Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 192 of 230
Found at i:57889425 original size:18 final size:18
Alignment explanation
Indices: 57889402--57889436 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
57889392 TTAAGAAATA
57889402 TAAAATATCTAAAATTCT
1 TAAAATATCTAAAATTCT
57889420 TAAAATATCTAAAATTC
1 TAAAATATCTAAAATTC
57889437 GGAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATATCTAAAATTCT
Found at i:57892664 original size:25 final size:25
Alignment explanation
Indices: 57892630--57892709 Score: 160
Period size: 25 Copynumber: 3.2 Consensus size: 25
57892620 TTGAATGATA
57892630 AAGAATGAATTCCCATGACTCCTTG
1 AAGAATGAATTCCCATGACTCCTTG
57892655 AAGAATGAATTCCCATGACTCCTTG
1 AAGAATGAATTCCCATGACTCCTTG
57892680 AAGAATGAATTCCCATGACTCCTTG
1 AAGAATGAATTCCCATGACTCCTTG
57892705 AAGAA
1 AAGAA
57892710 AATTGAGAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (25 bp):
AAGAATGAATTCCCATGACTCCTTG
Found at i:57896196 original size:18 final size:18
Alignment explanation
Indices: 57896158--57896228 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 18
57896148 AAATCGGGAT
57896158 AATGATATTGAAATGGAA
1 AATGATATTGAAATGGAA
* *
57896176 AATTATATTGAAGT-GACA
1 AATGATATTGAAATGGA-A
*
57896194 AATGATA-TGGAAT-G-A
1 AATGATATTGAAATGGAA
*
57896209 AATGAAATGTGAAATGGAA
1 AATGATAT-TGAAATGGAA
57896228 A
1 A
57896229 TCAAAATGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.17
17 12 0.29
18 20 0.49
19 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.23, T:0.27
Consensus pattern (18 bp):
AATGATATTGAAATGGAA
Found at i:57897333 original size:30 final size:30
Alignment explanation
Indices: 57897299--57897358 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57897289 CCTGGCACAT
* *
57897299 GGTCGTGTGCCATACATGGGCTTACGGCAC
1 GGTCGTGTGCCATACACGAGCTTACGGCAC
*
57897329 GGTCGTGTGCCATACACGAGCTTATGGCAC
1 GGTCGTGTGCCATACACGAGCTTACGGCAC
57897359 AACCGTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (30 bp):
GGTCGTGTGCCATACACGAGCTTACGGCAC
Found at i:57898437 original size:13 final size:13
Alignment explanation
Indices: 57898419--57898443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57898409 TCCATTGGCT
57898419 TTTCTAATAAAGG
1 TTTCTAATAAAGG
57898432 TTTCTAATAAAG
1 TTTCTAATAAAG
57898444 CAACTTAAAA
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:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TTTCTAATAAAGG
Found at i:57898831 original size:21 final size:21
Alignment explanation
Indices: 57898807--57898852 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
57898797 ATGCATGAAT
*
57898807 TTAATTA-TTTGAAATTTACAA
1 TTAATTATTTTAAAATTT-CAA
57898828 TTAATTATTTTAAAATTTCAA
1 TTAATTATTTTAAAATTTCAA
57898849 TTAA
1 TTAA
57898853 CAAATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTATTTTAAAATTTCAA
Found at i:57903610 original size:34 final size:34
Alignment explanation
Indices: 57903571--57903690 Score: 154
Period size: 34 Copynumber: 3.5 Consensus size: 34
57903561 ACACGATTAA
* * *
57903571 CCATCCACCACACTAAATGCTCGTATGAGCTAAC
1 CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
** *
57903605 CCATCC-GACACATTAAATGCTCGTACGTA-CTAAT
1 CCATCCAG-CACACCAAATGCTCGTATG-AGCTAAT
57903639 CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
1 CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
57903673 CCATCCAGCACACCAAAT
1 CCATCCAGCACACCAAAT
57903691 AACACTATAA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
33 1 0.01
34 72 0.96
35 2 0.03
ACGTcount: A:0.33, C:0.34, G:0.12, T:0.21
Consensus pattern (34 bp):
CCATCCAGCACACCAAATGCTCGTATGAGCTAAT
Found at i:57911267 original size:11 final size:11
Alignment explanation
Indices: 57911236--57911279 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
57911226 AATTATTAAC
57911236 ATATTGAATTTT
1 ATATT-AATTTT
57911248 AT-TTAATTTT
1 ATATTAATTTT
*
57911258 ATAATAATTTT
1 ATATTAATTTT
*
57911269 TTATTAATTTT
1 ATATTAATTTT
57911280 GATTTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 8 0.29
11 18 0.64
12 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:57919598 original size:25 final size:26
Alignment explanation
Indices: 57919545--57919598 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
57919535 TTCTCCTGAA
* *
57919545 TTTCAATTTTATTTAATTATTTAATT
1 TTTCAATTTTATTGAATTAGTTAATT
57919571 TTTCAA-TTTATTGAATT-GTTAATAT
1 TTTCAATTTTATTGAATTAGTTAAT-T
57919596 TTT
1 TTT
57919599 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTAGTTAATT
Found at i:57925665 original size:16 final size:16
Alignment explanation
Indices: 57925644--57925682 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
57925634 TGTTTCGATA
*
57925644 GTTTGATAGTATGAAT
1 GTTTGATAGTATAAAT
57925660 GTTTGATAGTATAAAT
1 GTTTGATAGTATAAAT
57925676 GTTTGAT
1 GTTTGAT
57925683 TGAGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (16 bp):
GTTTGATAGTATAAAT
Found at i:57932872 original size:9 final size:9
Alignment explanation
Indices: 57932860--57932913 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
57932850 TTTTTACAAC
57932860 TTTTTAATA
1 TTTTTAATA
57932869 TTTTTAATAAA
1 TTTTTAAT--A
*
57932880 TTTTAAATA
1 TTTTTAATA
*
57932889 TTTTAAATA
1 TTTTTAATA
57932898 TTTTATAAT-
1 TTTT-TAATA
57932907 TTTTTAA
1 TTTTTAA
57932914 GTTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 3 0.08
9 26 0.65
10 3 0.08
11 8 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTAATA
Found at i:57932883 original size:20 final size:19
Alignment explanation
Indices: 57932849--57932913 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
57932839 TTTTAAAAAC
* *
57932849 ATTTTTACAACTTTTTAAT
1 ATTTTTAAAAATTTTTAAT
*
57932868 ATTTTTAATAAATTTTAAAT
1 ATTTTTAA-AAATTTTTAAT
*
57932888 A-TTTTAAATATTTTATAAT
1 ATTTTTAAAAATTTT-TAAT
57932907 -TTTTTAA
1 ATTTTTAA
57932914 GTTTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.16
19 22 0.58
20 10 0.26
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTTAAAAATTTTTAAT
Found at i:57933003 original size:19 final size:19
Alignment explanation
Indices: 57932979--57933040 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 19
57932969 TTGTAATTTG
57932979 TATTTTTGT-AATTTTTATA
1 TATTTTT-TAAATTTTTATA
*
57932998 TATTTTTTAAGATTTTAGATA
1 TATTTTTTAA-ATTTT-TATA
*
57933019 TATTTTTCTGAATTTTT-TA
1 TATTTTT-TAAATTTTTATA
57933038 TAT
1 TAT
57933041 AATTGTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.36
20 5 0.14
21 15 0.42
22 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (19 bp):
TATTTTTTAAATTTTTATA
Found at i:57933040 original size:21 final size:21
Alignment explanation
Indices: 57932990--57933041 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
57932980 ATTTTTGTAA
57932990 TTTTTATATATTTTTTAAGAT
1 TTTTTATATATTTTTTAAGAT
** *
57933011 TTTAGATATATTTTTCTGA-AT
1 TTTTTATATATTTTT-TAAGAT
57933032 TTTTTATATA
1 TTTTTATATA
57933042 ATTGTTCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (21 bp):
TTTTTATATATTTTTTAAGAT
Found at i:57937273 original size:5 final size:5
Alignment explanation
Indices: 57937263--57937290 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
57937253 TTTTCACCCA
57937263 AAACC AAACC AAACC AAACC AAACC AAA
1 AAACC AAACC AAACC AAACC AAACC AAA
57937291 ACCTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:57942085 original size:6 final size:6
Alignment explanation
Indices: 57942076--57942103 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
57942066 GGGAAAGAGA
57942076 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAA
57942104 TATTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:57943336 original size:36 final size:37
Alignment explanation
Indices: 57943284--57943353 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
57943274 TTATATATGT
* *
57943284 ATTATTATTTATTAGCATGATTATTAT-TTTATTCTC
1 ATTATCATTTACTAGCATGATTATTATATTTATTCTC
* *
57943320 ATTATCATTTACTAGCATGGTTATTTTATTTATT
1 ATTATCATTTACTAGCATGATTATTATATTTATT
57943354 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 23 0.79
37 6 0.21
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (37 bp):
ATTATCATTTACTAGCATGATTATTATATTTATTCTC
Found at i:57949049 original size:17 final size:17
Alignment explanation
Indices: 57949027--57949063 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
57949017 CCAAGGCGCA
57949027 CAACCAGCATACCGAAT
1 CAACCAGCATACCGAAT
* *
57949044 CAACCATCATACTGAAT
1 CAACCAGCATACCGAAT
57949061 CAA
1 CAA
57949064 ATCTTTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.32, G:0.08, T:0.16
Consensus pattern (17 bp):
CAACCAGCATACCGAAT
Found at i:57950681 original size:41 final size:41
Alignment explanation
Indices: 57950624--57950869 Score: 242
Period size: 41 Copynumber: 5.9 Consensus size: 41
57950614 GCGTTTACAG
* * *
57950624 AAACAAATGCCTCTAAAGGTTATGTTCTTTAGCGGCGCTAC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTAC
* * * *
57950665 AAAAAAAAGCCGCTAAAGGTTATGTTCTTTAGCGGCGCTTC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTAC
* *
57950706 AAAAAAACGCCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTAC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGG--C-GCTAC
* ** **
57950750 -AACAAACGCCGCGAAAGAACATGACCTTTAGCGGCGCATAC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TAC
* * * * *
57950791 CAACAAATGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTC
1 AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TAC
**
57950833 TCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
1 -AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
57950870 AATTTTTCCA
Statistics
Matches: 172, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
40 2 0.01
41 73 0.42
42 32 0.19
43 61 0.35
44 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (41 bp):
AAACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTAC
Found at i:57950864 original size:85 final size:83
Alignment explanation
Indices: 57950624--57950869 Score: 260
Period size: 85 Copynumber: 2.9 Consensus size: 83
57950614 GCGTTTACAG
* * * * * *
57950624 AAACAAATGCCTCTAAAGGTTATGTTCTTTAGCGGCGCTAC-AAAAAAAAGCCGCTAAAGGTTAT
1 AAACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTACTCAACAAACGCCGCTAAAGGTCAT
*
57950688 GTTCTTTAGCGGCGCTTC
66 GTTCTTTAGCGGCGCTAC
* * * * * * **
57950706 AAAAAAACGCCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTACAACAAACGCCGCGAAAGAACA
1 AAACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTACT-CAACAAACGCCGCTAAAGGTCA
**
57950771 TGACCTTTAGCGGCGCATAC
65 TGTTCTTTAGCGGCGC-TAC
* * * * *
