Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 138 of 356
Found at i:44254491 original size:42 final size:42
Alignment explanation
Indices: 44254380--44254533 Score: 163
Period size: 42 Copynumber: 3.6 Consensus size: 42
44254370 AATCGTACCA
* * * *
44254380 ATGCCATATCCTAGATATGGT-TCTACATGTAATCTCGTATCA
1 ATGCCATATCCTAGATATGGTCT-TACACGAAATCTCATATCG
* *
44254422 ATGCCAATAGCC-AAACTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCTAGA-TATGGTCTTACACGAAATCTCATATCG
*
44254465 ATGCCATATCCTGGATATGGTCTTACAC-AAAGTCTCATA-CTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAA-TCTCATATC-G
*
44254507 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCTAGATATGGTCTTACA
44254534 TATAGTTTCA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 4 0.04
42 58 0.61
43 32 0.34
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
Found at i:44264443 original size:58 final size:58
Alignment explanation
Indices: 44264373--44264492 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
44264363 AGTATAAACG
44264373 ACAACTTTAGATAGTATTAGATATGGCCTAAATTTATCGAATGCAAAAACCACAGCTA
1 ACAACTTTAGATAGTATTAGATATGGCCTAAATTTATCGAATGCAAAAACCACAGCTA
44264431 ACAACTTTAGATAGTATTAGATATGGCCTAAATTTATCGAATGCAAAAACCACAGCTA
1 ACAACTTTAGATAGTATTAGATATGGCCTAAATTTATCGAATGCAAAAACCACAGCTA
44264489 ACAA
1 ACAA
44264493 TTCTTTCTCC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (58 bp):
ACAACTTTAGATAGTATTAGATATGGCCTAAATTTATCGAATGCAAAAACCACAGCTA
Found at i:44268173 original size:13 final size:15
Alignment explanation
Indices: 44268143--44268174 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
44268133 AAAAGGAAAA
44268143 AAAAGAATTAGTAAT
1 AAAAGAATTAGTAAT
44268158 AAAA-AATTAG-AAT
1 AAAAGAATTAGTAAT
44268171 AAAA
1 AAAA
44268175 TTTAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (15 bp):
AAAAGAATTAGTAAT
Found at i:44270178 original size:13 final size:13
Alignment explanation
Indices: 44270162--44270187 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44270152 ACTTTTTTAA
44270162 TTCCTTTTTAATT
1 TTCCTTTTTAATT
44270175 TTCCTTTTTAATT
1 TTCCTTTTTAATT
44270188 GCTTCTGACA
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:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTCCTTTTTAATT
Found at i:44276790 original size:16 final size:17
Alignment explanation
Indices: 44276771--44276805 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44276761 TATTTACATA
44276771 TTTA-TTTCTTTGCTAT
1 TTTATTTTCTTTGCTAT
*
44276787 TTTATTTTCTTTGTTAT
1 TTTATTTTCTTTGCTAT
44276804 TT
1 TT
44276806 CGTAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.11, C:0.09, G:0.06, T:0.74
Consensus pattern (17 bp):
TTTATTTTCTTTGCTAT
Found at i:44278428 original size:6 final size:6
Alignment explanation
Indices: 44278419--44278446 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
44278409 TTGCTTTTCC
44278419 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
44278447 CAAGTTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:44289902 original size:30 final size:30
Alignment explanation
Indices: 44289868--44289928 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44289858 TCCTTAACTC
44289868 AAACTTTTGCAAAATTAAAATTTTGCCCCT
1 AAACTTTTGCAAAATTAAAATTTTGCCCCT
* * * *
44289898 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTAAAATTTTGCCCCT
44289928 A
1 A
44289929 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTAAAATTTTGCCCCT
Found at i:44311596 original size:47 final size:47
Alignment explanation
Indices: 44311545--44312190 Score: 1045
Period size: 47 Copynumber: 13.7 Consensus size: 47
44311535 TTAGGATTCT
* * *
44311545 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
44311592 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
44311641 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
44311690 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
44311737 ATGTGATGAATGTAAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44311784 ATGTGATGAATGTGAAAGTG----TATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44311827 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44311874 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
44311923 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44311970 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
44312017 ATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTGATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
44312062 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
44312109 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
44312156 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
44312191 TCCCGAAGGG
Statistics
Matches: 567, Mismatches: 21, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
43 43 0.08
45 44 0.08
46 1 0.00
47 338 0.60
49 141 0.25
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:44311790 original size:22 final size:22
Alignment explanation
Indices: 44311762--44311833 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
44311752 AAGTGTATAT
44311762 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * *
44311784 ATGTGATGAATG--TGAAAGTG--T
1 ATGTGAT-AAGGCCT-AATG-GCCG
44311805 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
44311827 ATGTGAT
1 ATGTGAT
44311834 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
20 4 0.11
21 11 0.30
22 18 0.49
23 4 0.11
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:44311891 original size:233 final size:234
Alignment explanation
Indices: 44311568--44312190 Score: 1072
Period size: 233 Copynumber: 2.7 Consensus size: 234
44311558 GAACATGCAT
*
44311568 ATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
44311633 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
64 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
44311698 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATA
129 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTAAAAGTGTATATA
44311763 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
194 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
44311804 -TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
44311868 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
44311933 TGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATG
131 TGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTAAAAGTGTATATATG
44311998 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
196 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
44312037 TATATATGATAAGGCCTGATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 -ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* * * * * * *
44312102 ATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
65 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44312165 ATGTGAAAGTGTATAAATGTGATAAG
130 ATGTGAAAGTGTATATATGTGATAAG
44312191 TCCCGAAGGG
Statistics
Matches: 371, Mismatches: 14, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
233 241 0.65
235 130 0.35
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (234 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTAAAAGTGTATATATG
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:44311902 original size:186 final size:185
Alignment explanation
Indices: 44311545--44312190 Score: 994
Period size: 186 Copynumber: 3.4 Consensus size: 185
44311535 TTAGGATTCT
* * *
44311545 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
44311609 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
65 GTG-----ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
44311674 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
123 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
44311737 ATGTGATGAATGTAAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
44311802 TG-TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
66 TGATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
44311866 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
131 AATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
44311923 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
44311988 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TGATAAGG
66 TG---ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
44312051 CCTGATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
128 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * * *
44312109 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
44312174 TGTATAAATGTGATAAG
66 TG-AT--ATGTGATAAG
44312191 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 17, Indels: 24
0.91 0.04 0.05
Matches are distributed among these distances:
184 50 0.12
186 229 0.54
188 38 0.09
190 49 0.11
191 1 0.00
192 61 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (185 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:44312365 original size:37 final size:37
Alignment explanation
Indices: 44312309--44312387 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44312299 CCGAGCTCTA
* * *
44312309 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
44312346 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44312383 AAGAC
1 AAGAC
44312388 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44337321 original size:40 final size:40
Alignment explanation
Indices: 44337277--44337538 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
44337267 GCTCCTCGTT
* *
44337277 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
44337317 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
44337357 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
44337396 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
44337435 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
44337474 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
44337515 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44337539 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:44344479 original size:17 final size:17
