATGTCGGA
Found at i:23151574 original size:47 final size:47
Alignment explanation
Indices: 23151500--23151595 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
23151490 ACGAGCATGT
* *
23151500 GGAGTAACTCAGTGAGTTACACTGCCTAGCACACGGGCATGTCACAC
1 GGAGCAACTCAGTGAGTTACACTGCCTAGCACACAGGCATGTCACAC
*
23151547 GGAGCAACTCAGTGAGTTACACTGCCTAGCACACAGGCTTGTCACAC
1 GGAGCAACTCAGTGAGTTACACTGCCTAGCACACAGGCATGTCACAC
23151594 GG
1 GG
23151596 CCATGTGTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.19
Consensus pattern (47 bp):
GGAGCAACTCAGTGAGTTACACTGCCTAGCACACAGGCATGTCACAC
Found at i:23157386 original size:23 final size:23
Alignment explanation
Indices: 23157346--23157398 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
23157336 CTAAAAAGCT
*
23157346 CTTGTGGTGTATTCTGTGATACC
1 CTTGTGGCGTATTCTGTGATACC
*
23157369 CTTGTGGCGTAATT-TGTGATGCC
1 CTTGTGGCGT-ATTCTGTGATACC
*
23157392 TTTGTGG
1 CTTGTGG
23157399 TGAAATCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.43
Consensus pattern (23 bp):
CTTGTGGCGTATTCTGTGATACC
Found at i:23164621 original size:12 final size:12
Alignment explanation
Indices: 23164604--23164636 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
23164594 CAAGTCAATC
23164604 CCAAACTGATGA
1 CCAAACTGATGA
23164616 CCAAACTGATGA
1 CCAAACTGATGA
23164628 CCAAACTGA
1 CCAAACTGA
23164637 AGTAGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (12 bp):
CCAAACTGATGA
Found at i:23168825 original size:42 final size:42
Alignment explanation
Indices: 23168760--23168858 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
23168750 GTGGATACTT
*
23168760 CACAGCTCATGTGAACAGCATCATGTAGCTTACA-TTCTGACC
1 CACAGCTCATGTGAGCAGCATCATGTAGCTTACATTTC-GACC
* *
23168802 CACAGCTCGTGTGAGCAGTATCATGTAGCTTACATTTCGACC
1 CACAGCTCATGTGAGCAGCATCATGTAGCTTACATTTCGACC
*
23168844 CACGGCTCATGTGAG
1 CACAGCTCATGTGAG
23168859 TAGGCCCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 48 0.94
43 3 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (42 bp):
CACAGCTCATGTGAGCAGCATCATGTAGCTTACATTTCGACC
Found at i:23178039 original size:25 final size:24
Alignment explanation
Indices: 23178011--23178068 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
23178001 TATTATCAAT
* *
23178011 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAATA-ATTATTA
*
23178036 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTA--TTA
23178062 AATTATA
1 AATTATA
23178069 CAAATTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATGAAATAATAATTATTA
Found at i:23178135 original size:47 final size:49
Alignment explanation
Indices: 23178011--23178136 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 49
23178001 TATTATCAAT
* *
23178011 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* *** * *
23178062 AATTATA-CAAATTCATATAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
23178109 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
23178137 AAATATATTT
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
47 33 0.56
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.20
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:23178275 original size:25 final size:26
Alignment explanation
Indices: 23178243--23178297 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
23178233 TTATTAAATT
*
23178243 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
23178268 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
23178293 A-ATAT
1 ATATAT
23178298 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:23178485 original size:44 final size:45
Alignment explanation
Indices: 23178436--23178529 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
23178426 TACACCTCTG
* *
23178436 TTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCCA
1 TTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCA
** *
23178480 TTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCA
1 TTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCA
23178525 TTACA
1 TTACA
23178530 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (45 bp):
TTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCA
Found at i:23178529 original size:16 final size:16
Alignment explanation
Indices: 23178510--23178561 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
23178500 GATTTGCTAT
* *
23178510 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
23178526 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23178542 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23178558 TACA
1 TACA
23178562 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:23183749 original size:269 final size:270
Alignment explanation
Indices: 23183253--23183780 Score: 986
Period size: 269 Copynumber: 2.0 Consensus size: 270
23183243 GCTAATATAT
* *
23183253 ATAAATAAACGAATTGCTTCCAAAATCTTTGTCAAGCATGATTTACAGATACATCCTCCCAGCAT
1 ATAAATAAACGAATTGCTTCCAAAAACTTTGTCAAGCATGATTTACAGATACATCCTCCAAGCAT
*
23183318 AATAATGCTCTAATACATTAACAAAAACAAACTTCACTAACTGGAAAAATTTAGCATGCTGGTTG
66 AATAATACTCTAATACATTAACAAAAACAAACTTCACTAACTGGAAAAATTTAGCATGCTGGTTG
23183383 TGTTCTACCTGTTTAAAATCCAATTCTCGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
131 TGTTCTACCTGTTTAAAATCCAATTCTCGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
*
23183448 TAAAACTGCCCTAAACATGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTGC
196 TAAAACTGCCCTAAACAAGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTGC
23183513 TTCCAAATAA
261 TTCCAAATAA
*
23183523 ATAAATAAATGAATTGCTTCCAAAAACTTTGTCAAGCATGATTTACAGATACATCCTCCAAGCAT
1 ATAAATAAACGAATTGCTTCCAAAAACTTTGTCAAGCATGATTTACAGATACATCCTCCAAGCAT
23183588 AATAATACTCTAATACATTAACAAAAACAAACTTCACTAACTGG-AAAATTTAGCATGCTGGTTG
66 AATAATACTCTAATACATTAACAAAAACAAACTTCACTAACTGGAAAAATTTAGCATGCTGGTTG
*
23183652 TGTTCTACCTGTTTAAAATCCAATTCTTGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
131 TGTTCTACCTGTTTAAAATCCAATTCTCGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
*
23183717 TAAAACTGCCTTAAACAAGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTG
196 TAAAACTGCCCTAAACAAGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTG
23183781 TCAAGGGCAC
Statistics
Matches: 251, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
269 146 0.58
270 105 0.42
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (270 bp):
ATAAATAAACGAATTGCTTCCAAAAACTTTGTCAAGCATGATTTACAGATACATCCTCCAAGCAT
AATAATACTCTAATACATTAACAAAAACAAACTTCACTAACTGGAAAAATTTAGCATGCTGGTTG
TGTTCTACCTGTTTAAAATCCAATTCTCGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
TAAAACTGCCCTAAACAAGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTGC
TTCCAAATAA
Found at i:23199882 original size:22 final size:22
Alignment explanation
Indices: 23199854--23199897 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23199844 TGGTGGGTCC
23199854 ATTGAATTAAGTACAATTTGAG
1 ATTGAATTAAGTACAATTTGAG
*
23199876 ATTGAATTAAGTATAATTTGAG
1 ATTGAATTAAGTACAATTTGAG
23199898 TACCTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (22 bp):
ATTGAATTAAGTACAATTTGAG
Found at i:23202682 original size:16 final size:16
Alignment explanation
Indices: 23202661--23202692 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23202651 GTTTTGTTGC
*
23202661 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
23202677 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
