Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 166 of 320
Found at i:54841823 original size:66 final size:63
Alignment explanation
Indices: 54841667--54841824 Score: 156
Period size: 66 Copynumber: 2.4 Consensus size: 63
54841657 ACACGGTCGC
* * *
54841667 ACACACGGGCGTGTGCTAGGCCGTGTGGCCAAGTCAGTAGCCTCCCTAATTTTCACACGGCCTG
1 ACACACGGGTGTGT-CTAGGCCGTGTGGACAAGTCAGTAGCATCCCTAATTTTCACACGGCCTG
* * * * * *
54841731 GCACACTGGTGTGTCTTGTGGTCGTGTGGACAAGTCAGTATGTATGCCCT-ATTTTGACACGGCC
1 ACACACGGGTGTGTC-T-AGGCCGTGTGGACAAGTCAGTA-GCAT-CCCTAATTTTCACACGGCC
54841795 TAG
62 T-G
*
54841798 ACACACGGGTGTGTCTAAAGCCGTGTG
1 ACACACGGGTGTGTCT-AGGCCGTGTG
54841825 AGGCATACAG
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
63 1 0.01
64 12 0.16
65 19 0.26
66 24 0.32
67 18 0.24
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.26
Consensus pattern (63 bp):
ACACACGGGTGTGTCTAGGCCGTGTGGACAAGTCAGTAGCATCCCTAATTTTCACACGGCCTG
Found at i:54844831 original size:18 final size:18
Alignment explanation
Indices: 54844808--54844842 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54844798 TTTTCAGAAT
54844808 ACCCTAAACCCTAAAAAA
1 ACCCTAAACCCTAAAAAA
*
54844826 ACCCTAAGCCCTAAAAA
1 ACCCTAAACCCTAAAAA
54844843 CCTTAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.34, G:0.03, T:0.11
Consensus pattern (18 bp):
ACCCTAAACCCTAAAAAA
Found at i:54852092 original size:44 final size:44
Alignment explanation
Indices: 54851948--54852104 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 44
54851938 TGCTCGTACA
* * * * *
54851948 ATGCCAATATCCTAGACGTGGTCTTACATGT--ATTCAAATATCG
1 ATGCTAATGTCCTAGACATGGTCTTACACGTAAATTTAAA-ATCG
* * * * * *
54851991 ATGCCATTGTCCCAGACAGGGTCTTACACG-AAA--TCAAATACA
1 ATGCTAATGTCCTAGACATGGTCTTACACGTAAATTTAAAAT-CG
*
54852033 ATGCTGATGTCCTAGACATGGTCTTACACGTAAATTTAAAATCG
1 ATGCTAATGTCCTAGACATGGTCTTACACGTAAATTTAAAATCG
* *
54852077 ATGCTAACGTCCTAGACGTGGTCTTACA
1 ATGCTAATGTCCTAGACATGGTCTTACA
54852105 TGAAATCACA
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 27 0.30
44 27 0.30
45 5 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (44 bp):
ATGCTAATGTCCTAGACATGGTCTTACACGTAAATTTAAAATCG
Found at i:54854932 original size:27 final size:27
Alignment explanation
Indices: 54854902--54854991 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
54854892 CAACCAATAG
54854902 AGTCTGTCGAGACACTAAACATGGGGT
1 AGTCTGTCGAGACACTAAACATGGGGT
** * *
54854929 AGTCCATCGGGACACTAAACATAGGGT
1 AGTCTGTCGAGACACTAAACATGGGGT
* * *
54854956 AGTCTG-CTAGGACACTAAACATGAGAT
1 AGTCTGTCGA-GACACTAAACATGGGGT
54854983 AGTCTGTCG
1 AGTCTGTCG
54854992 TAATAGTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
26 1 0.02
27 47 0.96
28 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (27 bp):
AGTCTGTCGAGACACTAAACATGGGGT
Found at i:54855099 original size:69 final size:69
Alignment explanation
Indices: 54854996--54855151 Score: 197
Period size: 69 Copynumber: 2.3 Consensus size: 69
54854986 CTGTCGTAAT
* * *
54854996 AGTAAACACGAGGATTACGAGGTGAAAGAACATAGCTCGACTATGGCAACCAATAGAGTCTATTA
1 AGTAAACACGAGGATTACGAGGTGAAAGAACATAGCTCAACAATAGCAACCAATAGAGTCTATTA
*
54855061 GGAC
66 GGAA
** * ** * *
54855065 AGTAAACACGAGGATTGTGAGGTGTAAGTCCATAGCTCAACAATAGCAACCAATGGAGTCTGTTA
1 AGTAAACACGAGGATTACGAGGTGAAAGAACATAGCTCAACAATAGCAACCAATAGAGTCTATTA
54855130 GGAA
66 GGAA
54855134 AGTAAACAC-AGGGATTAC
1 AGTAAACACGA-GGATTAC
54855152 TATATAGCCC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
68 1 0.01
69 72 0.99
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (69 bp):
AGTAAACACGAGGATTACGAGGTGAAAGAACATAGCTCAACAATAGCAACCAATAGAGTCTATTA
GGAA
Found at i:54858813 original size:201 final size:201
Alignment explanation
Indices: 54858468--54858869 Score: 671
Period size: 201 Copynumber: 2.0 Consensus size: 201
54858458 CTGCTAGGGG
* *
54858468 TATAATAGTAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACGAGCCTA
1 TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACAAGCCTA
* *
54858533 GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGTAAATGTGTAAAAAAGCTTAAAAGTGTGTT
66 GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGTT
*
54858598 TTGGACTAAATTGAATAGAGAGATAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
131 TTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
*
54858663 GTGAAA
196 GCGAAA
** * *
54858669 TATAATAGGAATTCGGCTAGGTTTGGGTTGTGATGAAATTGAATGAATTTTATTTTACAAGCCTA
1 TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACAAGCCTA
** *
54858734 GGGACTAAATTGA-AAAAGTGGTGAAATGTTAGGGGCAAATCTGTAAAAGAGCTTAAAAGTGTGT
66 GGGACTAAATT-ATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGT
54858798 TTTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAA
130 TTTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAA
54858863 AGCGAAA
195 AGCGAAA
54858870 CCCAGACTTA
Statistics
Matches: 187, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
201 186 0.99
202 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (201 bp):
TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACAAGCCTA
GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGTT
TTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
GCGAAA
Found at i:54859130 original size:41 final size:41
Alignment explanation
Indices: 54859054--54859133 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
54859044 AATTATGGGC
*
54859054 ACTTAGTGTGCAAAATTGAGATAGCTTCGATTATATATTGG
1 ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATTGG
* * * *
54859095 ACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATATATT
1 ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATT
54859134 CACATTAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (41 bp):
ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATTGG
Found at i:54860610 original size:8 final size:8
Alignment explanation
Indices: 54860599--54860623 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
54860589 TTTAATAAGA
54860599 TATTTTAT
1 TATTTTAT
54860607 TATTTTAT
1 TATTTTAT
54860615 TATTTTAT
1 TATTTTAT
54860623 T
1 T
54860624 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:54863138 original size:10 final size:10
Alignment explanation
Indices: 54863123--54863149 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
54863113 ACACACAAAG
54863123 TAAGCTTTCA
1 TAAGCTTTCA
54863133 TAAGCTTTCA
1 TAAGCTTTCA
54863143 TAAGCTT
1 TAAGCTT
54863150 AGTAAGCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (10 bp):
TAAGCTTTCA
Found at i:54863489 original size:44 final size:42
Alignment explanation
Indices: 54863441--54863556 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 42
54863431 AAGATTAGCT
54863441 GAAGCTATAATAATTCTGCACACTTAGTGCCATCTCA-ATTAACC
1 GAAGCTATAATAATTC-GCACACTTAGTGCCA-CTCATA-TAACC
*
54863485 GAAGCTAT-TTCAATATCGCACACTTAGTG-C-CTCATATAACC
1 GAAGCTATAAT-AAT-TCGCACACTTAGTGCCACTCATATAACC
*
54863526 GAAGCTA-AATTAACTCGCACACTTAGTGCCA
1 GAAGCTATAA-TAATTCGCACACTTAGTGCCA
54863557 AATACTATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
40 14 0.23
41 19 0.31
42 2 0.03
43 2 0.03
44 23 0.37
45 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (42 bp):
GAAGCTATAATAATTCGCACACTTAGTGCCACTCATATAACC
Found at i:54873097 original size:43 final size:41
Alignment explanation
Indices: 54873039--54873187 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 41
54873029 CAATGCCAAC
* *
54873039 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATT
1 GTCCCAGAAG-GGTCTTACACGTAATCAAATATCGATGCCA-T
* * *
54873082 GTCCCAGATAGGGTCTTACACGAAATCAAATA-CAATACCGAT
1 GTCCCAGA-AGGGTCTTACACGTAATCAAATATCGATGCC-AT
* * *
54873124 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC
1 GTCCCAGA-AGGGTCTTACACGT-AATCA-AATATCGATGCC-AT
*
54873168 GTCCCAGACGTGGTCTTACA
1 GTCCCAGAAG-GGTCTTACA
54873188 TGAAAACACA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
42 26 0.31
43 33 0.39
44 26 0.31
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (41 bp):
GTCCCAGAAGGGTCTTACACGTAATCAAATATCGATGCCAT
Found at i:54876133 original size:37 final size:37
Alignment explanation
Indices: 54876083--54876161 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
54876073 TTATTACGAA
* *
54876083 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
54876120 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
54876157 GTCTT
1 GTCTT
54876162 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:54876358 original size:47 final size:47
Alignment explanation
Indices: 54876280--54876802 Score: 830
Period size: 47 Copynumber: 11.1 Consensus size: 47
54876270 CCCTTCGGGA
* * * * * * *
54876280 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
54876327 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54876374 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54876421 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54876468 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54876515 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54876562 CTTATCACACATATACACATTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54876609 CTTATCACACATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54876656 CTTATCACACATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54876703 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54876752 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54876799 CTTA
1 CTTA
54876803 CTATCATTTC
Statistics