Alignment explanation
Indices: 44344457--44344493 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
44344447 ACTCATTATT
44344457 TATTCAT-AACCTAAATA
1 TATTCATCAACC-AAATA
44344474 TATTCATCAACCAAATA
1 TATTCATCAACCAAATA
44344491 TAT
1 TAT
44344494 CTAATTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (17 bp):
TATTCATCAACCAAATA
Found at i:44346076 original size:56 final size:56
Alignment explanation
Indices: 44345939--44346077 Score: 206
Period size: 56 Copynumber: 2.5 Consensus size: 56
44345929 TCCCAGATAG
* * * * *
44345939 GGTCTTACTCACACACATTTATCGAAGTCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCACACACATATATCGATGTCACATATCAATGCCAACCTATAAAACGT
*
44345995 GGTCTTACTCTCACACATATATCGATGTCACATATCAATGCCAACCTATAAAACGT
1 GGTCTTACTCACACACATATATCGATGTCACATATCAATGCCAACCTATAAAACGT
* *
44346051 GGTCTTACTCGCACATATATATCGATG
1 GGTCTTACTCACACACATATATCGATG
44346078 CCATGGTATT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCGATGTCACATATCAATGCCAACCTATAAAACGT
Found at i:44360692 original size:41 final size:40
Alignment explanation
Indices: 44360647--44360779 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 40
44360637 TGAGGCATGT
* * *
44360647 ATGTGCATTTCAAGGGTATCGAAGTAC-GATCAGGGGAACGC
1 ATGTGCATTTCAGGGGTA-CGAAGTACAAAT-AGGGGAACAC
* *
44360688 ATGTGCATTTCAGGGGTACTGAAGTACAAATAGGGGCACAT
1 ATGTGCATTTCAGGGGTAC-GAAGTACAAATAGGGGAACAC
* * * *
44360729 ATGTGTATTTCAGGGGTACCGAAGTACAAATAGGAGCACAT
1 ATGTGCATTTCAGGGGTA-CGAAGTACAAATAGGGGAACAC
44360770 ATGTGCATTT
1 ATGTGCATTT
44360780 AAGAGAATAA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
40 1 0.01
41 77 0.95
42 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.26
Consensus pattern (40 bp):
ATGTGCATTTCAGGGGTACGAAGTACAAATAGGGGAACAC
Found at i:44361644 original size:12 final size:12
Alignment explanation
Indices: 44361627--44361654 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44361617 GGTCTAATTA
44361627 TCATTTAAAGTT
1 TCATTTAAAGTT
44361639 TCATTTAAAGTT
1 TCATTTAAAGTT
44361651 TCAT
1 TCAT
44361655 AGCTACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (12 bp):
TCATTTAAAGTT
Found at i:44363739 original size:79 final size:81
Alignment explanation
Indices: 44363603--44363787 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
44363593 TTGAATGATG
*
44363603 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
44363667 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
44363682 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
44363744 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
44363762 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44363788 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:44363801 original size:40 final size:40
Alignment explanation
Indices: 44363604--44363787 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
44363594 TGAATGATGT
* * * *
44363604 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
44363644 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
44363684 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44363722 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44363763 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44363788 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44363809 original size:79 final size:79
Alignment explanation
Indices: 44363656--44363820 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
44363646 GGACTAAGAT
* **
44363656 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
44363721 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
44363735 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
44363798 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
44363814 CCGAAGG
1 CCGAAGG
44363821 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:44371224 original size:79 final size:81
Alignment explanation
Indices: 44371084--44371268 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
44371074 TTGAATGATG
*
44371084 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
44371148 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * *
44371163 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGG-TTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCC-GGACTAAGAT-CCGAAGGC
*
44371224 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* *
44371243 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44371269 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 56 0.61
80 35 0.38
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:44371282 original size:40 final size:40
Alignment explanation
Indices: 44371085--44371268 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
44371075 TGAATGATGT
* * * *
44371085 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
44371125 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
44371165 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
44371203 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44371244 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44371269 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44371290 original size:79 final size:79
Alignment explanation
Indices: 44371137--44371301 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
44371127 GGACTAAGAT
* **
44371137 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
44371202 ATCCAGGTTAAGTC
66 ATCCAGGTTAAATC
* *
44371216 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
44371279 TATATCC-GGTTAAATT
63 TAAATCCAGGTTAAATC
44371295 CCGAAGG
1 CCGAAGG
44371302 TACGTAATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCAGGTTAAATC
Found at i:44375566 original size:50 final size:48
Alignment explanation
Indices: 44375450--44375681 Score: 153
Period size: 50 Copynumber: 4.7 Consensus size: 48
44375440 GTACGCATAG
* *** * *
44375450 TAGCCTGCATTTAGTACTACACATACGACCTAACAATTTGGTACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATTCGGTACGTAA
* *
44375498 TAGCCTGCACTTGGTACTACACACGTGACCTAACCA-TCGGATACATGTAA
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATTCGG-TAC--GTAA
* *** * * * *
44375548 TAGCCTGCACTTAGTACTACACACGTTATAGAAGCTATTGGGTATGCATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATTCGGTA--CGTAA
* * ** * * *
44375599 TAGCCTGCATTTAGTACTACACATGCAACCTAACAA-TCTAGTACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATTC-GGT--ACGTAA
*
44375649 TAGCCTGCACTTAGTACTACACATGTGACCTAA
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA
44375682 AACCGTCTTA
Statistics
Matches: 144, Mismatches: 30, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
47 3 0.02
48 33 0.23
49 1 0.01
50 70 0.49
51 32 0.22
52 4 0.03
53 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (48 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACAATTCGGTACGTAA
Found at i:44379834 original size:28 final size:28
Alignment explanation
Indices: 44379802--44379929 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
44379792 ATAGTAAGTC
*
44379802 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
44379830 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
44379859 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
44379887 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
44379916 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44379930 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44379892 original size:57 final size:57
Alignment explanation
Indices: 44379801--44379929 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
44379791 TATAGTAAGT
*
44379801 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
44379858 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
44379915 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
44379930 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:44381977 original size:27 final size:27
Alignment explanation
Indices: 44381947--44382124 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44381937 ATATTGATTC
* * * *
44381947 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44381974 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44382001 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44382029 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44382056 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44382083 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44382110 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44382125 GTACAGTTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44382086 original size:82 final size:81
Alignment explanation
Indices: 44381968--44382123 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44381958 TGCTATATAA
* *
44381968 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44382033 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44382050 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44382114 CACTTAGTGC
65 CACTTAGTGC
44382124 TGTACAGTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44395560 original size:40 final size:40
Alignment explanation
Indices: 44395505--44395601 Score: 151
Period size: 40 Copynumber: 2.4 Consensus size: 40
44395495 AATAGTATTT
44395505 GGCACTAAGTGTGCGATTTAAACTAGCTTCAG-CTATATGA
1 GGCACTAAGTGTGCGATTTAAACTAGCTT-AGACTATATGA
* *
44395545 GGCACTAAGTGTGCGATTTAAACTAGCTTTGACTATGTGA
1 GGCACTAAGTGTGCGATTTAAACTAGCTTAGACTATATGA
*
44395585 GGCGCTAAGTGTGCGAT
1 GGCACTAAGTGTGCGAT
44395602 ACCATCTTAG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
39 1 0.02
40 52 0.98
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTAGACTATATGA
Found at i:44398107 original size:42 final size:42
Alignment explanation
Indices: 44398001--44398122 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
44397991 TATCGTACCA
* * *
44398001 ATGCCATACCCCAGATATGGTCTTACATGTAATCTCGTATCT
1 ATGCCATACCCCAGATATGGTCTTACACGTAATCTCATATCG