23202693 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:23202977 original size:51 final size:51
Alignment explanation
Indices: 23202915--23203059 Score: 195
Period size: 51 Copynumber: 2.8 Consensus size: 51
23202905 GATACTGGTT
* *
23202915 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
* * * *
23202966 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATA
*
23203017 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
23203060 TTCACTTTCA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.04
51 74 0.93
52 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
Found at i:23203074 original size:51 final size:50
Alignment explanation
Indices: 23202915--23203085 Score: 170
Period size: 51 Copynumber: 3.4 Consensus size: 50
23202905 GATACTGGTT
*
23202915 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGA-TA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT-TTC-ACTA
* * * *
23202966 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCGA--AGCTATC-CGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCAC--TA
* *
23203017 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTTT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCAC-TA
* *
23203068 CACATAGTGGCCTACACA
1 CACATAGTAGCCTGCACA
23203086 CAGTTCATGC
Statistics
Matches: 97, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
50 5 0.05
51 88 0.91
52 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTA
Found at i:23204552 original size:16 final size:16
Alignment explanation
Indices: 23204524--23204592 Score: 50
Period size: 16 Copynumber: 4.0 Consensus size: 16
23204514 CTTGATTAAC
*
23204524 ACTA-GCACAAAGCCT
1 ACTAGGCACTAAGCCT
23204539 ACTAGGCACTAAGCCT
1 ACTAGGCACTAAGCCT
*
23204555 GAATAACACCGGCACTAAGCCT
1 -ACT---A--GGCACTAAGCCT
*
23204577 GCTAGGCACTAAGCCT
1 ACTAGGCACTAAGCCT
23204593 GAATAACACC
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
15 4 0.09
16 22 0.51
17 2 0.05
18 1 0.02
20 1 0.02
21 1 0.02
22 12 0.28
ACGTcount: A:0.33, C:0.32, G:0.19, T:0.16
Consensus pattern (16 bp):
ACTAGGCACTAAGCCT
Found at i:23204568 original size:22 final size:22
Alignment explanation
Indices: 23204543--23204653 Score: 93
Period size: 22 Copynumber: 5.6 Consensus size: 22
23204533 AAGCCTACTA
23204543 GGCACTAAGCCTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
*
23204565 GGCACTAAGCCTG-CT---A--
1 GGCACTAAGCCTGAATAACACC
23204581 GGCACTAAGCCTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
* *
23204603 GGCACTAAGCTTG-CT---A--
1 GGCACTAAGCCTGAATAACACC
*
23204619 GGCACTAAGCTTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
*
23204641 AGCACTAAGCCTG
1 GGCACTAAGCCTG
23204654 CTAGGCACTA
Statistics
Matches: 70, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
16 26 0.37
17 2 0.03
18 2 0.03
20 2 0.03
21 2 0.03
22 36 0.51
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (22 bp):
GGCACTAAGCCTGAATAACACC
Found at i:23204670 original size:38 final size:38
Alignment explanation
Indices: 23204499--23204672 Score: 240
Period size: 38 Copynumber: 4.6 Consensus size: 38
23204489 GGCTCAAAGT
* * * * *
23204499 CTGCTAGGCAATATGCTTGATTAACACTAGCACAAAGC
1 CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
* * *
23204537 CTACTAGGCACTAAGCCTGAATAACACCGGCACTAAGC
1 CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
* *
23204575 CTGCTAGGCACTAAGCCTGAATAACACCGGCACTAAGC
1 CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
*
23204613 TTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
1 CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
*
23204651 CTGCTAGGCACTAAACTTGAAT
1 CTGCTAGGCACTAAGCTTGAAT
23204673 CAATACATTC
Statistics
Matches: 122, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 122 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (38 bp):
CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
Found at i:23207329 original size:31 final size:31
Alignment explanation
Indices: 23207277--23207337 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
23207267 CTGTGTCTCA
*
23207277 GGCCATGTGGACATTCGAAGTAGGGACACAC
1 GGCCATGTGGACATTCAAAGTAGGGACACAC
* *
23207308 GGCCTTGTGGACGTTCAAAGTAGGGACACA
1 GGCCATGTGGACATTCAAAGTAGGGACACA
23207338 TGGCTGTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.21, G:0.33, T:0.18
Consensus pattern (31 bp):
GGCCATGTGGACATTCAAAGTAGGGACACAC
Found at i:23215647 original size:4 final size:4
Alignment explanation
Indices: 23215613--23215670 Score: 53
Period size: 4 Copynumber: 14.5 Consensus size: 4
23215603 TGAATAAACA
* * * * * **
23215613 AATG AACG AATG AGTG AACG AATG GATG AATG AATG AATG AATT AAAA
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
23215661 AATG AATG AA
1 AATG AATG AA
23215671 ATTGGGGCAC
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.52, C:0.03, G:0.24, T:0.21
Consensus pattern (4 bp):
AATG
Found at i:23238800 original size:27 final size:27
Alignment explanation
Indices: 23238780--23238908 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
23238770 GGGTATAACA
23238780 GTCATTTTACCCTATGGGGGTACTTT-G
1 GTCATTTTACCCTATGGGGGTA-TTTCG
* *
23238807 GTCATTTTATCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
23238834 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
23238861 GTCATTTTACCCTATTGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
23238888 GTCATTTTACCTTATGGGGGT
1 GTCATTTTACCCTATGGGGGT
23238909 CTCAGTGCAG
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 3 0.03
27 89 0.97
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:23252561 original size:51 final size:51
Alignment explanation
Indices: 23252485--23252664 Score: 170
Period size: 51 Copynumber: 3.5 Consensus size: 51
23252475 TATAAACACG
* *
23252485 TGTGTAGTACTAAGTGCAGGCTACTACGAGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGAGTACCGGA-AGATAATGGTCACA
* * * ** *
23252536 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGTTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGAGTACCGGAAGATAATGGTCACA
* * * * *
23252587 TGTGTAGTACTATGTGCAGGATACTAC-ATGAACCGGAA-AGT-TTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGA-GTACCGGAAGA-TAATGGTCACA
* *
23252637 TGTGTAGTACTAAGTGAAGGCTACTACG
1 TGTGTAGTACTATGTGCAGGCTACTACG
23252665 TGTATCGAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 32 0.30
51 74 0.69
52 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGAGTACCGGAAGATAATGGTCACA
Found at i:23255289 original size:20 final size:20
Alignment explanation
Indices: 23255264--23255302 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23255254 TACTTTCTTC
23255264 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
23255284 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
23255303 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:23256145 original size:28 final size:28
Alignment explanation
Indices: 23256109--23256366 Score: 448
Period size: 28 Copynumber: 9.2 Consensus size: 28
23256099 CAGTGATAGT
23256109 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
23256137 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
23256165 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
23256193 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
23256221 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
