Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 162 of 311
Found at i:55284319 original size:57 final size:57
Alignment explanation
Indices: 55284230--55284357 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
55284220 CATGAGATTG
*
55284230 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
55284287 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
55284344 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
55284358 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:55295422 original size:41 final size:41
Alignment explanation
Indices: 55295377--55295469 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
55295367 TCTTGCTCGT
*
55295377 ACAAGCTGTCAGTCCAGACATAGCTATACGGTGGTGCTCAC
1 ACAAGCTGTCAGTCCAGACATAGCTATACGGTGCTGCTCAC
*
55295418 ACAAGCTGTCAGTCCAGACATAGCTATATGGTGCTGCTCAC
1 ACAAGCTGTCAGTCCAGACATAGCTATACGGTGCTGCTCAC
55295459 ACAAGCTGTCA
1 ACAAGCTGTCA
55295470 AGTAACCGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
ACAAGCTGTCAGTCCAGACATAGCTATACGGTGCTGCTCAC
Found at i:55299438 original size:19 final size:19
Alignment explanation
Indices: 55299414--55299452 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
55299404 TTGTGAAGTT
55299414 AAATTCAACTATTTCTAAA
1 AAATTCAACTATTTCTAAA
55299433 AAATTCAACTATTTCTAAA
1 AAATTCAACTATTTCTAAA
55299452 A
1 A
55299453 TCTTAAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTCAACTATTTCTAAA
Found at i:55306752 original size:46 final size:46
Alignment explanation
Indices: 55306685--55306860 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 46
55306675 TGTAACTCGC
*
55306685 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
55306731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* ** *
55306777 ACATCTGACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAG-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
55306824 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55306861 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 72 0.67
47 36 0.33
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:55306800 original size:93 final size:93
Alignment explanation
Indices: 55306692--55306863 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
55306682 CGCCCATAAG
*
55306692 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55306757 ACGAGTTCGGATGCCTAGTTACATCTGA
66 ACGAGTTCGGATGCCTAGTTACATCTGA
*
55306785 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55306850 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55306864 TCAACCATCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTGA
Found at i:55306879 original size:46 final size:45
Alignment explanation
Indices: 55306693--55306879 Score: 159
Period size: 46 Copynumber: 4.0 Consensus size: 45
55306683 GCCCATAAGC
* * * * *
55306693 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA--TGCTCAACCATCTAGT
*
55306739 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT-GAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCTAG-T
* * * *
55306786 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAGT
55306832 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
55306878 GA
1 GA
55306880 CATGTCACTT
Statistics
Matches: 115, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.10
46 65 0.57
47 32 0.28
49 4 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:55316489 original size:43 final size:43
Alignment explanation
Indices: 55316428--55316511 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
55316418 CCCTGGATTC
55316428 GAGCTATCTTTATAACACTATAAAACAGAGAACATTTCATATA
1 GAGCTATCTTTATAACACTATAAAACAGAGAACATTTCATATA
55316471 GAGCTATCTTTATAACACTATAAAACAGAGAACATTTCATA
1 GAGCTATCTTTATAACACTATAAAACAGAGAACATTTCATA
55316512 CAGTAACCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (43 bp):
GAGCTATCTTTATAACACTATAAAACAGAGAACATTTCATATA
Found at i:55334957 original size:25 final size:25
Alignment explanation
Indices: 55334928--55334975 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55334918 TTATAATATG
* * *
55334928 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
55334953 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55334976 GTTTATATAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:55335026 original size:9 final size:9
Alignment explanation
Indices: 55335014--55335070 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
55335004 TTTGATAAAC
55335014 ATGATATGT
1 ATGATATGT
*
55335023 ATGATATGCAC
1 ATGATATG--T
*
55335034 ATGACATGT
1 ATGATATGT
*
55335043 ATGATATGCAC
1 ATGATATG--T
55335054 ATGATATGT
1 ATGATATGT
55335063 ATGATATG
1 ATGATATG
55335071 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:55335037 original size:20 final size:20
Alignment explanation
Indices: 55335012--55335074 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
55335002 ATTTTGATAA
55335012 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55335032 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
55335052 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55335072 ACA
1 ACA
55335075 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55335153 original size:24 final size:24
Alignment explanation
Indices: 55335126--55335269 Score: 188
Period size: 24 Copynumber: 6.0 Consensus size: 24
55335116 GGAGGAAGTG
55335126 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55335150 CAAAAGGGCTTATGCCTCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
55335174 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55335198 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55335221 TAAAAGGGGCTT-TGCCCCAGTTA-
1 CAAAA-GGGCTTATGCCCCAGTTAT
*
55335244 CTAAAAGAGGC-TAGGCCTCCAGTTAT
1 C-AAAAG-GGCTTATGCC-CCAGTTAT
55335270 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 6, Indels: 12
0.86 0.05 0.10
Matches are distributed among these distances:
23 24 0.22
24 70 0.65
25 13 0.12
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:55335226 original size:47 final size:47
Alignment explanation
Indices: 55335126--55335248 Score: 185
Period size: 47 Copynumber: 2.6 Consensus size: 47
55335116 GGAGGAAGTG
* *
55335126 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCTCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
55335174 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
55335221 TAAAAGGGGCTT-TGCCCCAGTTACTAAA
1 CAAAA-GGGCTTATGCCCCAGTTATTAAA
55335249 AGAGGCTAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
47 40 0.57
48 30 0.43
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:55335250 original size:71 final size:72
Alignment explanation
Indices: 55335128--55335269 Score: 202
Period size: 71 Copynumber: 2.0 Consensus size: 72
55335118 AGGAAGTGCA
* *
55335128 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCTCAGTTATCAAAAG-GGCTTATGCC-C
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCTC
55335191 CAGTTATT
65 CAGTTATT
*
55335199 AAAGGGCTTATGCCCCAGTTATTAAAAGGGGCTT-TGCCCCAGTTA-CTAAAAGAGGCTAGGCCT
1 AAAGGGCTTATGCCCCAGTTATCAAAA-GGGCTTATGCCCCAGTTATC-AAAAGAGGCTAGGCCT
55335262 CCAGTTAT
64 CCAGTTAT
55335270 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
70 1 0.02
71 46 0.72
72 17 0.27
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (72 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTCC
AGTTATT
Found at i:55335500 original size:31 final size:31
Alignment explanation
Indices: 55335462--55335525 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
55335452 CGTTTACAGT
55335462 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
55335493 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
55335524 AA
1 AA
55335526 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:55338491 original size:13 final size:13
Alignment explanation
Indices: 55338473--55338497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55338463 CTTGGTAGGG
55338473 ACACGCCCGTGTA
1 ACACGCCCGTGTA
55338486 ACACGCCCGTGT
1 ACACGCCCGTGT
55338498 GCGATTACTG
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:55338603 original size:13 final size:13
Alignment explanation
Indices: 55338585--55338626 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
55338575 GCTGCCAAAT
55338585 TGACACGGCCGTG
1 TGACACGGCCGTG
55338598 TGACACGGCCGTG
1 TGACACGGCCGTG
*
55338611 TGACACGCCCGTG
1 TGACACGGCCGTG
55338624 TGA
1 TGA
55338627 GGAAGTCTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.17, C:0.31, G:0.36, T:0.17
Consensus pattern (13 bp):
TGACACGGCCGTG
Found at i:55339470 original size:10 final size:10
Alignment explanation
Indices: 55339455--55339479 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
55339445 TAGAAGAGCA
55339455 AAGCATAGCC
1 AAGCATAGCC
55339465 AAGCATAGCC
1 AAGCATAGCC
55339475 AAGCA
1 AAGCA
55339480 ATTAGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.20, T:0.08
Consensus pattern (10 bp):
AAGCATAGCC
Found at i:55348412 original size:29 final size:29
Alignment explanation
Indices: 55348377--55348450 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
55348367 GTTGTGAGAT
* *
55348377 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
55348406 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
55348435 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55348451 TGATTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:55360004 original size:18 final size:20
Alignment explanation
Indices: 55359964--55360006 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
55359954 ATAATGAGTG
* *
55359964 TAATGGATGACATGTATGTT
1 TAATGGATGACATATATGAT
55359984 TAATGGATGA-A-ATATGAT
1 TAATGGATGACATATATGAT
55360002 TAATG
1 TAATG
55360007 TGTATGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.37
Consensus pattern (20 bp):
TAATGGATGACATATATGAT
Found at i:55364587 original size:40 final size:40
Alignment explanation
Indices: 55364497--55364717 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
55364487 ACCCAAGTAT
* ** * *
55364497 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
