Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 170 of 206
Found at i:51720466 original size:15 final size:15
Alignment explanation
Indices: 51720428--51720466 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
51720418 TGCTTCTAAA
51720428 ATGAA-TGATATGAT
1 ATGAATTGATATGAT
51720442 ATG-ATATGATATGAT
1 ATGAAT-TGATATGAT
51720457 ATGAATTGAT
1 ATGAATTGAT
51720467 CTATAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 3 0.14
15 16 0.73
16 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (15 bp):
ATGAATTGATATGAT
Found at i:51729772 original size:19 final size:20
Alignment explanation
Indices: 51729729--51729773 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
51729719 ATAGCTTAAA
*
51729729 AAATTTTGAAACAAGATTTT
1 AAATTTTGAAACAAGATTAT
* *
51729749 AAATTTTTAAA-AATATTAT
1 AAATTTTGAAACAAGATTAT
51729768 AAATTT
1 AAATTT
51729774 ATACAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
AAATTTTGAAACAAGATTAT
Found at i:51738101 original size:13 final size:13
Alignment explanation
Indices: 51738085--51738115 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
51738075 AAAATTCTTT
51738085 AAAATTAATATAA
1 AAAATTAATATAA
51738098 AAAATTAATATAA
1 AAAATTAATATAA
51738111 AAAAT
1 AAAAT
51738116 CAAATGCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTAATATAA
Found at i:51742410 original size:6 final size:6
Alignment explanation
Indices: 51742399--51742424 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51742389 CCCAATATTC
51742399 CCCTTT CCCTTT CCCTTT CCCTTT CC
1 CCCTTT CCCTTT CCCTTT CCCTTT CC
51742425 AATCCCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (6 bp):
CCCTTT
Found at i:51742492 original size:16 final size:16
Alignment explanation
Indices: 51742471--51742501 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51742461 CTAAAAGTTT
51742471 TGTTGCTTCTTGCTTC
1 TGTTGCTTCTTGCTTC
*
51742487 TGTTGCTTTTTGCTT
1 TGTTGCTTCTTGCTT
51742502 ATTTATTCGC
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:0.00, C:0.19, G:0.19, T:0.61
Consensus pattern (16 bp):
TGTTGCTTCTTGCTTC
Found at i:51743006 original size:49 final size:49
Alignment explanation
Indices: 51742844--51743007 Score: 131
Period size: 49 Copynumber: 3.4 Consensus size: 49
51742834 CCAGCTTGTA
* * *
51742844 TTGAACTACATCAATTATGGTATTATGCTCAGATGCTTGTATTAAACAT
1 TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
* * * * * * *
51742893 TTGAACTGCATTAATTATGTTTTTTTTACTTAGATCCTT-TGA-GGTAAC--
1 TTGAACTGCATCAATTATG-GTATTATGCTTAGATGCTTGT-ATTG-AACAT
* ** *
51742941 -TCATTTGCATCGATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
1 TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
*
51742989 TTGAACTGCATCCATTATG
1 TTGAACTGCATCAATTATG
51743008 TTCTTTTTAC
Statistics
Matches: 82, Mismatches: 25, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
46 18 0.22
47 15 0.18
49 32 0.39
50 17 0.21
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (49 bp):
TTGAACTGCATCAATTATGGTATTATGCTTAGATGCTTGTATTGAACAT
Found at i:51743006 original size:96 final size:97
Alignment explanation
Indices: 51742852--51743045 Score: 318
Period size: 96 Copynumber: 2.0 Consensus size: 97
51742842 TATTGAACTA
* *
51742852 CATCAATTATGGTATTATGCTCAGATGCTTGTATTAAACATTTGAACTGCATTAATTATGTTTTT
1 CATCAATTATGGTATTATGCTCAGATGCTTGTATTAAACATTTGAACTGCATCAATTATGTTCTT
51742917 TTTACTTAGAT-CCTTTGAGGTAACTCATTTG
66 TTTACTTAGATGCCTTTGAGGTAACTCATTTG
* * * *
51742948 CATCGATTATGGTATTATGCTTAGATGCTTGTATTGAACATTTGAACTGCATCCATTATGTTCTT
1 CATCAATTATGGTATTATGCTCAGATGCTTGTATTAAACATTTGAACTGCATCAATTATGTTCTT
*
51743013 TTTACTTAGATGCCTTTGCGGTAACTCATTTG
66 TTTACTTAGATGCCTTTGAGGTAACTCATTTG
51743045 C
1 C
51743046 CTCTTTAATA
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
96 70 0.78
97 20 0.22
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (97 bp):
CATCAATTATGGTATTATGCTCAGATGCTTGTATTAAACATTTGAACTGCATCAATTATGTTCTT
TTTACTTAGATGCCTTTGAGGTAACTCATTTG
Found at i:51743207 original size:10 final size:10
Alignment explanation
Indices: 51743192--51743220 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
51743182 TTTAAAAATG
51743192 GGTCGGGCCA
1 GGTCGGGCCA
51743202 GGTCGGGCCA
1 GGTCGGGCCA
51743212 GGTCGGGCC
1 GGTCGGGCC
51743221 CAAGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.31, G:0.52, T:0.10
Consensus pattern (10 bp):
GGTCGGGCCA
Found at i:51743574 original size:19 final size:19
Alignment explanation
Indices: 51743550--51743611 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
51743540 AAAAATTTGA
51743550 TCTTAACATTAATTTTAAT
1 TCTTAACATTAATTTTAAT
* ** * *
51743569 TCTTAATAAAAACTTTGA-
1 TCTTAACATTAATTTTAAT
*
51743587 TCTTAACATTAATTATAAT
1 TCTTAACATTAATTTTAAT
51743606 TCTTAA
1 TCTTAA
51743612 TCTTGGATTT
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (19 bp):
TCTTAACATTAATTTTAAT
Found at i:51743579 original size:37 final size:37
Alignment explanation
Indices: 51743538--51743612 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
51743528 TTGACGATGG
*
51743538 TAAAAAATTTGATCTTAACATTAATTTTAATTCTTAA
1 TAAAAAATTTGATCTTAACATTAATTATAATTCTTAA
*
51743575 TAAAAACTTTGATCTTAACATTAATTATAATTCTTAA
1 TAAAAAATTTGATCTTAACATTAATTATAATTCTTAA
51743612 T
1 T
51743613 CTTGGATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (37 bp):
TAAAAAATTTGATCTTAACATTAATTATAATTCTTAA
Found at i:51743989 original size:76 final size:76
Alignment explanation
Indices: 51743866--51744093 Score: 381
Period size: 76 Copynumber: 3.0 Consensus size: 76
51743856 TATCAAATTT
* * *
51743866 TATTTGTTTAAATATATA---TAATTTCCCACAAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
51743928 TAAATAAAGAA
66 TAAATAAAGAA
*
51743939 TATTTTTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
51744004 TAAATAAAGAA
66 TAAATAAAGAA
* *
51744015 TATTTGTTTGAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTTTT
1 TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
51744080 TAAATAAAGAA
66 TAAATAAAGAA
51744091 TAT
1 TAT
51744094 ATTGGAACGT
Statistics
Matches: 145, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
73 17 0.12
76 128 0.88
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (76 bp):
TATTTGTTTAAATATATATGTTAATTGCCGACGAAAAGATAAGCTTTTGTGATATTGGTTCTCTT
TAAATAAAGAA
Found at i:51744516 original size:44 final size:44
Alignment explanation
Indices: 51744466--51744553 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
51744456 ATTAACGCAA
* * * *
51744466 TATTTGGTAGTACAAAATTATTTGAAAGCTCCAGAAGAGCTAAT
1 TATTTGGTAATACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
51744510 TATTTGGTAATACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
1 TATTTGGTAATACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
51744554 ATATCAATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (44 bp):
TATTTGGTAATACAAAATTAATTAAAAGCTCCAGAAAAGCTAAT
Found at i:51746515 original size:27 final size:27
Alignment explanation
Indices: 51746445--51746563 Score: 87
Period size: 27 Copynumber: 4.4 Consensus size: 27
51746435 AGCCTACTAG
* * * *
51746445 GACAATAAACACAAGGCAGTCTGTTGG
1 GACAATAAACACAGGGTAGTCTGCTGA
* *
51746472 GACAATAAACACGGGGTAGTCTGCCGA
1 GACAATAAACACAGGGTAGTCTGCTGA
* * * *
51746499 GACAATAAACATAGGGTAATCCGCTAA
1 GACAATAAACACAGGGTAGTCTGCTGA
* * * *
51746526 GATAATAAACA-TGGAGTAGTCTGTTAA
1 GACAATAAACACAGG-GTAGTCTGCTGA
*
51746553 GACAGTAAACA
1 GACAATAAACA
51746564 TGGAGTTGCT
Statistics
Matches: 72, Mismatches: 19, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
26 2 0.03
27 70 0.97
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (27 bp):
GACAATAAACACAGGGTAGTCTGCTGA
Found at i:51761832 original size:40 final size:40
Alignment explanation
Indices: 51761752--51761852 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 40
51761742 GAAATCCTTG
*
51761752 TTATAATTATTGTAATTATAA--TTTACGGTCGAATATTA
1 TTATAATTATTGTAATTATAATTTTTACGGTCAAATATTA
* * *
51761790 TTATAATTATTGTAATTGTAATTTTTTCGGTCAAATGTTA
1 TTATAATTATTGTAATTATAATTTTTACGGTCAAATATTA
*
51761830 TTATAATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
51761853 ATTATATTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 20 0.36
40 35 0.64
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.50
Consensus pattern (40 bp):
TTATAATTATTGTAATTATAATTTTTACGGTCAAATATTA
Found at i:51763959 original size:57 final size:57
Alignment explanation
Indices: 51763857--51763973 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 57
51763847 ATAGAAGTGG
* *
51763857 TGAAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTGTTCTCCAAAAATGAAAA
1 TGAAATGGAGAAATAGGAAACATTTGGAAATGAATATAGTGTTCTCC-AAAATGAAAA
* * *
51763915 TGAAATGGAGAAAT-GGAATCATTTGGAAATGAATCTAGTTTTCTCCAAAATGAAAA
1 TGAAATGGAGAAATAGGAAACATTTGGAAATGAATATAGTGTTCTCCAAAATGAAAA
51763971 TGA
1 TGA
51763974 CCTGAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 13 0.24
57 27 0.50
58 14 0.26
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (57 bp):
TGAAATGGAGAAATAGGAAACATTTGGAAATGAATATAGTGTTCTCCAAAATGAAAA
Found at i:51765292 original size:22 final size:22
Alignment explanation
Indices: 51765266--51765334 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
51765256 TAAATAATAG
51765266 TATATTTAAAGTAGATCATCTA
1 TATATTTAAAGTAGATCATCTA
*
51765288 TATATTTAAA-T-GAT-A-GTA
1 TATATTTAAAGTAGATCATCTA
*
51765306 TATATTTAAAGCAGATCATCTA
1 TATATTTAAAGTAGATCATCTA
51765328 TATATTT
1 TATATTT
51765335 TATCATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 12 0.30
19 1 0.03
20 6 0.15
21 2 0.05
22 19 0.47
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (22 bp):
TATATTTAAAGTAGATCATCTA
Found at i:51765297 original size:38 final size:39
Alignment explanation