23256249 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
23256276 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
23256305 ACAGTGTGGGCCTTAGCCCAATATAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* *
23256332 ATCAGTGTAGGCCTTAGCCCAATATAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
23256361 ACAGTG
1 ACAGTG
23256367 CAGTGCAATA
Statistics
Matches: 222, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
27 4 0.02
28 214 0.96
29 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:23257110 original size:27 final size:27
Alignment explanation
Indices: 23256784--23257113 Score: 373
Period size: 27 Copynumber: 12.2 Consensus size: 27
23256774 GGTATAACAG
* *
23256784 TCATTTTACCCTATTGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
23256811 TTATTTTACCCTATAGGGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
23256837 GCTATTTTACCCTATGGAGGTATTTCGG
1 TC-ATTTTACCCTATGGGGGTATTTCGA
* *
23256865 TCATTTTACCCTATGAGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
23256892 TCATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
23256919 TCATTTTACCCTGTGGGGGTAATTT-GG
1 TCATTTTACCCTATGGGGGT-ATTTCGA
* *
23256946 TCATTTTACCCTGTGGGGGTAATTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
*
23256972 GTCATTTTACCCTATGGGGGTAATTCTG-
1 -TCATTTTACCCTATGGGGGTATTTC-GA
*
23257000 TCATTTTACCCTATGGGGGTAATTT-GG
1 TCATTTTACCCTATGGGGGT-ATTTCGA
* * *
23257027 TTATTTTACCCTGTGGGGGTAATTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
** * *
23257054 TCATTTTACCCTGCGGGGGTAATTCAA
1 TCATTTTACCCTATGGGGGTATTTCGA
23257081 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
23257108 TCATTT
1 TCATTT
23257114 ATCGACCTCT
Statistics
Matches: 259, Mismatches: 34, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.03
27 244 0.94
28 8 0.03
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:23257339 original size:17 final size:17
Alignment explanation
Indices: 23257317--23257351 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23257307 TTCATCCGTG
23257317 TGGGCCCAAAAGCCCAT
1 TGGGCCCAAAAGCCCAT
*
23257334 TGGGCCCAACAGCCCAT
1 TGGGCCCAAAAGCCCAT
23257351 T
1 T
23257352 TCGACCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.37, G:0.23, T:0.14
Consensus pattern (17 bp):
TGGGCCCAAAAGCCCAT
Found at i:23258684 original size:50 final size:50
Alignment explanation
Indices: 23258618--23258808 Score: 202
Period size: 50 Copynumber: 3.7 Consensus size: 50
23258608 TCCTGTACTA
* * **
23258618 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATG
* * * *
23258668 CCCATGCCATGTCCCAGACATGATCTTACAGGGGACCTCTCATCTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATG
* * * *
23258718 CCAACGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GATG
* *
23258774 CCAATTCCATGTCCCAAACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
23258809 TCCCATCCCC
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 79 0.69
53 2 0.02
56 33 0.29
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATG
Found at i:23262912 original size:27 final size:27
Alignment explanation
Indices: 23262882--23262958 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
23262872 CAATGATTCG
23262882 GGGAATCAGCACTTAGCAACCCCTCGA
1 GGGAATCAGCACTTAGCAACCCCTCGA
* *
23262909 GGGAATCAGCACTTAGCAACCCCTTGG
1 GGGAATCAGCACTTAGCAACCCCTCGA
23262936 GGGAATC-GACACTTAGCAACCCC
1 GGGAATCAG-CACTTAGCAACCCC
23262959 CTTCACATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.16
Consensus pattern (27 bp):
GGGAATCAGCACTTAGCAACCCCTCGA
Found at i:23263046 original size:129 final size:129
Alignment explanation
Indices: 23262816--23263060 Score: 427
Period size: 129 Copynumber: 1.9 Consensus size: 129
23262806 GTGGATTCAG
* * * *
23262816 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCACCAATGATTC
1 CACTTAGCAACCCCCTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATA
*
23262881 GGGGAATCAGCACTTAGCAACCCCTCGAGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCGA
66 GGGGAATCAACACTTAGCAACCCCTCGAGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCGA
23262945 CACTTAGCAACCCCCTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATA
1 CACTTAGCAACCCCCTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATA
* *
23263010 GGGGAATCAACACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCC
66 GGGGAATCAACACTTAGCAACCCCTCGAGGGAATCAGCACTTAGCAACCCC
23263061 CTTTTTATTC
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 109 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (129 bp):
CACTTAGCAACCCCCTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATA
GGGGAATCAACACTTAGCAACCCCTCGAGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCGA
Found at i:23263705 original size:33 final size:33
Alignment explanation
Indices: 23263663--23263817 Score: 124
Period size: 33 Copynumber: 4.6 Consensus size: 33
23263653 AAGATACGGT
23263663 GGAATCAGCACTTAGCAACCACCAATGAGTAGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTAGG
* *
23263696 GGAATCAGCACTTAGCAAGC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTAGG
* * *
23263723 GGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-TA-GG
* *
23263764 TGGAATCAGCACTTAGCAACCAACAATGAATAGG
1 -GGAATCAGCACTTAGCAACCACCAATGAGTAGG
23263798 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
23263818 CCCTTTTTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
27 20 0.21
28 1 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 39 0.40
34 2 0.02
35 2 0.02
36 3 0.03
38 1 0.01
39 2 0.02
40 1 0.01
41 4 0.04
42 17 0.18
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAGTAGG
Found at i:23273121 original size:27 final size:26
Alignment explanation
Indices: 23273071--23273252 Score: 184
Period size: 27 Copynumber: 6.7 Consensus size: 26
23273061 GGGTAAAACA
* * *
23273071 ATCATTTTATCCTATAGGGGTATTTTG
1 ATCATTTTACCCT-TCGGGGTATTTCG
* * *
23273098 GTTATTTTACCTTTCGGGGCTATTTCG
1 ATCATTTTACCCTTCGGGG-TATTTCG
* *
23273125 ATAATTTTACCCTTCGAGGGTATTTCA
1 ATCATTTTACCCTTCG-GGGTATTTCG
*
23273152 ATCATTTTACCCTTCGGGGGTAATTCG
1 ATCATTTTACCCTTC-GGGGTATTTCG
* *
23273179 GTCATTTTACCCTTCGGGGGTAATTCG
1 ATCATTTTACCCTTC-GGGGTATTTCG
* *
23273206 ATCATTTTACCCTCTAGGGGTAATTCG
1 ATCATTTTACCCT-TCGGGGTATTTCG
23273233 ATCATTTTTACCCTTCGGGG
1 ATCA-TTTTACCCTTCGGGG
23273253 GTAACTCGGC
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.04
27 114 0.86
28 14 0.11
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (26 bp):
ATCATTTTACCCTTCGGGGTATTTCG
Found at i:23273196 original size:81 final size:81
Alignment explanation
Indices: 23273059--23273267 Score: 233
Period size: 81 Copynumber: 2.6 Consensus size: 81
23273049 TTCCACTCTT
** * * * * * * *
23273059 AGGGGTAAAACAATCATTTTATCCTAT-AGGGGTATTTTGGTTATTTTACCTTTCGGGGCTATTT
1 AGGGGTAATTCAATCATTTTACCCT-TCGGGGGTAATTCGGTCATTTTACCCTTCGGGGCTAATT
23273123 CGATAATTTTACCCTTCG
65 CGATAATTTTACCC-TCG
* *
23273141 A-GGGTATTTCAATCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTC
1 AGGGGTAATTCAATCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGGGCTAATTC
* *
23273205 GATCATTTTACCCTCT
66 GATAATTTTACCCTCG
* * *
23273221 AGGGGTAATTCGATCATTTTTACCCTTCGGGGGTAACTCGGCCATTT
1 AGGGGTAATTCAATCA-TTTTACCCTTCGGGGGTAATTCGGTCATTT
23273268 AACAACCTTT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.04