Matches: 450, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 405 0.90
49 45 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54890440 original size:6 final size:6
Alignment explanation
Indices: 54890395--54890466 Score: 58
Period size: 6 Copynumber: 11.7 Consensus size: 6
54890385 ACAATTTGTT
* * * *
54890395 GAAAAA GCAAAA GAATAA GAATAA GAAAAA -AAGAAT GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAA-AAA GAAAAA GAAAAA
54890443 G-AAAA GAAAATCAA GAAAAA GAAA
1 GAAAAA G-AAA--AA GAAAAA GAAA
54890467 GAAAAAAGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.13
6 37 0.69
7 4 0.07
8 3 0.06
9 3 0.06
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (6 bp):
GAAAAA
Found at i:54890443 original size:36 final size:36
Alignment explanation
Indices: 54890394--54890472 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
54890384 AACAATTTGT
* *
54890394 TGAAAAAGCAAAAGAATAAGAATAA-GAA-AAAAAGAA
1 TGAAAAAGAAAAAGAA-AAGAA-AATCAAGAAAAAGAA
54890430 TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
1 TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
*
54890466 AGAAAAA
1 TGAAAAA
54890473 AGTGAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 2 0.05
35 7 0.18
36 29 0.76
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.06
Consensus pattern (36 bp):
TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
Found at i:54890459 original size:30 final size:29
Alignment explanation
Indices: 54890403--54890472 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
54890393 TTGAAAAAGC
* *
54890403 AAAAGAATAAGAATAAGAAAAAAAGAATGA
1 AAAAGAAAAAGAATAAGAAAAAAAGAA-AA
*
54890433 AAAAGAAAAAGAA-AAGAAAATCAAGAAAA
1 AAAAGAAAAAGAATAAGAAAA-AAAGAAAA
54890462 AGAAAGAAAAA
1 A-AAAGAAAAA
54890473 AGTGAGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (29 bp):
AAAAGAAAAAGAATAAGAAAAAAAGAAAA
Found at i:54893577 original size:19 final size:19
Alignment explanation
Indices: 54893538--54893574 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
54893528 TAGTACAACC
54893538 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCTTGAGTT
54893557 ATTTAATTTGTCTT-AGTT
1 ATTTAATTTGTCTTGAGTT
54893575 TATACAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
ATTTAATTTGTCTTGAGTT
Found at i:54910488 original size:22 final size:22
Alignment explanation
Indices: 54910463--54910506 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
54910453 AGTTCAAGAG
54910463 ATCAAGTTATAACCATTTTAGT
1 ATCAAGTTATAACCATTTTAGT
54910485 ATCAAGTTATAACCATTTTAGT
1 ATCAAGTTATAACCATTTTAGT
54910507 TAAGACTGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
ATCAAGTTATAACCATTTTAGT
Found at i:54911007 original size:82 final size:83
Alignment explanation
Indices: 54910907--54911072 Score: 316
Period size: 83 Copynumber: 2.0 Consensus size: 83
54910897 ACTCTGGGAG
*
54910907 TTTATTTCTTGATGCAAGA-TTTTTTTCTTATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
1 TTTATTTCTTGATGCAAGATTTTTTTTCTCATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
54910971 TCTAGGAGTCATGGGAAT
66 TCTAGGAGTCATGGGAAT
54910989 TTTATTTCTTGATGCAAGATTTTTTTTCTCATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
1 TTTATTTCTTGATGCAAGATTTTTTTTCTCATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
54911054 TCTAGGAGTCATGGGAAT
66 TCTAGGAGTCATGGGAAT
54911072 T
1 T
54911073 CATTCTTCAC
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 19 0.23
83 63 0.77
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (83 bp):
TTTATTTCTTGATGCAAGATTTTTTTTCTCATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
TCTAGGAGTCATGGGAAT
Found at i:54911292 original size:19 final size:20
Alignment explanation
Indices: 54911252--54911292 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
54911242 TAGTTATTTA
54911252 TTATTTTGAATATTTATTAT
1 TTATTTTGAATATTTATTAT
* *
54911272 TTATTTTTAA-ATTTCTTAT
1 TTATTTTGAATATTTATTAT
54911291 TT
1 TT
54911293 TCTTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTTTGAATATTTATTAT
Found at i:54913461 original size:52 final size:53
Alignment explanation
Indices: 54913404--54913518 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 53
54913394 GGGAAATTTC
* *
54913404 TCACTTAGCACCA-TGCCATGGACTTATTTCACTTAAATGCCGTAGTCTTTTT
1 TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTCTTATT
* *
54913456 TCACTTAGCA-CATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTCTTATT
*
54913508 TCCCTTAGCAC
1 TCACTTAGCAC
54913519 AATGTCATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
51 2 0.04
52 54 0.96
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (53 bp):
TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTCTTATT
Found at i:54913486 original size:28 final size:27
