Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 172 of 216
Found at i:54012390 original size:23 final size:23
Alignment explanation
Indices: 54012347--54012391 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
54012337 TGCTTTTGTA
*
54012347 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
54012370 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
54012392 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:54012765 original size:789 final size:779
Alignment explanation
Indices: 54011245--54012821 Score: 2665
Period size: 785 Copynumber: 2.0 Consensus size: 779
54011235 AATAAACGCC
* * *
54011245 ACAAATCTTGCTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTATTTTTTCAATTTATTTATTTG
1 ACAAATCTTGCTCTATAGCGGCGTTTTCTGTATAAACGCCGCTAATTTTTCAATTTATTTAGTTG
*
54011310 TCTTTATTTATAAGTTTAATGATTTTTAATAGATTTTTTTTATAATTGTTATGACATTATTTTAA
66 TCTTTATTTATAAGTCTAATGATTTTTAATAGATTTTTTTTATAATTGTTATGACATTATTTTAA
* * *
54011375 ATTATACATTAATATGCATTTATAAAATTATTTCAATTTTATGCAGTATATATAATATATAACAT
131 ATTATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAATATATATAATATATAACAT
54011440 ATATGCATAGATATATATCGTGGCATATATTATATATATAACCCTGTCACTTATAATCCTATATA
196 ATATGCATAGATATATATCGTGGCA-ATATTATATATATAACCCTGTCACTTATAATCCTATATA
*
54011505 CTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTTTTTTTTTTGCTTTTGTACCCTAAAA
260 CTAGTGACATAATAAGAAGTAAAAAGCAAAAAGAATTTTTTTTTTTTTGCTTTTGTACCCTAAAA
*
54011570 CCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAGCTAACTCG
325 CCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAGCTAACTCA
* * *
54011635 TATTCTTCATGCAAATCCGAACGCAAAAACCAAGCATTGTAACATTCAAATCAATAAGTGTGAAC
390 TATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATAAGGGTAAAC
* * *
54011700 CATAAACCATAAATATCAAGTCGTAAAACAGTAAATTTGATCATTACATCTTATAAGCCGTAAAC
455 CATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTACATCTTATAAGCCGTAAAC
54011765 CTCGCATTAAAACTAACATGTAAACTCAAACCTAAACCCCATTCCTCAAGCCATAAACCTAAACC
520 CTCGCATTAAAACTAACATGTAAACTCAAACCTAAACCCCATTCCTCAAGCCATAAACCTAAACC
*
54011830 TAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCAAACCCTAAAACCC
585 CAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCAAACCCTAAAACCC
* * *
54011895 CAAACCGTATGCAACAAAACTTAAATATTAATCCCAATACCCTAAAATACATAACTTTCATTTGC
650 CAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACATAACTTTCATTTAC
*
54011960 GGTGTTTTTAC-A-AAAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCATTTCGGTT
715 GGCGTTTTTACAAGAAAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCATTTCGGTT
*
54012023 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAACGCCGCTAATTTTTCAATTTATTTTAGTT
1 ACAAATCTTGCTCTATAGCGGCGTTTTCTGTATAAACGCCGCTAATTTTTCAATTTA-TTTAGTT
*
54012088 GTCTTTATTTATAAGTCTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
65 GTCTTTATTTATAAGTCTAATGATTTTTAATAGA--TTTT-TTTT-ATAATTGTTATGACATTAT
*
54012153 TTTAAATTGATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAATATGTATAATATA
126 TTTAAATT-ATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAATATATATAATATA
*
54012218 TAACATATATGCATAGATATATATCGTGGC-ATATTATATATATAACCCTGTCTCTTATAATCCT
190 TAACATATATGCATAGATATATATCGTGGCAATATTATATATATAACCCTGTCACTTATAATCCT
54012282 ATATACTAGTGACATAATAAGAAGTAAAAAGCAAAAAGAATTTTAATTTTTTTTTTGCTTTTGTA
255 ATATACTAGTGACATAATAAGAAGTAAAAAGCAAAAAGAA-TTT--TTTTTTTTTTGCTTTTGTA
54012347 CCCTAAAACCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAG
317 CCCTAAAACCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAG
*
54012412 CTACCTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATAA
382 CTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATAA
* *
54012477 GGGTAAACCATAAACCATAAACATCAAGCCGTAAAATAATAAATTTGATCATTAATATATCTTAT
447 GGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCA-T--TACATCTTAT
* *
54012542 AAGCTGTAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCTATTCCTCAAGCCA
509 AAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAA-CCTAAACCCCATTCCTCAAGCCA
* * *
54012607 TAAACCTAAACCCAAAACCCTAAACATAAAATTGTAATTCTAAATTAATAAACATTATGTATCGA
573 TAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCAA
54012672 ACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACATA
638 ACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACATA
54012737 ACTTTCATTTACGGCGTTTTTACAAAAAAGTAAAAACGCCGCTAATACCAATAAACAGTATAAAA
703 ACTTTCATTTACGGCGTTTTTAC----AAG-AAAAACGCCGCTAATACCAATAAACAGTATAAAA
*
54012802 ACGAAGTCGTTTCGGTT
763 ACGAAGTCATTTCGGTT
54012819 ACA
1 ACA
54012822 CATTTTACGG
Statistics
Matches: 746, Mismatches: 33, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
778 54 0.07
779 38 0.05
781 4 0.01
782 76 0.10
783 30 0.04
784 82 0.11
785 191 0.26
786 1 0.00
788 49 0.07
789 167 0.22
794 1 0.00
796 53 0.07
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (779 bp):
ACAAATCTTGCTCTATAGCGGCGTTTTCTGTATAAACGCCGCTAATTTTTCAATTTATTTAGTTG
TCTTTATTTATAAGTCTAATGATTTTTAATAGATTTTTTTTATAATTGTTATGACATTATTTTAA
ATTATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAATATATATAATATATAACAT
ATATGCATAGATATATATCGTGGCAATATTATATATATAACCCTGTCACTTATAATCCTATATAC
TAGTGACATAATAAGAAGTAAAAAGCAAAAAGAATTTTTTTTTTTTTGCTTTTGTACCCTAAAAC
CCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAGCTAACTCAT
ATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATAAGGGTAAACC
ATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTACATCTTATAAGCCGTAAACC
TCGCATTAAAACTAACATGTAAACTCAAACCTAAACCCCATTCCTCAAGCCATAAACCTAAACCC
AAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCAAACCCTAAAACCCC
AAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACATAACTTTCATTTACG
GCGTTTTTACAAGAAAAACGCCGCTAATACCAATAAACAGTATAAAAACGAAGTCATTTCGGTT
Found at i:54013225 original size:19 final size:20
Alignment explanation
Indices: 54013201--54013268 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 20
54013191 TATATGTTTC
54013201 ATAAT-ATATAACTTATAAT
1 ATAATAATATAACTTATAAT
*
54013220 ATAATAATATAA-TTCA-AAC
1 ATAATAATATAACTT-ATAAT
54013239 ATAATAATATAACTTAT--T
1 ATAATAATATAACTTATAAT
54013257 ATAATAATATAA
1 ATAATAATATAA
54013269 TAATATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 12 0.28
19 22 0.51
20 9 0.21
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATAATATAACTTATAAT
Found at i:54013228 original size:8 final size:8
Alignment explanation
Indices: 54013215--54013276 Score: 61
Period size: 8 Copynumber: 7.1 Consensus size: 8
54013205 TATATAACTT
54013215 ATAATATA
1 ATAATATA
54013223 ATAATATA
1 ATAATATA
*
54013231 ATTCAAACATA
1 A-T--AATATA
54013242 ATAATATA
1 ATAATATA
*
54013250 ACTTATTATA
1 A--TAATATA
54013260 ATAATATA
1 ATAATATA
54013268 ATAATATA
1 ATAATATA
54013276 A
1 A
54013277 AAGAATGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 30 0.67
9 1 0.02
10 8 0.18
11 6 0.13
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:54013718 original size:113 final size:113
Alignment explanation
Indices: 54013531--54013875 Score: 573
Period size: 113 Copynumber: 3.1 Consensus size: 113
54013521 GCTTAATGCC
* *
54013531 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGTTTGGGCAAAACCGCCACTAGTGTTCCCAAATA
1 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
54013596 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
*
54013644 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
* * * * *
54013709 TATGAAAACGGCGTTGTTCTGTGTTACTCCATTGTGGCACTTTTTATA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
* * *
54013757 AAACGCCACTGAAGAATGGAGTATTAGCGGCGCTTGGGAAAAACCACCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
* *
54013822 TATGAAAATGGCATCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
54013870 AAACGC
1 AAACGC
54013876 TGCTAATGCT
Statistics
Matches: 213, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 213 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (113 bp):
AAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
Found at i:54013999 original size:41 final size:40
Alignment explanation
Indices: 54013913--54014002 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
54013903 TTTTATGTAG
54013913 CGCCGCTAATGCTCGATATTTTACGGCGTTTTTCGTAAAA
1 CGCCGCTAATGCTCGATATTTTACGGCGTTTTTCGTAAAA
* * * *
54013953 TGCCGCTAATGCTC-A-ATTGTTAGTGGCGTTTTTTGTCCAAA
1 CGCCGCTAATGCTCGATATT-TTA-CGGCGTTTTTCGT-AAAA
54013994 CGCCGCTAA
1 CGCCGCTAA
54014003 AAGGGCCGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
38 3 0.07
39 4 0.10
40 24 0.57
41 11 0.26
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATATTTTACGGCGTTTTTCGTAAAA
Found at i:54024231 original size:21 final size:23
Alignment explanation
Indices: 54024206--54024255 Score: 86
Period size: 21 Copynumber: 2.3 Consensus size: 23
54024196 TCAAGAATAT
54024206 TTTATGTATA-TATTTTCCTT-A
1 TTTATGTATATTATTTTCCTTGA
54024227 TTTATGTATATTATTTTCCTTGA
1 TTTATGTATATTATTTTCCTTGA
54024250 TTTATG
1 TTTATG
54024256 AGCTAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 10 0.37
22 10 0.37
23 7 0.26
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTATGTATATTATTTTCCTTGA
Found at i:54027902 original size:16 final size:16
Alignment explanation
Indices: 54027881--54027911 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54027871 GGGGAAAATA
*
54027881 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
54027897 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
54027912 AGTAAACAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:54028035 original size:30 final size:31
Alignment explanation
Indices: 54027996--54028055 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
54027986 ACAGGTGGGA
*
54027996 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* *
54028027 TGGG-AGGGAGTAAAAATTTTGGGGAAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
54028056 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:54038753 original size:24 final size:24
Alignment explanation
Indices: 54038700--54038753 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
54038690 CCAAATGATT
*
54038700 GAATAGGATTTGGATCTCTAACCT
1 GAATAGGATTTGGATCTCTAACCC
*
54038724 GAATAGGATTTGGATCTCTGACCC
1 GAATAGGATTTGGATCTCTAACCC
*
54038748 GGATAG
1 GAATAG
54038754 ACCCGACCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (24 bp):
GAATAGGATTTGGATCTCTAACCC
Found at i:54045955 original size:14 final size:15
Alignment explanation
Indices: 54045929--54045961 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
54045919 TGCTAAACTA
*
54045929 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
54045944 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
54045958 GGAA
1 GGAA
54045962 AAACATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:54046073 original size:18 final size:18
Alignment explanation
Indices: 54046052--54046106 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
54046042 AAAAAGAGGA
54046052 AGAAAGGAAAAGAAAAAG
1 AGAAAGGAAAAGAAAAAG
54046070 AGAAAGAGAAAGAGAAAGAAG
1 AGAAAG-GAAA-AGAAA-AAG
*
54046091 A-AAAAGAAAAGAAAAA
1 AGAAAGGAAAAGAAAAA
54046107 AGGAGAGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 2 0.06
18 11 0.33
19 8 0.24
20 8 0.24
21 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AGAAAGGAAAAGAAAAAG
Found at i:54046075 original size:6 final size:6
Alignment explanation
Indices: 54046060--54046104 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
54046050 GAAGAAAGGA
* *
54046060 AAAGAA AAAGAG AAAGAG AAAGAG AAAGAAG AAAAAG AAA-AG AAA
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAG-AG AAAGAG AAAGAG AAA
54046105 AAAGGAGAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 5 0.14
6 26 0.72
7 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:54046103 original size:24 final size:23
Alignment explanation
Indices: 54046040--54046104 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
54046030 AATATTTAAA
*
54046040 AAAAAAAGAGGAAGAAAGGAAAAG
1 AAAAAAAGA-AAAGAAAGGAAAAG
*
54046064 AAAAAGAGAAAGAGAAA-GAGAAAG
1 AAAAAAAGAAA-AGAAAGGA-AAAG
54046088 AAGAAAAAGAAAAGAAA
1 AA-AAAAAGAAAAGAAA
54046105 AAAGGAGAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 3 0.09
24 24 0.69
25 8 0.23
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAAAAGAAAGGAAAAG
Found at i:54046106 original size:6 final size:6
Alignment explanation
Indices: 54046054--54046106 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
54046044 AAAGAGGAAG
* *
54046054 AAAGGA AAAGAA AAAGAGA AAGAGAA AGAGAA AGAAGAA AAAG-A AAAGAA
1 AAAGAA AAAGAA AAAGA-A AA-AGAA AAAGAA A-AAGAA AAAGAA AAAGAA
54046104 AAA
1 AAA
54046107 AGGAGAGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.12
6 22 0.55
7 10 0.25
8 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:54046108 original size:12 final size:12
Alignment explanation
Indices: 54046042--54046106 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
54046032 TATTTAAAAA
*
54046042 AAAAAGAGGAAG
1 AAAAAGAGAAAG
*
54046054 -AAAGGA-AAAG
1 AAAAAGAGAAAG
54046064 AAAAAGAGAAAG
1 AAAAAGAGAAAG
*
54046076 AGAAAGAGAAAG
1 AAAAAGAGAAAG
*
54046088 AAGAAAAAGAAAAG
1 AA-AAAGAG-AAAG
54046102 AAAAA
1 AAAAA
54046107 AGGAGAGGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
10 3 0.07
11 10 0.23
12 16 0.37
13 8 0.19
14 6 0.14
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:54047686 original size:100 final size:100
Alignment explanation
Indices: 54047513--54048455 Score: 1377
Period size: 100 Copynumber: 9.4 Consensus size: 100
54047503 CCCCCTGAAT
* *
54047513 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCAACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
54047578 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * *
54047613 AGATTGAAGCTACAATAGCGAATCTTGCTTCCCCGAAATTACAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* * * *
54047678 CAGCGAATCTTACTTCCCTGACGATGCAGTAGAAT
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *
54047713 AGATTGAAGCTAAAACAGTGAATCTTGCTTCCCCAACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* * *
54047778 TAGCGAATCTTACTTCCC-GACGGTGTAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
*
54047812 AGATTGAAGCTACAACAATGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
*
54047877 CAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
*
54047912 AGATTGAAGCTACAACAGTGAATCTTGCTTTCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* *
54047977 CAACGAATCTTACTTCCCTGGTGGTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * *
54048012 AGACTGAAGCTACAACAATGAATCTTGCTTCCTCGACATTGCAGTTAAATAGATTTAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
**
54048077 CAGCGAATCTTACTTCCCTGGCACTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *
54048112 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGCAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
*
54048177 CAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
** * *
54048212 AGATTGAAGCTACAACAACGAATCTTGCTTCCCTGAAATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* ** * * *
54048277 CAACGAATCTTACTTCCCTGGCAATGTAATGGAAT
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * *
54048312 AGATTGAAGCTACAACAGTGAATCTTACTTCCCTGACATTGCAGTTAAATAGATTGAAGATACAA
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* * * ** ** *
54048377 CAGCGAATCTTGCTT-CTTCGACATTGTTGTGGAAT
66 CAGCGAATCTTACTTCCCT-GGCGGTGCAGTGGAAC
** **
54048412 AGATTGAAGCTACAACAGTGAATCTTATTTCCTTGACATTGCAG
1 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAG
54048456 CGGAACAGAT
Statistics
Matches: 769, Mismatches: 72, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
99 93 0.12
100 676 0.88
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (100 bp):
AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
Found at i:54048466 original size:50 final size:50
Alignment explanation
Indices: 54047509--54048473 Score: 1031