81 74 0.69
82 29 0.27
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTAATTCAATCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGGGCTAATTC
GATAATTTTACCCTCG
Found at i:23274825 original size:25 final size:25
Alignment explanation
Indices: 23274774--23274827 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
23274764 TGAACCTCTG
*
23274774 ACCTCCTTACCACACCTATGACGCC
1 ACCTCCTTACCACACCTATGACACC
* * *
23274799 ACCTCCTTGCCACACCTGTGTCACC
1 ACCTCCTTACCACACCTATGACACC
23274824 ACCT
1 ACCT
23274828 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.48, G:0.09, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACACC
Found at i:23280054 original size:42 final size:43
Alignment explanation
Indices: 23280007--23280110 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
23279997 TTCTGAGGTG
* * *
23280007 TGATTTCATGTAAGACCATGTCTGGGGCATTGGCATCG-TATA
1 TGATTTCATGTAAGACCATGTCTGGGACAGTGACATCGATATA
* * *
23280049 TGATTTCGTGTAAGACCCTGTTTGGGACAGTGACATCGATATA
1 TGATTTCATGTAAGACCATGTCTGGGACAGTGACATCGATATA
* *
23280092 TTATATCATGTAAGACCAT
1 TGATTTCATGTAAGACCAT
23280111 ATCTAGGATA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.63
43 19 0.37
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTGGGACAGTGACATCGATATA
Found at i:23282770 original size:47 final size:49
Alignment explanation
Indices: 23282719--23282822 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 49
23282709 TTAGGATTTT
* * *
23282719 ATGTGATGGATGTGAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
* *
23282766 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAA-CCG-ATACATATGTGTGATAAGGCCGAATGGCCA
23282817 ATGTGA
1 ATGTGA
23282823 AATATATCTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 15 0.31
49 1 0.02
51 32 0.67
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.28
Consensus pattern (49 bp):
ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
Found at i:23282868 original size:48 final size:48
Alignment explanation
Indices: 23282790--23283161 Score: 418
Period size: 48 Copynumber: 7.8 Consensus size: 48
23282780 AACCCGTATA
* *
23282790 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATCTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATATGTGATATG
* * * *
23282840 TATATGTGGTAAAGCCAAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTGATATG
*
23282888 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTGATATG
* * * *
23282936 TATATGTGGTAAAGCCAAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTGATATG
*
23282984 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTGATATG
* *
23283032 TATATGTGGTAAAGCCGAATGGCCAATGTG--ATA-A-ATGTGAGCATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTGA-TATG
* * * * * *
23283077 CATATATGTGATAAGGCCGAATGGCCAATGTG--GTGA-ATATG-AAAATG
1 --TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATATATGTGATATG
* *
23283124 CATATATGCGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 --TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
23283162 GTAGGCGATG
Statistics
Matches: 279, Mismatches: 35, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
44 5 0.02
45 4 0.01
46 3 0.01
47 59 0.21
48 195 0.70
49 5 0.02
50 8 0.03
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGTGATATG
Found at i:23282914 original size:96 final size:96
Alignment explanation
Indices: 23282790--23283108 Score: 493
Period size: 96 Copynumber: 3.3 Consensus size: 96
23282780 AACCCGTATA
* *
23282790 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATCTGTGATATGTATATGTGGTAAAGC
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
23282855 CAAATGGCGAATGTGAAATATGTATGAGATATG
64 CAAATGGCGAATGTGAAATATGTATGAGATATG
23282888 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCA
23282953 AATGGCGAATGTGAAATATGTATGAGATATG
66 AATGGCGAATGTGAAATATGTATGAGATATG
*
23282984 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCA
* *
23283049 AATGGCCAATGTGATAA-ATG--TGAG-CATG
66 AATGGCGAATGTGA-AATATGTATGAGATATG
* * *
23283077 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 --TATATGTGGTAAAGCCGAATGGCTAATGTG
23283109 GTGAATATGA
Statistics
Matches: 210, Mismatches: 8, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
93 3 0.01
94 4 0.02
95 27 0.13
96 165 0.79
97 3 0.01
98 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.30
Consensus pattern (96 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCA
AATGGCGAATGTGAAATATGTATGAGATATG
Found at i:23283361 original size:37 final size:37
Alignment explanation
Indices: 23283311--23283462 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
23283301 GGAAATATAT
*
23283311 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
23283348 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
23283385 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
23283422 TCCGGGTAAGATCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
23283459 TCCG
1 TCCG
23283463 AGCTAAAGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:23293412 original size:15 final size:15
Alignment explanation
Indices: 23293392--23293421 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23293382 CCATTCCAGA
23293392 GCTACTACAATTGGT
1 GCTACTACAATTGGT
23293407 GCTACTACAATTGGT
1 GCTACTACAATTGGT
23293422 ACAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
GCTACTACAATTGGT
Found at i:23296492 original size:53 final size:53
Alignment explanation
Indices: 23296434--23296539 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
23296424 CCAAGTTTCA
23296434 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
1 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
23296487 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
1 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
23296540 CATATTTGGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (53 bp):
TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
Found at i:23300120 original size:24 final size:26
Alignment explanation
Indices: 23300084--23300131 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
23300074 CAATTGCTGG
23300084 AAATTTGAAAACGAAAA-AAGGAGTC
1 AAATTTGAAAACGAAAACAAGGAGTC
23300109 AAATTT-AAAACGAAAACAAGGAG
1 AAATTTGAAAACGAAAACAAGGAG
23300132 ATGAAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (26 bp):
AAATTTGAAAACGAAAACAAGGAGTC
Found at i:23308897 original size:77 final size:78
Alignment explanation
Indices: 23308811--23308964 Score: 229
Period size: 77 Copynumber: 2.0 Consensus size: 78
23308801 AGATGTTTTT
* * * * *
23308811 GAGTATTGTGATATATGCTTAAATGTTATGCGATTATATGAGTA-GGTGATATATGCTTGAATTT
1 GAGTATTGTGACATATGCTTAAATGTTATGAGATTATATGAGTATGGTGACATATGCTAGAATGT
*
23308875 TATGTGATTATAC
66 TAGGTGATTATAC
* *
23308888 GAGTATTGTGACATATGCTTAAATGTTATGAGATTATATGAGTATTGTGACATATGCTAGTATGT
1 GAGTATTGTGACATATGCTTAAATGTTATGAGATTATATGAGTATGGTGACATATGCTAGAATGT
23308953 TAGGTGATTATA
66 TAGGTGATTATA
23308965 TGTGTAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
77 42 0.62
78 26 0.38
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.42
Consensus pattern (78 bp):
GAGTATTGTGACATATGCTTAAATGTTATGAGATTATATGAGTATGGTGACATATGCTAGAATGT
TAGGTGATTATAC
Found at i:23308953 original size:39 final size:39
Alignment explanation
Indices: 23308810--23308966 Score: 201
