Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 202 of 310
Found at i:66052414 original size:36 final size:36
Alignment explanation
Indices: 66052361--66052447 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
66052351 TAACTTACAC
*
66052361 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
* * *
66052395 AACTTATATACCTTACATAAATGTATATCATAACAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
66052431 AACTTACATAACTTACA
1 AACTTACATAACTTACA
66052448 AAGCTTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 9 0.20
36 36 0.80
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:66052427 original size:115 final size:107
Alignment explanation
Indices: 66052157--66052411 Score: 332
Period size: 115 Copynumber: 2.3 Consensus size: 107
66052147 TAATATTTAT
*
66052157 TATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
1 TATATATCATAT-ATAACTTATATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
66052222 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
65 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
* * * *
66052265 TATATTTCATAAATATGTATCATATCATAACTTACACAACTTACATAATAC-TCCAAATATATAT
1 TATATATCAT--ATA--TAACTTAT-ATAACTTACAAAACTTACATAATACAT--AAATATATAT
* *
66052329 CATAAATATATATATCTTATCATAACTTACACAACTTACATAATACATAAA
59 CAT-AA-ATATATATCATATCATAACTTACACAACTAACATAATACATAAA
*
66052380 TATATATCATATCATAACTTATATACCTTACA
1 TATATATCATAT-ATAACTTATATAACTTACA
66052412 TAAATGTATA
Statistics
Matches: 126, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
108 9 0.07
109 1 0.01
110 2 0.02
111 15 0.12
112 30 0.24
113 15 0.12
114 3 0.02
115 51 0.40
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (107 bp):
TATATATCATATATAACTTATATAACTTACAAAACTTACATAATACATAAATATATATCATAAAT
ATATATCATATCATAACTTACACAACTAACATAATACATAAA
Found at i:66052441 original size:9 final size:9
Alignment explanation
Indices: 66052344--66052464 Score: 63
Period size: 9 Copynumber: 13.6 Consensus size: 9
66052334 ATATATATAT
66052344 CTTATCATAA
1 CTTA-CATAA
*
66052354 CTTACACAA
1 CTTACATAA
66052363 CTTACATAA
1 CTTACATAA
66052372 --TACATAA
1 CTTACATAA
* * *
66052379 -ATATATAT
1 CTTACATAA
*
66052387 CATATCATAA
1 CTTA-CATAA
* *
66052397 CTTATATAC
1 CTTACATAA
66052406 CTTACATAA
1 CTTACATAA
* * *
66052415 ATGTATATCA
1 CT-TACATAA
*
66052425 -TAACATAA
1 CTTACATAA
66052433 CTTACATAA
1 CTTACATAA
66052442 CTTACA-AA
1 CTTACATAA
*
66052450 GCTTACTTAA
1 -CTTACATAA
66052460 CTTAC
1 CTTAC
66052465 GTAATATATA
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
7 7 0.08
8 11 0.13
9 50 0.59
10 17 0.20
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.35
Consensus pattern (9 bp):
CTTACATAA
Found at i:66058013 original size:15 final size:16
Alignment explanation
Indices: 66057988--66058018 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
66057978 ACAACAACTT
66057988 AGAGTGGAGGCAGCAG
1 AGAGTGGAGGCAGCAG
66058004 AGAG-GGAGGCAGCAG
1 AGAGTGGAGGCAGCAG
66058019 CAGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.13, G:0.52, T:0.03
Consensus pattern (16 bp):
AGAGTGGAGGCAGCAG
Found at i:66058023 original size:21 final size:21
Alignment explanation
Indices: 66057997--66058069 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
66057987 TAGAGTGGAG
*
66057997 GCAGCAGAGAGGGAGGCAGCA
1 GCAGCAGCGAGGGAGGCAGCA
66058018 GCAGCAGCGAGGGAGGCAGC-
1 GCAGCAGCGAGGGAGGCAGCA
66058038 GACAGCAGCGAGGGAGGCAG-A
1 G-CAGCAGCGAGGGAGGCAGCA
66058059 GGCAGCAGCGA
1 -GCAGCAGCGA
66058070 TGGCAGTAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.48, T:0.00
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGCA
Found at i:66058523 original size:43 final size:42
Alignment explanation
Indices: 66058437--66058527 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 42
66058427 TCTGTCAAAA
*
66058437 TTAGCGGCGTTTGCCAAAAAAAGCCGCTAAAAGCCGTGACTT
1 TTAGCGGCGTTTGCCAAAAAAAGCCGCTAAAAGCCATGACTT
* * * * * *
66058479 TTAGTGGCGCTTTTCCAACAAACGCCGCTAAAGGCCATGGCTT
1 TTAGCGGCG-TTTGCCAAAAAAAGCCGCTAAAAGCCATGACTT
66058522 TTAGCG
1 TTAGCG
66058528 TTTTTTTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 8 0.20
43 32 0.80
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (42 bp):
TTAGCGGCGTTTGCCAAAAAAAGCCGCTAAAAGCCATGACTT
Found at i:66066514 original size:38 final size:38
Alignment explanation
Indices: 66066472--66066548 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
66066462 CTAGAGTCCT
66066472 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
1 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
66066510 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
1 AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
66066548 A
1 A
66066549 ATTTTGTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (38 bp):
AGTTTAATTTCATCCATTTGGATTATTCCTAAACGCCA
Found at i:66069277 original size:2 final size:2
Alignment explanation
Indices: 66069270--66069300 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
66069260 CTACTCTGAT
*
66069270 TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
66069301 TCCCCATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:66070026 original size:4 final size:4
Alignment explanation
Indices: 66070017--66070077 Score: 113
Period size: 4 Copynumber: 15.2 Consensus size: 4
66070007 TCATATATAG
*
66070017 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AAAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
66070065 AGAT AGAT AGAT A
1 AGAT AGAT AGAT A
66070078 CAAGTGAGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:66070165 original size:16 final size:16
Alignment explanation
Indices: 66070132--66070165 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66070122 TGTTGCTGTT
* *
66070132 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
66070148 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
66070164 AA
1 AA
66070166 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:66074947 original size:16 final size:16
Alignment explanation
Indices: 66074914--66074947 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66074904 GGAGATTGTT
* *
66074914 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
66074930 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
66074946 AA
1 AA
66074948 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:66076691 original size:13 final size:13
Alignment explanation
Indices: 66076673--66076698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66076663 ATCCCAAATT
66076673 TAAAAAATAAAAA
1 TAAAAAATAAAAA
66076686 TAAAAAATAAAAA
1 TAAAAAATAAAAA
66076699 CATGAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:66082575 original size:25 final size:26
Alignment explanation
Indices: 66082535--66082585 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
66082525 CTTTAAAAAA
*
66082535 TATTTTTTATTCATTCCTT-TTCTTTT
1 TATTTTTTATTAATT-CTTCTTCTTTT
66082561 TATTTTTTA-TAATTCTTCTTCTTTT
1 TATTTTTTATTAATTCTTCTTCTTTT
66082586 GTTCAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 3 0.13
25 11 0.48
26 9 0.39
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (26 bp):
TATTTTTTATTAATTCTTCTTCTTTT
Found at i:66087379 original size:18 final size:16
Alignment explanation
Indices: 66087350--66087384 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
66087340 TGTATTTGAT
66087350 AAATTAAATAAATTTA
1 AAATTAAATAAATTTA
66087366 AAATTAACACTAAATTTA
1 AAATTAA-A-TAAATTTA
66087384 A
1 A
66087385 TCTATTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAATAAATTTA
Found at i:66093042 original size:16 final size:16
Alignment explanation
Indices: 66093023--66093057 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
66093013 TACTTTTATA
*
66093023 TATATAGTATTATTTT
1 TATATAGTATTATATT
*
66093039 TATATATTATTATATT
1 TATATAGTATTATATT
66093055 TAT
1 TAT
66093058 TATTTTCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TATATAGTATTATATT
Found at i:66093136 original size:16 final size:18
Alignment explanation
Indices: 66093115--66093149 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
66093105 AAACTTGGTA
66093115 TACATA-TGTC-TTTTTG
1 TACATATTGTCATTTTTG
66093131 TACATATTGTCATTTTTG
1 TACATATTGTCATTTTTG
66093149 T
1 T
66093150 TATATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TACATATTGTCATTTTTG
Found at i:66105693 original size:13 final size:14
Alignment explanation
Indices: 66105663--66105697 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
66105653 CGCTGAGGTA
66105663 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
66105676 TTTTTCAATTTCTG
1 TTTTTCAATTTCTG
66105690 TTTTTCAA
1 TTTTTCAA
66105698 AAAATTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:66105819 original size:69 final size:68
Alignment explanation
Indices: 66105697--66105825 Score: 161
Period size: 68 Copynumber: 1.9 Consensus size: 68
66105687 CTGTTTTTCA
* * * * * *
66105697 AAAAATTAACTCATATTGTGAGAGGTGAGTTAGCCTTGGCTGACATGCTGAGGTATTTTCTGTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTAGCCTGGGCTCACATGCCGAGGTATTTTCTGTTC
66105762 GTC
66 GTC
* *
66105765 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGTCTCGGGC-CACATGCCGAGGTCTTTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTT-AGCCT-GGGCTCACATGCCGAGGTATTTTC
66105826 AAATTCTGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
68 28 0.55
69 20 0.39
70 3 0.06
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (68 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTAGCCTGGGCTCACATGCCGAGGTATTTTCTGTTC
GTC
Found at i:66105945 original size:42 final size:42
Alignment explanation
Indices: 66105886--66105969 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
66105876 GAGGTGAGTT
* * *
66105886 GAGCCTCAGGACACGCTGAAGTATTTTCAATTTTTGCTTTTC
1 GAGCCTCAGGACACGCTGAAGAATTTTCAATTTCTACTTTTC
*
66105928 GAGCCTCAGGGCACGCTGAAGAATTTTCAATTTCTACTTTTC
1 GAGCCTCAGGACACGCTGAAGAATTTTCAATTTCTACTTTTC
66105970 AAAAAATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (42 bp):
GAGCCTCAGGACACGCTGAAGAATTTTCAATTTCTACTTTTC
Found at i:66106049 original size:74 final size:74
Alignment explanation
Indices: 66105928--66106108 Score: 292
Period size: 74 Copynumber: 2.4 Consensus size: 74
66105918 TTTGCTTTTC
* * *
66105928 GAGCCTCAGGGCACGCTGAA-GAATTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGA
1 GAGCCTCAGGACACGCT-AAGGTATTTTCAATTTCTACTTTACAAAAAATCAACTCATATTGAGA
66105992 GAGGTGAGTT