Indices: 51765255--51765334 Score: 126
Period size: 40 Copynumber: 2.1 Consensus size: 39
51765245 CACTAGTGTA
*
51765255 TTAAATAATAG-TATATTTAAAGTAGATCATCTATATAT
1 TTAAATAATAGATATATTTAAAGCAGATCATCTATATAT
*
51765293 TTAAATGATAGTATATATTTAAAGCAGATCATCTATATAT
1 TTAAATAATAG-ATATATTTAAAGCAGATCATCTATATAT
51765333 TT
1 TT
51765335 TATCATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 10 0.26
40 28 0.74
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (39 bp):
TTAAATAATAGATATATTTAAAGCAGATCATCTATATAT
Found at i:51765541 original size:7 final size:7
Alignment explanation
Indices: 51765520--51765555 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
51765510 GAAACCTATA
51765520 CCCAAACC
1 CCCAAA-C
51765528 CCCAAAC
1 CCCAAAC
*
51765535 TCCAAAC
1 CCCAAAC
51765542 CCCAAAC
1 CCCAAAC
51765549 CCCAAAC
1 CCCAAAC
51765556 GTTGATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.42, C:0.56, G:0.00, T:0.03
Consensus pattern (7 bp):
CCCAAAC
Found at i:51767897 original size:22 final size:21
Alignment explanation
Indices: 51767872--51767914 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
51767862 GAAGGAATAA
51767872 TTATATAAAATTTTAAATTAGT
1 TTAT-TAAAATTTTAAATTAGT
*
51767894 TTATTTAAATTTTAAATTAGT
1 TTATTAAAATTTTAAATTAGT
51767915 AATTGTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTATTAAAATTTTAAATTAGT
Found at i:51789726 original size:6 final size:6
Alignment explanation
Indices: 51789679--51789706 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
51789669 CCAAAAGAAA
51789679 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
51789707 GCAATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:51789989 original size:22 final size:21
Alignment explanation
Indices: 51789964--51790004 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51789954 GCTAAAATTT
*
51789964 ACCCTAACCTACTATTATATAA
1 ACCCT-ACCTACCATTATATAA
*
51789986 ACCCTAGCTACCATTATAT
1 ACCCTACCTACCATTATAT
51790005 TTTTCACACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (21 bp):
ACCCTACCTACCATTATATAA
Found at i:51801076 original size:21 final size:21
Alignment explanation
Indices: 51801050--51801094 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
51801040 AGACAACCCA
51801050 TTTCATTTCCAACAGATGTGC
1 TTTCATTTCCAACAGATGTGC
51801071 TTTCATTTCCAACAGATGTGC
1 TTTCATTTCCAACAGATGTGC
51801092 TTT
1 TTT
51801095 AGTCTTCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (21 bp):
TTTCATTTCCAACAGATGTGC
Found at i:51805327 original size:25 final size:25
Alignment explanation
Indices: 51805299--51805355 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
51805289 CAGTCAATAT
* **
51805299 AATAAATAATTTAAAATGTTTGTAA
1 AATAAATAAGTTAAAACATTTGTAA
51805324 AATAAAT-AGTTAAAACATTTGTAA
1 AATAAATAAGTTAAAACATTTGTAA
*
51805348 AAAAAATA
1 AATAAATA
51805356 TTATCATACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (25 bp):
AATAAATAAGTTAAAACATTTGTAA
Found at i:51806105 original size:20 final size:20
Alignment explanation
Indices: 51806080--51806119 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51806070 CGTAAAATGA
*
51806080 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
51806100 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
51806120 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:51806109 original size:34 final size:35
Alignment explanation
Indices: 51806065--51806131 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
51806055 CAGTAAAATA
*
51806065 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
51806099 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
51806132 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:51806135 original size:14 final size:15
Alignment explanation
Indices: 51806059--51806135 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
51806049 GATTGCCAGT
* *
51806059 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
51806073 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
51806087 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
51806107 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
51806122 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
51806136 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:51807141 original size:28 final size:28
Alignment explanation
Indices: 51807109--51807165 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
51807099 TCTCTAGCAT
*
51807109 CAAATACTAACAGATCATTAAGTGCTAA
1 CAAATACTAACAGATCAGTAAGTGCTAA
51807137 CAAATACTAACAGATCAGTAAGTGCTAA
1 CAAATACTAACAGATCAGTAAGTGCTAA
51807165 C
1 C
51807166 CAGAGAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (28 bp):
CAAATACTAACAGATCAGTAAGTGCTAA
Found at i:51818802 original size:32 final size:33
Alignment explanation
Indices: 51818761--51818828 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
51818751 GATTTAATCC
51818761 AACCTAATATATGTTTTTCTATTTCCCAAAATA
1 AACCTAATATATGTTTTTCTATTTCCCAAAATA
*
51818794 AACC-AATATATGTTTTTCTATTTCTCAAAATA
1 AACCTAATATATGTTTTTCTATTTCCCAAAATA
51818826 AAC
1 AAC
51818829 ATTATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (33 bp):
AACCTAATATATGTTTTTCTATTTCCCAAAATA
Found at i:51823247 original size:3 final size:3
Alignment explanation
Indices: 51823239--51823273 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
51823229 ACACTTACTT
51823239 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
51823274 TTATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:51827047 original size:29 final size:30
Alignment explanation
Indices: 51827012--51827076 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
51827002 AATTAGTAAA
* *
51827012 GATAAAATTACACTTTGA-CCTTTAAAAAT
1 GATAAAATTACAATTTAATCCTTTAAAAAT
**
51827041 GATAAAATTTTAATTTAATCCTTTAAAAAT
1 GATAAAATTACAATTTAATCCTTTAAAAAT
*
51827071 TATAAA
1 GATAAA
51827077 GATAAAACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (30 bp):
GATAAAATTACAATTTAATCCTTTAAAAAT
Found at i:51827821 original size:20 final size:21
Alignment explanation
Indices: 51827789--51827827 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
51827779 CATCCCCCTT
51827789 TTTTCCTTATTTT-ATTTTAA
1 TTTTCCTTATTTTAATTTTAA
51827809 TTTTCCTGT-TTTTAATTTT
1 TTTTCCT-TATTTTAATTTT
51827828 GTGGTAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTCCTTATTTTAATTTTAA
Found at i:51837185 original size:29 final size:30
Alignment explanation
Indices: 51837127--51837237 Score: 93
Period size: 31 Copynumber: 3.7 Consensus size: 30
51837117 ATCTTAAAAT
* * * *
51837127 TATATATGAATCTTT-ATTTAATGTGTAATTG
1 TATATATGAAACTTTAATTT--GGTGCAATTA
51837158 TATATATG-AACTTTAATTTGGTGCAATTA
1 TATATATGAAACTTTAATTTGGTGCAATTA
** * *
51837187 TATACGTGAAACTTTAATTGTGGTTCAAATA
1 TATATATGAAACTTTAATT-TGGTGCAATTA
51837218 TATACT-TGAAACTTTAATTT
1 TATA-TATGAAACTTTAATTT
51837238 TAATTTAATC
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
29 13 0.19
30 16 0.24
31 38 0.57
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (30 bp):
TATATATGAAACTTTAATTTGGTGCAATTA
Found at i:51837228 original size:31 final size:30
Alignment explanation
Indices: 51837166--51837237 Score: 108
Period size: 31 Copynumber: 2.4 Consensus size: 30
51837156 TGTATATATG
*
51837166 AACTTTAATTTGGTGCAATTATATACGTGA
1 AACTTTAATTTGGTGCAAATATATACGTGA
* *
51837196 AACTTTAATTGTGGTTCAAATATATACTTGA
1 AACTTTAATT-TGGTGCAAATATATACGTGA
51837227 AACTTTAATTT
1 AACTTTAATTT
51837238 TAATTTAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAAATATATACGTGA
Found at i:51837308 original size:29 final size:29
Alignment explanation
Indices: 51837276--51837331 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
51837266 AAATACATCA
*
51837276 ATTTAGTTT-TATATTAGATAAATATAATT
1 ATTTA-TTTATATAATAGATAAATATAATT
*
51837305 ATTTATTTATGTAATAGATAAATATAA
1 ATTTATTTATATAATAGATAAATATAA
51837332 AATGATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (29 bp):
ATTTATTTATATAATAGATAAATATAATT
Found at i:51837830 original size:19 final size:19
Alignment explanation
Indices: 51837806--51837918 Score: 181
Period size: 19 Copynumber: 5.8 Consensus size: 19
51837796 AATTTTTGAG
51837806 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
51837825 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
51837844 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51837863 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
**
51837884 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
51837903 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
51837919 ATATATGATT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 67 0.78
21 19 0.22
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:51837873 original size:59 final size:59
Alignment explanation
Indices: 51837807--51837918 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
51837797 ATTTTTGAGG
*
51837807 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATATGAT
* *
51837866 ATATGCAATCTTAGATATGATATATAATCTTAGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGA
51837919 ATATATGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATATGAT
Found at i:51839395 original size:98 final size:98
Alignment explanation
Indices: 51839274--51839470 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
51839264 TTAAAAATAA
* * *
51839274 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
51839339 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
51839372 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
51839437 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
51839470 T
1 T
51839471 TTTATTGTAC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:51844595 original size:33 final size:33
Alignment explanation
