Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_33
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: 482622
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:2240 original size:47 final size:47
Alignment explanation
Indices: 2183--2486 Score: 389
Period size: 47 Copynumber: 6.4 Consensus size: 47
2173 ATTGATGTAC
* * *
2183 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
2230 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTCA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
2279 ACA-TGTGTATGTGTGATTAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
2326 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
2373 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
2420 AAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
2467 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
2487 TCCCGAAGGG
Statistics
Matches: 232, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.00
47 191 0.82
49 39 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:4978 original size:38 final size:38
Alignment explanation
Indices: 4914--4988 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
4904 AATCCGAGTT
*
4914 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
4952 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
4989 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:5101 original size:40 final size:40
Alignment explanation
Indices: 5046--5562 Score: 827
Period size: 40 Copynumber: 12.9 Consensus size: 40
5036 CTCGACAATG
*
5046 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
5086 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
5126 ATCTGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
5166 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
5206 ATCCGGGCTAAGTCCAGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
5246 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
5286 ATCTGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
5326 ATCCGGGCTAAGTCCAGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
5366 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
5406 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* ** *
5446 ATCCGGGGTAAGTTTCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* ** * * *
5486 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
5526 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
5563 CGTGTATTCG
Statistics
Matches: 441, Mismatches: 36, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 441 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:9010 original size:47 final size:47
Alignment explanation
Indices: 8953--9256 Score: 407
Period size: 47 Copynumber: 6.4 Consensus size: 47
8943 ATTGATGTAC
* * *
8953 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
9000 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
9049 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
9096 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
9143 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
9190 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
9237 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
9257 TCCCGAAGGG
Statistics
Matches: 235, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 193 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:22726 original size:48 final size:48
Alignment explanation
Indices: 22661--23717 Score: 1812
Period size: 48 Copynumber: 21.9 Consensus size: 48
22651 TATATATGTG
* *
22661 TGTGGTAAAGCCAAATGGCTAATGTGAAATATGTGTGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
22709 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
22757 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
22805 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
22853 TGTGGTAAAGCCGAATGGCTACTGTGACTACTGTGAAATATAG-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGG---C--T-A--A-TGTGAAATAT-GTATGAGATATGTATA
* *
22910 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
22958 TGTGGTGAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
23006 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
23054 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
23102 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
23150 TGTGGTAAAG-CGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
23197 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
23245 TGTGGTAAAGCCGAATGGCTAGTGTGCAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
23293 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
23341 TGTGGTAAAGTCGAATGACTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
23389 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGACATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
23437 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
23485 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
23533 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
23581 TGTGGTAAAGCCGAATGGCTACTCTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
23629 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
23677 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
23718 GTGTGTATAT
Statistics
Matches: 963, Mismatches: 34, Indels: 24
0.94 0.03 0.02
Matches are distributed among these distances:
47 47 0.05
48 867 0.90
51 2 0.00
52 1 0.00
53 1 0.00
54 2 0.00
57 42 0.04
58 1 0.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:23911 original size:37 final size:37
Alignment explanation
Indices: 23861--23997 Score: 238
Period size: 37 Copynumber: 3.7 Consensus size: 37
23851 AATATATTCT
23861 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
23898 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* * *
23935 GGGTAAGATCCGATGACTACGTGTGGAGATTTTGTTC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
23972 GGGTAAGACCCGATAACTACGTGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
23998 GGACTATTCG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:29707 original size:30 final size:30
Alignment explanation
Indices: 29671--29727 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
29661 TAATATGAAC
*
29671 TTTTGCAAAATTACATTTTTGCCCCTAAAT
1 TTTTGCAAAATTACACTTTTGCCCCTAAAT
*
29701 TTTTGCATAATTACACTTTTGCCCCTA
1 TTTTGCAAAATTACACTTTTGCCCCTA
29728 GGCTTAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTTGCAAAATTACACTTTTGCCCCTAAAT
Found at i:34412 original size:42 final size:42
Alignment explanation
Indices: 34345--34455 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 42
34335 ATGTCGGTTC
* *
34345 CGATTCCATGTCCCAGACATGGTCTTATACGGGACCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTATACGGGAACTCATAT
* * *
34387 CGATGCCATGTCCCAGATATAGTCTTATATGGGAACTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTATACGGGAACTCATAT
*
34429 CGATGCCATGTCTCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
34456 CACAAAATCT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (42 bp):
CGATGCCATGTCCCAGACATGGTCTTATACGGGAACTCATAT
Found at i:34468 original size:42 final size:41
Alignment explanation
Indices: 34345--34548 Score: 158
Period size: 42 Copynumber: 4.7 Consensus size: 41
34335 ATGTCGGTTC
* * *
34345 CGATTCCATGTCCCAGACATGGTCTTATACGGGACCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACAC-GGAACTCATAT
* * * *
34387 CGATGCCATGTCCCAGATATAGTCTTATATGGGAACTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACA-CGGAACTCATAT
* **
34429 CGATGCCATGTCTCAGACATGGTCTTACACAAAATCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACGGAA-CTCATAT
* * * * *
34471 CAACGCCATATCCTAGATATGGTCTTACACTGGCACACAT-ATCAAT
1 CGATGCCATGTCCCAGACATGGTCTTACAC-GG-A-AC-TCAT--AT
*
34517 GCCGATGCCATGTCCCAAACATGGTCTTACAC
1 --CGATGCCATGTCCCAGACATGGTCTTACAC
34549 TGGCTCTCAT
Statistics
Matches: 126, Mismatches: 26, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 92 0.73
44 4 0.03
45 2 0.02
46 2 0.02
48 24 0.19
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (41 bp):
CGATGCCATGTCCCAGACATGGTCTTACACGGAACTCATAT
Found at i:34512 original size:84 final size:84
Alignment explanation
Indices: 34345--34548 Score: 201
Period size: 84 Copynumber: 2.4 Consensus size: 84
34335 ATGTCGGTTC
* * *** * * *
34345 CGATTCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCATGTCCCAGATATAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACAAAACCTCATATCAACGCCATATCCCAGATATAGT
* *
34410 CTTATATGGGAACTCATAT
66 CTTACATGGGAACACATAT
* * * *
34429 CGATGCCATGTCTCAGACATGGTCTTACACAAAATCTCATATCAACGCCATATCCTAGATATGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACAAAACCTCATATCAACGCCATATCCCAGATATAGT
* *
34494 CTTACACTGGCACACATATCAAT
66 CTTACA-TGGGA-ACACAT--AT
*
34517 GCCGATGCCATGTCCCAAACATGGTCTTACAC
1 --CGATGCCATGTCCCAGACATGGTCTTACAC
34549 TGGCTCTCAT
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
84 58 0.60
85 4 0.04
86 4 0.04
88 2 0.02
90 28 0.29
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (84 bp):
CGATGCCATGTCCCAGACATGGTCTTACACAAAACCTCATATCAACGCCATATCCCAGATATAGT
CTTACATGGGAACACATAT
Found at i:34541 original size:48 final size:48
Alignment explanation
Indices: 34489--34596 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
34479 TATCCTAGAT
**
34489 ATGGTCTTACACTGGCACACATATCAATGCCGATGCCATGTCCCAAAC
1 ATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAAC
* * * * *
34537 ATGGTCTTACACTGGCTCTCATATCAACACGGATTCCATGTCCCAAAT
1 ATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAAC
*
34585 ATGGTCTAACAC
1 ATGGTCTTACAC
34597 GCGATCTCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGGTCTTACACTGGCACACATATCAACACCGATGCCATGTCCCAAAC
Found at i:39434 original size:47 final size:47
Alignment explanation
Indices: 39376--40107 Score: 1248
Period size: 47 Copynumber: 15.4 Consensus size: 47
39366 CAGCCAAGAC
39376 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39423 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39470 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39517 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39566 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39613 AGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39662 AGTGTATATATGTGATAAAGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39709 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39758 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39807 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39854 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39901 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39948 GGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39995 AGTTTATATATGTGATAAGGCCTAATGGCCGATGTGATGCATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
40042 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
40089 AGTGTATAAATATGATAAG
1 AGTGTATATATGTGATAAG
40108 TCCCGAAGGG
Statistics
Matches: 655, Mismatches: 24, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