55364535 CTTTGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
55364575 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * *
55364615 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55364655 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
55364696 CTTCTGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
55364718 CATTCGAATA
Statistics
Matches: 150, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
38 10 0.07
39 17 0.11
40 93 0.62
41 27 0.18
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55372662 original size:40 final size:40
Alignment explanation
Indices: 55372579--55372799 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
55372569 ACCCAAGTAT
** * *
55372579 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55372617 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55372657 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
55372697 CTTCGGGTTTTGGCCTGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
55372737 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
55372778 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
55372800 CATTCGAATA
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 95 0.63
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55391876 original size:43 final size:43
Alignment explanation
Indices: 55391828--55391982 Score: 310
Period size: 43 Copynumber: 3.6 Consensus size: 43
55391818 CCGGCATTAC
55391828 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
55391871 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
55391914 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
55391957 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
55391983 TAATACCAGC
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 112 1.00
ACGTcount: A:0.30, C:0.34, G:0.26, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:55392023 original size:38 final size:38
Alignment explanation
Indices: 55391980--55392082 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
55391970 GAAGGCCCGA
* * *
55391980 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCAG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCAG
* *
55392018 ATATAATACTAGCACAAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCAG
** *
55392056 ATATTTTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACAAAGCCTGCGGG
55392083 TCTTTAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCAG
Found at i:55392026 original size:86 final size:85
Alignment explanation
Indices: 55391828--55392003 Score: 284
Period size: 86 Copynumber: 2.1 Consensus size: 85
55391818 CCGGCATTAC
55391828 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGC-AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
*
55391893 AATACACATCACCGGCACGAA
65 AATACACATCACCAGCACGAA
55391914 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGC-AGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
* * *
55391979 AATATA-AT-ACCAGCACTAG
65 AATACACATCACCAGCACGAA
55391998 GCCTGC
1 GCCTGC
55392004 GGGATTTATC
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
84 14 0.16
85 2 0.02
86 70 0.81
ACGTcount: A:0.30, C:0.34, G:0.26, T:0.11
Consensus pattern (85 bp):
GCCTGCAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGA
ATACACATCACCAGCACGAA
Found at i:55395622 original size:68 final size:64
Alignment explanation
Indices: 55395547--55395754 Score: 213
Period size: 67 Copynumber: 3.2 Consensus size: 64
55395537 CATCATGTGT
* *
55395547 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
55395612 TAG
62 TAG
* ** * * *
55395615 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCATGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
55395680 AG
63 AG
* * * * *
55395682 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
55395744 TACAAGAGAGC
1 -ACAAGAGAGC
55395755 CGAACTATAT
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 25 0.21
65 3 0.03
66 24 0.21
67 32 0.27
68 13 0.11
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:55402571 original size:12 final size:12
Alignment explanation
Indices: 55402554--55402578 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55402544 GTTTGGCACA
55402554 GCCTAGCACACG
1 GCCTAGCACACG
55402566 GCCTAGCACACG
1 GCCTAGCACACG
55402578 G
1 G
55402579 GCATGTGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.28, T:0.08
Consensus pattern (12 bp):
GCCTAGCACACG
Found at i:55404258 original size:42 final size:42
Alignment explanation
Indices: 55404211--55404365 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
55404201 TATAAGTTTA
* * *
55404211 CGTGTAAGACCATATCTGGGATATAGCATCGTTATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATAT
* *
55404253 CGTGTAAGACCATGTCTAGGG-CATGGCATCGATATGAGA-AT
1 CGTGTAAGACCATATCT-GGGATATGGCATCGATATGAGATAT
* * * ** **
55404294 CGTGTCAGACCATAGCTGGGCTAATGGCATTAATATGAGATCC
1 CGTGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATAT
* *
55404337 CATGTAAGACCATATCTGCGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
55404366 TGGTGTGATT
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
40 3 0.03
41 15 0.16
42 53 0.58
43 20 0.22
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATAT
Found at i:55405500 original size:51 final size:51
Alignment explanation
Indices: 55405437--55405562 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
55405427 CAATCAAATC
* * * *
55405437 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
55405488 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
55405539 TCTAAGATTATAAAATCATATCTT
1 TCTAAGATTATAAAATCATATCTT
55405563 TCAAGATCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:55410632 original size:51 final size:51
Alignment explanation
Indices: 55410569--55410694 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
55410559 CAATCAAATC
* * * *
55410569 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
55410620 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
55410671 TCTAAGATTATAAAATCATATCTT
1 TCTAAGATTATAAAATCATATCTT
55410695 TCAGGATCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:55415015 original size:26 final size:26
Alignment explanation
Indices: 55414986--55415038 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
55414976 ATATATAACA
55414986 TAATATGATATTGCCATAATCATGAC
1 TAATATGATATTGCCATAATCATGAC
55415012 TAATATGATATTGCCATAATCATGAC
1 TAATATGATATTGCCATAATCATGAC
55415038 T
1 T
55415039 TGTTTGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (26 bp):
TAATATGATATTGCCATAATCATGAC
Found at i:55415888 original size:47 final size:46
Alignment explanation
Indices: 55415810--55415938 Score: 127
Period size: 46 Copynumber: 2.7 Consensus size: 46
55415800 GCAGCTCAAA
* *
55415810 AGAGCTTACCAATATATCAGCTCATAAGAGCTTATTGTTTTCACCTCGTT
1 AGAGCTTACC-AT-T-TTAGCTCATAAGAGCTTACTG-TTTCACCTCGTT
* * *
55415860 GGAG-TGTACCATTTTAGCTCATATGAGCTTACTGTTTCAGCTCGTT
1 AGAGCT-TACCATTTTAGCTCATAAGAGCTTACTGTTTCACCTCGTT
* *
55415906 AGAGCTTACCGTTTTAGCTTA-ATAGAGCTTACT
1 AGAGCTTACCATTTTAGCTCATA-AGAGCTTACT
55415939 ATCCATCAGC
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 36 0.54
47 19 0.28
48 1 0.01
49 3 0.04
50 7 0.10
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (46 bp):
AGAGCTTACCATTTTAGCTCATAAGAGCTTACTGTTTCACCTCGTT
Found at i:55415910 original size:23 final size:23
Alignment explanation
Indices: 55415875--55415938 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
55415865 GTACCATTTT
55415875 AGCTC-ATATGAGCTTACTGTTTC
1 AGCTCAATA-GAGCTTACTGTTTC
** * *
55415898 AGCTCGTTAGAGCTTACCGTTTT
1 AGCTCAATAGAGCTTACTGTTTC
*
55415921 AGCTTAATAGAGCTTACT
1 AGCTCAATAGAGCTTACT
55415939 ATCCATCAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 31 0.94
24 2 0.06
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACTGTTTC
Found at i:55415921 original size:46 final size:47
Alignment explanation
Indices: 55415828--55415938 Score: 129
Period size: 46 Copynumber: 2.4 Consensus size: 47
55415818 CCAATATATC
* * *
55415828 AGCTCATAAGAGCTTATTGTTTTCACCTCGTTGGAGTGTACCATTTT
1 AGCTCATATGAGCTTACTGTTTTCACCTCGTTAGAGTGTACCATTTT
* *
55415875 AGCTCATATGAGCTTACTG-TTTCAGCTCGTTAGAGCT-TACCGTTTT
1 AGCTCATATGAGCTTACTGTTTTCACCTCGTTAGAG-TGTACCATTTT
*
55415921 AGCTTA-ATAGAGCTTACT
1 AGCTCATAT-GAGCTTACT
55415939 ATCCATCAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 2 0.04
46 36 0.64
47 18 0.32
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (47 bp):
AGCTCATATGAGCTTACTGTTTTCACCTCGTTAGAGTGTACCATTTT
Found at i:55417353 original size:16 final size:17
Alignment explanation
Indices: 55417322--55417355 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
55417312 AGGGACAAAT
*
55417322 TGATTGATATGGATTGA
1 TGATTGATATGAATTGA
55417339 TGATT-ATATGAATTGA
1 TGATTGATATGAATTGA
55417355 T
1 T
55417356 CAAATGTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (17 bp):
TGATTGATATGAATTGA
Found at i:55421629 original size:78 final size:78
Alignment explanation
Indices: 55421494--55421710 Score: 227
Period size: 78 Copynumber: 2.8 Consensus size: 78
55421484 TTGAATGATG
* * * *
55421494 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC--AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
*
55421557 TTGTGCG-GATACTAAT
62 TTGTGCGAGATACTAAA
55421573 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGC-AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
*
55421638 TGCGAGTTACTAAA
65 TGCGAGATACTAAA
* * * *
55421652 T-CGGGTTAAGTCCG-A-GCA--TGTGCAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTG
55421711 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
73 31 0.25
74 7 0.06
76 3 0.02
77 2 0.02
78 54 0.44
79 26 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAGATACTAAA
Found at i:55421639 original size:40 final size:40
Alignment explanation
Indices: 55421494--55421710 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
55421484 TTGAATGATG
* * * *
55421494 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