Period size: 39 Copynumber: 4.1 Consensus size: 39
23308800 AAGATGTTTT
* *
23308810 TGAGTATTGTGATATATGCTTAAATGTTATGCGATTATA
1 TGAGTATTGTGACATATGCTTAAATGTTATGTGATTATA
* * * *
23308849 TGAGTA-GGTGATATATGCTTGAATTTTATGTGATTATA
1 TGAGTATTGTGACATATGCTTAAATGTTATGTGATTATA
* *
23308887 CGAGTATTGTGACATATGCTTAAATGTTATGAGATTATA
1 TGAGTATTGTGACATATGCTTAAATGTTATGTGATTATA
* *
23308926 TGAGTATTGTGACATATGC-TAGTATGTTAGGTGATTATA
1 TGAGTATTGTGACATATGCTTA-AATGTTATGTGATTATA
23308965 TG
1 TG
23308967 TGTAATATGG
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 35 0.34
39 67 0.66
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (39 bp):
TGAGTATTGTGACATATGCTTAAATGTTATGTGATTATA
Found at i:23328467 original size:15 final size:15
Alignment explanation
Indices: 23328449--23328482 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23328439 GATTATTCAT
23328449 TTTTTGTGTATTTTA
1 TTTTTGTGTATTTTA
* *
23328464 TTTTTGTTTTTTTTA
1 TTTTTGTGTATTTTA
23328479 TTTT
1 TTTT
23328483 GATTGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (15 bp):
TTTTTGTGTATTTTA
Found at i:23332256 original size:19 final size:19
Alignment explanation
Indices: 23332232--23332278 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23332222 TGACGCCTTT
*
23332232 TTTGCATT-CATTTCATACA
1 TTTGCATTACATTACAT-CA
23332251 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
23332270 TATGCATTA
1 TTTGCATTA
23332279 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:23334517 original size:4 final size:4
Alignment explanation
Indices: 23334508--23334535 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
23334498 TTCTTCCAAA
23334508 TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT
23334536 AATCATACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TCAT
Found at i:23335369 original size:18 final size:16
Alignment explanation
Indices: 23335331--23335373 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
23335321 AAAAATATTT
23335331 TCAAAAAAAAAGAAAA
1 TCAAAAAAAAAGAAAA
*
23335347 -GAAAAAAAAAGAACAAA
1 TCAAAAAAAAAG-A-AAA
23335364 TCAAAAAAAA
1 TCAAAAAAAA
23335374 TATTTTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
17 3 0.14
18 8 0.36
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.05
Consensus pattern (16 bp):
TCAAAAAAAAAGAAAA
Found at i:23335435 original size:12 final size:11
Alignment explanation
Indices: 23335409--23335450 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
23335399 AAAATGATGG
*
23335409 AAAAGAAAAGA
1 AAAAGAAAGGA
23335420 AAAAGAGAAGGA
1 AAAAGA-AAGGA
23335432 AAAAGAAAAGG-
1 AAAAG-AAAGGA
23335443 AAAAGAAA
1 AAAAGAAA
23335451 AAAGAGAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 3 0.11
11 11 0.39
12 13 0.46
13 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGGA
Found at i:23335437 original size:18 final size:18
Alignment explanation
Indices: 23335414--23335455 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
23335404 GATGGAAAAG
* *
23335414 AAAAGAAAAAGAGAAGGA
1 AAAAGAAAAAGAAAAGAA
*
23335432 AAAAGAAAAGGAAAAGAA
1 AAAAGAAAAAGAAAAGAA
23335450 AAAAGA
1 AAAAGA
23335456 GAGGCCAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAGAA
Found at i:23335452 original size:12 final size:11
Alignment explanation
Indices: 23335407--23335451 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
23335397 TGAAAATGAT
23335407 GGAAAAGAAAA
1 GGAAAAGAAAA
* *
23335418 GAAAAAGAGAA
1 GGAAAAGAAAA
23335429 GGAAAAAGAAAA
1 GG-AAAAGAAAA
23335441 GGAAAAGAAAA
1 GGAAAAGAAAA
23335452 AAGAGAGGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
GGAAAAGAAAA
Found at i:23337863 original size:45 final size:45
Alignment explanation
Indices: 23337717--23338690 Score: 378
Period size: 44 Copynumber: 21.8 Consensus size: 45
23337707 TGGCAAATCA
* * * * * *
23337717 TATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAA-TAA-TCC
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AAAGCAAGTCT
* * * * * ***
23337761 TATCTCCTTGAAGTTGCAGTGGAACGGATTAAATTTA-CAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * *
23337805 TATCTCCTTGAAGTTGCAGTGGAACAGACTGAAGAAAGTAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * ** *
23337850 TATCCCCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCAAATCT
1 TATCCCCCTGAAGTTGCAGTGGA-GCAGATTGAAGAAAGCAAGTCT
* * * * ** *
23337895 TATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCAGTAA-TCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * ** *
23337939 TATCCCCTTAAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAGCCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * *
23337983 TATCCCCCTGAAGTTGAAGTGAAGCAGACTGAAGAAAGTAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * ** * * *
23338028 TATCCCCCTGAAGTTGTAGTGGGGCAGGTTGAAGATGGAAAATAT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * * *
23338073 TATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCCAA-TAA-TCC
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AAAGCAAGTCT
* * * **
23338117 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTTA-CAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * *
23338161 TATCTCTCTAAAGTTGCAGT-GAGCAGACTGAAGAAAGCAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* *
23338205 TATCCCCCTAAAGTTGCAGTGGAACAGATTGAAGTTGTAAATTGC-AGATCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAA---G-AAA--GCAAG-TCT
* ** ** * * **
23338256 TATCTCTTTGAAGTTGCAGT--AG-AGA--GATCATATCAAACCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * * *
23338296 TATCTCCCTGAATTTGTAGTGGAACAGGTTGAAGATACCAA-TCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * ** *
23338340 TGTCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCTA-CTAA-TCC
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGC-AAGTCT
* * *
23338384 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAA--AA-TCC
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATT-GAA-GAAAGCAAGTCT
* * * * * * ** * *
23338428 TATACCTCTGAAGTTGTAGTAGGTCGGATCAAATTCACCAAATCCAAGTTT
1 TATCCCCCTGAAG-T-T-GCA-GT-GGAGCAGATTGAAGAAA-GCAAGTCT
* * * * * **
23338479 TATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATATCAAACCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * * * * * *
23338524 TATCTCCCTAAATTTTCAATGGAGCAGGTTAAAGATA-CAAATCG
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* **
23338568 TATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGCCA-CAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
** * * * *
23338612 TATATCCCTG-AGATTGCAGTGGAGTAGACTGAAGATAGCAAATCT
1 TATCCCCCTGAAG-TTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* ** * * *
23338657 CATTTCCCTGAAATTGCAGTGGAACAAATTGAAG
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAG
23338691 CTATAATTTG
Statistics
Matches: 699, Mismatches: 193, Indels: 75
0.72 0.20 0.08
Matches are distributed among these distances:
40 19 0.03
41 1 0.00
42 3 0.00
43 25 0.04
44 345 0.49
45 223 0.32
46 18 0.03
47 7 0.01
48 8 0.01
49 13 0.02
50 5 0.01
51 32 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
Found at i:23337901 original size:178 final size:177
Alignment explanation
Indices: 23337706--23338225 Score: 745
Period size: 178 Copynumber: 2.9 Consensus size: 177
23337696 AGAATAGATC
* *
23337706 ATGGCAAATCATATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