*
44398043 ATGCCA-ACAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCCATAC--CCCAGATATGGTCTTACACGTAA-TCTCATATCG
* *
44398086 ATTCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATACCCCAGATATGGTCTTACACGTAATCTCA
44398123 GTAGCCCTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 2 0.03
42 32 0.47
43 33 0.49
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATACCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:44401684 original size:93 final size:93
Alignment explanation
Indices: 44401556--44401726 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
44401546 GCCCCTAAGT
* * * *
44401556 GAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAGTTAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACCCAA
44401621 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
**
44401649 GAACTCGGACTCAACTCAACGAG-TTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACCCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACCCA
44401713 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
44401727 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACCCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:44401742 original size:46 final size:45
Alignment explanation
Indices: 44401551--44401734 Score: 117
Period size: 46 Copynumber: 4.0 Consensus size: 45
44401541 AACCCGCCCC
* * * ** * *
44401551 TAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACCCAACGAGTTC-GGAATGCGCAACCA
* *
44401597 TAAGTTAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTA-CA
1 TAAGTGAACTCGGACTCAACCCAACGAGTTCGGAATGCGC-A---ACCA
* * * * * *
44401643 TTTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACCCAACGAGTTCGGA-ATGCGCAACCA
*
44401690 TAAGTGAACTCGGACTCAACCCAACGAGTTCGG-ATGCTCAACCA
1 TAAGTGAACTCGGACTCAACCCAACGAGTTCGGAATGCGCAACCA
44401734 T
1 T
44401735 CCTAGTGACA
Statistics
Matches: 108, Mismatches: 19, Indels: 24
0.72 0.13 0.16
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 4 0.04
46 56 0.52
47 28 0.26
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACCCAACGAGTTCGGAATGCGCAACCA
Found at i:44409073 original size:93 final size:93
Alignment explanation
Indices: 44408958--44409128 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
44408948 GCCCCTAAGT
* * *
44408958 GAACTCGGACTCAACTCTACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
44409023 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
44409051 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
44409116 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44409129 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:44409114 original size:46 final size:46
Alignment explanation
Indices: 44408953--44409125 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
44408943 AACCCGCCCC
* * * *
44408953 TAAGTGAACTCGGACTCAACTCTACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
44408999 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
44409047 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
44409092 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44409126 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:44413790 original size:27 final size:26
Alignment explanation
Indices: 44413747--44413834 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
44413737 TGGAGGAAGC
*
44413747 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
* *
44413774 GTTTTGGTGGCTCTGCCATAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
44413800 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
44413827 GTTCTGGT
1 GTTCTGGT
44413835 AGCCATGCCG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 15 0.28
27 38 0.72
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:44437072 original size:13 final size:13
Alignment explanation
Indices: 44437054--44437079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44437044 GGCCTCCGAG
44437054 GCCTATAACATAC
1 GCCTATAACATAC
44437067 GCCTATAACATAC
1 GCCTATAACATAC
44437080 CTAGAGGCAG
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:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
GCCTATAACATAC
Found at i:44443091 original size:43 final size:42
Alignment explanation
Indices: 44443009--44443144 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 42
44442999 TGAGACATCG
*
44443009 TGTAAGACCATGTCTGGGACACAGGCCTTG-ATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATTGTATT--GATTTACA
* *
44443052 TTTAAGACCATGTCTGGGACATCA-GCATTGTATCTGATTT-CG
1 TGTAAGACCATGTCTGGGACA-CAGGCATTGTAT-TGATTTACA
* * * *
44443094 TGTAAGGCCTTGTCTGGGACAGAGGCATTGTTATTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATTG-TATTGATTTACA
44443137 TGTAAGAC
1 TGTAAGAC
44443145 TAGATCCGGG
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.39
43 41 0.53
44 4 0.05
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACACAGGCATTGTATTGATTTACA
Found at i:44449111 original size:18 final size:18
Alignment explanation
Indices: 44449088--44449128 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
44449078 TGAATCTGTT
44449088 TAACGGTAAGATTTTCGG
1 TAACGGTAAGATTTTCGG
44449106 TAACGGTAAGATTTTCGG
1 TAACGGTAAGATTTTCGG
*
44449124 GAACG
1 TAACG
44449129 AAAATCCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (18 bp):
TAACGGTAAGATTTTCGG
Found at i:44453956 original size:40 final size:40
Alignment explanation
Indices: 44453901--44454024 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
44453891 GCTACTTGTT
*
44453901 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
44453941 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
* *
44453981 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
44454020 CAAAT
1 CAAAT
44454025 TGTAACAGCC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 22 0.31
40 45 0.63
41 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:44455818 original size:28 final size:28
Alignment explanation
Indices: 44455778--44455959 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
44455768 TAAATTGTAC
*
44455778 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
44455806 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
44455834 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
44455862 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
44455890 AGCATTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
44455918 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
44455945 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
44455960 GACTTAATAT
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 23 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.35
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:44468837 original size:46 final size:46
Alignment explanation
Indices: 44468784--44468959 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
44468774 TGATTGAGCA
44468784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
44468830 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44468875 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
44468923 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44468960 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44468940 original size:93 final size:93
Alignment explanation
Indices: 44468781--44468952 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
44468771 GGATGATTGA
* * * *
44468781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
44468846 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44468874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
44468939 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44468953 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44471473 original size:40 final size:40
Alignment explanation
Indices: 44471443--44471691 Score: 376
Period size: 40 Copynumber: 6.3 Consensus size: 40
44471433 GGACTAAGAT
* * * *
44471443 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
44471483 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
44471523 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
44471563 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
44471603 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
44471643 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGT-
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
44471681 CCGAAGGCATT
1 CCGAAGGCATT
44471692 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
38 11 0.06
39 22 0.11
40 163 0.83
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:44471616 original size:120 final size:118
Alignment explanation
Indices: 44471391--44471691 Score: 379
Period size: 120 Copynumber: 2.5 Consensus size: 118
44471381 TTGAATGCTG
* * * * * * * * * *
44471391 TCCGGGCTAAGT-CCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCGAAGGCATTC
44471455 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
** * *
44471510 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCATTC
* * *
44471575 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
64 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44471630 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCATT
44471692 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
118 11 0.07
119 33 0.21
120 110 0.70
121 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCATTCGT
GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:44479618 original size:39 final size:40
Alignment explanation
Indices: 44479374--44479634 Score: 285
Period size: 40 Copynumber: 6.5 Consensus size: 40
44479364 TTGAATGCTG
* * * * * *
44479374 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
44479414 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
44479454 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
44479494 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44479534 TGCGGGTTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * **
44479574 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTGCTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44479613 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
44479635 CTTGAACGAG
Statistics
Matches: 196, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.17
40 154 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:44482488 original size:21 final size:21
Alignment explanation
Indices: 44482462--44482510 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
44482452 GACTAAATCG
44482462 TAAAAGTTATAAAATTTGTCA
1 TAAAAGTTATAAAATTTGTCA
44482483 TAAAAGTTATAAAATTTGTCA
1 TAAAAGTTATAAAATTTGTCA
44482504 TAAAAGT
1 TAAAAGT
44482511 GTGTTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (21 bp):
TAAAAGTTATAAAATTTGTCA
Found at i:44485719 original size:17 final size:17
Alignment explanation
Indices: 44485697--44485730 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44485687 CACTAACTTG
* *
44485697 AAAATGTAATGACAATA
1 AAAATGAAATGAAAATA
44485714 AAAATGAAATGAAAATA
1 AAAATGAAATGAAAATA
44485731 TATATTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGAAATGAAAATA
Found at i:44505352 original size:40 final size:40
Alignment explanation
Indices: 44505315--44505539 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
44505305 GCTACTCGTT
* *
44505315 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
44505355 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
44505395 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
44505434 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
44505474 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44505515 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44505540 CATCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 39 0.25
40 107 0.67
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44505426 original size:79 final size:79
Alignment explanation
Indices: 44505315--44505539 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 79
44505305 GCTACTCGTT
* *
44505315 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAA-TGCCTTCGGGACTTAACCCG
*
44505379 GATTTAGTAACTCGCA
64 GATTTAATAACTCGCA
*
44505395 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
44505459 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * * * * * *
44505474 CAAATGCCTTCGGATCTTAGTCC-GAATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGAATATAGTAAC-TCGCACAATGCCTTCGGGACTTAACCCG
44505538 GA
64 GA
44505540 CATCATTCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 73 0.57
80 50 0.39
81 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAATAACTCGCA
Found at i:44505523 original size:119 final size:120
Alignment explanation
Indices: 44505315--44505539 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
44505305 GCTACTCGTT
* * * *
44505315 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGA
* *
44505380 ATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* **
44505434 CAAATGCCTTCGGGACTTAACCCGGATT-TAATAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATAATAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
44505497 GAATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 GAATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
44505540 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 3 0.03
119 67 0.74
120 21 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:44511831 original size:37 final size:37
Alignment explanation
Indices: 44511781--44511859 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44511771 TTATTACGAA
* * *
44511781 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44511818 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44511855 GTCTT
1 GTCTT
44511860 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44512137 original size:47 final size:47
Alignment explanation
Indices: 44511977--44512342 Score: 651
Period size: 47 Copynumber: 7.7 Consensus size: 47
44511967 GCCCTTTGGG
*
44511977 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
44512027 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
44512076 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
44512123 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44512170 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44512217 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44512264 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44512311 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
44512343 ATACTTTCAT
Statistics
Matches: 313, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
47 227 0.73
49 82 0.26
50 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:44515892 original size:40 final size:40
Alignment explanation
Indices: 44515847--44516082 Score: 219
Period size: 40 Copynumber: 5.9 Consensus size: 40
44515837 CGAATACACG
* * * *
44515847 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** *
44515887 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
44515927 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
44515967 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * * *
44516007 GTAACTC-GCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-A
* *
44516048 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
44516083 CATCATTCGA
Statistics
Matches: 160, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
40 145 0.91
41 15 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:44516068 original size:120 final size:120
Alignment explanation
Indices: 44515847--44516082 Score: 279
Period size: 120 Copynumber: 2.0 Consensus size: 120
44515837 CGAATACACG
* *
44515847 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGG
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACCAATGCTCTTCGGGG
*
44515912 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACA
* * * *
44515967 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TC-GCACCAATGC-CTTC-
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGA--CA-TAACACCAGCACCAATGCTCTTCG
* *
44516028 GGGTCTTAGTC-CGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
63 GGGT-TTAG-CACGGATAT-ATCAC-TAGCACGAAAGCTCTTCGGAACTTAGCCCGGA
44516083 CATCATTCGA
Statistics
Matches: 100, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
119 4 0.04
120 66 0.66
121 18 0.18
122 8 0.08
123 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACCAATGCTCTTCGGGG
TTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACA
Found at i:44516429 original size:29 final size:29
Alignment explanation
Indices: 44516390--44516468 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
44516380 CTTAATAATC
*
44516390 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44516420 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44516449 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44516469 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44516511 original size:43 final size:43
Alignment explanation
Indices: 44516450--44516552 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
44516440 TGCATTTCAA
44516450 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
44516493 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
44516536 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
44516553 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:44518470 original size:37 final size:37
Alignment explanation
Indices: 44518420--44518498 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44518410 TTATTACGAA
* * *
44518420 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44518457 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44518494 GTCTT
1 GTCTT
44518499 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44518754 original size:47 final size:47
Alignment explanation
Indices: 44518686--44518912 Score: 429
Period size: 47 Copynumber: 4.8 Consensus size: 47
44518676 CAATCGCCAC
*
44518686 TATATATCAC-TTCACATTCATCACATCGGCCATTAGGCCTTGTCACA
1 TATATA-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
44518733 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
44518780 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
44518827 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
44518874 TATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCC
44518913 ATACTATCAT
Statistics
Matches: 178, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
46 3 0.02
47 175 0.98
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
Found at i:44521197 original size:17 final size:17
Alignment explanation
Indices: 44521175--44521208 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44521165 TGCAATTCCC
44521175 ATTTGTTGGCAGATACT
1 ATTTGTTGGCAGATACT
44521192 ATTTGTTGGCAGATACT
1 ATTTGTTGGCAGATACT
44521209 TACTATCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (17 bp):
ATTTGTTGGCAGATACT
Found at i:44524654 original size:30 final size:30
Alignment explanation
Indices: 44524614--44524673 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44524604 TGAAAAATAC
*
44524614 TACAAGAACTAATTATTGAAATACATCTTG
1 TACAAGAACTAACTATTGAAATACATCTTG
* *
44524644 TACAATAACTAACTATTGAGATACATCTTG
1 TACAAGAACTAACTATTGAAATACATCTTG
44524674 GGCAGATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (30 bp):
TACAAGAACTAACTATTGAAATACATCTTG
Found at i:44526156 original size:2 final size:2
Alignment explanation
Indices: 44526149--44526241 Score: 89
Period size: 2 Copynumber: 47.0 Consensus size: 2
44526139 TCATTATAGT
* * * * *
44526149 AG AG AG AG AG AG AG AG AG AG AG AG GG AG GG AG GG AG GG AG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * *
44526191 AG AG GG AG AG AG GG AG AG AG AG AG -G GG AG AG AG AA AG AA AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
44526232 AG AG AG AG AG
1 AG AG AG AG AG
44526242 TGTGTGAGTG
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
1 1 0.01
2 70 0.99