55421534 TCCGGATTAAGAT-CCGAAGGCATTTGTGCG-GATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
55421573 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55421612 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55421652 T-CGGGTTAAGT-CCG-A-GCA--TGTGC-AGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55421686 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55421711 AACGAGGAGC
Statistics
Matches: 150, Mismatches: 15, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
33 8 0.05
34 15 0.10
35 3 0.02
36 4 0.03
37 4 0.03
38 20 0.13
39 42 0.28
40 46 0.31
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55421732 original size:73 final size:74
Alignment explanation
Indices: 55421596--55421733 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 74
55421586 CGAAGGCATT
* ** * *
55421596 TGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAA
1 TGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAA
55421661 GTCCGAGCA
66 GTCCGAGCA
* *
55421670 TGTGC-AGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTT
1 TGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTT
55421732 AA
64 AA
55421734 ATTCCGAAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
72 1 0.02
73 47 0.85
74 7 0.13
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (74 bp):
TGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAA
GTCCGAGCA
Found at i:55429514 original size:79 final size:80
Alignment explanation
Indices: 55429378--55429601 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 80
55429368 TTGAATGATG
* * * * *
55429378 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCGGATTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGT-CCGAAGGCATTGGTGC-GAGTTACTATAATCCGGGTTAAG-TCCCGAAGGCA
* *
55429440 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACAAAA
*
55429458 TCTGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCC-GAAGGCATTGGTGCGAGTTACTATAATCCGGGTTAAGTCCCGAAGGCATT
*
55429521 TGTGCGAGTTACAAAA
65 TGTGCGAGATACAAAA
* * * *
55429537 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTATAATCCGGGTTAAGTCCCGAAGGCATTT
55429601 G
66 G
55429602 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.02
79 101 0.81
80 20 0.16
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTATAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGATACAAAA
Found at i:55429526 original size:40 final size:40
Alignment explanation
Indices: 55429378--55429601 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
55429368 TTGAATGATG
* * * *
55429378 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
55429418 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
55429458 TCTGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55429497 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55429537 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55429577 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55429602 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 65 0.42
40 82 0.53
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55429619 original size:79 final size:78
Alignment explanation
Indices: 55429472--55429624 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 78
55429462 GGCTAAGCCT
* ** *
55429472 GAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
1 GAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACAAAA
55429537 TCCGGGTTAAGTCC
66 TCC-GGTTAAGTCC
* * *
55429551 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTA
1 GAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CAA
*
55429614 TATCCGGTTAA
64 AATCCGGTTAA
55429625 ATTCCAAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 7 0.11
79 55 0.86
80 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (78 bp):
GAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACAAAA
TCCGGTTAAGTCC
Found at i:55435170 original size:30 final size:29
Alignment explanation
Indices: 55435134--55435190 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
55435124 ATAGTATCGT
*
55435134 ATCTTGGGTTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
*
55435164 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
55435191 TGTTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.11, C:0.16, G:0.18, T:0.56
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:55441625 original size:24 final size:24
Alignment explanation
Indices: 55441598--55441661 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
55441588 TCATAAGAGT
*
55441598 TTACTGTTTTCAGATTGT-TGGAGC
1 TTACTGTTTTCAGATCGTAT-GAGC
* *
55441622 TTACCG-TTTCAGCTCGTATGAGC
1 TTACTGTTTTCAGATCGTATGAGC
*
55441645 TTACTG-TTTCAGCTCGT
1 TTACTGTTTTCAGATCGT
55441662 CACAGCTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 29 0.83
24 6 0.17
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (24 bp):
TTACTGTTTTCAGATCGTATGAGC
Found at i:55441644 original size:23 final size:23
Alignment explanation
Indices: 55441618--55441682 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
55441608 CAGATTGTTG
55441618 GAGCTTACCGTTTCAGCTCGT-A
1 GAGCTTACCGTTTCAGCTCGTCA
*
55441640 TGAGCTTACTGTTTCAGCTCGTCA
1 -GAGCTTACCGTTTCAGCTCGTCA
*
55441664 CAGCTTACCGTTTCAGCTC
1 GAGCTTACCGTTTCAGCTC
55441683 TATATAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 37 0.97
24 1 0.03
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGTCA
Found at i:55441649 original size:47 final size:46
Alignment explanation
Indices: 55441567--55441682 Score: 124
Period size: 46 Copynumber: 2.4 Consensus size: 46
55441557 ACAGCTCGAA
* * *
55441567 AGAGCTTACCGATATATCAGCTCATAAGAGTTTACTGTTTTCAGATTGTT
1 AGAGCTTACCG-T-T-TCAGCTCATAAGAGCTTACTG-TTTCAGATCGTC
* * * *
55441617 GGAGCTTACCGTTTCAGCTCGTATGAGCTTACTGTTTCAGCTCGTC
1 AGAGCTTACCGTTTCAGCTCATAAGAGCTTACTGTTTCAGATCGTC
*
55441663 ACAGCTTACCGTTTCAGCTC
1 AGAGCTTACCGTTTCAGCTC
55441683 TATATAGTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 27 0.47
47 18 0.32
48 1 0.02
49 1 0.02
50 10 0.18
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (46 bp):
AGAGCTTACCGTTTCAGCTCATAAGAGCTTACTGTTTCAGATCGTC
Found at i:55445202 original size:47 final size:47
Alignment explanation
Indices: 55445143--55445536 Score: 608
Period size: 47 Copynumber: 8.4 Consensus size: 47
55445133 GATGTACAAG
* * *
55445143 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
55445190 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
55445237 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
55445284 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
55445331 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
55445378 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
55445425 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
55445472 GTGTATATATGTGATAAAGCTGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
55445519 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
55445537 TCCCGAAGGG
Statistics
Matches: 315, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 315 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:55447580 original size:55 final size:55
Alignment explanation
Indices: 55447492--55447597 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
55447482 TTAACTCTGG
*
55447492 TAATGCTCCGTAACCCTATTCCAGCATTGAATAC-ATGTGAGAGGTGTTACACCGA
1 TAATGCTCCGTAACCCTATTCCAGCATTAAATACGA-GTGAGAGGTGTTACACCGA
** ** *
55447547 TAATGCTCCGTAACCCTATTCTGGTGTTAAATACGAGTGAGGGGTGTTACA
1 TAATGCTCCGTAACCCTATTCCAGCATTAAATACGAGTGAGAGGTGTTACA
55447598 AGCTAGTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
55 43 0.98
56 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (55 bp):
TAATGCTCCGTAACCCTATTCCAGCATTAAATACGAGTGAGAGGTGTTACACCGA
Found at i:55451707 original size:17 final size:17
Alignment explanation
Indices: 55451685--55451718 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55451675 GACTAGACAA
55451685 CCCAATATTCTAAAGTG
1 CCCAATATTCTAAAGTG
*
55451702 CCCAATATTCTGAAGTG
1 CCCAATATTCTAAAGTG
55451719 ACTTAGAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (17 bp):
CCCAATATTCTAAAGTG
Found at i:55457946 original size:60 final size:60
Alignment explanation
Indices: 55457873--55458004 Score: 237
Period size: 60 Copynumber: 2.2 Consensus size: 60
55457863 TTGTACATTT
*
55457873 ATTTCTTTTGAGTACATATGCTCTTTTTTTATTGCACGAGAATTTTACTATATGTACTAA
1 ATTTCTTTTGAGTACATATGCTCTTTTTTTATTACACGAGAATTTTACTATATGTACTAA
* *
55457933 ATTTCTTTTGAGTACATATGCTCTTTTTTTATTACATGAGCATTTTACTATATGTACTAA
1 ATTTCTTTTGAGTACATATGCTCTTTTTTTATTACACGAGAATTTTACTATATGTACTAA
55457993 ATTTCTTTTGAG
1 ATTTCTTTTGAG
55458005 CAATTGATAC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 69 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (60 bp):
ATTTCTTTTGAGTACATATGCTCTTTTTTTATTACACGAGAATTTTACTATATGTACTAA
Found at i:55481267 original size:28 final size:28
Alignment explanation
Indices: 55481220--55481356 Score: 148
Period size: 28 Copynumber: 4.9 Consensus size: 28
55481210 TGGGAAGTAG
* * *
55481220 TTGGGCCTGATAGGCTATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
*
55481248 TTGGGTCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
*
55481276 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* * * * * *
55481304 CTGGGCCTGATGAGCCATGTGAACGAGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* *
55481332 TTGGGCCTAAAGGGGCCAAATGAAT
1 TTGGGCCT-AATGGGCCATATGAAT
55481357 AAGTGTGGAT
Statistics
Matches: 90, Mismatches: 18, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
28 80 0.89
29 10 0.11
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGTGA
Found at i:55481686 original size:27 final size:27
Alignment explanation
Indices: 55481656--55482077 Score: 403
Period size: 27 Copynumber: 15.7 Consensus size: 27
55481646 TAATAAAGAG
55481656 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55481683 AAATTACTGAAATACCCCCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55481710 AAATTA-TCGAAACACCCTCGATTTATA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