65 GAGGTGAGTT
* *
66106002 GAGCCTCAGGACACGCTAAGGTATTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGTGAG
1 GAGCCTCAGGACACGCTAAGGTATTTTCAATTTCTACTTTACAAAAAATCAACTCATATTGAGAG
66106067 AGGTGAGTT
66 AGGTGAGTT
*
66106076 GAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 GAGCCTCAGGACACGCTAAGGTATTTTCAATTT
66106109 TTGTTTTTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
73 2 0.02
74 98 0.98
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (74 bp):
GAGCCTCAGGACACGCTAAGGTATTTTCAATTTCTACTTTACAAAAAATCAACTCATATTGAGAG
AGGTGAGTT
Found at i:66106136 original size:88 final size:88
Alignment explanation
Indices: 66106025--66106196 Score: 274
Period size: 88 Copynumber: 2.0 Consensus size: 88
66106015 CGCTAAGGTA
**
66106025 TTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
* *
66106090 GCTGAGGTATTTTCAATTTTTGT
66 GCTGAAGAATTTTCAATTTTTGT
* *
66106113 TTTTCAATTTCTGCTTTTA-AAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGC-TTTACAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
66106177 CGCTGAAGAATTTTCAATTT
65 CGCTGAAGAATTTTCAATTT
66106197 CTACTTTTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 73 0.95
89 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAAGAATTTTCAATTTTTGT
Found at i:66106165 original size:278 final size:272
Alignment explanation
Indices: 66105677--66106205 Score: 697
Period size: 278 Copynumber: 1.9 Consensus size: 272
66105667 TAATTTCTGT
** * * **
66105677 TTTTCAATTTCTGTTTTTCAAAAAATTAACTCATATTGTGAGAGGTGAGTTAGCCTTGGCTGACA
1 TTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTAGCCTCAGC-GACA
* * * *
66105742 TGCTGAGGTATTTTCTGTTCGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGTCTCGGGC
65 CGCTAAGGTATTTTCTGTTCGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGG-
* * * *
66105807 CACATGCCGAGGTCTTTTCAAATTCTGTTTTTAATTTTTGTTTTTCAAAAAAATCAACTCATATT
129 CACACGCCGAGGTATTTTCAAATTCTGTTTTTAATTTCTGCTTTTCAAAAAAATCAACTCATATT
* * * *
66105872 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTCAATTTTTGCTTTTCGAGCCTCAG
194 GCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGAATTTTCAATTTCTACTTTTCGAGCCTCAG
66105937 GGCACGCTGAAGAA
259 GGCACGCTGAAGAA
66105951 TTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAG-GACA
1 TTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTT-AGCCTCAGCGACA
* *
66106015 CGCTAAGGTATTTTCAAT-TTCTGCTTTACAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAG
65 CGCTAAGGTATTTTC--TGTTC-G---T-C-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAG
* * *
66106079 CCTCAGG-ACACGCTGAGGTATTTTCAATTTTTGTTTTTCAATTTCTGCTTTT-AAAAAAATCAA
122 CCTCAGGCACACGCCGAGGTATTTTCAAATTCTGTTTTT-AATTTCTGCTTTTCAAAAAAATCAA
* *
66106142 CTTATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAAGAATTTTCAATTTCTACTTTTC
186 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGAATTTTCAATTTCTACTTTTC
66106206 AAAAAATCAA
Statistics
Matches: 220, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
273 17 0.08
274 50 0.23
275 8 0.04
278 96 0.44
279 12 0.05
280 37 0.17
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (272 bp):
TTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTAGCCTCAGCGACAC
GCTAAGGTATTTTCTGTTCGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGCA
CACGCCGAGGTATTTTCAAATTCTGTTTTTAATTTCTGCTTTTCAAAAAAATCAACTCATATTGC
AAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGAATTTTCAATTTCTACTTTTCGAGCCTCAGGG
CACGCTGAAGAA
Found at i:66106218 original size:162 final size:161
Alignment explanation
Indices: 66105951--66106404 Score: 603
Period size: 162 Copynumber: 2.8 Consensus size: 161
66105941 CGCTGAAGAA
* *
66105951 TTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTG-AGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTT-AAAAAATCAACTCATATTGCA-AGAGGTGAGTTGAGCCTCAGGGCA
* * *
66106015 CGCT-AAGGTATTTTCAATTTCTGCTTTACAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAG
64 CGCTGAA-GTATTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAG
* * *
66106079 CCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
128 CCTCAGGACACGCTAAGGTATTTTCAATTTCTGC
*
66106113 TTTTCAATTTCTGCTTTTAAAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTTCAATTTCTGCTTTT-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCAC
*
66106178 GCTGAAGAATTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCC
65 GCTGAAGTATTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCC
66106243 TCAGGACACGCTAAGGTATTTTCAATTTCTGC
130 TCAGGACACGCTAAGGTATTTTCAATTTCTGC
* * * * *
66106275 TATTCAATTTATG-TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-GGGTCA
1 TTTTCAATTTCTGCT-TTTAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGG---
* * * * *
66106338 CACGCCGAGGTATTTCCAATTT-TAGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
62 CACGCTGAAGTATTTTCAATTTCTA-CTTTTC-AAAAAATCAACTCATATTGAGAGAGGTGAGTT
66106402 GAG
125 GAG
66106405 TCCTAGGTCA
Statistics
Matches: 261, Mismatches: 23, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
160 3 0.01
161 36 0.14
162 162 0.62
163 26 0.10
164 34 0.13
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (161 bp):
TTTTCAATTTCTGCTTTTAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACG
CTGAAGTATTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT
CAGGACACGCTAAGGTATTTTCAATTTCTGC
Found at i:66106234 original size:74 final size:74
Alignment explanation
Indices: 66106113--66106281 Score: 252
Period size: 74 Copynumber: 2.3 Consensus size: 74
66106103 CAATTTTTGT
* * *
66106113 TTTTCAATTTCTGCTTTTAAAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
66106178 GCTGAA-GAA
66 GCT-AAGGAA
*
66106187 TTTTCAATTTCTACTTTTCAAAAAATCAACTCATATTG-AGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCA-AGAGGTGAGTTGAGCCTCAGGACA
*
66106251 CGCTAAGGTA
65 CGCTAAGGAA
*
66106261 TTTTCAATTTCTGCTATTCAA
1 TTTTCAATTTCTGCTTTTCAA
66106282 TTTATGTGTT
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
73 3 0.03
74 83 0.97
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (74 bp):
TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC
GCTAAGGAA
Found at i:66108217 original size:3 final size:3
Alignment explanation
Indices: 66108209--66108291 Score: 52
Period size: 3 Copynumber: 28.0 Consensus size: 3
66108199 ATATATATAG
66108209 TAT TAT TA- TATT TAT TAT TA- TATT TAT TAT TA- TATT TAT TA- TATT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TA-T
* * *
66108254 TAT TAT TGT TACT TAT TAT T-T TAT T-T TAA CAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
66108292 GTCAAACTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
2 12 0.19
3 40 0.63
4 11 0.17
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:66108219 original size:27 final size:24
Alignment explanation
Indices: 66108174--66108250 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
66108164 AGTATAAATT
* *
66108174 TTATTATATGT-GTATATATACTT-
1 TTATTATATGTATTAT-TATATTTA
66108197 TTATATATATAGTATTATTATATTTA
1 TTAT-TATAT-GTATTATTATATTTA
*
66108223 TTATTATATTTATTATTATATTTA
1 TTATTATATGTATTATTATATTTA
66108247 TTAT
1 TTAT
66108251 ATTTATTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
23 4 0.09
24 23 0.49
25 13 0.28
26 7 0.15
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (24 bp):
TTATTATATGTATTATTATATTTA
Found at i:66108237 original size:21 final size:21
Alignment explanation
Indices: 66108211--66108278 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
66108201 ATATATAGTA
66108211 TTATTATATTTA-TTATTATAT
1 TTATTAT-TTTACTTATTATAT
* *
66108232 TTATTATTATATTTATTATAT
1 TTATTATTTTACTTATTATAT
66108253 TTATTATTGTTACTTATTAT-T
1 TTATTATT-TTACTTATTATAT
66108274 TTATT
1 TTATT
66108279 TTAACATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 3 0.07
21 30 0.71
22 9 0.21
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (21 bp):
TTATTATTTTACTTATTATAT
Found at i:66108259 original size:12 final size:12
Alignment explanation
Indices: 66108209--66108279 Score: 85
Period size: 12 Copynumber: 6.1 Consensus size: 12
66108199 ATATATATAG
66108209 TATTATTATATT
1 TATTATTATATT
66108221 TATTATTATATT
1 TATTATTATATT
66108233 TATTATTATA--
1 TATTATTATATT
66108243 T-TTATTATATT
1 TATTATTATATT
* *
66108254 TATTATTGTTACT
1 TATTATT-ATATT
*
66108267 TATTATTTTATT
1 TATTATTATATT
66108279 T
1 T
66108280 TAACATTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
9 8 0.15
10 1 0.02
11 1 0.02
12 32 0.62
13 10 0.19
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (12 bp):
TATTATTATATT
Found at i:66116124 original size:14 final size:14
Alignment explanation
Indices: 66116107--66116157 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
66116097 AGAAAGAAAA
66116107 TTTGGGAAAATACT
1 TTTGGGAAAATACT
* *
66116121 TTTGGGAAAATTCG
1 TTTGGGAAAATACT
* *
66116135 ATT--GATAATACT
1 TTTGGGAAAATACT
66116147 TTTGGGAAAAT
1 TTTGGGAAAAT
66116158 TCGATTGATT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
12 8 0.30
14 19 0.70
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (14 bp):
TTTGGGAAAATACT
Found at i:66116147 original size:26 final size:26
Alignment explanation
Indices: 66116115--66116166 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
66116105 AATTTGGGAA
66116115 AATACTTTTGGGAAAATTCGATTGAT
1 AATACTTTTGGGAAAATTCGATTGAT
66116141 AATACTTTTGGGAAAATTCGATTGAT
1 AATACTTTTGGGAAAATTCGATTGAT
66116167 TAAGAGAATA
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:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (26 bp):
AATACTTTTGGGAAAATTCGATTGAT
Found at i:66127434 original size:27 final size:28
Alignment explanation
Indices: 66127390--66127444 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
66127380 GTCCATAGTT
* *
66127390 GAACTATGGTAAAGTGATAAAGTGTGCC
1 GAACTATGGAAAAATGATAAAGTGTGCC
66127418 GAAC-ATGGAAAAATGATAAAGTGTGCC
1 GAACTATGGAAAAATGATAAAGTGTGCC
66127445 AAATATGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (28 bp):
GAACTATGGAAAAATGATAAAGTGTGCC
Found at i:66136347 original size:46 final size:46
Alignment explanation
Indices: 66136297--66136468 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
66136287 TGGTTGAGCA
*
66136297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66136343 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
66136390 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
66136436 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