47 467 0.71
49 188 0.29
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:40364 original size:37 final size:37
Alignment explanation
Indices: 40226--40363 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
40216 CCGAGCTCTA
40226 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
40263 AAGACCCGATGACTACGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
40300 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
40337 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
40364 TCGTTTGAGC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:41699 original size:40 final size:40
Alignment explanation
Indices: 41655--42061 Score: 595
Period size: 40 Copynumber: 10.2 Consensus size: 40
41645 GGGCTAAATC
41655 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
41695 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
41735 CCGAAGAGCATTCGTGCTAGTGATGTAT-CGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
41774 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* * * * * *
41814 CTGAAGAGCATTCCTGCTAGTGATGTATCTGGGCTAAATC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
41854 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* * *
41894 CCGAAGAGCATTCGTGCTAGTGATATATCCAGG-CTAAATC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCC-GGACTAAGTT
41934 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* ***
41974 CCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTT
* * * * * * *
42014 CCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
42054 CCGAAGAG
1 CCGAAGAG
42062 TAATCATGCT
Statistics
Matches: 333, Mismatches: 29, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
39 42 0.13
40 288 0.86
41 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
Found at i:45725 original size:47 final size:47
Alignment explanation
Indices: 45667--46209 Score: 917
Period size: 47 Copynumber: 11.4 Consensus size: 47
45657 CAGCCAAGAC
45667 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45714 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45761 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45810 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45857 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45906 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45955 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46002 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46051 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46098 GGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
46145 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46191 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
46210 TCCCGAAGGG
Statistics
Matches: 476, Mismatches: 14, Indels: 13
0.95 0.03 0.03
Matches are distributed among these distances:
46 17 0.04
47 270 0.57
49 189 0.40
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:45778 original size:96 final size:94
Alignment explanation
Indices: 45667--46209 Score: 917
Period size: 96 Copynumber: 5.7 Consensus size: 94
45657 CAGCCAAGAC
45667 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
45732 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
45761 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
45826 AAGGCCTAATGGCCGATGTGATGAATGTGAA
64 AAGGCCTAATGGCCGATGTGATGAATGTGAA
45857 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
45922 ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62 ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
45955 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
*
46020 AAGGCCTAATAGCCGATGTGATGAATGTGAA
64 AAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46051 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
46116 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
46145 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG-AAGTGTATAAATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
46209 G
66 G
46210 TCCCGAAGGG
Statistics
Matches: 433, Mismatches: 12, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
93 18 0.04
94 84 0.19
96 284 0.66
98 47 0.11
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:46466 original size:37 final size:37
Alignment explanation
Indices: 46328--46465 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
46318 CCGAGCTCTA
46328 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
46365 AAGACCCGATGACTACGTATGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
46402 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
46439 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
46466 TCGTCTGAGC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:56658 original size:83 final size:84
Alignment explanation
Indices: 56556--56734 Score: 213
Period size: 83 Copynumber: 2.2 Consensus size: 84
56546 TTGCTAGGTG
* * *
56556 TAAAGCCT-AGTATAATACACCGGCATAGAA-CCTACTAGGTAATAGGCCTAACATAATACACCG
1 TAAAGCCTGA-TATAATACACCGACATA-AAGCCTACTAGGCAATAAGCCTAACATAATACACCG
*
56619 ACAT-AAAGCCTGTTAGGCAA
64 ACATCAAAGCCTGCTAGGCAA
* * * * * *
56639 TAAAGCCTGATATAATACACTGACATAAAGCCTACTAGGCAATAAGCCTGATATCATACACTGGC
1 TAAAGCCTGATATAATACACCGACATAAAGCCTACTAGGCAATAAGCCTAACATAATACACCGAC
*
56704 ATCAAAGCTTGCTAGGCAA
66 ATCAAAGCCTGCTAGGCAA
56723 T-AAGCCTGATAT
1 TAAAGCCTGATAT
56735 TATATTACTG
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
82 2 0.02
83 64 0.78
84 16 0.20
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (84 bp):
TAAAGCCTGATATAATACACCGACATAAAGCCTACTAGGCAATAAGCCTAACATAATACACCGAC
ATCAAAGCCTGCTAGGCAA
Found at i:56698 original size:41 final size:41
Alignment explanation
Indices: 56558--56734 Score: 187
Period size: 42 Copynumber: 4.3 Consensus size: 41
56548 GCTAGGTGTA
* * *
56558 AAGCCT-AGTATAATACACCGGCATAGAA-CCTACTAGGTAAT
1 AAGCCTGA-TATAATACACTGACATA-AAGCCTACTAGGCAAT
* * * * **
56599 AGGCCTAACATAATACACCGACATAAAGCCTGTTAGGCAAT
1 AAGCCTGATATAATACACTGACATAAAGCCTACTAGGCAAT
56640 AAAGCCTGATATAATACACTGACATAAAGCCTACTAGGCAAT
1 -AAGCCTGATATAATACACTGACATAAAGCCTACTAGGCAAT
* * * *
56682 AAGCCTGATATCATACACTGGCATCAAAGCTTGCTAGGCAAT
1 AAGCCTGATATAATACACTGACAT-AAAGCCTACTAGGCAAT
56724 AAGCCTGATAT
1 AAGCCTGATAT
56735 TATATTACTG
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.02
41 52 0.45
42 62 0.53
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (41 bp):
AAGCCTGATATAATACACTGACATAAAGCCTACTAGGCAAT
Found at i:70991 original size:42 final size:41
Alignment explanation
Indices: 70891--71059 Score: 223
Period size: 42 Copynumber: 4.1 Consensus size: 41
70881 TAAACCCTAG
* *
70891 TATAATACACCGGCACAGAA-CCTGCTAGGCAATAGGCCTGA
1 TATAATACACCGGCATA-AAGCCTGCTAGGCAATAAGCCTGA
* * *
70932 CATAATACACAGGCATAAAGCCTGCTAGGCAATAAAGCTTGA
1 TATAATACACCGGCATAAAGCCTGCTAGGCAAT-AAGCCTGA
*
70974 TATAATACACCGACATAAAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGA
* * *
71015 TATCATACACTGGCATCAAAGCTTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCAT-AAAGCCTGCTAGGCAATAAGCCTGA
71057 TAT
1 TAT
71060 TATATCACTA
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
40 2 0.02
41 47 0.42
42 63 0.56
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (41 bp):
TATAATACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGA
Found at i:71030 original size:83 final size:83
Alignment explanation
Indices: 70891--71059 Score: 234
Period size: 83 Copynumber: 2.0 Consensus size: 83
70881 TAAACCCTAG
* *
70891 TATAATACACCGGCACAGAACCTGCTAGGCAATAGGCCTGACATAATACACAGGCAT-AAAGCCT
1 TATAATACACCGACACAGAACCTGCTAGGCAATAAGCCTGACATAATACACAGGCATCAAAGCCT
*
70955 GCTAGGCAATAAAGCTTGA
66 GCTAGGCAAT-AAGCCTGA
* * * * *
70974 TATAATACACCGACATA-AAGCCTGCTAGGCAATAAGCCTGATATCATACACTGGCATCAAAGCT
1 TATAATACACCGACACAGAA-CCTGCTAGGCAATAAGCCTGACATAATACACAGGCATCAAAGCC
71038 TGCTAGGCAATAAGCCTGA
65 TGCTAGGCAATAAGCCTGA
71057 TAT
1 TAT
71060 TATATCACTA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 2 0.03
83 58 0.76
84 16 0.21
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (83 bp):
TATAATACACCGACACAGAACCTGCTAGGCAATAAGCCTGACATAATACACAGGCATCAAAGCCT
GCTAGGCAATAAGCCTGA
Found at i:77612 original size:21 final size:19
Alignment explanation
Indices: 77587--77630 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
77577 CTCATTCACA
*
77587 TCTCTTCTCTCACAATTTTTC
1 TCTCTTATCTCAC--TTTTTC
*
77608 TCTCTTATTTCACTTTTTC
1 TCTCTTATCTCACTTTTTC
77627 TCTC
1 TCTC
77631 ATTTTTCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.11, C:0.32, G:0.00, T:0.57
Consensus pattern (19 bp):
TCTCTTATCTCACTTTTTC
Found at i:84268 original size:19 final size:20
Alignment explanation
Indices: 84244--84281 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
84234 TTTTAAAGAC
84244 TTTAC-TTTATATTTATTTG
1 TTTACTTTTATATTTATTTG
*
84263 TTTACTTTTATCTTTATTT
1 TTTACTTTTATATTTATTT
84282 ACCTTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTACTTTTATATTTATTTG
Found at i:86891 original size:13 final size:13
Alignment explanation
Indices: 86873--86898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86863 GCAGGCTCGA
86873 ACACAGGCGTGTC
1 ACACAGGCGTGTC
86886 ACACAGGCGTGTC
1 ACACAGGCGTGTC
86899 CCTGCCGAGC
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACAGGCGTGTC
Found at i:87001 original size:13 final size:14
Alignment explanation
Indices: 86985--87013 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
86975 ACACCCTAGA
86985 GGAGG-AGAAAAGG
1 GGAGGCAGAAAAGG
86998 GGAGGCAGAAAAGG
1 GGAGGCAGAAAAGG
87012 GG
1 GG
87014 GAGTAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.55, T:0.00
Consensus pattern (14 bp):
GGAGGCAGAAAAGG
Found at i:92017 original size:40 final size:40
Alignment explanation
Indices: 91963--92112 Score: 142
Period size: 40 Copynumber: 3.9 Consensus size: 40
91953 CCGGATATAG
*
91963 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
*
92003 TACCAGCACGAAGCCTGCCTGCGGGATTTAACCC-GA-ATATAT
1 TACCAGCACGAA----GCCTGCGGGATTTAACCCGGATATACAT
*
92045 T---------AAGCCTACGGGATTTAACCCGGATATACAT
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
* *
92076 TACCAGCACGAAGCCTGCAGGATTTAACCCAGATATA
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
92113 TAATATATCG
Statistics
Matches: 88, Mismatches: 7, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
29 17 0.19
30 2 0.02
31 6 0.07
33 2 0.02
40 35 0.40
42 6 0.07
43 2 0.02
44 18 0.20
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
Found at i:100066 original size:40 final size:40
Alignment explanation
Indices: 100022--100168 Score: 222
Period size: 40 Copynumber: 3.7 Consensus size: 40
100012 TACTAGCACT
* * * *
100022 AAGCCTGCGGGTTTTAACCTGGATATACATTACCAGCATG
1 AAGCCTGCGGGATTTAACCCGGATATACATTACCAACACG
*
100062 AAGCCTGCGGGATTTAACCCAGATATACATTACCAACACG
1 AAGCCTGCGGGATTTAACCCGGATATACATTACCAACACG
100102 AAGCCTGCGGGATTTAACCCGGATATACATTACCAACACG
1 AAGCCTGCGGGATTTAACCCGGATATACATTACCAACACG
** *
100142 AAGCCTATGGGATTGAACCCGGATATA
1 AAGCCTGCGGGATTTAACCCGGATATA
100169 TAATATATTG