55481737 AAATTA-TCGAAATACCCCCGATTTGCA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
55481764 AAATTA-TCGAAATACTCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
55481790 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55481817 AAATTACCGAAATACCCTCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
55481844 AAATTA-TCAAAACACCCTCCACTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * ** *
55481871 AAATTACTGAAACATCCTTAATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
55481898 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55481925 AAACTACCT-AAATACCCTCAATTTGTA
1 AAATTA-CTGAAATACCCTCGATTTGTA
*
55481952 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
**
55481979 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55482006 AAATTA-TCGAAACACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
55482033 AAATTA-TCAAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
*
55482060 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
55482078 TGTAGTGTAA
Statistics
Matches: 328, Mismatches: 57, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.07
27 303 0.92
28 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:55482118 original size:27 final size:27
Alignment explanation
Indices: 55482029--55482119 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 27
55482019 ACCCTCAATT
* *
55482029 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
* *
55482056 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
* *
55482083 TGTAAAATGATCGACATACCCCTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
*
55482110 GGTAAAATGA
1 TGTAAAATGA
55482120 CTATTTTGCC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (27 bp):
TGTAAAATGATCGAAATACCCTTGTAG
Found at i:55497362 original size:48 final size:48
Alignment explanation
Indices: 55497301--55497670 Score: 245
Period size: 46 Copynumber: 7.8 Consensus size: 48
55497291 CGGCCACATT
*
55497301 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
* *
55497349 ATGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
* * *
55497395 ATGTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-ACATCGGC-TATGAG
1 ATG-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-TGAG
* * * * *
55497441 ATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGTATCAGTA-CGTA-
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG-AG
* * * * ** *
55497486 A--AGAGCTATCAGTGTAAGACCATATCTAGGACATGGCATCGGTACGGAT
1 ATGAGAGC--T-AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
* * *
55497535 ATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTTGAT
1 A--TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
* * * *
55497585 TTCGATAG-TCAATGTAAGACCATAT-TCGGGACATGGCATC-G-ACTT-A-
1 AT-GAGAGCT-AGTGTAAGACCATGTCT-GGGACATGGCATCAGCA-TTGAG
* *
55497631 ATGGATGAGCCAGTGTAAGACGATGTCTGGGACATGGCAT
1 AT-GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
55497671 TGGCATTATA
Statistics
Matches: 255, Mismatches: 42, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.00
44 10 0.04
45 18 0.07
46 61 0.24
47 42 0.16
48 55 0.22
49 31 0.12
50 31 0.12
51 1 0.00
53 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAG
Found at i:55497408 original size:46 final size:46
Alignment explanation
Indices: 55497264--55497472 Score: 212
Period size: 46 Copynumber: 4.5 Consensus size: 46
55497254 TTTGTGTGCT
* * * * *
55497264 AGTGTCAGACATGTCTAGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAGAGCC
* * *
55497310 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGAGAGCC
55497358 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG-AGAGCC
* * * * *
55497404 AGTGTAAGACATGTCTGGGACATACATC-GGCTATGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGAGAGCC
55497448 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
55497473 GTATCAGTAC
Statistics
Matches: 139, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 58 0.42
47 28 0.20
48 24 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
Found at i:55497500 original size:138 final size:142
Alignment explanation
Indices: 55497309--55497569 Score: 317
Period size: 138 Copynumber: 1.9 Consensus size: 142
55497299 TTATGAGAGC
* *
55497309 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGAGCTAGTGTAAGA-CATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAGTGAGA-GAGAGCTAGTGTAAGACCATATC
*
55497373 TGGGACAT-GCATCAGCCT-C-GAGATGT-A-AGCCAGTGTAAGA-CATGTCTGGGACATACATC
65 TAGGACATGGCATC-G-CTACGGAGATGTGAGAGCCAGTGTAAGACCATGTCTGGGACATACATC
55497432 GGCTATGAGATGTGT
128 GGCTATGAGATGTGT
* *
55497447 CAGTGTAAGACCATGTCTGGGACATGGTATCAGTACGT-A-A-AGAGCTATCAGTGTAAGACCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-GTGAGAGAGAGC--T-AGTGTAAGACCAT
* * *
55497509 ATCTAGGACATGGCATCGGTACGGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACAT
62 ATCTAGGACATGGCATCGCTACGGAGATGTGAGAGCCAGTGTAAGACCATGTCTGGGACAT
55497570 GGCGTCAGCC
Statistics
Matches: 104, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
135 5 0.05
137 2 0.02
138 44 0.42
139 15 0.14
140 11 0.11
141 1 0.01
142 12 0.12
143 14 0.13
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (142 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAGTGAGAGAGAGCTAGTGTAAGACCATATCT
AGGACATGGCATCGCTACGGAGATGTGAGAGCCAGTGTAAGACCATGTCTGGGACATACATCGGC
TATGAGATGTGT
Found at i:55499199 original size:46 final size:45
Alignment explanation
Indices: 55499003--55499217 Score: 161
Period size: 46 Copynumber: 4.6 Consensus size: 45
55498993 GATTATTGTG
* *
55499003 AGCCAGTGTAAGACATGACTGGGACATGCATCAGCCACATCATGA-G-
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC--GA-GACGT
* *
55499049 AGCCAGTGTAAGACCATGTATGGGACATGGCATCAG-CATCAAGACG-
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGACGT
* * * **
55499095 AGTGCTAGTGTAAGACATGTCTGGGGCATGCATCGGCCGTGAGACGT
1 A--GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACGT
* *
55499142 AAGCCTA-TGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
1 -AGCC-AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACG-T
* * *
55499189 AGTCAGTGTAAGACCATGTATGGGGCATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATG
55499218 GAATTGACAT
Statistics
Matches: 136, Mismatches: 20, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
45 3 0.02
46 71 0.52
47 42 0.31
48 20 0.15
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACGT
Found at i:55500821 original size:20 final size:20
Alignment explanation
Indices: 55500782--55500821 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
55500772 GTTATAATGA
55500782 CCACACGGGCATGTTGCCCTT
1 CCACACGGG-ATGTTGCCCTT
55500803 CCACACGGG-TGTGTGCCCT
1 CCACACGGGATGT-TGCCCT
55500822 GTTTCAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 6 0.33
21 9 0.50
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGGGATGTTGCCCTT
Found at i:55504574 original size:13 final size:13
Alignment explanation
Indices: 55504556--55504588 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
55504546 GCCACACAGT
55504556 CGTGTGATACGGC
1 CGTGTGATACGGC
55504569 CGTGTGATACGGC
1 CGTGTGATACGGC
*
55504582 TGTGTGA
1 CGTGTGA
55504589 CCCTAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.27
Consensus pattern (13 bp):
CGTGTGATACGGC
Found at i:55506977 original size:18 final size:19
Alignment explanation
Indices: 55506943--55506979 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
55506933 TCATTAAGTT
55506943 AGTATGAAAATATATTATC
1 AGTATGAAAATATATTATC
55506962 AGTATGAAAA-ATATTATC
1 AGTATGAAAATATATTATC
55506980 GGTAGGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AGTATGAAAATATATTATC
Found at i:55510382 original size:52 final size:51
Alignment explanation
Indices: 55510321--55510427 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 51
55510311 TTAACATTTA
* *
55510321 TAATTATAATTATAATATATATAAGCCTTAAGTAATTAATCTAAACATGAT
1 TAATTATAATTATAATATATATAAGCCATAAGTAATTAAACTAAACATGAT
55510372 TAATATATAATTATAATATATATAAGCCATAAGTAATTAAACTAAACATGAT
1 TAAT-TATAATTATAATATATATAAGCCATAAGTAATTAAACTAAACATGAT
55510424 TAAT
1 TAAT
55510428 CAACTTCATT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 4 0.08
52 49 0.92
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (51 bp):
TAATTATAATTATAATATATATAAGCCATAAGTAATTAAACTAAACATGAT
Found at i:55510408 original size:26 final size:26
Alignment explanation
Indices: 55510327--55510410 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
55510317 TTTATAATTA
*
55510327 TAATTATAATATATATAAGCCTTAAG
1 TAATTATAATATATATAAGCCATAAG
* * * * ***
55510353 TAATTA-ATCTAAACATGATTAATATA-
1 TAATTATA-ATATATATAAGCCATA-AG
55510379 TAATTATAATATATATAAGCCATAAG
1 TAATTATAATATATATAAGCCATAAG
55510405 TAATTA
1 TAATTA
55510411 AACTAAACAT
Statistics
Matches: 39, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
25 2 0.05
26 35 0.90
27 2 0.05
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (26 bp):
TAATTATAATATATATAAGCCATAAG
Found at i:55513637 original size:19 final size:18
Alignment explanation
Indices: 55513613--55513656 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
55513603 TGATTATAAT
55513613 AACAAAATATAAACAAAAA
1 AACAAAATA-AAACAAAAA
* *
55513632 ACCAAAATACAACAAAAA
1 AACAAAATAAAACAAAAA
55513650 AACAAAA
1 AACAAAA
55513657 CAAACCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.77, C:0.16, G:0.00, T:0.07
Consensus pattern (18 bp):
AACAAAATAAAACAAAAA
Found at i:55516070 original size:117 final size:117
Alignment explanation
Indices: 55515864--55516098 Score: 425
Period size: 117 Copynumber: 2.0 Consensus size: 117
55515854 GGTAAGTACA
*
55515864 CGCCCCTACGATTTCACTTTCTAAATTTCTAGCTAAAACTGATGTAATAAAGTTTCTAGAGTCAC
1 CGCCCCTACGATTTCACTTTCAAAATTTCTAGCTAAAACTGATGTAATAAAGTTTCTAGAGTCAC
*
55515929 TTTGAAAAGATGCGTCAAAATTTATCTTAATAATACCAATGTTTGGGGGACT
66 TTTGAAAAGATGCGTCAAAATTTATATTAATAATACCAATGTTTGGGGGACT
* *
55515981 CGCCCCTACGATTTCACTTTCAAAATTTCTAGCTAAAACTGGTGTAATAGAGTTTCTAGAGTCAC
1 CGCCCCTACGATTTCACTTTCAAAATTTCTAGCTAAAACTGATGTAATAAAGTTTCTAGAGTCAC
*