Indices: 51844523--51844595 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
51844513 GTCCCAGTGG
* *
51844523 ACTATATTTGTTCTGTGCTTATTGTCCTAGCGA
1 ACTATCTTTGTTCTATGCTTATTGTCCTAGCGA
51844556 ACTATCTTTGTTCTATG-TATATTGTCCTAGCGGA
1 ACTATCTTTGTTCTATGCT-TATTGTCCTAGC-GA
51844590 A-TATCT
1 ACTATCT
51844596 CTGCGTATGC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 1 0.03
33 32 0.89
34 3 0.08
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (33 bp):
ACTATCTTTGTTCTATGCTTATTGTCCTAGCGA
Found at i:51848809 original size:19 final size:19
Alignment explanation
Indices: 51848785--51848824 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
51848775 AGTTGAATGA
*
51848785 AGAAAGTTGCTTACAATTC
1 AGAAAGTTGCCTACAATTC
51848804 AGAAAGTTGCCTACAATTC
1 AGAAAGTTGCCTACAATTC
51848823 AG
1 AG
51848825 GACTAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (19 bp):
AGAAAGTTGCCTACAATTC
Found at i:51852076 original size:23 final size:23
Alignment explanation
Indices: 51852050--51852094 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
51852040 AGAGATGTGA
51852050 TCACTTCCAAATTACTAACATTC
1 TCACTTCCAAATTACTAACATTC
51852073 TCACTTCCAAATTACTAACATT
1 TCACTTCCAAATTACTAACATT
51852095 TCAAAACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (23 bp):
TCACTTCCAAATTACTAACATTC
Found at i:51855155 original size:28 final size:27
Alignment explanation
Indices: 51855124--51855217 Score: 73
Period size: 28 Copynumber: 3.4 Consensus size: 27
51855114 TCATTTTTCT
51855124 TGTCCCAATGAACTTACCTCGTGTTTAC
1 TGTCCCAATGAACTTACCT-GTGTTTAC
** * *
51855152 TGTCTTAGA-GGACTTACCTTGTTTTTAC
1 TGTCCCA-ATGAACTTACC-TGTGTTTAC
** **
51855180 TGTCCCAGCGAACTTTATGTGTGTTTAC
1 TGTCCCAATGAAC-TTACCTGTGTTTAC
51855208 TGTCCCAATG
1 TGTCCCAATG
51855218 GACTATCTAT
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
28 44 0.90
29 5 0.10
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (27 bp):
TGTCCCAATGAACTTACCTGTGTTTAC
Found at i:51855262 original size:31 final size:31
Alignment explanation
Indices: 51855218--51855316 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
51855208 TGTCCCAATG
* * *
51855218 GACTATCTATTTTGTGCGTACTATCCCTGCA
1 GACTATTTGTTTTGTGCGTACTATCCCAGCA
* **
51855249 GATTATTTGTTTTGTGTTTACTATCCCAGCA
1 GACTATTTGTTTTGTGCGTACTATCCCAGCA
* * ** *
51855280 GACTATTTATTATGTGTTTACTGTCCCAGCA
1 GACTATTTGTTTTGTGCGTACTATCCCAGCA
*
51855311 GGCTAT
1 GACTAT
51855317 CTTTGTAGAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (31 bp):
GACTATTTGTTTTGTGCGTACTATCCCAGCA
Found at i:51863768 original size:30 final size:30
Alignment explanation
Indices: 51863711--51863772 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
51863701 GCTTTTTGAA
* *
51863711 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
51863741 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
51863771 AA
1 AA
51863773 AAATAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:51871432 original size:20 final size:20
Alignment explanation
Indices: 51871394--51871432 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
51871384 ACTTTAATTA
51871394 TTTTGTAAAAATTAATTATTT
1 TTTTGTAAAAATT-ATTATTT
51871415 TTTTGATAAAAATT-TTAT
1 TTTTG-TAAAAATTATTAT
51871433 CGAAACGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTGTAAAAATTATTATTT
Found at i:51875455 original size:22 final size:22
Alignment explanation
Indices: 51875421--51875466 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
51875411 TTGTTTGGAG
* *
51875421 TACTGGCGGTTTATCCGCAAAT
1 TACTAGCGATTTATCCGCAAAT
51875443 TACTAGCGATTTATCCGCAAAT
1 TACTAGCGATTTATCCGCAAAT
51875465 TA
1 TA
51875467 ATGGCAGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (22 bp):
TACTAGCGATTTATCCGCAAAT
Found at i:51879744 original size:22 final size:22
Alignment explanation
Indices: 51879714--51879815 Score: 132
Period size: 22 Copynumber: 4.6 Consensus size: 22
51879704 ATTAAAGTGG
*
51879714 AAGCTCTCATGTTTAACGAACT
1 AAGCTCTCATGTTTAACGTACT
* * **
51879736 AAACCCTCATGGCTAACGTACT
1 AAGCTCTCATGTTTAACGTACT
**
51879758 AAGCTCTCATGGCTAACGTACT
1 AAGCTCTCATGTTTAACGTACT
*
51879780 AAGCTCTCATGTTTCACGTACT
1 AAGCTCTCATGTTTAACGTACT
51879802 AAGCTCTCATGTTT
1 AAGCTCTCATGTTT
51879816 GAACAATAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (22 bp):
AAGCTCTCATGTTTAACGTACT
Found at i:51881638 original size:227 final size:228
Alignment explanation
Indices: 51881388--51881851 Score: 840
Period size: 227 Copynumber: 2.0 Consensus size: 228
51881378 ATAGAGTACA
* *
51881388 ATTAGCGGCGTTTGTTTGTAAGCGCCTCAAAAAATGTTAAACAAAATGCAGCGTACAATATTGAG
1 ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
* *
51881453 GTATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGCACATCATTAGCGGCGTTTGTT
66 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATCATTAGCGGCATTTGTT
* * *
51881518 TGTAAGCGCCGCAAAAAATGTTAAACAAAATGCAGCGTACAATATTGAGGTATAGTAGAATTGGT
131 TGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAATATTAAGGTATAGTAGAATTGGT
*
51881583 GGCGTTT-TATAAAAACGCTGCTGAAGCACATC
196 GGCGTTTCTATAAAAACGCCGCTGAAGCACATC
*
51881615 ATTAGCGTCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
1 ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
51881680 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATCATTAGCGGCATTTGTT
66 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATCATTAGCGGCATTTGTT
51881745 TGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAATATTAAGGTATAGTAGAATTGGT
131 TGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAATATTAAGGTATAGTAGAATTGGT
51881810 GGCGTTTCTATAAAAACGCCGCTGAAGCACATC
196 GGCGTTTCTATAAAAACGCCGCTGAAGCACATC
51881843 ATTAGCGGC
1 ATTAGCGGC
51881852 ACTAGGGAAA
Statistics
Matches: 226, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
227 194 0.86
228 32 0.14
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (228 bp):
ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATCATTAGCGGCATTTGTT
TGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAATATTAAGGTATAGTAGAATTGGT
GGCGTTTCTATAAAAACGCCGCTGAAGCACATC
Found at i:51881852 original size:114 final size:114
Alignment explanation
Indices: 51881388--51881851 Score: 840
Period size: 114 Copynumber: 4.1 Consensus size: 114
51881378 ATAGAGTACA
* *
51881388 ATTAGCGGCGTTTGTTTGTAAGCGCCTCAAAAAATGTTAAACAAAATGCAGCGTACAATATTGAG
1 ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
*
51881453 GTATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGCACATC
66 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATC
*
51881502 ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAATGCAGCGTACAATATTGAG
1 ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
*
51881567 GTATAGTAGAATTGGTGGCGTTT-TATAAAAACGCTGCTGAAGCACATC
66 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATC
*
51881615 ATTAGCGTCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
1 ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
51881680 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATC
66 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATC
* * *
51881729 ATTAGCGGCATTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCATACAATATTAAG
1 ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
51881794 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATC
66 GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATC
51881843 ATTAGCGGC
1 ATTAGCGGC
51881852 ACTAGGGAAA
Statistics
Matches: 339, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
113 109 0.32
114 230 0.68
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (114 bp):
ATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAG
GTATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAGCACATC
Found at i:51881941 original size:227 final size:227
Alignment explanation
Indices: 51881407--51881943 Score: 661
Period size: 227 Copynumber: 2.4 Consensus size: 227
51881397 GTTTGTTTGT
* * * * * * *
51881407 AAGCGCCTCAAAAAATGTTAAACAAAATGCAGCGTACAATATTGAGGTATAGTAGAATTGGTGGC
1 AAGCGCCGCAAAAAATCTGAAACAAAACGCACCGTACAATATTGAGGCATAGTAGAATTAGTGGC
* *
51881472 GTTTCT-GTAAAAACGCCGCTGAAGCACATCATTAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAA
66 GCTTCTAG-AAAAACGCCGCTGAAGCACATCATTAGCGGCATTTGTTTGTAAGCGCCGCAAAAAA
* * *
51881536 TGTTAAACAAAATGCAGCGTACAATATTGAGGTATAGTAGAATTGGTGGCGTTTTATAAAAACGC
130 TGTTAAACAAAACGCAGCATACAATATTAAGGTATAGTAGAATTGGTGGCGTTTTATAAAAACGC
* * ** * *****
51881601 TGCTGAAGCACATCATTAGCGTCGTTTGTTTGT
195 CGCTGAAGCACATCATTAGCGGCACTAGGGAAA
* * * * *
51881634 AAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAATATTGAGGTATAGTAGAATTGGTGGC
1 AAGCGCCGCAAAAAATCTGAAACAAAACGCACCGTACAATATTGAGGCATAGTAGAATTAGTGGC
* *
51881699 GTTTCTATAAAAACGCCGCTGAAGCACATCATTAGCGGCATTTGTTTGTAAGCGCCGCAAAAAAT
66 GCTTCTAGAAAAACGCCGCTGAAGCACATCATTAGCGGCATTTGTTTGTAAGCGCCGCAAAAAAT
51881764 GTTAAACAAAACGCAGCATACAATATTAAGGTATAGTAGAATTGGTGGCGTTTCTATAAAAACGC
131 GTTAAACAAAACGCAGCATACAATATTAAGGTATAGTAGAATTGGTGGCGTTT-TATAAAAACGC
51881829 CGCTGAAGCACATCATTAGCGGCACTAGGGAAA
195 CGCTGAAGCACATCATTAGCGGCACTAGGGAAA
* * * * ***
51881862 AAGCGCCGCAAAATATCTGGACCAAAATGCACCGTTTGGA-ATTGAGGCATAG-AGCCAA-TAGT
1 AAGCGCCGCAAAAAATCTGAAACAAAACGCACCG-TACAATATTGAGGCATAGTAG--AATTAGT
*
51881924 GGCGCTTC-AGGAAAACGCCG
63 GGCGCTTCTAGAAAAACGCCG
51881944 GAACTTGTGA
Statistics
Matches: 273, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
227 187 0.68
228 82 0.30
229 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (227 bp):
AAGCGCCGCAAAAAATCTGAAACAAAACGCACCGTACAATATTGAGGCATAGTAGAATTAGTGGC
GCTTCTAGAAAAACGCCGCTGAAGCACATCATTAGCGGCATTTGTTTGTAAGCGCCGCAAAAAAT
GTTAAACAAAACGCAGCATACAATATTAAGGTATAGTAGAATTGGTGGCGTTTTATAAAAACGCC