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44526196 original size:22 final size:22
Alignment explanation
Indices: 44526152--44526237 Score: 102
Period size: 22 Copynumber: 4.0 Consensus size: 22
44526142 TTATAGTAGA
*
44526152 GAGAGAGAGAGAGAGAGAGAGG
1 GAGAGAGGGAGAGAGAGAGAGG
* * *
44526174 GAGGGAGGGAGGGAGGGAGAGG
1 GAGAGAGGGAGAGAGAGAGAGG
44526196 GAGAGAGGGAGAGAGAGAG-GG
1 GAGAGAGGGAGAGAGAGAGAGG
** *
44526217 GAGAGAGAAAGAAAGAGAGAG
1 GAGAGAGGGAGAGAGAGAGAG
44526238 AGAGTGTGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 18 0.34
22 35 0.66
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (22 bp):
GAGAGAGGGAGAGAGAGAGAGG
Found at i:44526983 original size:19 final size:19
Alignment explanation
Indices: 44526947--44526984 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44526937 TAAAAATATT
*
44526947 TTTATATTATTTTCATTAA
1 TTTATATTATTATCATTAA
44526966 TTTATATATATTAT-ATTAA
1 TTTATAT-TATTATCATTAA
44526985 AATGTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATATTATTATCATTAA
Found at i:44527215 original size:27 final size:27
Alignment explanation
Indices: 44527171--44527237 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 27
44527161 CTGATTTTCG
44527171 ATAGTTTGGTTTTTCGCTTACCCTGCCGT
1 ATAG-TTGG-TTTTCGCTTACCCTGCCGT
44527200 ATAGTTGGTTTTCGCTTACCCTGCCGT
1 ATAGTTGGTTTTCGCTTACCCTGCCGT
44527227 ATAGTTGGTTT
1 ATAGTTGGTTT
44527238 GTATGGATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 30 0.79
28 4 0.11
29 4 0.11
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (27 bp):
ATAGTTGGTTTTCGCTTACCCTGCCGT
Found at i:44538692 original size:40 final size:40
Alignment explanation
Indices: 44538655--44538840 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
44538645 GCTACTCGTT
* *
44538655 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
44538695 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
44538735 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
44538775 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
44538816 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44538841 CATCATTCGA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.86
41 15 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44538759 original size:80 final size:81
Alignment explanation
Indices: 44538622--44538840 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 81
44538612 AAATCACGTA
* * ** *
44538622 CCTTCGGAAT-TTAA-CCGGATATAG-CTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATT-
44538683 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
* * *
44538701 CCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 CCTTC-GGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTT
44538764 AGTAACTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
44538781 CCTTCGGATCTTAGTCCGGATATGGTCACCTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
44538841 CATCATTCGA
Statistics
Matches: 120, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
79 13 0.11
80 95 0.79
81 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
GTAACTCGCACAAATG
Found at i:44541250 original size:25 final size:24
Alignment explanation
Indices: 44541214--44541266 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
44541204 AAGTTCAAGC
44541214 GAGCCATATCAGGAA-GCTCATAAA
1 GAGCCATATCA-GAATGCTCATAAA
*
44541238 GAGCCTATATCAGAATGCTCATAGA
1 GAGCC-ATATCAGAATGCTCATAAA
44541263 GAGC
1 GAGC
44541267 TGCATTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGAATGCTCATAAA
Found at i:44541798 original size:21 final size:21
Alignment explanation
Indices: 44541759--44541798 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44541749 TCAATTTAAC
* *
44541759 ATCATTTTAATCCATTTCATT
1 ATCAATTTAATCCAATTCATT
*
44541780 ATCAATTTAATTCAATTCA
1 ATCAATTTAATCCAATTCA
44541799 CACCCTAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.47
Consensus pattern (21 bp):
ATCAATTTAATCCAATTCATT
Found at i:44545119 original size:15 final size:15
Alignment explanation
Indices: 44545099--44545130 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44545089 TAAAACTCAT
*
44545099 GTGAGCTTAAAATGG
1 GTGAGCCTAAAATGG
44545114 GTGAGCCTAAAATGG
1 GTGAGCCTAAAATGG
44545129 GT
1 GT
44545131 TTGGGTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.25
Consensus pattern (15 bp):
GTGAGCCTAAAATGG
Found at i:44555471 original size:39 final size:40
Alignment explanation
Indices: 44555357--44555541 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
44555347 GCTACTCGTT
*
44555357 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
44555397 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44555437 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
44555476 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTTACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAG-TAACTCGCA
44555517 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44555542 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 75 0.61
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44555501 original size:79 final size:81
Alignment explanation
Indices: 44555359--44555541 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
44555349 TACTCGTTCA
* * *
44555359 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
*
44555423 TTTAGTAA-CTCA-CACC
66 TATAGTAACCT-AGCA-C
**
44555439 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
44555501 ATATGGTTACCTAGCAC
65 ATATAGTAACCTAGCAC
*
44555518 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
44555542 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
TATAGTAACCTAGCAC
Found at i:44560545 original size:26 final size:26
Alignment explanation
Indices: 44560516--44560567 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44560506 TTGCCATGTT
44560516 TTAAAATTCTTTCCTGTGAATTTCGA
1 TTAAAATTCTTTCCTGTGAATTTCGA
44560542 TTAAAATTCTTTCCTGTGAATTTCGA
1 TTAAAATTCTTTCCTGTGAATTTCGA
44560568 AGGCTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (26 bp):
TTAAAATTCTTTCCTGTGAATTTCGA
Found at i:44566344 original size:118 final size:118
Alignment explanation
Indices: 44566136--44566374 Score: 460
Period size: 118 Copynumber: 2.0 Consensus size: 118
44566126 ACACAACCAG
44566136 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
1 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
*
44566201 CAATATTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
66 CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
44566254 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
1 GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
*
44566319 CAATACTTCATTTCAAAGGTTCGAGGCCACAAACCTACATATTGAAGGTAAAA
66 CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
44566372 GAA
1 GAA
44566375 AAGCACCAAT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (118 bp):
GAACACGTTGGATACTCCCCGTTAATCATGCACAACTTACTGCTTCTTTTTTCCAAATATGGACA
CAATACTTCATTTCAAAGGCTCGAGGCCACAAACCTACATATTGAAGGTAAAA
Found at i:44568672 original size:26 final size:26
Alignment explanation
Indices: 44568643--44568724 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
44568633 TGATACAAAT
44568643 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
44568669 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
*
44568695 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGATAAATGTTCCA
44568721 TGAT
1 TGAT
44568725 TGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGATAAATGTTCCA
Found at i:44580464 original size:27 final size:26
Alignment explanation
Indices: 44580434--44580484 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
44580424 ACCACTACTG
44580434 ATCAGGATGCTCACAGAAACTATATAT
1 ATCAGGATGCTCA-AGAAACTATATAT
* *
44580461 ATCAGTATGCTCAAGAGACTATAT
1 ATCAGGATGCTCAAGAAACTATAT
44580485 CGGGATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (26 bp):
ATCAGGATGCTCAAGAAACTATATAT
Found at i:44583345 original size:29 final size:30
Alignment explanation
Indices: 44583291--44583349 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
44583281 GAATTAAATC
*
44583291 AAATTAAAATTTCATATATAAAATTGCACA
1 AAATTAAAATTTCATAAATAAAATTGCACA
*
44583321 AAATTAAAATTT-ATAAATACAATTGCACA
1 AAATTAAAATTTCATAAATAAAATTGCACA
44583350 TTAAATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATTAAAATTTCATAAATAAAATTGCACA
Found at i:44583785 original size:10 final size:10
Alignment explanation
Indices: 44583770--44583796 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
44583760 AGTGATAGAT
44583770 AAAAAAAAAG
1 AAAAAAAAAG
44583780 AAAAAAAAAG
1 AAAAAAAAAG
44583790 AAAAAAA
1 AAAAAAA
44583797 CAATGTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:44584195 original size:22 final size:23
Alignment explanation
Indices: 44584165--44584210 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
44584155 CTGTTTTACA
*
44584165 TAAATAAAA-TTAGCACAAATTT
1 TAAAAAAAAGTTAGCACAAATTT
*
44584187 TAAAAAAAAGTTAGCACAACTTT
1 TAAAAAAAAGTTAGCACAAATTT
44584210 T
1 T
44584211 TTATGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (23 bp):
TAAAAAAAAGTTAGCACAAATTT
Found at i:44588214 original size:24 final size:24
Alignment explanation
Indices: 44588182--44588229 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
44588172 ATTGAGCTAA
*
44588182 AACAGTAAGCTCTGACAAGTTGAG
1 AACAGTAAGCTCTGACAAGCTGAG
*
44588206 AACAGTAAGCTCTTACAAGCTGAG
1 AACAGTAAGCTCTGACAAGCTGAG
44588230 GTGAGTCCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (24 bp):
AACAGTAAGCTCTGACAAGCTGAG
Found at i:44588636 original size:13 final size:13
Alignment explanation
Indices: 44588618--44588683 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
44588608 AGTTTGGCAA
*
44588618 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
44588631 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
44588644 GGCTATGGAAAAG
1 TGCTTTTGAAAAG
44588657 TGCTTTT-AAGAAG