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATACATTACCAACACG
Found at i:116117 original size:17 final size:18
Alignment explanation
Indices: 116095--116130 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
116085 TAATCTTGTC
116095 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
116112 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
116130 T
1 T
116131 ATATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:118632 original size:100 final size:100
Alignment explanation
Indices: 118459--118646 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
118449 TATTGTGAGG
* *
118459 TCACGTTTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
*
118524 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCCTACCCGAAAACTGTGA
* *
118559 TCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
*
118624 AAGTGCAGGCTATTATGCCTACC
66 AAGTGCAGGCTACTATGCCTACC
118647 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCCTACCCGAAAACTGTGA
Found at i:118638 original size:49 final size:49
Alignment explanation
Indices: 118466--118635 Score: 223
Period size: 49 Copynumber: 3.4 Consensus size: 49
118456 AGGTCACGTT
*
118466 TGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATG
*** * * * * *
118515 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAA-T-TGGTCGCATG
* *
118566 TGTAGTACTAAGTGCAGGCTATTACATGTACCAGATTATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATG
118615 TGTAGTACTAAGTGCAGGCTA
1 TGTAGTACTAAGTGCAGGCTA
118636 TTATGCCTAC
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 61 0.60
50 2 0.02
51 38 0.38
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATG
Found at i:124809 original size:32 final size:32
Alignment explanation
Indices: 124764--124846 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 32
124754 CTTTAACCCT
*
124764 TCAGTAGCGGTATTATAATTGGCACAAAGCCA
1 TCAGTAACGGTATTATAATTGGCACAAAGCCA
* * ** *
124796 TCAGTAACTGTATTTTGTTTGGCACATAGCCA
1 TCAGTAACGGTATTATAATTGGCACAAAGCCA
** *
124828 TCAGCGACGGTAATATAAT
1 TCAGTAACGGTATTATAAT
124847 CGACACACAG
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (32 bp):
TCAGTAACGGTATTATAATTGGCACAAAGCCA
Found at i:125220 original size:34 final size:34
Alignment explanation
Indices: 125182--125247 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
125172 AAAAGCATAT
* * *
125182 CAGTCATACAACCACTGTCAAGTCAGTTAAATCA
1 CAGTCATACAACCACAGTCAAATCAGTCAAATCA
*
125216 CAGTCATACAATCACAGTCAAATCAGTCAAAT
1 CAGTCATACAACCACAGTCAAATCAGTCAAAT
125248 TCATAGTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.23
Consensus pattern (34 bp):
CAGTCATACAACCACAGTCAAATCAGTCAAATCA
Found at i:134864 original size:25 final size:25
Alignment explanation
Indices: 134834--134911 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
134824 TAGGATTTTA
134834 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
134859 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
134881 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
134906 TGTGAT
1 TGTGAT
134912 AAGGCCGAGT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:134884 original size:47 final size:47
Alignment explanation
Indices: 134833--135360 Score: 786
Period size: 47 Copynumber: 11.1 Consensus size: 47
134823 TTAGGATTTT
134833 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
134880 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *** *
134927 ATGTGATTAATGTGAACCTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
134978 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
135025 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
135072 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
135123 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
135170 ATGTGATGAATGTGAACATACGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
135217 ATGTGATGAATGTGAACATGCGTATGTGTGATAGGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
135264 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** * * *
135311 ATGTGATGAATGTGAACTTGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
135358 ATG
1 ATG
135361 CGAAATGTGT
Statistics
Matches: 439, Mismatches: 34, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
47 354 0.81
48 2 0.00
50 2 0.00
51 81 0.18
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:135005 original size:23 final size:23
Alignment explanation
Indices: 134978--135052 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
134968 CGAATGGCCA
134978 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
135001 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
135025 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
135048 ATGTG
1 ATGTG
135053 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:135005 original size:145 final size:144
Alignment explanation
Indices: 134833--135360 Score: 855
Period size: 145 Copynumber: 3.7 Consensus size: 144
134823 TTAGGATTTT
134833 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
134898 TGCGTATGTGTGATAAGGCCGAGTGGCCAATGTGATTAATGTGAACCTATATATATATGCGTGAT
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCT-TATATATATGCGTGAT
134963 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
134978 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
135043 TGCGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGAT
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCT-TATATATATGCGTGAT
135108 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
135123 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *** *
135188 TACGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C--ATGCGTATGTGTGATA
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTTATATATATGCGTGATA
*
135250 GGGCCGAATGGCCA
131 AGGCCGAATGGCCA
* * * *
135264 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACT
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** * * *
135329 TGTATATATGTGGTAAGGCCGAATGGCTAATG
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATG
135361 CGAAATGTGT
Statistics
Matches: 364, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
141 112 0.31
144 1 0.00
145 251 0.69
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (144 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTTATATATATGCGTGATA
AGGCCGAATGGCCA
Found at i:135470 original size:46 final size:46
Alignment explanation
Indices: 135334--135470 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
135324 GAACTTGTAT
* *
135334 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
135380 ATATGAGGTAAAGCCGAATGACTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
135426 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
135471 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:136655 original size:33 final size:33
Alignment explanation
Indices: 136613--136678 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
136603 GATGTTAGAT
*
136613 AGATTACCAGGGAAAGTCTTCTATTGTTTTCTA
1 AGATTACCAGGAAAAGTCTTCTATTGTTTTCTA
136646 AGATTACCAGGAAAAGTCTTCTATTGTTTTCTA
1 AGATTACCAGGAAAAGTCTTCTATTGTTTTCTA
136679 GATGGTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (33 bp):
AGATTACCAGGAAAAGTCTTCTATTGTTTTCTA
Found at i:141799 original size:48 final size:48
Alignment explanation
Indices: 141728--142464 Score: 1021
Period size: 48 Copynumber: 15.0 Consensus size: 48
141718 TTGATGCATA
141728 AGATATGTATAT-TGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
141775 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATAAATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGT--ATG
* * * *
141827 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGCGAAATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
141875 AGATATGTATATATGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
141925 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
141973 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
142021 AGATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
142069 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
* * *
142121 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
*
142173 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTCTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
142221 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATG
* *
142273 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTCTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
142321 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
*
142371 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
142419 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
142465 GGCGATGCGT
Statistics
Matches: 632, Mismatches: 37, Indels: 41
0.89 0.05 0.06
Matches are distributed among these distances:
47 14 0.02
48 332 0.53
49 12 0.02
50 97 0.15
51 5 0.01
52 171 0.27
53 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:141854 original size:100 final size:98
Alignment explanation
Indices: 141728--142461 Score: 1022
Period size: 100 Copynumber: 7.4 Consensus size: 98
141718 TTGATGCATA
*
141728 AGATATGTATAT-TGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
*
141792 AAAGCCGAATGGCTAATGCGAAATATATATAAATG
66 AAAGCCGAATGGCTAATGTGAAATATATAT--ATG
* * * *
141827 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGCGAAATATATATGAGATATGTATATATGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* *
141892 AAAGCTGAATGGTTAATGTGAAATATATATATG
66 AAAGCCGAATGGCTAATGTGAAATATATATATG
* *
141925 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
*
141990 AAAGCCGAATGGCTAATGTG-AA-ATATGTATG
66 AAAGCCGAATGGCTAATGTGAAATATATATATG
* *
142021 AGATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
*
142086 AAAGCCGAATGGCTAATGCGAAATATATATATATG
66 AAAGCCGAATGGCTAATGTG-AA-ATATATATATG
* *
142121 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATGAGATATGTATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATATATGAGATATGTATATG
* *
142186 TGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTCTG
62 TGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
142221 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGTATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATATATGAGATATGTATAT
* *
142285 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTCTA--
61 GTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
142321 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGT
* *
142385 GGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATG
63 GGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
142419 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
142462 GTAGGCGATG
Statistics
Matches: 582, Mismatches: 38, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
96 99 0.17
97 6 0.01
98 161 0.28
99 17 0.03
100 245 0.42
101 3 0.01
102 6 0.01
103 1 0.00
104 44 0.08
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (98 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATATATATG
Found at i:142719 original size:37 final size:37
Alignment explanation
Indices: 142611--142719 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
142601 GGAAATATAT
* *
142611 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
142648 CCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
142685 TCCGGGTAAGACTCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
142720 CATCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:144494 original size:17 final size:17
Alignment explanation
Indices: 144472--144507 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
144462 CCCAGAAAAG
144472 AAAGAAAATAAAGTTAA
1 AAAGAAAATAAAGTTAA
144489 AAAGAAAATAAAGTTAA
1 AAAGAAAATAAAGTTAA
144506 AA
1 AA
144508 TGGCCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAGAAAATAAAGTTAA
Found at i:145100 original size:26 final size:25
Alignment explanation
Indices: 145015--145149 Score: 152
Period size: 25 Copynumber: 5.3 Consensus size: 25
145005 CTGGAGGCCT
145015 AGCCTCTTT-AAT-AACTGGGGCA-A
1 AGCCT-TTTCAATAAACTGGGGCATA
** *
145038 AGCCCTTTTCGGTAAACTGGGACA-A
1 AG-CCTTTTCAATAAACTGGGGCATA
145063 AGCCCTTTTCAATAAACTGGGGCATA
1 AG-CCTTTTCAATAAACTGGGGCATA
145089 AGTCCTTTTCAATAAACTGGGGCATA
1 AG-CCTTTTCAATAAACTGGGGCATA
*
145115 AGCCATTTTTCAATAAACTAGGGCATA
1 AGCC--TTTTCAATAAACTGGGGCATA
145142 AGCCTTTT
1 AGCCTTTT
145150 TGCACTTCCT
Statistics
Matches: 98, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
23 5 0.05
24 4 0.04
25 37 0.38
26 28 0.29
27 24 0.24
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (25 bp):
AGCCTTTTCAATAAACTGGGGCATA
Found at i:145132 original size:27 final size:26
Alignment explanation
Indices: 145027--145150 Score: 162
Period size: 26 Copynumber: 4.8 Consensus size: 26
145017 CCTCTTTAAT
**
145027 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
145052 AACTGGGACA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
145077 AACTGGGGCATAAGTCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
145103 AACTGGGGCATAAGCCATTTTTCAATA
1 AACTGGGGCATAAGCC-CTTTTCAATA
* *
145130 AACTAGGGCATAAGCCTTTTT
1 AACTGGGGCATAAGCCCTTTT
145151 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
25 31 0.35
26 34 0.38
27 24 0.27
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:145225 original size:20 final size:21
Alignment explanation
Indices: 145200--145247 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
145190 TTATGAATAC
145200 ATCATGTA-CATATCATA-CA
1 ATCATGTAGCATATCATATCA
145219 TATCATG-AGCATATCATATCA
1 -ATCATGTAGCATATCATATCA
145240 ATCATGTA
1 ATCATGTA
145248 TATCAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (21 bp):
ATCATGTAGCATATCATATCA
Found at i:145310 original size:25 final size:25
Alignment explanation
Indices: 145282--145329 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
145272 ATAAGTAAAC
* * *
145282 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
145307 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
145330 CATGATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:152675 original size:17 final size:17
Alignment explanation
Indices: 152653--152688 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
152643 CCCAGAAAAG
152653 AAAGAAAATAAAGTTAA
1 AAAGAAAATAAAGTTAA
152670 AAAGAAAATAAAGTTAA
1 AAAGAAAATAAAGTTAA
152687 AA
1 AA
152689 TGGCCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAGAAAATAAAGTTAA
Found at i:153236 original size:25 final size:26
Alignment explanation
Indices: 153208--153304 Score: 128
Period size: 25 Copynumber: 3.8 Consensus size: 26
153198 CCTCTTTAAT
***
153208 AACTGGGGCA-AAGCCCTTTTGGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
153233 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
153258 AAC-GGGGCATCAGCCCTTTTTCAATA
1 AACTGGGGCATAAGCCC-TTTTCAATA
153284 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
153305 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.09
25 30 0.47
26 16 0.25
27 12 0.19
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:153379 original size:20 final size:20
Alignment explanation
Indices: 153354--153400 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
153344 TTATGAATAC
153354 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
*
153373 TATCATGAGCATATCATATCA
1 -ATCATGTGCATATCATATCA
153394 ATCATGT
1 ATCATGT
153401 ATATCAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:153464 original size:25 final size:25
Alignment explanation
Indices: 153436--153483 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
153426 ATAAGTAAAC
* *
153436 CCTAGGGGTATAACAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
153461 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
153484 CATGATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:155915 original size:43 final size:44
Alignment explanation
Indices: 155867--155978 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 44
155857 ATATCCTGGA
* * *
155867 TATGGTTTTACATGTTATCACATATCGATGCCAATAG-CCTAG-C
1 TATGGTTTTACACGTAATCACATAACGATGCCAAT-GTCCTAGAC
* * *
155910 TATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCTAGAC
1 TATGGTTTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
155954 -ATGGTTTTACACGTAATCACATAAC
1 TATGGTTTTACACGTAATCACATAAC
155979 TATAATCCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 56 0.97
44 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (44 bp):
TATGGTTTTACACGTAATCACATAACGATGCCAATGTCCTAGAC
Found at i:160499 original size:48 final size:46
Alignment explanation
Indices: 160380--160504 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
160370 GATATGTGTA
160380 CTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAG
* * * * *
160426 CCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGA-TATGCAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGA-G--AG
*
160474 CTAGTGTAAGACTTGTCTGGGACATGGCATC
1 CTAGTGTAAGACATGTCTGGGACAT-GCATC
160505 AACTTGACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
45 1 0.01
46 37 0.55
48 24 0.36
49 5 0.07
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAG
Found at i:160525 original size:22 final size:22
Alignment explanation
Indices: 160500--160541 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
160490 CTGGGACATG
160500 GCATCAACTTGACATGTGTTCT
1 GCATCAACTTGACATGTGTTCT
*
160522 GCATCAGCTTGACATGTGTT
1 GCATCAACTTGACATGTGTT
160542 AGTGTAAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (22 bp):
GCATCAACTTGACATGTGTTCT
Found at i:160612 original size:48 final size:49
Alignment explanation
Indices: 160542--160719 Score: 184
Period size: 48 Copynumber: 3.7 Consensus size: 49
160532 GACATGTGTT
* * * *
160542 AGTGTAAGACTTGTCTGAGACATGGCATTGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATATATGAGAGCC
* * **
160591 AGTGTAAG-CCTGTCTGGGACATGGCATCAAC-CTCGATATATGAAAATC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATATATGAGAGCC
* ***
160639 AGTGTAAGACCTGTCTAGGACATGGCATCGACTTAGATATAT--GAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATATATGAGAGCC
* *
160686 AGTGTAAGACCATGTTTGGAACATGGCATCGACA
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACA
160720 TTGTACTATA
Statistics
Matches: 106, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
47 14 0.13
48 56 0.53
49 36 0.34
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATATATGAGAGCC
Found at i:160648 original size:163 final size:160
Alignment explanation
Indices: 160381--160672 Score: 372
Period size: 163 Copynumber: 1.8 Consensus size: 160
160371 ATATGTGTAC
* ** *
160381 TAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTTTGG
1 TAGTGTAAGACATGTCTGAGACATGCATCGACACCGAGACGAGAGCCAGTGTAAGACATGTCTGG
** * * * *
160446 GACATGCATCGGCCTTGAGATATGCAAGCTAGTGTAAGACTTGTCTGGGACATGGCATCAACTTG
66 GACATGCATCAACCTCGAGATATGAAAGCTAGTGTAAGACCTGTCTAGGACATGGCATCAACTTG
160511 ACATGTGTTCTGCATCAGCTTGACATGTGT
131 ACATGTGTTCTGCATCAGCTTGACATGTGT
* * * *
160541 TAGTGTAAGACTTGTCTGAGACATGGCATTGACACCGATAGATGAGAGCCAGTGTAAG-CCTGTC
1 TAGTGTAAGACATGTCTGAGACAT-GCATCGACACCG--AGACGAGAGCCAGTGTAAGACATGTC
* * *
160605 TGGGACATGGCATCAACCTCGATATATGAAA-ATCAGTGTAAGACCTGTCTAGGACATGGCATCG
63 TGGGACAT-GCATCAACCTCGAGATATGAAAGCT-AGTGTAAGACCTGTCTAGGACATGGCATCA
160669 ACTT
126 ACTT
160673 AGATATATGA
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
160 22 0.20
161 9 0.08
162 13 0.12
163 66 0.60
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (160 bp):
TAGTGTAAGACATGTCTGAGACATGCATCGACACCGAGACGAGAGCCAGTGTAAGACATGTCTGG
GACATGCATCAACCTCGAGATATGAAAGCTAGTGTAAGACCTGTCTAGGACATGGCATCAACTTG
ACATGTGTTCTGCATCAGCTTGACATGTGT
Found at i:174176 original size:27 final size:27
Alignment explanation
Indices: 173865--174192 Score: 363
Period size: 27 Copynumber: 12.2 Consensus size: 27
173855 GGGCAAATCA
* * * *
173865 GTCATTTTACCTTACAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * * *
173892 GCCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * ** *
173919 GTCATTTTACCCTA-AAGTGTATCACT
1 GTCATTTTACCCTATAGGGGTATTTCG
** * *
173945 GTCATTTTACCCTGCAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCG
*
173972 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
173999 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
*
174026 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
174053 ATCATTTTATCCTAT-GGGGATATTTCG
1 GTCATTTTACCCTATAGGGG-TATTTCG
*
174080 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
174107 GTTATTTTACACTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
174134 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
174161 GTCATTTTACCTTATAAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
174188 ATCAT
1 GTCAT
174193 CATTTCGGCC
Statistics
Matches: 262, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 25 0.10
27 233 0.89
28 4 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:181999 original size:42 final size:42
Alignment explanation
Indices: 181953--182044 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
181943 AGTCATGGGT
* * *
181953 GTGTGTCTCAGCCGTGTGAGCTACATTACCTAGAACAGGGGC
1 GTGTGTCTCAGCCGTGAGAGCTACATGACCTAGAACACGGGC
* *
181995 GTGTGTCTCAGCCGTGAGAGCTACATGGCCTAGAACACGGGT
1 GTGTGTCTCAGCCGTGAGAGCTACATGACCTAGAACACGGGC
182037 GTGTGTCT
1 GTGTGTCT
182045 TGTCTGTATG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (42 bp):
GTGTGTCTCAGCCGTGAGAGCTACATGACCTAGAACACGGGC
Found at i:185104 original size:17 final size:17
Alignment explanation
Indices: 185082--185121 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
185072 TATTACCAAT
185082 CAATACACAACATTTAA
1 CAATACACAACATTTAA
*
185099 CAATACACATCATTTAA
1 CAATACACAACATTTAA
185116 C-ATACA
1 CAATACA
185122 TAACTCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (17 bp):
CAATACACAACATTTAA
Found at i:199675 original size:46 final size:45
Alignment explanation
Indices: 199623--199797 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
199613 TGGTTGAGCA
*