GCTGAAGCACATCATTAGCGGCACTAGGGAAA
Found at i:51882589 original size:25 final size:26
Alignment explanation
Indices: 51882555--51882606 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
51882545 TTGTTTGTGG
* * *
51882555 TTTACGGGTTTAATATTTATGGTTAA
1 TTTACGGGTTTAAGATCTACGGTTAA
51882581 TTTA-GGGTTTAAGATCTACGGTTAA
1 TTTACGGGTTTAAGATCTACGGTTAA
51882606 T
1 T
51882607 GTTTACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (26 bp):
TTTACGGGTTTAAGATCTACGGTTAA
Found at i:51882905 original size:15 final size:16
Alignment explanation
Indices: 51882885--51882923 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
51882875 GATATTCTAG
51882885 ATTAATATA-A-ATGAA
1 ATTAATATAGATAT-AA
51882900 ATTAATATAGATATAA
1 ATTAATATAGATATAA
51882916 ATTAATAT
1 ATTAATAT
51882924 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 11 0.50
17 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTAATATAGATATAA
Found at i:51885711 original size:9 final size:9
Alignment explanation
Indices: 51885695--51885811 Score: 146
Period size: 9 Copynumber: 12.9 Consensus size: 9
51885685 TACAAGCTTA
51885695 TACATAACT
1 TACATAACT
*
51885704 TGCATAACT
1 TACATAACT
*
51885713 TACATAAAT
1 TACATAACT
*
51885722 TAAATAACT
1 TACATAACT
51885731 TACATAACT
1 TACATAACT
*
51885740 TACATAAAT
1 TACATAACT
51885749 TA-AGTAACT
1 TACA-TAACT
51885758 TACATAACT
1 TACATAACT
51885767 TACATAAACT
1 TACAT-AACT
* *
51885777 TGCATAAAT
1 TACATAACT
*
51885786 TAAATAACT
1 TACATAACT
51885795 TACATAACT
1 TACATAACT
51885804 TACATAAC
1 TACATAAC
51885812 CTNNNNNNNN
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
8 1 0.01
9 81 0.89
10 9 0.10
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:51885949 original size:9 final size:9
Alignment explanation
Indices: 51885921--51886589 Score: 641
Period size: 9 Copynumber: 75.2 Consensus size: 9
51885911 NNNTTACACA
*
51885921 AACTTGCAT
1 AACTTACAT
* *
51885930 AAATTAAAT
1 AACTTACAT
51885939 AACTTACAT
1 AACTTACAT
*
51885948 AACCTACAT
1 AACTTACAT
* *
51885957 AAATTAAAT
1 AACTTACAT
51885966 AACTTACAT
1 AACTTACAT
51885975 AACTTACAT
1 AACTTACAT
* *
51885984 AAATTAAAT
1 AACTTACAT
51885993 AACTTACAT
1 AACTTACAT
51886002 AACTTACAT
1 AACTTACAT
*
51886011 AAACTTGCAT
1 -AACTTACAT
* *
51886021 AAATTAAAT
1 AACTTACAT
51886030 AACTTACAT
1 AACTTACAT
51886039 AACTTACAT
1 AACTTACAT
*
51886048 AACCTACAT
1 AACTTACAT
* *
51886057 AAATTAAAT
1 AACTTACAT
51886066 AACTTACAT
1 AACTTACAT
51886075 AACTTACAT
1 AACTTACAT
*
51886084 AAATTA-AGT
1 AACTTACA-T
51886093 AACTTACAT
1 AACTTACAT
*
51886102 AACTTACACA
1 AACTTACA-T
*
51886112 AACTTGCAT
1 AACTTACAT
* *
51886121 AAATTAAAT
1 AACTTACAT
51886130 AACTTACAT
1 AACTTACAT
*
51886139 AACCTACAT
1 AACTTACAT
* *
51886148 AAATTAAAT
1 AACTTACAT
51886157 AACTTACAT
1 AACTTACAT
51886166 AACTTACAT
1 AACTTACAT
* *
51886175 AAATTAAAT
1 AACTTACAT
51886184 AACTTACAT
1 AACTTACAT
51886193 AACTTACAT
1 AACTTACAT
*
51886202 AAACTTGCAT
1 -AACTTACAT
* *
51886212 AAATTAAAT
1 AACTTACAT
51886221 AACTTACAT
1 AACTTACAT
51886230 AACTTACAT
1 AACTTACAT
*
51886239 AACCTACAT
1 AACTTACAT
* *
51886248 AAATTAAAT
1 AACTTACAT
51886257 AACTTACAT
1 AACTTACAT
* *
51886266 AAATTAAAT
1 AACTTACAT
51886275 AACTTACAT
1 AACTTACAT
51886284 AACTTACAT
1 AACTTACAT
*
51886293 AACCTACAT
1 AACTTACAT
* *
51886302 AAATTAAAT
1 AACTTACAT
51886311 AACTTACAT
1 AACTTACAT
51886320 AACTTACAT
1 AACTTACAT
* *
51886329 AAATTAAAT
1 AACTTACAT
51886338 AACTTACAT
1 AACTTACAT
51886347 AACTTACAT
1 AACTTACAT
* * *
51886356 AAATTCCGT
1 AACTTACAT
*
51886365 GGACTTACAT
1 -AACTTACAT
*
51886375 AACCTACAT
1 AACTTACAT
* *
51886384 AAATTAAAT
1 AACTTACAT
51886393 AACTTACAT
1 AACTTACAT
51886402 AACTTACAT
1 AACTTACAT
51886411 AACTTACAT
1 AACTTACAT
* *
51886420 AAATTAAAT
1 AACTTACAT
*
51886429 TACTTACAT
1 AACTTACAT
51886438 AACTTACAT
1 AACTTACAT
*
51886447 TA--TACAT
1 AACTTACAT
*
51886454 AACCTT-CTT
1 AA-CTTACAT
51886463 AACTTACAT
1 AACTTACAT
* *
51886472 TA--TACAC
1 AACTTACAT
*
51886479 AACTCACAT
1 AACTTACAT
51886488 AA-TTA-AT
1 AACTTACAT
* *
51886495 -ATTATACAC
1 AACT-TACAT
51886504 AACTTACAT
1 AACTTACAT
51886513 AA--TACAT
1 AACTTACAT
*
51886520 TACTTACAT
1 AACTTACAT
51886529 AACTTACAT
1 AACTTACAT
*
51886538 TACTTACAGT
1 AACTTACA-T
51886548 -ACTTACAT
1 AACTTACAT
51886556 AA--TACAT
1 AACTTACAT
51886563 AA--TACAT
1 AACTTACAT
*
51886570 AACCTACAT
1 AACTTACAT
51886579 AACTTACAT
1 AACTTACAT
51886588 AA
1 AA
51886590 TACATAAAAA
Statistics
Matches: 528, Mismatches: 110, Indels: 44
0.77 0.16 0.06
Matches are distributed among these distances:
6 1 0.00
7 34 0.06
8 9 0.02
9 451 0.85
10 33 0.06
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:51886440 original size:91 final size:90
Alignment explanation
Indices: 51885928--51886446 Score: 687
Period size: 91 Copynumber: 5.6 Consensus size: 90
51885918 ACAAACTTGC
*
51885928 ATAAATTAAATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAAT
1 ATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAAT
51885993 AACTTACATAACTTACATAAACTTGCATAA
66 AACTTACATAACTTACATAAA--T---TAA
* *
51886023 ATTAAATAACTTACATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAAT
1 A-T--A-AA-TTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAAT
* * **
51886088 TAAGTAACTTACATAACTTACACAAACTTGC
61 TAAATAACTTACATAACTTACATAAA-TTAA
*
51886119 ATAAATTAAATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAAT
1 ATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAAT
**
51886184 AACTTACATAACTTACATAAACTTGC
66 AACTTACATAACTTACATAAA-TTAA
** * * *
51886210 ATAAATTAAATAACTTACATAACTTACATAACCTACATAAATTAAATAACTTACATAAATTAAAT
1 ATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAAT
** *
51886275 AACTTACATAACTTACATAACCTAC
66 AACTTACATAACTTACATAAATTAA
***
51886300 ATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTCCGT
1 ATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAAT
* *
51886365 GGACTTACATAACCTACATAAATTAA
66 -AACTTACATAACTTACATAAATTAA
* * *
51886391 ATAACTTACATAACTTACATAACTTACATAAATTAAATTACTTACATAACTTACAT
1 ATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
51886447 TATACATAAC
Statistics
Matches: 384, Mismatches: 34, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
90 59 0.15
91 235 0.61
92 2 0.01
93 1 0.00
95 2 0.01
96 3 0.01
98 1 0.00
99 3 0.01
100 78 0.20
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (90 bp):
ATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAAT
AACTTACATAACTTACATAAATTAA
Found at i:51886563 original size:7 final size:7
Alignment explanation
Indices: 51886551--51886596 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
51886541 TTACAGTACT
51886551 TACATAA
1 TACATAA
51886558 TACATAA
1 TACATAA
51886565 TACATAA
1 TACATAA
51886572 CCTACATAA
1 --TACATAA
51886581 CTTACATAA
1 --TACATAA
51886590 TACATAA
1 TACATAA
51886597 AAATATATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 21 0.58
9 15 0.42
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (7 bp):
TACATAA
Found at i:51889694 original size:21 final size:21
Alignment explanation
Indices: 51889670--51889729 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
51889660 AAGAAGGGCG
* * *
51889670 GCAGCGAGGGAAGCAGCGGTT
1 GCAGTGAGGGAAGCAGAGGCT
*
51889691 GCAGTGAGGGAAGCGGAGGCT
1 GCAGTGAGGGAAGCAGAGGCT
*
51889712 GCAGTGAGAGAAGCAGAG
1 GCAGTGAGGGAAGCAGAG
51889730 CAGAGCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.48, T:0.08
Consensus pattern (21 bp):
GCAGTGAGGGAAGCAGAGGCT
Found at i:51890092 original size:42 final size:42
Alignment explanation
Indices: 51890044--51890164 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
51890034 GCGTTTTTGT
* *
51890044 AAAAAAATGCTGCTAAAGAACATGTTCTTTAGCGGTGCTT-AG
1 AAAAAAA-GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
*
51890086 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
1 AAAAAAA-GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
*
51890129 AAAAAACA-CCGCTAAAGAACATGGTCTTTAGCGGCG
1 AAAAAA-AGCCGCTAAAGAACATGTTCTTTAGCGGCG
51890165 TTTTTTACTA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 62 0.87
43 8 0.11
44 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (42 bp):
AAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
Found at i:51890979 original size:21 final size:21
Alignment explanation
Indices: 51890955--51890994 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51890945 ATATTAAAAT
51890955 TATTTATATTTATTT-TATAAA
1 TATTTATATTT-TTTATATAAA
*
51890976 TATTTTTATTTTTTATATA
1 TATTTATATTTTTTATATA
51890995 TCCTAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTATATTTTTTATATAAA
Found at i:51896695 original size:21 final size:21
Alignment explanation
Indices: 51896671--51896711 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51896661 TCTTGCATGC
*
51896671 ATGATCAGATTTGATCAATTG
1 ATGATCAGATATGATCAATTG
* *
51896692 ATGATCTGATATGATTAATT
1 ATGATCAGATATGATCAATT
51896712 ATCTTTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (21 bp):
ATGATCAGATATGATCAATTG
Found at i:51904301 original size:138 final size:137
Alignment explanation
Indices: 51903964--51904715 Score: 1160
Period size: 138 Copynumber: 5.5 Consensus size: 137
51903954 AATGAAAATG
* *
51903964 AATTATATTCTTTCCAAAAGAATATTAATTTACGTGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTT-CATGTCTTTTATATTTTGACCGAAATTAATTAA
*
51904029 TATAACTGTTTATATTAAAAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATC--A--
65 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
51904090 -ATATATT
130 CATATATT
* * *
51904097 AATTATATTCTTTCTAAAAGAATTTTAATTTCCATGTCTTTTATATTTTGACGGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTT-CATGTCTTTTATATTTTGACCGAAATTAATTAA