57950791 CAACAAATGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTCTCCACAAACGCCGCTAAAGGTCA
1 AAACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TACTCAACAAACGCCGCTAAAGGTCA
57950856 TGTTCTTTAGCGGC
65 TGTTCTTTAGCGGC
57950870 AATTTTTCCA
Statistics
Matches: 129, Mismatches: 31, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
82 34 0.26
84 29 0.22
85 63 0.49
86 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (83 bp):
AAACAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTACTCAACAAACGCCGCTAAAGGTCAT
GTTCTTTAGCGGCGCTAC
Found at i:57950866 original size:128 final size:125
Alignment explanation
Indices: 57950650--57950915 Score: 336
Period size: 128 Copynumber: 2.1 Consensus size: 125
57950640 AGGTTATGTT
* * *
57950650 CTTTAGCGGCGCTACAAAAAAAAGCCGCTAAAGGTTATGTTCTTTAGCGGCGCTTCAAAAAAACG
1 CTTTAGCGGCGCTACAAAAAAAAGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTCAAAAAAACG
*
57950715 CCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTACAACAAACGCCGCGAA-AGAACATGAC
66 CCGCAAAAGGTCATGTTCTTTAGCGGCAATGCTACAACAAACGCCGC-AATAGAACATGAC
* * * ** *
57950775 CTTTAGCGGCGCATACCAACAAATGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTCTCCACAA
1 CTTTAGCGGCGC-TACAAAAAAAAGCCGCTAAAGCTCATGTTCTTTAGCAGCGC-TTC-AAAAAA
* ** * * *
57950840 ACGCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTTCCACAAACGCTGCAATAGAACATGAC
63 ACGCCGCAAAAGGTCATGTTCTTTAGCGGCAATGCTACAACAAACGCCGCAATAGAACATGAC
*
57950903 TTTTAGCGGCGCT
1 CTTTAGCGGCGCT
57950916 TTTATAAAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
125 12 0.10
126 35 0.29
127 6 0.05
128 67 0.56
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (125 bp):
CTTTAGCGGCGCTACAAAAAAAAGCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTCAAAAAAACG
CCGCAAAAGGTCATGTTCTTTAGCGGCAATGCTACAACAAACGCCGCAATAGAACATGAC
Found at i:57950880 original size:43 final size:43
Alignment explanation
Indices: 57950673--57950886 Score: 152
Period size: 43 Copynumber: 5.0 Consensus size: 43
57950663 ACAAAAAAAA
* ** * * *
57950673 GCCGCTAAAGGTTATGTTCTTTAGCGGC-GCTTCA-AAAAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTACCACAAAC
* * ** *
57950714 GCCGCAAAAGGTCATGTTCTTTAGCGGCACTGCTACAACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTACCACAAAC
* ** ** * *
57950757 GCCGCGAAAGAACATGACCTTTAGCGGCGCA---TACCAACAAAT
1 GCCGCTAAAGGTCATGTTCTTTAGCGGC-AATTTTACC-ACAAAC
* * **
57950799 GCCGCTAAAGCTCATGTTCTTTAGCAGCGCTTTCT-CCACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTT-TACCACAAAC
*
57950842 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTTCCACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTACCACAAAC
57950885 GC
1 GC
57950887 TGCAATAGAA
Statistics
Matches: 134, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
41 29 0.22
42 29 0.22
43 73 0.54
44 2 0.01
45 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGTTCTTTAGCGGCAATTTTACCACAAAC
Found at i:57951326 original size:21 final size:21
Alignment explanation
Indices: 57951302--57951352 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
57951292 TTCTTTTGAA
* *
57951302 CCTCTGCTTCTCTCGTTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
57951323 CCTCTTCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
57951344 CCTCTGCTT
1 CCTCTGCTT
57951353 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.45, G:0.16, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:57956918 original size:20 final size:21
Alignment explanation
Indices: 57956895--57956992 Score: 102
Period size: 20 Copynumber: 5.0 Consensus size: 21
57956885 TAGAAATTTT
57956895 ATCTTAATATTATATAA-TTA
1 ATCTTAATATTATATAAGTTA
57956915 ATCTTAATATTATATAAGTT-
1 ATCTTAATATTATATAAGTTA
* * * *
57956935 AT-GT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAAGTTA
57956952 ATCTTAATATTATATAAG-TA
1 ATCTTAATATTATATAAGTTA
*
57956972 ATCTTAATATCATATAAGTTA
1 ATCTTAATATTATATAAGTTA
57956993 TATTAATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
16 4 0.06
17 7 0.11
18 2 0.03
19 2 0.03
20 42 0.67
21 6 0.10
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
ATCTTAATATTATATAAGTTA
Found at i:57956922 original size:57 final size:57
Alignment explanation
Indices: 57956861--57956980 Score: 195
Period size: 57 Copynumber: 2.1 Consensus size: 57
57956851 AAATTAGAAA
* *
57956861 TTAATAGTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAATTAATC
1 TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
* * *
57956918 TTAATATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
1 TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
57956975 TTAATA
1 TTAATA
57956981 TCATATAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (57 bp):
TTAATAGTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATC
Found at i:57956941 original size:25 final size:20
Alignment explanation
Indices: 57956895--57957011 Score: 93
Period size: 20 Copynumber: 6.0 Consensus size: 20
57956885 TAGAAATTTT
57956895 ATCTTAATATTATATAATTA
1 ATCTTAATATTATATAATTA
57956915 ATCTTAATATTATATAAGTT-
1 ATCTTAATATTATATAA-TTA
* * *
57956935 AT-GT-A-ATTAGA-AATTTT
1 ATCTTAATATTATATAA-TTA
*
57956952 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAATTA
*
57956972 ATCTTAATATCATATAAGTT-
1 ATCTTAATATTATATAA-TTA
* * *
57956992 ATATTAATTTTATGTAATTA
1 ATCTTAATATTATATAATTA
57957012 GAAATTGATG
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
16 4 0.05
17 7 0.09
18 2 0.03
19 4 0.05
20 54 0.71
21 5 0.07
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (20 bp):
ATCTTAATATTATATAATTA
Found at i:57956981 original size:57 final size:57
Alignment explanation
Indices: 57956874--57956993 Score: 222
Period size: 57 Copynumber: 2.1 Consensus size: 57
57956864 ATAGTAAACG
* *
57956874 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAATTAATCTTAATATTATATA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
57956931 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
57956988 AGTTAT
1 AGTTAT
57956994 ATTAATTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (57 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATCATATA
Found at i:57957855 original size:13 final size:13
Alignment explanation
Indices: 57957837--57957871 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
57957827 CTAAATAAAC
57957837 TTCATTCAGAAAA
1 TTCATTCAGAAAA
57957850 TTCATTCAGAAAA
1 TTCATTCAGAAAA
57957863 TTCATTCAG
1 TTCATTCAG
57957872 CAATTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (13 bp):
TTCATTCAGAAAA
Found at i:57959219 original size:15 final size:16
Alignment explanation
Indices: 57959189--57959224 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
57959179 ATTTTTTTAA
*
57959189 ATATTAATTTATATTT
1 ATATTAATTTACATTT
57959205 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
57959220 ATATT
1 ATATT
57959225 CTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:57959379 original size:21 final size:21
Alignment explanation
Indices: 57959350--57959394 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57959340 TGTAAGCCGT
* *
57959350 AACTGTAAATCATAAACCCCA
1 AACTATAAACCATAAACCCCA
*
57959371 AACTATAAACCCTAAACCCCA
1 AACTATAAACCATAAACCCCA
57959392 AAC
1 AAC
57959395 CGTAAACCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.33, G:0.02, T:0.16
Consensus pattern (21 bp):
AACTATAAACCATAAACCCCA
Found at i:57959400 original size:21 final size:21
Alignment explanation
Indices: 57959362--57959424 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
57959352 CTGTAAATCA
*
57959362 TAAACCCCAAACTATAAACCC
1 TAAACCCCAAACCATAAACCC
* *
57959383 TAAACCCCAAACCGTAAACCT
1 TAAACCCCAAACCATAAACCC
* * *
57959404 TAAATCCTAAACCTTAAACCC
1 TAAACCCCAAACCATAAACCC
57959425 ATCAATTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (21 bp):
TAAACCCCAAACCATAAACCC
Found at i:57959401 original size:7 final size:7
Alignment explanation
Indices: 57959362--57959424 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
57959352 CTGTAAATCA
57959362 TAAACCC
1 TAAACCC
* **
57959369 CAAACTA
1 TAAACCC
57959376 TAAACCC
1 TAAACCC
57959383 TAAACCC
1 TAAACCC
* *
57959390 CAAACCG
1 TAAACCC
*
57959397 TAAACCT
1 TAAACCC
*
57959404 TAAATCC
1 TAAACCC
*
57959411 TAAACCT
1 TAAACCC
57959418 TAAACCC
1 TAAACCC
57959425 ATCAATTAAT
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:57959527 original size:21 final size:21
Alignment explanation
Indices: 57959503--57959578 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
57959493 ACTGTAAATC
57959503 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCATAAACA
*
57959524 TTAAACCCATAAACCACAAACA
1 TTAAACCC-TAAACCATAAACA
* * *
57959546 --ACAACCACCAAATCATAAACT
1 TTA-AACC-CTAAACCATAAACA
57959567 TTAAACCCTAAA
1 TTAAACCCTAAA
57959579 GTCTAAACCG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 25 0.57
22 17 0.39
23 1 0.02
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
TTAAACCCTAAACCATAAACA
Found at i:57959539 original size:22 final size:21
Alignment explanation
Indices: 57959503--57959545 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
57959493 ACTGTAAATC
*
57959503 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCACAAACA
57959524 TTAAACCCATAAACCACAAACA
1 TTAAACCC-TAAACCACAAACA
57959546 ACAACCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.16
Consensus pattern (21 bp):
TTAAACCCTAAACCACAAACA
Found at i:57960564 original size:227 final size:229
Alignment explanation
Indices: 57960286--57960754 Score: 649
Period size: 227 Copynumber: 2.1 Consensus size: 229
57960276 GCTGAAGACC
* *
57960286 AAACGCTGCG-CTTCGGTTAAGATATTTTACGGCGCTTTTTATATTGCGCCGCTAACACTGTGAT
1 AAACGCTGCGTTTTCGGTTAAGATATTTTACGGCGCTTTTTATATAGCGCCGCTAACACTGTGAT
* * **
57960350 TTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATGCCTGAAGACC-AAACGTTGCGTTTTG
66 TTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCGTTTTG
* * * *
57960414 GTTAAGATATTTTGAGATGCTTTTTATATAGCGCTGCTAATACTGTGCTTTTG-GGCG-TTTTTC
131 GTTAAGATATTTTGAGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTGC
**
57960477 ATAAGCGCCACTAATTCTGGTATACCTCAAGACAA
196 ATAAGCGCCACTAATTCTAATATACCTCAAG-CAA
* * * * *
57960512 AAACGCTGCGTTTTTGGTTAAGATATTTTTCGGCGCTTTTTTTATAGCGCCGCTAATACTGTGCT
1 AAACGCTGCGTTTTCGGTTAAGATATTTTACGGCGCTTTTTATATAGCGCCGCTAACACTGTGAT
* ** *
57960577 TTAGTGGCGTTTTTCGTAAGCGCCACTAATTCTGATATACCTCAAGACCAAAACGCAGCGTTTTG
66 TTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCGTTTTG
* * * *
57960642 GTTAAGATATTTTGCGGCGCTTTTTATATTGCGCCGCTAATACTGTTCTTTAGCGGCGCTTTTGC
131 GTTAAGATATTTTGAGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTGC
**
57960707 ATAAGCGCCACTAATTCTAATATACCTCAAGCTC
196 ATAAGCGCCACTAATTCTAATATACCTCAAGCAA
*
57960741 ATACGCTGCGTTTT
1 AAACGCTGCGTTTT
57960755 GTTTAACATT
Statistics
Matches: 211, Mismatches: 28, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
226 10 0.05
227 90 0.43
228 59 0.28
229 18 0.09
230 34 0.16
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (229 bp):
AAACGCTGCGTTTTCGGTTAAGATATTTTACGGCGCTTTTTATATAGCGCCGCTAACACTGTGAT
TTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATACCTCAAGACCAAAACGCAGCGTTTTG
GTTAAGATATTTTGAGACGCTTTTTATATAGCGCCGCTAATACTGTGCTTTAGCGGCGCTTTTGC
ATAAGCGCCACTAATTCTAATATACCTCAAGCAA
Found at i:57960630 original size:115 final size:113
Alignment explanation
Indices: 57960280--57960777 Score: 624
Period size: 114 Copynumber: 4.4 Consensus size: 113
57960270 TCTATAGCTG
* * * * *
57960280 AAGACCAAACGCTGCGCTTCGGTTAAGATATTTTACGGCGCTTTTTATATTGCGCCGCTAACACT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
* ** * * *
57960345 GTGATTTAGCGGCGAGTTTCGTAAGCGCCACTAATTCTAATATGCCTG
66 GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
* * ** *
57960393 AAGACCAAACGTTGCGTTTTGGTTAAGATATTTTGAGATGCTTTTTATATAGCGCTGCTAATACT
1 AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
* **
57960458 GTGCTTTTG-GGCGTTTTTCATAAGCGCCACTAATTCTGGTATACCTC
66 GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
* * *
57960505 AAGACAAAAACGCTGCGTTTTTGGTTAAGATATTTTTCGGCGCTTTTTTTATAGCGCCGCTAATA
1 AAGAC-CAAACGCTGCG-TTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATA
* * *
57960570 CTGTGCTTTAGTGGCGTTTTTCGTAAGCGCCACTAATTCTGATATACCTC
64 CTGTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
* *
57960620 AAGACCAAAACGCAGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTGCGCCGCTAATAC
1 AAGACC-AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATAC
* *
57960685 TGTTCTTTAGCGGCGCTTTTGCATAAGCGCCACTAATTCTAATATACCTC
65 TGTGCTTTAGCGGCG-TTTTTCATAAGCGCCACTAATTCTAATATACCTC
* * * *
57960735 AAG-CTCATACGCTGCGTTTTGTTTAACAT-TTTCTGCAGCGCTT
1 AAGAC-CAAACGCTGCGTTTTGGTTAAGATATTT-TGCGGCGCTT
57960778 ACAAATAAAC
Statistics
Matches: 333, Mismatches: 45, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
112 36 0.11
113 74 0.22
114 138 0.41
115 85 0.26
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (113 bp):
AAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATAGCGCCGCTAATACT
GTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTC
Found at i:57964209 original size:43 final size:42
Alignment explanation
Indices: 57964143--57964414 Score: 264
Period size: 43 Copynumber: 6.4 Consensus size: 42
57964133 TTTTAAAAAT
* * *
57964143 AAACGCCGCTATAGACCATGACCTTTAGTAGTGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAG-AGCGCTTTTCCCAC
* * *
57964186 AAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTT-GCAC
1 AAACGCCGCTATAGATCAGGACCTTTAG-AGCGCTTTTCCCAC
* ** *
57964228 AAGCGCCATTATAGATC-GAGATCTTTAGAGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAG-GACCTTTAGA-GCGCTTTTCCCAC
* *
57964271 AAACGCCGCTATAGATC-GAGACCTTTAGTGACACTTTTCCCAC
1 AAACGCCGCTATAGATCAG-GACCTTTAGAG-CGCTTTTCCCAC
* * * *
57964314 AAACGTCGCTATAGATCATGACCTTTAGCGGTGCCTTTT-CCAC
1 AAACGCCGCTATAGATCAGGACCTTTAG-AGCG-CTTTTCCCAC
* * *
57964357 AAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGAG-CGCTTTTCCCAC
57964400 AAACGCCGCTATAGA
1 AAACGCCGCTATAGA
57964415 ACAAACCTTT
Statistics
Matches: 189, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 39 0.21
43 143 0.76
44 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAGGACCTTTAGAGCGCTTTTCCCAC
Found at i:57964254 original size:42 final size:43
Alignment explanation
Indices: 57964143--57964452 Score: 247
Period size: 43 Copynumber: 7.3 Consensus size: 43
57964133 TTTTAAAAAT
* * *
57964143 AAACGCCGCTATAGA-CCATGACCTTTAGTA-GTGCTTTTCCCAC
1 AAACGCCACTATAGATCGA-GACCTTTAG-AGGCGCTTTTCCCAC
* * * *
57964186 AAACGCCGCTAAAGATC-AGGACCTTTAGCGGCGCTTTT-GCAC
1 AAACGCCACTATAGATCGA-GACCTTTAGAGGCGCTTTTCCCAC
* * *
57964228 AAGCGCCATTATAGATCGAGATCTTTAGAGGCGCTTTTCCCAC
1 AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
* * * *
57964271 AAACGCCGCTATAGATCGAGACCTTTAGTGACACTTTTCCCAC
1 AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
* * * *
57964314 AAACGTCGCTATAGATC-ATGACCTTTAGCGGTGCCTTTT-CCAC
1 AAACGCCACTATAGATCGA-GACCTTTAGAGGCG-CTTTTCCCAC
* * * * *
57964357 AAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
* * * * * * * *
57964400 AAACGCCGCTATAGAAC-AAACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
57964442 AAACGCCACTA
1 AAACGCCACTA
57964453 AAAACATAAC
Statistics
Matches: 224, Mismatches: 35, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
42 70 0.31
43 147 0.66
44 7 0.03
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCACTATAGATCGAGACCTTTAGAGGCGCTTTTCCCAC
Found at i:57964299 original size:128 final size:129
Alignment explanation
Indices: 57964143--57964454 Score: 362
Period size: 128 Copynumber: 2.4 Consensus size: 129
57964133 TTTTAAAAAT
**
57964143 AAACGCCGCTATAGACCATGACCTTTAGT-AGTGCTTTTCCCACAAACGCCGCTAAAGATCAGGA
1 AAACGCCGCTATAGACCATGACCTTTAGTGA-CACTTTTCCCACAAACGCCGCTAAAGATCAGGA
* * * * * *
57964207 CCTTTAGCGGCG-CTTTTGCACAAGCGCCATTATAGATCGAGATCTTTAGAGGCGCTTTTCCCAC
65 CCTTTAGCGGCGCCTTTTCCACAAACGCCACTATAGATCAAGACCTTTAGAGACGCTTTTCCCAC
* * * *
57964271 AAACGCCGCTATAGATCGA-GACCTTTAGTGACACTTTTCCCACAAACGTCGCTATAGATCATGA
1 AAACGCCGCTATAGA-CCATGACCTTTAGTGACACTTTTCCCACAAACGCCGCTAAAGATCAGGA
* * * *
57964335 CCTTTAGCGGTGCCTTTTCCACAAACGCCGCTATAGCTCAAGACCTTTAGCGACGCTTTTCCCAC
65 CCTTTAGCGGCGCCTTTTCCACAAACGCCACTATAGATCAAGACCTTTAGAGACGCTTTTCCCAC
* * * * * * * *
57964400 AAACGCCGCTATAGAACA-AACCTTTAGCGACGCTTCTCGCAAAAACGCCACTAAA
1 AAACGCCGCTATAGACCATGACCTTTAGTGACACTTTTCCCACAAACGCCGCTAAA
57964455 AACATAACAT
Statistics
Matches: 154, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
128 93 0.60
129 61 0.40
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (129 bp):
AAACGCCGCTATAGACCATGACCTTTAGTGACACTTTTCCCACAAACGCCGCTAAAGATCAGGAC
CTTTAGCGGCGCCTTTTCCACAAACGCCACTATAGATCAAGACCTTTAGAGACGCTTTTCCCAC
Found at i:57964366 original size:86 final size:84
Alignment explanation
Indices: 57964143--57964428 Score: 333
Period size: 86 Copynumber: 3.3 Consensus size: 84
57964133 TTTTAAAAAT
* ** *
57964143 AAACGCCGCTATAGACCATGACCTTTAGTAGTGCTTTTCCCACAAACGCCGCTAAAGATCAGGAC
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGATCA-GAC
* *
57964208 CTTTAGCGGCGCTTTT-GCAC
64 CTTTAGCGACGCTTTTCCCAC
* ** * * *
57964228 AAGCGCCATTATAGATCGAGATCTTTAGAGGCGCTTTTCCCACAAACGCCGCTATAGATCGAGAC
1 AAACGCCGCTATAGATC-AGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGATC-AGAC
* *
57964293 CTTTAGTGACACTTTTCCCAC
64 CTTTAGCGACGCTTTTCCCAC
* *
57964314 AAACGTCGCTATAGATCATGACCTTTAGCGGTGCCTTTT-CCACAAACGCCGCTATAGCTCAAGA
1 AAACGCCGCTATAGATCA-GACCTTTAGCGGTG-CTTTTCCCACAAACGCCGCTATAGATC-AGA
57964378 CCTTTAGCGACGCTTTTCCCAC
63 CCTTTAGCGACGCTTTTCCCAC
* *
57964400 AAACGCCGCTATAGAACAAACCTTTAGCG
1 AAACGCCGCTATAGATCAGACCTTTAGCG
57964429 ACGCTTCTCG
Statistics
Matches: 169, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
85 76 0.45
86 88 0.52
87 5 0.03
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (84 bp):
AAACGCCGCTATAGATCAGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGATCAGACCT
TTAGCGACGCTTTTCCCAC
Found at i:57965723 original size:22 final size:22
Alignment explanation
Indices: 57965692--57965735 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
57965682 TACACCAAAA
*
57965692 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
*
57965714 TAGGCCTTTAGCGGTGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
57965736 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:57965954 original size:44 final size:44
Alignment explanation
Indices: 57965858--57966003 Score: 240
Period size: 44 Copynumber: 3.3 Consensus size: 44
57965848 GCTTTAGTGG
* * * *
57965858 AAGCGCCGCTAAAGATCAGGGTCTTTAGTGGCG-TTTTTGCGAG
1 AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
*
57965901 AAGTGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
1 AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
57965945 AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
1 AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
57965989 AAGCGCCGCTAAAGA
1 AAGCGCCGCTAAAGA
57966004 CCCTAATCTT
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 29 0.30
44 67 0.70
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (44 bp):
AAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGAC
Found at i:57966014 original size:44 final size:43
Alignment explanation
Indices: 57965861--57966216 Score: 227
Period size: 43 Copynumber: 8.3 Consensus size: 43
57965851 TTAGTGGAAG
* ** * * * *
57965861 CGCCGCTAAAGATCAGGGTCTTTAGTGGCGTTTTTGCGAGAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGCGACAAA
* *** * *
57965904 TGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGACAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTTTGCGACAAA
*** * *
57965948 CGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCGACAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTTTGCGACAAA
* * ** *
57965992 CGCCGCTAAAGACCCTAATCTTTAGCAGCGATTTTCCCTA-AAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTTTGCGACAAA
* * * *
57966035 CGCCG-TAAACGACCCTGATCTATAGCGGCG-CTTCGACCACAAA
1 CGCCGCTAAA-GACCCTGATCTTTAGCGGCGTTTTTG-CGACAAA
* * * * ** *
57966078 CGCCACTAAAGAACCTAATCTTTAGCGGCG-CTTCCCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGCGACAAA
* * *
57966120 CGCCGCTAAAGACCATGATCTTTAGGGGCGCTTTTTCCG-CAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTTTGCGACAAA
* * * * * *
57966163 CGCCGCGAAAGACCCTTATCTTTAGCGGCGCTTTTACCAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGCGACAAA
*
57966206 CGCCACTAAAG
1 CGCCGCTAAAG
57966217 GCCAACACCT
Statistics
Matches: 259, Mismatches: 46, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.01
42 43 0.17
43 120 0.46
44 93 0.36
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGCGACAAA
Found at i:57966151 original size:85 final size:84
Alignment explanation
Indices: 57965987--57966195 Score: 240
Period size: 85 Copynumber: 2.5 Consensus size: 84
57965977 GTTTTTTGCG
* * * * *
57965987 ACAAGCGCCGCTAAAGACCCTAATCTTTAGCAGCGATTTTCCCTAAAACGCCGTAAACGACCCTG
1 ACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCG--CTTCCCCAAAACGCCGTAAACGACCATG
57966052 ATCTATAGCGGCGCTTCGACC
64 ATCTATAGCGGCGCTTCGACC
* *