1 TGCTTTTGAA-AAG
44588670 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
44588683 T
1 T
44588684 TTAATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:44592483 original size:18 final size:19
Alignment explanation
Indices: 44592460--44592495 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44592450 AACTTGGCAC
*
44592460 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
44592478 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
44592496 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:44596585 original size:48 final size:48
Alignment explanation
Indices: 44596514--44597078 Score: 896
Period size: 48 Copynumber: 11.8 Consensus size: 48
44596504 TACAAGATAA
* * * * * * *
44596514 ATATATATGTGTGGTGAAGCCGAATAGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44596562 ATATGTGTATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44596610 ATTTGTATATGTAGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44596658 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44596706 ATATGTATATGTGGTAAAGCCAAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44596754 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44596802 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44596850 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44596898 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44596946 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44596994 ATATGTATATGTGGTAAAGTCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44597042 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
44597079 TGTTGTAACA
Statistics
Matches: 473, Mismatches: 44, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 473 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:44597173 original size:37 final size:37
Alignment explanation
Indices: 44597123--44597225 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
44597113 GGAAATGTAT
*
44597123 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
*
44597160 TCCGGGTAAGACCCGATGACTACATGCGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
* *
44597197 TCCGGGTAAGATCCGATAACTACATGTGG
1 TCCGGGTAAGACCCGATGACTACATGTGG
44597226 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
Found at i:44601071 original size:49 final size:49
Alignment explanation
Indices: 44601008--44601140 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
44600998 GCACATCAAA
* * *
44601008 GTCGATGCCATGTCCCAGATAGGTCTTACATTGACTTTCATATATTGAG-
1 GTCGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCG-GT
* * * *
44601057 GTCGATGCCGTGTCCCAGATAGGTCGTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGT
* * *
44601106 GTCGTTGCCATGTCCTAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGATAGGTCTTACACTGAC
44601141 ACACAACAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGT
Found at i:44601215 original size:48 final size:48
Alignment explanation
Indices: 44601158--44601420 Score: 302
Period size: 48 Copynumber: 5.6 Consensus size: 48
44601148 AAGCTGACGC
* *
44601158 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * ** * *
44601206 CATGTCCCAGACATGTCATACACTAGCT-CT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* *
44601252 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * * *
44601300 CATGTCCTAGACATATCTTACACTTGCTGGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
* * *
44601348 CATGTCCCAGACATGTCTTACACTAGCT-CTCA-ATAT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTGGT-ATATCTCGAGGCCGATG
** *
44601394 CATGTCATAGACATGTTTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
44601421 ACACATATCA
Statistics
Matches: 182, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
46 69 0.38
47 6 0.03
48 107 0.59
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATG
Found at i:44601274 original size:94 final size:96
Alignment explanation
Indices: 44601158--44601375 Score: 296
Period size: 94 Copynumber: 2.3 Consensus size: 96
44601148 AAGCTGACGC
* * *
44601158 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
* *
44601223 ATACACTAGCT-CT-CGTCTCAATGCCGATG
66 ATACACTAGCTGCTACATCTCAAGGCCGATG
* * *
44601252 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCTAGACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
* * * * * *
44601317 TTACACTTGCTGGTATATCTCGAGGCTGATG
66 ATACACTAGCTGCTACATCTCAAGGCCGATG
44601348 CATGTCCCAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
44601376 CTCAATATGT
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 68 0.64
95 1 0.01
96 37 0.35
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATATC
ATACACTAGCTGCTACATCTCAAGGCCGATG
Found at i:44601390 original size:94 final size:92
Alignment explanation
Indices: 44601158--44601420 Score: 287
Period size: 94 Copynumber: 2.8 Consensus size: 92
44601148 AAGCTGACGC
* *
44601158 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGC-T-TATATCTCGAGGCCGATGCATGTCCTAGACATGTC
* * *
44601223 ATACACTAGCTCTCGTCTCAATGCCGATG
64 TTACACTAGCTCTCATCTCAAGGCCGATG
* * *
44601252 CATGTCCCAAACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATGCATGTCCTAGACATATC
1 CATGTCCCAGACATGTCTTACACTAGCT--TATATCTCGAGGCCGATGCATGTCCTAGACATGTC
* * * * *
44601317 TTACACTTGCTGGTATATCTCGAGGCTGATG
64 TTACACTAGCT-CT-CATCTCAAGGCCGATG
* * * *
44601348 CATGTCCCAGACATGTCTTACACTAGCTCTCA-ATAT-GTGGCCGATGCATGTCATAGACATGTT
1 CATGTCCCAGACATGTCTTACACTAGCT-T-ATATCTCGAGGCCGATGCATGTCCTAGACATGTC
44601411 TTACACTAGC
64 TTACACTAGC
44601421 ACACATATCA
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 99 0.69
95 5 0.03
96 38 0.27
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATCTCGAGGCCGATGCATGTCCTAGACATGTCTT
ACACTAGCTCTCATCTCAAGGCCGATG
Found at i:44601415 original size:142 final size:141
Alignment explanation
Indices: 44601158--44601417 Score: 362
Period size: 142 Copynumber: 1.8 Consensus size: 141
44601148 AAGCTGACGC
*
44601158 CATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAAGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * *
44601223 ATACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAAACATGTCTTACACTGGCTGGTATATC
66 ATACACTAGCTCTCATAT-AATGCCGATGCATGTCACAAACATGTCTTACACTGGCTGGTATATC
44601288 TCGAGGCCGATG
130 TCGAGGCCGATG
* * *
44601300 CATGTCCTAGACATA-TCTTACACTTGCTGGTATATCTCGAGGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACA-AGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGT
* * * * *
44601364 CTTACACTAGCTCTCA-ATATGTGGCCGATGCATGTCATAGACATGTTTTACACT
65 CATACACTAGCTCTCATATA-AT-GCCGATGCATGTCACAAACATGTCTTACACT
44601418 AGCACACATA
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
140 1 0.01
141 2 0.02
142 99 0.96
143 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (141 bp):
CATGTCCCAGACAAGTCTTACACTAGCTGGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
ATACACTAGCTCTCATATAATGCCGATGCATGTCACAAACATGTCTTACACTGGCTGGTATATCT
CGAGGCCGATG
Found at i:44610623 original size:29 final size:30
Alignment explanation
Indices: 44610575--44610636 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
44610565 TACCGAATTT
*
44610575 ATTCGTAAAAGTGTACACATGAATTTAATA
1 ATTCGTAAAAGTGTAAACATGAATTTAATA
* *
44610605 ATTC-TAACAGTGTAAACATGAGTTTAATA
1 ATTCGTAAAAGTGTAAACATGAATTTAATA
44610634 ATT
1 ATT
44610637 TTGAGTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (30 bp):
ATTCGTAAAAGTGTAAACATGAATTTAATA
Found at i:44613148 original size:48 final size:48
Alignment explanation
Indices: 44613025--44613345 Score: 412
Period size: 48 Copynumber: 6.6 Consensus size: 48
44613015 AGGATAAGAT
* **
44613025 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
* * *
44613073 GTACCGATGCCATGTTCCAAACTTGGTCTTACACTAGCTCACATATTAAG
1 G--CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
* **
44613123 GCCGATACCATG-TCCAAGACATGGTCTTACACTAGCTCTCATATCGAG
1 GCCGATGCCATGTTCCAA-ACATGGTCTTACACTAGCTCTCATATAAAG
* * * *
44613171 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTTATAAAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
* * * * * *
44613219 ACCGATGCCATGTTCCAGACATGATCTTACACTGGCTCACATA-ACGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATA-AAG
*
44613267 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
44613315 GCCGATGCCATGTTCCAAACATGGTCTTACA
1 GCCGATGCCATGTTCCAAACATGGTCTTACA
44613346 TTGGCTTACA
Statistics
Matches: 233, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
47 6 0.03
48 179 0.77
49 6 0.03
50 42 0.18
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAAG
Found at i:44613290 original size:144 final size:145
Alignment explanation
Indices: 44613025--44613345 Score: 457
Period size: 144 Copynumber: 2.2 Consensus size: 145
44613015 AGGATAAGAT
* ****
44613025 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATTGGTACCGATGCCATGTTC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-ATATAAAAATACCGATGCCATGTTC
* * **
44613090 CAAACTTGGTCTTACACTAGCTCACATATTAAGGCCGATACCATGTCCAAGACATGGTCTTACAC
65 CAAACATGATCTTACACTAGCTCACATAACAAGGCCGATACCATGTCCAAGACATGGTCTTACAC
** *
44613155 TAGCTCTCATATCGAG
130 TAGCTCTCATATAAAA
*
44613171 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCT-TATAAAAATACCGATGCCATGTTCC
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTATATAAAAATACCGATGCCATGTTCC
* * * *
44613235 AGACATGATCTTACACTGGCTCACATAACGAGGCCGATGCCATGTTCCAA-ACATGGTCTTACAC
66 AAACATGATCTTACACTAGCTCACATAACAAGGCCGATACCATG-TCCAAGACATGGTCTTACAC
44613299 TAGCTCTCATATAAAA
130 TAGCTCTCATATAAAA
44613315 GCCGATGCCATGTTCCAAACATGGTCTTACA
1 GCCGATGCCATGTTCCAAACATGGTCTTACA
44613346 TTGGCTTACA
Statistics
Matches: 156, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
144 114 0.73
145 5 0.03
146 37 0.24
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (145 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTATATAAAAATACCGATGCCATGTTCC
AAACATGATCTTACACTAGCTCACATAACAAGGCCGATACCATGTCCAAGACATGGTCTTACACT