66136469 GTGGGCGGGT
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66136453 original size:93 final size:93
Alignment explanation
Indices: 66136294--66136464 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
66136284 GGATGGTTGA
* *
66136294 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
66136359 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
66136387 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
66136452 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
66136465 ACTTGTGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:66150605 original size:53 final size:53
Alignment explanation
Indices: 66150426--66150629 Score: 210
Period size: 53 Copynumber: 3.8 Consensus size: 53
66150416 AGGGTTTAAG
* * * * * * *
66150426 GATACCAAGTAAGACTATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * *
66150480 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAATTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT-C-ATAAGGCAAA
* * * *
66150535 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* *
66150588 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
66150630 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
53 48 0.39
54 33 0.27
55 41 0.34
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:66158655 original size:42 final size:44
Alignment explanation
Indices: 66158596--66158683 Score: 144
Period size: 42 Copynumber: 2.0 Consensus size: 44
66158586 GACCACTTTA
* *
66158596 ACCCAACCACTGATGGTGGGGTTTGGGTCATTATCT-A-CTGTG
1 ACCCAACCACTGATGGTGGGGGTTAGGTCATTATCTAATCTGTG
66158638 ACCCAACCACTGATGGTGGGGGTTAGGTCATTATCTAATCTGTG
1 ACCCAACCACTGATGGTGGGGGTTAGGTCATTATCTAATCTGTG
66158682 AC
1 AC
66158684 TTATCAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 34 0.81
43 1 0.02
44 7 0.17
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (44 bp):
ACCCAACCACTGATGGTGGGGGTTAGGTCATTATCTAATCTGTG
Found at i:66160086 original size:63 final size:63
Alignment explanation
Indices: 66159987--66160105 Score: 202
Period size: 63 Copynumber: 1.9 Consensus size: 63
66159977 AGGTGTTGTG
*
66159987 TTTATATGAATAGGAAATTAATCCTAGTCCTGTTAGAGGTCTATTCCCTGCAAGCATGTTGCA
1 TTTATATGAATAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTCCCTGCAAGCATGTTGCA
* * *
66160050 TTTATATTAGTAGGAAATTAATCCTAATCCTTTTAGAGGTCTATTCCCTGCAAGCA
1 TTTATATGAATAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTCCCTGCAAGCA
66160106 AAATCTACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (63 bp):
TTTATATGAATAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTCCCTGCAAGCATGTTGCA
Found at i:66161640 original size:14 final size:15
Alignment explanation
Indices: 66161606--66161643 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
66161596 ACTATTTCTA
66161606 GGTTTATGGGTTATG
1 GGTTTATGGGTTATG
66161621 GGTTTA-GGGATTAT-
1 GGTTTATGGG-TTATG
66161635 GGTTTATGG
1 GGTTTATGG
66161644 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (15 bp):
GGTTTATGGGTTATG
Found at i:66161686 original size:7 final size:7
Alignment explanation
Indices: 66161606--66161687 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
66161596 ACTATTTCTA
66161606 GGTTTATG
1 GGTTTA-G
66161614 GG-TTATG
1 GGTTTA-G
66161621 GGTTTAG
1 GGTTTAG
* *
66161628 GGATTAT
1 GGTTTAG
*
66161635 GGTTTAT
1 GGTTTAG
66161642 GGTTTA-
1 GGTTTAG
* *
66161648 AGTGTTGG
1 GGT-TTAG
*
66161656 GGTTTAA
1 GGTTTAG
*
66161663 AGTTTAG
1 GGTTTAG
*
66161670 GGGTTAG
1 GGTTTAG
66161677 GGTTTAG
1 GGTTTAG
66161684 GGTT
1 GGTT
66161688 CATGAGTTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
6 2 0.03
7 49 0.84
8 7 0.12
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:66167575 original size:24 final size:24
Alignment explanation
Indices: 66167518--66167564 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
66167508 AACCATGATG
*
66167518 GTTAATTTTTACGAGTTTTGTAGT
1 GTTAATTATTACGAGTTTTGTAGT
66167542 GTTAATTATTACGAGTTTTGTAG
1 GTTAATTATTACGAGTTTTGTAG
66167565 CTTCTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.51
Consensus pattern (24 bp):
GTTAATTATTACGAGTTTTGTAGT
Found at i:66167725 original size:24 final size:22
Alignment explanation
Indices: 66167698--66167741 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
66167688 AATTTCAAAA
66167698 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
66167722 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
66167742 AAGATATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:66167800 original size:43 final size:43
Alignment explanation
Indices: 66167753--66168004 Score: 219
Period size: 43 Copynumber: 5.9 Consensus size: 43
66167743 AGATATGTTC
* * *
66167753 TTTAGCAGCGTTT-TCGGAAAAAGCGTCGCTAAAGGTTATGGTT
1 TTTAGCGGCGTTTGTAGG-AAAAGCGTCGCTAAAGGTCATGGTT
* * *
66167796 TTTAGCGGCGTTTGTAAGAAAAGCG-CTGTTAAAGGTCATGATT
1 TTTAGCGGCGTTTGTAGGAAAAGCGTC-GCTAAAGGTCATGGTT
* * * *
66167839 TTTAACAGCGTTTGTAGGAAAAGCGTCGCTAAAAG-CATGGTC
1 TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATGGTT
* * * * * *
66167881 TTTAGCGGCTTTTG-CGGAAAAGTGCCGTTAAAGGCCATGGTT
1 TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATGGTT
* * *
66167923 TTTAGCGGCGTTT-TTGGGAAAGCGCCGCTAAAGGTCAT-GTT
1 TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATGGTT
* * * * *
66167964 CTTTAGCGGCGTTTATGGGAAAAGTGTCGCTACAGATCATG
1 -TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATG
66168005 ACCTTTAGCG
Statistics
Matches: 167, Mismatches: 34, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
41 18 0.11
42 67 0.40
43 79 0.47
44 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCATGGTT
Found at i:66167934 original size:84 final size:83
Alignment explanation
Indices: 66167753--66167989 Score: 260
Period size: 84 Copynumber: 2.8 Consensus size: 83
66167743 AGATATGTTC
* * * **
66167753 TTTAGCAGCGTTTTCGGAAAAAGCGTCGCTAAAGGTTATGGTTTTTAGCGGCGTTTGTAAGAAAA
1 TTTAGCAGCGTTTTAGG-AAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGC-TTT-TGGGAAAA
* * *
66167818 GCGCTGTTAAAGGTCATGATT
63 GTGCCGTTAAAGGCCATGATT
* *
66167839 TTTAACAGCGTTTGTAGGAAAAGCGTCGCTAAAAG-CATGGTCTTTAGCGGCTTTTGCGGAAAAG
1 TTTAGCAGCGTTT-TAGGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCTTTTG-GGAAAAG
*
66167903 TGCCGTTAAAGGCCATGGTT
64 TGCCGTTAAAGGCCATGATT
* * * * *
66167923 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATGGGAAAAG
1 TTTAGCAGCGTTTTAGGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGC-TTT-TGGGAAAAG
66167988 TG
64 TG
66167990 TCGCTACAGA
Statistics
Matches: 128, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
83 18 0.14
84 51 0.40
85 26 0.20
86 30 0.23
87 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (83 bp):
TTTAGCAGCGTTTTAGGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCTTTTGGGAAAAGTG
CCGTTAAAGGCCATGATT
Found at i:66168011 original size:43 final size:42
Alignment explanation
Indices: 66167923--66168016 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 42
66167913 GGCCATGGTT
* * **
66167923 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGATCATGACC
* * *
66167965 TTTAGCGGCGTTTATGGGAAAAGTGTCGCTACAGATCATGACC
1 TTTAGCGGCGTTTATGGG-AAAGCGCCGCTAAAGATCATGACC
66168008 TTTAGCGGC
1 TTTAGCGGC
66168017 ATTTTTTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 17 0.39
43 27 0.61
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTATGGGAAAGCGCCGCTAAAGATCATGACC
Found at i:66168022 original size:85 final size:83
Alignment explanation
Indices: 66167858--66168022 Score: 188
Period size: 85 Copynumber: 2.0 Consensus size: 83
66167848 GTTTGTAGGA
* * * ***
66167858 AAAGCGTCGCTAAAAGCATGGTCTTTAGCGGCTTTTGCGGAAAAGTGCCGTTAAAGGCCATGGTT
1 AAAGCGCCGCTAAAAGCATGGTCTTTAGCGGCTTTTGCGGAAAAGTGCCGCTAAAGACCATGACC
*
66167923 TTTAGCGGCGTTTTTGGG
66 TTTAGCGGCATTTTTGGG
* * * * *
66167941 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATG-GGAAAAGTGTCGCTACAGATCATG
1 AAAGCGCCGCTAAAAG-CATGGTCTTTAGCGGC-TTT-TGCGGAAAAGTGCCGCTAAAGACCATG
66168005 ACCTTTAGCGGCATTTTT
63 ACCTTTAGCGGCATTTTT
66168023 TTCATAAACG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 14 0.21
84 15 0.22
85 36 0.54
86 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (83 bp):
AAAGCGCCGCTAAAAGCATGGTCTTTAGCGGCTTTTGCGGAAAAGTGCCGCTAAAGACCATGACC
TTTAGCGGCATTTTTGGG
Found at i:66174007 original size:107 final size:107
Alignment explanation
Indices: 66173821--66174028 Score: 317
Period size: 107 Copynumber: 1.9 Consensus size: 107
66173811 ATGGTGAATT
* * * *
66173821 TTATCTCCCTAAAATTGCAGTGGAGCAGATTAAAGCCGCAAATCCTATACCCCTGAAGTTGTAGT
1 TTATCTCCCTAAAATTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCCCTAAAATTGTAGT
* *
66173886 GGGACGGATTGAAGTTATCATGACAAATCTTATCTCTCAATC
66 GGGACAGATTGAAGTCATCATGACAAATCTTATCTCTCAATC
* *
66173928 TTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATACCCCTAAAATTGTAGT
1 TTATCTCCCTAAAATTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCCCTAAAATTGTAGT
* * *
66173993 GGGATAGATTGAAGTCATCATGGCGAATCTTATCTC
66 GGGACAGATTGAAGTCATCATGACAAATCTTATCTC
66174029 CCTAAAGTTG
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (107 bp):
TTATCTCCCTAAAATTGCAGTAGAGCAGATTAAAGCCACAAATCCTATACCCCTAAAATTGTAGT
GGGACAGATTGAAGTCATCATGACAAATCTTATCTCTCAATC
Found at i:66174346 original size:21 final size:21
Alignment explanation
Indices: 66174297--66174342 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
66174287 TAGAATTAGA
66174297 ATATTATTTTATTTATTTATC
1 ATATTATTTTATTTATTTATC
66174318 ATATTATTTTATTTATTTATC
1 ATATTATTTTATTTATTTATC
66174339 -TATT
1 ATATT
66174343 TATTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
ATATTATTTTATTTATTTATC
Found at i:66174600 original size:23 final size:25
Alignment explanation
Indices: 66174567--66174618 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
66174557 ATCATCATCG
66174567 TTTATTAGTATGAT-A-T-TTTTATT
1 TTTATTAGTAT-ATCATTGTTTTATT
*
66174590 TTTATTTGTATATCATTGTTTTATT
1 TTTATTAGTATATCATTGTTTTATT
66174615 TTTA
1 TTTA
66174619 CACACTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 11 0.44
24 1 0.04
25 11 0.44
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (25 bp):
TTTATTAGTATATCATTGTTTTATT
Found at i:66176266 original size:63 final size:62
Alignment explanation
Indices: 66176167--66176349 Score: 276
Period size: 63 Copynumber: 2.9 Consensus size: 62
66176157 AAGGTGTTGA
* * * *
66176167 ATTTATATGAATAGGAAATTAGTCCTAAACCTGTTAGAGGTCTATTCGCTGCAAGCATGCTGC