*
51904162 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAAT-TATTTGTATGAATCAAAT
65 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATAT-TTTGTATGAATCAAAT
*
51904226 CCATATATT
129 TCATATATT
51904235 AATTATATTCTTTCCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTC-ATGTCTTTTATATTTTGACCGAAATTAATTAA
*
51904300 TATAACTGTTTATATTAAT-AATTTCGGTAAAAAATATACAATTAACTATTTT-TATGAATCAAA
65 TATAACTGTTTATATTAATAAATTT-GGTAAAATATATACAATTAA-TATTTTGTATGAATCAAA
51904363 TTCATATATT
128 TTCATATATT
* *
51904373 AGTTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAA-TTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
51904438 TACAACTGTTTATATTAATAAATTTGGTAAAATATATACAATCAATATTTTGTATGAATCAAATT
65 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
51904503 CATATATT
130 CATATATT
* * * *
51904511 AATTATATTCTTTCTAAAAGAATATTAATTTCCTTGCCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTT-CATGTCTTTTATATTTTGACCGAAATTAATTAA
*
51904576 TACAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
65 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
51904641 AAAATATT
130 CATATATT
* *
51904649 AATTATATTGTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACCGAAATTAATATA
1 AATTATATTCTTTCCAAAAGAATATTAA-TTTCATGTCTTTTATATTTTGACCGAAATTAAT-TA
51904714 AT
64 AT
51904716 TGTTTATATT
Statistics
Matches: 569, Mismatches: 34, Indels: 26
0.90 0.05 0.04
Matches are distributed among these distances:
132 1 0.00
133 115 0.20
135 1 0.00
137 14 0.02
138 417 0.73
139 20 0.04
140 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCATGTCTTTTATATTTTGACCGAAATTAATTAAT
ATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:51905627 original size:22 final size:22
Alignment explanation
Indices: 51905601--51905659 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
51905591 ACTACTACAA
51905601 ACCATATCACCACCATACAACC
1 ACCATATCACCACCATACAACC
** **
51905623 ACCATATCACTGCCATTTAACC
1 ACCATATCACCACCATACAACC
* *
51905645 ACCTTAGCACCACCA
1 ACCATATCACCACCA
51905660 CACCGCCACC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.42, G:0.03, T:0.19
Consensus pattern (22 bp):
ACCATATCACCACCATACAACC
Found at i:51911945 original size:23 final size:22
Alignment explanation
Indices: 51911902--51911945 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
51911892 TTCTAAGTCG
51911902 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
51911925 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
51911946 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:51912054 original size:45 final size:45
Alignment explanation
Indices: 51911990--51912078 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
51911980 AACAGATACT
* *
51911990 CGGTGGATTCAGCACATAGCAACCACATTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACATTACTAATCAATGATGTC
*
51912035 CGGTGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACATTACTAATCAATGATGT
51912079 TCGATTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACATTACTAATCAATGATGTC
Found at i:51912144 original size:51 final size:50
Alignment explanation
Indices: 51912078--51912275 Score: 227
Period size: 51 Copynumber: 3.9 Consensus size: 50
51912068 ATCAATGATG
* * *
51912078 TTCGATTCACATAGTAGCCTGCACATGGTACTACACATGTGACCATTACCA
1 TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCA
* * * * * *
51912129 TTCGATACACGTAGTAGCTTGCACATATTACTACACACGTGATCGAAACTA
1 TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCA
* * * *
51912180 TCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TACCA
1 TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
* *
51912229 TTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TT-CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
51912276 CACTTTCACT
Statistics
Matches: 121, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 4 0.03
50 40 0.33
51 75 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
Found at i:51912295 original size:101 final size:99
Alignment explanation
Indices: 51912086--51912271 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 99
51912076 TGTTCGATTC
* *
51912086 ACATAGTAGCCTGCACATGGTACTACACATGTGACCATTACCATTCGATACACGTAGTAGCTTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATTCGATACACGTAGTAGCCTGC
* *
51912151 ACATATTACTACACACGTGATCGAAACTATCCGGT
65 ACATAGTACTACACACGTGATCCAAACTATCCGGT
*
51912186 ACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TACCATTCCGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATT-CGATACACGTAGTAGCCT
51912250 GCACATAGTACTACACACGTGA
63 GCACATAGTACTACACACGTGA
51912272 CCATCACTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
100 8 0.10
101 37 0.47
102 34 0.43
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATTCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATCCGGT
Found at i:51926946 original size:22 final size:22
Alignment explanation
Indices: 51926916--51926970 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
51926906 CCAGTTTGGA
* * *
51926916 TGTCGAGACATGACATGGCTGG
1 TGTCAAGACATCACATGACTGG
51926938 TGTCAAGACATCACATGACTGG
1 TGTCAAGACATCACATGACTGG
*
51926960 TGTCATGACAT
1 TGTCAAGACAT
51926971 TGATGGCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (22 bp):
TGTCAAGACATCACATGACTGG
Found at i:51927809 original size:433 final size:430
Alignment explanation
Indices: 51927006--51927812 Score: 1157
Period size: 433 Copynumber: 1.9 Consensus size: 430
51926996 GTTTGGAGTG
* * * *
51927006 GGTGTTGCGACATCGGATGCGTTCCACCGGCTCCTTGGCCTGGATTGATGTCCTGCACACTTAAT
1 GGTGTTGCGACATCGGAGGCATTCCACCGACTCCTTGGCCAGGATTGATGTCCTGCACACTTAAT
* * ** *
51927071 CAATACCGTAGACTTCCCTTATACCCGAATTGGCCTACAAGGTCATAAAAAATTTTAAAATTTAT
66 CAATACCATAGACTTCCCTTATACCCGAATTGGCCTACAAGGTCATAAAAAAGTCCAAAAATTAT
* ** * * *
51927136 TATTTTATTACATTAAAAAAACCATACTAAAATGGAAAATACACTAAAACTATACATAATGGGTA
131 AATAATATTACATTAAAAAAACCATACTAAAATGGAAAATACAATAAAACAATACATAATGGCTA
* * * * * *
51927201 GCAAACAAGGTCACAAAATGTTAAAAGGGATTCAATTTTCCACAACAAATTGTAACTTTAAACAA
196 GAAAACAAGGTCACAAAATGTTAAAAAGGATTCAATGTGCCACAAAAAATTATAACTTTAAACAA
* *
51927266 ACTAAAGACTGCACCTTTTATTACTCATTAGCATGTGACAATTGCACCTCTGACTTGTAATCTGG
261 ACTAAAGACTGCACCTTTTATTACTCATTAGCATGTGACAATTGAACCTCTAACTTGTAATCTGG
* * *
51927331 GTATGGATTACGAAACTAACAATGACACTGCAAAGAGTGGTCAACTCATTGATGGTAGGTTGCTT
326 GCATAGATTACGAAACCAACAATGACACTGCAAAGAGTGGTCAACTCATTGATGGTAGGTTGCTT
51927396 CATTGGAGGGTTTGGAGTGGGTGTTGCGGCATCCAAGCTT
391 CATTGGAGGGTTTGGAGTGGGTGTTGCGGCATCCAAGCTT
* *
51927436 GGTGTTGCGACATTGGAGGCATTCCACTGACTCCTTGGCCAGGATTGATGTCCTGCACACTTAAT
1 GGTGTTGCGACATCGGAGGCATTCCACCGACTCCTTGGCCAGGATTGATGTCCTGCACACTTAAT
* * *
51927501 CAATACCATAGTCTTCCCTTATACCCGAATTGGCCTACAAGGTCATAAAATAGTCCAAAAATTCT
66 CAATACCATAGACTTCCCTTATACCCGAATTGGCCTACAAGGTCATAAAAAAGTCCAAAAATTAT
* * * *
51927566 AATAATATTACTTTCAACGAAAACCATACTAAAAATGGAAAATACAATAAAACAATATATACTGG
131 AATAATATTACATT-AA-AAAAACCATACT-AAAATGGAAAATACAATAAAACAATACATAATGG
* * *
51927631 CTAGAAAAGAAGGTCACAAAATGTTAAAAAGGATTTAATGTGCCACAAAAAATTATAATTTTAAA
193 CTAGAAAACAAGGTCACAAAATGTTAAAAAGGATTCAATGTGCCACAAAAAATTATAACTTTAAA
* * * * * *
51927696 CCAACTGACGACTGCACCTTTTATTACTCCA-TAGCATGTGACTATTGAATCTTTAACTTGTAAT
258 CAAACTAAAGACTGCACCTTTTATTACT-CATTAGCATGTGACAATTGAACCTCTAACTTGTAAT
* *
51927760 CTGGGCATAGATTATGAAACCAACATTGACACTGCAAAGAGTGGTCAACTCAT
322 CTGGGCATAGATTACGAAACCAACAATGACACTGCAAAGAGTGGTCAACTCAT
51927813 GAATGAATAT
Statistics
Matches: 327, Mismatches: 46, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
430 126 0.39
431 2 0.01
432 11 0.03
433 186 0.57
434 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (430 bp):
GGTGTTGCGACATCGGAGGCATTCCACCGACTCCTTGGCCAGGATTGATGTCCTGCACACTTAAT
CAATACCATAGACTTCCCTTATACCCGAATTGGCCTACAAGGTCATAAAAAAGTCCAAAAATTAT
AATAATATTACATTAAAAAAACCATACTAAAATGGAAAATACAATAAAACAATACATAATGGCTA
GAAAACAAGGTCACAAAATGTTAAAAAGGATTCAATGTGCCACAAAAAATTATAACTTTAAACAA
ACTAAAGACTGCACCTTTTATTACTCATTAGCATGTGACAATTGAACCTCTAACTTGTAATCTGG
GCATAGATTACGAAACCAACAATGACACTGCAAAGAGTGGTCAACTCATTGATGGTAGGTTGCTT
CATTGGAGGGTTTGGAGTGGGTGTTGCGGCATCCAAGCTT
Found at i:51938951 original size:19 final size:19
Alignment explanation
Indices: 51938927--51938964 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
51938917 TTACTATGAC
*
51938927 ATGAATGAGCTAAGATAAT
1 ATGAATGAGCTAAAATAAT
51938946 ATGAATGAGCTAAAATAAT
1 ATGAATGAGCTAAAATAAT
51938965 TGCTTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.26
Consensus pattern (19 bp):
ATGAATGAGCTAAAATAAT
Found at i:51940484 original size:28 final size:28
Alignment explanation
Indices: 51940453--51940525 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
51940443 TTCGTCAAGG
51940453 CTATCTTATATGTGGAAGCCCATTAGAA
1 CTATCTTATATGTGGAAGCCCATTAGAA
* ** *
51940481 CTATCTTATATGTGAAAGTTCATTGGAA
1 CTATCTTATATGTGGAAGCCCATTAGAA
* *
51940509 CTATATTATAAGTGGAA
1 CTATCTTATATGTGGAA
51940526 ACCTGTCAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (28 bp):
CTATCTTATATGTGGAAGCCCATTAGAA
Found at i:51942792 original size:11 final size:11
Alignment explanation
Indices: 51942776--51942804 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
51942766 GAAGTCCATA
51942776 TGAGACATGAG
1 TGAGACATGAG
51942787 TGAGACATGAG
1 TGAGACATGAG
51942798 TGAGACA
1 TGAGACA
51942805 ATCAAGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.34, T:0.17
Consensus pattern (11 bp):
TGAGACATGAG
Found at i:51946011 original size:20 final size:20
Alignment explanation
Indices: 51945986--51946103 Score: 76
Period size: 20 Copynumber: 5.9 Consensus size: 20
51945976 TGTACGAGAA
* *
51945986 TTGCACTTTGGTGCCCCTGT
1 TTGCACTTCGGTGCCCCTAT
*
51946006 TTGCACTTCGATGCCCCTAT
1 TTGCACTTCGGTGCCCCTAT