55516046 TTTGAAAAGATGTGTCAAAATTTATATTAATAATACCAATGTTTGGGGGACT
66 TTTGAAAAGATGCGTCAAAATTTATATTAATAATACCAATGTTTGGGGGACT
55516098 C
1 C
55516099 CATAGCTCCT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 113 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (117 bp):
CGCCCCTACGATTTCACTTTCAAAATTTCTAGCTAAAACTGATGTAATAAAGTTTCTAGAGTCAC
TTTGAAAAGATGCGTCAAAATTTATATTAATAATACCAATGTTTGGGGGACT
Found at i:55531007 original size:17 final size:17
Alignment explanation
Indices: 55530985--55531024 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
55530975 AAGTGTAATA
55530985 ACAATGAAAATGCAATG
1 ACAATGAAAATGCAATG
55531002 ACAATGAAAATGCAATG
1 ACAATGAAAATGCAATG
55531019 ACAATG
1 ACAATG
55531025 TATACTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.53, C:0.12, G:0.17, T:0.17
Consensus pattern (17 bp):
ACAATGAAAATGCAATG
Found at i:55544345 original size:30 final size:30
Alignment explanation
Indices: 55544310--55544369 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
55544300 CTTTAATATG
* *
55544310 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
55544340 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
55544370 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:55553008 original size:5 final size:5
Alignment explanation
Indices: 55552951--55553001 Score: 70
Period size: 5 Copynumber: 10.4 Consensus size: 5
55552941 AATATAAGAA
*
55552951 ATTATT ATTAT ATTAT A-T-T AGTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
55553000 AT
1 AT
55553002 ATTATATAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 34 0.81
6 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:55554945 original size:30 final size:30
Alignment explanation
Indices: 55554911--55554967 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
55554901 TCTTTAATAC
*
55554911 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
55554941 AAACTTTTGCATAATTACACTTTTGCC
1 AAACTTTGGCAAAATTACACTTTTGCC
55554968 ACTAGGCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:55561845 original size:29 final size:29
Alignment explanation
Indices: 55561812--55561870 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
55561802 CATCTGAGAC
*
55561812 AAATTACATGGCGTATTGTTATGGGACTA
1 AAATTACATGGCGTATTATTATGGGACTA
*
55561841 AAATTACATGGCGTATTATTATTGGACTA
1 AAATTACATGGCGTATTATTATGGGACTA
55561870 A
1 A
55561871 CTTGTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (29 bp):
AAATTACATGGCGTATTATTATGGGACTA
Found at i:55566797 original size:20 final size:21
Alignment explanation
Indices: 55566758--55566797 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
55566748 CATCGATTCA
* *
55566758 ATACTTGTACAGTTCTTATAC
1 ATACCTGTACAGTACTTATAC
55566779 ATACCTGTACAG-ACTTATA
1 ATACCTGTACAGTACTTATA
55566798 TCGATCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (21 bp):
ATACCTGTACAGTACTTATAC
Found at i:55569539 original size:14 final size:14
Alignment explanation
Indices: 55569520--55569551 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
55569510 ACATTTCTAA
55569520 TCATCCCTCATCAC
1 TCATCCCTCATCAC
*
55569534 TCATCCCTCATCAT
1 TCATCCCTCATCAC
55569548 TCAT
1 TCAT
55569552 TATTCTCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.34
Consensus pattern (14 bp):
TCATCCCTCATCAC
Found at i:55572292 original size:40 final size:40
Alignment explanation
Indices: 55572222--55572439 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
55572212 AAGCCAGGTA
* * * *
55572222 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
55572261 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55572301 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55572341 CCTTCGGGGCTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
55572381 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
55572421 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55572440 TTATCATCCG
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 148 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55574248 original size:25 final size:25
Alignment explanation
Indices: 55574168--55574259 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 25
55574158 CAATGCTAAC
55574168 CCGCACACATAGTGCC-TT-AGAAAT
1 CCGCACACATAGTGCCATTCA-AAAT
* * * *
55574192 CCACACACTCGTATTGACATTC-AAAT
1 CCGCACA--CATAGTGCCATTCAAAAT
*
55574218 CAGCACACATAGTGCCATTCAAAAT
1 CCGCACACATAGTGCCATTCAAAAT
*
55574243 CCGCACACTTAGTGCCA
1 CCGCACACATAGTGCCA
55574260 ATGTCATTTC
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
24 16 0.31
25 19 0.37
26 15 0.29
27 2 0.04
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.22
Consensus pattern (25 bp):
CCGCACACATAGTGCCATTCAAAAT
Found at i:55581493 original size:24 final size:24
Alignment explanation
Indices: 55581466--55581604 Score: 111
Period size: 24 Copynumber: 5.7 Consensus size: 24
55581456 CAATCGATTT
*
55581466 CGCACACATAGTGCTATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
* * *
55581490 CGCACACTTAGTGCCATGCTAA-C
1 CGCACACATAGTGCCATTCAAATC
*
55581513 CTGCACACATAGTGCC-TTAGAAATC
1 C-GCACACATAGTGCCATT-CAAATC
* * * *
55581538 CACACACTCGTATTGACATTCAAATC
1 CGCACA--CATAGTGCCATTCAAATC
*
55581564 AGCACACATAGTGCCATTCAAAATC
1 CGCACACATAGTGCCATTC-AAATC
* *
55581589 CGTACACTTAGTGCCA
1 CGCACACATAGTGCCA
55581605 ATGTCATTTC
Statistics
Matches: 87, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
23 3 0.03
24 47 0.54
25 20 0.23
26 15 0.17
27 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:55588855 original size:92 final size:89
Alignment explanation
Indices: 55588694--55588858 Score: 206
Period size: 92 Copynumber: 1.8 Consensus size: 89
55588684 CAAATTAAAA
* *
55588694 AAAAAAAACCAATTAAGCCTATGCTTTTTTCACTCAATTTGGAACTTGAACTTTCAAAATATATC
1 AAAAAAAACCAATTAAGCCTATGCTTTTTTCACTCAATTAGGAACTTGAACTTTCAAAATACATC
55588759 AAAAAGACACTTAATCTTTTTTTT
66 AAAAAGACACTTAATCTTTTTTTT
* ** * * *
55588783 AAAAAAAATCAATTAAGCCCTTACTTTTTTTTTCATTCAATTAGGTACTTGAA-TTGTCAAAATG
1 AAAAAAAACCAATTAAG-CC-TA-TGCTTTTTTCACTCAATTAGGAACTTGAACTT-TCAAAATA
*
55588847 CATTAAAAAGAC
62 CATCAAAAAGAC
55588859 TATTTGATCG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
89 16 0.25
90 2 0.03
91 4 0.06
92 41 0.65
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (89 bp):
AAAAAAAACCAATTAAGCCTATGCTTTTTTCACTCAATTAGGAACTTGAACTTTCAAAATACATC
AAAAAGACACTTAATCTTTTTTTT
Found at i:55589043 original size:30 final size:29
Alignment explanation
Indices: 55588977--55589043 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
55588967 AATTATAAAA
** *
55588977 AATAAAAAATTTAAAAATTATTAAATTTT
1 AATAAAAAATTTAAAAATTAAAAAATTGT
55589006 AATAAAAAATATTAAAAATTAAAATAATTGT
1 AATAAAAAAT-TTAAAAATTAAAA-AATTGT
55589037 AA-AAAAA
1 AATAAAAA
55589044 TAAAAAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 10 0.30
30 16 0.48
31 7 0.21
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (29 bp):
AATAAAAAATTTAAAAATTAAAAAATTGT
Found at i:55589070 original size:30 final size:30
Alignment explanation
Indices: 55588989--55589089 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
55588979 TAAAAAATTT
* * **
55588989 AAAAATTATTAAATTTTA-ATAAAAAATATT
1 AAAAACTATAAAATTTTATA-AAAAAATAAA
* *
55589019 AAAAA-T-TAAAATAATTGTAAAAAAATAAA
1 AAAAACTATAAAAT-TTTATAAAAAAATAAA
*
55589048 AAAAACTATAAAATTTTATAAAAATCAT-AA
1 AAAAACTATAAAATTTTATAAAAA-AATAAA
55589078 AAAAACTATAAA
1 AAAAACTATAAA
55589090 CTTCTTCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
28 5 0.09
29 16 0.28
30 29 0.50
31 8 0.14
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (30 bp):
AAAAACTATAAAATTTTATAAAAAAATAAA
Found at i:55589282 original size:9 final size:9
Alignment explanation
Indices: 55589268--55589463 Score: 81
Period size: 9 Copynumber: 20.3 Consensus size: 9
55589258 CTCTTGGAAC
55589268 TATAATTTT
1 TATAATTTT
55589277 TATAATTTAT
1 TATAATTT-T
* *
55589287 TATACGAATCT
1 TATA--ATTTT
55589298 TATAATTCTT
1 TATAATT-TT
*
55589308 TACAATTTT
1 TATAATTTT
55589317 TATAATTTTCT
1 TATAA-TTT-T
* *
55589328 TATGA-CTT
1 TATAATTTT
*
55589336 TATAAAATTT
1 TAT-AATTTT
*
55589346 AATAATTTTT
1 TATAA-TTTT
* *
55589356 TCTATATTTC
1 TATA-ATTTT
55589366 TAT-ATATTT
1 TATAAT-TTT
55589375 TATAATTTT
1 TATAATTTT
*
55589384 TATGATTTT
1 TATAATTTT
*
55589393 TATAAAATTT
1 TAT-AATTTT
**
55589403 TCCAATTTT
1 TATAATTTT
*
55589412 TAAGTATTTTT
1 T-A-TAATTTT
*
55589423 TATATTTTT
1 TATAATTTT
*
55589432 TATTAAAATTT
1 TA-T-AATTTT
*
55589443 AATAATTTT
1 TATAATTTT
*
55589452 TATAACTTT
1 TATAATTTT
55589461 TAT
1 TAT
55589464 TGGTTTTTAT
Statistics
Matches: 138, Mismatches: 32, Indels: 34
0.68 0.16 0.17
Matches are distributed among these distances:
8 6 0.04
9 69 0.50
10 39 0.28
11 22 0.16
12 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:55589386 original size:48 final size:49
Alignment explanation
Indices: 55589334--55589452 Score: 118
Period size: 48 Copynumber: 2.4 Consensus size: 49
55589324 TTCTTATGAC
*
55589334 TTTATAAAATTTAATAATTTTTTCTATATTTCT-A-TATATTTTATAATT
1 TTTATAAAATTTAATAATTTTTTCCA-ATTTCTAAGTATATTTTATAATT
* * * ** * * *
55589382 TTTAT-GATTTTTATAAAATTTTCCAATTTTTAAGTATTTTTTATATTT
1 TTTATAAAATTTAATAATTTTTTCCAATTTCTAAGTATATTTTATAATT
55589430 TTTATTAAAATTTAATAATTTTT
1 TTTA-TAAAATTTAATAATTTTT
55589453 ATAACTTTTA
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
46 5 0.09
47 15 0.28
48 21 0.40
49 1 0.02
50 11 0.21
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (49 bp):
TTTATAAAATTTAATAATTTTTTCCAATTTCTAAGTATATTTTATAATT
Found at i:55591932 original size:16 final size:17
Alignment explanation
Indices: 55591892--55591935 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
55591882 TAGAGAAGAC
* *
55591892 AAATGAAATGTTAGAAA
1 AAATGAATTATTAGAAA
*
55591909 AAAGGAATTATTAG-AA
1 AAATGAATTATTAGAAA
55591925 AAATGAATTAT
1 AAATGAATTAT
55591936 ATTCTTTCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.27
Consensus pattern (17 bp):
AAATGAATTATTAGAAA
Found at i:55592336 original size:140 final size:137
Alignment explanation