1 ATTTATATTAGTAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTC-CTGCAAGCATGCTGC
* *
66176230 ATTTATATTAGTAGGAAATTAATCCCAATCCTGTTAGAGGTCTATTCCCTGCAAGCATGTTGC
1 ATTTATATTAGTAGGAAATTAATCCTAATCCTGTTAGAGGTCTATT-CCTGCAAGCATGCTGC
*
66176293 ATTTATATTAGTAGGAAATTAATCCTAATCCTTTTAGAGGTCTATTTCCTGCAAGCA
1 ATTTATATTAGTAGGAAATTAATCCTAATCCTGTTAGAGGTCTA-TTCCTGCAAGCA
66176350 AAATCTACAG
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
63 107 0.97
64 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (62 bp):
ATTTATATTAGTAGGAAATTAATCCTAATCCTGTTAGAGGTCTATTCCTGCAAGCATGCTGC
Found at i:66180281 original size:3 final size:3
Alignment explanation
Indices: 66180273--66180301 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
66180263 ATATATTTGG
66180273 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
66180302 TGCACATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:66180448 original size:18 final size:18
Alignment explanation
Indices: 66180425--66180460 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
66180415 ACAATAATAT
66180425 AAAATA-ATGATATGTACA
1 AAAATATAT-ATATGTACA
66180443 AAAATATATATATGTACA
1 AAAATATATATATGTACA
66180461 TAATATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (18 bp):
AAAATATATATATGTACA
Found at i:66181271 original size:14 final size:14
Alignment explanation
Indices: 66181252--66181301 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
66181242 GAACGTTCCT
66181252 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
** *
66181266 TTTTTTTTTTGGAAT
1 TTTTTTTGCT-GAAA
*
66181281 TTTTTTTGCTGGAA
1 TTTTTTTGCTGAAA
66181295 TTTTTTT
1 TTTTTTT
66181302 TGCTCTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.14, C:0.04, G:0.14, T:0.68
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:66181271 original size:15 final size:15
Alignment explanation
Indices: 66181251--66181305 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
66181241 TGAACGTTCC
*
66181251 TTTTTTTTGCTGAAA
1 TTTTTTTTGCTGGAA
*
66181266 TTTTTTTT-TTGGAA
1 TTTTTTTTGCTGGAA
66181280 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
66181295 TTTTTTTTGCT
1 TTTTTTTTGCT
66181306 CTTTTTTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 12 0.33
15 24 0.67
ACGTcount: A:0.13, C:0.05, G:0.15, T:0.67
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:66181565 original size:29 final size:29
Alignment explanation
Indices: 66181519--66181618 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 29
66181509 TTCTGGGGCT
* *
66181519 AAATGTAATTTTTAGAAAATTTA-GGGTTA
1 AAATGTAA-TTTAAGAAAGTTTAGGGGTTA
66181548 AAATGTAATTTAAGGAAAGTTTAGGGGTCT-
1 AAATGTAATTTAA-GAAAGTTTAGGGGT-TA
* * *
66181578 AAGTGAAATTTAAAGAAAGTTTAGGGGTCA
1 AAATGTAATTT-AAGAAAGTTTAGGGGTTA
*
66181608 AAATGCAATTT
1 AAATGTAATTT
66181619 TTTTATTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.07
29 16 0.27
30 36 0.61
31 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (29 bp):
AAATGTAATTTAAGAAAGTTTAGGGGTTA
Found at i:66181618 original size:30 final size:30
Alignment explanation
Indices: 66181532--66181618 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
66181522 TGTAATTTTT
* * *
66181532 AGAAAATTTA-GGGTTAAAATGTAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
66181561 GGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
66181591 AGAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAGTTTAGGGGTCAAAATGAAATTT
66181619 TTTTATTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 8 0.17
30 39 0.83
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:66182098 original size:13 final size:13
Alignment explanation
Indices: 66182080--66182115 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
66182070 ATGAGTTGAT
66182080 TTTTGAAAACAGA
1 TTTTGAAAACAGA
66182093 TTTTGAAAAACAGA
1 TTTTG-AAAACAGA
66182107 TTTTGAAAA
1 TTTTGAAAA
66182116 TATCTCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (13 bp):
TTTTGAAAACAGA
Found at i:66182113 original size:88 final size:88
Alignment explanation
Indices: 66182010--66182171 Score: 236
Period size: 88 Copynumber: 1.8 Consensus size: 88
66182000 TTGAATTAAA
* *
66182010 AAAAACAGAAATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATAGCTCGA-CACGTGACCCAAGGCTCAACTCACATCTCGCAATATGA
66182074 GTTGATTTTTGAAAACAGATTTTG
65 GTTGATTTTTGAAAACAGATTTTG
** * * * *
66182098 AAAAACAGATTTTGAAAATATCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGAAATTGAAAATAGCTCGACACGTGACCCAAGGCTCAACTCACATCTCGCAATATGAG
66182163 TTGATTTTT
66 TTGATTTTT
66182172 TTGAAAAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
88 64 0.98
89 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATAGCTCGACACGTGACCCAAGGCTCAACTCACATCTCGCAATATGAG
TTGATTTTTGAAAACAGATTTTG
Found at i:66182319 original size:77 final size:79
Alignment explanation
Indices: 66182135--66182331 Score: 229
Period size: 77 Copynumber: 2.5 Consensus size: 79
66182125 ATGTGACCCG
* * * *
66182135 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTG---AAAAATAC
* * * * * *
66182200 CTTAGTGTGTGATCTGA
63 CTCAGCGCGTAAGCTCA
* *
66182217 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTG-AAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTC
66182280 AGCGCGTAAGC-CA
66 AGCGCGTAAGCTCA
*
66182293 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
66182332 TTTAAAGGTA
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
76 2 0.02
77 51 0.50
81 47 0.47
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (79 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATACCTC
AGCGCGTAAGCTCA
Found at i:66182321 original size:246 final size:241
Alignment explanation
Indices: 66181972--66182507 Score: 630
Period size: 246 Copynumber: 2.2 Consensus size: 241
66181962 AGAAATTAAA
* * *** * *
66181972 AAGCTCAACTCACCTCTTGCAATATGAGTTGA--ATTAAAAAAAACAGAAATTGAAAATAGCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
* * * **
66182035 GCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGATTTTG
66 GCACGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGACAGAAATTG
** * * **
66182098 AAAAACAGATTTTGAAAATATCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAG
131 AAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAG
* * * *
66182163 TTGATTTTTTTGAAAAATATAAATTGAAAAAAAATACCTTAGTGTGTGATCTG
196 TTGATTTTTTTG-AAAATAGAAATTG----AAAATACCTCAGCGTGT--CCTG
66182216 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
* * **
66182281 GCGCGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTAAAGGTAGAAA
66 GCACGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGA---TTTTTTGAAAGACAGAAA
* * * * * *
66182346 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTAACCTGAGGCTCAACTCGCCTCTCGCAATAC
128 TTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATAC
* *
66182411 GAGTTGATTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTG
193 GAGTTGATTTTTTTGAAAATAGAAATTGAAAATACCTCAGCGTGTCCTG
*
66182460 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
1 AAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACA
66182508 TACCTCAGCA
Statistics
Matches: 249, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
244 65 0.26
245 15 0.06
246 79 0.32
250 19 0.08
251 71 0.29
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (241 bp):
AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATAGCTCA
GCACGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGACAGAAATTG
AAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAG
TTGATTTTTTTGAAAATAGAAATTGAAAATACCTCAGCGTGTCCTG
Found at i:66182549 original size:65 final size:69
Alignment explanation
Indices: 66182356--66182860 Score: 464
Period size: 72 Copynumber: 7.0 Consensus size: 69
66182346 TTGAAAAACG
* * * *** * *
66182356 GAAATTGAAAATACCTCGGCGTGTAACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAA-TGAAATTACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--A
*
66182421 TTTTGACAAT
61 TTTT-AAAAT
* **
66182431 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTT
1 -GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
***
66182495 T-TTTT
64 TAAAAT
* * * *
66182500 GAAA-GACA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTT
1 GAAATGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-----A
*
66182563 TTTTGAAAAACA
61 TTTT--AAAA-T
* * *
66182575 GAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1 GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
*
66182640 GAAAACA
65 -AAAA-T
*
66182647 GAAATTGAAATTACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1 GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66182712 GAAAAAAT
65 ---AAAAT
*
66182720 -AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1 GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66182784 GAAAAAAT
65 ---AAAAT
*
66182792 -AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1 GAAA-TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
66182856 GAAAA
65 -AAAA
66182861 CGGAAGTAAC
Statistics
Matches: 381, Mismatches: 33, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
65 43 0.11
66 3 0.01
68 4 0.01
69 1 0.00
70 4 0.01
71 8 0.02
72 201 0.53
73 4 0.01
74 37 0.10
75 4 0.01
76 22 0.06
77 3 0.01
78 47 0.12
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (69 bp):
GAAATGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTA
AAAT
Found at i:66182686 original size:72 final size:72
Alignment explanation
Indices: 66182508--66182861 Score: 537
Period size: 72 Copynumber: 4.8 Consensus size: 72
66182498 TTGAAAGACA
* * *
66182508 TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTTTTTTGAAAAA
1 TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-----ATTTTG-AAAA
*
66182573 CAGAAATTGAAAA
60 CAGAAATTGAAAT
* *
66182586 TACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
1 TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
66182651 TTGAAAT
66 TTGAAAT
* * *
66182658 TACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAAATAAA
1 TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
66182723 TTGAAAT
66 TTGAAAT
* * *
66182730 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAAATAAA
1 TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
66182795 TTGAAAT
66 TTGAAAT
*
66182802 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
1 TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
66182862 GGAAGTAACA
Statistics