Period size: 50 Copynumber: 19.3 Consensus size: 50
54047499 TTGTCCCCCT
* ** *
54047509 GAATAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCAACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * **
54047559 AAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * * * * *
54047609 GAACAGATTGAAGCTACAATAGCGAATCTTGCTTCCCCGAAATTACAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* *
54047659 AAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACGA-TGCAGTA
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGAC-ATTGCAGTG
* * * ** *
54047709 GAATAGATTGAAGCTAAAACAGTGAATCTTGCTTCCCCAACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * ** *
54047759 AAATAGATTGAAGCTACAATAGCGAATCTTACTTCCC-GACGGTGTAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* ** * * *
54047808 GAACAGATTGAAGCTACAACAATGAATCTTGCTTCCCCGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * *
54047858 AAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCAGTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * *
54047908 GAACAGATTGAAGCTACAACAGTGAATCTTGCTTTCCC-GACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCTGACATTGCAGTG
* * ****
54047958 AAATAGATTGAAGCTACAACAACGAATCTTACTTCCCTGGTGGTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * ** * *
54048008 GAACAGACTGAAGCTACAACAATGAATCTTGCTT-CCTCGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACATTGCAGTG
* * * *
54048058 AAATAGATTTAAGCTACAACAGCGAATCTTACTTCCCTGGCACTGCAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * *
54048108 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * ** *
54048158 AAATAGATTGCAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * * *
54048208 GAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCTGAAATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * * * *
54048258 AAATAGATTGAAGCTACAACAACGAATCTTACTTCCCTGGCAATGTAATG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* *
54048308 GAATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGACATTGCAGTT
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* * * * **
54048358 AAATAGATTGAAGATACAACAGCGAATCTTGCTT-CTTCGACATTGTTGTG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACATTGCAGTG
* * * *
54048408 GAATAGATTGAAGCTACAACAGTGAATCTTATTTCCTTGACATTGCAGCG
1 GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
* *
54048458 GAACAGATTAAAGCTA
1 GAATAGATTGAAGCTA
54048474 AAGCGGAGTA
Statistics
Matches: 742, Mismatches: 164, Indels: 18
0.80 0.18 0.02
Matches are distributed among these distances:
49 49 0.07
50 681 0.92
51 12 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
GAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTG
Found at i:54048480 original size:21 final size:21
Alignment explanation
Indices: 54048454--54048493 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54048444 TTGACATTGC
54048454 AGCGGAACAGATTAAAGCTAA
1 AGCGGAACAGATTAAAGCTAA
**
54048475 AGCGGAGTAGATTAAAGCT
1 AGCGGAACAGATTAAAGCT
54048494 GAAGGCAGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.17
Consensus pattern (21 bp):
AGCGGAACAGATTAAAGCTAA
Found at i:54048680 original size:43 final size:43
Alignment explanation
Indices: 54048628--54048880 Score: 149
Period size: 44 Copynumber: 5.8 Consensus size: 43
54048618 TTAAGCCACC
54048628 AGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACT
1 AGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACT
* * * * * **
54048671 AGTCCTATCTCCTTGAAATTGCAGTAGAGTGGATT-AA-AATGA-T
1 AGTCTTATCTCCCT-AAAGTGTAGTGGAGCAGATTGAAGAA--ACT
* * * * *
54048714 GGATCTTA-CTCTCTAAAGTTGTAGTGGAGCAGATCGAAGGCAACG
1 AG-TCTTATCTCCCTAAAG-TGTAGTGGAGCAGATTGAA-GAAACT
* * * * * ** *
54048759 AATCTTAACTTCCC-AAGGTAGTAG-GGAAACAGATTTAAGCCACC
1 AGTCTTATC-TCCCTAAAGT-GTAGTGG-AGCAGATTGAAGAAACT
54048803 AGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACT
1 AGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACT
* * * * *
54048846 AGTCCTATCTCCTTGAAATTGCAGTGGAGCGGATT
1 AGTCTTATCTCCCT-AAAGTGTAGTGGAGCAGATT
54048881 AAAATGATGG
Statistics
Matches: 153, Mismatches: 41, Indels: 31
0.68 0.18 0.14
Matches are distributed among these distances:
42 5 0.03
43 63 0.41
44 65 0.42
45 16 0.10
46 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
AGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACT
Found at i:54048737 original size:87 final size:87
Alignment explanation
Indices: 54048630--54048922 Score: 258
Period size: 87 Copynumber: 3.4 Consensus size: 87
54048620 AAGCCACCAG
54048630 TCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAATTGCAG
1 TCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAATTGCAG
*
54048695 TAGAGTGGATTAAAATGATGGA
66 TAGAGCGGATTAAAATGATGGA
* * * * * * * * *
54048717 TCTTA-CTCTCTAAAGTTGTAGTGGAGCAGATCGAAGGCAACGAATCTTAACTTCC---CAA-GG
1 TCTTATCTCCCTAAAG-TGTAGTGGAGCAGATTGAA-GAAACTAGTCCTATC-TCCTTGAAATTG
* * * * *** **
54048777 TAGTAGGGAAACAGATTTAAGCCA-CCA
63 CAGTA--G-AGCGGATTAAAATGATGGA
54048804 GTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAATTGCA
1 -TCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAATTGCA
*
54048869 GTGGAGCGGATTAAAATGATGGA
65 GTAGAGCGGATTAAAATGATGGA
* * *
54048892 TCTTA-CTCTCTGAAGTTGTAGTAGAGCAGAT
1 TCTTATCTCCCTAAAG-TGTAGTGGAGCAGAT
54048923 CCCATCAGAC
Statistics
Matches: 151, Mismatches: 41, Indels: 28
0.69 0.19 0.13
Matches are distributed among these distances:
85 5 0.03
86 22 0.15
87 63 0.42
88 43 0.28
89 14 0.09
90 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAATTGCAG
TAGAGCGGATTAAAATGATGGA
Found at i:54048830 original size:88 final size:88
Alignment explanation
Indices: 54048559--54048840 Score: 281
Period size: 88 Copynumber: 3.2 Consensus size: 88
54048549 GCCCTAAGCA
54048559 GTAGTGGAGCAGATCGAAGGCAACGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
1 GTAGTGGAGCAGATCGAAGGCAACGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
54048624 CACCAGTCTTATCTCCCTAAAGT
66 CACCAGTCTTATCTCCCTAAAGT
* * * * * * * * *** *
54048647 GTAGTGGAGCAGATTGAA-GAAACTAGTCCTATC-TCCTTGAAATTGCAGTA--G-AGTGGATTA
1 GTAGTGGAGCAGATCGAAGGCAACGAATCTTATCTTCC---CAA-GGTAGTAGGGAAACAGATTT
*** ** *
54048707 AAATGA-TGGATCTTA-CTCTCTAAAGTT
62 AAGCCACCAG-TCTTATCTCCCTAAAG-T
*
54048734 GTAGTGGAGCAGATCGAAGGCAACGAATCTTAACTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
1 GTAGTGGAGCAGATCGAAGGCAACGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
54048799 CACCAGTCTTATCTCCCTAAAGT
66 CACCAGTCTTATCTCCCTAAAGT
*
54048822 GTAGTGGAGCAGATTGAAG
1 GTAGTGGAGCAGATCGAAG
54048841 AAACTAGTCC
Statistics
Matches: 143, Mismatches: 38, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
85 5 0.03
86 15 0.10
87 43 0.30
88 60 0.42
89 15 0.10
90 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (88 bp):
GTAGTGGAGCAGATCGAAGGCAACGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
CACCAGTCTTATCTCCCTAAAGT
Found at i:54048850 original size:175 final size:175
Alignment explanation
Indices: 54048559--54048923 Score: 685
Period size: 175 Copynumber: 2.1 Consensus size: 175
54048549 GCCCTAAGCA
*
54048559 GTAGTGGAGCAGATCGAAGGCAACGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
1 GTAGTGGAGCAGATCGAAGGCAACGAATCTTAACTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
54048624 CACCAGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAA
66 CACCAGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAA
*
54048689 TTGCAGTAGAGTGGATTAAAATGATGGATCTTACTCTCTAAAGTT
131 TTGCAGTAGAGCGGATTAAAATGATGGATCTTACTCTCTAAAGTT
54048734 GTAGTGGAGCAGATCGAAGGCAACGAATCTTAACTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
1 GTAGTGGAGCAGATCGAAGGCAACGAATCTTAACTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
54048799 CACCAGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAA
66 CACCAGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAA
* *
54048864 TTGCAGTGGAGCGGATTAAAATGATGGATCTTACTCTCTGAAGTT
131 TTGCAGTAGAGCGGATTAAAATGATGGATCTTACTCTCTAAAGTT
*
54048909 GTAGTAGAGCAGATC
1 GTAGTGGAGCAGATC
54048924 CCATCAGACT
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
175 185 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (175 bp):
GTAGTGGAGCAGATCGAAGGCAACGAATCTTAACTTCCCAAGGTAGTAGGGAAACAGATTTAAGC
CACCAGTCTTATCTCCCTAAAGTGTAGTGGAGCAGATTGAAGAAACTAGTCCTATCTCCTTGAAA
TTGCAGTAGAGCGGATTAAAATGATGGATCTTACTCTCTAAAGTT
Found at i:54050637 original size:12 final size:12
Alignment explanation
Indices: 54050617--54050652 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
54050607 TTTTTAATTA
*
54050617 ATTAATATTATT
1 ATTACTATTATT
54050629 ATTACTATTATT
1 ATTACTATTATT
*
54050641 ATTGCTATTATT
1 ATTACTATTATT
54050653 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:54052037 original size:81 final size:81
Alignment explanation
Indices: 54051852--54052099 Score: 376
Period size: 82 Copynumber: 3.1 Consensus size: 81
54051842 TTGGCTACAT
* * * * *
54051852 TTTATAATTCCGTTGAAAGCATCAGTTCCAAAATGTGTACACAAATTTCACCAGAAAAAAA-ATA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
54051916 TAAAAATAAATTAATAAA
66 TAAAAA-AAA-TAATAAA
54051934 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
*
54051999 TAAACAAAATAATAAA
66 TAAAAAAAATAATAAA
54052015 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACA-AAATTTCACCAGAAAAAAATA-A
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
* *
54052078 AAAAATAAAATGATAAA
66 TAAAA-AAAATAATAAA
54052095 TTTAT
1 TTTAT
54052100 TTATTAGACG
Statistics
Matches: 155, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
79 4 0.03
80 36 0.23
81 48 0.31
82 59 0.38
83 8 0.05
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (81 bp):
TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
TAAAAAAAATAATAAA
Found at i:54053326 original size:41 final size:41
Alignment explanation
Indices: 54053134--54053327 Score: 169
Period size: 41 Copynumber: 4.7 Consensus size: 41
54053124 ATATTTTTTG
** * *
54053134 GGCCTTTAGCGGCGTTTTT-GACAAATTGCCGCTAATTCTCC
1 GGCCTTTAGCGGCGTTTTTAGA-AAAGCGCCGCTAATGCTCT
* * * *
54053175 GACCTTTTAGCGGCGATTTTCGTAAAGCGCCGCTAATGCTCT
1 GGCC-TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCT
* * * *
54053217 AGCCTTTAGAGGCGTTTTCT-TATAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTT-TAGAAAAGCGCCGCTAATGCTCT
* * * *
54053258 GGCCTTTAGTGGCGTTTTTTA-ATAAGCGCCACTAATGATCT
1 GGCCTTTAGCGGCG-TTTTTAGAAAAGCGCCGCTAATGCTCT
* *
54053299 GGTCATTAGCGGCGTTTTTAGAAAAGCGC
1 GGCCTTTAGCGGCGTTTTTAGAAAAGCGC
54053328 TGGTAATACT
Statistics
Matches: 125, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
40 6 0.05
41 82 0.66
42 36 0.29
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCT
Found at i:54054392 original size:27 final size:28
Alignment explanation
Indices: 54054348--54054407 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
54054338 ATAGAAAAAG
* * *
54054348 ATATA-TATGCAACGATATATATATGTT
1 ATATATTATGAAACGATATAAATATATT
54054375 ATATATTATGAAAC-ATATAAATATATT
1 ATATATTATGAAACGATATAAATATATT
54054402 A-ATATT
1 ATATATT
54054408 GTGTTAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 17 0.59
28 7 0.24
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (28 bp):
ATATATTATGAAACGATATAAATATATT
Found at i:54055093 original size:116 final size:116
Alignment explanation
Indices: 54054838--54055096 Score: 263
Period size: 116 Copynumber: 2.2 Consensus size: 116
54054828 GCTCGGGGCT
*** * * * *
54054838 TTAGCGGCGGTTTTTCCTAAAATGCCGCAAATATTTCTTTAATACGACATCGTTTAGTGTTCTAC
1 TTAGCGGCGG-TTTTAAAAAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTCTAC
* ** *
54054903 TCTGGTTGAAAAGTTCGACAAAATGACGTCGCTTTGATGATGTTTACCGGTA
65 TCTGGTTGAAAAGTTAGACAAAACAACATCGCTTTGATGATGTTTACCGGTA
* * * * *
54054955 TTAGCGGCGGTTTTACATAAACGCCGCAAAAATTTCTGTAATACGACGTCGTTTACTTTTATTA-
1 TTAGCGGCGGTTTTAAAAAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTT-CTAC
* * * **
54055019 TTTGGTTG-AAAGTTAGACAAAACAACATCGTTTTTAT-ACTGTTTATTGGTA
65 TCTGGTTGAAAAGTTAGACAAAACAACATCGCTTTGATGA-TGTTTACCGGTA
*
54055070 TTAGCGGCGTTTTTATAAAAAACGCCG
1 TTAGCGGCGGTTTTA-AAAAAACGCCG
54055097 TAAAGGAAAT
Statistics
Matches: 117, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
114 1 0.01
115 47 0.40
116 57 0.49
117 12 0.10
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (116 bp):
TTAGCGGCGGTTTTAAAAAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTCTACT
CTGGTTGAAAAGTTAGACAAAACAACATCGCTTTGATGATGTTTACCGGTA
Found at i:54057934 original size:43 final size:43
Alignment explanation
Indices: 54057808--54057934 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 43
54057798 AAAGATTGCT
54057808 TATGTAAGCTATATTTAAATTTTATTAATAATAAGTTGATAACTTAAA
1 TATGTAAGCTATATTTAAATTTTATTAATAAT-A--T--TAACTTAAA
* * * * * **
54057856 TAAGTATTA-CTATATTTTTAATATTATAAAT-ATATTAATTTACG
1 TATGTA--AGCTATA-TTTAAATTTTATTAATAATATTAACTTAAA
54057900 TATGTAAGCTATATTTAAATTTTATTAATAATATT
1 TATGTAAGCTATATTTAAATTTTATTAATAATATT
54057935 TAAACATATT
Statistics
Matches: 63, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
42 14 0.22
43 10 0.16
44 11 0.17
46 1 0.02
48 6 0.10
49 7 0.11
50 14 0.22
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (43 bp):
TATGTAAGCTATATTTAAATTTTATTAATAATATTAACTTAAA
Found at i:54058120 original size:9 final size:9
Alignment explanation
Indices: 54058098--54058241 Score: 133
Period size: 9 Copynumber: 16.9 Consensus size: 9
54058088 TATTATACAT
54058098 TTACATAA-
1 TTACATAAC
54058106 -TACATAAC
1 TTACATAAC
54058114 TTACATAAC
1 TTACATAAC
* *
54058123 CTACTTAA-
1 TTACATAAC
54058131 -TACATAAC
1 TTACATAAC
*
54058139 TTGCATAAC
1 TTACATAAC
54058148 TTACATAA-
1 TTACATAAC
*
54058156 -TACACAAC
1 TTACATAAC
*
54058164 TTACATAAG
1 TTACATAAC
*
54058173 TTTCATAA-
1 TTACATAAC
*
54058181 -TACACAAC
1 TTACATAAC
**
54058189 TTACGCAAC
1 TTACATAAC
54058198 TTACATAAC
1 TTACATAAC
*
54058207 TTACACAAC
1 TTACATAAC
54058216 TTACATAAC
1 TTACATAAC
*
54058225 TTACACAAC
1 TTACATAAC
54058234 TTACATAA
1 TTACATAA
54058242 TGTATAACTT
Statistics
Matches: 110, Mismatches: 18, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
7 24 0.22
9 86 0.78
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (9 bp):
TTACATAAC
Found at i:54058132 original size:25 final size:25
Alignment explanation
Indices: 54058099--54058229 Score: 127
Period size: 25 Copynumber: 5.2 Consensus size: 25
54058089 ATTATACATT
54058099 TACATAATACATAACTTACATAACC
1 TACATAATACATAACTTACATAACC
* * *
54058124 TACTTAATACATAACTTGCATAACT
1 TACATAATACATAACTTACATAACC
* **
54058149 TACATAATACACAACTTACATAAGT
1 TACATAATACATAACTTACATAACC
* * ** *
54058174 TTCATAATACACAACTTACGCAACT
1 TACATAATACATAACTTACATAACC
* *
54058199 TACATAACTTACACAACTTACATAACT
1 TACATAA--TACATAACTTACATAACC
54058226 TACA
1 TACA
54058230 CAACTTACAT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
25 70 0.78
27 20 0.22
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (25 bp):
TACATAATACATAACTTACATAACC
Found at i:54063726 original size:21 final size:21
Alignment explanation
Indices: 54063696--54063762 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
54063686 CAACAACTTA
* *
54063696 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCCGCAGCAAGAG
* ** *
54063717 AAGTAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCAAGAG
*
54063738 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCAAGAG
54063759 AAGC
1 AAGC
54063763 GGTGATAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCAAGAG
Found at i:54064244 original size:43 final size:42
Alignment explanation
Indices: 54064210--54064485 Score: 297
Period size: 43 Copynumber: 6.4 Consensus size: 42
54064200 GTTTGTGAAA
*
54064210 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGAC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTAC
* * * * *
54064252 CAAGCGCCGCTATAGAACATTA-CTTTTAACGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTAC
* *
54064295 TAAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTAC
* *
54064337 CAAGCGCCGCTAAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAA
1 TAAGCGCCGCT-AAAGAACATGATCTTTAGCGGCG-TTTTT--T-AC
*
54064384 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTAC
* *
54064427 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTAC
*
54064469 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
54064486 TTAGCGACGT
Statistics
Matches: 201, Mismatches: 21, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.00
42 48 0.24
43 93 0.46
44 20 0.10
45 3 0.01
46 26 0.13
47 10 0.05
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTAC
Found at i:54064418 original size:89 final size:87
Alignment explanation
Indices: 54064207--54064466 Score: 343
Period size: 89 Copynumber: 3.0 Consensus size: 87
54064197 GGCGTTTGTG
** *
54064207 AAATAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAAC
1 AAATAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAAC
* *
54064270 ATTA-CTTTTAACGGCGTTTTCTTCC
64 ATGATC-TTTAGCGGCGTTTT-TTCC
*
54064295 ---TAAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAAGAACA
1 AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCT-AAAGAACA
54064357 TGATCTTTAGCGGCGTTTTTTCC
65 TGATCTTTAGCGGCGTTTTTTCC
**
54064380 TAAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAAC
1 -AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCCAAGCGCCGCTAAAGAAC
54064445 ATGATCTTTAGCGGCGTTTTTT
64 ATGATCTTTAGCGGCGTTTTTT
54064467 TCTGTAAGCG
Statistics
Matches: 154, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
84 1 0.01
85 49 0.32
86 24 0.16
87 1 0.01
89 65 0.42
90 14 0.09
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (87 bp):
AAATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACAT
GATCTTTAGCGGCGTTTTTTCC
Found at i:54069228 original size:3 final size:3
Alignment explanation
Indices: 54069220--54069247 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
54069210 AGTAAAGTAA
54069220 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
54069248 AAACACCGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:54069769 original size:5 final size:5
Alignment explanation
Indices: 54069759--54069783 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54069749 AAAACTTTTA
54069759 CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC
54069784 AACCCCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:54074275 original size:22 final size:20
Alignment explanation
Indices: 54074241--54074289 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
54074231 ATATATTATG
* *
54074241 TTATAAAAATTAATTACATTAA
1 TTATATAAATTAAATA-A-TAA
*
54074263 TTATATAAGTTAAATAATAA
1 TTATATAAATTAAATAATAA
54074283 TTATATA
1 TTATATA
54074290 TTTATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.42
21 1 0.04
22 13 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTATATAAATTAAATAATAA
Found at i:54074418 original size:17 final size:16
Alignment explanation
Indices: 54074376--54074422 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
54074366 AACTCAACTC
*
54074376 AAAATATAAAATTT-T
1 AAAATATAATATTTAT
*
54074391 AAAA-ATTATATTTAAT
1 AAAATATAATATTT-AT
54074407 AAAATATAATATTTAT
1 AAAATATAATATTTAT
54074423 TATATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.27
15 4 0.15
16 7 0.27
17 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATATAATATTTAT
Found at i:54075374 original size:15 final size:16
Alignment explanation
Indices: 54075354--54075389 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
54075344 TTTTTTTGAG
*
54075354 TTTTTAA-AAAAATTA
1 TTTTTAATAAAAATGA
54075369 TTTTTAATAAAAATGA
1 TTTTTAATAAAAATGA
54075385 TTTTT
1 TTTTT
54075390 TTATTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTTAATAAAAATGA
Found at i:54078770 original size:435 final size:433
Alignment explanation
Indices: 54077131--54080379 Score: 3624
Period size: 434 Copynumber: 7.6 Consensus size: 433
54077121 ACCAGCCTAA
* * * *
54077131 GGCTAAATGGGGTTTA-TTCGAGCATGAAATTAATCGTACTCGATTGGGGTTTAAAAATGGATTT
1 GGCTAAATTGGGTTTAGTT-AAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTT
* * * *
54077195 GAATGTAATGGTGATAAGTGAAAATGAGGAAGGACTTAAAAAGTAATTAAACCAAAAAATAAGGA
65 GAATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACC-AAAAATAAGGA
* ** ** * * *
54077260 AATCGAAAAAAAAATGAAAGTAAACTTGAATAGCTACTGATGATTGAAAAAGAAAAGAATTATTA
129 AAT-G-GAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTT
*
54077325 TTAATTCTATT-CAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTATACAT-TTTTCATA
192 TTAATTCTATTAC-AGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATAC-TCTTTTCATA
* *
54077388 TGCCAAATTTAGCATGATTCCTTCTAAGATTATGCCTAACAACCAACTAAATTC-AATTTTTTTT
255 TGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAAATTTTTTTT
* * * * * ** *
54077452 ATATTCTTAAAGTTTGACAAATTCACAATCTGATTTTTAATAAACCACTAATTCAACAACTTTTT
320 CTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTC
* * * *
54077517 GATTTGGCCCCTTTTATTGCTTTTTGTTCCAATTTAG-CCAATTTGCTT
385 AATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * * * * *
54077565 GACTAAATAGGGTTTAGTTGAGCATGAAATTTATCATACTCGATTGGAGTTTAAAAATGGATTTC
1 GGCTAAATTGGGTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* * * * ** *
54077630 AACGTAAAGATGATAGGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAATTAAAAAAAAGGAAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
* *
54077695 TGGGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCATG--A-A-AAAATAATTGTTTTT
131 T--GGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTT
* * * * * *
54077756 AATTCTATTTCACTGTGTTTTTTCTAAGCCACCATTACAAGGTATTTACACACTTTTCATCTGCC
194 AATTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATGCC
* * * *
54077821 AAATTTAGCATGATTACTCATATGATTATGCCTAACAACCAACAAAAAT-AAGATTTTTTTTCTA
259 AAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAA-ATTTTTTTTCTA
* * * * *
54077885 TTCATAGAGTTTGAAAAAATCATAATATGATTTTTTATCAGCCACTAATTCTGCAACTTTTCAAT
323 TTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAAT
* * * *
54077950 TTGACCTATTTTATTGTTTC-CTGTTCCAATTGAGCCCAATTTGCTT
388 TTGGCCCATTTTATTGCTTCTC-GTTCCAATTTAGCCCAATTTGCTT
* * * *
54077996 GGCTAAA-TGGGTTTTAGTTTAGCATGAAATTAATCATACTCGATTGAGATTTAAAATTGGATTT
1 GGCTAAATTGGG-TTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTT
* * * *
54078060 GATTGTAATGGTGATAAGTGAATAGGCGAATA-GACTTAAAAAGAAATTTAACCAAAAATAAGGA
65 GAATGTAATGGTGATAAGTGAAAAGGAGAA-AGGACTTAAAAAGAAATTGAACCAAAAATAAGGA
* ** * *
54078124 AATGGAAAAAAATTGCCAACAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAATAATTGTCTT
129 AATGGAAAAAAA-TGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTT
* * * * *
54078189 TAATTCTATTCCAGTGTGTTTTTTTTCCAAGTCACCATTACAAGGTATTTATACACTTTTCATCT
193 TAATTCTATTACAGTGTG--TTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATAT
* * ** * *
54078254 GCCAAATTTAGCATGATTCCTCCTAAGATTAGGCCGAACAATTAACTAAAATCAGATTTTCTTTC
256 GCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAAATTTTTTTTC
* * * * * *
54078319 TATTCATAGGGTTTGACAAATTCACAATTTGGTTTTTAATCAGTCACTAGTTCTCCAAC-TTTCA
321 TATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCA
* *
54078383 ATTTCGCCCATTTTATTACTTCTCGTTCCAATTTAGCCCAATTTGCTT
386 ATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * * *
54078431 GACCAAATTGGGTTTAGTTAAGCATGAAACTAATCATACTCCATTGGGGTTGAAAAGTGGATTTG
1 GGCTAAATTGGGTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
** * * *
54078496 AACATAATGGTGATAAGTGAAAGGGAGAAAAGACTTAAAAAGCAATTGAACCAAAAATAAGGAAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
* *
54078561 TGGAAAAAAATGGCAGTAAACTTGAATAGCTACTAATACGTGAAAGAGAAAAGAATTGTTTTTAA
131 TGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAA
* * * * * *
54078626 TTCTATTACAATGTGCTTTTTCGAAGCCACCATTACAAGGTATTTGT-CTTTTTTTTTCATATGT
196 TTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATAC---TCTTTTCATATGC
* *
54078690 AAAATTTAGCATGATTCCTCCTAAGATTATGTCTAACAACCAACTAAAATCAAAATTTTTTTTCT
258 CAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATC-AAATTTTTTTTCT
* * * * *
54078755 TTTAATAGAGTTTGACAAATTCACAATCTGGTTCTTAATCAACCACTAATTCTGCAACTTTTCAA
322 ATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAA
* * * * *
54078820 TTTGGCCTA-TTTATT-TTTTTCCGTTTCAATTTAACCCAATTTGCTT
387 TTTGGCCCATTTTATTGCTTCT-CGTTCCAATTTAGCCCAATTTGCTT
* * * * * *
54078866 GGCTAAATGGGGTTTACTTGAGCATGAAATTAATCATACTTGATTAGGGTTTAAAAGTGGGTTTG
1 GGCTAAATTGGGTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* * * * * *
54078931 AATGTAACGGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGTAATTAAATCAAAAATAAAGAAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
* * *
54078996 TGG-AAAAAATGGCAGTAAACTTGAATATCTACTGATGTGTGAAAGAGAGAAGAATTGTTTTTAA
131 TGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAA
* * *
54079060 TTCTATTACAGTGTGTTTTTTCAAAGCCACTA-CACAAGATATTTATACTCTTTTCATATGCCAA
196 TTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATGCCAA
**
54079124 ATTTAGC---A-------T--G---AT---T-----CCAACTAAAATCAGTTTTTTTTTCTATTC
261 ATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAAATTTTTTTTCTATTC
* * * * * *
54079166 ATAGAGTTTGACAAATTCACAATTTGATTTTTAATGAGTCATTAATTATGCAATTTTTCAATTTG
326 ATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAATTTG
* * * *
54079231 GCCCCTTTTATTGTTTCTCG-TCCTAATTTATCCCAATTTTCTT
391 GCCCATTTTATTGCTTCTCGTTCC-AATTTAGCCCAATTTGCTT
* * *
54079274 GGCTAAATGGGGTTTAGTTTAA-CATGAAATTAATCATACTCGATTGGGGTTTAAAATTCGATTT
1 GGCTAAATTGGGTTTAG-TTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTT
* * * * * *
54079338 GAACGTAATTGTGATAGGTGAAAAAGAGAAAGGACTT-AAAAGGAATTGAACCAAAAATAAAGAA
65 GAATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAA
* * * * * *
54079402 ACGGAAAAAAATGCCAGTAAACTTGAATAGCTATTGATGTGTGAAAGAGAAAAGAATTATTATTA
130 ATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTA
*
54079467 ATTCTATTATAGTGTGTTTTTTCAAAGCCACCA-TACAAGGTAGCTATTTATACTCTTTTCATAT
195 ATTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAA-G--G-TATTTATACTCTTTTCATAT
* **
54079531 GCCAAATTTAGCGTGATTCCTCCTTTGATTATGCCTAACAACCAACTAAAATCAAA-TTTTTTTC
256 GCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAAATTTTTTTTC
* ** * * *
54079595 TATTCATAGAGTTTGACAAATTCACAATCTAATTAGTAATCAGTCATTCATTCTGCAACTTTTCA
321 TATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCA
* * * *
54079660 TTTTGGCCCTTTTTATTGCTTCTTGTTCCAATTTAGCCCAATTAGCTT
386 ATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * * *
54079708 GGGTAAA-TGGTGTTTAGTTAAGAATGAAATTAATCATACTCTATTGGGGATTAAAAGTGGATAT
1 GGCTAAATTGG-GTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTT
* * * * * * *
54079772 CAATGTAATTGTGATAGGTGAAAAGGAGAGAA-AATTTTAAAA-AAATTGATCCAAAAATAAGGA
65 GAATGTAATGGTGATAAGTGAAAAGGAGA-AAGGACTTAAAAAGAAATTGAACCAAAAATAAGGA
* * ** * *
54079835 AATGG-AAAAAATGGCAATAAACTTGAATAACTGTTGATGCATGAAAGAGAAAAGAATTCTTTTT
129 AATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTT
* * **
54079899 AA-TCTATTCCAGTGTGTTTTTTTAAAGCCACCATT-CAAGGTATTTATACTCTTTTCATATATC
194 AATTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATGCC
* * * *
54079962 AAATTTAACATGATTCCTCCTAAGTTTATTCCTAACAACCAACTAAAATCAGAATTTTTATT-TA
259 AAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCA-AATTTTTTTTCTA
* * * * * *
54080026 TTTATAAAGTTTGA-AAGATTCACAATCTGATTTTTAATCAACCGA-TAATTTTGTAACTTTTTA
323 TTCATAGAGTTTGACAA-ATTCACAATCTGATTTTTAATCAGCC-ACTAATTCTGCAACTTTTCA
* * *
54080089 AATTGGCCCCTTTTATTGCTT-TCCATTCCAATTTAGCCCAATTTGCTT
386 ATTTGGCCCATTTTATTGCTTCT-CGTTCCAATTTAGCCCAATTTGCTT
* * * * *
54080137 GGCTAAATAGGGTTTAGTTGAGTATGAAATTAATCATACTCGATTGAGGTTTAAAAGTGAATTTG
1 GGCTAAATTGGGTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* *** * * ** *
54080202 ATTGTAACAATGATAAGTGAAAATGAGAAAGGACTTAAAAAGCAATTGAACGGAAAATAATGAAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
* *
54080267 TGGAAAAAAAATTGGCTGTAAACTTGAATAGCTACAGATGCGTGAAAGAGAAAAGAATTGTTTTT
131 TGG-AAAAAAA-TGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTT
* *
54080332 AATTCTATTATAGTGTGTTTTTTTCCAAGCCACCATTACAAGGTATTT
194 AATTCTATTACAGTGTG-TTTTTTCAAAGCCACCATTACAAGGTATTT
54080380 GTAATAGGCC
Statistics
Matches: 2377, Mismatches: 358, Indels: 158
0.82 0.12 0.05
Matches are distributed among these distances:
407 101 0.04
408 212 0.09
409 8 0.00
412 32 0.01
413 1 0.00
415 1 0.00
416 2 0.00
419 1 0.00
421 1 0.00
422 1 0.00
424 1 0.00
427 2 0.00
428 72 0.03
429 295 0.12
430 153 0.06
431 139 0.06
432 67 0.03
433 167 0.07
434 545 0.23
435 403 0.17
436 172 0.07
437 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (433 bp):
GGCTAAATTGGGTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
TGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAA
TTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATGCCAA
ATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAAATTTTTTTTCTATTC
ATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAATTTG
GCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTT
Found at i:54081893 original size:23 final size:23
Alignment explanation
Indices: 54081856--54081902 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
54081846 CATTTCCCCC
54081856 TTATAATTTACATTTTTTTTATTT
1 TTATAATTTACA-TTTTTTTATTT
*
54081880 TTATACTTT-CATTTTTTTATTT
1 TTATAATTTACATTTTTTTATTT
54081902 T
1 T
54081903 CATTAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 2 0.09
24 8 0.36
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATAATTTACATTTTTTTATTT
Found at i:54083019 original size:24 final size:25
Alignment explanation
Indices: 54082992--54083042 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
54082982 ACTTTAATGA
*
54082992 TTGA-GCTTTAAATATGTCATAAGC
1 TTGATGCTTTAAACATGTCATAAGC
* *
54083016 TTGATGTTTTAAACATGTTATAAGC
1 TTGATGCTTTAAACATGTCATAAGC
54083041 TT
1 TT
54083043 ATTAATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (25 bp):
TTGATGCTTTAAACATGTCATAAGC
Found at i:54087708 original size:36 final size:36
Alignment explanation
Indices: 54087661--54087733 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
54087651 GTGAATGGGA
54087661 AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
1 AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
54087697 AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
1 AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
54087733 A
1 A
54087734 GTTCTTGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (36 bp):
AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
Found at i:54090042 original size:94 final size:94
Alignment explanation
Indices: 54089906--54090951 Score: 1165
Period size: 94 Copynumber: 11.3 Consensus size: 94
54089896 GATTCCAGTC
* * * ** *
54089906 CCCCTGAAGTTGTAGTGGGTTGGAATAAAGCTACAATGGCGAATCTTATCTCTTTGAAGTTACAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* *
54089971 TGGAGCAAGGTGAAGCTATAAATCCTATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * * *
54090000 CCCCTAAAGTTGCAGTGGGTTAGAACT-AAGCTACCATAGCGAATATTATGTCCTTAAAGTTGCA
1 CCCCTGAAGTTGCAGTGGGTTGGAA-TGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
54090064 GTGGAGCAAGATGAAGCTACAAATCCTATA
65 GTGGAGCAAGATGAAGCTACAAATCCTATA
* ** * *
54090094 CCCCTGAAGTTGCAATGGGTTGGAATGAAATTACCATAGCG-ACCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* * *
54090158 TGGAGTAAAATGAAGTTACAAATCCTATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
54090187 CCCCTGAAGTTGCAATGGGTTGGAATGAAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCAA
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
54090252 TGGAGCAAGATGAAGCTACAAATACTATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * ** * * * * * *
54090281 CCCCTGAAGTTGTAGTGGGTTAGAATGAAATTACCATAGTGAATCTTATCTCCTTTAAATTACAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* *