Indices: 55591930--55592444 Score: 666
Period size: 140 Copynumber: 3.7 Consensus size: 137
55591920 TAGAAAAATG
*
55591930 AATTATATTCTTTCCAAAAAAGATTAATTTCCATGTCTTTTATATTTTG-ACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAAATATTAATTTCCATGTCTTTTATATTTTGAAC-GAAATTAATTAA
* *
55591994 TATAATTGTTTATTATATTAATTAATTTGGTAAAATATAAACAATTAATATTTTGTATGAATCAA
65 TATAA-T-TTT-TTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAA
55592059 A-TCTATATACATT
127 ATTC-ATAT--ATT
* * * * *
55592072 AATTATATTCTTTCTAAATGAATATTAATTTCTATATCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAA-AAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAA
* * * *
55592137 TATAATTGTTTATATTAATAAATTAGATGAAATATATACAATTAATATTTTGTATGAATCAAATT
65 TATAATTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
55592202 CATATATT
130 CATATATT
* * *
55592210 AATTATATTTCTTT-CAAAAGAATATCAATTTCCTTGTCTTTTATATTTTGAAC-AAACTTAAAT
1 AATTATA-TTCTTTCCAAAA-AATATTAATTTCCATGTCTTTTATATTTTGAACGAAA-TTAATT
* * *
55592273 AATATAACTATTTATATTAATAAATTCT-GTAAAATTTATATACAATTAATATTTTATATGAATC
63 AATATAATTTTTTATATTAATAAATT-TGGTAAAA--TATATACAATTAATATTTTGTATGAATC
*
55592337 AAATTCATGTATT
125 AAATTCATATATT
* *
55592350 AATTATATTCTTTCC-AAAAA-ATTAGTTTCCATGTCTTTTATATTTTGACCGAAATTAATTAAT
1 AATTATATTCTTTCCAAAAAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAAT
55592413 ATAATTTTTTATATTAATAAATTTGGTAAAAT
66 ATAATTTTTTATATTAATAAATTTGGTAAAAT
55592445 GTATGAATCA
Statistics
Matches: 327, Mismatches: 34, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
135 1 0.00
136 1 0.00
137 64 0.20
138 79 0.24
139 15 0.05
140 100 0.31
141 4 0.01
142 18 0.06
143 44 0.13
144 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAAATATTAATTTCCATGTCTTTTATATTTTGAACGAAATTAATTAAT
ATAATTTTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:55592485 original size:117 final size:119
Alignment explanation
Indices: 55592329--55592564 Score: 352
Period size: 120 Copynumber: 2.0 Consensus size: 119
55592319 TAATATTTTA
* * * *
55592329 TATGAATCAAATTCATGTATTAATTATATTCTTTCCAAAA-AAT-TAGTTTCCATGTCTTTTATA
1 TATGAATCAAACTCATATATTAATTATATTATTTCCAAAAGAATATAATTTCCATGTCTTTTATA
* * *
55592392 TTTTGACCGAAATTAATTAATATAAT-TTTTTATATTAATAAATTTGGTAAAATG
66 TTTTGACCGAAATTAATTAATAT-ATCTATTTATATTAATAAATTCGATAAAATG
*
55592446 TATGAATCAAACTCATATATTAATTATATTATTTTCAAAAGAATAATAATTTCCATGTCTTTTAT
1 TATGAATCAAACTCATATATTAATTATATTATTTCCAAAAGAAT-ATAATTTCCATGTCTTTTAT
*
55592511 ATTTTGACTGAAATTAATTAATATATCTATTTATATTAATAAATTCGATAAAAT
65 ATTTTGACCGAAATTAATTAATATATCTATTTATATTAATAAATTCGATAAAAT
55592565 ATATACAATT
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
117 36 0.34
118 3 0.03
119 2 0.02
120 65 0.61
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (119 bp):
TATGAATCAAACTCATATATTAATTATATTATTTCCAAAAGAATATAATTTCCATGTCTTTTATA
TTTTGACCGAAATTAATTAATATATCTATTTATATTAATAAATTCGATAAAATG
Found at i:55598679 original size:203 final size:201
Alignment explanation
Indices: 55598317--55598688 Score: 505
Period size: 203 Copynumber: 1.8 Consensus size: 201
55598307 CCGCTTAATA
* *
55598317 TTAGTTAAACATTAGATAACTAATGAGTAACATTTGCTTCCATTTTACTTTGTATGAAAAAACCA
1 TTAGTTAAACATTAGATAAATAATGAGTAACATTTGCTTCCATTTTACTTTGCATGAAAAAACCA
55598382 TGTGAGGACAATATACAAAGTATTAATGCAATTAACGAACAATTTTATTAACCAATTTATTCAAA
66 TGTGAGGACAATATACAAAGTATTAATGCAATTAACGAACAATTTTATTAACCAATTTATTCAAA
* * * * *
55598447 AAATTACAAGTGTACTTAGACGAAAATACTACACTTAAGGCACTAGATCCAACAGTAATATCACT
131 AAATTAAAAATATACATAAACGAAAATACTACACTTAAGGCACTAGATCCAACAGTAATATCACT
55598512 TAGTCT
196 TAGTCT
* * * * *
55598518 TTAGTTAAACATTAGATAAATAGTGAGCTAATATTTTCTTCCATTTTGCTTTGCATGGAAAAACC
1 TTAGTTAAACATTAGATAAATAATGAG-TAACATTTGCTTCCATTTTACTTTGCATGAAAAAACC
* * * * * * *
55598583 AT-TGAGGAGAATATACAAATGGTATTAATGTAATTTATGGATAATTTTATTAAACCAATTTGTT
65 ATGTGAGGACAATATACAAA--GTATTAATGCAATTAACGAACAATTTTATT-AACCAATTTATT
* *
55598647 CAAACAA-TAAAAATATACATAAATGAAAATACTACACTTAAG
127 CAAAAAATTAAAAATATACATAAACGAAAATACTACACTTAAG
55598689 AAAATAGGTC
Statistics
Matches: 146, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
201 41 0.28
202 34 0.23
203 54 0.37
204 17 0.12
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (201 bp):
TTAGTTAAACATTAGATAAATAATGAGTAACATTTGCTTCCATTTTACTTTGCATGAAAAAACCA
TGTGAGGACAATATACAAAGTATTAATGCAATTAACGAACAATTTTATTAACCAATTTATTCAAA
AAATTAAAAATATACATAAACGAAAATACTACACTTAAGGCACTAGATCCAACAGTAATATCACT
TAGTCT
Found at i:55598778 original size:45 final size:45
Alignment explanation
Indices: 55598714--55598805 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
55598704 TAACTAATAC
**
55598714 TAAGTGTTATTACGTGGTTGGATCATAATATTGAAGGACAACTTG
1 TAAGTGTTATTACGTGGTTGGATCATAATACGGAAGGACAACTTG
55598759 TAAGTGTTATTACGTGGTTGGATCATAATACGGAAGGACAACTTG
1 TAAGTGTTATTACGTGGTTGGATCATAATACGGAAGGACAACTTG
55598804 TA
1 TA
55598806 CTTGTAACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.34
Consensus pattern (45 bp):
TAAGTGTTATTACGTGGTTGGATCATAATACGGAAGGACAACTTG
Found at i:55600414 original size:14 final size:14
Alignment explanation
Indices: 55600395--55600431 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
55600385 GGCTTACTAA
55600395 GCTCTGTGTAGCTT
1 GCTCTGTGTAGCTT
55600409 GCTCTGTGTAGCTT
1 GCTCTGTGTAGCTT
*
55600423 ACTCTGTGT
1 GCTCTGTGT
55600432 GATTTCTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.08, C:0.22, G:0.27, T:0.43
Consensus pattern (14 bp):
GCTCTGTGTAGCTT
Found at i:55604419 original size:20 final size:20
Alignment explanation
Indices: 55604394--55604445 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
55604384 GATAAGCGAA
55604394 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
* *
55604414 CTCGGACTCAACTTAATGAG
1 CTCGGACTCAACTCAACGAG
*
55604434 TTCGGAACTCAA
1 CTCGG-ACTCAA
55604446 ATATCCTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:55607566 original size:13 final size:13
Alignment explanation
Indices: 55607535--55607567 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
55607525 AATTCAATGT
*
55607535 AATTCTGATTCTG
1 AATTTTGATTCTG
55607548 -ATTTTGATTCTG
1 AATTTTGATTCTG
55607560 AATTTTGA
1 AATTTTGA
55607568 ATAGATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (13 bp):
AATTTTGATTCTG
Found at i:55610249 original size:42 final size:43
Alignment explanation
Indices: 55610140--55610262 Score: 124
Period size: 44 Copynumber: 2.9 Consensus size: 43
55610130 TATTGATTTG
* * * *
55610140 AGATTTATGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTT
1 AGATTTACGTGTAAGACCATGTCTGGGACACAGGCATCGATCT
* **
55610183 GAGATTTACCTGTAAGACCATGTCTGGGACATTGGCATCGTATCT
1 -AGATTTACGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCT
* * *
55610228 -GATTT-CGTGTAAGACCCTGTCTGGGATAAAGGCAT
1 AGATTTACGTGTAAGACCATGTCTGGGACACAGGCAT
55610263 TAATACTGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 25 0.38
43 5 0.08
44 33 0.50
45 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
AGATTTACGTGTAAGACCATGTCTGGGACACAGGCATCGATCT
Found at i:55615026 original size:39 final size:40
Alignment explanation
Indices: 55614972--55615149 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
55614962 AAACCAAGTA
* * * * *
55614972 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAATTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
55615011 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55615051 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
55615091 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAACG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
55615131 CCTTCGGGACTTGGCCCGG
1 CCTTCGGGACTTAGCCCGG
55615150 TTATCATCCG
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55618623 original size:194 final size:194
Alignment explanation
Indices: 55618286--55618676 Score: 656
Period size: 194 Copynumber: 2.0 Consensus size: 194
55618276 ACTATCACAA
*
55618286 TGCGTAATCTCTTTAACATATAATGATAATACAAAATTTACCACCTTTGCAAATATATACTATTA
1 TGCGTAATCTCTTTAACATATAATGATAATACAAAATTTACCACCTTTACAAATATATACTATTA
* *
55618351 CGAACCGTTTACCGTCTCACACGTTGTATTTAGACCCTTATGTATTTCCATCTGACGCATACTGA
66 CGAACCGTTTACCGTCTCACACATTGTATTTAGACCATTATGTATTTCCATCTGACGCATACTGA
* * * *
55618416 AAAGACGATTGAAATCCTAGTACCTGATTCATATTGTTCCATAGTCCAACTTTGGTCTTACATG
131 AAAGACAATTGAAATCCTAGAACATGATTCATATTGTTCCATAGTCCAACTATGGTCTTACATG
** *
55618480 TGCGTAATCTCTTTAACATATAATGATAATACAATGTTTATCACCTTTACAAATATATACTATTA
1 TGCGTAATCTCTTTAACATATAATGATAATACAAAATTTACCACCTTTACAAATATATACTATTA
* * *
55618545 CGAACCGTTTACTGTCTCACACATTGTGTTTAGACCATTATGTATTTCCATCTGACGCATACTGG
66 CGAACCGTTTACCGTCTCACACATTGTATTTAGACCATTATGTATTTCCATCTGACGCATACTGA
*
55618610 AAAGACAATTGAAATCCTGGAACATGATTCATATTGTTCCATAGTCCAACTATGGTCTTACATG
131 AAAGACAATTGAAATCCTAGAACATGATTCATATTGTTCCATAGTCCAACTATGGTCTTACATG
55618674 TGC
1 TGC
55618677 ATAGCCATGG
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
194 183 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (194 bp):
TGCGTAATCTCTTTAACATATAATGATAATACAAAATTTACCACCTTTACAAATATATACTATTA
CGAACCGTTTACCGTCTCACACATTGTATTTAGACCATTATGTATTTCCATCTGACGCATACTGA
AAAGACAATTGAAATCCTAGAACATGATTCATATTGTTCCATAGTCCAACTATGGTCTTACATG
Found at i:55618749 original size:33 final size:33
Alignment explanation
Indices: 55618712--55618801 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
55618702 ACGTTCATAG
* * *
55618712 TGCCATAACTCGGTTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
* *
55618745 TGCCATAGCCCAGCTATGGTCTTATCATCAGTA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
*
55618778 TGCCATAGA-CCAACTATGGTCTTA
1 TGCCATA-ACCCAGCTATGGTCTTA
55618802 CATATATACA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (33 bp):
TGCCATAACCCAGCTATGGTCTTATCATCAGAA
Found at i:55624378 original size:27 final size:27
Alignment explanation
Indices: 55624330--55624406 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
55624320 ATACGCTTAG
* *
55624330 TTTGTAAAAATATTTAAA-TACCCTCGA
1 TTTGTAAAATTA-CTAAAGTACCCTCGA
* *
55624357 TTTGTAAAATTACTGAAGTACCTTCGA