Matches: 264, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
72 212 0.80
73 5 0.02
78 47 0.18
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (72 bp):
TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
TTGAAAT
Found at i:66182768 original size:144 final size:145
Alignment explanation
Indices: 66182350--66182860 Score: 599
Period size: 144 Copynumber: 3.5 Consensus size: 145
66182340 TAGAAATTGA
* * * * *** *
66182350 AAAACGGAAATTGAAAATACCTCGGCGTGTAACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACAGAAATTGAAATTACCTCAGCGTGT-A-TTGAGGCTCAACTCATTTCTCGCAATATGAGT
* * * * **
66182415 TGATTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
64 TGA-TATTTTGAAAAAAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGC
66182480 AATATGAGTTG-ATTTT-
128 AATATGAGTTGAATTTTG
**** * * * *
66182496 --TTTTGAAA--GACA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * * *
66182556 ATTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTC
66 A----TATTTTGAAAAA-AGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTC
66182621 GCAATATGAGTTGAATTTTG
126 GCAATATGAGTTGAATTTTG
66182641 AAAACAGAAATTGAAATTACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
66182706 A-ATTTTGAAAAAATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66 ATATTTTGAAAAAAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66182770 ATGAGTTGAATTTTG
131 ATGAGTTGAATTTTG
* * * *
66182785 AAAAAATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
66182850 A-ATTTTGAAAA
66 ATATTTTGAAAA
66182861 CGGAAGTAAC
Statistics
Matches: 314, Mismatches: 40, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
139 29 0.09
141 11 0.04
142 14 0.04
143 54 0.17
144 143 0.46
145 10 0.03
147 4 0.01
149 3 0.01
150 46 0.15
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (145 bp):
AAAACAGAAATTGAAATTACCTCAGCGTGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
ATATTTTGAAAAAAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
ATGAGTTGAATTTTG
Found at i:66194773 original size:20 final size:22
Alignment explanation
Indices: 66194745--66194790 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
66194735 TTTGGTAATA
*
66194745 ATAATAATA-ATA-ATATGCAC
1 ATAAAAATACATATATATGCAC
*
66194765 ATAAAAATACATATATATGCAT
1 ATAAAAATACATATATATGCAC
66194787 ATAA
1 ATAA
66194791 TAAAAGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAAAAATACATATATATGCAC
Found at i:66194904 original size:18 final size:18
Alignment explanation
Indices: 66194881--66194916 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
66194871 ACAATAATAT
66194881 AAAATA-ATGATATGTACA
1 AAAATATAT-ATATGTACA
66194899 AAAATATATATATGTACA
1 AAAATATATATATGTACA
66194917 TAATATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (18 bp):
AAAATATATATATGTACA
Found at i:66195764 original size:28 final size:26
Alignment explanation
Indices: 66195709--66195765 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
66195699 TGAATATTCC
*
66195709 TTTTTTTTTGGTTTTTTTTGCTGATT
1 TTTTTTTTTGGTTTTTTTTGCTCATT
66195735 TTTTTTTTTGGAATTTTTTTTGCTC-TT
1 TTTTTTTTTGG--TTTTTTTTGCTCATT
66195762 TTTT
1 TTTT
66195766 CTCCAATGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 11 0.39
27 6 0.21
28 11 0.39
ACGTcount: A:0.05, C:0.05, G:0.12, T:0.77
Consensus pattern (26 bp):
TTTTTTTTTGGTTTTTTTTGCTCATT
Found at i:66196066 original size:30 final size:30
Alignment explanation
Indices: 66195967--66196066 Score: 121
Period size: 30 Copynumber: 3.4 Consensus size: 30
66195957 TTCTGGGGCT
** * *
66195967 AAATGAAATTTTTAGAAAATTTA-GGGTTA
1 AAATGAAATTTAAAGAAAGTTTAGGGGTCA
* *
66195996 AAATGAAATTTAAGGAAAGTTTAGGGGTCT
1 AAATGAAATTTAAAGAAAGTTTAGGGGTCA
*
66196026 AAGTGAAATTTAAAGAAAGTTTAGGGGTCA
1 AAATGAAATTTAAAGAAAGTTTAGGGGTCA
*
66196056 AAATGCAATTT
1 AAATGAAATTT
66196067 TTTTATTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
29 19 0.32
30 40 0.68
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
AAATGAAATTTAAAGAAAGTTTAGGGGTCA
Found at i:66198068 original size:5 final size:5
Alignment explanation
Indices: 66198058--66198085 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
66198048 ATGATGAAAT
66198058 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
66198086 TAAATAAACC
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:66200911 original size:24 final size:26
Alignment explanation
Indices: 66200861--66200914 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
66200851 CATACTATTC
*
66200861 ATATATTTTTATGTTATTTCATATAT
1 ATATATCTTTATGTTATTTCATATAT
**
66200887 ATATATCTTTATGTTATTTGTTATAT
1 ATATATCTTTATGTTATTTCATATAT
66200913 AT
1 AT
66200915 TTCTTTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (26 bp):
ATATATCTTTATGTTATTTCATATAT
Found at i:66200919 original size:24 final size:26
Alignment explanation
Indices: 66200861--66200945 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 26
66200851 CATACTATTC
66200861 ATATA-TT-TTTATGTTATTTCATAT
1 ATATATTTCTTTATGTTATTTCATAT
* *
66200885 ATATATATCTTTATGTTATTT-GT-T
1 ATATATTTCTTTATGTTATTTCATAT
** *
66200909 ATATATTTCTTT-TACTATTTCATGT
1 ATATATTTCTTTATGTTATTTCATAT
*
66200934 ATATGTTT-TTTA
1 ATATATTTCTTTA
66200946 AATACCATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 6 0.12
24 21 0.43
25 10 0.20
26 12 0.24
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (26 bp):
ATATATTTCTTTATGTTATTTCATAT
Found at i:66202183 original size:26 final size:26
Alignment explanation
Indices: 66202149--66202210 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
66202139 AAAAATACAT
66202149 AAAAATAAATACCGAAATGGATTTAC
1 AAAAATAAATACCGAAATGGATTTAC
*
66202175 AAAAATAAATACCGAAATGGGTTTAC
1 AAAAATAAATACCGAAATGGATTTAC
66202201 AAAAATAAAT
1 AAAAATAAAT
66202211 CCACATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.56, C:0.10, G:0.11, T:0.23
Consensus pattern (26 bp):
AAAAATAAATACCGAAATGGATTTAC
Found at i:66213368 original size:13 final size:13
Alignment explanation
Indices: 66213350--66213394 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
66213340 AATCCCCTTA
*
66213350 AAACATAAGCCAT
1 AAACATAATCCAT
*
66213363 AAACATAATCCCT
1 AAACATAATCCAT
66213376 AAACCCATAATCCAT
1 AAA--CATAATCCAT
66213391 AAAC
1 AAAC
66213395 CTATAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.51, C:0.29, G:0.02, T:0.18
Consensus pattern (13 bp):
AAACATAATCCAT
Found at i:66213386 original size:15 final size:15
Alignment explanation
Indices: 66213353--66213400 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
66213343 CCCCTTAAAA
*
66213353 CATAAGCCATAAA--
1 CATAATCCATAAACC
*
66213366 CATAATCCCTAAACC
1 CATAATCCATAAACC
66213381 CATAATCCATAAACC
1 CATAATCCATAAACC
*
66213396 TATAA
1 CATAA
66213401 ATAGTAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 11 0.38
15 18 0.62
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:66213967 original size:24 final size:24
Alignment explanation
Indices: 66213940--66213992 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
66213930 AAAATTAAGA
* *
66213940 AAAAGTTAAAAGTTA-AAAAACAAT
1 AAAAGTTAAAA-TAAGAAAAAAAAT
*
66213964 AAAACTTAAAATAAGAAAAAAAAT
1 AAAAGTTAAAATAAGAAAAAAAAT
66213988 AAAAG
1 AAAAG
66213993 AAAAAGACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAAGTTAAAATAAGAAAAAAAAT
Found at i:66214192 original size:22 final size:20
Alignment explanation
Indices: 66214154--66214197 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
66214144 TCTTATATTA
*
66214154 TTAAAAAATTATATTTAACAT
1 TTAAAAAATAATATTTAA-AT
66214175 TTAAAAAATAATATTTTAAAT
1 TTAAAAAATAATA-TTTAAAT
66214196 TT
1 TT
66214198 TAAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAAAATAATATTTAAAT
Found at i:66214193 original size:53 final size:51
Alignment explanation
Indices: 66214132--66214234 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 51
66214122 CATATCTTTA
* * *
66214132 AATATTTAAATGTCTTATATTATTAAAAAAT-TATATTTAACATTTAAAAAAT
1 AATATTTAAAT-T-TTAAATTATTAAAAAATATATATTTAAAACTTAAAAAAT
* **
66214184 AATATTTTAAATTTTAAATTTTTTTAAAATATATATTTAAAACTTAAAAAA
1 AATA-TTTAAATTTTAAATTATTAAAAAATATATATTTAAAACTTAAAAAA
66214235 AAGATTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
51 13 0.30
52 23 0.53
53 7 0.16
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (51 bp):
AATATTTAAATTTTAAATTATTAAAAAATATATATTTAAAACTTAAAAAAT
Found at i:66214344 original size:7 final size:7
Alignment explanation
Indices: 66214334--66214358 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66214324 CTTTATAAAA
66214334 TAAATTT
1 TAAATTT
66214341 TAAATTT
1 TAAATTT
66214348 TAAATTT
1 TAAATTT
66214355 TAAA
1 TAAA
66214359 ATATACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:66214480 original size:21 final size:20
Alignment explanation
Indices: 66214436--66214488 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
66214426 TTTTTTATTA
66214436 TTAAAAATATATATTTAATAT
1 TTAAAAATA-ATATTTAATAT
66214457 TTAATAAATAATATTTAA-ACT
1 TTAA-AAATAATATTTAATA-T
66214478 TTAAAAA-AATA
1 TTAAAAATAATA
66214489 ATTTCAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 17 0.57
22 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAAATAATATTTAATAT
Found at i:66214487 original size:22 final size:21
Alignment explanation
Indices: 66214438--66214490 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
66214428 TTTTATTATT
66214438 AAAAATATATATTTAATATTTA
1 AAAAATA-ATATTTAATATTTA
*
66214460 ATAAATAATATTTAA-ACTTTAA
1 AAAAATAATATTTAATA-TTT-A
66214482 AAAAATAAT
1 AAAAATAAT
66214491 TTCAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 15 0.56
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAATATTTAATATTTA
Found at i:66214577 original size:65 final size:65
Alignment explanation
Indices: 66214502--66214660 Score: 225
Period size: 65 Copynumber: 2.4 Consensus size: 65
66214492 TCAAATATAT
* * *
66214502 ATTTAAAATTAAGAATAAAAAATAAATAAAAT-AAATAAGGATAAAGACAACATTTCA-ATTTTA
1 ATTTAAAATTAATAATAAAAAATAAATAAAATAAAATAAGGATAAAGACAAAATAT-ATA-TTTA
66214565 AA
64 AA
*
66214567 ATTTAAAATTAATAATAAATAATAAAT-AAATAAAATAAGGATAAAGACAAAATATATATTTAAA
1 ATTTAAAATTAATAATAAAAAATAAATAAAATAAAATAAGGATAAAGACAAAATATATATTTAAA
66214631 ATTTAAAATTAATAATAAATAAAATAAATA
1 ATTTAAAATTAATAAT-AA-AAAATAAATA
66214661 TATTTAAAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
64 27 0.32
65 49 0.58
66 8 0.10
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (65 bp):