AGCTCTCATATAAAA
Found at i:44616838 original size:11 final size:11
Alignment explanation
Indices: 44616822--44616846 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44616812 TGAATGCTTT
44616822 ATGTATGTTAA
1 ATGTATGTTAA
44616833 ATGTATGTTAA
1 ATGTATGTTAA
44616844 ATG
1 ATG
44616847 GAGTGTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
ATGTATGTTAA
Found at i:44620367 original size:47 final size:48
Alignment explanation
Indices: 44620243--44620371 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
44620233 ATGTGAATGA
** *
44620243 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTAGGGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
* *
44620291 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTCCA-GGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
* * * *
44620338 TGCCTTGATTTTGCTACGGGTCATAGTATAGGTA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
44620372 CTTACCGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 35 0.49
48 36 0.51
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCCAGGGAGAAGT
Found at i:44624804 original size:47 final size:49
Alignment explanation
Indices: 44624735--44624859 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
44624725 ATAGGGTATA
* * * **
44624735 ATGTCACAGACATGGTCTTACACTGGCTCATC-CATCAA-GTAGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCAAGGCAGACACC
* * *
44624782 ATGTCCCAGACGTGGTCTTACACTGAC-CATCGAAATCAAGGCCGACACC
1 ATGTCCCAGACATGGTCTTACACTGGCTCATC-AAATCAAGGCAGACACC
*
44624831 ATGTCCCAGACATGGTCTTACACTAGCTC
1 ATGTCCCAGACATGGTCTTACACTGGCTC
44624860 TCACATATCC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 4 0.06
47 24 0.38
48 5 0.08
49 29 0.46
50 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (49 bp):
ATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCAAGGCAGACACC
Found at i:44624958 original size:46 final size:46
Alignment explanation
Indices: 44624838--44624994 Score: 146
Period size: 46 Copynumber: 3.4 Consensus size: 46
44624828 ACCATGTCCC
* * *
44624838 AGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATGCCATGTCCT
1 AGACATAGTCTTACACTGGCT-T-ACATCT-CGTAGCCGATG-CATGT-CT
*
44624888 AGACATAGTCTTACACTGAC--ACATCTCGTAGCCGATGCATGTCT
1 AGACATAGTCTTACACTGGCTTACATCTCGTAGCCGATGCATGTCT
*
44624932 AAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGATGCATGTCCC
1 -AGACATAGTCTTACACTGGCTTACATCTCGTA-GCCGATGCATGT-CT
*
44624979 AGACAT-GACTTACACT
1 AGACATAGTCTTACACT
44624995 AGCTCTCGTC
Statistics
Matches: 94, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
44 14 0.15
45 15 0.16
46 47 0.50
47 1 0.01
50 17 0.18
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
AGACATAGTCTTACACTGGCTTACATCTCGTAGCCGATGCATGTCT
Found at i:44629444 original size:15 final size:15
Alignment explanation
Indices: 44629424--44629460 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
44629414 TCCAAACTCG
44629424 AAATTCGCATAAACC
1 AAATTCGCATAAACC
*
44629439 AAATTCACATAAACC
1 AAATTCGCATAAACC
44629454 AAATTCG
1 AAATTCG
44629461 TATACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (15 bp):
AAATTCGCATAAACC
Found at i:44631667 original size:40 final size:40
Alignment explanation
Indices: 44631577--44631796 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
44631567 ACCCAAGTAT
* ** * *
44631577 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
44631615 CTTCGGGTCTTAGCCTGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
44631655 CTTTGGGACTTAGCTCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
44631695 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * *
44631735 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
44631775 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44631797 CATTCGAATA
Statistics
Matches: 147, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 113 0.77
41 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44635196 original size:47 final size:47
Alignment explanation
Indices: 44635138--44635673 Score: 885
Period size: 47 Copynumber: 11.4 Consensus size: 47
44635128 CAGCCAAGAC
44635138 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44635185 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
44635232 AGTGTATATGTGTGATAAGGCATAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44635279 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44635326 AGTGTATATATGTGATAAGGCCTACTGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* **
44635373 AGTGTATATGTGTGATAAGGCCTAACAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44635420 AGTGTATATATGTGATAAGGCCTAA-GAGCCGATGTGATGAATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATG-GCCGATGTGATGAATGTGAA
44635467 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44635514 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44635561 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
44635608 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44635655 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
44635674 TCCCGAAGGG
Statistics
Matches: 459, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 458 1.00
48 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44635848 original size:37 final size:37
Alignment explanation
Indices: 44635792--44635870 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
44635782 CCGAGCTCTA
* * *
44635792 AAGACCCGATGACTACGTGTGGGAATTTTGTGCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
* *
44635829 AAGACCCGATAACTTCGTGTGGGGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
44635866 AAGAC
1 AAGAC
44635871 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
Found at i:44637762 original size:40 final size:40
Alignment explanation
Indices: 44637687--44638071 Score: 628
Period size: 40 Copynumber: 9.5 Consensus size: 40
44637677 GAGAATTGAG
44637687 AGTGATATATCCGGGCTAAG-CCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44637726 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44637766 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44637806 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44637846 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGA-G-G-A----GCATTCGTGCT
*
44637893 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
44637933 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
44637973 AGTGATATATCCGGGCTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
44638013 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
44638053 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
44638072 ACCTCGAAGA
Statistics
Matches: 328, Mismatches: 10, Indels: 15
0.93 0.03 0.04
Matches are distributed among these distances:
39 20 0.06
40 266 0.81
41 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 36 0.11
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:44637955 original size:167 final size:166
Alignment explanation
Indices: 44637687--44638048 Score: 612
Period size: 167 Copynumber: 2.2 Consensus size: 166
44637677 GAGAATTGAG
44637687 AGTGATATATCCGGGCTAAG-CCCGAG-G-A----GCATTCGTGCTAGTGATATATCCGGGCTAA
1 AGTGATATATCCGGGCTAAGTCCCGAGAGCATTCGGCATTCGTGCTAGTGATATATCCGGGCTAA
44637745 GTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTG
66 GTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTG
44637810 ATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
131 ATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
44637846 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCTAGTGATGTATCCGGGCTA
1 AGTGATATATCCGGGCTAAGTCCCGA-GAGCATTCGGCATTCGTGCTAGTGATATATCCGGGCTA
*
44637911 AGTCCCGAGGAGCATTCGTGCTAGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCTAGT
65 AGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGT
*
44637976 GATATATCCGGGCTAAGTTCCGAGGAGCATTCGTGCT
130 GATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
44638013 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCG
1 AGTGATATATCCGGGCTAAGTCCCG-AGAGCATTCG
44638049 TGCTAGTAAT
Statistics
Matches: 189, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
159 20 0.11
160 5 0.03
161 1 0.01
162 1 0.01
163 1 0.01
167 160 0.85
168 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.25
Consensus pattern (166 bp):
AGTGATATATCCGGGCTAAGTCCCGAGAGCATTCGGCATTCGTGCTAGTGATATATCCGGGCTAA
GTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTG
ATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:44643080 original size:56 final size:56
Alignment explanation
Indices: 44642989--44643111 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
44642979 GAGATTGGCG
* * *
44642989 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
44643046 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
44643101 CTGAGTGTGCG
1 CTAAGTGTGCG
44643112 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:44643098 original size:27 final size:28
Alignment explanation
Indices: 44642989--44643111 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
44642979 GAGATTGGCG
* * * *
44642989 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
44643018 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
44643046 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
44643074 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
44643101 CTGAGTGTGCG
1 CTAAGTGTGCG
44643112 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:44643122 original size:27 final size:27
Alignment explanation
Indices: 44643014--44643124 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
44643004 TAAATTGTAC
* * *
44643014 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
44643042 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
44643070 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
44643097 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
44643124 A
1 A
44643125 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:44651329 original size:27 final size:28