* * * * *
51946026 ATACGCTTCGGTGTCTCTAT
1 TTGCACTTCGGTGCCCCTAT
* * * *
51946046 TTCCACTACGGTGCCTCTGT
1 TTGCACTTCGGTGCCCCTAT
**
51946066 TTGCA-TATTTGTGCCCCTAT
1 TTGCACT-TCGGTGCCCCTAT
* *
51946086 CTGCACTTTGGTGCCCCT
1 TTGCACTTCGGTGCCCCT
51946104 GTTATGCATC
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
19 1 0.01
20 71 0.97
21 1 0.01
ACGTcount: A:0.11, C:0.31, G:0.19, T:0.38
Consensus pattern (20 bp):
TTGCACTTCGGTGCCCCTAT
Found at i:51946254 original size:7 final size:7
Alignment explanation
Indices: 51946242--51946275 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
51946232 AAGATATTAG
51946242 TAAATGT
1 TAAATGT
51946249 TAAATGT
1 TAAATGT
51946256 TAAATGT
1 TAAATGT
51946263 TAAATGT
1 TAAATGT
51946270 TAAATG
1 TAAATG
51946276 AATTACTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (7 bp):
TAAATGT
Found at i:51948688 original size:13 final size:13
Alignment explanation
Indices: 51948672--51948700 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
51948662 ATAATAAAAA
51948672 ATATATTTATTAT
1 ATATATTTATTAT
51948685 ATATATTTATTAT
1 ATATATTTATTAT
51948698 ATA
1 ATA
51948701 AATACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATATTTATTAT
Found at i:51958089 original size:104 final size:106
Alignment explanation
Indices: 51957909--51958119 Score: 390
Period size: 104 Copynumber: 2.0 Consensus size: 106
51957899 TGAATTTGGT
51957909 TTCCAATTGATTCGAGTCATCGACTGTATTTCTAAAATTTTATATTAAAATTAGTCTTATATATG
1 TTCCAATTGATTCGAGTCATCGACTGTATTTCTAAAATTTTATATTAAAATTAGTCTTATATATG
*
51957974 GATG-AAAAAAAAG-TATATATATATAAGAAAGTGAGTAAA
66 GATGAAAAAAAAAGAAATATATATATAAGAAAGTGAGTAAA
51958013 TTCCAATTGATTCGAGTCATCGACTGTATTTCTAAAATTTTATATTAAAATTAGTCTTATATATG
1 TTCCAATTGATTCGAGTCATCGACTGTATTTCTAAAATTTTATATTAAAATTAGTCTTATATATG
51958078 GATGAAAAAAAAAGAAAATATATATATAAGAAAGTGAGTAAA
66 GATGAAAAAAAAAG-AAATATATATATAAGAAAGTGAGTAAA
51958120 AAATAAAAAT
Statistics
Matches: 103, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
104 69 0.67
105 9 0.09
107 25 0.24
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (106 bp):
TTCCAATTGATTCGAGTCATCGACTGTATTTCTAAAATTTTATATTAAAATTAGTCTTATATATG
GATGAAAAAAAAAGAAATATATATATAAGAAAGTGAGTAAA
Found at i:51958248 original size:30 final size:32
Alignment explanation
Indices: 51958212--51958281 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
51958202 GTTTCAATTT
* *
51958212 AGTCACTTAAC-TTTTGAAAAA-TAACAAAAC
1 AGTCACTTAACGTTATCAAAAAGTAACAAAAC
*
51958242 AGTCAC-TAACGTTATCAAAAAGTAACAAATC
1 AGTCACTTAACGTTATCAAAAAGTAACAAAAC
*
51958273 AATCACTTA
1 AGTCACTTA
51958282 TTAACATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.12
30 14 0.42
31 13 0.39
32 2 0.06
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.26
Consensus pattern (32 bp):
AGTCACTTAACGTTATCAAAAAGTAACAAAAC
Found at i:51958558 original size:27 final size:27
Alignment explanation
Indices: 51958477--51958563 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
51958467 TTGGGAAAAA
* *
51958477 ATTAATAGGCTTT-GGGTTAGAAATCG
1 ATTAATAGGGTTTAGGGTTAGAAATTG
* *
51958503 ATTAACAAGGTTGATTTAGGGTTAAAAATTG
1 ATTAA-TAGG--G-TTTAGGGTTAGAAATTG
*
51958534 ATTAATAGGGTTTAAGGTTAGAAATTG
1 ATTAATAGGGTTTAGGGTTAGAAATTG
51958561 ATT
1 ATT
51958564 GGTATATTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 5 0.10
27 21 0.43
28 1 0.02
30 6 0.12
31 16 0.33
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTAATAGGGTTTAGGGTTAGAAATTG
Found at i:51959430 original size:15 final size:15
Alignment explanation
Indices: 51959410--51959439 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51959400 GTTTGATTTT
51959410 GATGTGTCTAATAGG
1 GATGTGTCTAATAGG
51959425 GATGTGTCTAATAGG
1 GATGTGTCTAATAGG
51959440 ATTAGGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (15 bp):
GATGTGTCTAATAGG
Found at i:51965843 original size:102 final size:102
Alignment explanation
Indices: 51965678--51966136 Score: 774
Period size: 102 Copynumber: 4.5 Consensus size: 102
51965668 GGTGGGTTCT
*
51965678 GCACTTAGCAACCACCAATGAATCGGGGAAGCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
*
51965743 TAGCAACCCCCTTCACATTTCAGATGTGGTGGAATCA
66 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCA
* * ** *
51965780 GCACTTAGCAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
* * *
51965845 TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
66 TAGCAACCCCC-TTCACATTTCAGATGCGGTGGAATCA
* *
51965883 GCACTTAGCAACCACTAATGAATCGGGGAATCAGCACATAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
51965948 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCA
66 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCA
*
51965985 GCACTTAGCAACCACCAATGAATCGGGGAATCAACACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
51966050 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCA
66 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCA
* *
51966087 GCACTTAGCAAGCACCAATGAATCGGGGAATCATCACACAGCAACCCCTT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
51966137 TATATGTAAT
Statistics
Matches: 333, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 240 0.72
103 93 0.28
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (102 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCA
Found at i:51966030 original size:205 final size:204
Alignment explanation
Indices: 51965678--51966136 Score: 774
Period size: 205 Copynumber: 2.2 Consensus size: 204
51965668 GGTGGGTTCT
*
51965678 GCACTTAGCAACCACCAATGAATCGGGGAAGCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
*
51965743 TAGCAACCCCCTTCACATTTCAGATGTGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGG
66 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGG
* * **
51965808 AATTAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAC
131 AATCAACACACAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCC-TTCACATTTAAAATAC
51965873 GGTGGAATCA
195 GGTGGAATCA
* *
51965883 GCACTTAGCAACCACTAATGAATCGGGGAATCAGCACATAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
*
51965948 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGG
66 TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGG
* * * *
51966013 AATCAACACACAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCG
131 AATCAACACACAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACG
51966078 GTGGAATCA
196 GTGGAATCA
* *
51966087 GCACTTAGCAAGCACCAATGAATCGGGGAATCATCACACAGCAACCCCTT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
51966137 TATATGTAAT
Statistics
Matches: 237, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
204 69 0.29
205 168 0.71
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (204 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
TAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGG
AATCAACACACAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACG
GTGGAATCA
Found at i:51969365 original size:26 final size:26
Alignment explanation
Indices: 51969321--51969378 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
51969311 ATTTTCTTAG
* * *
51969321 AATTTTACTAGGGGCAAAATTGTCAA
1 AATTTTACCAAGGGCAAAATCGTCAA
*
51969347 AATTTTACCAAGGGTAAAATCGTCAA
1 AATTTTACCAAGGGCAAAATCGTCAA
51969373 AATTTT
1 AATTTT
51969379 GTTGGGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (26 bp):
AATTTTACCAAGGGCAAAATCGTCAA
Found at i:51972369 original size:21 final size:22
Alignment explanation
Indices: 51972328--51972370 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
51972318 GCTTGTTTGA
*
51972328 TTTTCATTTTCATGTTTAGTAG
1 TTTTCATTTTCATGTTGAGTAG
51972350 TTTT-ATTTTCA-GTATGAGTAG
1 TTTTCATTTTCATGT-TGAGTAG
51972371 CTAAACCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.21, C:0.07, G:0.16, T:0.56
Consensus pattern (22 bp):
TTTTCATTTTCATGTTGAGTAG
Found at i:51973231 original size:32 final size:31
Alignment explanation
Indices: 51973180--51973240 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
51973170 TTCAGTAGAT
* *
51973180 AATCTAAACCAGCTTGTAATCCCATAAAAAAA
1 AATCTAAACAAGCTTGTAATCAC-TAAAAAAA
51973212 AATCTAAACAAG-TTCGTAATCACTAAAAA
1 AATCTAAACAAGCTT-GTAATCACTAAAAA
51973241 CAAGCTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.23
Consensus pattern (31 bp):
AATCTAAACAAGCTTGTAATCACTAAAAAAA
Found at i:51974833 original size:16 final size:16
Alignment explanation
Indices: 51974812--51974847 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
51974802 TACCCTTGAT
51974812 ATTCAAAATCTATTAA
1 ATTCAAAATCTATTAA
51974828 ATTCAAAATCTATTAA
1 ATTCAAAATCTATTAA
51974844 ATTC
1 ATTC
51974848 CATAATTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTCAAAATCTATTAA
Found at i:51975340 original size:22 final size:22
Alignment explanation
Indices: 51975292--51975340 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
51975282 TAATACAACA
*
51975292 GTAAGCACGGAAGTGCAGAACG
1 GTAAGCACCGAAGTGCAGAACG
*
51975314 ATAAGCACCGAAGTGC-GAAACG
1 GTAAGCACCGAAGTGCAG-AACG
51975336 GTAAG
1 GTAAG
51975341 TGCTAAAGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.39, C:0.18, G:0.33, T:0.10
Consensus pattern (22 bp):
GTAAGCACCGAAGTGCAGAACG
Found at i:51975474 original size:21 final size:21
Alignment explanation
Indices: 51975444--51975488 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
51975434 TATCATGCAA
*
51975444 ACATATCACTTTTACACTTTT
1 ACATAACACTTTTACACTTTT
* *
51975465 ACATAACACTTTTATATTTTT
1 ACATAACACTTTTACACTTTT
51975486 ACA
1 ACA
51975489 ATTTAGTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
ACATAACACTTTTACACTTTT
Found at i:51984974 original size:26 final size:26
Alignment explanation
Indices: 51984938--51985006 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