ATTTAAAATTAATAATAAAAAATAAATAAAATAAAATAAGGATAAAGACAAAATATATATTTAAA
Found at i:66214656 original size:282 final size:279
Alignment explanation
Indices: 66214085--66214656 Score: 587
Period size: 282 Copynumber: 2.0 Consensus size: 279
66214075 TTTATTTATT
* *
66214085 ATAAAATATTATAAAATTAATAATAAATTTGAAAGATCATATCTTTAAATATTTAAATGTCTTAT
1 ATAAAATATTATAAAACTAATAATAAACTTGAAAGATCATATCTTTAAATATTTAAATGTCTTAT
* * **
66214150 ATTATTAAAAAATTATATTTAACATTTAAAAAATAATATTTTAAATTTTAAATTTTTTTAAAATA
66 ATTATTAAAAAATTATATTTAACATTTAAAAAATAATATTTTAAATTTAAAAATAATTTAAAATA
* * * *
66214215 TATATTTAAAACTTAAAAAAAAGATTAAAAAATATATTATACAATATTTCAAATACACATTTCAA
131 TATATTTAAAACTTAAAAAAAAGAATAAAAAATATATAATACAAGA-TTCAAAGACACATTTCAA
** * * **** *
66214280 GTTTTTTTAAAAGTAATAATAAGAATAAATAAAATTTATTTAATCTTTATAAAATAAATTTTAAA
195 GTTTTTTTAAAAGTAATAATAAGAATAAATAAAATAAAATAAATAAAGACAAAATAAATTTTAAA
* *
66214345 TTTTAAATTTTAAAATATAC
260 ATTTAAATATTAAAATATAC
* *
66214365 ATTTAAAATATTATAAAACTAATAATAAACTTGAAAGGTCATATCTTTAAATATTTAAATGTTTT
1 A--TAAAATATTATAAAACTAATAATAAACTTGAAAGATCATATCTTTAAATATTTAAATGTCTT
* * *
66214430 TTATTATT-AAAAATATATATTTAATATTTAATAAATAATA-TTTAAACTTTAAAAAAATAATTT
64 ATATTATTAAAAAAT-TATATTTAACATTTAAAAAATAATATTTTAAA-TTT--AAAAATAATTT
* *
66214493 CAAATATATATTTAAAA-TTAAGAATAAAA-AATAAATAAA-ATA-AATA-AGGA-T-AAAGACA
125 AAAATATATATTTAAAACTTAA-AA-AAAAGAATAAA-AAATATATAATACAAGATTCAAAGAC-
* *
66214551 ACATTTCAA-TTTTAAAATTTAAAATTAATAATAAATAATAAAT-AAATAAAATAAGGATAAAGA
186 ACATTTCAAGTTTT----TTTAAAAGTAATAAT-AAGAATAAATAAAATAAAATAA--ATAAAGA
*
66214614 CAAAATATATATTTAAAATTTAAA-ATTAATAATA-A-
244 CAAAATAAAT-TTTAAAATTTAAATATTAA-AATATAC
66214649 ATAAAATA
1 ATAAAATA
66214657 AATATATTTA
Statistics
Matches: 242, Mismatches: 31, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
279 9 0.04
280 11 0.05
281 12 0.05
282 100 0.41
283 28 0.12
284 43 0.18
285 23 0.10
286 16 0.07
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (279 bp):
ATAAAATATTATAAAACTAATAATAAACTTGAAAGATCATATCTTTAAATATTTAAATGTCTTAT
ATTATTAAAAAATTATATTTAACATTTAAAAAATAATATTTTAAATTTAAAAATAATTTAAAATA
TATATTTAAAACTTAAAAAAAAGAATAAAAAATATATAATACAAGATTCAAAGACACATTTCAAG
TTTTTTTAAAAGTAATAATAAGAATAAATAAAATAAAATAAATAAAGACAAAATAAATTTTAAAA
TTTAAATATTAAAATATAC
Found at i:66216131 original size:20 final size:20
Alignment explanation
Indices: 66216106--66216145 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
66216096 ACTATGTATG
*
66216106 TTAATTAAATTATGTTTAAT
1 TTAATTAAACTATGTTTAAT
66216126 TTAATTAAACTATGTTTAAT
1 TTAATTAAACTATGTTTAAT
66216146 CAAGTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAATTAAACTATGTTTAAT
Found at i:66222703 original size:28 final size:28
Alignment explanation
Indices: 66222671--66222727 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
66222661 TCATGGGTTG
*
66222671 CGCATGGGAGCCCGCAACCATGACACAT
1 CGCATGGGAGCCCACAACCATGACACAT
66222699 CGCATGGGAGCCCACAACCATGACACAT
1 CGCATGGGAGCCCACAACCATGACACAT
66222727 C
1 C
66222728 TGTGTGAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.37, G:0.23, T:0.11
Consensus pattern (28 bp):
CGCATGGGAGCCCACAACCATGACACAT
Found at i:66234598 original size:34 final size:33
Alignment explanation
Indices: 66234520--66234598 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 33
66234510 TTATACTATA
* * *
66234520 ATTATACTTACTTTTATGGTTATCATTATTCTT
1 ATTATACTTTCTTTTATCGTTATCATTATTATT
* *
66234553 ATTATTA-TTTCTTTATATCTTTGTCATTATTATT
1 ATTA-TACTTTCTTT-TATCGTTATCATTATTATT
66234587 ATTATACTTTCT
1 ATTATACTTTCT
66234599 CTTTTTTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
33 12 0.32
34 26 0.68
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (33 bp):
ATTATACTTTCTTTTATCGTTATCATTATTATT
Found at i:66236838 original size:30 final size:29
Alignment explanation
Indices: 66236802--66236863 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
66236792 ACCTAATAAG
66236802 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAAT-AAAAAATTAA
*
66236832 CAAATGCCTTTAAAATAATAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAATTAA
66236861 CAA
1 CAA
66236864 TAAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (29 bp):
CAAATGCCTCTAAAATAATAAAAAATTAA
Found at i:66246819 original size:24 final size:24
Alignment explanation
Indices: 66246753--66246821 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
66246743 TATAGATTAT
* *
66246753 ATATTT-AAA-TTAAATTTTACAA
1 ATATTTAAAATTTATATTTTATAA
* * *
66246775 ATAATTAATATTAAT-TATTTATAA
1 ATATTTAAAATTTATAT-TTTATAA
66246799 ATATTTAAAATTTATATTTTATA
1 ATATTTAAAATTTATATTTTATA
66246822 TATGAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
22 5 0.14
23 3 0.09
24 26 0.74
25 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTTAAAATTTATATTTTATAA
Found at i:66253876 original size:23 final size:23
Alignment explanation
Indices: 66253846--66253891 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
66253836 CCTGAAATAG
* *
66253846 ATTTCCAAAATCAGTCTAATCTT
1 ATTTCCAAAATCAATATAATCTT
66253869 ATTTCCAAAATCAATATAATCTT
1 ATTTCCAAAATCAATATAATCTT
66253892 TACTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTCCAAAATCAATATAATCTT
Found at i:66262051 original size:157 final size:157
Alignment explanation
Indices: 66261765--66262074 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
66261755 ATAAGAATAT
*
66261765 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
66261830 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
66261895 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
66261922 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
66261987 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
66262052 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
66262075 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:66262225 original size:16 final size:16
Alignment explanation
Indices: 66262204--66262271 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
66262194 GTTTTGCTAT
66262204 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
66262220 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
66262236 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
66262252 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
66262268 TACA
1 TACA
66262272 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:66273335 original size:25 final size:24
Alignment explanation
Indices: 66273270--66273359 Score: 65
Period size: 25 Copynumber: 3.6 Consensus size: 24
66273260 GCAGTAAATG
* * *
66273270 GGAAGCTCTTCCAAGCTGAATAACA
1 GGAAGCTCTTACGAGCT-AATATCA
*
66273295 GGAAGCTCATGA-GAGCTAAGTATCA
1 GGAAGCTC-TTACGAGCTAA-TATCA
* *
66273320 GGAAGCTCTTACGAGCTGATTATCG
1 GGAAGCTCTTACGAGCT-AATATCA
* *
66273345 GGAAACTCTTGCGAG
1 GGAAGCTCTTACGAG
66273360 TTGTGGTGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
24 4 0.08
25 46 0.88
26 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (24 bp):
GGAAGCTCTTACGAGCTAATATCA
Found at i:66284930 original size:30 final size:30
Alignment explanation
Indices: 66284896--66284956 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66284886 TCCTTAACTC
66284896 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
66284926 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
66284956 A
1 A
66284957 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:66286576 original size:13 final size:13
Alignment explanation
Indices: 66286572--66286596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66286562 CAATTACCCA
66286572 ACCCAACCCAATT
1 ACCCAACCCAATT
66286585 ACCCAACCCAAT
1 ACCCAACCCAAT
66286597 CATAAAAATT
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:66286581 original size:18 final size:18
Alignment explanation
Indices: 66286558--66286595 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
66286548 ATTGGATATT
66286558 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
66286576 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
66286594 AA
1 AA
66286596 TCATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:66286640 original size:21 final size:20
Alignment explanation
Indices: 66286616--66286655 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
66286606 TACAAATAAT
66286616 TTAATAAATAAAAATAAAAAC
1 TTAAT-AATAAAAATAAAAAC
*
66286637 TTAATACTAAAAATAAAAA
1 TTAATAATAAAAATAAAAA
66286656 TAAAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
TTAATAATAAAAATAAAAAC
Found at i:66286699 original size:9 final size:9
Alignment explanation
Indices: 66286681--66286739 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
66286671 TTTATAAAAA
*
66286681 TAATTTGGT
1 TAATTCGGT
66286690 TAATTCGGT
1 TAATTCGGT
66286699 TAATTCGGT
1 TAATTCGGT
* *
66286708 TAATTTGGG
1 TAATTCGGT
66286717 TAATTCAGG-
1 TAATTC-GGT
66286726 TAATTCGGT
1 TAATTCGGT
66286735 TAATT
1 TAATT
66286740 TTATACTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
8 2 0.05
9 40 0.91
10 2 0.05
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:66286720 original size:27 final size:27
Alignment explanation
Indices: 66286681--66286740 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
66286671 TTTATAAAAA
*
66286681 TAATTTGGTTAATTC-GGTTAATTCGGT
1 TAATTTGGGTAATTCAGG-TAATTCGGT
66286708 TAATTTGGGTAATTCAGGTAATTCGGT
1 TAATTTGGGTAATTCAGGTAATTCGGT
66286735 TAATTT
1 TAATTT
66286741 TATACTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.47
Consensus pattern (27 bp):
TAATTTGGGTAATTCAGGTAATTCGGT
Found at i:66287981 original size:21 final size:21
Alignment explanation
Indices: 66287956--66288005 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
66287946 ATTCTTGAAA
66287956 TTAAAAGTATAAGACTAAATT
1 TTAAAAGTATAAGACTAAATT
*
66287977 TTAAAAATATAAGACTAAATT
1 TTAAAAGTATAAGACTAAATT
66287998 TTAAAAGT
1 TTAAAAGT
66288006 TCAAAGAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (21 bp):
TTAAAAGTATAAGACTAAATT
Found at i:66295324 original size:40 final size:40
Alignment explanation
Indices: 66295273--66295440 Score: 198
Period size: 41 Copynumber: 4.1 Consensus size: 40
66295263 GCAAAAATTG
* *
66295273 TAAAACACAGAGCAATAGCGGCGTTTTAC-CAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTT-CGGAAAAACGCCGC
* *
66295314 TAAAAACAGAGCAATAGCGGCGTTTTAAC-AAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTT--CGGAAAAACGCCGC
*
66295355 TAAAAACAG-GTCAATAGCGGCGCTTTCGGTAAAACGCCGC