199623 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
199669 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
* *
199714 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * *
199762 CCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
199798 GGCGGGTTAC
Statistics
Matches: 105, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.54
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:199743 original size:93 final size:93
Alignment explanation
Indices: 199620--199790 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
199610 GGATGGTTGA
* ** *
199620 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAAT
199685 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
199713 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAAT
199778 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
199791 ACTTAGGGGC
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:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAAT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:206593 original size:16 final size:16
Alignment explanation
Indices: 206572--206602 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
206562 ACTATGGTAT
*
206572 ATGAAATATTGATATA
1 ATGAAATAATGATATA
206588 ATGAAATAATGATAT
1 ATGAAATAATGATAT
206603 GTGTTTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (16 bp):
ATGAAATAATGATATA
Found at i:215126 original size:33 final size:33
Alignment explanation
Indices: 215060--215148 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 33
215050 TAGGCATTTA
215060 TGATACTGTACTGATATGGGCTAACGCCCACAC
1 TGATACTGTACTGATATGGGCTAACGCCCACAC
* *
215093 TGATACTGATACTG-TATTGGGCTAA-GGCTACAC
1 TGATACTG-TACTGATA-TGGGCTAACGCCCACAC
*
215126 TGATATTACG-ACTGATATGGGCT
1 TGATACT--GTACTGATATGGGCT
215149 TAGGCCCAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
33 32 0.67
34 15 0.31
35 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (33 bp):
TGATACTGTACTGATATGGGCTAACGCCCACAC
Found at i:215565 original size:38 final size:38
Alignment explanation
Indices: 215514--215589 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
215504 TTTTCAAAAT
215514 GTAGTAACAATATTAGTAAGAGATATGGTTTTGCTTAA
1 GTAGTAACAATATTAGTAAGAGATATGGTTTTGCTTAA
* *
215552 GTAGTAACAATATTAGTAAGAGTTATGGTTTTTCTTAA
1 GTAGTAACAATATTAGTAAGAGATATGGTTTTGCTTAA
215590 CAATCCTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (38 bp):
GTAGTAACAATATTAGTAAGAGATATGGTTTTGCTTAA
Found at i:221976 original size:6 final size:6
Alignment explanation
Indices: 221965--221998 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
221955 GTGAAATTAA
221965 TAAAAT TAAAAT TAAAAT TAAAA- TAAAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
221999 ATTATCAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
TAAAAT
Found at i:221993 original size:11 final size:11
Alignment explanation
Indices: 221963--221998 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
221953 AGGTGAAATT
221963 AATAAAATTAA
1 AATAAAATTAA
221974 AATTAAAATTAA
1 AA-TAAAATTAA
221986 AATAAAATTAA
1 AATAAAATTAA
221997 AA
1 AA
221999 ATTATCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATTAA
Found at i:221999 original size:12 final size:12
Alignment explanation
Indices: 221963--222000 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
221953 AGGTGAAATT
221963 AATAAAATTAAA
1 AATAAAATTAAA
*
221975 ATTAAAATT-AA
1 AATAAAATTAAA
221986 AATAAAATTAAA
1 AATAAAATTAAA
221998 AAT
1 AAT
222001 TATCAATGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAAAATTAAA
Found at i:222002 original size:18 final size:18
Alignment explanation
Indices: 221965--221998 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
221955 GTGAAATTAA
221965 TAAAATTAAAATTAAAAT
1 TAAAATTAAAATTAAAAT
221983 TAAAA-TAAAATTAAAA
1 TAAAATTAAAATTAAAA
221999 ATTATCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAATTAAAATTAAAAT
Found at i:224005 original size:55 final size:55
Alignment explanation
Indices: 223891--224008 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
223881 TAGTCCTACG
* ** * *
223891 CCCGTGTTAATCTAACAGGTTTGACTACGGTTTCTTGGTACGGGAGTGTCGCACG
1 CCCGTGTTAATCTAACAGGTTTGACCACGGTTTCAGGGCACGGGAGTGTCGCACA
* * * * * * *
223946 CCCGTGTTAATTTGATAGGTTTGGCCACGGTTTCAGGGCATGGGCGTGTTGCACA
1 CCCGTGTTAATCTAACAGGTTTGACCACGGTTTCAGGGCACGGGAGTGTCGCACA
224001 CCCGTGTT
1 CCCGTGTT
224009 GTTTTGGCAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (55 bp):
CCCGTGTTAATCTAACAGGTTTGACCACGGTTTCAGGGCACGGGAGTGTCGCACA
Found at i:233492 original size:49 final size:49
Alignment explanation
Indices: 233432--233949 Score: 750
Period size: 49 Copynumber: 10.6 Consensus size: 49
233422 GATAATTGTG
*
233432 ATGTG-AA-TGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
233479 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
233528 ATGTGAAAGTGTATATATATGTGATACGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
233577 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
233624 ATGCGAAAGTGTATATATATGTGATAAGGCCTAATGGCGGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
233673 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
233722 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
233771 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTAATAGCCG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT-G--A
* *
233821 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGA--AA-GT----GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
233877 ATGTGAAAGTG--TATATATGTGACAGGGCCGAATGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
233924 ATGTGAAATTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
233950 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 21, Indels: 36
0.88 0.04 0.07
Matches are distributed among these distances:
47 131 0.30
48 4 0.01
49 243 0.56
50 6 0.01
52 2 0.00
53 4 0.01
54 2 0.00
56 6 0.01
57 1 0.00
58 1 0.00
59 32 0.07
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:233583 original size:145 final size:144
Alignment explanation
Indices: 233432--233949 Score: 738
Period size: 145 Copynumber: 3.5 Consensus size: 144
233422 GATAATTGTG
*
233432 ATGTGAATGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
233497 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATACGGCCTAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA-GGCCTAA
233562 TGGCCGATGTGATGA
130 TGGCCGATGTGATGA
* * *
233577 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
233642 ATGTGATAAGGCCTAATGGCGGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAA
233707 TGGCCGATGTGATGA
130 TGGCCGATGTGATGA
*
233722 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTGAAA--GTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
233785 ATATGTGATAAGGCCTAATGGCCGATGTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
64 ATATGTGATAAGGCCTAATGGCCGATGTGAT-G--AATGTGA--AA-GT----GTATATATATGT
233850 GATGAGGCCTAATGGCCGATGTGATGA
119 GAT-AGGCCTAATGGCCGATGTGATGA
* * * * * *
233877 ATGTGAAAGTGTATATATGTGACAGGGCCGAATGGCCAATGTGATGGATGTGAAATTGTATA-A-
1 ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
233940 ATGTGATAAG
66 ATGTGATAAG
233950 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 19, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
145 178 0.53
146 2 0.01
147 48 0.14
148 6 0.02
150 2 0.01
151 2 0.01
153 53 0.16
154 1 0.00
155 47 0.14
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (144 bp):
ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAAT
GGCCGATGTGATGA
Found at i:233725 original size:194 final size:198
Alignment explanation
Indices: 233439--233949 Score: 786
Period size: 194 Copynumber: 2.6 Consensus size: 198
233429 GTGATGTGAA
*
233439 TGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
*
233504 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATACGGCCTAATGGCCGA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
*
233569 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT-G-AATGCGA-A
131 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATAGCAATGCGAGA
233631 A-G
196 ATG
*
233633 TGTATATATATGTGATAAGGCCTAATGGCGGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
233698 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
* *
233763 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATAGCCGATGTGAT
131 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATAG-CAATGCGA-
233828 GAATG
194 GAATG
* *
233833 TGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
1 T----GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
* * * * * *
233896 TGACAGGGCCGAATGGCCAATGTGATGGATGTGAAATTGTATA-A-ATGTGATAAG
62 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
233950 TCCCGAAGGG
Statistics
Matches: 292, Mismatches: 15, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
194 179 0.61
195 1 0.00
197 5 0.02
199 2 0.01
200 12 0.04
201 1 0.00
202 45 0.15
204 47 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (198 bp):
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATAGCAATGCGAGA
ATG
Found at i:233829 original size:59 final size:59
Alignment explanation
Indices: 233753--233871 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
233743 TGATAAGGCC
*
233753 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
*
233812 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATG
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
233871 T
1 T
233872 GATGAATGTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.29
Consensus pattern (59 bp):
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
Found at i:233896 original size:106 final size:107
Alignment explanation
Indices: 233704--233918 Score: 360
Period size: 106 Copynumber: 2.0 Consensus size: 107
233694 TGATAAGGCC
*
233704 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
233769 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
65 GAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAATG
*
233812 TAATAGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATGAGGCCTAATGGCCGATGTGATG
1 TAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
233876 AATGTGAAAGTGTATATATGTGACAGGGCCGAATGGCCAATG
66 AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAATG
233918 T
1 T
233919 GATGGATGTG
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
106 73 0.72
108 28 0.28
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (107 bp):
TAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAATG
Found at i:244393 original size:13 final size:13
Alignment explanation
Indices: 244375--244399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
244365 AGTAAGTGAT
244375 TTTGATGATTTTC
1 TTTGATGATTTTC
244388 TTTGATGATTTT
1 TTTGATGATTTT
244400 TGCACTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTGATGATTTTC
Found at i:245208 original size:47 final size:45
Alignment explanation
Indices: 245098--245225 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 45