Alignment explanation
Indices: 54913404--54913519 Score: 118
Period size: 24 Copynumber: 4.4 Consensus size: 27
54913394 GGGAAATTTC
54913404 TCACTTAGCACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
* * * *
54913432 TCACTTA--A-ATGCCGTAGTCTTTTT
1 TCACTTAGCACATGCCATGGACTTATT
54913456 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
54913484 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
54913508 TCCCTTAGCACA
1 TCACTTAGCACA
54913520 ATGTCATATC
Statistics
Matches: 71, Mismatches: 10, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
24 40 0.56
25 1 0.01
26 2 0.03
27 2 0.03
28 26 0.37
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:54919271 original size:36 final size:37
Alignment explanation
Indices: 54919203--54919288 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 37
54919193 GTTCTGGCTC
*
54919203 ATCTTCTTTTCTTTCTTCAATCTCTTTCTCTTTTTCA
1 ATCTTCTTTTCTTTCATCAATCTCTTTCTCTTTTTCA
* * * *
54919240 ATCTTCTTTTC-TTGATCAATTTCTTTTTCTTTTTCG
1 ATCTTCTTTTCTTTCATCAATCTCTTTCTCTTTTTCA
54919276 AT-TTCTTTT-TTTC
1 ATCTTCTTTTCTTTC
54919289 TTTTTCTCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 9 0.21
36 22 0.52
37 11 0.26
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.65
Consensus pattern (37 bp):
ATCTTCTTTTCTTTCATCAATCTCTTTCTCTTTTTCA
Found at i:54919285 original size:18 final size:18
Alignment explanation
Indices: 54919209--54919285 Score: 84
Period size: 18 Copynumber: 4.2 Consensus size: 18
54919199 GCTCATCTTC
*
54919209 TTTTCTTTCTTCAATCTCT
1 TTTTCTTT-TTCAATTTCT
*
54919228 TTCTCTTTTTCAATCTTC-
1 TTTTCTTTTTCAAT-TTCT
**
54919246 TTTTCTTGATCAATTTCT
1 TTTTCTTTTTCAATTTCT
*
54919264 TTTTCTTTTTCGATTTCT
1 TTTTCTTTTTCAATTTCT
54919282 TTTT
1 TTTT
54919286 TTCTTTTTCT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
17 3 0.06
18 36 0.75
19 9 0.19
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTCTTTTTCAATTTCT
Found at i:54919301 original size:20 final size:21
Alignment explanation
Indices: 54919263--54919312 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
54919253 GATCAATTTC
*
54919263 TTTTTCTTTTTCGATTTCT-T
1 TTTTTCTTTTTCCATTTCTCT
54919283 TTTTTCTTTTTCTCA-TTCTCT
1 TTTTTCTTTTTC-CATTTCTCT
*
54919304 TTTTGCTTT
1 TTTTTCTTT
54919313 CTTTCACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTTCTTTTTCCATTTCTCT
Found at i:54919350 original size:21 final size:20
Alignment explanation
Indices: 54919278--54919350 Score: 55
Period size: 21 Copynumber: 3.8 Consensus size: 20
54919268 CTTTTTCGAT
54919278 TTCTTTTTTTCTTT-TTCTCA
1 TTCTTTTTTTCTTTCTT-TCA
*
54919298 TTCTCTTTTTGCTTTCTTTCA
1 TTCT-TTTTTTCTTTCTTTCA
** * *
54919319 CACTCTTTTTCTTTC-AT--
1 TTCTTTTTTTCTTTCTTTCA
54919336 TTCTTTTTTTCTTTC
1 TTCTTTTTTTCTTTC
54919351 AAATTTTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
17 12 0.29
19 1 0.02
20 13 0.31
21 14 0.33
22 2 0.05
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.70
Consensus pattern (20 bp):
TTCTTTTTTTCTTTCTTTCA
Found at i:54920485 original size:12 final size:11
Alignment explanation
Indices: 54920464--54920495 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
54920454 TTTCTTTTCA
54920464 CAAATTTTTTT
1 CAAATTTTTTT
54920475 CAAATTTTTTT
1 CAAATTTTTTT
*
54920486 CGAATTTTTT
1 CAAATTTTTT
54920496 GCTAAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.62
Consensus pattern (11 bp):
CAAATTTTTTT
Found at i:54926468 original size:55 final size:54
Alignment explanation
Indices: 54926342--54926539 Score: 247
Period size: 54 Copynumber: 3.7 Consensus size: 54
54926332 TTTGGTAAAA
* *
54926342 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
* * * *
54926396 CAAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATGAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG
* * * *
54926451 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
* **
54926504 CAAGGATACCACGTAAGACCATGTTAAGACATGGCA
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCA
54926540 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.26
54 41 0.34
55 41 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
Found at i:54953477 original size:14 final size:15
Alignment explanation
Indices: 54953458--54953491 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
54953448 AAATCTAATT
54953458 TTTTTATAAT-TTTA
1 TTTTTATAATATTTA
54953472 TTTTTATAATATTTA
1 TTTTTATAATATTTA
54953487 TTTTT
1 TTTTT
54953492 TATTCTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTATAATATTTA
Found at i:54953493 original size:16 final size:15
Alignment explanation
Indices: 54953457--54953494 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
54953447 AAAATCTAAT
54953457 TTTTTTATAATTTTA