1 TAAAAACAGAG-CAATAGCGGCGCTTTCGGAAAAACGCCGC
* *
66295395 TAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTCGGAAAAACGCCGC
66295436 TAAAA
1 TAAAA
66295441 GTCATATAAC
Statistics
Matches: 117, Mismatches: 5, Indels: 10
0.89 0.04 0.08
Matches are distributed among these distances:
39 1 0.01
40 38 0.32
41 77 0.66
42 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.16
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTCGGAAAAACGCCGC
Found at i:66295455 original size:18 final size:18
Alignment explanation
Indices: 66295432--66295469 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
66295422 CGGTAAAACG
66295432 CCGCTAAAAGTCATATAA
1 CCGCTAAAAGTCATATAA
66295450 CCGCTAAAAGTCATATAA
1 CCGCTAAAAGTCATATAA
66295468 CC
1 CC
66295470 CCAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (18 bp):
CCGCTAAAAGTCATATAA
Found at i:66295483 original size:19 final size:18
Alignment explanation
Indices: 66295437--66295476 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
66295427 AAACGCCGCT
* *
66295437 AAAAGTCATATAACCGCT
1 AAAAGTCATATAACCCCA
66295455 AAAAGTCATATAACCCCA
1 AAAAGTCATATAACCCCA
66295473 AAAA
1 AAAA
66295477 AATCATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.23, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAAGTCATATAACCCCA
Found at i:66295721 original size:14 final size:15
Alignment explanation
Indices: 66295704--66295740 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
66295694 TAATATTTAA
66295704 GGTTTAAGG-TCTAT
1 GGTTTAAGGTTCTAT
*
66295718 GGTTTAGGGTTCTAT
1 GGTTTAAGGTTCTAT
66295733 GGTTTAAG
1 GGTTTAAG
66295741 TTTAATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (15 bp):
GGTTTAAGGTTCTAT
Found at i:66300569 original size:19 final size:19
Alignment explanation
Indices: 66300546--66300592 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
66300536 ATTTAATCTA
*
66300546 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
66300564 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
66300584 ATTTTTATT
1 ATTTTTATT
66300593 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:66300967 original size:85 final size:86
Alignment explanation
Indices: 66300860--66301043 Score: 253
Period size: 85 Copynumber: 2.2 Consensus size: 86
66300850 ATTTCATGAC
* * * * * *
66300860 CTTTAGCGGCGTTTGGGGAAAAAGTGCCGCTAAAGGTTATGATCTTTAGCGGCGTTTGC-GAAAA
1 CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGCAAAAAA
* *
66300924 AGCGCCGCTAAAGGTCGTGGT
66 AGCACCGCTAAAGGTCATGGT
* * *
66300945 CTTTAGCGGCGTTTGCGAAAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGTATTTGCAAAAAA
1 CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGCAAAAAA
66301010 AGCACCGCTAAAGGTCATGGT
66 AGCACCGCTAAAGGTCATGGT
*
66301031 CTTTAGTGGCGTT
1 CTTTAGCGGCGTT
66301044 GCATATAGCG
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
85 51 0.59
86 35 0.41
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (86 bp):
CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGCAAAAAA
AGCACCGCTAAAGGTCATGGT
Found at i:66300981 original size:43 final size:43
Alignment explanation
Indices: 66300860--66301043 Score: 253
Period size: 43 Copynumber: 4.3 Consensus size: 43
66300850 ATTTCATGAC
* * * * *
66300860 CTTTAGCGGCGTTTGGGGAAAAAGTGCCGCTAAAGGTTATGAT
1 CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGT
*
66300903 CTTTAGCGGCGTTTGCG-AAAAAGCGCCGCTAAAGGTCGTGGT
1 CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGT
*
66300945 CTTTAGCGGCGTTTGCGAAAAAAGCGTCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGT
** * *
66300988 CTTTAGCGGTATTTGCAAAAAAAGCACCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGT
*
66301031 CTTTAGTGGCGTT
1 CTTTAGCGGCGTT
66301044 GCATATAGCG
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 38 0.30
43 87 0.70
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGT
Found at i:66303879 original size:27 final size:27
Alignment explanation
Indices: 66303830--66303985 Score: 142
Period size: 27 Copynumber: 5.8 Consensus size: 27
66303820 GCGAGGCTGC
* *
66303830 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
**
66303857 CAGATATTGTGGCAGAGTTACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
66303883 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
66303910 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* * *
66303937 CAGATATATGTAGTAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
66303964 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
66303986 TAGGACGCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
26 10 0.09
27 91 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:66303923 original size:54 final size:54
Alignment explanation
Indices: 66303848--66303985 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
66303838 GTGACGAAGT
** *
66303848 CACCAGATACAGAT-ATTGTGGCAGAGTTACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTAGCAGAGC
* * *
66303902 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTAGTAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTAGCAGAGC
* *
66303956 CATCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCAGAGCCAC
66303986 TAGGACGCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
53 5 0.07
54 70 0.93
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTAGCAGAGC
Found at i:66308939 original size:29 final size:30
Alignment explanation
Indices: 66308880--66308937 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
66308870 TCCGAGCCTT
*
66308880 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
66308910 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
66308938 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:66309167 original size:13 final size:13
Alignment explanation
Indices: 66309149--66309180 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
66309139 TTTCCAGCAA
66309149 TTATGAATTTATT
1 TTATGAATTTATT
66309162 TTATGAATTTATT
1 TTATGAATTTATT
*
66309175 TGATGA
1 TTATGA
66309181 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:66309388 original size:50 final size:50
Alignment explanation
Indices: 66309275--66309516 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
66309265 ATTTGGGTAA
* * * *
66309275 AGAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
66309331 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
66309381 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
66309431 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
66309481 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
66309517 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:66309463 original size:100 final size:103
Alignment explanation
Indices: 66309275--66309524 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
66309265 ATTTGGGTAA
*
66309275 AGAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
66309340 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
66309381 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
66309443 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
66309481 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
66309525 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:66315233 original size:48 final size:48
Alignment explanation
Indices: 66315178--66315504 Score: 320
Period size: 48 Copynumber: 6.8 Consensus size: 48
66315168 TGATATGTGT
* * **
66315178 GCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
66315226 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
* * *
66315274 GCTAGTGTAAGACCATGTTTGGAATATGACATCGGTAATGTTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
* * * *
66315322 GCCAGTGTAAGACCATGTTTAGAATATGGCATCGGTAATGTTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
* * * * * * ** *
66315370 GCCAGTGTAAGACGATGTCTGGGACATAGCAAT-GGCATTGAGATGAGG
1 GCTAGTGTAAGACCATGTTTGGAACATGGC-ATCGGCAATGTTATGAGA
* * * * * * **
66315418 GCTAGTGTAAGACAATGTCTGGGATATGGTATCGGC-CTCGACATGTA-A
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT-GTTATG-AGA
* *
66315466 GCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCAAT
1 GCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCAAT
66315505 TTACCCTCTT
Statistics
Matches: 237, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
47 3 0.01
48 228 0.96
49 6 0.03
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
Found at i:66323768 original size:21 final size:21
Alignment explanation
Indices: 66323744--66323783 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
66323734 ACTATTTCTA
*
66323744 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
66323765 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
66323784 CGTCATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:66328074 original size:18 final size:19
Alignment explanation
Indices: 66328053--66328090 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
66328043 AAGTTCAACA
66328053 ATTAAA-TTATTAA-AATAT
1 ATTAAAGTT-TTAATAATAT
66328071 ATTAAAGTTTTAATAATAT
1 ATTAAAGTTTTAATAATAT
66328090 A
1 A
66328091 AAAAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTAAAGTTTTAATAATAT
Found at i:66332645 original size:19 final size:19
Alignment explanation
Indices: 66332621--66332660 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
66332611 GCAAATGTTC
66332621 TTTCATTCTTTACGATTTT
1 TTTCATTCTTTACGATTTT
**
66332640 TTTCATTCTTTTGGATTTT
1 TTTCATTCTTTACGATTTT
66332659 TT
1 TT
66332661 CTGCTAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.68
Consensus pattern (19 bp):
TTTCATTCTTTACGATTTT
Found at i:66335178 original size:132 final size:132
Alignment explanation
Indices: 66334889--66335780 Score: 1147
Period size: 132 Copynumber: 6.8 Consensus size: 132
66334879 CTGCATTGAC
* *
66334889 AGTGGAGCAGATCAAAGATGGTGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGACA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
** ** * *
66334954 GTAATTGACT-TCT--CTGGATAGCAGCAGAATAGATTGAAGATTTCAGATCTTGCCTCCCCAAG
66 GTAATT--CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
66335016 CAGT
129 CAGT
* *
66335020 AGTGGAGTAGATCAAAGATGGTGGATTTTACCTCATC-GTGGTTACAGTGGAGTACATTGAAGCC
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTC-TCTGTGGTTACAGTGGAGTACATTGAAGCC
* *
66335084 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGC
65 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC
66335149 AGT
130 AGT
* * * *