51984928 TACTTTACAT
* *
51984938 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCATACGAGTTGTGAAATGGGCC
*
51984964 TGCTCATACGAGTTGTGAAATGGGCT
1 TGCTCATACGAGTTGTGAAATGGGCC
51984990 TGCTCATACGAGTTGTG
1 TGCTCATACGAGTTGTG
51985007 GGTCAGAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (26 bp):
TGCTCATACGAGTTGTGAAATGGGCC
Found at i:51986477 original size:46 final size:46
Alignment explanation
Indices: 51986410--51986571 Score: 199
Period size: 46 Copynumber: 3.6 Consensus size: 46
51986400 GACTTGATGG
*
51986410 CATAGT-TACTTTCAACCATGGTCTTATTCATTTTTCATCGTGTTGC
1 CATAGTGT-CTTTCAACTATGGTCTTATTCATTTTTCATCGTGTTGC
* * * *
51986456 CACAGTGTCTTTCAATTATGGTCTTATTCATTTTCCGTCGTGTTGC
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTTCATCGTGTTGC
*
51986502 CATAGTGTCTTTCAACTATGGTCTT-TTCA--TTTGATTCGT-TATGC
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTTCA-TCGTGT-TGC
*
51986546 CATAATGTCTTTCAACTATGGTCTTA
1 CATAGTGTCTTTCAACTATGGTCTTA
51986572 CTCAATAAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
43 3 0.03
44 31 0.31
45 4 0.04
46 62 0.61
47 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (46 bp):
CATAGTGTCTTTCAACTATGGTCTTATTCATTTTTCATCGTGTTGC
Found at i:51986568 original size:90 final size:90
Alignment explanation
Indices: 51986370--51986571 Score: 216
Period size: 90 Copynumber: 2.2 Consensus size: 90
51986360 AGGGAGTTAT
* * *
51986370 TGTCTTTCGAAC-ATGGTCTTATTTATTCTCGACTTGATGGCATAGTTACTTTCAACCATGGTCT
1 TGTCTTTC-AACTATGGTCTTATTCATTCTCGACGTGATGCCATAGTTACTTTCAACCATGGTCT
* *
51986434 TATTCATTTTTCATCGTGTTGCCACAG
65 TATTCATTTAT-ATCGTGTTGCCACAA
* * * * *
51986461 TGTCTTTCAATTATGGTCTTATTCATTTTCCGTCGTGTTGCCATAGTGT-CTTTCAACTATGGTC
1 TGTCTTTCAACTATGGTCTTATTCATTCT-CGACGTGATGCCATAGT-TACTTTCAACCATGGTC
*
51986525 TT-TTCATTTGAT-TCGT-TATGCCATAA
64 TTATTCATTT-ATATCGTGT-TGCCACAA
51986551 TGTCTTTCAACTATGGTCTTA
1 TGTCTTTCAACTATGGTCTTA
51986572 CTCAATAAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
89 1 0.01
90 32 0.34
91 30 0.32
92 30 0.32
93 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.46
Consensus pattern (90 bp):
TGTCTTTCAACTATGGTCTTATTCATTCTCGACGTGATGCCATAGTTACTTTCAACCATGGTCTT
ATTCATTTATATCGTGTTGCCACAA
Found at i:51986604 original size:45 final size:45
Alignment explanation
Indices: 51986499--51986708 Score: 251
Period size: 45 Copynumber: 4.7 Consensus size: 45
51986489 TCCGTCGTGT
* * * * * * * *
51986499 TGCCATAGTGTCTTTCAACTATGGTCTT-TTCATTTGATTCGTTA
1 TGCCATAATGTCTTTCAGCTATGGTCTTACTCAATAGAATCATGA
* * *
51986543 TGCCATAATGTCTTTCAACTATGGTCTTACTCAATAAAATCATTA
1 TGCCATAATGTCTTTCAGCTATGGTCTTACTCAATAGAATCATGA
**
51986588 TGCCATAATGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGA
1 TGCCATAATGTCTTTCAGCTATGGTCTTACTCAATAGAATCATGA
* **
51986633 TGCCATAATGTCTTTCAGGTATGGTCTTACTTGATAGAATCATGA
1 TGCCATAATGTCTTTCAGCTATGGTCTTACTCAATAGAATCATGA
* *
51986678 TGCCATAACGTCTTTTAGCTATGGTCTTACT
1 TGCCATAATGTCTTTCAGCTATGGTCTTACT
51986709 GTTTCTGGTA
Statistics
Matches: 149, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
44 27 0.18
45 122 0.82
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (45 bp):
TGCCATAATGTCTTTCAGCTATGGTCTTACTCAATAGAATCATGA
Found at i:51988608 original size:19 final size:20
Alignment explanation
Indices: 51988569--51988616 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
51988559 GACTTGAGAT
51988569 CAAAAATTGAAATCGAGAAC
1 CAAAAATTGAAATCGAGAAC
*
51988589 CAAAAATTGAGATCGA-AAC
1 CAAAAATTGAAATCGAGAAC
*
51988608 CCAAAATTG
1 CAAAAATTG
51988617 GTTGAACCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17
Consensus pattern (20 bp):
CAAAAATTGAAATCGAGAAC
Found at i:51990814 original size:21 final size:21
Alignment explanation
Indices: 51990780--51990827 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
51990770 CAGTTTAATT
51990780 AAATAAATAATTAAAAATAAAA
1 AAAT-AATAATTAAAAATAAAA
*
51990802 AAATAATATTTAAAAATAAAA
1 AAATAATAATTAAAAATAAAA
51990823 AAATA
1 AAATA
51990828 GATTCAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAATAATTAAAAATAAAA
Found at i:51995770 original size:23 final size:22
Alignment explanation
Indices: 51995729--51995786 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
51995719 CATAATTTTC
* *
51995729 TGTAAAGCCTGTGTCGTGTATT
1 TGTAAAGCCTTTTTCGTGTATT
*
51995751 ATGTAAAGCCTTTTTGGTGTATT
1 -TGTAAAGCCTTTTTCGTGTATT
51995774 TGGTAAAG-CTTTT
1 T-GTAAAGCCTTTT
51995787 GTGACGTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.19
23 25 0.81
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (22 bp):
TGTAAAGCCTTTTTCGTGTATT
Found at i:51997660 original size:15 final size:15
Alignment explanation
Indices: 51997642--51997675 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51997632 GACAATGAAT
51997642 ATGACGACGATGATG
1 ATGACGACGATGATG
* *
51997657 ATGATGTCGATGATG
1 ATGACGACGATGATG
51997672 ATGA
1 ATGA
51997676 AGAAGAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.26
Consensus pattern (15 bp):
ATGACGACGATGATG
Found at i:51997680 original size:3 final size:3
Alignment explanation
Indices: 51997674--51997706 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
51997664 CGATGATGAT
*
51997674 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
51997707 TTGGTAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:51998096 original size:22 final size:22
Alignment explanation
Indices: 51998071--51998112 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
51998061 AAGTATCAAA
51998071 TTAAA-GTGTGTAAATGTGTTGC
1 TTAAATGTGTGTAAA-GTGTTGC
*
51998093 TTAAATGTGTTTAAAGTGTT
1 TTAAATGTGTGTAAAGTGTT
51998113 ATGATTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (22 bp):
TTAAATGTGTGTAAAGTGTTGC
Found at i:52010481 original size:25 final size:24
Alignment explanation
Indices: 52010436--52010508 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
52010426 GTCATTAGGG
* *
52010436 TTACCGATTTCAGCTCTTATGAGC
1 TTACCGATCTCAGCTCGTATGAGC
52010460 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGAT-CTCAGCTCGTATGAGC
* *
52010485 TTACCGTTCACAGCTCGTATGAGC
1 TTACCGATCTCAGCTCGTATGAGC
52010509 ATACATGCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 23 0.52
25 21 0.48
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (24 bp):
TTACCGATCTCAGCTCGTATGAGC
Found at i:52010503 original size:24 final size:25
Alignment explanation
Indices: 52010446--52010508 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
52010436 TTACCGATTT
* *
52010446 CAGCTCTTATGAGCTTACCGATACT
1 CAGCTCGTATGAGCTTACCGATACA
*
52010471 CAGCTCGTATGAGCTTACCG-TTCA
1 CAGCTCGTATGAGCTTACCGATACA
52010495 CAGCTCGTATGAGC
1 CAGCTCGTATGAGC
52010509 ATACATGCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 16 0.46
25 19 0.54
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATACA
Found at i:52015596 original size:23 final size:23
Alignment explanation
Indices: 52015570--52015622 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
52015560 ATAAGTGCCA
52015570 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
52015593 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
52015616 CACTGAT
1 CACTGAT
52015623 CAATAACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:52019968 original size:22 final size:22
Alignment explanation
Indices: 52019926--52019969 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
52019916 TAATAGGGAA
**
52019926 GGGTTATGTCCACTTTGTTAGT
1 GGGTTATGTCCACTTCATTAGT
52019948 GGGTTATGTCCACTTCATTAGT
1 GGGTTATGTCCACTTCATTAGT
52019970 CTCCTCGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (22 bp):
GGGTTATGTCCACTTCATTAGT
Found at i:52021502 original size:74 final size:74
Alignment explanation
Indices: 52021421--52021559 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 74
52021411 CTCATTTGAG
52021421 CTTCACTCAGTATAAC-AGTA-GAATTTGATCAATTAAACATCAGTCAGTATAACAGTAAGATTT
1 CTTCACTCAGTATAACGA-TATG-ATTTGATCAATTAAACATCAGTCAGTATAACAGTAAGATTT
52021484 GCTCAATTAAA
64 GCTCAATTAAA
* * * * * *
52021495 CTTCACTCAGTATAACGATATGATTTGCTCGATTGAGCTTCATTCAGTATAACAGTAAGATTTGC
1 CTTCACTCAGTATAACGATATGATTTGATCAATTAAACATCAGTCAGTATAACAGTAAGATTTGC
52021560 CTCGATAGAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 55 0.96
75 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (74 bp):
CTTCACTCAGTATAACGATATGATTTGATCAATTAAACATCAGTCAGTATAACAGTAAGATTTGC
TCAATTAAA
Found at i:52021559 original size:37 final size:37
Alignment explanation
Indices: 52021411--52021559 Score: 167
Period size: 37 Copynumber: 4.0 Consensus size: 37
52021401 TAGATTTCTA
*
52021411 CTCATTTGAGCTTCACTCAGTATAACAGT-AGAATTTG
1 CTCAATTGAGCTTCACTCAGTATAACAGTAAG-ATTTG
* * * * *
52021448 ATCAATTAAACATCAGTCAGTATAACAGTAAGATTTG
1 CTCAATTGAGCTTCACTCAGTATAACAGTAAGATTTG
* * *
52021485 CTCAATTAAACTTCACTCAGTATAAC-GATATGATTTG
1 CTCAATTGAGCTTCACTCAGTATAACAG-TAAGATTTG
* *
52021522 CTCGATTGAGCTTCATTCAGTATAACAGTAAGATTTG
1 CTCAATTGAGCTTCACTCAGTATAACAGTAAGATTTG
52021559 C
1 C
52021560 CTCGATAGAG
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
36 1 0.01
37 90 0.96
38 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (37 bp):
CTCAATTGAGCTTCACTCAGTATAACAGTAAGATTTG
Found at i:52029694 original size:47 final size:47
Alignment explanation
Indices: 52029623--52029764 Score: 207
Period size: 47 Copynumber: 3.1 Consensus size: 47
52029613 TACTATGGAA
* * * *
52029623 TTTTGATCATGACACCATAACATCTTTCAGTTATGGTCTTACTCATT
1 TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
* *
52029670 TTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCA--
1 TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
*
52029715 TTTTCATTATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