* *
23337771 AAGTTGCAGTGGAACGGATTAAATTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAACAGACTG
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGT-GAACAGACTG
23337836 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
130 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
* * * * * *
23337884 ATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCAGTAATCTTATCCCCTTA
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
* * * *
23337949 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGCCTTATCCCCCTGAAGTTGAAGTGAAGCAGACTG
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGAA-CAGACTG
* **
23338014 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGGTTGAAG
130 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
* * * * *
23338062 ATGGAAAATATTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCCAATAATCCTATCTCCCTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
* * * *
23338127 AAGTTACAGTGGAGCAGATTAAAGTTACAAGTCTTATCT-CTCTAAAGTTGCAGTGAGCAGACTG
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCT-TGAAGTTGCAGTGAACAGACTG
* * *
23338191 AAGAAAGCAAGTCTTATCCCCCTAAAGTTGCAGTG
130 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTG
23338226 GAACAGATTG
Statistics
Matches: 301, Mismatches: 39, Indels: 5
0.87 0.11 0.01
Matches are distributed among these distances:
177 43 0.14
178 258 0.86
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (177 bp):
ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGAACAGACTGA
AGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
Found at i:23340259 original size:20 final size:20
Alignment explanation
Indices: 23340235--23340273 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23340225 AATTATTCAT
*
23340235 TTTTTGTGTATTTTATTTTTG
1 TTTTTGTAT-TTTTATTTTTG
*
23340256 TTTTTTTATTTTTATTTT
1 TTTTTGTATTTTTATTTT
23340274 GTTGTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (20 bp):
TTTTTGTATTTTTATTTTTG
Found at i:23340262 original size:14 final size:14
Alignment explanation
Indices: 23340235--23340273 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
23340225 AATTATTCAT
*
23340235 TTTTTGTGTATTTTA
1 TTTTTGT-TTTTTTA
23340250 TTTTTGTTTTTTTA
1 TTTTTGTTTTTTTA
*
23340264 TTTTTATTTT
1 TTTTTGTTTT
23340274 GTTGTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (14 bp):
TTTTTGTTTTTTTA
Found at i:23340267 original size:19 final size:19
Alignment explanation
Indices: 23340245--23340284 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23340235 TTTTTGTGTA
*
23340245 TTTTATTTTTGTTTTTTTAT
1 TTTTA-TTTTGTTGTTTTAT
23340265 TTTTATTTTGTTGTTTTAT
1 TTTTATTTTGTTGTTTTAT
23340284 T
1 T
23340285 ATTTCTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.82
Consensus pattern (19 bp):
TTTTATTTTGTTGTTTTAT
Found at i:23340278 original size:22 final size:21
Alignment explanation
Indices: 23340245--23340293 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
23340235 TTTTTGTGTA
*
23340245 TTTTA-TTTTTGTTTTTTTAT
1 TTTTATTTTTTGTTTTATTAT
23340265 TTTTATTTTGTTGTTTTATTAT
1 TTTTATTTT-TTGTTTTATTAT
*
23340287 TTCTATT
1 TTTTATT
23340294 GATTATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 17 0.68
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (21 bp):
TTTTATTTTTTGTTTTATTAT
Found at i:23364741 original size:27 final size:27
Alignment explanation
Indices: 23364711--23364809 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
23364701 CCTATAGGCC
*
23364711 TATTTCGGTAATTTTACCCATCAAGGG
1 TATTTCAGTAATTTTACCCATCAAGGG
* * * **
23364738 TATTTCAATCATTTTACCCTTCGGGGG
1 TATTTCAGTAATTTTACCCATCAAGGG
23364765 TATTTTCA-TAATTTTACCCATCAAGGG
1 TA-TTTCAGTAATTTTACCCATCAAGGG
*
23364792 TATTTCAGAAATTTTACC
1 TATTTCAGTAATTTTACC
23364810 TAATAAGGGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 49 0.83
28 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (27 bp):
TATTTCAGTAATTTTACCCATCAAGGG
Found at i:23364750 original size:54 final size:54
Alignment explanation
Indices: 23364692--23364798 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
23364682 GGTATAACGG
* *
23364692 TCATTTTAGCCTAT-AGGCCTA-TTTCGGTAATTTTACCCATCAAGGGTATTTCAA
1 TCATTTTACCCT-TCAGGCCTATTTTC-ATAATTTTACCCATCAAGGGTATTTCAA
* **
23364746 TCATTTTACCCTTCGGGGGTATTTTCATAATTTTACCCATCAAGGGTATTTCA
1 TCATTTTACCCTTCAGGCCTATTTTCATAATTTTACCCATCAAGGGTATTTCA
23364799 GAAATTTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 41 0.89
55 4 0.09
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGCCTATTTTCATAATTTTACCCATCAAGGGTATTTCAA
Found at i:23367144 original size:24 final size:24
Alignment explanation
Indices: 23367116--23367162 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23367106 GTTAAAACTC
23367116 ATTCTAAAGAAAACTC-AAGAGAAA
1 ATTCT-AAGAAAACTCAAAGAGAAA
* *
23367140 ATTCTTAGAGAACTCAAAGAGAA
1 ATTCTAAGAAAACTCAAAGAGAA
23367163 TTTTCACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (24 bp):
ATTCTAAGAAAACTCAAAGAGAAA
Found at i:23382568 original size:24 final size:24
Alignment explanation
Indices: 23382521--23382569 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
23382511 TTTCACATTT
*
23382521 AAATCAATTTCATGAAAATCTGAA
1 AAATCAATTTCATGAAAATATGAA
*
23382545 AAATCAA-TTCATGAAGATGATGAA
1 AAATCAATTTCATGAAAAT-ATGAA
23382569 A
1 A
23382570 TTCGGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (24 bp):
AAATCAATTTCATGAAAATATGAA
Found at i:23393859 original size:16 final size:16
Alignment explanation
Indices: 23393838--23393869 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23393828 TCCATAGCTC
23393838 CTCCATCCTGATGATT
1 CTCCATCCTGATGATT
23393854 CTCCATCCTGATGATT
1 CTCCATCCTGATGATT
23393870 ATCTACACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (16 bp):
CTCCATCCTGATGATT
Found at i:23399293 original size:27 final size:27
Alignment explanation
Indices: 23399262--23399330 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
23399252 CTAATAGATG
23399262 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
*
23399289 AAAATGACTGAAATACTCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
*
23399316 AAAATGACCGAAATA
1 AAAATGACTGAAATA
23399331 TCCTTGAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCATAGGGT
Found at i:23413270 original size:13 final size:13
Alignment explanation
Indices: 23413254--23413287 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
23413244 AAAAGAAAGT
23413254 GAAAAGAATATTA
1 GAAAAGAATATTA
23413267 GAAAAGAATATTA
1 GAAAAGAATATTA
23413280 GAAAAGAA
1 GAAAAGAA
23413288 AAAGAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (13 bp):
GAAAAGAATATTA
Found at i:23433015 original size:5 final size:5
Alignment explanation
Indices: 23433005--23433036 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
23432995 AGTTCTATAC
*
23433005 TAATT TAATT TAATT TAATT TGATT TAATT TA
1 TAATT TAATT TAATT TAATT TAATT TAATT TA
23433037 TGTTTGTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:23433394 original size:12 final size:12
Alignment explanation
Indices: 23433377--23433402 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23433367 ATAAGGCTTA
23433377 TGCATGACATAT
1 TGCATGACATAT
23433389 TGCATGACATAT
1 TGCATGACATAT
23433401 TG
1 TG
23433403 GAGAACTAGC
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:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (12 bp):