245088 ATATTTGTGT
* *
245098 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGAGTAAGACATGTCTGGAACATGCATCGG-CACATTATGAGA
* *
245144 GCCAGAGTAAGGCCATGTCTGGAACATGGCATC-G-ACATTGAGATGAGA
1 GCTAGAGTAA-GACATGTCTGGAACAT-GCATCGGCACATT---ATGAGA
* **
245192 GCTAGCGTAAGACATGTCTGGAATGTGCATCGGC
1 GCTAGAGTAAGACATGTCTGGAACATGCATCGGC
245226 CTCAAGATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
45 5 0.08
46 13 0.20
47 29 0.44
48 19 0.29
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
GCTAGAGTAAGACATGTCTGGAACATGCATCGGCACATTATGAGA
Found at i:245248 original size:46 final size:46
Alignment explanation
Indices: 245101--245249 Score: 122
Period size: 46 Copynumber: 3.2 Consensus size: 46
245091 TTTGTGTGCT
* ** * **
245101 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGAATGTGCATCGGCCTCAAGATGAGAGCC
* * * * ** *
245147 AGAGTAAGGCCATGTCTGGAACATG-GCATCGACATTGAGATGAGAGCT
1 AGTGTAA-GACATGTCTGG-A-ATGTGCATCGGCCTCAAGATGAGAGCC
*
245195 AGCGTAAGACATGTCTGGAATGTGCATCGGCCTCAAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGAATGTGCATCGGCCTCAAGATG-AGAGCC
245241 AGTGTAAGA
1 AGTGTAAGA
245250 TGTCTCTGGG
Statistics
Matches: 77, Mismatches: 21, Indels: 10
0.71 0.19 0.09
Matches are distributed among these distances:
45 3 0.04
46 31 0.40
47 21 0.27
48 21 0.27
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGAATGTGCATCGGCCTCAAGATGAGAGCC
Found at i:245352 original size:50 final size:49
Alignment explanation
Indices: 245293--245414 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
245283 TCAGTATAAA
*
245293 ACCATGTCTGGGACATGGCATCAGCACGTAT-ATGT-GAGAGCTAGTGTAAG
1 ACCATGTCTGGGACATGGCATC-G-ACCT-TGATGTCGAGAGCTAGTGTAAG
* * * *
245343 ACCATGTCTGGGACATGGCGTCGACCTTGATTTCGATAGTTAGTGTAAG
1 ACCATGTCTGGGACATGGCATCGACCTTGATGTCGAGAGCTAGTGTAAG
* *
245392 ACCATGTTTGGAACATGGCATCG
1 ACCATGTCTGGGACATGGCATCG
245415 GAATTATACC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
47 1 0.02
48 6 0.10
49 34 0.55
50 21 0.34
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (49 bp):
ACCATGTCTGGGACATGGCATCGACCTTGATGTCGAGAGCTAGTGTAAG
Found at i:260114 original size:26 final size:26
Alignment explanation
Indices: 260085--260144 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
260075 TCCCTTTGAA
* * *
260085 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
260111 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
260139 CCATTC
1 TCATTC
260145 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:260130 original size:28 final size:28
Alignment explanation
Indices: 260099--260170 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
260089 TCGATATTTT
*
260099 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
260127 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
260155 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
260171 ATTTGATTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:273558 original size:24 final size:25
Alignment explanation
Indices: 273526--273577 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
273516 GCCTAGCCTC
273526 TTTTAAT-AACTAGGGCAAAACCCT
1 TTTTAATAAACTAGGGCAAAACCCT
* * *
273550 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAACCCT
273575 TTT
1 TTT
273578 CGGTAAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAACCCT
Found at i:273566 original size:25 final size:25
Alignment explanation
Indices: 273533--273588 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
273523 CTCTTTTAAT
*
273533 AACTAGGGCAAAACCCTTTTTGATA
1 AACTAGGGCAAAACCCTTTTCGATA
* * *
273558 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAACCCTTTTCGATA
273583 AACTAG
1 AACTAG
273589 AGCATAGCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
AACTAGGGCAAAACCCTTTTCGATA
Found at i:273779 original size:27 final size:27
Alignment explanation
Indices: 273749--273882 Score: 169
Period size: 27 Copynumber: 5.0 Consensus size: 27
273739 GGGGCAAAAT
* * * *
273749 GGTAATTTTACCCCACAAGGTTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
273776 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
273803 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
273830 GGTGATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
273857 GGTAATTCTACCCCACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
273883 TAGTATTTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:273881 original size:54 final size:54
Alignment explanation
Indices: 273749--273883 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
273739 GGGGCAAAAT
* * * *
273749 GGTAATTTTACCCCACAAGGTTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC
* * *
273803 GGTATTTCTACCCTACAAGGGTATTTTGGTGATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC
*
273857 GGTAATTCTACCCCACAGGGGTATTTT
1 GGTAATTCTACCCCACAAGGGTATTTT
273884 AGTATTTTTC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCCACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC
Found at i:273923 original size:27 final size:27
Alignment explanation
Indices: 273875--274239 Score: 290
Period size: 27 Copynumber: 13.6 Consensus size: 27
273865 TACCCCACAG
* * *
273875 GGGTATTTTAGT-ATTTTTCAAAGCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
273901 TGGTATTTTGGTAATTTAACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* ** *
273928 GGGTATTTTGGTAACTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
273955 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* **
273982 GGGCATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
274009 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
274036 GGGTATTTTGGTAACTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
274063 AGGTATTTTGGTAATTTTACAAATCGAA
1 GGGTATTTTGGTAATTTTACAAA-CCAA
* * *
274091 -GGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
274116 TGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * *
274143 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * ** ***
274169 TGGTATGTCAGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * * *
274196 GGATATTTGGGTAATTTTATAAATC-G
1 GGGTATTTTGGTAATTTTACAAACCAA
274222 GGGTTATTTTGGTAATTT
1 GGG-TATTTTGGTAATTT
274240 GGTAAATTAA
Statistics
Matches: 279, Mismatches: 54, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
25 1 0.00
26 55 0.20
27 220 0.79
28 3 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:284847 original size:82 final size:82
Alignment explanation
Indices: 284724--284911 Score: 247
Period size: 82 Copynumber: 2.3 Consensus size: 82
284714 AGATACGTGC
* * * * *
284724 CCCTA-TTTGTACTTCGGTACCCTTGAATTGTACATATGTGCCTCTATTTGTATTTCGGTACC-C
1 CCCTAGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGCCCCTATTTGTACTTCAGTACCAC
* *
284787 TTGAATTGCACAGACATG
66 -TAAATTGCACAAACATG
* *
284805 CCCGT-GTTTGTACTTCGGTACCCCTGAATTGCACATTTGTGCCCCTATTTTTACTTCAGTACCA
1 CCC-TAGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGCCCCTATTTGTACTTCAGTACCA
*
284869 CTAAATTGCACAAACGTG
65 CTAAATTGCACAAACATG
284887 CCCTAGTTTGTACTTCGGTACCCCT
1 CCCTAGTTTGTACTTCGGTACCCCT
284912 AAATGTACTT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
81 4 0.04
82 88 0.95
83 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.36
Consensus pattern (82 bp):
CCCTAGTTTGTACTTCGGTACCCCTGAATTGCACATATGTGCCCCTATTTGTACTTCAGTACCAC
TAAATTGCACAAACATG
Found at i:284915 original size:41 final size:40
Alignment explanation
Indices: 284710--284911 Score: 215
Period size: 41 Copynumber: 4.9 Consensus size: 40
284700 AAATGATAAG
* *
284710 TTGCAGATACGTGCCCCTATTTGTACTTCGGTACCCTTGAA
1 TTGCACATACGTG-CCCTATTTGTACTTCGGTACCCCTGAA
* * * *
284751 TTGTACATATGTGCCTCTATTTGTATTTCGGTACCCTTGAA
1 TTGCACATACGTGCC-CTATTTGTACTTCGGTACCCCTGAA
* * *
284792 TTGCACAGACATGCCCGTGTTTGTACTTCGGTACCCCTGAA
1 TTGCACATACGTGCCC-TATTTGTACTTCGGTACCCCTGAA
** * * * *
284833 TTGCACATTTGTGCCCCTATTTTTACTTCAGTACCACTAAA
1 TTGCACATACGTG-CCCTATTTGTACTTCGGTACCCCTGAA
*
284874 TTGCACAAACGTGCCCTAGTTTGTACTTCGGTACCCCT
1 TTGCACATACGTGCCCTA-TTTGTACTTCGGTACCCCT
284912 AAATGTACTT
Statistics
Matches: 131, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
40 8 0.06
41 120 0.92
42 3 0.02
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (40 bp):
TTGCACATACGTGCCCTATTTGTACTTCGGTACCCCTGAA
Found at i:293269 original size:32 final size:32
Alignment explanation
Indices: 293200--293272 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
293190 TATCAATTAA
* * * *
293200 GCCTAACCCATCTTAGAATCAATATCAGTTGG
1 GCCTAGCCCATATCAGAACCAATATCAGTTGG
293232 GCCTAGCCCATATCAGAACCAATATCAGTTGG
1 GCCTAGCCCATATCAGAACCAATATCAGTTGG
293264 GCCTAGCCC
1 GCCTAGCCC
293273 TTTTCAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (32 bp):
GCCTAGCCCATATCAGAACCAATATCAGTTGG
Found at i:300943 original size:39 final size:40
Alignment explanation
Indices: 300843--301027 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
300833 TCGAATGATG
* * * *
300843 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGC-GAGTTACTAAT
* **
300882 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
300923 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTAAT
*
300962 TCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
301001 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGCCCCGAAGGCATTTG
301028 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 35 0.29
40 78 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:306848 original size:77 final size:80
Alignment explanation
Indices: 306728--306907 Score: 208
Period size: 77 Copynumber: 2.3 Consensus size: 80
306718 TCGAATGATG
* * *
306728 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAATCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAACCCAAAGGCATTT
306792 GT-CGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * ** * *
306805 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAGCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAACCCAAAGGCATT
306868 TGTGCGAGTTACTATA
65 TGTGCGAGTTACTATA
* *
306884 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
306908 TGAACGAGTA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 37 0.43
78 36 0.42
79 13 0.15
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAACCCAAAGGCATTT
GTGCGAGTTACTATA
Found at i:306849 original size:39 final size:39
Alignment explanation
Indices: 306728--306909 Score: 199
Period size: 39 Copynumber: 4.6 Consensus size: 39
306718 TCGAATGATG
* * * *
306728 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* ** * *
306768 TCCGGACTAAATCCAAAGGCATTTGT-CGAGTTACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
306806 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
306845 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
306885 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
306910 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 27 0.23
39 62 0.52
40 30 0.25
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:306940 original size:78 final size:76