57966073 ACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTCCCCACAAACGCCGCTAAA-GACCATG
1 ACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCCCCA-AAACGCCG-TAAACGACCATG
* * ***
57966137 ATCTTTAGGGGCGCTTTTTCC
64 ATCTATAGCGGCGCTTCGACC
* * *
57966158 GCAAACGCCGCGAAAGACCCTTATCTTTAGCGGCGCTT
1 ACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTT
57966196 TTACCAAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
84 6 0.06
85 63 0.61
86 35 0.34
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (84 bp):
ACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCCCCAAAACGCCGTAAACGACCATGAT
CTATAGCGGCGCTTCGACC
Found at i:57966229 original size:128 final size:128
Alignment explanation
Indices: 57965987--57966235 Score: 295
Period size: 128 Copynumber: 1.9 Consensus size: 128
57965977 GTTTTTTGCG
* * * *
57965987 ACAAGCGCCGCTAAAGACCCTAATCTTTAGCAGCGATTTTCCCTAAAACGCCGTAAACGACCCTG
1 ACAAACGCCGCTAAAGACCATAATCTTTAGCAGCGATTTTCCCGAAAACGCCGGAAACGACCCTG
* * *
57966052 ATCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTCCCC
66 ATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGCGCTTCCCC
* ** * * *
57966115 ACAAACGCCGCTAAAGACCATGATCTTTAGGGGCGCTTTTTCCGCAAACGCCGCGAAA-GACCCT
1 ACAAACGCCGCTAAAGACCATAATCTTTAGCAGCGATTTTCCCGAAAACGCCG-GAAACGACCCT
* * ** * *
57966179 TATCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAG-GCCAACACCTTTAGTGGCG
65 GATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAA-ACCTTTAGCGGCG
57966236 TTTTTTTGAA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
127 3 0.03
128 94 0.94
129 3 0.03
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.21
Consensus pattern (128 bp):
ACAAACGCCGCTAAAGACCATAATCTTTAGCAGCGATTTTCCCGAAAACGCCGGAAACGACCCTG
ATCTATAGCGGCGCTTCGACCAAAAACGCCACTAAAGAACCAAACCTTTAGCGGCGCTTCCCC
Found at i:57966240 original size:85 final size:85
Alignment explanation
Indices: 57966074--57966241 Score: 201
Period size: 86 Copynumber: 2.0 Consensus size: 85
57966064 GCTTCGACCA
* * * * ** *
57966074 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTCCCCACAAACGCCGCTAAAGACCATGAT
1 CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTCACCAAAAACGCCACTAAAGACCAACAC
57966139 CTTTAGGGGCGCTTTTTCCG
66 CTTTAGGGGCGCTTTTTCCG
* * * * *
57966159 CAAACGCCGCGAAAGACCCTTATCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAGGCCAACA
1 CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGC-TTCACCAAAAACGCCACTAAAGACCAACA
* *
57966224 CCTTTAGTGGCGTTTTTT
65 CCTTTAGGGGCGCTTTTT
57966242 TGAAAAGCGC
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
85 31 0.46
86 37 0.54
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTCACCAAAAACGCCACTAAAGACCAACAC
CTTTAGGGGCGCTTTTTCCG
Found at i:57966592 original size:21 final size:21
Alignment explanation
Indices: 57966566--57966658 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
57966556 ATTGACGCTG
57966566 CTCTGCTTCCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTACAGC
**
57966587 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTACAGC
*
57966608 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTACAGC
* * * * *
57966629 CTGTACTTCTCTCGCCACCGC
1 CTCTGCTTCCCTCGCTACAGC
*
57966650 TTCTGCTTC
1 CTCTGCTTC
57966659 TCTTGCTGCC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.06, C:0.45, G:0.15, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACAGC
Found at i:57966733 original size:66 final size:66
Alignment explanation
Indices: 57966654--57966818 Score: 226
Period size: 66 Copynumber: 2.5 Consensus size: 66
57966644 CACCGCTTCT
*
57966654 GCTTCTCTTGCTGCCGCATCTGCTTTAAGTTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
57966717 TTA
64 TTA
* *
57966720 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTT
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTT
57966785 A
66 A
* ** * *
57966786 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGT
57966819 GTAATTTGCT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
65 1 0.01
66 85 0.94
67 4 0.04
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.42
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTT
A
Found at i:57972242 original size:9 final size:9
Alignment explanation
Indices: 57972225--57972817 Score: 188
Period size: 9 Copynumber: 66.8 Consensus size: 9
57972215 TAAGTATAAT
*
57972225 TAAGCTATG
1 TAAGTTATG
57972234 TAAGTTATG
1 TAAGTTATG
57972243 T-A-TTATG
1 TAAGTTATG
57972250 TAAGTTAT-
1 TAAGTTATG
*
57972258 TTA-TTATG
1 TAAGTTATG
* *
57972266 AAAATTATG
1 TAAGTTATG
*
57972275 TAAGTTGTG
1 TAAGTTATG
57972284 T-A-TTATG
1 TAAGTTATG
*
57972291 -AA--AAT-
1 TAAGTTATG
* *
57972296 TATGCTATG
1 TAAGTTATG
57972305 TAAGTTATG
1 TAAGTTATG
* *
57972314 TAAGTCATA
1 TAAGTTATG
57972323 TAAGTTATG
1 TAAGTTATG
57972332 T-A-TTATG
1 TAAGTTATG
57972339 TAAGTTATG
1 TAAGTTATG
57972348 TAAGTTAT-
1 TAAGTTATG
*
57972356 TTA-TTATG
1 TAAGTTATG
* * *
57972364 AAAATTAAG
1 TAAGTTATG
57972373 TAAGTTATG
1 TAAGTTATG
*
57972382 TAATTTATG
1 TAAGTTATG
*
57972391 -AA-TAAT-
1 TAAGTTATG
***
57972397 TAAAAAAATG
1 T-AAGTTATG
57972407 TAAGTTATG
1 TAAGTTATG
57972416 TAAG-T-TG
1 TAAGTTATG
57972423 TAAGTTATG
1 TAAGTTATG
*
57972432 TAATTTATG
1 TAAGTTATG
*
57972441 TATTGCATTAATG
1 TA-AG--TT-ATG
57972454 TAAGTTATG
1 TAAGTTATG
*
57972463 TAATTTATG
1 TAAGTTATG
*
57972472 -AA-TAAT-
1 TAAGTTATG
*** *
57972478 TAAAAAAAAG
1 T-AAGTTATG
57972488 TAAGTTATG
1 TAAGTTATG
57972497 TAAG-T-TG
1 TAAGTTATG
57972504 TAAGTTATG
1 TAAGTTATG
*
57972513 TATA-ATAT-
1 TA-AGTTATG
57972521 TAA-TTAAT-
1 TAAGTT-ATG
57972529 TAAGTTATG
1 TAAGTTATG
*
57972538 TAATTTATG
1 TAAGTTATG
*
57972547 TATTGCATTAATG
1 TA-AG--TT-ATG
57972560 TAAGTTATG
1 TAAGTTATG
*
57972569 TAACTTATG
1 TAAGTTATG
*
57972578 TATAATATTAATG
1 --TAA-GTT-ATG
*
57972591 CAAGTTATG
1 TAAGTTATG
*
57972600 TAATTTATG
1 TAAGTTATG
*
57972609 TATAATATTAATG
1 --TAA-GTT-ATG
57972622 TAAGTTATG
1 TAAGTTATG
*
57972631 TAATTTATG
1 TAAGTTATG
*
57972640 TATA-ATAT-
1 TA-AGTTATG
57972648 TAA-TTAAT-
1 TAAGTT-ATG
57972656 TAAGTTATG
1 TAAGTTATG
*
57972665 TAATTTATG
1 TAAGTTATG
*
57972674 TATA-ATAT-
1 TA-AGTTATG
57972682 TAA-TTAAT-
1 TAAGTT-ATG
57972690 TAAGTTATG
1 TAAGTTATG
*
57972699 TAATTTATG
1 TAAGTTATG
*
57972708 TATAATATTAATG
1 --TAA-GTT-ATG
57972721 TAAGTTATG
1 TAAGTTATG
*
57972730 TAATTTATG
1 TAAGTTATG
*
57972739 TTTAATATTAATG
1 --TAA-GTT-ATG
57972752 TAAGTTATG
1 TAAGTTATG
57972761 TAAG-T-TG
1 TAAGTTATG
57972768 TAAGTTATG
1 TAAGTTATG
*
57972777 TAAGTTATA
1 TAAGTTATG
**
57972786 TAAAATAT-
1 TAAGTTATG
57972794 TAA-TTAAT-
1 TAAGTT-ATG
57972802 TAAGTTATG
1 TAAGTTATG
57972811 TAAGTTA
1 TAAGTTA
57972818 ACTATTTTAA
Statistics
Matches: 446, Mismatches: 72, Indels: 132
0.69 0.11 0.20
Matches are distributed among these distances:
6 3 0.01
7 56 0.13
8 64 0.14
9 247 0.55
10 17 0.04
11 23 0.05
12 14 0.03
13 22 0.05
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:57972251 original size:16 final size:16
Alignment explanation
Indices: 57972230--57972349 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
57972220 ATAATTAAGC
57972230 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
57972246 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
57972262 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
57972271 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
57972287 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
57972301 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
57972319 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
57972335 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
57972350 AGTTATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 45 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:57972272 original size:25 final size:25
Alignment explanation
Indices: 57972244--57972398 Score: 129
Period size: 25 Copynumber: 6.2 Consensus size: 25
57972234 TAAGTTATGT
57972244 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
57972269 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
57972294 ATTATGCTATG-TA---AGTTATGTAA
1 ATTATG-TAAGTTATTTA-TTATGAAA
* * * * *
57972317 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
*
57972342 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
57972367 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTAT-TTA-TTATGAA-A
57972395 ATTA
1 ATTA
57972399 AAAAAATGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
22 4 0.04
23 12 0.11
25 71 0.68
26 6 0.06
27 7 0.07
28 5 0.05
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:57972376 original size:34 final size:35
Alignment explanation
Indices: 57972270--57972766 Score: 178
Period size: 34 Copynumber: 14.3 Consensus size: 35
57972260 ATTATGAAAA
* *
57972270 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTA----ATGTAAG
*
57972309 TTATGTAAGTCATAT-AAGTTATG--TATT-ATGTAAG
1 TTATGTAAGT--TATGAA-TTATGAAAATTAATGTAAG
**
57972343 TTATGTAAGTTATTTATTATGAAAATTAA-GTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * * *
57972377 TTATGTAATTTATGAATAATTAAAA-AAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * * *
57972411 TTATGTAAGTTGT-AAGTTATG-TAATTTATGTATTG
1 TTATGTAAGTTATGAA-TTATGAAAATTAATGTA-AG
*
57972446 CATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAG
1 --TT-ATGTAAGTTATG-AA-TTATGAA-AATT-----AATGTAAG
* *
57972492 TTATGTAAGTTGT-AAGTTATGTATAATATTAATTAATTAAG
1 TTATGTAAGTTATGAA-TTATG-A-AA-ATTAA-T--GTAAG
* * *
57972533 TTATGTAATTTATGTA-T-TG--CATTAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * *
57972564 TTATGTAACTTATG---TAT-AATATTAATGCAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* *
57972595 TTATGTAATTTATG---TAT-AATATTAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * * *
57972626 TTATGTAATTTATGTATAAT-ATTAATTAAT-TAAG
1 TTATGTAAGTTATGAATTATGA-AAATTAATGTAAG
* * * *
57972660 TTATGTAATTTATGTATAAT-ATTAATTAAT-TAAG
1 TTATGTAAGTTATGAATTATGA-AAATTAATGTAAG
* *
57972694 TTATGTAATTTATG---TAT-AATATTAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* *
57972725 TTATGTAATTTATG--TT-T-AATATTAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
57972756 TTATGTAAGTT
1 TTATGTAAGTT
57972767 GTAAGTTATG
Statistics
Matches: 373, Mismatches: 46, Indels: 86
0.74 0.09 0.17
Matches are distributed among these distances:
29 1 0.00
30 7 0.02
31 116 0.31
32 9 0.02
33 8 0.02
34 129 0.35
35 8 0.02
37 2 0.01
38 12 0.03
39 15 0.04
40 9 0.02
41 29 0.08
42 7 0.02
43 14 0.04
44 2 0.01
46 1 0.00
47 4 0.01
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (35 bp):
TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