TGCATGACATAT
Found at i:23437791 original size:48 final size:50
Alignment explanation
Indices: 23437673--23437909 Score: 214
Period size: 49 Copynumber: 4.7 Consensus size: 50
23437663 AAAGAGATCT
*
23437673 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGGTCC
23437729 CATGTAAGACCATGTCTGGGACATGGCATTGGCACC-AGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
* * * **
23437778 C-CGTAAGACCATGTCTGGAACATGGC-TTGGGCACCAATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATT-GGCACCAAGATGAGAGGTCC
* * * * ** * **
23437827 CATGTAAGACCATATCTTGGATATGGCATTGGTAGTACAG--GAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATGAGAGGTCC
* *
23437876 CATGTAAGGCCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
23437910 TGTTATTATC
Statistics
Matches: 152, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
47 2 0.01
48 29 0.19
49 57 0.38
50 24 0.16
51 3 0.02
52 2 0.01
56 35 0.23
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCC
Found at i:23437853 original size:50 final size:50
Alignment explanation
Indices: 23437717--23437858 Score: 175
Period size: 48 Copynumber: 2.9 Consensus size: 50
23437707 TCATTGAGAC
*
23437717 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT-GGCACCA
1 TATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCATTGGGCACCA
* *
23437766 GATGAGAGGTCCC-CGTAAGACCATGTC-TGGAACATGGC-TTGGGCACCAA
1 TATGAGAGGTCCCATGTAAGACCATGTCTTGG-ACATGGCATTGGGCACC-A
** * *
23437815 TATGAGAACTCCCATGTAAGACCATATCTTGGATATGGCATTGG
1 TATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCATTGG
23437859 TAGTACAGGA
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
47 4 0.05
48 26 0.33
49 23 0.29
50 18 0.23
51 7 0.09
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCATTGGGCACCA
Found at i:23445340 original size:56 final size:50
Alignment explanation
Indices: 23445244--23445483 Score: 186
Period size: 50 Copynumber: 4.7 Consensus size: 50
23445234 ATTTTTGTAA
* * *
23445244 AGAGATCCCATTTCAGACCATGTCTGGGACATGGCATTGGC-CTCATTGAGACTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-C---GAG--T-TG
* *
23445300 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGTTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTTG
* * *
23445350 AGAGGTCCCCTGTAAGACCATATCTGGGACATGGCA-TGAGCACC-AATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGT-TG
** * * *
23445400 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AG--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGTTG
* ** *
23445449 AAAAATCCCATGTAAGACCATGTCTGGGATATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
23445484 TTTGCCATTT
Statistics
Matches: 159, Mismatches: 19, Indels: 19
0.81 0.10 0.10
Matches are distributed among these distances:
49 37 0.23
50 76 0.48
51 3 0.02
52 2 0.01
53 3 0.02
56 37 0.23
57 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTTG
Found at i:23452666 original size:36 final size:36
Alignment explanation
Indices: 23452623--23452735 Score: 138
Period size: 36 Copynumber: 3.0 Consensus size: 36
23452613 CCGGGATAAG
23452623 TCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGC
1 TCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGC
*
23452659 TCCCGAAGGCATTTATGCTAGTGATTTTATCTGGGC
1 TCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGC
* * *
23452695 TAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGC
1 T----CCCGAAGGCATTTATGCTAG-TGATTTTATCCGGGC
23452735 T
1 T
23452736 AAGACCCGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
36 36 0.54
40 28 0.42
41 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (36 bp):
TCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGC
Found at i:23452735 original size:40 final size:40
Alignment explanation
Indices: 23452609--23452816 Score: 205
Period size: 40 Copynumber: 5.3 Consensus size: 40
23452599 CATTTGAATG
* * * *
23452609 ATATCCGGGATAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * *
23452649 TTATCCGGGCT----CCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
23452685 TTATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
23452725 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
23452765 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
23452805 ATATCC-GGCTAA
1 ATATCCGGGCTAA
23452817 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
36 35 0.24
39 7 0.05
40 101 0.69
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:23457680 original size:40 final size:40
Alignment explanation
Indices: 23457636--23457821 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
23457626 GCTACTCATT
*
23457636 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
23457676 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
23457716 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23457756 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
23457797 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23457822 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23464131 original size:40 final size:40
Alignment explanation
Indices: 23464076--23464222 Score: 233
Period size: 40 Copynumber: 3.7 Consensus size: 40
23464066 ATTTGAATGA
*
23464076 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
23464116 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
23464156 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
23464196 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGACCCGAAGGCATTT
23464223 GTGCGTGTTG
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:23464223 original size:40 final size:40
Alignment explanation
Indices: 23464075--23464286 Score: 232
Period size: 40 Copynumber: 5.3 Consensus size: 40
23464065 CATTTGAATG
* * *
23464075 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
23464115 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
23464155 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* *
23464195 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGTGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * * ** *
23464235 ATACCCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
23464275 ATATCC-GGCTAA
1 ATATCCGGGCTAA
23464287 ATTCCGAAGA
Statistics
Matches: 155, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 7 0.05
40 145 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:23467959 original size:20 final size:21
Alignment explanation
Indices: 23467934--23467987 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
23467924 AACTACTCGT
23467934 AGGTATTGATACTGACTTT-A
1 AGGTATTGATACTGACTTTAA
* * **
23467954 AGGTATCGATATTTTCTTTAA
1 AGGTATTGATACTGACTTTAA
23467975 ATGGTATTGATAC
1 A-GGTATTGATAC
23467988 CACTTGGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 15 0.58
21 2 0.08
22 9 0.35
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (21 bp):
AGGTATTGATACTGACTTTAA
Found at i:23474209 original size:22 final size:21
Alignment explanation
Indices: 23474184--23474224 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
23474174 CTCAATTCAC
*
23474184 CCAAAATTATTCTCAAAATTAG
1 CCAAAAATATTCT-AAAATTAG
23474206 CCAAAAATATTCTAAAATT
1 CCAAAAATATTCTAAAATT
23474225 TCTCAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (21 bp):
CCAAAAATATTCTAAAATTAG
Found at i:23479714 original size:38 final size:38