Alignment explanation
Indices: 306765--306941 Score: 187
Period size: 78 Copynumber: 2.3 Consensus size: 76
306755 CTAAGTGACC
* * *
306765 ATATCCGGACTAAATCCAAAGGCATTTGTCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTG
1 ATATCCGG-TTAAATCCGAAGGCATTTGTCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTG
**
306830 GTGCGAGTTACT
65 GAACGAGTTACT
* ** *
306842 AAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCA
1 ATATCC-GGTTAAATCCGAAGGCATTTGT-CGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCA
*
306906 TTTGAACGAG-TAGCT
62 TTGGAACGAGTTA-CT
*
306921 ATATCCGGTTAAATTCGAAGG
1 ATATCCGGTTAAATCCGAAGG
306942 TACGTGATTC
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
77 23 0.28
78 34 0.42
79 24 0.30
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (76 bp):
ATATCCGGTTAAATCCGAAGGCATTTGTCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
AACGAGTTACT
Found at i:309156 original size:43 final size:42
Alignment explanation
Indices: 309119--309232 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
309109 ATCTCGTTTC
* * *
309119 GATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATT
1 GATGCC-ATAACCCAGATAGGGTCTTACACGAAATCTCATATT
* * *
309162 GATGCCATAATCCAGATAGGGTCTTACACGAAGTCTCATAAT
1 GATGCCATAACCCAGATAGGGTCTTACACGAAATCTCATATT
* * **
309204 GATGCCATATCTCAGATATAGTCTTACAC
1 GATGCCATAACCCAGATAGGGTCTTACAC
309233 ATAGTTTCGG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 54 0.90
43 6 0.10
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
GATGCCATAACCCAGATAGGGTCTTACACGAAATCTCATATT
Found at i:309192 original size:42 final size:42
Alignment explanation
Indices: 309139--309232 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
309129 GCCCAGCTAT
*
309139 GGTCTTACACGAAATCTCATATTGATGCCATAATC-CAGATAG
1 GGTCTTACACGAAATCTCATAATGATGCCAT-ATCTCAGATAG
* *
309181 GGTCTTACACGAAGTCTCATAATGATGCCATATCTCAGATAT
1 GGTCTTACACGAAATCTCATAATGATGCCATATCTCAGATAG
*
309223 AGTCTTACAC
1 GGTCTTACAC
309233 ATAGTTTCGG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
41 3 0.06
42 44 0.94
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (42 bp):
GGTCTTACACGAAATCTCATAATGATGCCATATCTCAGATAG
Found at i:311363 original size:11 final size:11
Alignment explanation
Indices: 311347--311371 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
311337 CCAAGGAACG
311347 CACGGCCAAAC
1 CACGGCCAAAC
311358 CACGGCCAAAC
1 CACGGCCAAAC
311369 CAC
1 CAC
311372 ACGCCCGTGC
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:0.48, G:0.16, T:0.00
Consensus pattern (11 bp):
CACGGCCAAAC
Found at i:312550 original size:11 final size:11
Alignment explanation
Indices: 312534--312558 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
312524 AATATAGGTG
312534 ACTAAAATGTA
1 ACTAAAATGTA
312545 ACTAAAATGTA
1 ACTAAAATGTA
312556 ACT
1 ACT
312559 TGAAACAAAC
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:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (11 bp):
ACTAAAATGTA
Found at i:316007 original size:46 final size:46
Alignment explanation
Indices: 315940--316199 Score: 207
Period size: 46 Copynumber: 5.7 Consensus size: 46
315930 GTAACCGCCT
*
315940 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCC
* * * *
315986 ATAAGTGAACTCGGACTCAACTCAACGAGTAC--TTAGTT-ACAT--
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGT-GTTCGCATCC
* * **
316028 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCC
* * * * *
316073 ATAAGTGAAATTGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTCGCATCC
* * **
316122 -TCA-CGAATTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCC
* * *
316166 ATAAGTGAACTCGAACTCAACTCAATGAGTTCGG
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
316200 ATGCCCAAAT
Statistics
Matches: 164, Mismatches: 34, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
41 25 0.15
42 7 0.04
43 6 0.04
44 5 0.03
45 8 0.05
46 79 0.48
47 25 0.15
48 2 0.01
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCATCC
Found at i:316150 original size:93 final size:93
Alignment explanation
Indices: 315945--316204 Score: 370
Period size: 93 Copynumber: 2.9 Consensus size: 93
315935 CGCCTATAAG
* *
315945 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
316010 ACGAG--T--A--CTTAGTTACATTTCA
66 ACGAGTTTGGATGCCTAGTTACATCTCA
* * *
316032 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAAATTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
316097 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTTGGATGCCTAGTTACATCTCA
* * *
316125 CGAATTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
316190 ATGAGTTCGGATGCC
66 ACGAGTTTGGATGCC
316205 CAAATATCCT
Statistics
Matches: 152, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
87 65 0.43
89 1 0.01
91 1 0.01
93 85 0.56
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTTGGATGCCTAGTTACATCTCA
Found at i:318939 original size:11 final size:11
Alignment explanation
Indices: 318922--318955 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
318912 CATAGCACAC
318922 AAAACAATTTG
1 AAAACAATTTG
*
318933 GAAACAATTTG
1 AAAACAATTTG
*
318944 AAAACTATTTG
1 AAAACAATTTG
318955 A
1 A
318956 TATATGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (11 bp):
AAAACAATTTG
Found at i:319235 original size:25 final size:25
Alignment explanation
Indices: 319193--319241 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
319183 TATAATAACA
*
319193 AAGAATAAACAATATAC-ATGAAAG
1 AAGAACAAACAATATACAATGAAAG
319217 AAGAACAAACCAATATACAATGAAA
1 AAGAACAAA-CAATATACAATGAAA
319242 CTATATATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 8 0.36
26 6 0.27
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.14
Consensus pattern (25 bp):
AAGAACAAACAATATACAATGAAAG
Found at i:322308 original size:39 final size:39
Alignment explanation
Indices: 322191--322452 Score: 309
Period size: 39 Copynumber: 6.6 Consensus size: 39
322181 GCTCCTCGTT
* * * *
322191 CAAATGCCTTCGGGACATAGCCCGG-TTATATTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
* * * *
322231 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
322271 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
322310 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
322349 CAAATGCCTTCGGGCTTAGCCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
322388 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
322429 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
322453 CATCATTCAA
Statistics
Matches: 203, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
39 129 0.64
40 63 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:324662 original size:176 final size:176
Alignment explanation
Indices: 324456--325107 Score: 789
Period size: 176 Copynumber: 3.7 Consensus size: 176
324446 CTTGGGGCTT
* * * *
324456 AAATCTGCTCCATTGCCGATACAAGGAGATAAGATTCGCC-TCTTTCGATCTACTCTGATTCTGT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATC-TTCGATCTACTCTGATACTGC
* * ** * *
324520 TTAGGGAGATAAGATCTTCAATCTTTAGCCTGCTTTTTTGCTGCCTCAGAAAGATAAGACTACAA
65 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* *
324585 TCGCCAACCTACTCTCTTGCTACCTTAAAGAGATAAGGCTAGTGGTA
130 TCGCCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTAGTGGTA
* * *
324632 AAATCTGCTCCATTGCCGATACATGGAGATAAAATTCACCATCTTCGATTTGA-TCCT-CTACTG
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCT-ACT-CTGATACTG
* * * * *
324695 CTTAGAGATATAAAATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAATATAAGACT-CA
64 CTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACA
* ** *
324759 TTCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGACTAGTGGTA
129 ATCGCCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTAGTGGTA
* * * * *
324807 AAATATGCTCCATTGCCAATACATGGGGATAAGATTCACCATCTTCGATCTGCTC-CACTACTGC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCTGA-TACTGC
*
324871 TTAGGGAAAT-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
65 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAA
* *
324935 TCGCCAACTTGCTCTCTTGCTACCACAAAGAGATAAGG-TCAGTGGCTA
130 TCGCCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCT-AGTGG-TA
* * * * * * *
324983 AAATCTACTCCATTGCTGATACATGGAGATAAGATTCGCTATCTTCGATCTGCTCTGCTACTTCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCTGATACTGCT
* * * * *
325048 TAGGGAGATAAGATATTCAATCTTCAGTCTGC-TCCACTGCAACCTTAGGGAGATAAGACT
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGACT
325108 TGCATATTGA
Statistics
Matches: 406, Mismatches: 58, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
174 49 0.12
175 145 0.36
176 166 0.41
177 46 0.11
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (176 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCTGATACTGCT
TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT
CGCCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTAGTGGTA
Found at i:325106 original size:351 final size:351
Alignment explanation
Indices: 324456--325107 Score: 866
Period size: 351 Copynumber: 1.9 Consensus size: 351
324446 CTTGGGGCTT
* * * * * *
324456 AAATCTGCTCCATTGCCGATACAAGGAGATAAGATTCGCCTCTTTCGATCTACTCTGATTCTGTT
1 AAATATGCTCCATTGCCAATACAAGGAGATAAGATTCACCTCTTTCGATCTACTCTCATACTGCT
* * ** *
324521 TAGGGAGATAAGATCTTCAATCTTTAGCCTGCTTTTTTGCTGCCTCAGAAAGATAAGACTACAAT
66 TAGGGAAATAAGATCTTCAATCTTCAGCCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAAT
** *
324586 CGCCAACCTACTCTCTTGCTACCTTAAAGAGATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGA
131 CGCCAACCTACTCTCTTGCTACCACAAAGAGATAAGGCTAGTGGTAAAATCTACTCCATTGCCGA
* * *
324651 TACATGGAGATAAAATTCACCATCTTCGATTTGATCCTCTACTGCTTAGAGATATAAAATCTTCA
196 TACATGGAGATAAAATTCACCATCTTCGATCTGATCCTCTACTGCTTAGAGAGATAAAATATTCA
* * * *
324716 ATTTTCAGTCTGCTTCCTTGCTACCTCAGGAATATAAGACTCATTCTTCAACCTGCTCTCTTGCT
261 ATCTTCAGTCTGCTTCCCTGCAACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCT
324781 ACCTCAAAGAGATAAGACTAGTGGTA
326 ACCTCAAAGAGATAAGACTAGTGGTA
* * *
324807 AAATATGCTCCATTGCCAATACATGGGGATAAGATTCACCATC-TTCGATCTGCTC-CACTACTG
1 AAATATGCTCCATTGCCAATACAAGGAGATAAGATTCACC-TCTTTCGATCTACTCTCA-TACTG
* *
324870 CTTAGGGAAAT-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACA
64 CTTAGGGAAATAAGATCTTCAATCTTCAGCCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACA
* *
324934 ATCGCCAACTTGCTCTCTTGCTACCACAAAGAGATAAGG-TCAGTGGCTAAAATCTACTCCATTG
129 ATCGCCAACCTACTCTCTTGCTACCACAAAGAGATAAGGCT-AGTGG-TAAAATCTACTCCATTG
* * * * * * * *
324998 CTGATACATGGAGATAAGATTCGCTATCTTCGATCTGCT-CTGCTACTTCTTAGGGAGATAAGAT
192 CCGATACATGGAGATAAAATTCACCATCTTCGATCTGATCCT-CTACTGCTTAGAGAGATAAAAT
* *
325062 ATTCAATCTTCAGTCTGC-TCCACTGCAACCTTAGGGAGATAAGACT
256 ATTCAATCTTCAGTCTGCTTCC-CTGCAACCTCAGGAAGATAAGACT
325108 TGCATATTGA
Statistics
Matches: 257, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
349 1 0.00
350 93 0.36
351 161 0.63
352 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (351 bp):