Found at i:57972432 original size:25 final size:25
Alignment explanation
Indices: 57972301--57972465 Score: 80
Period size: 25 Copynumber: 6.6 Consensus size: 25
57972291 AAAATTATGC
*
57972301 TATGTAAGTTATGTAAGTCATATAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
57972328 TATGT-A-TTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
57972353 TAT-TTA-TTATGAAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * **
57972378 TATGTAATTTATGAATAA-TT-AAAAA
1 TATGTAAGTTATG--TAAGTTGTAAGT
*
57972403 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
* *
57972428 TATGTAATTTATGT-A-TTG-CA-T
1 TATGTAAGTTATGTAAGTTGTAAGT
57972449 TAATGTAAGTTATGTAA
1 T-ATGTAAGTTATGTAA
57972466 TTTATGAATA
Statistics
Matches: 109, Mismatches: 17, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
21 2 0.02
22 13 0.12
23 8 0.07
24 5 0.05
25 63 0.58
26 4 0.04
27 10 0.09
28 2 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.44
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTGTAAGT
Found at i:57972456 original size:31 final size:31
Alignment explanation
Indices: 57972421--57972763 Score: 334
Period size: 31 Copynumber: 10.5 Consensus size: 31
57972411 TTATGTAAGT
**
57972421 TGTAAGTTATGTAATTTATGTATTGCATTAA
1 TGTAAGTTATGTAATTTATGTATTATATTAA
* **
57972452 TGTAAGTTATGTAATTTATGAATAATTAAAAAAA
1 TGTAAGTTATGTAATTTATG--T-ATTATATTAA
*
57972486 AGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAA
1 TGTAAGTTATGTAA----T---TTATGTAT--TA-T-ATTAA
**
57972528 T-TAAGTTATGTAATTTATGTATTGCATTAA
1 TGTAAGTTATGTAATTTATGTATTATATTAA
* *
57972558 TGTAAGTTATGTAACTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATTATATTAA
* *
57972589 TGCAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATTATATTAA
57972620 TGTAAGTTATGTAATTTATGTATAATATTAATTAA
1 TGTAAGTTATGTAATTTATGTAT--TA-T-ATTAA
57972655 T-TAAGTTATGTAATTTATGTATAATATTAATTAA
1 TGTAAGTTATGTAATTTATGTAT--TA-T-ATTAA
*
57972689 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATTATATTAA
57972719 TGTAAGTTATGTAATTTATGT-TTAATATTAA
1 TGTAAGTTATGTAATTTATGTATT-ATATTAA
57972750 TGTAAGTTATGTAA
1 TGTAAGTTATGTAA
57972764 GTTGTAAGTT
Statistics
Matches: 270, Mismatches: 21, Indels: 42
0.81 0.06 0.13
Matches are distributed among these distances:
30 13 0.05
31 137 0.51
32 2 0.01
33 2 0.01
34 83 0.31
35 6 0.02
37 1 0.00
38 3 0.01
39 1 0.00
40 2 0.01
41 17 0.06
42 3 0.01
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (31 bp):
TGTAAGTTATGTAATTTATGTATTATATTAA
Found at i:57972477 original size:81 final size:80
Alignment explanation
Indices: 57972366--57972546 Score: 284
Period size: 81 Copynumber: 2.3 Consensus size: 80
57972356 TTATTATGAA
*
57972366 AATTAA-GTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTAAGTTGTAAGTTA
1 AATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTTGTAAGTTA
*
57972430 TGTAATTTATGTATTG
66 TGTAA-TTATATATTG
*
57972446 CATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTTGTAAGTTA
1 AATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTTGTAAGTTA
57972511 TGT-A-TA-ATATT-
66 TGTAATTATATATTG
57972522 AATTAAT-TAAGTTATGTAATTTATG
1 AATTAATGTAAGTTATGTAATTTATG
57972547 TATTGCATTA
Statistics
Matches: 96, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
75 18 0.19
76 6 0.06
77 4 0.04
78 2 0.02
80 6 0.06
81 60 0.62
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.43
Consensus pattern (80 bp):
AATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTTGTAAGTTA
TGTAATTATATATTG
Found at i:57972728 original size:161 final size:163
Alignment explanation
Indices: 57972424--57972763 Score: 479
Period size: 161 Copynumber: 2.1 Consensus size: 163
57972414 TGTAAGTTGT
**
57972424 AAGTTATGTAATTTATGTATTGCATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGT
1 AAGTTATGTAATTTATGTATAACATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGT
**
57972489 AAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTGCA
66 AAGTTATGTAA---GT-A-TTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACA
57972554 TTAATGTAAGTTATGTAACTTATGTATAATATTAATGC
126 TTAATGTAAGTTATGTAACTTATGTATAATATTAATGC
* * * ** *
57972592 AAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAA-TATTAATTAAT
1 AAGTTATGTAATTTATGTATAACATTAATGTAAGTTATGTAATTTATGAATAATTA-AAAAAAAG
*
57972656 TAAGTTATGTAA-T-TTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
65 TAAGTTATGTAAGTATTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACATTAA
* * *
57972719 TGTAAGTTATGTAATTTATGTTTAATATTAATGT
130 TGTAAGTTATGTAACTTATGTATAATATTAATGC
57972753 AAGTTATGTAA
1 AAGTTATGTAA
57972764 GTTGTAAGTT
Statistics
Matches: 157, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
161 89 0.57
164 1 0.01
167 2 0.01
168 65 0.41
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (163 bp):
AAGTTATGTAATTTATGTATAACATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGT
AAGTTATGTAAGTATTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAACATTAAT
GTAAGTTATGTAACTTATGTATAATATTAATGC
Found at i:57972771 original size:16 final size:16
Alignment explanation
Indices: 57972750--57972782 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57972740 TTAATATTAA
57972750 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
57972766 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
57972782 T
1 T
57972783 ATATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:57972775 original size:47 final size:49
Alignment explanation
Indices: 57972719--57972816 Score: 128
Period size: 47 Copynumber: 2.0 Consensus size: 49
57972709 ATAATATTAA
* * **
57972719 TGTAAGTTATGTAATTTATGTTTAATATTAA-T-GTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATAAAATATTAATTAGTAAGTTATGTAAGT
*
57972766 TGTAAGTTATGTAAGTTATATAAAATATTAATTAATTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATAAAATATTAATT-AGTAAGTTATGTAAGT
57972816 T
1 T
57972817 AACTATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 27 0.63
48 1 0.02
50 15 0.35
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (49 bp):
TGTAAGTTATGTAAGTTATATAAAATATTAATTAGTAAGTTATGTAAGT
Found at i:57972802 original size:99 final size:98
Alignment explanation
Indices: 57972502--57972778 Score: 323
Period size: 99 Copynumber: 2.8 Consensus size: 98
57972492 TTATGTAAGT
* * **
57972502 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATG--T-AT-TGCATTAATGTAA
1 TGTAATTTATGTATAATATTAA-T--GTAAGTTATGTAATTTATGTATAATATTAATTAAT-TAA
* * **
57972563 GTTATGTAACTTATGTATAATATTAAT--GCAAGTTA
62 GTAATGTAAGTTATGTATAATATTAATAATTAAGTTA
*
57972598 TGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTAA
*
57972663 TGTAATTTATGTATAATATTAATTAATTAAGTTA
66 TGTAAGTTATGTATAATATTAA-TAATTAAGTTA
* *
57972697 TGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTTTAATATTAATGTAAGTTATGT
1 TGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATTAAT-TAA-TTAAGT
57972762 AAGTTGTAAGTTATGTA
64 AA--TGTAAGTTATGTA
57972779 AGTTATATAA
Statistics
Matches: 159, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
93 18 0.11
95 2 0.01
96 51 0.32
97 8 0.05
99 59 0.37
100 3 0.02
101 6 0.04
103 12 0.08
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (98 bp):
TGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTAA
TGTAAGTTATGTATAATATTAATAATTAAGTTA
Found at i:57972902 original size:16 final size:16
Alignment explanation
Indices: 57972881--57972913 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57972871 AACTCAATTA
57972881 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
57972897 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
57972913 T
1 T
57972914 CTACAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (16 bp):
TATCTTCAAACTTATT
Found at i:57973847 original size:33 final size:33
Alignment explanation
Indices: 57973810--57973872 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
57973800 GAAAAATAAT
**
57973810 AATTAAACTATACAACTAAAATATAACCAAAAA
1 AATTAAACTATACAAAAAAAATATAACCAAAAA
57973843 AATTAAACTATACAAAAAAAATATAACCAA
1 AATTAAACTATACAAAAAAAATATAACCAA
57973873 CTTAAAGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (33 bp):
AATTAAACTATACAAAAAAAATATAACCAAAAA
Found at i:57973854 original size:20 final size:19
Alignment explanation
Indices: 57973826--57973864 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
57973816 ACTATACAAC
*
57973826 TAAAATATAACCAAAAAAAT
1 TAAAATAT-ACAAAAAAAAT
*
57973846 TAAACTATACAAAAAAAAT
1 TAAAATATACAAAAAAAAT
57973865 ATAACCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAATATACAAAAAAAAT
Found at i:57975405 original size:22 final size:22
Alignment explanation
Indices: 57975364--57975417 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
57975354 TTGTATTTTC
* *
57975364 ATTAAAATTTTTAGTAAATAATT
1 ATTAAAGTTTTAAGTAAAT-ATT
57975387 ATTAAAGTTTTAAGT-AATATT
1 ATTAAAGTTTTAAGTAAATATT
*
57975408 -TAAAAGTTTT
1 ATTAAAGTTTT
57975418 TGATAAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.32
21 3 0.11
22 3 0.11
23 13 0.46
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTAAAGTTTTAAGTAAATATT
Found at i:57976326 original size:14 final size:13
Alignment explanation
Indices: 57976301--57976333 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
57976291 CTAAATTAAT
57976301 CCTAAACCCTAAC
1 CCTAAACCCTAAC
57976314 CCTAAATCCCTAAC
1 CCTAAA-CCCTAAC
57976328 CCTAAA
1 CCTAAA
57976334 AAATTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.18
Consensus pattern (13 bp):
CCTAAACCCTAAC
Found at i:57976959 original size:41 final size:41
Alignment explanation
Indices: 57976913--57977300 Score: 611
Period size: 41 Copynumber: 9.5 Consensus size: 41
57976903 GCGCTTCCTT
*
57976913 AAAAACGCCGCTAAAGGTA-C-GAGCATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAA-G-ACCTGAGCATTAGCGGCGCTTATTC
* * *
57976954 AAAAACGCTGCTAAAGACCTGAGCATTAGCGGTGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
57976995 AAAAACGCTGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
* *
57977036 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTACTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
57977077 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
57977118 AAAAACGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
57977159 AAAAACGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
* *
57977200 GAAAACGCCGCTAAATACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
57977241 AAAAACGCCGCTAAAGACCTGAGTATTAGCGGCGCTT-TTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
*
57977281 AGAAAATGCCGCTAAAGACC
1 A-AAAACGCCGCTAAAGACC
57977301 CCAAAAACTC
Statistics