1 TTTGTAAAATTACTAAAGTACCCTCGA
* * *
55624384 CTAGTAAAATTACCAAAGTACCC
1 TTTGTAAAATTACTAAAGTACCC
55624407 CCAATTTACA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.08
27 37 0.93
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACTAAAGTACCCTCGA
Found at i:55624421 original size:27 final size:27
Alignment explanation
Indices: 55624391--55624452 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
55624381 CGACTAGTAA
55624391 AATTACCAAAGTACCCCCAATTTACAG
1 AATTACCAAAGTACCCCCAATTTACAG
*** * *
55624418 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCAATTTACAG
55624445 AATTACCA
1 AATTACCA
55624453 TTTTACCCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCAATTTACAG
Found at i:55624460 original size:54 final size:54
Alignment explanation
Indices: 55624402--55624596 Score: 156
Period size: 54 Copynumber: 3.4 Consensus size: 54
55624392 ATTACCAAAG
* * *
55624402 TACCCCCAATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTT
1 TACCCCCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
*
55624456 TACCCCCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAGAAGTACCGTTT
1 TACCCCCA----A---T----TTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
*** * * * * *
55624521 TACCCTTGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATTACTGTTT
1 TACCCCCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* * *
55624575 TACCCTCGATTTACAAAATTAC
1 TACCCCCAATTTACAGAATTAC
55624597 TAGAATACCC
Statistics
Matches: 114, Mismatches: 16, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
54 65 0.57
58 2 0.02
61 2 0.02
65 45 0.39
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCCCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:55624469 original size:27 final size:26
Alignment explanation
Indices: 55624402--55624466 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 26
55624392 ATTACCAAAG
55624402 TACCCCCAATTTACAGAATTACCATTT
1 TACCCCC-ATTTACAGAATTACCATTT
*
55624429 TACCCCCGATTTACATAATTACCATTT
1 TACCCCC-ATTTACAGAATTACCATTT
55624456 TACCCCCATTT
1 TACCCCCATTT
55624467 TACCCTCGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.35
Consensus pattern (26 bp):
TACCCCCATTTACAGAATTACCATTT
Found at i:55624507 original size:38 final size:38
Alignment explanation
Indices: 55624423--55624498 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
55624413 TACAGAATTA
* *
55624423 CCATTTTACCCCCGATTTACATAATTACCATTTTACCC
1 CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
*
55624461 CCATTTTACCCTCGACTTACAGAATTACCATTTTACCC
1 CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
55624499 TCGATTTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.34, G:0.04, T:0.36
Consensus pattern (38 bp):
CCATTTTACCCCCGACTTACAGAATTACCATTTTACCC
Found at i:55624597 original size:27 final size:27
Alignment explanation
Indices: 55624463--55624598 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
55624453 TTTTACCCCC
* *
55624463 ATTTTACCCTCGACTTACAGAATTACC
1 ATTTTACCCTCGATTTACAGAATTACT
* *
55624490 ATTTTACCCTCGATTTACAGAAGTACC
1 ATTTTACCCTCGATTTACAGAATTACT
* * *
55624517 GTTTTACCCTTGATTTATAGAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
* *
55624544 ATTTTACCCTTGATTTATAGAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
* *
55624571 GTTTTACCCTCGATTTACAAAATTACT
1 ATTTTACCCTCGATTTACAGAATTACT
55624598 A
1 A
55624599 GAATACCCTA
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTCGATTTACAGAATTACT
Found at i:55624605 original size:27 final size:27
Alignment explanation
Indices: 55624575--55624878 Score: 181
Period size: 27 Copynumber: 11.2 Consensus size: 27
55624565 ATTACTGTTT
** *
55624575 TACCCTCGATTTACAAAATTACTAGAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * *
55624602 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
55624628 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTGTAAAATTACTA-AAA
* *
55624655 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
55624682 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACTAAAA
* * **
55624709 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACTAAAA
* *
55624736 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
** *
55624763 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTGTAAAATTACTA-AAA
* *
55624790 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTGT-AAAATTACTA-AAA
* * * **
55624819 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * * * *
55624846 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
*
55624873 CACCCT
1 TACCCT
55624879 TATAGGATGA
Statistics
Matches: 223, Mismatches: 40, Indels: 28
0.77 0.14 0.10
Matches are distributed among these distances:
26 27 0.12
27 168 0.75
28 10 0.04
29 18 0.08
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAAAA
Found at i:55624686 original size:54 final size:53
Alignment explanation
Indices: 55624589--55624860 Score: 210
Period size: 54 Copynumber: 5.0 Consensus size: 53
55624579 CTCGATTTAC
* * * *
55624589 AAAATTACTAG-AATACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTAC-AGAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
** * *
55624642 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACAGAAATACCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* * ***
55624696 AAAATTACCA-AAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTA-CAGAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
* ** * * *
55624750 AAAATTACCA-AAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTA-CAGAAATA-CCCTGGTTTGTAAAATTACCA-AAATACCCTTG-GTTTGT
* * ** *
55624805 AAAAATTATAGAAATACCATTGGTTTACAAAATTACTAAAATACCCTTGGTTTGT
1 -AAAATTACAGAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
55624860 A
1 A
55624861 GATTTACCAA
Statistics
Matches: 178, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.01
53 17 0.10
54 105 0.59
55 17 0.10
56 36 0.20
57 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
AAAATTACAGAAATACCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGT
Found at i:55624719 original size:81 final size:81
Alignment explanation
Indices: 55624575--55624769 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 81
55624565 ATTACTGTTT
* ** * * * *
55624575 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
55624639 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
*
55624655 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTGGT
* *
55624719 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
55624736 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
55624770 GATTTACAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 24 0.23
81 78 0.76
82 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:55624791 original size:81 final size:81
Alignment explanation
Indices: 55624575--55624822 Score: 274
Period size: 81 Copynumber: 3.0 Consensus size: 81
55624565 ATTACTGTTT
* ** * * * *
55624575 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGAT-TGTAAAATTACCAAAATACCCTTGGT
55624638 TTGTAAAATTACAGAAA
65 TTGTAAAATTACAGAAA
*
55624655 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACC-CTTGGT
* *
55624719 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
55624736 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA-AAATACCCTTG
* * *
55624798 ACTTTCTAAAAATTATAGAAA
63 -GTTTGT-AAAATTACAGAAA
55624819 TACC
1 TACC
55624823 ATTGGTTTAC
Statistics
Matches: 144, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
79 2 0.01
80 33 0.23
81 89 0.62
82 6 0.04
83 14 0.10
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:55624975 original size:27 final size:27
Alignment explanation
Indices: 55624898--55624975 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
55624888 AAATGACTAA
* *
55624898 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
55624925 AA-AGCCCCTGTAAGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
55624952 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
55624976 GAATATGCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:55626164 original size:25 final size:25
Alignment explanation
Indices: 55626135--55626182 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
55626125 TTATAATATG
* *
55626135 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
55626160 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55626183 GTTTATATAT
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:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:55626244 original size:20 final size:20
Alignment explanation
Indices: 55626219--55626289 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
55626209 ATTTTGATAA
*
55626219 ACATGATATCTATGATATGC
1 ACATGATATGTATGATATGC
*
55626239 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55626259 ACATGATATGTATGATAAGC
1 ACATGATATGTATGATATGC
*
55626279 ACATGAGATGT
1 ACATGATATGT
55626290 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55626415 original size:25 final size:25
Alignment explanation
Indices: 55626336--55626526 Score: 284
Period size: 25 Copynumber: 7.8 Consensus size: 25
55626326 AGGAAGTGCA
*
55626336 AAAGGGCTTATGCCCTAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
*
55626359 AAAGGGCTTATGCCCCAATTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
*
55626382 AAAGGGCTTATGCCTCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
55626407 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
55626432 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
55626457 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
55626482 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
55626506 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
55626527 CTAAAGGAGG
Statistics
Matches: 157, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 41 0.26
24 21 0.13
25 95 0.61
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:55626538 original size:25 final size:23
Alignment explanation
Indices: 55626336--55626553 Score: 164
Period size: 25 Copynumber: 9.0 Consensus size: 23
55626326 AGGAAGTGCA