AAATATGCTCCATTGCCAATACAAGGAGATAAGATTCACCTCTTTCGATCTACTCTCATACTGCT
TAGGGAAATAAGATCTTCAATCTTCAGCCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAAT
CGCCAACCTACTCTCTTGCTACCACAAAGAGATAAGGCTAGTGGTAAAATCTACTCCATTGCCGA
TACATGGAGATAAAATTCACCATCTTCGATCTGATCCTCTACTGCTTAGAGAGATAAAATATTCA
ATCTTCAGTCTGCTTCCCTGCAACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCT
ACCTCAAAGAGATAAGACTAGTGGTA
Found at i:325652 original size:64 final size:64
Alignment explanation
Indices: 325462--325653 Score: 321
Period size: 64 Copynumber: 3.0 Consensus size: 64
325452 TTCATGTATC
* * *
325462 ATGCTTATGCCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
325526 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
** *
325590 ATGCTTATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTGGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
325654 TTATGAATGA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 120 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:327315 original size:28 final size:29
Alignment explanation
Indices: 327279--327341 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
327269 TCACTATGAC
* * *
327279 CTTTGTTCTATTGTT-TGCTTTTCCTTTT
1 CTTTTTTCTATCGTTGTACTTTTCCTTTT
**
327307 CTTTTTTCTATCGTTGTACTTTTGTTTTT
1 CTTTTTTCTATCGTTGTACTTTTCCTTTT
327336 CTTTTT
1 CTTTTT
327342 GGACGCCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.05, C:0.16, G:0.10, T:0.70
Consensus pattern (29 bp):
CTTTTTTCTATCGTTGTACTTTTCCTTTT
Found at i:333462 original size:18 final size:19
Alignment explanation
Indices: 333431--333466 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
333421 TTTTAGGGTT
*
333431 TTTTATTTATTTTTTATTA
1 TTTTATTTAATTTTTATTA
333450 TTTT-TTTAATTTTTATT
1 TTTTATTTAATTTTTATT
333467 CTGGTTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTATTTAATTTTTATTA
Found at i:333857 original size:42 final size:42
Alignment explanation
Indices: 333746--333860 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
333736 TACCGTACCA
* * *
333746 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATTG
* *
333788 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCAT-TTCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATT-G
333831 ATGCCATATCCCAGATATGGTCTTACACGT
1 ATGCCATATCCCAGATATGGTCTTACACGT
333861 TAACTCAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
42 31 0.50
43 31 0.50
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATTG
Found at i:337607 original size:25 final size:25
Alignment explanation
Indices: 337511--337603 Score: 114
Period size: 25 Copynumber: 3.7 Consensus size: 25
337501 GATACTCCAC
* *
337511 AGCTCGTGTGAGCATACCAATCTAC
1 AGCTCGTGTGAGCATACCAATTTAT
* *
337536 ACCTCGTGTGAGCATACCAACTTAT
1 AGCTCGTGTGAGCATACCAATTTAT
* **
337561 AGCTCGTGAGAGCATACTGATTTAT
1 AGCTCGTGTGAGCATACCAATTTAT
*
337586 AGCTCGAGTGAGCATACC
1 AGCTCGTGTGAGCATACC
337604 GATTCACAAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCAATTTAT
Found at i:345602 original size:24 final size:24
Alignment explanation
Indices: 345570--345617 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
345560 GATTACGTGT
345570 AAGACCATGTCTAGGACATTGGCA
1 AAGACCATGTCTAGGACATTGGCA
345594 AAGACCATGTCTAGGACATTGGCA
1 AAGACCATGTCTAGGACATTGGCA
345618 TTGTTAATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (24 bp):
AAGACCATGTCTAGGACATTGGCA
Found at i:345637 original size:67 final size:67
Alignment explanation
Indices: 345526--345660 Score: 182
Period size: 67 Copynumber: 2.0 Consensus size: 67
345516 TGATTACCTA
* * * *
345526 AAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATGTCTAGGACATTG
1 AAAGACCATGTCTAGGACATTGGCATTGTAATGCGATTACGTGTAAGACCATGTCTAGGACAGTG
345591 GC
66 GC
** * *
345593 AAAGACCATGTCTAGGACATTGGCATTGTTAAT-CGATTTTGTGTAAGACCCTGTCTGGGACAGT
1 AAAGACCATGTCTAGGACATTGGCATTG-TAATGCGATTACGTGTAAGACCATGTCTAGGACAGT
345657 GGC
65 GGC
345660 A
1 A
345661 TCGATATGTG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
67 56 0.95
68 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (67 bp):
AAAGACCATGTCTAGGACATTGGCATTGTAATGCGATTACGTGTAAGACCATGTCTAGGACAGTG
GC
Found at i:353507 original size:48 final size:46
Alignment explanation
Indices: 353395--353515 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
353385 TGATATGTGT
* *
353395 GCTAGTGTAAGACATGTCTGGGACATGCGTCGGCCACATTACGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGA
* *
353441 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATAC-A-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-C-ACAT-TACGAGA
*
353489 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
353516 GCGTCAGCTT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 30 0.46
47 1 0.02
48 27 0.42
49 4 0.06
50 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGA
Found at i:353596 original size:49 final size:49
Alignment explanation
Indices: 353538--353665 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
353528 TGTGTGTCAA
* * * * *
353538 TGTAAGACCTATCTAGGACATAGCATCGACAC-CGATAGATGAGAG-CTAG
1 TGTAAGACCTGTATGGGACATGGCATCGAC-CTCGATAGATGAAAGTCT-G
* *
353587 TGTAAGACCTGTATGGGACATGGCATCGGCCTCGATATATGAAAGTCTG
1 TGTAAGACCTGTATGGGACATGGCATCGACCTCGATAGATGAAAGTCTG
*
353636 TGTAAGACCTGTTTGGGACATGGCATCGAC
1 TGTAAGACCTGTATGGGACATGGCATCGAC
353666 TTTGATGTGC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 65 0.96
50 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTATGGGACATGGCATCGACCTCGATAGATGAAAGTCTG
Found at i:356923 original size:6 final size:6
Alignment explanation
Indices: 356905--356993 Score: 67
Period size: 6 Copynumber: 14.5 Consensus size: 6
356895 AAGAAACATT
* * *
356905 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
356954 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATC
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATC
356994 GGTATCAGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:356950 original size:31 final size:31
Alignment explanation
Indices: 356914--357007 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
356904 TATCAGAACT
* * *
356914 AGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
356945 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
356976 AGAATCAAAATCAGAATCGGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
357007 A
1 A
357008 AAATAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:356978 original size:25 final size:24
Alignment explanation
Indices: 356950--356997 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
356940 GTGACAGAAT
* *
356950 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATC-GGTAA
356975 CAGAATCAAAATCAGAATCGGTA
1 CAGAATCAAAATCAGAATCGGTA
356998 TCAGGTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (24 bp):
CAGAATCAAAATCAGAATCGGTAA
Found at i:357203 original size:27 final size:26
Alignment explanation
Indices: 357161--357262 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
357151 GCTCAGTTAT
* *
357161 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
357188 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
357214 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
357242 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
357263 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:357446 original size:22 final size:22
Alignment explanation
Indices: 357421--357485 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
357411 GCAAATACGT
* *
357421 TTGGCATACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
357443 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
357465 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
357486 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:357962 original size:27 final size:27
Alignment explanation
Indices: 357905--358261 Score: 493
Period size: 27 Copynumber: 13.3 Consensus size: 27
357895 GGGGCAAAAT
* * * *
357905 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
357931 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
357958 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
357985 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
358012 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
358039 GATAATTCTACACTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
358066 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
358093 GGTAATTTTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
358120 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
358147 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
358173 TGATAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
358201 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
358228 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
358255 GGTAATT
1 GGTAATT
358262 TTGTAAATCG
Statistics
Matches: 297, Mismatches: 31, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
26 17 0.06
27 277 0.93
28 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:361856 original size:29 final size:29
Alignment explanation
Indices: 361790--361886 Score: 162
Period size: 28 Copynumber: 3.4 Consensus size: 29
361780 ATTGCATAGA
*
361790 ACTAAGTGTGCAAGTTTGATTATAT-AGC
1 ACTAAGTGTGCGAGTTTGATTATATAAGC
*
361818 ACTAAGTGTGCGAGTTTGATTATGTAAGC
1 ACTAAGTGTGCGAGTTTGATTATATAAGC
361847 ACTAAGTGTGCGAGTTTGATTATATAA-C
1 ACTAAGTGTGCGAGTTTGATTATATAAGC
361875 ACTAAGTGTGCG
1 ACTAAGTGTGCG
361887 GACTTACTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 36 0.55
29 29 0.45
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (29 bp):
ACTAAGTGTGCGAGTTTGATTATATAAGC
Found at i:371174 original size:79 final size:81
Alignment explanation
Indices: 371034--371218 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
371024 TTGAATGATG
*
371034 TCTGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATT
1 TCTGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATT
371098 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
371113 TTCTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCTGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGAT-CCGAAGGCA
*
371175 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
371193 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCTGGGCTAAGTCCCGAAGGCATTTG
371219 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCTGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:371225 original size:40 final size:40
Alignment explanation
Indices: 371037--371218 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
371027 AATGATGTCT
* * * *
371037 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * * * *
371077 AGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
371117 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
371156 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
371196 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
371219 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Done.