Matches: 329, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.00
40 6 0.02
41 322 0.98
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
Found at i:57977406 original size:40 final size:40
Alignment explanation
Indices: 57977351--57977471 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
57977341 CAGCGCTTTC
*
57977351 CAAAAAACGCTGCTAATGCTTATTTTTAGCGGCGTTTTTT
1 CAAAAAACGCCGCTAATGCTTATTTTTAGCGGCGTTTTTT
* * * * ** *
57977391 TAAAAATCGCCGCTAATGATCGACCTTTAGCGGC-ATTTTT
1 CAAAAAACGCCGCTAATGCT-TATTTTTAGCGGCGTTTTTT
* * * *
57977431 CCAAAAGCGCCGCTACTGCTTGATTTTTAGTGGCGTTTTTT
1 CAAAAAACGCCGCTAATGCTT-ATTTTTAGCGGCGTTTTTT
57977472 GTCCAAACGC
Statistics
Matches: 60, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
40 45 0.75
41 15 0.25
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (40 bp):
CAAAAAACGCCGCTAATGCTTATTTTTAGCGGCGTTTTTT
Found at i:57977872 original size:5 final size:5
Alignment explanation
Indices: 57977862--57977887 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57977852 ACTTGGTTTG
57977862 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
57977888 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:57978965 original size:12 final size:12
Alignment explanation
Indices: 57978948--57979002 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
57978938 CAAATTATTT
57978948 TATTTAAACTAA
1 TATTTAAACTAA
57978960 TATTTAAACT--
1 TATTTAAACTAA
**
57978970 TATTTATTAA-TTC
1 TATTTA--AACTAA
57978983 TATTTAAACTAA
1 TATTTAAACTAA
57978995 TATTTAAA
1 TATTTAAA
57979003 TGTTTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 21 0.58
13 6 0.17
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTTAAACTAA
Found at i:57979022 original size:35 final size:36
Alignment explanation
Indices: 57978939--57979027 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 36
57978929 TTTTGAACAC
57978939 AAAT-TATTTTATTTAAACTAATATTTAAACTTATT
1 AAATATATTTTATTTAAACTAATATTTAAACTTATT
* * *
57978974 TATTA-ATTCTATTTAAACTAATATTTAAA-TGT-TT
1 AAATATATTTTATTTAAACTAATATTTAAACT-TATT
57979008 AAATATATTTTATTTAAACT
1 AAATATATTTTATTTAAACT
57979028 TATTTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
34 6 0.13
35 39 0.87
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.52
Consensus pattern (36 bp):
AAATATATTTTATTTAAACTAATATTTAAACTTATT
Found at i:57979144 original size:58 final size:58
Alignment explanation
Indices: 57978960--57979119 Score: 302
Period size: 58 Copynumber: 2.8 Consensus size: 58
57978950 TTTAAACTAA
57978960 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
57979018 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
* *
57979076 TATTTAAATTTATTTATTAATTCTATTTAACCTAATATTTAAAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAAT
57979120 ATATCAAATG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 100 1.00
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (58 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATGTTTAAATATATTT
Found at i:57979415 original size:14 final size:14
Alignment explanation
Indices: 57979396--57979428 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57979386 ACCTTAAATT
57979396 CCTAAC-TCTTAACC
1 CCTAACATC-TAACC
57979410 CCTAACATCTAACC
1 CCTAACATCTAACC
57979424 CCTAA
1 CCTAA
57979429 ACCCCTAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.24
Consensus pattern (14 bp):
CCTAACATCTAACC
Found at i:57979438 original size:15 final size:15
Alignment explanation
Indices: 57979405--57979446 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
57979395 TCCTAACTCT
**
57979405 TAACCCCT-AACATC
1 TAACCCCTAAACCCC
57979419 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
*
57979434 TAACCCTTAAACC
1 TAACCCCTAAACC
57979447 ATAATTCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:57979689 original size:14 final size:14
Alignment explanation
Indices: 57979665--57979719 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
57979655 TTCTAAACCT
*
57979665 TAAATCCCTAACTC
1 TAAACCCCTAACTC
*
57979679 TTAACCCCTAACGTC
1 TAAACCCCTAAC-TC
*
57979694 -AAACCCCTAATGTC
1 TAAACCCCTAA-CTC
57979708 TAAACCCCTAAC
1 TAAACCCCTAAC
57979720 CCCTAAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.35, C:0.38, G:0.04, T:0.24
Consensus pattern (14 bp):
TAAACCCCTAACTC
Found at i:57979714 original size:15 final size:14
Alignment explanation
Indices: 57979681--57979719 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
57979671 CCTAACTCTT
57979681 AACCCCTAACGTCA
1 AACCCCTAACGTCA
*
57979695 AACCCCTAATGTCTA
1 AACCCCTAACGTC-A
57979710 AACCCCTAAC
1 AACCCCTAAC
57979720 CCCTAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.36, C:0.41, G:0.05, T:0.18
Consensus pattern (14 bp):
AACCCCTAACGTCA
Found at i:57979765 original size:14 final size:14
Alignment explanation
Indices: 57979748--57979774 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57979738 AACCCTTAAA
57979748 CCATAATCCCTAAT
1 CCATAATCCCTAAT
57979762 CCATAATCCCTAA
1 CCATAATCCCTAA
57979775 ACCTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:57993029 original size:15 final size:15
Alignment explanation
Indices: 57993010--57993047 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
57993000 TAATTAAGGT
57993010 TTAATTAAATAATT-
1 TTAATTAAATAATTA
*
57993024 TATAATTAATTAATTA
1 T-TAATTAAATAATTA
57993040 TTAATTAA
1 TTAATTAA
57993048 GGTATATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTAAATAATTA
Found at i:57996198 original size:16 final size:14
Alignment explanation
Indices: 57996169--57996202 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57996159 TTAGCTTATT
57996169 AAATATAAATAAAA
1 AAATATAAATAAAA
* *
57996183 AAATATAAACATAA
1 AAATATAAATAAAA
57996197 AAATAT
1 AAATAT
57996203 TACAAACTAA
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:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATATAAATAAAA
Found at i:57996790 original size:32 final size:34
Alignment explanation
Indices: 57996753--57996826 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
57996743 CTATGTTATA
* *
57996753 GTTTATGCTAATT-ATATTTTTATTATAA-GGAT
1 GTTTATGCTAATTGATATTATTATAATAAGGGAT
*
57996785 TTTTATGCTAATTGGATATTATTATAATAAGGGAT
1 GTTTATGCTAATT-GATATTATTATAATAAGGGAT
57996820 GTTTATG
1 GTTTATG
57996827 GGATTGAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 12 0.34
34 13 0.37
35 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (34 bp):
GTTTATGCTAATTGATATTATTATAATAAGGGAT
Found at i:58009818 original size:38 final size:38
Alignment explanation
Indices: 58009775--58009848 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
58009765 TATTTACCAG
* *
58009775 ACTTAATCAACCTTTCAAGATATATTCTATTTTTTAAA
1 ACTTAATCAACCTTCCAAGATATATTCTAATTTTTAAA
58009813 ACTTAATCAACCTTCCAAGATATATTCTAATTTTTA
1 ACTTAATCAACCTTCCAAGATATATTCTAATTTTTA
58009849 GTGCAACCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (38 bp):
ACTTAATCAACCTTCCAAGATATATTCTAATTTTTAAA
Found at i:58015404 original size:35 final size:35
Alignment explanation
Indices: 58015353--58015552 Score: 113
Period size: 35 Copynumber: 5.6 Consensus size: 35
58015343 AGAGTTCATC
* * *
58015353 GATTTACAATCTCAACTTCATTGAAACAGCTCGTT
1 GATTTACGATCACAACTTCATTTAAACAGCTCGTT
* **
58015388 GATTTACGATCACAACTGTCATTTTTTAA-AGCTCACT
1 GATTTACGATCACAACT-TCA--TTTAAACAGCTCGTT
* * * *
58015425 AATTTACGATCATGAACACTTCA-TT-AAGAGTTCGTT
1 GATTTACGATCA--CA-ACTTCATTTAAACAGCTCGTT
** * * **
58015461 GATTTACGATTGCAACTCCATTTAAACAGTTCACT
1 GATTTACGATCACAACTTCATTTAAACAGCTCGTT
*
58015496 GATTTATGATCACAACTTTCATTTTTCAAAC--CTCGTT
1 GATTTACGATCACAAC-TTCA--TTT-AAACAGCTCGTT
*
58015533 GATTTACGATCACAGCTTCA
1 GATTTACGATCACAACTTCA
58015553 GTTCATTAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
33 5 0.04
34 3 0.02
35 38 0.31
36 26 0.21
37 34 0.27
38 7 0.06
39 8 0.06
40 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (35 bp):
GATTTACGATCACAACTTCATTTAAACAGCTCGTT
Found at i:58015507 original size:108 final size:108
Alignment explanation
Indices: 58015316--58015544 Score: 298
Period size: 108 Copynumber: 2.1 Consensus size: 108
58015306 TTCACTTTAT
* *
58015316 TAATTTACAATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCTCAACTTCATTGAAACA
1 TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCTCAACTCCATTGAAACA
** * *
58015381 GCTCGTTGATTTACGATCACAACTGTCATTTTTTAAAGCTCAC
66 GCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
* * * *
58015424 TAATTTACGATCATGAACACTTCATTAAGAGTTCGTTGATTTACGAT-TGCAACTCCATTTAAAC
1 TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCT-CAACTCCATTGAAAC
* * * **
58015488 AGTTCACTGATTTATGATCACAACTTTCATTTTTCAAACCTCGT
65 AGCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
*
58015532 TGATTTACGATCA
1 TAATTTACGATCA
58015545 CAGCTTCAGT
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 103 0.99
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (108 bp):
TAATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACAATCTCAACTCCATTGAAACA
GCTCACTGATTTACGATCACAACTGTCATTTTTCAAACCTCAC
Found at i:58015734 original size:36 final size:36
Alignment explanation
Indices: 58015687--58015778 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
58015677 TCACAACTTC
* *
58015687 AGTTCATTGATTTATAATCATAAATAATTCATTAAA
1 AGTTCGTTGATTTATAATCATAAACAATTCATTAAA
* *
58015723 AGTTCGTTGATTTA-AGATCATGAACAATTCATTAAG
1 AGTTCGTTGATTTATA-ATCATAAACAATTCATTAAA
*
58015759 AGTTCGTTGATTTATGATCA
1 AGTTCGTTGATTTATAATCA
58015779 CAACTCCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (36 bp):
AGTTCGTTGATTTATAATCATAAACAATTCATTAAA
Found at i:58015735 original size:135 final size:135
Alignment explanation
Indices: 58015424--58015736 Score: 401
Period size: 135 Copynumber: 2.3 Consensus size: 135
58015414 TAAAGCTCAC
* * * * *
58015424 TAATTTACGATCATGAACACTTCATTAAGAGTTCGTTGATTTACGATTGCAACTCCATTTAAACA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
* ** * * * *
58015489 GTTCACTGATTTATGATCACAACTTTCATTTTTCAAACCTCGTTGATTTACGATCACAGCTTCAG
66 GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
58015554 TTCAT
131 TTCAT
* * * *** *
58015559 TAATTTACAATCATGACCACTTCATTAAGAGTTCACCGATTTACAATCGCAACTCCATTTAAATA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
* *
58015624 GTTCACAGATTTACAATCAAAACTGTAATTTTTTAAAGCTCGTTGATTTACGATCACAACTTCAG
66 GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
58015689 TTCAT
131 TTCAT
* * * *
58015694 TGATTTATAATCATAAATAATTCATTAAAAGTTCGTTGATTTA
1 TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTA
58015737 AGATCATGAA