Alignment explanation
Indices: 44651220--44651342 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
44651210 GAGATTGGCG
* * * * *
44651220 CTAAGTGTGCGGGTTTAAATTGTACAGTA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
44651249 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
44651277 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
44651305 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
44651332 CTGAGTGTGCG
1 CTAAGTGTGCG
44651343 GACTTAATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.28
28 47 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:44651353 original size:27 final size:27
Alignment explanation
Indices: 44651248--44651355 Score: 110
Period size: 28 Copynumber: 3.9 Consensus size: 27
44651238 ATTGTACAGT
* * *
44651248 ACTAAGTGTGCGAGTTTGATTATGTAGC
1 ACTAAGTGTGCGA-CTTGAATATATAGC
* *
44651276 ACTAAGTGTGCGAGTTTGATTATATAGC
1 ACTAAGTGTGCGA-CTTGAATATATAGC
* *
44651304 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGACTTGAATATATAGC
*
44651331 ACTGAGTGTGCGGACTT-AATATATA
1 ACTAAGTGTGC-GACTTGAATATATA
44651356 CTTTTGAATC
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 30 0.41
28 44 0.59
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (27 bp):
ACTAAGTGTGCGACTTGAATATATAGC
Found at i:44653419 original size:47 final size:47
Alignment explanation
Indices: 44653365--44653516 Score: 286
Period size: 47 Copynumber: 3.2 Consensus size: 47
44653355 CAGCCAAGAC
44653365 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
44653412 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
44653459 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
44653506 AGTGTATATAT
1 AGTGTATATAT
44653517 ATGTGATGTG
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 101 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:44653548 original size:30 final size:31
Alignment explanation
Indices: 44653489--44653553 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 31
44653479 CCTAATAGCC
44653489 GATGTGATGAATGTGAAAGTGTATATATATGT
1 GATGTGATGAATGTGAAAGTG-ATATATATGT
44653521 GATGTGATGAATGTGAAAGTG-TATATATGT
1 GATGTGATGAATGTGAAAGTGATATATATGT
44653551 GAT
1 GAT
44653554 AAGGCCTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 12 0.36
32 21 0.64
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (31 bp):
GATGTGATGAATGTGAAAGTGATATATATGT
Found at i:44653574 original size:47 final size:47
Alignment explanation
Indices: 44653521--44653932 Score: 689
Period size: 47 Copynumber: 8.8 Consensus size: 47
44653511 ATATATATGT
44653521 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
*
44653568 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
*
44653615 GATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
44653662 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
44653709 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
* *
44653756 GATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
*
44653803 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATTGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
* * * * *
44653850 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
* * * * *
44653897 AACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
44653933 TCCTGAAGGG
Statistics
Matches: 345, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 345 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
Found at i:44654105 original size:36 final size:37
Alignment explanation
Indices: 44654050--44654127 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
44654040 CCGAGCTCTA
*
44654050 AAGACCCGATGACTACGTGTGGGAATT-TGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
* *
44654086 AAGACCCGATAACTTCGTGTGGGGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
44654123 AAGAC
1 AAGAC
44654128 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 24 0.63
37 14 0.37
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
Found at i:44658909 original size:14 final size:12
Alignment explanation
Indices: 44658878--44658920 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
44658868 TTTCTCTTTC
44658878 TTTTTCTTCTTAT
1 TTTTTCTT-TTAT
44658891 TTTTTCTTTTAGT
1 TTTTTCTTTTA-T
44658904 TGTTTTCTTTTTAT
1 T-TTTTC-TTTTAT
44658918 TTT
1 TTT
44658921 CTTAGACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.11
13 12 0.44
14 7 0.26
15 5 0.19
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTTAT
Found at i:44660690 original size:21 final size:21
Alignment explanation
Indices: 44660656--44660708 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
44660646 TTAGATAAAA
* **
44660656 ATATA-TATAATAAATTTTAT
1 ATATAGTAAAATAAATAATAT
44660676 ATATAGTAAAATAAATAATAT
1 ATATAGTAAAATAAATAATAT
*
44660697 ATAAAGTAAAAT
1 ATATAGTAAAAT
44660709 GTATATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
ATATAGTAAAATAAATAATAT
Found at i:44660724 original size:17 final size:16
Alignment explanation
Indices: 44660652--44660730 Score: 52
Period size: 17 Copynumber: 4.6 Consensus size: 16
44660642 ATACTTAGAT
*
44660652 AAAAA-TATATATAAT
1 AAAAATTATATATAAA
**
44660667 AAATTTTATATATAGTAA
1 AAAAATTATATATA--AA
*
44660685 AATAAATAATATATAAA
1 AA-AAATTATATATAAA
*
44660702 GTAAAATGTATATATAAA
1 -AAAAAT-TATATATAAA
44660720 AAAAATCTATA
1 AAAAAT-TATA
44660731 AGAAACGTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
15 3 0.06
16 8 0.17
17 15 0.31
18 13 0.27
19 9 0.19
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (16 bp):
AAAAATTATATATAAA
Found at i:44662398 original size:79 final size:78
Alignment explanation
Indices: 44662296--44662518 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
44662286 GCTCCTCGTT
* *
44662296 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44662361 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
44662376 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44662439 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
** * * * *
44662454 CAAATGCCTTCGGATTTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
44662517 GA
63 GA
44662519 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 47 0.38
79 56 0.45
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:44662413 original size:39 final size:40
Alignment explanation
Indices: 44662296--44662518 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
44662286 GCTCCTCGTT
* *
44662296 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
44662336 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
44662376 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
44662415 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
44662454 CAAATGCCTTC-GGATTTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
44662495 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44662519 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:44682420 original size:40 final size:40
Alignment explanation
Indices: 44682319--44682463 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
44682309 TACTCGAATG
* *
44682319 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
44682360 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
44682400 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
44682440 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
44682464 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:44685341 original size:39 final size:40
Alignment explanation
Indices: 44685240--44685463 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
44685230 TTGAATGATG
* *
44685240 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
44685279 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
44685320 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44685359 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
44685398 TCCGGGTTAAGTCCCGAAGGAAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44685437 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44685464 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 73 0.46
40 74 0.46
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44693449 original size:79 final size:81
Alignment explanation
Indices: 44693316--44693497 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
44693306 AATGATGTCT
* *
44693316 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
*
44693380 GCGAGATACTA-ATTCC
66 GCGAGATACTATA-ACC
* * * **
44693396 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAATTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAATTG
*
44693458 TGCGAGTTACTATAACC
65 TGCGAGATACTATAACC
*
44693475 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
44693498 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
GCGAGATACTATAACC
Found at i:44693511 original size:40 final size:40
Alignment explanation
Indices: 44693316--44693497 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
44693306 AATGATGTCT
* * * *
44693316 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * *
44693356 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
44693396 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
* *
44693435 GGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
44693475 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
44693498 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:44693519 original size:79 final size:79
Alignment explanation
Indices: 44693366--44693530 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
44693356 GGACTAAGAT
* * **
44693366 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
44693431 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
44693445 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
44693508 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
44693524 CCGAAGG
1 CCGAAGG
44693531 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Done.