1 TTTTTTATAATTTTA
54953472 -TTTTTATAATATTTA
1 TTTTTTATAAT-TTTA
54953487 TTTTTTAT
1 TTTTTTAT
54953495 TCTTCATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 4 0.19
16 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATAATTTTA
Found at i:54958262 original size:18 final size:18
Alignment explanation
Indices: 54958241--54958286 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
54958231 AGGTGCAGAT
54958241 GAGGAAGAAGATACGATC
1 GAGGAAGAAGATACGATC
* *
54958259 GAGGAAAAAGATGCGATC
1 GAGGAAGAAGATACGATC
* *
54958277 AATGAAGAAG
1 GAGGAAGAAG
54958287 GGTGGCTGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.33, T:0.11
Consensus pattern (18 bp):
GAGGAAGAAGATACGATC
Found at i:54961043 original size:16 final size:16
Alignment explanation
Indices: 54961022--54961052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54961012 GATATTTGAA
54961022 TATATTATATTAATAT
1 TATATTATATTAATAT
*
54961038 TATATTATGTTAATA
1 TATATTATATTAATA
54961053 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:54961149 original size:12 final size:12
Alignment explanation
Indices: 54961132--54961162 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
54961122 GAAGCAGGGG
54961132 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
54961144 AGAAAAAGGGAA
1 AGAAAAAGAGAA
54961156 AGAAAAA
1 AGAAAAA
54961163 TAAAAGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:54984881 original size:17 final size:18
Alignment explanation
Indices: 54984848--54984882 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
54984838 AGGTGCAGAT
54984848 GAGGAAGAAGATACGATC
1 GAGGAAGAAGATACGATC
*
54984866 GAGGAA-AAGATGCGATC
1 GAGGAAGAAGATACGATC
54984883 AATGAGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.11, G:0.34, T:0.11
Consensus pattern (18 bp):
GAGGAAGAAGATACGATC
Found at i:54987640 original size:16 final size:16
Alignment explanation
Indices: 54987619--54987649 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54987609 GATATTTGAA
54987619 TATATTATATTAATAT
1 TATATTATATTAATAT
*
54987635 TATATTATGTTAATA
1 TATATTATATTAATA
54987650 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:54987746 original size:12 final size:12
Alignment explanation
Indices: 54987729--54987759 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
54987719 GAAGCAGGGG
54987729 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
54987741 AGAAAAAGGGAA
1 AGAAAAAGAGAA
54987753 AGAAAAA
1 AGAAAAA
54987760 TAAAAGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:54995033 original size:16 final size:17
Alignment explanation
Indices: 54995002--54995047 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
54994992 CCTGCCTGAG
*
54995002 AAAATGTTGCGTTGTGT-
1 AAAATGTT-TGTTGTGTA
54995019 AAAATGTTTGTTGTGTA
1 AAAATGTTTGTTGTGTA
54995036 AAAATGTTTGTT
1 AAAATGTTTGTT
54995048 AGCCATCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (17 bp):
AAAATGTTTGTTGTGTA
Found at i:55002229 original size:73 final size:73
Alignment explanation
Indices: 55002110--55002261 Score: 295
Period size: 73 Copynumber: 2.1 Consensus size: 73
55002100 TTTTAGGGCA
*
55002110 TTGAGTAAGATTAAATTTGTCTCCTTTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
1 TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
55002175 CAAGCCTT
66 CAAGCCTT
55002183 TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
1 TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
55002248 CAAGCCTT
66 CAAGCCTT
55002256 TTGAGT
1 TTGAGT
55002262 GTTTTATTCA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (73 bp):
TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
CAAGCCTT
Found at i:55003383 original size:24 final size:24
Alignment explanation
Indices: 55003356--55003453 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
55003346 AAGGCTGTCA
55003356 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
55003380 GGAGAGGATTTAGAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
55003404 GGAGAGGATTTAAGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
55003428 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
55003453 G
1 G
55003454 AGCAGGAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 62 0.95
25 3 0.05
ACGTcount: A:0.38, C:0.05, G:0.37, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:55004301 original size:16 final size:18
Alignment explanation
Indices: 55004272--55004311 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
55004262 AGTTCGTTTC
55004272 GGTAGTAGATTAA-TGT-
1 GGTAGTAGATTAATTGTA
55004288 GGTAGTA-ATATAATTGTA
1 GGTAGTAGAT-TAATTGTA
55004306 GGTAGT
1 GGTAGT
55004312 TCATGTGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.10
16 10 0.48
17 3 0.14