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
135 151 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (135 bp):
TAATTTACAATCATAAACAATTCATTAAGAGTTCGTTGATTTACAATCGCAACTCCATTTAAACA
GTTCACAGATTTACAATCAAAACTGTAATTTTTCAAACCTCGTTGATTTACGATCACAACTTCAG
TTCAT
Found at i:58016943 original size:26 final size:26
Alignment explanation
Indices: 58016907--58016958 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
58016897 ATAACTTTTT
58016907 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
58016933 TTTATTTACCAAAATATATAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAA
58016959 AAATCAGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTATTTACCAAAATATATAAAAAAA
Found at i:58017030 original size:27 final size:27
Alignment explanation
Indices: 58017000--58017093 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 27
58016990 CGCCAATGGG
* *
58017000 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
58017027 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAATGGTGCCAATACC
* *
58017054 ATTGGTGGCACCAATGGTGCC-ATACTA
1 ATTGGCGGCACCAATGGTGCCAATAC-C
58017081 ATTGGCGGCACCA
1 ATTGGCGGCACCA
58017094 CTCGTATTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.05
27 56 0.95
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:58017190 original size:11 final size:11
Alignment explanation
Indices: 58017174--58017210 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
58017164 GTTGGCGCGG
58017174 AAAAGAAGAGA
1 AAAAGAAGAGA
58017185 AAAAG-AGAGA
1 AAAAGAAGAGA
*
58017195 AAAAGAGGAGA
1 AAAAGAAGAGA
58017206 AAAAG
1 AAAAG
58017211 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:58017273 original size:19 final size:21
Alignment explanation
Indices: 58017235--58017273 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
58017225 AATAATTGAT
*
58017235 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
58017256 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
58017274 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:58017352 original size:3 final size:3
Alignment explanation
Indices: 58017346--58017395 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
58017336 ATTATTATTA
58017346 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
58017394 TT
1 TT
58017396 AGTATTAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:58017614 original size:26 final size:26
Alignment explanation
Indices: 58017585--58017637 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
58017575 TTTTAGTGTG
*
58017585 TATTATTTTGAGTATAAAATTATTAA
1 TATTATTTTGAGTATAAAATTAATAA
58017611 TATTATTTTGAGTATAAAATTAATAA
1 TATTATTTTGAGTATAAAATTAATAA
58017637 T
1 T
58017638 TTTAGTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (26 bp):
TATTATTTTGAGTATAAAATTAATAA
Found at i:58019246 original size:27 final size:28
Alignment explanation
Indices: 58019206--58019261 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
58019196 GATCTGATTT
58019206 TTTTTTTTGGATATATTTTGGTAAATAAA
1 TTTTTTTT-GATATATTTTGGTAAATAAA
58019235 TTTTTTTT-ATATATTTTGGTAAATAAA
1 TTTTTTTTGATATATTTTGGTAAATAAA
58019262 AAAAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 19 0.70
29 8 0.30
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (28 bp):
TTTTTTTTGATATATTTTGGTAAATAAA
Found at i:58027537 original size:14 final size:14
Alignment explanation
Indices: 58027518--58027545 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58027508 TTGCCTTTAA
58027518 AAATAAGTTAATTC
1 AAATAAGTTAATTC
58027532 AAATAAGTTAATTC
1 AAATAAGTTAATTC
58027546 TTTTTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
AAATAAGTTAATTC
Found at i:58028425 original size:57 final size:58
Alignment explanation
Indices: 58028302--58028437 Score: 229
Period size: 58 Copynumber: 2.4 Consensus size: 58
58028292 GTTAAACATT
***
58028302 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAATTTT
1 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAATAAA
*
58028360 TTTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAA-AAA
1 ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAATAAA
58028417 ATTTATAACATTGTCAAATTT
1 ATTTATAACATTGTCAAATTT
58028438 TTTTGTTTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
57 20 0.27
58 53 0.73
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (58 bp):
ATTTATAACATTGTCAAATTTATAATTTAAAAAATTATAAAAAATAGAAATAAATAAA
Found at i:58031779 original size:14 final size:14
Alignment explanation
Indices: 58031756--58031795 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
58031746 ACAGAAAAGT
*
58031756 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
58031770 AAATCATTTTACGG
1 AAAACATTTTACAG
58031784 AAAACATTTTAC
1 AAAACATTTTAC
58031796 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:58031781 original size:34 final size:35
Alignment explanation
Indices: 58031721--58031787 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
58031711 CAAACACCAG
* *
58031721 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
58031756 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
58031788 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:58038946 original size:64 final size:64
Alignment explanation
Indices: 58038878--58039219 Score: 170
Period size: 64 Copynumber: 5.2 Consensus size: 64
58038868 GTTAAGCTTC
58038878 GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
1 GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
* * * * * * *
58038942 GCTGATTTTATATCACTACTCTAAATAGCTCGTT-GATTTAATATTGCAGCTG--ATA-C-CAT-
1 GCTGATTTAATATCGCAAC-CT--A-AGTTCATTCGATTTAATA-T-CA--TGAAAAATCTTATC
*
58039001 TAAGGTTCA
58 TGA-GTT-A
* * ** ** *
58039010 -CTAATTTAATATCGCAACCTAAGTTCTTTTAATTTAATATCATGACCAATCTTATCTGAGTGA
1 GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
* * * * * *
58039073 ACTGATTTAATATCGCTACTCTAA--ACAACTAGCTGATTTAATATC-TCAATTGATATCGTTA-
1 GCTGATTTAATATCGCAAC-CTAAGTTC-A-T-TC-GATTTAATATCATGAA---AAATC-TTAT
* *
58039134 -AG-GTTC
57 CTGAGTTA
* * * *
58039140 GCTGATTTAATATCACAACCTAAGTTCATTTGATTTAATATCATGAACAATATTATCTGAGTTA
1 GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
*
58039204 GTTGATTTAATATCGC
1 GCTGATTTAATATCGC
58039220 TACTCTAAAC
Statistics
Matches: 198, Mismatches: 48, Indels: 64
0.64 0.15 0.21
Matches are distributed among these distances:
60 2 0.01
61 3 0.02
62 5 0.03
63 11 0.06
64 73 0.37
65 12 0.06
66 11 0.06
67 58 0.29
68 11 0.06
69 7 0.04
70 3 0.02
71 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (64 bp):
GCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTATCTGAGTTA
Found at i:58039022 original size:131 final size:131
Alignment explanation
Indices: 58038804--58039280 Score: 605
Period size: 131 Copynumber: 3.6 Consensus size: 131
58038794 TAATTATCTT
* * * * * *
58038804 TGAGCTAGCTGATTTAATACCGCTACTCTAAATAGCTCACTGATTTAATATCACAGCTAATAAT-
1 TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATCGCAGCTGAT-ATC
* * * * *
58038868 GTTAAGCTTCGCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAAAAATCTTA
65 ATTAAGGTTCACTGATTTAATATCGCAACCTAAGTTCATTTGATTTAATATCATGAACAATCTTA
58038933 TC
130 TC
* * * * * *
58038935 TGAGTTAGCTGATTTTATATCACTACTCTAAATAGCTCGTTGATTTAATATTGCAGCTGATACCA
1 TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATCGCAGCTGATATCA
* * * *
58039000 TTAAGGTTCACTAATTTAATATCGCAACCTAAGTTCTTTTAATTTAATATCATGACCAATCTTAT
66 TTAAGGTTCACTGATTTAATATCGCAACCTAAGTTCATTTGATTTAATATCATGAACAATCTTAT
58039065 C
131 C
* * * * * ** *
58039066 TGAGTGAACTGATTTAATATCGCTACTCTAAACAACTAGCTGATTTAATATCTCAATTGATATCG
1 TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATCGCAGCTGATATCA
* * *
58039131 TTAAGGTTCGCTGATTTAATATCACAACCTAAGTTCATTTGATTTAATATCATGAACAATATTAT
66 TTAAGGTTCACTGATTTAATATCGCAACCTAAGTTCATTTGATTTAATATCATGAACAATCTTAT
58039196 C
131 C
* * * * *
58039197 TGAGTTAGTTGATTTAATATCGCTACTCTAAACAGCTTGTTGATTTAAGATCGTAGCTGATATCA
1 TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATCGCAGCTGATATCA
58039262 TTAAGGTTCACTGATTTAA
66 TTAAGGTTCACTGATTTAA
58039281 GACAACCTCT
Statistics
Matches: 292, Mismatches: 53, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
130 1 0.00
131 291 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (131 bp):
TGAGTTAGCTGATTTAATATCGCTACTCTAAACAGCTCGCTGATTTAATATCGCAGCTGATATCA
TTAAGGTTCACTGATTTAATATCGCAACCTAAGTTCATTTGATTTAATATCATGAACAATCTTAT
C
Found at i:58041795 original size:3 final size:3
Alignment explanation
Indices: 58041789--58041818 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
58041779 CTATTTTATT
58041789 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58041819 TTTTATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:58046100 original size:29 final size:30
Alignment explanation
Indices: 58046068--58046130 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
58046058 ATATAGTACA
58046068 AATTAGATATTTT-TTTTATAA-ATTAATAT
1 AATTAGATATTTTCTTTTATAATATTAA-AT
** *
58046097 AATTTTATGTTTTCTTTTATAATATTAAAT
1 AATTAGATATTTTCTTTTATAATATTAAAT
58046127 AATT
1 AATT
58046131 TTATACATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.34
30 14 0.48
31 5 0.17
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (30 bp):
AATTAGATATTTTCTTTTATAATATTAAAT
Found at i:58046117 original size:30 final size:29
Alignment explanation
Indices: 58046077--58046134 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
58046067 AAATTAGATA
58046077 TTTTTTTTATAA-ATTAATATAATTTTATG
1 TTTTTTTTATAATATTAA-ATAATTTTATG
58046106 TTTTCTTTTATAATATTAAATAATTTTAT
1 TTTT-TTTTATAATATTAAATAATTTTAT
58046135 ACATATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 4 0.15
30 18 0.67
31 5 0.19
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTTTTTATAATATTAAATAATTTTATG
Found at i:58060748 original size:30 final size:31
Alignment explanation
Indices: 58060712--58060790 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
58060702 ACTTAACTAA
* * *
58060712 AAAAGTTATAATTT-GGTTATTGAACTATTC
1 AAAAGTTATAATTTAAGTCACTGAACTATTC
* *
58060742 AAAAGTTTTCATTTAAGTCACTGAACTATTC
1 AAAAGTTATAATTTAAGTCACTGAACTATTC
* *
58060773 AAAAGTTTTTATTTAAGT
1 AAAAGTTATAATTTAAGT
58060791 TATTGATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 12 0.29
31 30 0.71
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (31 bp):
AAAAGTTATAATTTAAGTCACTGAACTATTC
Found at i:58060769 original size:31 final size:31
Alignment explanation
Indices: 58060732--58060790 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
58060722 ATTTGGTTAT
58060732 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