54090346 T-GAACAAGATGAAGCTACAAATCATATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * * * *
54090374 CCCTTAAAGTTGTAGTGGGTTGGAATAAAGCTACAACAGTGAATCTTATCTCCTTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
54090439 TGGAGAAAGATGAAGCTACAAATCCTATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * *
54090468 CACCTGAAGTTACAGTAGGTTGGAATGAAGCTATAATAGCAAATCTTATCTCCCTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* *
54090533 TGGAGCAAGATGAAGCTATAAATCCTACA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * ** *
54090562 CTCCTGAAGTAGCAGTAGGTTGGAATGAAGCTACAATAGCAAATCTTAAGTCCCTGAAATTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
54090627 TGGAGCAAGATGAAGCTACAAATCCTGTA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * *
54090656 CCCCTGAAGTTGCAGTGGGTT-G--TAAAGCTACAATAGCAAACCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* * * *
54090718 TGAAGCAACATAAAGCTTCAAATCCTAT-
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* *
54090746 CCCTCTG-A-----A----GTTGGAATGAAGCTACAATAGTGAATCTTATCTCCATGAAGTTGCA
1 CCC-CTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
* * *
54090801 GTGGAGCAAGATAAAGCTACAAATTCTATG
65 GTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
54090831 CCCCT-ACAATTGTAGTGGGTTGGAACGAAACTACAATAGCGAATTTTATCTCCCTGAAGTTGCA
1 CCCCTGA-AGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
54090895 GTGGAGCAAGATGAAGCTACAAATCCTATA
65 GTGGAGCAAGATGAAGCTACAAATCCTATA
** *
54090925 CCATTGAAGTTGCTGTGGGTTGGAATG
1 CCCCTGAAGTTGCAGTGGGTTGGAATG
54090952 GAATTATAAC
Statistics
Matches: 809, Mismatches: 122, Indels: 42
0.83 0.13 0.04
Matches are distributed among these distances:
81 3 0.00
82 1 0.00
84 61 0.08
85 5 0.01
90 5 0.01
91 61 0.08
93 165 0.20
94 506 0.63
95 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (94 bp):
CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAAGATGAAGCTACAAATCCTATA
Found at i:54090122 original size:44 final size:44
Alignment explanation
Indices: 54090074--54090309 Score: 158
Period size: 44 Copynumber: 5.1 Consensus size: 44
54090064 GTGGAGCAAG
*
54090074 ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGA
1 ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTAGA
** * *
54090118 ATGAAATTACCATAGCGA-CCT-TATCTCCCTGAAGTTGCAGTGGAG-TAAA
1 ATGAAGCTA-CA-A---ATCCTATA-C-CCCTGAAGTTGCAATGG-GTTAGA
* *
54090167 ATGAAGTTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGA
1 ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTAGA
* * * **
54090211 ATGAAACTACCATAGCGAATCTTAT-CTCCCTAAAGTTGCAATGGAGCAAG-
1 ATGAAGCTA-C--A---AATCCTATAC-CCCTGAAGTTGCAATGG-GTTAGA
* * *
54090261 ATGAAGCTACAAATACTATACCCCTGAAGTTGTAGTGGGTTAGA
1 ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTAGA
54090305 ATGAA
1 ATGAA
54090310 ATTACCATAG
Statistics
Matches: 147, Mismatches: 24, Indels: 42
0.69 0.11 0.20
Matches are distributed among these distances:
43 4 0.03
44 58 0.39
45 8 0.05
46 3 0.02
47 5 0.03
48 6 0.04
49 29 0.20
50 32 0.22
51 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (44 bp):
ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTAGA
Found at i:54090152 original size:49 final size:49
Alignment explanation
Indices: 54090095--54090254 Score: 165
Period size: 44 Copynumber: 3.3 Consensus size: 49
54090085 AATCCTATAC
54090095 CCCTGAAGTTGCAATGGGTTGGAATGAAATTACCATAGCGACCTTATCT
1 CCCTGAAGTTGCAATGGGTTGGAATGAAATTACCATAGCGACCTTATCT
* ** *
54090144 CCCTGAAGTTGCAGTGGAG-TAAAATGAAGTTA-CA-A---ATCC-TATAC-
1 CCCTGAAGTTGCAATGG-GTTGGAATGAAATTACCATAGCGA-CCTTAT-CT
* *
54090188 CCCTGAAGTTGCAATGGGTTGGAATGAAACTACCATAGCGAATCTTATCT
1 CCCTGAAGTTGCAATGGGTTGGAATGAAATTACCATAGCG-ACCTTATCT
*
54090238 CCCTAAAGTTGCAATGG
1 CCCTGAAGTTGCAATGG
54090255 AGCAAGATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
43 1 0.01
44 29 0.33
45 5 0.06
46 1 0.01
47 1 0.01
48 2 0.02
49 28 0.32
50 21 0.24
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (49 bp):
CCCTGAAGTTGCAATGGGTTGGAATGAAATTACCATAGCGACCTTATCT
Found at i:54090223 original size:187 final size:188
Alignment explanation
Indices: 54089906--54091005 Score: 1184
Period size: 187 Copynumber: 5.9 Consensus size: 188
54089896 GATTCCAGTC
* * ** *
54089906 CCCCTGAAGTTGTAGTGGGTTGGAAT-AAAGCTACAATGGCGAATCTTATCTCTTTGAAGTTACA
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAA-CTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
* * * *
54089970 GTGGAGCAAGGTGAAGCTATAAATCCTATACCCCTAAAGTTGCAGTGGGTTAGAACT-AAGCTAC
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAA-TGAAGCTAC
* * *
54090034 CATAGCGAATATTATGTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
129 AATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * *
54090094 CCCCTGAAGTTGCAATGGGTTGGAATGAAATTACCATAGCG-ACCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* * * * * *
54090158 TGGAGTAAAATGAAGTTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGAATGAAACTACCA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAA
* * *
54090223 TAGCGAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTACAAATACTATA
131 TAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * * * * *
54090281 CCCCTGAAGTTGTAGTGGGTTAGAATGAAATTACCATAGTGAATCTTATCTCCTTTAAATTACAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* * * * * *
54090346 T-GAACAAGATGAAGCTACAAATCATATACCCTTAAAGTTGTAGTGGGTTGGAATAAAGCTACAA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAA
* * *
54090410 CAGTGAATCTTATCTCCTTAAAGTTGCAGTGGAGAAAGATGAAGCTACAAATCCTATA
131 TAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * * *
54090468 CACCTGAAGTTACAGTAGGTTGGAATGAAGCTATAATAGCAAATCTTATCTCCCTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* * * * *
54090533 TGGAGCAAGATGAAGCTATAAATCCTACACTCCTGAAGTAGCAGTAGGTTGGAATGAAGCTACAA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAA
* * *
54090598 TAGCAAATCTTAAGTC-CCTGAAA-TTGCAGTGGAGCAAGATGAAGCTACAAATCCTGTA
131 TAGCGAATCTT-A-TCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* *
54090656 CCCCTGAAGTTGCAGTGGGTT-G--T-AAAGCTACAATAGCAAACCTTATCTCCCTGAAGTTGCA
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAA-CTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
* * * *
54090717 GTGAAGCAACATAAAGCTTCAAATCCTAT-CCCTCTG-A-----A----GTTGGAATGAAGCTAC
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCC-CTGAAGTTGCAGTGGGTTGGAATGAAGCTAC
* * * * * *
54090771 AATAGTGAATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATTCTATG
129 AATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * *
54090831 CCCCT-ACAATTGTAGTGGGTTGGAACGAAACTACAATAGCGAATTTTATCTCCCTGAAGTTGCA
1 CCCCTGA-AGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
** * * *
54090895 GTGGAGCAAGATGAAGCTACAAATCCTATACCATTGAAGTTGCTGTGGGTTGGAATGGAA-TTAT
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAAT-GAAGCTAC
* * * * * * * *
54090959 AACAACAAATCTCATCTCCTTAAAGTTGAAATTGAGCAAGACGAAGC
129 AATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGC
54091006 CATGATACTA
Statistics
Matches: 753, Mismatches: 132, Indels: 54
0.80 0.14 0.06
Matches are distributed among these distances:
173 2 0.00
174 6 0.01
175 75 0.10
176 1 0.00
178 58 0.08
179 7 0.01
184 5 0.01
185 58 0.08
186 1 0.00
187 318 0.42
188 207 0.27
189 13 0.02
190 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (188 bp):
CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAA
TAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
Found at i:54090424 original size:281 final size:281
Alignment explanation
Indices: 54089906--54090950 Score: 1160
Period size: 281 Copynumber: 3.8 Consensus size: 281
54089896 GATTCCAGTC
* * * ** * *
54089906 CCCCTGAAGTTGTAGTGGGTTGGAAT-AAAGCTACAATGGCGAATCTTATCTCTTTGAAGTTACA
1 CCCCTGAAGTTGCAATGGGTTGGAATGAAA-CTACAATAGCGAATCTTATCTCCCTAAAGTTGCA
* * * *
54089970 GTGGAGCAAGGTGAAGCTATAAATCCTATACCCCTAAAGTTGCAGTGGGTTAGAACT-AAGCTAC
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA-TGAAACTAC
* * * *
54090034 CATAGCGAATATTATGT-CCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCC
129 AATAGCGAATCTTATCTCCCTGAAA-TTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCC
* * *
54090098 TGAAGTTGCAATGGGTTGGAATGAAA-TTACCATAGCG-ACCTTATCTCCCTGAAGTTGCAGTGG
193 TGAAGTTGCAGTGGGTTGGAAT-AAAGCTACAATAGCGAACCTTATCTCCCTGAAGTTGCAGTGG
54090161 AGTAAAATGAAGTTACAAATCCTATA
257 AG-AAAATGAAGTTACAAATCCTATA
* *
54090187 CCCCTGAAGTTGCAATGGGTTGGAATGAAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCAA
1 CCCCTGAAGTTGCAATGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAG
* * * *
54090252 TGGAGCAAGATGAAGCTACAAATACTATACCCCTGAAGTTGTAGTGGGTTAGAATGAAATTACCA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAATGAAACTACAA
* * * * * * * *
54090317 TAGTGAATCTTATCTCCTTTAAATTACAGT-GAACAAGATGAAGCTACAAATCATATACCCTTAA
131 TAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA
* * * * * *
54090381 AGTTGTAGTGGGTTGGAATAAAGCTACAACAGTGAATCTTATCTCCTTAAAGTTGCAGTGGAGAA
196 AGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAGAA
*
54090446 AGATGAAGCTACAAATCCTATA
261 A-ATGAAGTTACAAATCCTATA
* * * * * * *
54090468 CACCTGAAGTTACAGTAGGTTGGAATGAAGCTATAATAGCAAATCTTATCTCCCTAAAGTTGCAG
1 CCCCTGAAGTTGCAATGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAG
* * * * * * *
54090533 TGGAGCAAGATGAAGCTATAAATCCTACACTCCTGAAGTAGCAGTAGGTTGGAATGAAGCTACAA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAATGAAACTACAA
* ** *
54090598 TAGCAAATCTTAAGTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTGTACCCCTGA
131 TAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA
* *
54090663 AGTTGCAGTGGGTT-G--TAAAGCTACAATAGCAAACCTTATCTCCCTGAAGTTGCAGTGAAGCA
196 AGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAG-A
* *
54090725 ACATAAAGCTT-CAAATCCTAT-
260 AAATGAAG-TTACAAATCCTATA
* * * * *
54090746 -CCCT----CTG-AA---GTTGGAATGAAGCTACAATAGTGAATCTTATCTCCATGAAGTTGCAG
1 CCCCTGAAGTTGCAATGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAG
* * * * * * *
54090802 TGGAGCAAGATAAAGCTACAAATTCTATGCCCCT-ACAATTGTAGTGGGTTGGAACGAAACTACA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA-AGTTGCAGTGGGTTAGAATGAAACTACA
* * **
54090866 ATAGCGAATTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCATTG
130 ATAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTG
*
54090931 AAGTTGCTGTGGGTTGGAAT
195 AAGTTGCAGTGGGTTGGAAT
54090951 GGAATTATAA
Statistics
Matches: 643, Mismatches: 108, Indels: 35
0.82 0.14 0.04
Matches are distributed among these distances:
268 1 0.00
269 163 0.25
270 1 0.00
272 2 0.00
273 1 0.00
277 3 0.00
279 56 0.09
280 61 0.09
281 304 0.47
282 51 0.08
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (281 bp):
CCCCTGAAGTTGCAATGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAG
TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAATGAAACTACAA
TAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA
AGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAGAA
AATGAAGTTACAAATCCTATA
Found at i:54090645 original size:50 final size:50
Alignment explanation
Indices: 54090492--54090647 Score: 134
Period size: 50 Copynumber: 3.2 Consensus size: 50
54090482 GTAGGTTGGA
* *
54090492 ATGAAGCTATAATAGCAAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAAG
1 ATGAAGCTACAATAGCAAATCTTAACTCCCTGAAA-TTGCAGTGGAGCAAG
* * * * *
54090542 ATGAAGCT---AT---AAATCCTACACT-CCTGAAGTAGCAGTAGGTTG-GA-
1 ATGAAGCTACAATAGCAAATCTTA-ACTCCCTGAAATTGCAGT-GG-AGCAAG
*
54090586 ATGAAGCTACAATAGCAAATCTTAAGTCCCTGAAATTGCAGTGGAGCAAG
1 ATGAAGCTACAATAGCAAATCTTAACTCCCTGAAATTGCAGTGGAGCAAG
54090636 ATGAAGCTACAA
1 ATGAAGCTACAA
54090648 ATCCTGTACC
Statistics
Matches: 81, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
44 24 0.30
45 7 0.09
46 1 0.01
47 4 0.05
48 1 0.01
49 5 0.06
50 39 0.48
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (50 bp):
ATGAAGCTACAATAGCAAATCTTAACTCCCTGAAATTGCAGTGGAGCAAG
Found at i:54090669 original size:44 final size:42
Alignment explanation
Indices: 54090519--54090673 Score: 98
Period size: 44 Copynumber: 3.4 Consensus size: 42
54090509 AATCTTATCT
* *
54090519 CCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAAATCC-TAC
1 CCCTGAAGTTGCAGTGGAG-AAGATGAAGCTACAAATCCTTAC
* * * * *
54090561 ACTCCTGAAGTAGCAGTAGGTTGGA-ATGAAGCTACAATAGCAAATCTTAAGT
1 -C-CCTGAAGTTGCAGT-GG-AGAAGATGAAGCTACAA-ATC----CTT-A-C
*
54090613 CCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTGTAC
1 CCCTGAAGTTGCAGTGGAG-AAGATGAAGCTACAAATCCT-TAC
54090657 CCCTGAAGTTGCAGTGG
1 CCCTGAAGTTGCAGTGG
54090674 GTTGTAAAGC
Statistics
Matches: 84, Mismatches: 14, Indels: 27
0.67 0.11 0.22
Matches are distributed among these distances:
43 1 0.01
44 39 0.46
45 8 0.10
46 2 0.02
48 1 0.01
49 6 0.07
50 25 0.30
51 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (42 bp):
CCCTGAAGTTGCAGTGGAGAAGATGAAGCTACAAATCCTTAC
Found at i:54090976 original size:94 final size:94
Alignment explanation
Indices: 54090778--54091005 Score: 226
Period size: 94 Copynumber: 2.4 Consensus size: 94
54090768 TACAATAGTG
* * * *
54090778 AATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATTCTATGCCCCTACAATTG
1 AATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCACTACAATTG
* * *
54090843 TAGTGGGTTGGAACGAAACTACAATAGCG
66 TAGTGGGTTGGAACGAAACTACAACAACA
* * * *
54090872 AATTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCATTGA-AGTT
1 AATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCACT-ACAATT
* * * *
54090936 GCT-GTGGGTTGGAATGGAATTATAACAACA
65 G-TAGTGGGTTGGAACGAAACTACAACAACA
* * * * * * *
54090966 AATCTCATCTCCTTAAAGTTGAAATTGAGCAAGACGAAGC
1 AATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATGAAGC
54091006 CATGATACTA
Statistics
Matches: 109, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
94 107 0.98
95 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (94 bp):
AATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCACTACAATTG
TAGTGGGTTGGAACGAAACTACAACAACA
Found at i:54091240 original size:5 final size:5
Alignment explanation
Indices: 54091230--54091254 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54091220 TTCGTCCGAC
54091230 CCAAA CCAAA CCAAA CCAAA CCAAA
1 CCAAA CCAAA CCAAA CCAAA CCAAA
54091255 AAAACATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAA
Found at i:54091571 original size:24 final size:25
Alignment explanation
Indices: 54091544--54091590 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
54091534 TGCAAAAAAA
54091544 AAAGAAAAAAACAAAAG-CAGAAAC
1 AAAGAAAAAAACAAAAGACAGAAAC
** *
54091568 AAAGAGTAAAACAGAAGACAGAA
1 AAAGAAAAAAACAAAAGACAGAA
54091591 TAGAGAAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.70, C:0.11, G:0.17, T:0.02
Consensus pattern (25 bp):
AAAGAAAAAAACAAAAGACAGAAAC
Found at i:54091619 original size:12 final size:12
Alignment explanation
Indices: 54091604--54091628 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54091594 AGAAGCAGCA
54091604 AAAGAAAAAAAT
1 AAAGAAAAAAAT
54091616 AAAGAAAAAAAT
1 AAAGAAAAAAAT
54091628 A
1 A
54091629 TTTTGTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAGAAAAAAAT
Found at i:54095966 original size:3 final size:3
Alignment explanation
Indices: 54095902--54095957 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
54095892 AAACATAAAC
** * * * *
54095902 AAT AAT AAT AGC AAA AAT AGT AAT AAT AAT AAT AAT AAC AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
54095950 AAT AAT AA
1 AAT AAT AA
54095958 GGTAATAATT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:54097569 original size:50 final size:50
Alignment explanation
Indices: 54097449--54097598 Score: 148
Period size: 50 Copynumber: 3.0 Consensus size: 50
54097439 TTTCAGTATG
* *
54097449 TTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTA
1 TTTAACTGTAATATCGGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTA
** * * *
54097499 TTCCA-T-T-ATACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTA
1 TTTAACTGTAATATCG---GGGAAGTAAGATTCACCGTCGTAGCTTCAATCTA
* * *
54097549 TTTAACTGTAATATCGGGGAAGTGAGATTCGCC--AGTAGCTTCAATCTA
1 TTTAACTGTAATATCGGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTA
54097597 TT
1 TT
54097599 CCACTGCACC
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
47 4 0.05
48 16 0.20
49 1 0.01
50 52 0.65
51 1 0.01
52 1 0.01
53 5 0.06
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (50 bp):
TTTAACTGTAATATCGGGGAAGTAAGATTCACCGTCGTAGCTTCAATCTA
Found at i:54097961 original size:132 final size:132
Alignment explanation
Indices: 54097785--54098430 Score: 976
Period size: 132 Copynumber: 4.9 Consensus size: 132
54097775 TGCACTGCCA
* ** *
54097785 GGGAAAATAAGATTTGCCATCTTCGATCTGCTT-CACTACTGCTTAGGGAGACAGGATCTGCAAT
1 GGGAAGATAAGATTCACCATCTTCGATCTG-TTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
*
54097849 CTTCAACCTACTCCACTACTGCCTAGGGAGATAGGACTAATGACTTAAA-CATGCTTCTCCACTA
65 CTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATC-TGCTTCTCCACTA
54097913 TCTT
129 TCTT
* * * *
54097917 GGGAAGATAAGATTCACCATCTTCGATCTGTTCCGCTACTGCTTAGGGAGATAAAATCTACAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
* *
54097982 TTCAACCTACTCCACTACTGTTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATC
54098047 TT
131 TT
* * *
54098049 GGGAAGATAAGATTCACCATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGTAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
** * *
54098114 TTTGACCTATTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATC
54098179 TT
131 TT
* *
54098181 GGGAAG-TAAGATTCACCATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGCAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
* * *
54098245 TTCAACATACTCCACTACTGCTTAGGGAGATAGGACTAATAACTTAAATCTGCTTCTCCACTGTC
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATC
54098310 TT
131 TT
* ** *
54098312 GGAAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
* **
54098377 TTCAACCTACTCCACTACTGC-TAGGGAGATAGGACTAATGGCTTCGATCTGCTT
66 TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTT
54098431 TGCTGTTAGT
Statistics
Matches: 471, Mismatches: 40, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
131 153 0.32
132 317 0.67
133 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
GGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
TTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATC
TT
Found at i:54098246 original size:44 final size:44
Alignment explanation
Indices: 54098067--54098246 Score: 133
Period size: 44 Copynumber: 4.1 Consensus size: 44
54098057 AAGATTCACC
*
54098067 ATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGTA
1 ATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGCA
* * * * *
54098111 ATCTTTGACCTATTCCACTACTGCTTAGGGAGATAGGA-CT--A
1 ATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGCA
** * * * *
54098152 ATGGCTTAAATCTGCTTCTCCACTA-T-CTT-GGGAAGTA-AGATTC-ACC
1 AT--CTTTGATCTG--T-TCCACTACTGCTTAGGG--GGACAGAATCTGCA
54098198 ATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGCA
1 ATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGCA
54098242 ATCTT
1 ATCTT
54098247 CAACATACTC
Statistics
Matches: 101, Mismatches: 20, Indels: 30
0.67 0.13 0.20
Matches are distributed among these distances:
41 10 0.10
42 4 0.04
43 19 0.19
44 55 0.54
45 4 0.04
46 9 0.09
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (44 bp):
ATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGCA
Found at i:54098293 original size:263 final size:263
Alignment explanation
Indices: 54097785--54098430 Score: 983
Period size: 263 Copynumber: 2.5 Consensus size: 263
54097775 TGCACTGCCA
* ** *
54097785 GGGAAAATAAGATTTGCCATCTTCGATCTGCTT-CACTACTGCTTAGGGAGACAGGATCTGCAAT
1 GGGAAGATAAGATTCACCATCTTCGATCTG-TTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
*
54097849 CTTCAACCTACTCCACTACTGCCTAGGGAGATAGGACTAATGACTTAAA-CATGCTTCTCCACTA
65 CTTCAACCTACTCCACTACTG-CTAGGGAGATAGGACTAATGGCTTAAATC-TGCTTCTCCACTA
* *
54097913 TCTTGGGAAGATAAGATTCACCATCTTCGATCTGTTCCGCTACTGCTTAGGGAGATAAAATCTAC
128 TCTTGGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAAAATCTAC
* * **
54097978 AATCTTCAACCTACTCCACTACTGTTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
193 AATCTTCAACATACTCCACTACTGCTTAGGGAGATAGGACTAATAACTTAAATCTGCTTCTCCAC
54098043 TATCTT
258 TATCTT
* * *
54098049 GGGAAGATAAGATTCACCATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGTAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
** *
54098114 TTTGACCTATTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
66 TTCAACCTACTCCACTACTGC-TAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATC
* * * *
54098179 TTGGGAAG-TAAGATTCACCATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGCAA
130 TTGGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAAAATCTACAA
*
54098243 TCTTCAACATACTCCACTACTGCTTAGGGAGATAGGACTAATAACTTAAATCTGCTTCTCCACTG
195 TCTTCAACATACTCCACTACTGCTTAGGGAGATAGGACTAATAACTTAAATCTGCTTCTCCACTA
54098308 TCTT
260 TCTT
* ** *
54098312 GGAAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCAATC
1 GGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
**
54098377 TTCAACCTACTCCACTACTGCTAGGGAGATAGGACTAATGGCTTCGATCTGCTT
66 TTCAACCTACTCCACTACTGCTAGGGAGATAGGACTAATGGCTTAAATCTGCTT
54098431 TGCTGTTAGT
Statistics
Matches: 346, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
262 31 0.09
263 194 0.56
264 120 0.35
265 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (263 bp):
GGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
TTCAACCTACTCCACTACTGCTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
TGGGAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAAAATCTACAAT
CTTCAACATACTCCACTACTGCTTAGGGAGATAGGACTAATAACTTAAATCTGCTTCTCCACTAT
CTT
Found at i:54098488 original size:45 final size:46
Alignment explanation
Indices: 54098438--54098556 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 46
54098428 CTTTGCTGTT
* **
54098438 AGTACAAGAAGGCAAGATCTGCTATCTTCAG-TCTGCTCCATTGTC
1 AGTACAGGAAGGCAAGATCTGCTATCTTCAGATCTGCTCCACCGTC
* * * * *
54098483 AGTACAGGAAGGCAAG-GCTGGTTTCTTC-GATCTGCTTCGCCGTC
1 AGTACAGGAAGGCAAGATCTGCTATCTTCAGATCTGCTCCACCGTC
*
54098527 AGTACAGGAAGGCATGATCTGCTATCTTCA
1 AGTACAGGAAGGCAAGATCTGCTATCTTCA
54098557 TTGATCTGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
43 1 0.02
44 34 0.58
45 24 0.41
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (46 bp):
AGTACAGGAAGGCAAGATCTGCTATCTTCAGATCTGCTCCACCGTC
Found at i:54098528 original size:44 final size:45
Alignment explanation
Indices: 54098418--54098555 Score: 145
Period size: 45 Copynumber: 3.1 Consensus size: 45
54098408 GGACTAATGG
* * * *
54098418 CTTCGATCTGCTTTGCTGTTAGTACAAGAAGGCAAGATCTGCTAT
1 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTAT
* ** * *
54098463 CTTC-AGTCTGCTCCATTGTCAGTACAGGAAGGCAAG-GCTGGTTT
1 CTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTAT
* * *
54098507 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATGATCTGCTAT
1 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTAT
54098552 CTTC
1 CTTC
54098556 ATTGATCTGT
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
44 35 0.48
45 38 0.52
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (45 bp):
CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTAT
Found at i:54099816 original size:18 final size:18
Alignment explanation
Indices: 54099795--54099855 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
54099785 TGGCCTCTCT
*
54099795 TTTTTTTCTTCTTCTTTC
1 TTTTTTTCTTATTCTTTC
* *
54099813 TTTTCTTCTTTTTCTTTC
1 TTTTTTTCTTATTCTTTC
54099831 TTCTTTTTCTTATT-TTTC
1 TT-TTTTTCTTATTCTTTC
54099849 TTTTTTT
1 TTTTTTT
54099856 GTATTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 5 0.13
18 24 0.63
19 9 0.24
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTCTTATTCTTTC
Found at i:54099831 original size:28 final size:27
Alignment explanation
Indices: 54099792--54099855 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 27
54099782 CCTTGGCCTC
54099792 TCTTTTTTTTCTTCTTCTTTCTT-TTCT
1 TCTTTTTTTTCTTCTT-TTTCTTATTCT
*
54099819 TCTTTTTCTTTCTTCTTTTTCTTATTTT
1 TCTTTTT-TTTCTTCTTTTTCTTATTCT
54099847 TCTTTTTTT
1 TCTTTTTTT
54099856 GTATTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (27 bp):
TCTTTTTTTTCTTCTTTTTCTTATTCT
Found at i:54099832 original size:13 final size:13
Alignment explanation
Indices: 54099792--54099841 Score: 75
Period size: 13 Copynumber: 3.8 Consensus size: 13
54099782 CCTTGGCCTC
54099792 TCTTTTT-TTTCT
1 TCTTTTTCTTTCT
54099804 TCTTCTTTCTTTTCT
1 TCTT-TTTC-TTTCT
54099819 TCTTTTTCTTTCT
1 TCTTTTTCTTTCT
54099832 TCTTTTTCTT
1 TCTTTTTCTT
54099842 ATTTTTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.11
13 18 0.51
14 4 0.11
15 9 0.26
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TCTTTTTCTTTCT
Found at i:54099851 original size:15 final size:15
Alignment explanation
Indices: 54099792--54099863 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
54099782 CCTTGGCCTC
* *
54099792 TCTTTTTTTTCTTCT
1 TCTTATTTTTCTTTT
54099807 TCTT-TCTTTTCTTCTT
1 TCTTAT-TTTTCTT-TT
*
54099823 T-TTCTTTCTTCTTTT
1 TCTTATTT-TTCTTTT
54099838 TCTTATTTTTCTTTT
1 TCTTATTTTTCTTTT
*
54099853 TTTGTATTTTT
1 TCT-TATTTTT
54099864 TTTATTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 1 0.02
15 27 0.56
16 20 0.42
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (15 bp):
TCTTATTTTTCTTTT
Found at i:54099855 original size:9 final size:9
Alignment explanation
Indices: 54099792--54099866 Score: 71
Period size: 9 Copynumber: 8.1 Consensus size: 9
54099782 CCTTGGCCTC
54099792 TCTTTTTTT
1 TCTTTTTTT
*
54099801 TCTTCTTCTT
1 TCTT-TTTTT
*
54099811 TC-TTTTCT
1 TCTTTTTTT
54099819 TCTTTTTCTT
1 TCTTTTT-TT
*
54099829 TCTTCTTTT
1 TCTTTTTTT
*
54099838 TCTTATTTT
1 TCTTTTTTT
54099847 TCTTTTTTT
1 TCTTTTTTT
*
54099856 GTATTTTTTT
1 -TCTTTTTTT
54099866 T
1 T
54099867 ATTGAATCTG
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 5 0.09
9 28 0.52
10 21 0.39
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:54102595 original size:19 final size:20
Alignment explanation
Indices: 54102566--54102617 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
54102556 CACTTTGTGA
* *
54102566 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
54102585 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
54102605 AAATG-AATGCAAA
1 AAATGTAATGCAAA
54102618 AAGATACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:54104571 original size:17 final size:17
Alignment explanation
Indices: 54104529--54104576 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
54104519 AGAACATTTT
*
54104529 AAAAGAATAA-AATAAA
1 AAAATAATAATAATAAA
*
54104545 AAAAT-CTAATAATAAA
1 AAAATAATAATAATAAA
54104561 AAAATAATAATAATAA
1 AAAATAATAATAATAA
54104577 CAGTAAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 3 0.11
16 15 0.56
17 9 0.33
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAATAATAATAATAAA
Found at i:54104845 original size:3 final size:3
Alignment explanation
Indices: 54104757--54104836 Score: 88
Period size: 3 Copynumber: 26.7 Consensus size: 3
54104747 AAAACTAAAC
** * * * *
54104757 AAT AAT AAT AGC AAA AAT AGT ATT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
54104805 AAT AAT AAC AAT AAT ACT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
54104837 GGTAATAATT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:54105610 original size:21 final size:22
Alignment explanation
Indices: 54105581--54105622 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
54105571 TTATATTTAA
* *
54105581 AAACGAAAATAAGAT-TAAAAG
1 AAACAAAAAAAAGATCTAAAAG
54105602 AAACAAAAAAAAGATCTAAAA
1 AAACAAAAAAAAGATCTAAAA
54105623 AGGGCAGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.71, C:0.07, G:0.10, T:0.12
Consensus pattern (22 bp):
AAACAAAAAAAAGATCTAAAAG
Found at i:54107403 original size:434 final size:433
Alignment explanation
Indices: 54106038--54109467 Score: 4296
Period size: 435 Copynumber: 7.9 Consensus size: 433
54106028 GTACAAATTT
* * * *
54106038 TACTCGATTGTGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAATGAGAAATGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* *
54106103 AAAAAGCAATTGAACCAAAAATAAGGAAATGGGAAAAAATGGCAGTAAACTTGAATAGCTACTAA
66 AAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGA
* * * * *
54106168 TGCATGAAAGAGAAAAAAATTGTTTTTAATTCTATTTCAGTGTGTTTTTTCCAAACCACCATTAT
131 TGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTAC
* * * *
54106233 AAGGTATTTACAAACTTTTCATATGCCAAATTTAGCATGATTACTCATAAGATTATGCCTAACAA
196 AAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAA
* * * *
54106298 CTAACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTAAAAAATTCACAATCTGATTTTTAATC
261 CCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATC
* * * * * * *
54106363 AGCCACTAATTAAT-CAACCTTTCAATTTGGCTCCTTTTATTTCTTCCCGTTCTAATTTAGCCCA
326 AGCCACTAATT-CTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAGCCAA
*
54106427 ATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAGTCA
390 ATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* * * *
54106471 TACTCAATAGGGGTTTAAAAGTGGATTTGAACGTAA---TGA-AGGTGAAAAGGAGAAAGGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* * * * *
54106532 GAAAAGCAATTGAACCAAAAATAAGGAAGTGGGAAAAAAATGGCAGTAAACTTGAAAAGCTTCTT
66 AAAAAGCAATTGAACCAAAAATAAGGAAAT-GGAAAAAAATGGCAGTAAACTTGAATAGCTACTG
* * *
54106597 ATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTACAATGTGTTTTTTCTAAGCCACCATTA
130 ATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTA
* ** ** * ** *
54106662 -ATAGATGGTTATATTCTTTTTATATGCCAAATTTAGCATGATTCCTTATGAGATTATGCCTAAC
195 CA-AGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
* * * *
54106726 AACCAACTAAAATAAGA-TTTTTTTCTATTCATATAGTTTGACAAAATCATAATCTGATTTTTTT
259 AACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGA--TTTTT
* * * * ** *
54106790 TATCAGCCACTAATTCAGCCACTTTTCAATTTGTCCCCTTTTATTGCTTCAAATTTCAATTTAGC
322 AATCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAGC
* * * *
54106855 CCAATTTTCTTGACTAAATGGGTTTTAGTTGAGCATGAAATTAATCA
387 CAAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* * * *** * *
54106902 TACTCTATTGAGGTTTAAAATTGGATTTGGTTGTAATGGTGATAAGTGAAAAGGTGAATA-AACT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAA-AGGACT
*
54106966 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATTGGTAGTAAACTTGAATAGCTACT
65 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAA-TGGCAGTAAACTTGAATAGCTACT
* * * * *
54107031 GATGCGTGAAAGAGAAAATAATTGTTTTTAATTATATTCCAGCGTGTTTTTTCCAAGTCACTATT
129 GATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATT
* * * * *
54107096 ACAAGGTATTTATACACTTTTCATCTGTCAAATTTAGCATTATTTCTCCTAAGATTATGCTTAAC
194 ACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
* * * * *
54107161 AACCAACTAAAATTAGATTTTTTTTCTATTCATGGAGTTTGAGAAATTCACAATATAATTTTTAA
259 AACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAA
* * * *
54107226 TCAGCCACTTATTCTGTAACTTTTCAATTTGGCCCTTTTTATTGCTTCCCGTTCCAATTTAGCCA
324 TCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAGCCA
54107291 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
389 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
*
54107336 TACACGATTGGGGTTTAAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGG-GTAAAGGACT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAG-AAAGGACT
* * * *
54107400 TAAAAAGTAATTTAACCAAAAATAAGGAAATGG-AAAAAATGGAAGTAGACTTGAATAGCTACTG
65 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTG
* * * *
54107464 ATGTGTGAAAGAGATAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCGAAGCCAGCATTA
130 ATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTA
* *
54107529 CAAAGTATTTATACACTTTTCATATGTCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACA
195 CAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACA
* * ** * * *
54107594 ACCAATTAAAATTAGA-TTTTTTTCTATTCATAGAGTTCAAAAAATTCATAATCAGATTTTTAAT
260 ACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAAT
* * *
54107658 CAGCCACTAATTTTGTAACTTTTCAATTTGGCCCATTTTATTGCTTCCCATTCCAATTTAGCCAA
325 CAGCCACTAATTCTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAGCCAA
* * *
54107723 ATTTGCTTGGCTAAATGTGGTTTAGTTGAGAATGCAATTAATCA
390 ATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* * * *
54107767 TACTCGATTGGGGTTTAAAAGTGGATTTGGAAGTAAAGGTAATAAGTGAAAAGGAGAAAAGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* * * * * *
54107832 AAAAAGAAATTGAACCAAAAGTAAGGAAATGGTAAAAAAATGACAATAAGCTTGAATAGCTATTG
66 AAAAAGCAATTGAACCAAAAATAAGGAAATGG-AAAAAAATGGCAGTAAACTTGAATAGCTACTG
* *
54107897 ATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTGTTTTT-GAAGCCTCCATT
130 ATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGT-TTTTTCCAAGCCACCATT
* * * * *
54107961 ACAAGGTATTAATAGACTTTTCATATGCCATATTGAGCATGATTCCTCCTAAGATTATGCCTAAT
194 ACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
*
54108026 AATCAACTAAAATCAGATTTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTA
259 AACCAACTAAAATCAGA-TTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTA
* * * * * * * * **
54108091 ATCAACCACTAATTATGAAAATTTTTAATTTGGTCCCTTCTATTGCTTTCTGTTCCAATTTAGCC
323 ATCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAG-C
* * *
54108156 CAAATTTGCTTGGCTAAATGCGATTTAGTTGAACATGAAATTAATCA
387 CAAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* ** * * *
54108203 TACTCGATTGGGATTTAAAAGTAAATTTGAATGTAATGGTGATAGGTGAAAAGGAGAGAGGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* *
54108268 -CAAAGAAATTGAACCAAAAATAAGGAAATGGAAAAAAAATGGCAGTAAACTTGAATAGCTA-TA
66 AAAAAGCAATTGAACCAAAAATAAGGAAATGG-AAAAAAATGGCAGTAAACTTGAATAGCTACT-
** * *
54108331 GATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTTTAGTGTGTTTTTTCTAGGCCACCATT
129 GATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATT
* *
54108396 ACAAGTTATTCATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
194 ACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
* * * *
54108461 AACCAACTAAAATCATATTTGTTTGT-TATTTATAGAGTTTGACAAATTCATAATCTGATTTTTA
259 AACCAACTAAAATCAGATTT-TTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTA
* * * * * *
54108525 ATCAGCC-CTTATTTCTACAACTTTTCAATTTGACCCCCTTTATTTCTTCCTATTCCAATTTAGC
323 ATCAGCCAC-TAATTCTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAGC
* * *
54108589 CTAATTTGTTTGGCTAAATGTGGTTTAGTTGAGCATGAAATTAATCA
387 CAAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
** * * * * *
54108636 TACTTTATTTGGGTTTAAAAGTGGATTT-AAACATAATGGCGATAGGTGAAAAGGAGAAAGAACT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAAA-GTAATGGTGATAAGTGAAAAGGAGAAAGGACT
* * * ** *
54108700 TAAAAGGCAATCGAACCAAAAATAAGGAACTGGCAAAAATTTGGCAGTAAACTTGAATATCTACT
65 TAAAAAGCAATTGAACCAAAAATAAGGAAATGG-AAAAAAATGGCAGTAAACTTGAATAGCTACT
* * * * * * * *
54108765 GATGTGTGAAAGAGAAAAAAAAATGCTTTTAATTCTATTTCTA-TGTATTTTTTCCAAGTCAACA
129 GATGCGTGAAAGAG-AAAAGAATTGTTTTTAATTCTA-TTCCAGTGTGTTTTTTCCAAGCCACCA
* *
54108829 TTACAAGGTATTTATAC-CATTTTCATATACCAAATTTAGCATGATTCCTCCTAAGATTATTCCT
192 TTACAAGGTATTTATACAC-TTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCT
* * * *
54108893 AACAACCAACTAAAATCACATTTGTTTTCTATTCATAGAGTTTGACAAATTCAAAATCTAATTTT
256 AACAACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTT
* * * * * *
54108958 CAGTCAGCCCCTAATTCTGTAACTTTTCAATTTGGCCCCTTTTATTGCTTCTCATTCTAA-TTAG
321 TAATCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAG
*
54109022 CCTAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
386 CCAAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* * *
54109070 TACTCAAATGGGGTTTAAAAGTGGATTTGAACA-TAATGATGATAAGTGAAAAGGAGAAAGGACT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAA-AGTAATGGTGATAAGTGAAAAGGAGAAAGGACT
* * * * * *
54109134 T-GAAAGACAATTGAACCAAAAATAAGGAACTAGAAAAAAGTCGACAGTAAACTTGAATAACTAC
65 TAAAAAG-CAATTGAACCAAAAATAAGGAAATGGAAAAAAAT-GGCAGTAAACTTGAATAGCTAC
* * ** *
54109198 TGATGCGTGATAGAGAAAAGAATTGCTTTTAATTCTATTTTAATGTGTTTTTTCCAAGCCACCAT
128 TGATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCAT
* *** * * *
54109263 TGCAAGGTATTTATACACTTTTCATATATAAAATTTAGCATGATTCTTCATAA-ATGATGCCTAA
193 TACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAA
** ** * * *
54109327 TGATTAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGATAAGTTCACAATTTGATTTTTA
258 CAACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTA
* * * * * * *
54109392 ATCAGCCACTAATACTGCAACTTTTCAATTTGACCCATTTTATTGCTTCTCGTTCCAGTTTTGCC
323 ATCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAGCC
*
54109457 CAATTTGCTTG
388 AAATTTGCTTG
54109468 TTTATTTAAA
Statistics
Matches: 2593, Mismatches: 363, Indels: 82
0.85 0.12 0.03
Matches are distributed among these distances:
429 82 0.03
430 159 0.06
431 357 0.14
432 272 0.10
433 396 0.15
434 523 0.20
435 665 0.26
436 139 0.05
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (433 bp):
TACTCGATTGGGGTTTAAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
AAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGA
TGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTAC
AAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAA
CCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATC
AGCCACTAATTCTGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCCCATTCCAATTTAGCCAAA
TTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
Found at i:54107815 original size:865 final size:863
Alignment explanation
Indices: 54106038--54109467 Score: 4372
Period size: 865 Copynumber: 4.0 Consensus size: 863
54106028 GTACAAATTT
* *
54106038 TACTCGATTGTGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAATGAGAAATG-ACT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAA-GAACT
* *
54106102 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGGAAAAAATGGCAGTAAACTTGAATAGCTACTA
65 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTG
* * *
54106167 ATGCATGAAAGAGAAAAAAATTGTTTTTAATTCTATTTCAGTGTGTTTTTTCCAAACCACCATTA
130 ATGCGTGAAAGAGAAAAAAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTA
* * * * *
54106232 TAAGGTATTTACAAACTTTTCATATGCCAAATTTAGCATGATTACTCATAAGATTATGCCTAACA
195 CAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACA
* * * * *
54106297 ACTAACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTAAAAAATTCACAATCTGATTTTTAAT
260 ACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTTAAT
* * * * *
54106362 CAGCCACTAATTAAT-CAACCTTTCAATTTGGCTCCTTTTATTTCTTCCCGTTCTAATTTAGCCC
325 CAGCCACTAATT-ATGTAACTTTTCAATTTGGC-CCTTTTATTGCTTCCCGTTCCAATTTAGCCA
* *
54106426 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAGTCATACTCAATAGGGGTTTAAAA
388 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAAAA
* *
54106491 GTGGATTTGAACGTAA---TGA-AGGTGAAAAGGAGAAAGGACTTGAAAAGCAATTGAACCAAAA
453 GTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT-AAAAGCAATTGAACCAAAA
* * * * *
54106552 ATAAGGAAGTGGGAAAAAAATGGCAGTAAACTTGAAAAGCTTCTTATGCGTGAAAGAGAAAAGAA
517 ATAAGGAAAT-GGAAAAAAATGGAAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAA
* * **
54106617 TTGTTTTTAATTCTATTACAATGTGTTTTTTCTAAGCCACCATTA-ATAG-ATGGTTATATTCTT
581 TTGTTTTTAATTCTATTTCAATGTGTTTTTTCTAAGCCACCATTACAAAGTAT--TTATACACTT
* * * *
54106680 TTTATATGCCAAATTTAGCATGATTCCTTATGAGATTATGCCTAACAACCAACTAAAATAAGATT
644 TTCATATGCCAAATTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGATT
* * * *
54106745 TTTTTCTATTCATATAGTTTGACAAAA-TCATAATCTGATTTTTTTTATCAGCCACTAATTCAGC
709 TTTTTCTATTCATAGAGTTT-AAAAAATTCATAATCTGA--TTTTTAATCAGCCACTAATTCTGC
* * * ** * * *
54106809 CACTTTTCAATTTGTCCCCTTTTATTGCTTCAAATTTCAATTTAGCCCAATTTTCTTGACTAAAT
771 AACTTTTCAATTTGACCCATTTTATTGCTTCCCATTCCAATTTAGCCCAATTTGCTTGGCTAAAT
54106874 G-GGTTTTAGTTGAGCATGAAATTAATCA
836 GTGG-TTTAGTTGAGCATGAAATTAATCA
* * * *** *
54106902 TACTCTATTGAGGTTTAAAATTGGATTTGGTTGTAATGGTGATAAGTGAAAAGGTGAATA-AACT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAA-AGAACT
*
54106966 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATTGGTAGTAAACTTGAATAGCTACT
65 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAA-TGGCAGTAAACTTGAATAGCTACT
* * * * *
54107031 GATGCGTGAAAGAGAAAATAATTGTTTTTAATTATATTCCAGCGTGTTTTTTCCAAGTCACTATT
129 GATGCGTGAAAGAGAAAAAAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATT
* * * * *
54107096 ACAAGGTATTTATACACTTTTCATCTGTCAAATTTAGCATTATTTCTCCTAAGATTATGCTTAAC
194 ACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
* * * *
54107161 AACCAACTAAAATTAGATTTTTTTTCTATTCATGGAGTTTGAGAAATTCACAATATAATTTTTAA
259 AACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTTAA
* *
54107226 TCAGCCACTTATTCTGTAACTTTTCAATTTGGCCCTTTTTATTGCTTCCCGTTCCAATTTAGCCA
324 TCAGCCACTAATTATGTAACTTTTCAATTTGGCCC-TTTTATTGCTTCCCGTTCCAATTTAGCCA
* *
54107291 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACACGATTGGGGTTTAAAA
388 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAAAA
* *
54107356 GTGGATTTGAAAGTAATGGTGATAAGTGAAAAGG-GTAAAGGACTTAAAAAGTAATTTAACCAAA
453 GTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAG-AAAGGACTT-AAAAGCAATTGAACCAAA
* * *
54107420 AATAAGGAAATGG-AAAAAATGGAAGTAGACTTGAATAGCTACTGATGTGTGAAAGAGATAAGAA
516 AATAAGGAAATGGAAAAAAATGGAAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAA
* * * *
54107484 TTGTTTTTAATTCTATTCCAGTGTGTTTTTTCGAAGCCAGCATTACAAAGTATTTATACACTTTT
581 TTGTTTTTAATTCTATTTCAATGTGTTTTTTCTAAGCCACCATTACAAAGTATTTATACACTTTT
* * * *
54107549 CATATGTCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAATTAAAATTAGATTTT
646 CATATGCCAAATTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGATTTT
* * * *
54107614 TTTCTATTCATAGAGTTCAAAAAATTCATAATCAGATTTTTAATCAGCCACTAATTTTGTAACTT
711 TTTCTATTCATAGAGTTTAAAAAATTCATAATCTGATTTTTAATCAGCCACTAATTCTGCAACTT
* *
54107679 TTCAATTTGGCCCATTTTATTGCTTCCCATTCCAATTTAGCCAAATTTGCTTGGCTAAATGTGGT
776 TTCAATTTGACCCATTTTATTGCTTCCCATTCCAATTTAGCCCAATTTGCTTGGCTAAATGTGGT
* *
54107744 TTAGTTGAGAATGCAATTAATCA
841 TTAGTTGAGCATGAAATTAATCA
* *
54107767 TACTCGATTGGGGTTTAAAAGTGGATTTGGAA-GTAAAGGTAATAAGTGAAAAGGAGAAA-AGAC
1 TACTCGATTGGGGTTTAAAAGTGGATTT-GAACGTAATGGTGATAAGTGAAAAGGAGAAAGA-AC
* * * * * *
54107830 TTAAAAAGAAATTGAACCAAAAGTAAGGAAATGGTAAAAAAATGACAATAAGCTTGAATAGCTAT
64 TTAAAAAGCAATTGAACCAAAAATAAGGAAATGG-AAAAAAATGGCAGTAAACTTGAATAGCTAC
* * *
54107895 TGATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTGTTTTT-GAAGCCTCCA
128 TGATGCGTGAAAGAGAAAAAAATTGTTTTTAATTCTATTCCAGTGTGT-TTTTTCCAAGCCACCA
* * * *
54107959 TTACAAGGTATTAATAGACTTTTCATATGCCATATTGAGCATGATTCCTCCTAAGATTATGCCTA
192 TTACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTA
* * *
54108024 ATAATCAACTAAAATCAGATTTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTT
257 ACAACCAACTAAAATCAGA-TTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTT
* * * * * * *
54108089 TAATCAACCACTAATTATGAAAATTTTTAATTTGGTCCCTTCTATTGCTTTCTGTTCCAATTTAG
321 TAATCAGCCACTAATTATGTAACTTTTCAATTTGG-CCCTTTTATTGCTTCCCGTTCCAATTTAG
* * * * *
54108154 CCCAAATTTGCTTGGCTAAATGCGATTTAGTTGAACATGAAATTAATCATACTCGATTGGGATTT
385 -CCAAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTT
** * * * * *
54108219 AAAAGTAAATTTGAATGTAATGGTGATAGGTGAAAAGGAGAGAGGACTTCAAAGAAATTGAACCA
449 AAAAGTGGATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAGCAATTGAACCA
*
54108284 AAAATAAGGAAATGGAAAAAAAATGGCAGTAAACTTGAATAGCTA-TAGATGCGTGAAAGAGAAA
514 AAAATAAGGAAATGG-AAAAAAATGGAAGTAAACTTGAATAGCTACT-GATGCGTGAAAGAGAAA
* * * *
54108348 AGAATTGTTTTTAATTCTATTTTAGTGTGTTTTTTCTAGGCCACCATTAC-AAGTTATTCATACA
577 AGAATTGTTTTTAATTCTATTTCAATGTGTTTTTTCTAAGCCACCATTACAAAG-TATTTATACA
* *
54108412 CTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAT
641 CTTTTCATATGCCAAATTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAG
* * * *
54108477 ATTTGTTTGT-TATTTATAGAGTTTGACAAATTCATAATCTGATTTTTAATCAGCC-CTTATTTC
706 ATTT-TTT-TCTATTCATAGAGTTTAAAAAATTCATAATCTGATTTTTAATCAGCCAC-TAATTC
* ** * * * *
54108540 TACAACTTTTCAATTTGACCCCCTTTATTTCTTCCTATTCCAATTTAGCCTAATTTGTTTGGCTA
768 TGCAACTTTTCAATTTGACCCATTTTATTGCTTCCCATTCCAATTTAGCCCAATTTGCTTGGCTA
54108605 AATGTGGTTTAGTTGAGCATGAAATTAATCA
833 AATGTGGTTTAGTTGAGCATGAAATTAATCA
** * * * * *
54108636 TACTTTATTTGGGTTTAAAAGTGGATTTAAACATAATGGCGATAGGTGAAAAGGAGAAAGAACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGAACTT
* * * ** *
54108701 AAAAGGCAATCGAACCAAAAATAAGGAACTGGCAAAAATTTGGCAGTAAACTTGAATATCTACTG
66 AAAAAGCAATTGAACCAAAAATAAGGAAATGG-AAAAAAATGGCAGTAAACTTGAATAGCTACTG
* * * * * * *
54108766 ATGTGTGAAAGAGAAAAAAAAATGCTTTTAATTCTATTTCTA-TGTATTTTTTCCAAGTCAACAT
130 ATGCGTGAAAGAG-AAAAAAATTGTTTTTAATTCTA-TTCCAGTGTGTTTTTTCCAAGCCACCAT
* *
54108830 TACAAGGTATTTATAC-CATTTTCATATACCAAATTTAGCATGATTCCTCCTAAGATTATTCCTA
193 TACAAGGTATTTATACAC-TTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTA
* * * *
54108894 ACAACCAACTAAAATCACATTTGTTTTCTATTCATAGAGTTTGACAAATTCAAAATCTAATTTTC
257 ACAACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTT
* * * * * *
54108959 AGTCAGCCCCTAATTCTGTAACTTTTCAATTTGGCCCCTTTTATTGCTTCTCATTCTAA-TTAGC
322 AATCAGCCACTAATTATGTAACTTTTCAATTTGG-CCCTTTTATTGCTTCCCGTTCCAATTTAGC
* *
54109023 CTAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAAATGGGGTTTAA
386 CAAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAA
* *
54109088 AAGTGGATTTGAACA-TAATGATGATAAGTGAAAAGGAGAAAGGACTTGAAAGACAATTGAACCA
451 AAGTGGATTTGAA-AGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAG-CAATTGAACCA
* * * * * *
54109152 AAAATAAGGAACTAGAAAAAAGTCGACAGTAAACTTGAATAACTACTGATGCGTGATAGAGAAAA
514 AAAATAAGGAAATGGAAAAAAATGGA-AGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAA
* * * * *
54109217 GAATTGCTTTTAATTCTATTTTAATGTGTTTTTTCCAAGCCACCATTGCAAGGTATTTATACACT
578 GAATTGTTTTTAATTCTATTTCAATGTGTTTTTTCTAAGCCACCATTACAAAGTATTTATACACT
*** * * ** **
54109282 TTTCATATATAAAATTTAGCATGATTCTTCATAA-ATGATGCCTAATGATTAACTAAAATCAGAT
643 TTTCATATGCCAAATTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGA-
* * * * * *
54109346 TTTTTTTCTATTCATAGAGTTTGATAAGTTCACAATTTGATTTTTAATCAGCCACTAATACTGCA
707 TTTTTTTCTATTCATAGAGTTTAAAAAATTCATAATCTGATTTTTAATCAGCCACTAATTCTGCA
* * * *
54109411 ACTTTTCAATTTGACCCATTTTATTGCTTCTCGTTCCAGTTTTGCCCAATTTGCTTG
772 ACTTTTCAATTTGACCCATTTTATTGCTTCCCATTCCAATTTAGCCCAATTTGCTTG
54109468 TTTATTTAAA
Statistics
Matches: 2223, Mismatches: 300, Indels: 83
0.85 0.12 0.03
Matches are distributed among these distances:
864 97 0.04
865 646 0.29
866 142 0.06
867 518 0.23
868 322 0.14
869 390 0.18
870 104 0.05
871 4 0.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (863 bp):
TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGAACTT
AAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGA
TGCGTGAAAGAGAAAAAAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTAC
AAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAA
CCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTTAATC
AGCCACTAATTATGTAACTTTTCAATTTGGCCCTTTTATTGCTTCCCGTTCCAATTTAGCCAAAT
TTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAAAAGTG
GATTTGAAAGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAGCAATTGAACCAAAAATAA
GGAAATGGAAAAAAATGGAAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTT
TTTAATTCTATTTCAATGTGTTTTTTCTAAGCCACCATTACAAAGTATTTATACACTTTTCATAT
GCCAAATTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTCT
ATTCATAGAGTTTAAAAAATTCATAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAA
TTTGACCCATTTTATTGCTTCCCATTCCAATTTAGCCCAATTTGCTTGGCTAAATGTGGTTTAGT
TGAGCATGAAATTAATCA
Found at i:54112350 original size:22 final size:23