*
55626336 AAAG-GGCTTATGCCCTAGTTATT
1 AAAGAGGCTTATGCCCCAGTTA-T
*
55626359 AAAG-GGCTTATGCCCCAATTATT
1 AAAGAGGCTTATGCCCCAGTTA-T
*
55626382 AAAG-GGCTTATGCCTCAGTTAT
1 AAAGAGGCTTATGCCCCAGTTAT
55626404 GATAA-AGGGCTTATGCCCCAGTTAT
1 -A-AAGA-GGCTTATGCCCCAGTTAT
55626429 GATGAAG-GGCTTATGCCCCAGTTAT
1 -A--AAGAGGCTTATGCCCCAGTTAT
55626454 GATGAAG-GGCTTATGCCCCAGTTAT
1 -A--AAGAGGCTTATGCCCCAGTTAT
55626479 GATAA-AGGGCTTATGCCCCAGTTAT
1 -A-AAGA-GGCTTATGCCCCAGTTAT
* *
55626504 AAAAAGGGCTTTTGCCCCAGTTACT
1 AAAGA-GGCTTATGCCCCAGTTA-T
*
55626529 AAAGGAGGC-TAGGCCTCCAGTTAT
1 AAA-GAGGCTTATGCC-CCAGTTAT
55626553 A
1 A
55626554 TGATAAAGCA
Statistics
Matches: 172, Mismatches: 11, Indels: 23
0.83 0.05 0.11
Matches are distributed among these distances:
22 1 0.01
23 43 0.25
24 29 0.17
25 96 0.56
26 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (23 bp):
AAAGAGGCTTATGCCCCAGTTAT
Found at i:55633342 original size:21 final size:21
Alignment explanation
Indices: 55633313--55633360 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
55633303 ATACCAAGGT
55633313 TAAATAAGTAAATTAA-TAAA
1 TAAATAAGTAAATTAAGTAAA
55633333 TAAACTAAGTAAATTAAGTAAA
1 TAAA-TAAGTAAATTAAGTAAA
55633355 -AAATAA
1 TAAATAA
55633361 TGTATCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (21 bp):
TAAATAAGTAAATTAAGTAAA
Found at i:55635893 original size:40 final size:40
Alignment explanation
Indices: 55635842--55636002 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
55635832 GATTTAGCCA
* *
55635842 GATATAACAACTCGCACAAATGCCATCGGGTCTTAGCCCG
1 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
*
55635882 GATATAGCAACTCGCACAAATGCCTCCGGGTCTTAGCCCG
1 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
* * * * * *
55635922 GATATAATC-ACTAGCATAAATGCCTTCAGGACATAGCCCG
1 GATAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
* * * *
55635962 TATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCG
1 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
55636002 G
1 G
55636003 TTATCATCCG
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 2 0.02
40 94 0.96
41 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:55643803 original size:40 final size:40
Alignment explanation
Indices: 55643758--55643917 Score: 216
Period size: 40 Copynumber: 4.0 Consensus size: 40
55643748 GGATTTAGCC
55643758 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
*
55643798 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
* * * *
55643838 GATATAATC-ACTAGCATAAATGCCTTC-GGACATAGCCCG
1 GATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
* * * *
55643877 GATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
55643917 G
1 G
55643918 TTATCATCCG
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.30
40 70 0.68
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:55643888 original size:79 final size:80
Alignment explanation
Indices: 55643744--55643917 Score: 241
Period size: 79 Copynumber: 2.2 Consensus size: 80
55643734 ACCCAAGTAT
* * *
55643744 CTTCGGAT-TTAG-CC-GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGATCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGC
55643806 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
55643821 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC-GGACATAGCCCGGATATAG
1 CTTCGGATCTTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAG
*
55643884 CAACTCGCACGAATGC
65 CAACTCGCACAAATGC
*
55643900 CTTCGGATCTTAGTCCGG
1 CTTCGGATCTTAGCCCGG
55643918 TTATCATCCG
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
77 7 0.08
78 4 0.05
79 50 0.59
80 23 0.27
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:55652559 original size:42 final size:40
Alignment explanation
Indices: 55652508--55652586 Score: 131
Period size: 42 Copynumber: 1.9 Consensus size: 40
55652498 CCAGATATAA
55652508 CAACTCGCACAAATGCTCATCGGGTCTTAGCCCGGATATTAG
1 CAACTCGCACAAATGC-CATCGGGTCTTAGCCC-GATATTAG
*
55652550 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGATAT
1 CAACTCGCACAAATGCCATCGGGTCTTAGCCCGATAT
55652587 AATCACTAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 5 0.14
41 15 0.42
42 16 0.44
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
CAACTCGCACAAATGCCATCGGGTCTTAGCCCGATATTAG
Found at i:55664248 original size:40 final size:40
Alignment explanation
Indices: 55664193--55664384 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
55664183 ATAACCACAA
* * *
55664193 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
55664233 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
55664273 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * *
55664313 GCATAAATGCCTTCGGGACTTAGCCTGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
55664353 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
55664385 CATTCAAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:55664321 original size:80 final size:81
Alignment explanation
Indices: 55664173--55664383 Score: 241
Period size: 80 Copynumber: 2.6 Consensus size: 81
55664163 TCTTCAAAAT
* * * * * * * *
55664173 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCA
*
55664236 CAAATGCCTTCGGGTC
66 CAAATGCCTTCGGGAC
* * *
55664252 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGC
*
55664315 ATAAATGCCTTCGGGAC
65 ACAAATGCCTTCGGGAC
* * *
55664332 TTAGCCTGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
55664384 TCATTCAAAT
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
79 6 0.05
80 97 0.88
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (81 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCA
CAAATGCCTTCGGGAC
Found at i:55666996 original size:13 final size:13
Alignment explanation
Indices: 55666980--55667009 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55666970 TATATATCGA
*
55666980 TTTCAAATATTTG
1 TTTCAAATATTTC
55666993 TTTCAAATATTTC
1 TTTCAAATATTTC
55667006 TTTC
1 TTTC
55667010 TCTAATACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.03, T:0.57
Consensus pattern (13 bp):
TTTCAAATATTTC
Found at i:55675436 original size:7 final size:7
Alignment explanation
Indices: 55675424--55675450 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
55675414 CACATTTCTG
55675424 CTCATCC
1 CTCATCC
55675431 CTCATCC
1 CTCATCC
55675438 CTCATCC
1 CTCATCC
55675445 CTCATC
1 CTCATC
55675451 ATTCATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.56, G:0.00, T:0.30
Consensus pattern (7 bp):
CTCATCC
Found at i:55675456 original size:14 final size:14
Alignment explanation
Indices: 55675424--55675457 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55675414 CACATTTCTG
*
55675424 CTCATCCCTCATCC
1 CTCATCCCTCATCA
55675438 CTCATCCCTCATCA
1 CTCATCCCTCATCA
*
55675452 TTCATC
1 CTCATC
55675458 ATTCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (14 bp):
CTCATCCCTCATCA
Found at i:55679380 original size:51 final size:51
Alignment explanation
Indices: 55679309--55679422 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
55679299 CTGATCACAT
* *
55679309 TTATCACTTGTCACTGATCAGATAAGTGTAGGTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTACCACTTATCAC
*
55679360 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTACCACTTATCAC
* *
55679411 TTGTCGCTTGTC
1 TTATCACTTGTC
55679423 GCTTGTCACT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTACCACTTATCAC
Found at i:55685961 original size:51 final size:51
Alignment explanation
Indices: 55685894--55686003 Score: 175
Period size: 51 Copynumber: 2.2 Consensus size: 51
55685884 TCACATTTAC
* *
55685894 CACTTGTCACTGATCAGATAATTGTAGGTAAAACTACCACTTATCACTTAT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTAT
* *
55685945 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTAT
*
55685996 CGCTTGTC
1 CACTTGTC
55686004 GCTTGTCACT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
CACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTAT
Found at i:55693933 original size:23 final size:26
Alignment explanation
Indices: 55693906--55693957 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 26
55693896 TGCTCAAACT
*
55693906 TTTAAATT-TTTTTTTCA-AA-TATG
1 TTTAAATTATTTCTTTCATAAGTATG
55693929 TTTAAATTATTTCTTTCATAAGTATG
1 TTTAAATTATTTCTTTCATAAGTATG
55693955 TTT
1 TTT
55693958 TAATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 8 0.32
25 2 0.08
26 7 0.28
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (26 bp):
TTTAAATTATTTCTTTCATAAGTATG
Found at i:55695401 original size:16 final size:15
Alignment explanation
Indices: 55695376--55695409 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
55695366 AAAGTCGATA
*
55695376 ATAATTAATATATATT
1 ATAATAAATATA-ATT
55695392 ATAATAAATATAATT
1 ATAATAAATATAATT
55695407 ATA
1 ATA
55695410 TACTATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:55695529 original size:29 final size:30
Alignment explanation
Indices: 55695474--55695531 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
55695464 TGCCTTAGAA
* *
55695474 AATATTTACAATAAGAGACATCTAATTTTT
1 AATATTCACAATAAGAGACATCAAATTTTT
55695504 AATATTCACAA-AAGAG-CAATCAAATTTT
1 AATATTCACAATAAGAGAC-ATCAAATTTT
55695532 GAAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 14 0.56
30 10 0.40
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
AATATTCACAATAAGAGACATCAAATTTTT
Found at i:55705473 original size:53 final size:52
Alignment explanation
Indices: 55705326--55705473 Score: 167
Period size: 52 Copynumber: 2.8 Consensus size: 52
55705316 TGACAGAAAA
* *
55705326 GATGTGATATATGATTCCGTATAAGACCATAGTC-GAGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAC
* * **
55705378 AATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATAT-GTGATT-CCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
* *
55705430 GATGTGATAATGTGATTTCGTATAAGACCATATCTGGGATATGG
1 GATGTGAT-ATGTGATTCCGTATAAGACCATATCTGGGCTATGG
55705474 TGTGACAGCC
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
51 4 0.05
52 46 0.57
53 27 0.34
54 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
Done.