1 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
*
58060763 TGAACTATTCAAAAGTTTTTATTTAAGT
1 TGAACTATTCAAAAGTTTTCATTTAAGT
58060791 TATTGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTCAC
Found at i:58061918 original size:20 final size:21
Alignment explanation
Indices: 58061884--58061934 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
58061874 TTTTTAAAAA
** *
58061884 CTTTTTCCATTTTTTTC-TTT
1 CTTTTTCCAGGTTTTCCTTTT
58061904 CTTTTTCCAGGTTTTCCTTTT
1 CTTTTTCCAGGTTTTCCTTTT
58061925 CTTCTTTCCA
1 CTT-TTTCCA
58061935 ATTTCCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 14 0.54
21 6 0.23
22 6 0.23
ACGTcount: A:0.06, C:0.25, G:0.04, T:0.65
Consensus pattern (21 bp):
CTTTTTCCAGGTTTTCCTTTT
Found at i:58064762 original size:17 final size:17
Alignment explanation
Indices: 58064736--58064775 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
58064726 TGTCTCTCTC
*
58064736 ACAATTTAAACATTCTT
1 ACAATGTAAACATTCTT
58064753 ACAATGTAAACATTCTT
1 ACAATGTAAACATTCTT
58064770 ACAATG
1 ACAATG
58064776 CGCTTATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (17 bp):
ACAATGTAAACATTCTT
Found at i:58069482 original size:5 final size:5
Alignment explanation
Indices: 58069474--58069505 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
58069464 TTTCGGCTCA
58069474 TTTAT TTTAT TTTAT TTTAT TTTA- TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
58069506 TAAAGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:58069677 original size:22 final size:22
Alignment explanation
Indices: 58069651--58069700 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
58069641 CACCGCGGAT
58069651 GGCGGCGCCGTCACCGGCAACC
1 GGCGGCGCCGTCACCGGCAACC
*
58069673 GGCGGCGTCGTCACCGGCAACC
1 GGCGGCGCCGTCACCGGCAACC
58069695 GGCGGC
1 GGCGGC
58069701 TGCCACAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.12, C:0.42, G:0.40, T:0.06
Consensus pattern (22 bp):
GGCGGCGCCGTCACCGGCAACC
Found at i:58074033 original size:21 final size:22
Alignment explanation
Indices: 58073985--58074034 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
58073975 TGATAAAAGA
58073985 AATAAAAAAGTATTAAATTTAT
1 AATAAAAAAGTATTAAATTTAT
58074007 AA-AAAAAA-TATTAAATTT-T
1 AATAAAAAAGTATTAAATTTAT
*
58074026 AATTAAAAA
1 AATAAAAAA
58074035 TAAAAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 15 0.58
21 6 0.23
22 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AATAAAAAAGTATTAAATTTAT
Found at i:58074079 original size:19 final size:18
Alignment explanation
Indices: 58074057--58074121 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
58074047 AAAAAACATA
58074057 AAAATCATTTAAAAATTAT
1 AAAAT-ATTTAAAAATTAT
* *
58074076 AAAAAATTGTAAAATTTTAT
1 AAAATATT-TAAAA-ATTAT
* *
58074096 AAAAATAGTAAAAAATTAT
1 -AAAATATTTAAAAATTAT
58074115 AAAATAT
1 AAAATAT
58074122 ATAGAAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
18 9 0.25
19 13 0.36
20 8 0.22
21 6 0.17
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATATTTAAAAATTAT
Found at i:58074080 original size:10 final size:10
Alignment explanation
Indices: 58074067--58074179 Score: 56
Period size: 10 Copynumber: 11.4 Consensus size: 10
58074057 AAAATCATTT
58074067 AAAAATTATA
1 AAAAATTATA
*
58074077 AAAAATTGTA
1 AAAAATTATA
**
58074087 AAATTTTAT-
1 AAAAATTATA
58074096 AAAAA-TAGTA
1 AAAAATTA-TA
58074106 AAAAATTATA
1 AAAAATTATA
*
58074116 AAATA-TATA
1 AAAAATTATA
* * *
58074125 GAAATATAGAAA
1 -AAAAAT-TATA
58074137 AAAAATTAT-
1 AAAAATTATA
*
58074146 -AAAATTTTA
1 AAAAATTATA
* * *
58074155 TAAAGTTGTA
1 AAAAATTATA
58074165 AGAAAATTATA
1 A-AAAATTATA
58074176 AAAA
1 AAAA
58074180 TGTAAAGAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
8 9 0.12
9 8 0.11
10 42 0.55
11 15 0.20
12 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:58074089 original size:29 final size:29
Alignment explanation
Indices: 58074066--58074178 Score: 115
Period size: 29 Copynumber: 3.8 Consensus size: 29
58074056 AAAAATCATT
*
58074066 TAAAAATTA-TAAAAAATTGTAAAATTTTA
1 TAAAAA-TAGTAAAAAATTATAAAATTTTA
*
58074095 TAAAAATAGTAAAAAATTATAAAA-TATA
1 TAAAAATAGTAAAAAATTATAAAATTTTA
*
58074123 TAGAAATATAGAAAAAAAATTATAAAATTTTA
1 TA-AAA-ATAG-TAAAAAATTATAAAATTTTA
* *
58074155 T-AAAGTTGTAAGAAAATTATAAAA
1 TAAAAATAGTAA-AAAATTATAAAA
58074179 ATGTAAAGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
28 9 0.13
29 37 0.52
30 7 0.10
31 14 0.20
32 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (29 bp):
TAAAAATAGTAAAAAATTATAAAATTTTA
Found at i:58074171 original size:60 final size:61
Alignment explanation
Indices: 58074076--58074193 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 61
58074066 TAAAAATTAT
* *
58074076 AAAAAATTGTAAAATTTTATAAAAATAGTAAAAAATTAT-AAAATATATAGAAATATAGAA
1 AAAAAATTATAAAATTTTATAAAAATAGTAAAAAATTATAAAAATATAAAGAAATATAGAA
* * *
58074136 AAAAAATTATAAAATTTTAT-AAAGTTGTAAGAAAATTATAAAAATGTAAAGAAATATA
1 AAAAAATTATAAAATTTTATAAAAATAGTAA-AAAATTATAAAAATATAAAGAAATATA
58074194 AAATTCATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 8 0.16
60 27 0.53
61 16 0.31
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (61 bp):
AAAAAATTATAAAATTTTATAAAAATAGTAAAAAATTATAAAAATATAAAGAAATATAGAA
Found at i:58074441 original size:28 final size:28
Alignment explanation
Indices: 58074388--58074444 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
58074378 TTTTTGATGC
* *
58074388 ATTTTATATTTTTTATGATTTTTATAAA
1 ATTTTATATTTTTTAAGATTTCTATAAA
58074416 ATTTTATATTTTTTACAG-TTTCTATAAA
1 ATTTTATATTTTTTA-AGATTTCTATAAA
58074444 A
1 A
58074445 AATTCTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (28 bp):
ATTTTATATTTTTTAAGATTTCTATAAA
Found at i:58076015 original size:20 final size:20
Alignment explanation
Indices: 58075992--58076032 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
58075982 ATTTAACAGA
58075992 AGAATTTTAATGATAATAGC
1 AGAATTTTAATGATAATAGC
58076012 AGAATTTTAATGATAATAGC
1 AGAATTTTAATGATAATAGC
58076032 A
1 A
58076033 ATTGAACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (20 bp):
AGAATTTTAATGATAATAGC
Found at i:58088094 original size:27 final size:28
Alignment explanation
Indices: 58088044--58088097 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
58088034 TTATAGAAAA
* *
58088044 TATAAAAATTTATTGACAGTTAAATTAT
1 TATAAAAATTAATGGACAGTTAAATTAT
*
58088072 TATAAAAATTAATGGAGAG-TAAATTA
1 TATAAAAATTAATGGACAGTTAAATTA
58088098 CTGATATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (28 bp):
TATAAAAATTAATGGACAGTTAAATTAT
Found at i:58090850 original size:54 final size:54
Alignment explanation
Indices: 58090781--58090883 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
58090771 AAATTGGGAC
* * *
58090781 ACACGACTGTGTCCCAGCTCATGTCTCTGCCCATGTAACTCTCTGACTTGAGAT
1 ACACGACTGTATCCCAGCTCATGTCTCTGACCATGTAACTCACTGACTTGAGAT
* * *
58090835 ACACGGCTGTATCCCAGCTCGTGTCTCTGACCGTGTAACTCACTGACTT
1 ACACGACTGTATCCCAGCTCATGTCTCTGACCATGTAACTCACTGACTT
58090884 AGGTCACATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (54 bp):
ACACGACTGTATCCCAGCTCATGTCTCTGACCATGTAACTCACTGACTTGAGAT
Found at i:58094929 original size:9 final size:9
Alignment explanation
Indices: 58094915--58094951 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
58094905 TGAGTTTTCG
58094915 AATTCGAAT
1 AATTCGAAT
58094924 AATTCGAAT
1 AATTCGAAT
58094933 AATTCGAAT
1 AATTCGAAT
58094942 AATTCGAAT
1 AATTCGAAT
58094951 A
1 A
58094952 TCAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:58099831 original size:8 final size:8
Alignment explanation
Indices: 58099818--58099843 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
58099808 CAAGTTTTTC
58099818 ATCTATTT
1 ATCTATTT
58099826 ATCTATTT
1 ATCTATTT
58099834 ATCTATTT
1 ATCTATTT
58099842 AT
1 AT
58099844 TATATAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (8 bp):
ATCTATTT
Found at i:58103763 original size:60 final size:60
Alignment explanation
Indices: 58103644--58103764 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
58103634 ATCCTAAATC
* **
58103644 ACAAACAGTAAGGCACACGGCCTGGACACACGTCCGTGTCTCTGGCCTATGTGGCCTCTA
1 ACAAACAGTAAGGCACACGGCCTCGACACACGTCCGTGTCTCTGGCCTATGTAACCTCTA
* * * * * *
58103704 ACAAACAGTTAGTCATACGGCCTCGACACATG-CCTGTGTCTCTGGCCTGTGTAATCTCTA
1 ACAAACAGTAAGGCACACGGCCTCGACACACGTCC-GTGTCTCTGGCCTATGTAACCTCTA
58103764 A
1 A
58103765 ATCACAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 2 0.04
60 49 0.96
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (60 bp):
ACAAACAGTAAGGCACACGGCCTCGACACACGTCCGTGTCTCTGGCCTATGTAACCTCTA
Found at i:58103796 original size:64 final size:63
Alignment explanation
Indices: 58103637--58103871 Score: 183
Period size: 64 Copynumber: 3.7 Consensus size: 63
58103627 CTGTGTGATC
* * * * * **
58103637 CTAAATCACAAACAGTAAGGCACACGGCCTGGACACACGTCCGTGTCTCTGGCCTATGTGGCCT
1 CTAAATCACAAACAGTTAGTCACACGGCCTAGACACATG-CCGTGTCTCTGGCCTGTGTAACCT
* * *
58103701 CT--A--ACAAACAGTTAGTCATACGGCCTCGACACATGCCTGTGTCTCTGGCCTGTGTAATCT
1 CTAAATCACAAACAGTTAGTCACACGGCCTAGACACATGCC-GTGTCTCTGGCCTGTGTAACCT
* * * * * * *
58103761 CTAAATCACAAATAGTTAGTCACACAGCCTAGACACACAT-CCATGTATCTGGCCCGTATAGCCT
1 CTAAATCACAAACAGTTAGTCACACGGCCTAG--ACACATGCCGTGTCTCTGGCCTGTGTAACCT
* * * * * *
58103825 CTAAATCACAAATAGTAAGCCATACGGCCTGGACACACTCCCGTGTC
1 CTAAATCACAAACAGTTAGTCACACGGCCTAGACACA-TGCCGTGTC
58103872 CTTAGCTCGT
Statistics
Matches: 136, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
59 2 0.01
60 47 0.35
62 7 0.05
63 1 0.01
64 71 0.52
65 2 0.01
66 6 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (63 bp):
CTAAATCACAAACAGTTAGTCACACGGCCTAGACACATGCCGTGTCTCTGGCCTGTGTAACCT
Found at i:58115584 original size:43 final size:42
Alignment explanation
Indices: 58115527--58115612 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
58115517 AAGGCACATA
* * * *
58115527 GAAAAGAGGAATCAGCAGTTCTTTTAATGTCGTCCCTTGCAT
1 GAAAAGAGAAATCAGCAGCTCCTTTAATGTCGTCCCATGCAT
58115569 GAAAAGGAGAAATCAGCAGCTCCTTTAATGTCGTCCCATGCAT
1 GAAAA-GAGAAATCAGCAGCTCCTTTAATGTCGTCCCATGCAT
58115612 G
1 G
58115613 CTTTCTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
GAAAAGAGAAATCAGCAGCTCCTTTAATGTCGTCCCATGCAT
Found at i:58120483 original size:13 final size:13
Alignment explanation
Indices: 58120465--58120489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58120455 TCCAGCAACT
58120465 ATGAATTTATTTC
1 ATGAATTTATTTC
58120478 ATGAATTTATTT
1 ATGAATTTATTT
58120490 GATGTTGATT
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:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
ATGAATTTATTTC
Done.