Alignment explanation
Indices: 54112323--54112367 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
54112313 TAAATTAAAC
54112323 AATTTAATATTACATTA-AATAT
1 AATTTAATATTACATTACAATAT
54112345 AATTTAATATTACATTACAATAT
1 AATTTAATATTACATTACAATAT
54112368 CTACTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTTAATATTACATTACAATAT
Found at i:54114596 original size:13 final size:13
Alignment explanation
Indices: 54114578--54114616 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
54114568 TTATAATTTT
* *
54114578 TAAAAATTTTATA
1 TAAAAAGTTAATA
54114591 TAAAAAGTTAATA
1 TAAAAAGTTAATA
*
54114604 TAAAAAATTAATA
1 TAAAAAGTTAATA
54114617 CGGGCAGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (13 bp):
TAAAAAGTTAATA
Found at i:54118632 original size:17 final size:18
Alignment explanation
Indices: 54118600--54118633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54118590 CAAAGTTGTG
*
54118600 ATAATTATACATTTAAAA
1 ATAATTAGACATTTAAAA
54118618 ATAATTAGA-ATTTAAA
1 ATAATTAGACATTTAAA
54118634 TTACTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTAGACATTTAAAA
Found at i:54127446 original size:19 final size:21
Alignment explanation
Indices: 54127405--54127449 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
54127395 ATAAAAAAAT
*
54127405 AAAAATATATAACATCTAGAA
1 AAAAACATATAACATCTAGAA
*
54127426 AAAAACATATAA-AT-TATAA
1 AAAAACATATAACATCTAGAA
54127445 AAAAA
1 AAAAA
54127450 TTCAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAACATATAACATCTAGAA
Found at i:54127456 original size:27 final size:27
Alignment explanation
Indices: 54127426--54127478 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
54127416 ACATCTAGAA
54127426 AAAAACAT-ATAAATTATAAAA-AAATTC
1 AAAAACATGAT-AATTA-AAAATAAATTC
*
54127453 AAAAATATGATAATTAAAAATAAATT
1 AAAAACATGATAATTAAAAATAAATT
54127479 AGTTGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
27 17 0.74
28 2 0.09
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAACATGATAATTAAAAATAAATTC
Found at i:54127930 original size:22 final size:22
Alignment explanation
Indices: 54127891--54127936 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
54127881 TATTTAAATA
* *
54127891 TTTAATATTATAATTTTTTATT
1 TTTAAAATTATAAATTTTTATT
*
54127913 TTTAAAATTTTAAATTTTTATT
1 TTTAAAATTATAAATTTTTATT
54127935 TT
1 TT
54127937 AAATAAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAAAATTATAAATTTTTATT
Found at i:54129745 original size:37 final size:38
Alignment explanation
Indices: 54129680--54129753 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
54129670 AATTAATTGA
*
54129680 TTTTTTAAAAATTTAAAAAATTCAAAAAATGTATAAAT
1 TTTTTTAAAAATTTAAAAAATTCAAAAAAGGTATAAAT
*
54129718 TTTTTTAAAAA-TTAAAAAATAT-TAAAAAGGTATAAA
1 TTTTTTAAAAATTTAAAAAAT-TCAAAAAAGGTATAAA
54129754 AATTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 21 0.64
38 12 0.36
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (38 bp):
TTTTTTAAAAATTTAAAAAATTCAAAAAAGGTATAAAT
Found at i:54129768 original size:17 final size:18
Alignment explanation
Indices: 54129722--54129768 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
54129712 ATAAATTTTT
54129722 TTAAAAAT-TAAAAAATA
1 TTAAAAATATAAAAAATA
*
54129739 TTAAAAAGGTATAAAAATTA
1 TTAAAAA--TATAAAAAATA
54129759 -TAAAAATATA
1 TTAAAAATATA
54129769 TATTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 11 0.42
19 7 0.27
20 8 0.31
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
TTAAAAATATAAAAAATA
Found at i:54138674 original size:21 final size:21
Alignment explanation
Indices: 54138650--54138695 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
54138640 ATTTTTAAAA
54138650 AAATGAATTTTTAGA-ATTTTT
1 AAAT-AATTTTTAGATATTTTT
* *
54138671 AAATATTTTTTTGATATTTTT
1 AAATAATTTTTAGATATTTTT
54138692 AAAT
1 AAAT
54138696 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
AAATAATTTTTAGATATTTTT
Found at i:54154468 original size:17 final size:17
Alignment explanation
Indices: 54154431--54154469 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
54154421 TATTTATTTG
*
54154431 TTTTTTAATATAATAAT
1 TTTTTTAATATAATAAC
54154448 TTTTTTAATATAA-ATAC
1 TTTTTTAATATAATA-AC
54154465 TTTTT
1 TTTTT
54154470 AATGTGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTAATATAATAAC
Found at i:54156123 original size:18 final size:17
Alignment explanation
Indices: 54156102--54156136 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
54156092 TTATTATTAA
54156102 ATATATTTTAATTAAAAT
1 ATATATTTTAA-TAAAAT
54156120 ATATATTTTAATAAAAT
1 ATATATTTTAATAAAAT
54156137 TCTTAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATTTTAATAAAAT
Found at i:54156243 original size:18 final size:17
Alignment explanation
Indices: 54156220--54156256 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
54156210 AATTATTATT
54156220 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
54156236 AAATATATGATTTAATA
1 AAATATATGATTTAATA
54156253 AAAT
1 AAAT
54156257 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:54156315 original size:61 final size:61
Alignment explanation
Indices: 54156130--54156317 Score: 179
Period size: 61 Copynumber: 3.1 Consensus size: 61
54156120 ATATATTTTA
* *
54156130 ATAAAATTCTTAACAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * * * * * * ** * * *
54156191 ATAAAA-T-ATAAT-TTAAGATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TT
1 ATAAAATTCTTAATAATCA-AT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
*
54156249 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
54156311 ATAAAAT
1 ATAAAAT
54156318 ATAATTTGAA
Statistics
Matches: 94, Mismatches: 25, Indels: 16
0.70 0.19 0.12
Matches are distributed among these distances:
58 3 0.03
59 32 0.34
60 16 0.17
61 40 0.43
62 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (61 bp):
ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:54156363 original size:18 final size:17
Alignment explanation
Indices: 54156340--54156376 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
54156330 AATTATTATT
54156340 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
54156356 AAATATATGATTTAATA
1 AAATATATGATTTAATA
54156373 AAAT
1 AAAT
54156377 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:54156374 original size:59 final size:58
Alignment explanation
Indices: 54156082--54156376 Score: 210
Period size: 59 Copynumber: 4.9 Consensus size: 58
54156072 TTAATCATAT
*
54156082 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATAT-ATTTTAATAAAAT-T-C
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGA-TTTAATAAAATATAA
* * * * * *
54156139 TTAACAATCAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAATATA
1 TTTA-AAT-AATTATTATTAAAT-ATATTT--T--AATTAAAATATATGAT-TTAATAAAATATA
54156201 A
58 A
*
54156202 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAA
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-ATAA
* * * * * * ** * * *
54156263 TAATCAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATAGT-ATAAAATATAA
1 T-TTAAATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATATAA
54156322 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
54156377 TTAAAATAAT
Statistics
Matches: 178, Mismatches: 37, Indels: 44
0.69 0.14 0.17
Matches are distributed among these distances:
57 18 0.10
58 7 0.04
59 56 0.31
60 16 0.09
61 53 0.30
62 10 0.06
63 18 0.10
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (58 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATATAA
Found at i:54156386 original size:120 final size:120
Alignment explanation
Indices: 54156082--54156377 Score: 524
Period size: 120 Copynumber: 2.5 Consensus size: 120
54156072 TTAATCATAT
* *
54156082 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATAT-ATTTTAATAAAATTCTTAACAA
1 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGA-TTTAATAAAATTCTTAATAA
*
54156146 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
65 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
54156202 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
54156267 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
54156322 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
54156378 TAAAATAATT
Statistics
Matches: 170, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
120 167 0.98
121 3 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:54156488 original size:91 final size:91
Alignment explanation
Indices: 54156384--54156599 Score: 353
Period size: 91 Copynumber: 2.4 Consensus size: 91
54156374 AATTTAAAAT
* * * * *
54156384 AATTATTAGTAATAATTTTTCTTATATGAATTTGTATAATTTAATATAA-TAATTATTAAATATA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA-TATTAAATATA
54156448 ATTTAATAATAATATATAATTTCATAA
65 ATTTAATAATAATATATAATTTCATAA
*
54156475 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
54156540 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
54156566 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
54156600 CTAAAATCAT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 113 0.97
92 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:54156511 original size:47 final size:47
Alignment explanation
Indices: 54156359--54156599 Score: 148
Period size: 47 Copynumber: 5.3 Consensus size: 47
54156349 TTAATTAAAA
* * * * *
54156359 TATATG-ATTTAATAAAATTT-AAAATAATTATTAGTAATAATTTTTCT
1 TATATGAATTT-ATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
* * * ** * **
54156406 TATATGAATTTGTATAATTTAATATAATAATTATTAAATATAA-TTTAA
1 TATATGAATTTATATAATTTCATAAAATTCTTAAT-AATA-AATTTTCT
*
54156454 TA-AT-AA--TATATAATTTCATAAAATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTTCATAAAATTCTTAATAATAAATTTTCT
** * *
54156497 TATATGAATTTATATAA-TT--TAAAATAATTAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTCATAAAATTCTTAATAATAAAT-T-TTCT
* *
54156542 TA-AT-AATAATATATAATTTCATAAAATTCTTAATAATAAATATTCT
1 TATATGAAT-TTATATAATTTCATAAAATTCTTAATAATAAATTTTCT
54156588 TATATGAATTTA
1 TATATGAATTTA
54156600 CTAAAATCAT
Statistics
Matches: 146, Mismatches: 30, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
42 2 0.01
43 12 0.08
44 45 0.31
45 9 0.06
46 8 0.05
47 51 0.35
48 18 0.12
49 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (47 bp):
TATATGAATTTATATAATTTCATAAAATTCTTAATAATAAATTTTCT
Found at i:54156541 original size:16 final size:16
Alignment explanation
Indices: 54156511--54156559 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
54156501 TGAATTTATA
54156511 TAAT-TTAAA-ATAAT
1 TAATATTAAATATAAT
54156525 TAATATTAAATATAATT
1 TAATATTAAATATAA-T
*
54156542 TAATAATAATATATAAT
1 TAATATTAA-ATATAAT
54156559 T
1 T
54156560 TCATAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.13
15 5 0.17
16 4 0.13
17 11 0.37
18 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATTAAATATAAT
Found at i:54156555 original size:44 final size:44
Alignment explanation
Indices: 54156418--54156560 Score: 132
Period size: 44 Copynumber: 3.2 Consensus size: 44
54156408 TATGAATTTG
*
54156418 TATAATTTAATATAA-TAATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAA-TATTAAATATAATTTAATAATAATA
** * * * *
54156462 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAAT-TTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATAATA
54156509 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATA
54156553 TATAATTT
1 TATAATTT
54156561 CATAAAATTC
Statistics
Matches: 76, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
43 3 0.04
44 33 0.43
45 7 0.09
46 7 0.09
47 21 0.28
48 5 0.07
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (44 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATA
Found at i:54156557 original size:18 final size:17
Alignment explanation
Indices: 54156516--54156565 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
54156506 TTATATAATT
*
54156516 TAAA-ATAA-TTAATAT
1 TAAATATAATTTAATAA
54156531 TAAATATAATTTAATAA
1 TAAATATAATTTAATAA
*
54156548 TAATATATAATTTCATAA
1 TAA-ATATAATTTAATAA
54156566 AATTCTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 9 0.30
18 13 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATATAATTTAATAA
Found at i:54156697 original size:14 final size:14
Alignment explanation
Indices: 54156678--54156717 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
54156668 TTGATTGCCA
54156678 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
54156692 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
54156706 GAAAAATGTTTT
1 GTAAAATGTTTT
54156718 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:54156730 original size:34 final size:35
Alignment explanation
Indices: 54156686--54156752 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
54156676 CAGTAAAATG
* *
54156686 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
* *
54156720 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTT
54156753 TTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
Found at i:54156738 original size:20 final size:20
Alignment explanation
Indices: 54156701--54156740 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54156691 CGTAAAATGA
**
54156701 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATAATTTACT
*
54156721 TTTCTGTAAAATAATTTACT
1 TTTCTGAAAAATAATTTACT
54156741 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATAATTTACT
Found at i:54156855 original size:20 final size:20
Alignment explanation
Indices: 54156830--54156881 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
54156820 GAAAAAGTTG
54156830 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
54156850 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
54156868 TTTTTACATATATT
1 TTTTTACATATATT
54156882 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:54164373 original size:9 final size:9
Alignment explanation
Indices: 54164359--54164679 Score: 62
Period size: 10 Copynumber: 33.0 Consensus size: 9
54164349 TTAAATGACT
54164359 TTTTTATAA
1 TTTTTATAA
*
54164368 TTTTTAATATTT
1 TTTTT-ATA--A
*
54164380 TTTTTCTAA
1 TTTTTATAA
*
54164389 TTTATTAGAA
1 TTT-TTATAA
54164399 TTTATTAT-A
1 TTT-TTATAA
54164408 TTATTTATAA
1 TT-TTTATAA
*
54164418 TTTTTATGA
1 TTTTTATAA
54164427 TTTTTATAA
1 TTTTTATAA
*
54164436 GTTTTAATGAA
1 -TTTTTAT-AA
*
54164447 ATTTTA-AA
1 TTTTTATAA
54164455 TATTTTAAATATA
1 T-TTTT--ATA-A
*
54164468 TATTTATCAA
1 TTTTTAT-AA
54164478 -TTTTATAAA
1 TTTTTAT-AA
**** *
54164487 AAAATATTA
1 TTTTTATAA
* *
54164496 TTATTAGAA
1 TTTTTATAA
*
54164505 TTTATT-TGA
1 TTT-TTATAA
54164514 TTTTTAATAA
1 TTTTT-ATAA
*
54164524 TTTTTAATGA
1 TTTTT-ATAA
* *
54164534 TATTTGTAA
1 TTTTTATAA
*
54164543 GTTTTTATGATTT
1 -TTTTTAT-A--A
54164556 TTTTTATAA
1 TTTTTATAA
*
54164565 TTTTTAAAA
1 TTTTTATAA
*
54164574 GTTTATATCAA
1 -TTTTTAT-AA
*
54164585 TTTTAAT-A
1 TTTTTATAA
54164593 -TTTT-TAA
1 TTTTTATAA
*
54164600 TATTTAATAA
1 T-TTTTATAA
**
54164610 TTCTTTATTG
1 TT-TTTATAA
54164620 TTTTTAATAAA
1 TTTTT-AT-AA
*
54164631 TTTTTATGAT
1 TTTTTAT-AA
54164641 TTTTTATAA
1 TTTTTATAA
*
54164650 GTTTTTAAGAA
1 -TTTTT-ATAA
*
54164661 TTTTTATATT
1 TTTTTATA-A
54164671 TTTTTATAA
1 TTTTTATAA
54164680 AATTTTAAAT
Statistics
Matches: 223, Mismatches: 55, Indels: 68
0.64 0.16 0.20
Matches are distributed among these distances:
6 1 0.00
7 4 0.02
8 5 0.02
9 71 0.32
10 106 0.48
11 18 0.08
12 16 0.07
13 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:54164424 original size:18 final size:18
Alignment explanation
Indices: 54164397--54164441 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
54164387 AATTTATTAG
54164397 AATTTATTAT-ATTATTTAT
1 AATTT-TTATGATT-TTTAT
54164416 AATTTTTATGATTTTTAT
1 AATTTTTATGATTTTTAT
*
54164434 AAGTTTTA
1 AATTTTTA
54164442 ATGAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
AATTTTTATGATTTTTAT
Found at i:54164526 original size:10 final size:10
Alignment explanation