66335152 AGTGGAGCAGATCGAAGATAGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * * * *
66335217 GTAATTCTATCTTCCTGGGCAACAGTGGAATAGACTGAAGATTTTAGATCTTGCCTTCCTGTATA
66 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTC-TCC-CTA-A
66335282 G-A-T
128 GCAGT
* * * * * *
66335285 AGCGAAGCAGATCGAAGACGGCAGATTTTACATCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
* ** * *
66335350 GTAATTCTA-CTTCCCTGGACAGCAGCAGAATAGATTGAAGATTTCAGATCTTGTTTCCCTAAAC
66 GTAATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC
66335414 AGT
130 AGT
* * *
66335417 AGTGGAGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * *
66335482 GTAATTCTA-CTTCCCTGGACAGCAGCGAAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC
66 GTAATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC
66335546 AGT
130 AGT
* ** * *
66335549 AGTGGAACAGATCAAAGATGGCATATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
* *
66335614 GTAATTCTA-CTTCCCTGGGGCAACAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAG
66 GTAATTCTATC-TCCCT-GGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAG
66335678 CAGT
129 CAGT
* * *
66335682 AGTGGAGTAGATCAAAGATGGTGGATTTTACCTC-CTTGAGGTTACAGTGGAGTACATTGAAGCC
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCTC-TGTGGTTACAGTGGAGTACATTGAAGCC
* * *
66335746 AGTATTTCTATCTCCCGGGGCAACAGTGGAATAGA
65 AGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
66335781 CAGAAGAAAC
Statistics
Matches: 675, Mismatches: 72, Indels: 27
0.87 0.09 0.03
Matches are distributed among these distances:
129 2 0.00
130 4 0.01
131 70 0.10
132 374 0.55
133 219 0.32
134 4 0.01
135 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCA
GT
Found at i:66335383 original size:265 final size:263
Alignment explanation
Indices: 66334889--66335787 Score: 1180
Period size: 265 Copynumber: 3.4 Consensus size: 263
66334879 CTGCATTGAC
* * * *
66334889 AGTGGAGCAGATCAAAGATGGTGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGACA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * * * * *
66334954 GTAATT-GACTTCTCTGGATAGCAGCAGAATAGATTGAAGATTTCAGATCTTGCCTCCCCAAGCA
66 GTAATTCTACTTC-CTGGACAACAGCGGAATAGACTGAAGATTTCAGATCTTGCCTCCCTAAGCA
* * * **
66335018 GTAGTGGAGTAGATCAAAGATGGTGGATTTTACCTCATC-GTGGTTACAGTGGAGTACATTGAAG
130 GTAGCGAAGCAGATCAAAGATGGCAGATTTTACCTC-TCTGTGGTTACAGTGGAGTACATTGAAG
* *
66335082 CCAGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
194 CCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTA
66335146 AGCAGT
258 AGCAGT
* *
66335152 AGTGGAGCAGATCGAAGATAGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * * *
66335217 GTAATTCTATCTTCCTGGGCAACAGTGGAATAGACTGAAGATTTTAGATCTTGCCTTCCTGTATA
66 GTAATTCTA-CTTCCTGGACAACAGCGGAATAGACTGAAGATTTCAGATCTTGCC-TCC-CTA-A
* * *
66335282 G-A-TAGCGAAGCAGATCGAAGACGGCAGATTTTACATCTCTGTGGTTACAGTGGAGTACATTGA
127 GCAGTAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGA
* ** *
66335345 AGCCAGTAATTCTACTTCCCTGGACAGCAGCAGAATAGATTGAAGATTTCAGATCTTGTTTCCCT
192 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCT
*
66335410 AAACAGT
257 AAGCAGT
* * *
66335417 AGTGGAGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * * *
66335482 GTAATTCTACTTCCCTGGACAGCAGCGAAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCA
66 GTAATTCTACTT-CCTGGACAACAGCGGAATAGACTGAAGATTTCAGATCTTGCCTCCCTAAGCA
* * * *
66335547 GTAGTGGAA-CAGATCAAAGATGGCATATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAG
130 GTAG-CGAAGCAGATCAAAGATGGCAGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAG
* *
66335611 CCAGTAATTCTACTTCCCTGGGGCAACAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTA
194 CCAGTAATTCTACTTCCCT-GGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTA
66335676 AGCAGT
258 AGCAGT
* * *
66335682 AGTGGAGTAGATCAAAGATGGTGGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * * * * *
66335747 GTATTTCTATCTCCCGGGGCAACAGTGGAATAGACAGAAGA
66 GTAATTCTA-CTTCCTGGACAACAGCGGAATAGACTGAAGA
66335788 AACCAATCCT
Statistics
Matches: 550, Mismatches: 73, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
262 2 0.00
263 68 0.12
264 114 0.21
265 359 0.65
266 5 0.01
267 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (263 bp):
AGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCTGGACAACAGCGGAATAGACTGAAGATTTCAGATCTTGCCTCCCTAAGCAG
TAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCC
AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC
AGT
Found at i:66335598 original size:397 final size:398
Alignment explanation
Indices: 66334865--66335755 Score: 1271
Period size: 397 Copynumber: 2.2 Consensus size: 398
66334855 GTGATGCTAG
* * * *
66334865 CAGATCTTGCCTTTCTGCATTGACAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCTCTGTGG
1 CAGATCTTGCCTTCCTGTATAGATAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCTCTGTGG
* * * *
66334930 TTACAGTGGAGTACATTGAAGACAGTAATT-GACTTCTCTGGATAGCAGCAGAATAGATTGAAGA
66 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAGCAGCAGAATAGATTGAAGA
* * ***
66334994 TTTCAGATCTTGCCTCCCCAAGCAGTAGTGGAGTAGATCAAAGATGGTGGATTTTACCTCATCGT
131 TTTCAGATCTTGCCTCCCCAAACAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCATCGT
* * *
66335059 GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAA
196 GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGACAGCAGCGAAATAGATTGAA
* * *
66335124 GATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCGGATTTTACCTCCCT
261 GATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGATAGCAGATTTTACCTCCCT
66335189 GAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTT-CCT-GGGCAACAGTGGAATAGAC
326 GAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGGCAACAGTGGAATAGAC
66335252 TGAAGATTT
390 TGAAGATTT
* * * * * ** *
66335261 TAGATCTTGCCTTCCTGTATAGATAGCGAAGCAGATCGAAGACGGCAGATTTTACATCTCTGTGG
1 CAGATCTTGCCTTCCTGTATAGATAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCTCTGTGG
66335326 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAGCAGCAGAATAGATTGAAGA
66 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAGCAGCAGAATAGATTGAAGA
** * *
66335391 TTTCAGATCTTGTTTCCCTAAACAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTC-CCTG
131 TTTCAGATCTTGCCTCCCCAAACAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCATC-G
66335455 TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGACAGCAGCGAAATAGATTG
195 TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGACAGCAGCGAAATAGATTG
* * * *
66335519 AAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAACAGATCAAAGATGGCATATTTTACCTCC
259 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGATAGCAGATTTTACCTCC
66335584 CT-ATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGGCAACAGTGGAATAG
324 CTGA-GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGGCAACAGTGGAATAG
*
66335648 ATTGAAGATTT
388 ACTGAAGATTT
* * * *
66335659 CAGATATTGTC-TCC-CTA-AGCAGTAGTGGAGTAGATCAAAGATGGTGGATTTTACCTC-CTTG
1 CAGATCTTGCCTTCCTGTATAG-A-TAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCTC-TG
* *
66335720 AGGTTACAGTGGAGTACATTGAAGCCAGTATTTCTA
63 TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
66335756 TCTCCCGGGG
Statistics
Matches: 436, Mismatches: 50, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
395 2 0.00
396 92 0.21
397 307 0.70
398 35 0.08
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (398 bp):
CAGATCTTGCCTTCCTGTATAGATAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCTCTGTGG
TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAGCAGCAGAATAGATTGAAGA
TTTCAGATCTTGCCTCCCCAAACAGTAGTGGAGCAGATCAAAGATGACAGATTTTACCTCATCGT
GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGACAGCAGCGAAATAGATTGAA
GATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGATAGCAGATTTTACCTCCCT
GAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGGCAACAGTGGAATAGACT
GAAGATTT
Found at i:66337401 original size:3 final size:3
Alignment explanation
Indices: 66337395--66337456 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
66337385 ATTAAATTGC
* *
66337395 ATT ATT ATT ATT -GT ATT ATT -GT ATT ATCT ATT ATTT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT
*
66337441 ATT ATT AGT ATT ATT A
1 ATT ATT ATT ATT ATT A
66337457 CTTCCATACG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
2 2 0.04
3 37 0.77
4 9 0.19
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:66337412 original size:14 final size:14
Alignment explanation
Indices: 66337390--66337456 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
66337380 TTTTGATTAA
*
66337390 ATTGCATTATTATT
1 ATTGTATTATTATT
*
66337404 ATTGTATTATT-GT
1 ATTGTATTATTATT
66337417 A-T-TATCTATTATTT
1 ATTGTAT-TATTA-TT
*
66337431 ATTATA-TATTATT
1 ATTGTATTATTATT
66337444 ATTAGTATTATTA
1 ATT-GTATTATTA
66337457 CTTCCATACG
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
11 3 0.07
12 5 0.12
13 7 0.17
14 19 0.45
15 6 0.14
16 2 0.05
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (14 bp):
ATTGTATTATTATT
Found at i:66337421 original size:19 final size:19
Alignment explanation
Indices: 66337397--66337456 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 19
66337387 TAAATTGCAT
66337397 TATTATTATTGTATTATTGTA
1 TATTATTATTGTATTA-T-TA
66337418 TTATCTATTATT-TATTA-TA
1 -TAT-TATTATTGTATTATTA
66337437 TATTATTATTAGTATTATTA
1 TATTATTATT-GTATTATTA
66337457 CTTCCATACG
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.21
18 3 0.09
19 7 0.21
20 2 0.06
22 8 0.24
23 7 0.21
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TATTATTATTGTATTATTA
Found at i:66338500 original size:18 final size:17
Alignment explanation
Indices: 66338475--66338509 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
66338465 CATTAAGTTC
*
66338475 AACAATTAAATTATTAA
1 AACAATTAAAATATTAA
66338492 AACATATTAAAATATTAA
1 AACA-ATTAAAATATTAA
66338510 TAATATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (17 bp):
AACAATTAAAATATTAA
Found at i:66346490 original size:47 final size:47
Alignment explanation
Indices: 66346431--66346521 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
66346421 TTATACGGAT
*
66346431 CACATATCACACTGATGTCATATCTCAGATATGGTCTTACACAGTAG
1 CACATATCACACTGATGCCATATCTCAGATATGGTCTTACACAGTAG
*
66346478 CACATATCACACTGATGCCATATCTCAGATATGGTCTTATACAG
1 CACATATCACACTGATGCCATATCTCAGATATGGTCTTACACAG
66346522 AAACTCATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (47 bp):
CACATATCACACTGATGCCATATCTCAGATATGGTCTTACACAGTAG
Done.