1 TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
52029762 TTT
1 TTT
52029765 AGGCGTATAG
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 42 0.49
47 43 0.51
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (47 bp):
TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
Found at i:52029746 original size:45 final size:45
Alignment explanation
Indices: 52029622--52029763 Score: 203
Period size: 45 Copynumber: 3.1 Consensus size: 45
52029612 CTACTATGGA
* * * *
52029622 ATTTTGATCATGACACCATAACATCTTTCAGTTATGGTCTTACTC
1 ATTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTC
* *
52029667 ATTTTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACTC
1 A--TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTC
*
52029714 ATTTTCATTATGACGCCATAGCATCTTTCAGCTATGGTCTTACTC
1 ATTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTC
52029759 ATTTT
1 ATTTT
52029764 TAGGCGTATA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 47 0.54
47 40 0.46
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (45 bp):
ATTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTC
Found at i:52031120 original size:21 final size:21
Alignment explanation
Indices: 52031094--52031138 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
52031084 CGACACATAA
*
52031094 GTGCCTGAAATGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
52031115 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
52031136 GTG
1 GTG
52031139 TCTAAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.16
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:52031148 original size:23 final size:21
Alignment explanation
Indices: 52031105--52031154 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
52031095 TGCCTGAAAT
*
52031105 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTAATAC
*
52031126 GACACACGAGGTGTCTAAAATAC
1 GACACACGAGGTGCCT--AATAC
52031149 GACACA
1 GACACA
52031155 TAAAGTGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.60
23 10 0.40
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (21 bp):
GACACACGAGGTGCCTAATAC
Found at i:52031171 original size:23 final size:23
Alignment explanation
Indices: 52031080--52031190 Score: 79
Period size: 23 Copynumber: 5.0 Consensus size: 23
52031070 ACCTGATCAG
52031080 TATACGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
* ** *
52031102 -A-ATGACACACGAGGTGCCTG-
1 TATACGACACATAAAGTGCCTGA
** * * *
52031122 -ATACGACACACGAGGTGTCTAA
1 TATACGACACATAAAGTGCCTGA
*
52031144 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
* *
52031167 TATACGACGCATAAAGTTCCTGA
1 TATACGACACATAAAGTGCCTGA
52031190 T
1 T
52031191 CGGCAGAGCT
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.11
21 25 0.35
23 38 0.54
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:52032221 original size:5 final size:5
Alignment explanation
Indices: 52032213--52032243 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
52032203 GAGATGGAAT
52032213 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
52032244 TTATTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:52032893 original size:35 final size:35
Alignment explanation
Indices: 52032837--52032909 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
52032827 AGTAAAGGGT
52032837 GAGAAGTAAAAATTTAGGGGAAAATAAAAAGTTTTG
1 GAGAAGTAAAAATTTAGGGGAAAATAAAAAG-TTTG
* * *
52032873 GAGAA-TAAAAGTTT-GAGGGAAAGTAAATAGTTTG
1 GAGAAGTAAAAATTTAG-GGGAAAATAAAAAGTTTG
52032907 GAG
1 GAG
52032910 GGAAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 8 0.24
35 20 0.61
36 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.25
Consensus pattern (35 bp):
GAGAAGTAAAAATTTAGGGGAAAATAAAAAGTTTG
Found at i:52032906 original size:19 final size:19
Alignment explanation
Indices: 52032878--52032914 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
52032868 TTTTGGAGAA
52032878 TAAAAGTTT-GAGGGAAAG
1 TAAAAGTTTGGAGGGAAAG
52032896 TAAATAGTTTGGAGGGAAA
1 TAAA-AGTTTGGAGGGAAA
52032915 ATATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (19 bp):
TAAAAGTTTGGAGGGAAAG
Found at i:52033257 original size:9 final size:9
Alignment explanation
Indices: 52033243--52033297 Score: 101
Period size: 9 Copynumber: 6.1 Consensus size: 9
52033233 TATAGTTTGA
52033243 TATTCGAAT
1 TATTCGAAT
52033252 TATTCGAAT
1 TATTCGAAT
52033261 TATTCGAAT
1 TATTCGAAT
52033270 TATTCGAAT
1 TATTCGAAT
*
52033279 TATTCGAGT
1 TATTCGAAT
52033288 TATTCGAAT
1 TATTCGAAT
52033297 T
1 T
52033298 CGAAAACTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:52033367 original size:9 final size:9
Alignment explanation
Indices: 52033350--52033380 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
52033340 TCGAGTTGAT
52033350 TCGAATAAC
1 TCGAATAAC
*
52033359 TCGATTAAC
1 TCGAATAAC
52033368 TCGAATAAC
1 TCGAATAAC
52033377 TCGA
1 TCGA
52033381 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:52036851 original size:43 final size:45
Alignment explanation
Indices: 52036775--52036861 Score: 124
Period size: 48 Copynumber: 1.9 Consensus size: 45
52036765 CATGTTTTTA
52036775 GCAGCATTTGTGGTAGAAGCGCTGCGAAGCTAAAGGTCATAATCTTTC
1 GCAGCATTTGTGGTAGAAGCGC-GC--AGCTAAAGGTCATAATCTTTC
*
52036823 GCAGCGTTTGTGGTAGAAGCGC-C-GCTAAAGGTCATAATC
1 GCAGCATTTGTGGTAGAAGCGCGCAGCTAAAGGTCATAATC
52036862 CTTAGCGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
43 16 0.42
46 1 0.03
48 21 0.55
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
GCAGCATTTGTGGTAGAAGCGCGCAGCTAAAGGTCATAATCTTTC
Found at i:52037736 original size:23 final size:23
Alignment explanation
Indices: 52037709--52037756 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
52037699 AATAAGTATG
52037709 TACATATATTAACTACAAATGTA
1 TACATATATTAACTACAAATGTA
* * *
52037732 TACATATATTTATTACACATGTA
1 TACATATATTAACTACAAATGTA
52037755 TA
1 TA
52037757 TAATTACCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (23 bp):
TACATATATTAACTACAAATGTA
Found at i:52037758 original size:25 final size:25
Alignment explanation
Indices: 52037704--52037758 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
52037694 TAATTAATAA
*
52037704 GTATGTACATATATTAACTACAAAT
1 GTATATACATATATTAACTACAAAT
* * *
52037729 G--TATACATATATTTATTACACAT
1 GTATATACATATATTAACTACAAAT
52037752 GTATATA
1 GTATATA
52037759 ATTACCACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
23 19 0.79
25 5 0.21
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (25 bp):
GTATATACATATATTAACTACAAAT
Found at i:52042231 original size:27 final size:27
Alignment explanation
Indices: 52042173--52042236 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
52042163 ATAGTCCCTG
* *
52042173 CGGACTATCTCCTATTTACTGCCCCGT
1 CGGACTATCTCATATTTACTGCCCAGT
* *
52042200 CGGACTATCTCATGTTTAGTGTCCCAGT
1 CGGACTATCTCATATTTACTG-CCCAGT
*
52042228 -GGACAATCT
1 CGGACTATCT
52042237 AAGGATGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.33
Consensus pattern (27 bp):
CGGACTATCTCATATTTACTGCCCAGT
Found at i:52042452 original size:45 final size:45
Alignment explanation
Indices: 52042327--52042479 Score: 182
Period size: 45 Copynumber: 3.4 Consensus size: 45
52042317 TCAGCTATAG
* *
52042327 TCTTACTCATTTTTATCATGACACCATAGCATCTTTCAACCATGG
1 TCTTACTCATTTTTATCATGACACCAAAGCATCTTTCAACCATGA
* * * * * *
52042372 TCTTAATCATATTTTTATCATGACTCC-ATGTCATCTTTTAGCTATGA
1 TCTTACTC--ATTTTTATCATGACACCAAAG-CATCTTTCAACCATGA
* *
52042419 TCTTACTCATTTTTATCATGACGCCAAAGCATCTTTCAACCATGG
1 TCTTACTCATTTTTATCATGACACCAAAGCATCTTTCAACCATGA
52042464 TCTTACTCATTTTTAT
1 TCTTACTCATTTTTAT
52042480 GGGTATAGCC
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
45 51 0.57
46 3 0.03
47 35 0.39
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.42
Consensus pattern (45 bp):
TCTTACTCATTTTTATCATGACACCAAAGCATCTTTCAACCATGA
Found at i:52058332 original size:5 final size:5
Alignment explanation
Indices: 52058289--52058313 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
52058279 GCATTGCAAC
52058289 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
52058314 CTCAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:52059178 original size:2 final size:2
Alignment explanation
Indices: 52059171--52059224 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
52059161 ATGAATATTC
52059171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52059213 AT AT AT AT AT AT
1 AT AT AT AT AT AT
52059225 TTCTCTCTCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52059253 original size:12 final size:12
Alignment explanation
Indices: 52059236--52059296 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
52059226 TCTCTCTCTC
52059236 TCTCTTTTTCTT
1 TCTCTTTTTCTT
* *
52059248 TCTCTTTGTATT
1 TCTCTTTTTCTT
* *
52059260 TGTGTTTTTTCTT
1 TCT-CTTTTTCTT
*
52059273 TTTCTTTTTCTT
1 TCTCTTTTTCTT
*
52059285 CTCTCTCTTTCT
1 -TCTCTTTTTCT
52059297 GGCCTGCTCT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
12 20 0.54
13 17 0.46
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.72
Consensus pattern (12 bp):
TCTCTTTTTCTT
Found at i:52064491 original size:53 final size:53
Alignment explanation
Indices: 52064428--52064534 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
52064418 TACTTCTACT
* *
52064428 CCAAGAGTTTGATCTAGAAATTTAGGATCGAAAGGGT-GTAGAAAATCAAGTAG
1 CCAAGAGTTTGATCTAAAAATTCAGGATCGAAA-GGTAGTAGAAAATCAAGTAG
52064481 CCAAGAGTTTGATCTAAAAATTCAGGATCGAAAGGTAGTAGAAAATCAAGTAG
1 CCAAGAGTTTGATCTAAAAATTCAGGATCGAAAGGTAGTAGAAAATCAAGTAG
52064534 C
1 C
52064535 AGACCACTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 3 0.06
53 48 0.94
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.23
Consensus pattern (53 bp):
CCAAGAGTTTGATCTAAAAATTCAGGATCGAAAGGTAGTAGAAAATCAAGTAG
Done.