Alignment explanation
Indices: 23479663--23479738 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
23479653 GTACTTCTAC
23479663 AGAGTTCATTTCTTACGGTTTTTCTCTTCAAACCAACA
1 AGAGTTCATTTCTTACGGTTTTTCTCTTCAAACCAACA
*
23479701 AGAGTTCATTTCTTATGGTTTTTCTCTTCAAACCAACA
1 AGAGTTCATTTCTTACGGTTTTTCTCTTCAAACCAACA
23479739 CTTAACTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (38 bp):
AGAGTTCATTTCTTACGGTTTTTCTCTTCAAACCAACA
Found at i:23481850 original size:37 final size:37
Alignment explanation
Indices: 23481787--23481888 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
23481777 AGCTCAGACG
* *
23481787 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
23481824 AAATCTCCACACGTAGTCATCCGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
23481861 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
23481889 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:23482085 original size:47 final size:47
Alignment explanation
Indices: 23482007--23482596 Score: 991
Period size: 47 Copynumber: 12.5 Consensus size: 47
23481997 CCCTTCGGGA
* * * * * *
23482007 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23482054 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482101 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482148 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482195 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23482242 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482289 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23482338 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482385 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482432 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482479 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482528 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23482575 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
23482597 CAATGAATAA
Statistics
Matches: 511, Mismatches: 28, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
47 419 0.82
49 92 0.18
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23482384 original size:190 final size:190
Alignment explanation
Indices: 23482007--23482596 Score: 1022
Period size: 190 Copynumber: 3.1 Consensus size: 190
23481997 CCCTTCGGGA
* * * * * * * * *
23482007 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23482072 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* * *
23482135 TTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23482195 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23482260 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
23482325 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23482385 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAAATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23482450 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
23482515 TCGGCTATTAGGCCTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23482575 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
23482597 CAATGAATAA
Statistics
Matches: 383, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
188 92 0.24
190 291 0.76
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23487057 original size:43 final size:42
Alignment explanation
Indices: 23487009--23487225 Score: 328
Period size: 43 Copynumber: 5.0 Consensus size: 42
23486999 TATCGTACCA
* * *
23487009 ATGCCATTAGCCAGAC-ATGGTCTTACATAGAAATCTCATATCG
1 ATGCCAATAGCCAG-CTATGGTCTTACA-CGAAATCTCAAATCG
23487052 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCG
1 ATGCCAATAG-CCAGCTATGGTCTTACACGAAATCTCAAATCG
*
23487095 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCAAATTG
1 ATGCCAATAGCC-AGCTATGGTCTTACACGAAATCTCAAATCG
23487138 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCG
1 ATGCCAATAG-CCAGCTATGGTCTTACACGAAATCTCAAATCG
*
23487181 ATGCCAATAGCCTAACTATGGTCTTACACGAAATCTCAAATCG
1 ATGCCAATAGCC-AGCTATGGTCTTACACGAAATCTCAAATCG
23487224 AT
1 AT
23487226 ATTGGAACAT
Statistics
Matches: 163, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
42 4 0.02
43 142 0.87
44 17 0.10
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAATAGCCAGCTATGGTCTTACACGAAATCTCAAATCG
Found at i:23491974 original size:50 final size:50
Alignment explanation
Indices: 23491919--23492024 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
23491909 TATTGAGGTT
* * * * *
23491919 ATGAGAGG-TCCCACGTAAGACCATG-CATGGGACATGGCGTTGGTACCGAG
1 ATGAGAGGTTCCC-CGTAAAACCATGTC-TAGGACATGGCATGGGCACCGAG
*
23491969 ATGAGAGGTTCCCCGTAAAACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTTCCCCGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
23492019 ATGAGA
1 ATGAGA
23492025 ACTCTCATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 43 0.90
51 5 0.10
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTTCCCCGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:23492339 original size:20 final size:20
Alignment explanation
Indices: 23492314--23492352 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23492304 TGAGTTATTT
23492314 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
23492334 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
23492353 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:23492583 original size:198 final size:197
Alignment explanation
Indices: 23492246--23492615 Score: 652
Period size: 198 Copynumber: 1.9 Consensus size: 197
23492236 AAGGGTTAAG
23492246 AATATCTCAGTTATCAGTTAAAAAAAAGTTTCAGCAAAGGAGGAGTAAGTTATAATCATGAGTTA
1 AATATCTCAGTTATCAGTTAAAAAAAAGTTTCAGCAAAGGAGGAGTAAGTTATAATCATGAGTTA
* *
23492311 TTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAGTAAGTAAAGAAGAAAGTAAAGATCATGATAC
66 TTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAATAAGTAAAGAAGAAAGTAAAGATCATGAGAC
23492376 TTGATGATAATTTATGAGCATAATTATTTATGATAAATGTTGCTATTTATTTGCTTGTAAACTTA
131 TTGATGATAATTTATGAGCATAATTATTTATGATAAATGTTGCTATTTATTTGCTTGTAAACTTA
23492441 CT
196 CT
*
23492443 AATATCTCAGTTATCAGTTGAGAAAAAAA-TTTCAGCAAGGGAGGAGTAAGTTATAATCATGAGT
1 AATATCTCAGTTATCAGTT-A-AAAAAAAGTTTCAGCAAAGGAGGAGTAAGTTATAATCATGAGT
23492507 TATTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAATAAGTAAAGAAGAAAGTAAAGATCATGAG
64 TATTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAATAAGTAAAGAAGAAAGTAAAGATCATGAG
* * **
23492572 ACTTGATGATAATTTTTTAGTTTAATTATTTATGATAAATGTTG
129 ACTTGATGATAATTTATGAGCATAATTATTTATGATAAATGTTG
23492616 TTTTTTGTAA
Statistics
Matches: 164, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
197 19 0.12
198 138 0.84
199 7 0.04
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.32
Consensus pattern (197 bp):
AATATCTCAGTTATCAGTTAAAAAAAAGTTTCAGCAAAGGAGGAGTAAGTTATAATCATGAGTTA
TTTAAGTAAGCAAGTAAGTAAACAAGTAAGAGAATAAGTAAAGAAGAAAGTAAAGATCATGAGAC
TTGATGATAATTTATGAGCATAATTATTTATGATAAATGTTGCTATTTATTTGCTTGTAAACTTA
CT
Found at i:23502382 original size:5 final size:5
Alignment explanation
Indices: 23502361--23502400 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
23502351 AATATTGTTT
*
23502361 TTAAA -TAAA TT-AA TTAAA TTAAA TTAGA TTAAA TTAAA TT
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TT
23502401 CTTAATCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 8 0.26
5 23 0.74
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
TTAAA
Done.