Indices: 54164513--54164742 Score: 64
Period size: 10 Copynumber: 23.4 Consensus size: 10
54164503 AATTTATTTG
54164513 ATTTTTAATA
1 ATTTTTAATA
*
54164523 ATTTTTAATG
1 ATTTTTAATA
* *
54164533 ATATTT-GTA
1 ATTTTTAATA
54164542 AGTTTTT-ATGA
1 A-TTTTTAAT-A
* *
54164553 TTTTTTTTATA
1 -ATTTTTAATA
54164564 ATTTTTAA-A
1 ATTTTTAATA
*
54164573 A-GTTTATATCA
1 ATTTTTA-AT-A
54164584 A-TTTTAAT-
1 ATTTTTAATA
54164592 ATTTTTAAT-
1 ATTTTTAATA
54164601 A--TTTAATA
1 ATTTTTAATA
*
54164609 ATTCTTT-ATT
1 ATT-TTTAATA
*
54164619 GTTTTTAATAA
1 ATTTTTAAT-A
*
54164630 ATTTTT-ATG
1 ATTTTTAATA
*
54164639 ATTTTTTATA
1 ATTTTTAATA
*
54164649 AGTTTTTAAGA
1 A-TTTTTAATA
54164660 ATTTTT-ATA
1 ATTTTTAATA
* *
54164669 TTTTTTTATAA
1 ATTTTTAAT-A
*
54164680 AATTTTAA-A
1 ATTTTTAATA
*
54164689 TATTTTAAATA
1 -ATTTTTAATA
54164700 TATTTTT--TA
1 -ATTTTTAATA
*
54164709 CTTTTATAATTA
1 ATTTT-TAA-TA
54164721 A-TTTT-ATA
1 ATTTTTAATA
54164729 ATTTATTAA-A
1 ATTT-TTAATA
54164739 ATTT
1 ATTT
54164743 ATTATACTGT
Statistics
Matches: 164, Mismatches: 29, Indels: 54
0.66 0.12 0.22
Matches are distributed among these distances:
7 6 0.04
8 13 0.08
9 36 0.22
10 59 0.36
11 46 0.28
12 4 0.02
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:54164562 original size:88 final size:86
Alignment explanation
Indices: 54164406--54164573 Score: 191
Period size: 88 Copynumber: 1.9 Consensus size: 86
54164396 GAATTTATTA
*
54164406 TATTATTTATAATTTTTATGATTTTTATAAGTTTTAATGAAATTTTAAATATTTTAAATATATAT
1 TATTATTTAGAATTTTTATGATTTTTATAAGTTTTAATGAAATTTTAAATATTTTAAATATATAT
54164471 TTATCAATTTTATAAAAAAATAT
66 TTAT-AATTTT-TAAAAAAATAT
* * * *
54164494 TATTA-TTAGAATTTATT-TGATTTTTAATAATTTTTAATGATATTTGTAAGT-TTTTATGAT-T
1 TATTATTTAGAATTT-TTATGATTTTT-ATAAGTTTTAATGAAATTT-TAAATATTTTA-AATAT
* *
54164555 TTTTTTATAATTTTTAAAA
62 ATATTTATAATTTTTAAAA
54164574 GTTTATATCA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
86 5 0.07
87 22 0.32
88 36 0.52
89 6 0.09
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (86 bp):
TATTATTTAGAATTTTTATGATTTTTATAAGTTTTAATGAAATTTTAAATATTTTAAATATATAT
TTATAATTTTTAAAAAAATAT
Found at i:54164663 original size:30 final size:31
Alignment explanation
Indices: 54164619--54164679 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
54164609 ATTCTTTATT
54164619 GTTTTTAATAAATTTTTATGA-TTTTTTATAA
1 GTTTTTAATAAATTTTTAT-ATTTTTTTATAA
*
54164650 GTTTTTAA-GAATTTTTATATTTTTTTATAA
1 GTTTTTAATAAATTTTTATATTTTTTTATAA
54164680 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.04
30 19 0.68
31 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (31 bp):
GTTTTTAATAAATTTTTATATTTTTTTATAA
Found at i:54164694 original size:30 final size:30
Alignment explanation
Indices: 54164629--54164687 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
54164619 GTTTTTAATA
**
54164629 AATTTTTATGA-TTTTTTATAAGTTTTTAAG
1 AATTTTTAT-ATTTTTTTATAAAATTTTAAG
54164659 AATTTTTATATTTTTTTATAAAATTTTAA
1 AATTTTTATATTTTTTTATAAAATTTTAA
54164688 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (30 bp):
AATTTTTATATTTTTTTATAAAATTTTAAG
Found at i:54167877 original size:17 final size:18
Alignment explanation
Indices: 54167851--54167884 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
54167841 TTAATAATTA
54167851 TTAAGCAGTTTAAGTTAT
1 TTAAGCAGTTTAAGTTAT
*
54167869 TTAAG-AGTTTATGTTA
1 TTAAGCAGTTTAAGTTA
54167885 GCAAGAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (18 bp):
TTAAGCAGTTTAAGTTAT
Found at i:54171522 original size:25 final size:22
Alignment explanation
Indices: 54171490--54171534 Score: 63
Period size: 25 Copynumber: 1.9 Consensus size: 22
54171480 TAGTTGAGGA
54171490 AATGTTGGTATGATAGCTTAGCCT
1 AATGTTGGTATG-T-GCTTAGCCT
54171514 AATGCTTGGTATGTGCTTAGC
1 AATG-TTGGTATGTGCTTAGC
54171535 TTGAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (22 bp):
AATGTTGGTATGTGCTTAGCCT
Found at i:54174018 original size:17 final size:18
Alignment explanation
Indices: 54173996--54174039 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
54173986 TAAGATGATT
54173996 AAAAATAAAT-AACTAAC
1 AAAAATAAATAAACTAAC
*
54174013 AAAAATAAATAAACTAAT
1 AAAAATAAATAAACTAAC
*
54174031 AAAGATAAA
1 AAAAATAAA
54174040 CAAATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAAATAAATAAACTAAC
Found at i:54185466 original size:23 final size:22
Alignment explanation
Indices: 54185423--54185466 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
54185413 TTCTAAGTCG
54185423 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
54185446 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
54185467 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:54185575 original size:45 final size:45
Alignment explanation
Indices: 54185511--54185599 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
54185501 AACAGATACT
* * *
54185511 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGTC
*
54185556 CGGTGGAATCAGCACATAGCAATAACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGT
54185600 TTAGTTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACAACCTTACTAATCAATGATGTC
Found at i:54185668 original size:51 final size:51
Alignment explanation
Indices: 54185607--54185739 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
54185597 TGTTTAGTTC
*
54185607 ACATAGTAGCCTGCACATAGTACTACACATGT-AACCATTACCATCC-GCTAT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGAACCA-AACCATCCGGC-AT
* * * * * *
54185658 ACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGCAT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGAACCAAACCATCCGGCAT
* *
54185709 GCATAGTAGCCTGCACCTAGTACTACACATG
1 ACATAGTAGCCTGCACATAGTACTACACATG
54185740 CGACTTATCA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
51 63 0.93
52 5 0.07
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (51 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGAACCAAACCATCCGGCAT
Found at i:54197449 original size:20 final size:19
Alignment explanation
Indices: 54197425--54197490 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
54197415 GATTCAATAA
54197425 AAAAACAAAAAAATCAAAAT
1 AAAAA-AAAAAAATCAAAAT
* *
54197445 CAAAAATAAAAAATCTAAAT
1 -AAAAAAAAAAAATCAAAAT
* *
54197465 AAAAATAAAAAATCTAAAT
1 AAAAAAAAAAAATCAAAAT
54197484 ATAAAAA
1 A-AAAAA
54197491 TGAAAATGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 20 0.49
20 16 0.39
21 5 0.12
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAAAAAAAAATCAAAAT
Found at i:54197468 original size:19 final size:19
Alignment explanation
Indices: 54197432--54197489 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 19
54197422 TAAAAAAACA
*
54197432 AAAAAATCAAAATCAAAAAT
1 AAAAAATCTAAAT-AAAAAT
54197452 AAAAAATCTAAATAAAAAT
1 AAAAAATCTAAATAAAAAT
54197471 AAAAAATCTAAATATAAAA
1 AAAAAATCTAAATA-AAAA
54197490 ATGAAAATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAAATCTAAATAAAAAT
Found at i:54197491 original size:14 final size:14
Alignment explanation
Indices: 54197433--54197505 Score: 53
Period size: 13 Copynumber: 5.4 Consensus size: 14
54197423 AAAAAAACAA
*
54197433 AAAAATCAAAAT-C
1 AAAAATCAAAATAT
*
54197446 AAAAAT-AAAAAAT
1 AAAAATCAAAATAT
** *
54197459 CTAAATAAAAATA-
1 AAAAATCAAAATAT
*
54197472 AAAAATCTAAATAT
1 AAAAATCAAAATAT
*
54197486 AAAAATGAAAATGAT
1 AAAAATCAAAAT-AT
54197501 AAAAA
1 AAAAA
54197506 AAGAAAAAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
12 4 0.09
13 19 0.42
14 15 0.33
15 7 0.16
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAAATCAAAATAT
Found at i:54198428 original size:46 final size:45
Alignment explanation
Indices: 54198361--54198449 Score: 151
Period size: 46 Copynumber: 2.0 Consensus size: 45
54198351 AAGGAGAAGG
* *
54198361 GACCAAGGTGAAAATCCGCAAAGGGCGCTTTGATTCCTAAAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCC-AAAAAAAA
54198407 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAA
54198450 TAAAAAAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 6 0.15
46 35 0.85
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (45 bp):
GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAA
Found at i:54199162 original size:35 final size:35
Alignment explanation
Indices: 54199103--54199170 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
54199093 AAAGGCTAAA
* *
54199103 AATCTAAGAAGGAAGAGTCTAAATTAAGACTATAT
1 AATCTAAGAAGGAAAAGTCAAAATTAAGACTATAT
*
54199138 AATCTAAGAATGAAAAGTCAAAATTAAGACTAT
1 AATCTAAGAAGGAAAAGTCAAAATTAAGACTAT
54199171 CTCTTTGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (35 bp):
AATCTAAGAAGGAAAAGTCAAAATTAAGACTATAT
Found at i:54199886 original size:88 final size:88
Alignment explanation
Indices: 54199737--54200495 Score: 975
Period size: 88 Copynumber: 8.6 Consensus size: 88
54199727 GAAACCACAA
* *
54199737 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCATTCCTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
*
54199802 CAGTGAAGCAGATCGAAGACACC
66 CAGCGAAGCAGATCGAAGACACC
* * * * * *
54199825 AGCCTTGCCTTCCTGGGTTGCAGCGGAGCAAGTTGAAAATAACAGATATTGTCTTCCTGCACCAA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
54199890 CAGCGAAGCAGATCGAAGACACC
66 CAGCGAAGCAGATCGAAGACACC
* * * * *
54199913 AGCCTTGCCTCCCTAGGTTGCAGCAGAACAGGTTAAAAATAGTAGATCTTGCCTTCCTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
54199978 CAGC-AAGCAGATCGAAGACACC
66 CAGCGAAGCAGATCGAAGACACC
* * * * *
54200000 AGCCTTACCTCCCTGGGTTGTAGTGGAGCAGGTTAAAAATAGCAAATCTTGCCTTCCTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
54200065 CAGCGAAGCAGATCGAAGACACC
66 CAGCGAAGCAGATCGAAGACACC
* * * * * *
54200088 AGTCTTCCCTCCTTGGGTTGTAGCGGAGCAAGTTGAAAATAGCAGATCTTGCCTTCCTACACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
* * *
54200153 CAACGAAGCAAATCAAAGACACC
66 CAGCGAAGCAGATCGAAGACACC
* * * *
54200176 AGCCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGAAAATCTTGCCTTCTTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
* **
54200241 CAGTGAAGCAGATCGAAGACATT
66 CAGCGAAGCAGATCGAAGACACC
* ** **
54200264 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATATTGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
* * *
54200329 CAGTGGAGCAGATCGAAGACACT
66 CAGCGAAGCAGATCGAAGACACC
* * * * **
54200352 AGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTGAAGATGGCAGATCTTGCCTTCCT-CTA-TT
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGC-ACCG
54200415 AGCAGCGAAGCAGATCGAAGACACC
65 A-CAGCGAAGCAGATCGAAGACACC
* * * * ** *
54200440 AGTCTTGCCTCCCTGGGTTACAGCAGAGCAAGTTGAAAGCACCAGATCTTGCCTTC
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTC
54200496 TTCTATAAGC
Statistics
Matches: 587, Mismatches: 81, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
87 81 0.14
88 506 0.86
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGA
CAGCGAAGCAGATCGAAGACACC
Found at i:54200302 original size:43 final size:43
Alignment explanation
Indices: 54200255--54200390 Score: 139
Period size: 44 Copynumber: 3.1 Consensus size: 43
54200245 GAAGCAGATC
* *
54200255 GAAGACATTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTT
1 GAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTT
* * * ** * * *
54200298 GAAGATAGC-AGATCTTGCCTTCCTATATTGACAGTGGAGCAGATC
1 GAAGACA-CTAG-CCTTGCCTCCCTAGGTTG-CAGCGGAGCAGGTT
*
54200343 GAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCAGAGCAGGTT
1 GAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTT
54200386 GAAGA
1 GAAGA
54200391 TGGCAGATCT
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
43 23 0.33
44 28 0.40
45 19 0.27
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.23
Consensus pattern (43 bp):
GAAGACACTAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTT
Found at i:54200435 original size:45 final size:44
Alignment explanation
Indices: 54200281--54200449 Score: 125
Period size: 45 Copynumber: 3.8 Consensus size: 44
54200271 CCTCCCTGGG
* * * *
54200281 TTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATA
1 TTGCAGCGAAGCAGATCGAAGATAGCAGATCTTGCCTTCCTCTA
* * * *
54200325 TTGACAGTGGAGCAGATCGAAGACA-CTAG-CCTTGCC-TCC-CTA
1 TTG-CAGCGAAGCAGATCGAAGATAGC-AGATCTTGCCTTCCTCTA
* * *
54200367 GGTTGCAGC-AGAGCAGGTTGAAGATGGCAGATCTTGCCTTCCTCTA
1 --TTGCAGCGA-AGCAGATCGAAGATAGCAGATCTTGCCTTCCTCTA
* *
54200413 TTAGCAGCGAAGCAGATCGAAGACACCAG-TCTTGCCT
1 TT-GCAGCGAAGCAGATCGAAGATAGCAGATCTTGCCT
54200450 CCCTGGGTTA
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
42 2 0.02
43 19 0.20
44 30 0.31
45 41 0.43
46 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (44 bp):
TTGCAGCGAAGCAGATCGAAGATAGCAGATCTTGCCTTCCTCTA
Found at i:54200593 original size:44 final size:44
Alignment explanation
Indices: 54200528--54200780 Score: 263
Period size: 44 Copynumber: 5.8 Consensus size: 44
54200518 CGAAGCTAAT
* * *
54200528 AATCCTATCTCCTTGGACAGCAGTGGAATAGGTTGTAGAGTGTG
1 AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTG
* *
54200572 AATCCTATCTCCCTGGTCAGCAGTGGAATA----GAAAATTGT-
1 AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTG
* * *
54200611 AAGTCTTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTG
1 AA-TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTG
* * **
54200656 AGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATT-AC
1 AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTG
*
54200699 AAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGT-
1 AA-TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTG
* *
54200743 AGA-CCTTATATCCCT-GAGCAACAGTGGAATAGGTTGAA
1 A-ATCC-TATCTCCCTGGA-CAGCAGTGGAATAGGTTGAA
54200781 AATTACAAAT
Statistics
Matches: 176, Mismatches: 22, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.01
40 32 0.18
43 5 0.03
44 135 0.77
45 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTG
Found at i:54200739 original size:88 final size:87
Alignment explanation
Indices: 54200530--54200799 Score: 316
Period size: 88 Copynumber: 3.1 Consensus size: 87
54200520 AAGCTAATAA
* * * * *
54200530 TCCTATCTCCTTGGACAGCAGTGGAATAGGTTGTAGAGTGTGAATCCTATCTCCCTGGTCAGCAG
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCT-GACAGCAG
**
54200595 TGGAATA----GAAAATTGTAAG
65 TGGAATAGGTTGAAAATTACAAG
* * *
54200614 TCTTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTAGACAGCAG
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCT-GACAGCAG
*
54200679 TGGAATAGGTTGAAGATTACAAG
65 TGGAATAGGTTGAAAATTACAAG
* * * *
54200702 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGT-AGACCTTATATCCCTGAGCAACA
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCC-TATCTCCCTGA-CAGCA
*
54200766 GTGGAATAGGTTGAAAATTACAAA
64 GTGGAATAGGTTGAAAATTACAAG
*
54200790 TCTTATCTCC
1 TCCTATCTCC
54200800 ATAAGCAATA
Statistics
Matches: 158, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
84 63 0.40
87 6 0.04
88 89 0.56
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (87 bp):
TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGACAGCAGT
GGAATAGGTTGAAAATTACAAG
Found at i:54200795 original size:44 final size:44
Alignment explanation
Indices: 54200614--54200814 Score: 149
Period size: 44 Copynumber: 4.6 Consensus size: 44
54200604 AAATTGTAAG
** * *** *
54200614 TCTTATCTCCCTG-GTCAGTAGTGGAATAGGTTGAAGATTGTGAG
1 TCTTATCTCCCTGAG-CAACAGTGGAATAGGTTGAAAATTACAAA
* * * *
54200658 TCCTATCTCCCT-AGACAGCAGTGGAATAGGTTGAAGATTACAAG
1 TCTTATCTCCCTGAG-CAACAGTGGAATAGGTTGAAAATTACAAA
* * ** *
54200702 TCCTATCTCCCTG-GACAGCAGTGGAATAGGTT-AAAGATTGTAGA
1 TCTTATCTCCCTGAG-CAACAGTGGAATAGGTTGAAA-ATTACAAA
* *
54200746 CCTTATATCCCTGAGCAACAGTGGAATAGGTTGAAAATTACAAA
1 TCTTATCTCCCTGAGCAACAGTGGAATAGGTTGAAAATTACAAA
* * *
54200790 TCTTATCTCCATAAGCAATAGTGGA
1 TCTTATCTCCCTGAGCAACAGTGGA
54200815 GCAGATCGAA
Statistics
Matches: 129, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
43 2 0.02
44 123 0.95
45 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGCAACAGTGGAATAGGTTGAAAATTACAAA
Done.