18 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (18 bp):
GGTAGTAGATTAATTGTA
Found at i:55005085 original size:33 final size:34
Alignment explanation
Indices: 55005008--55005088 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
55004998 TATGGGTCGT
*
55005008 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
55005042 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
55005075 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
55005089 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:55005093 original size:32 final size:31
Alignment explanation
Indices: 55005008--55005100 Score: 78
Period size: 32 Copynumber: 2.8 Consensus size: 31
55004998 TATGGGTCGT
*
55005008 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
55005042 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
*
55005075 ACTGTTATCTGAATGGGCTTAGGCCC
1 ACTGTTATCTGAATGGGCTAAGGCCC
55005101 GATGGGCTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
32 25 0.54
33 10 0.22
34 9 0.20
35 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:55007888 original size:40 final size:40
Alignment explanation
Indices: 55007834--55008417 Score: 1001
Period size: 40 Copynumber: 14.6 Consensus size: 40
55007824 CATTTGAATG
55007834 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55007874 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55007914 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55007954 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55007994 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55008034 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55008074 ATA-CCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55008113 ATATCCGGGCTAAGACCCGAAGGCATTTGTACGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55008153 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55008193 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
55008233 ATATCCGGGATAAGACCCGAAGGCATTTGTACGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
55008273 ATATCCGGGCTAAGACCAGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55008313 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
55008353 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55008393 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
55008418 ATTGAGCTTG
Statistics
Matches: 514, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
39 40 0.08
40 473 0.92
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:55015293 original size:24 final size:24
Alignment explanation
Indices: 55015266--55015363 Score: 160
Period size: 24 Copynumber: 4.0 Consensus size: 24
55015256 AAGGCTATCA
55015266 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
55015290 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
55015314 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
55015338 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
55015363 G
1 G
55015364 AGCAGGAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 66 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:55017057 original size:33 final size:34
Alignment explanation
Indices: 55016980--55017060 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
55016970 TATGGGCCGT
*
55016980 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
55017014 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
55017047 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
55017061 GGGGTTGGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:55017136 original size:34 final size:34
Alignment explanation
Indices: 55017093--55017160 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
55017083 AGCTGACTTG
55017093 GGCTTTGAATGGGTTTTCCTTACACACTGAGTTT
1 GGCTTTGAATGGGTTTTCCTTACACACTGAGTTT
55017127 GGCTTTGAATGGGTTTTCCTTACACACTGAGTTT
1 GGCTTTGAATGGGTTTTCCTTACACACTGAGTTT
55017161 CCAAACTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (34 bp):
GGCTTTGAATGGGTTTTCCTTACACACTGAGTTT
Found at i:55027152 original size:43 final size:43
Alignment explanation
Indices: 55027093--55027242 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
55027083 CAATGCCGAC
* * * *
55027093 GTCCTAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAATTCAATATCGATGCCTAT
* * *
55027136 GTCCCAGACAGGGTCTTACACG-AAATCAGATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAATTCA-ATATCGATGCCTAT
* * *
55027178 GTCCCAGACATGGTCTTAGACGTAAATCTC-A-ATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGATGCCTAT
*
55027221 GTCCCAGACATGGTCTCACACG
1 GTCCCAGACATGGTCTTACACG
55027243 ATGTCTCAGA
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 34 0.39
43 49 0.56
44 2 0.02
45 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATTCAATATCGATGCCTAT
Found at i:55027228 original size:85 final size:85
Alignment explanation
Indices: 55027085--55027243 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
55027075 AACAAGTACA
* * * *
55027085 ATGCCGACGTCCTAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACAGGGT
*
55027150 CTTACACGAAATCAGATACG
66 CTCACACGAAATCAGATACG
* * * *
55027170 ATGCCGATGTCCCAGACATGGTCTTAGACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACATG
1 ATGCCGACGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTCTGTCCCAGACAGG
55027233 GTCTCACACGA
64 GTCTCACACGA
55027244 TGTCTCAGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 57 0.90
86 4 0.06
87 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACAGGGT
CTCACACGAAATCAGATACG
Found at i:55029348 original size:21 final size:21
Alignment explanation
Indices: 55029301--55029349 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
55029291 AGAGGGGAGT
* * *
55029301 CCACAACGAGGTTGTTCACAT
1 CCACAACGAGCTCGTTCACAA
* *
55029322 CTACAACGAGCTCGTTTACAA
1 CCACAACGAGCTCGTTCACAA
55029343 CCACAAC
1 CCACAAC
55029350 AAGGATGTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (21 bp):
CCACAACGAGCTCGTTCACAA
Found at i:55030486 original size:34 final size:34
Alignment explanation
Indices: 55030440--55030513 Score: 130
Period size: 34 Copynumber: 2.1 Consensus size: 34
55030430 CTTCTTGTGG
*
55030440 TAACAAGGAGTTTGAAAATTCATGTCTCGGAAGA
1 TAACAAGAAGTTTGAAAATTCATGTCTCGGAAGA
55030474 TAACAAGAAGTTTGAAAATTCATGTCTCGGAAGA
1 TAACAAGAAGTTTGAAAATTCATGTCTCGGAAGA
55030508 TGAACA
1 T-AACA
55030514 GCAACGGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.26
Consensus pattern (34 bp):
TAACAAGAAGTTTGAAAATTCATGTCTCGGAAGA
Found at i:55041776 original size:40 final size:40
Alignment explanation
Indices: 55041719--55041896 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
55041709 CGGATGATAA
* *
55041719 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
55041759 CTGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
55041799 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
55041839 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
55041879 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
55041897 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.13
40 106 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55043931 original size:43 final size:43
Alignment explanation
Indices: 55043868--55044164 Score: 486
Period size: 43 Copynumber: 6.9 Consensus size: 43
55043858 ACATATCATT
* *
55043868 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
55043911 TTACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
55043954 TCACCGGCATGAAGCCTGCTAAGCACGAAGGCCCAAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
55043997 TCACTGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
55044040 TCACCGGTACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* ** *
55044083 TCATCGGCACAAAGCCTGCTAGGCATGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
55044126 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATA
55044165 TAATACCAGC
Statistics
Matches: 234, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 234 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:55044205 original size:38 final size:38
Alignment explanation
Indices: 55044157--55044280 Score: 122
Period size: 38 Copynumber: 3.2 Consensus size: 38
55044147 GGCACGAAGG
* * * *
55044157 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
* *
55044195 CCCGGATATAATTCCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
** * * * *
55044233 CCCGGATATTTTGCCAGCACGAAGCTTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAG-ATTTAA
55044272 GCCCGGATA
1 -CCCGGATA
55044281 CACATCAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 60 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:55046264 original size:42 final size:41
Alignment explanation
Indices: 55046177--55046325 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 41
55046167 AGCTTGGTCT
* *
55046177 CGAAGGGCTTTTGAGCCAGTGCTAATAATCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTC
* * *
55046218 CGAAGGGCTTTTTAGAGCTAGTG-TCATAACCGGACTTAGTTC
1 CGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTTC
* * * *
55046260 CGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTT-GGTC
1 CGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTTC
**
55046300 TCGAAGGGCTTTTGAGCTGGTGCTAA
1 -CGAAGGGCTTTTGAGCCAGTGCTAA
55046326 GAGTCGGACT
Statistics
Matches: 86, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
39 4 0.05
40 11 0.13
41 33 0.38
42 27 0.31
43 11 0.13
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTC
Found at i:55046308 original size:41 final size:40
Alignment explanation
Indices: 55046156--55046316 Score: 123
Period size: 41 Copynumber: 3.9 Consensus size: 40
55046146 GCTAATCGGG
* *
55046156 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTAGAGCCAGT
* * * *
55046197 G-CTAATAATCGAACTTAGTTTCGAAGGGCTTTTTAGAGCTAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC--TTTAGAGCCAGT
* *
55046240 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTAGAGCCAGT
* *
55046280 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGC
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTAGAGC
55046317 TGGTGCTAAG
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
39 3 0.03
40 14 0.15
41 44 0.47
42 18 0.19
43 11 0.12
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTAGAGCCAGT
Found at i:55053203 original size:43 final size:43
Alignment explanation
Indices: 55053156--55053266 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 43
55053146 TCCCTGACGT
55053156 GGTCTTACATGTAATCACATATCGATGCC-ACTATCCCAAACAA
1 GGTCTTACATGTAATCACATATCGATGCCGA-TATCCCAAACAA
* * * * * *
55053199 GGTCTTACGTG-AATCAAATA-CGATGCCGATGTTCCAGACAT
1 GGTCTTACATGTAATCACATATCGATGCCGATATCCCAAACAA
* *
55053240 GGTCTTACACGTAAATCACAAATCGAT
1 GGTCTTACATGT-AATCACATATCGAT
55053267 ACCAACGTCG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
41 24 0.44
42 9 0.17
43 17 0.31
44 4 0.07
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCGATATCCCAAACAA
Found at i:55057086 original size:93 final size:93
Alignment explanation
Indices: 55056973--55057143 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
55056963 GCCCATAAGT
***
55056973 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55057038 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55057066 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55057131 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55057144 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55057140 original size:46 final size:46
Alignment explanation
Indices: 55056965--55057140 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55056955 TGTAACCCGC
* ***
55056965 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55057011 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
55057061 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55057104 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55057141 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55064659 original size:93 final size:93
Alignment explanation
Indices: 55064546--55064717 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55064536 CGCCCATAAG
* *
55064546 CGAACTCGGACTCAACTCAACCAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55064611 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
55064639 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55064704 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55064718 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55064714 original size:46 final size:46
Alignment explanation
Indices: 55064539--55064714 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55064529 TGTAACCCGC
* * * *
55064539 CCATAAGCGAACTCGGACTCAACTCAACCAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55064585 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55064635 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55064678 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55064715 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55064733 original size:46 final size:46
Alignment explanation
Indices: 55064588--55064726 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
55064578 TTCGCATCCA
55064588 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
55064636 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
55064681 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
55064727 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:55066460 original size:27 final size:27
Alignment explanation
Indices: 55066430--55066493 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
55066420 ATGTTTTATT
*
55066430 TTAATGCAT-GCATTTAATATGTCTTAG
1 TTAATACATAGCA-TTAATATGTCTTAG
* *
55066457 TTAATACATATCATTAATTTGTCTTAG
1 TTAATACATAGCATTAATATGTCTTAG
*
55066484 CTTATTACAT
1 -TTAATACAT
55066494 GATTTTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (27 bp):
TTAATACATAGCATTAATATGTCTTAG
Found at i:55066501 original size:28 final size:27
Alignment explanation
Indices: 55066442--55066501 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
55066432 AATGCATGCA
55066442 TTTAATATGTCTTAGTTAATACATATC
1 TTTAATATGTCTTAGTTAATACATATC
* * *
55066469 ATTAATTTGTCTTAGCTTATTACATGAT-
1 TTTAATATGTCTTAG-TTAATACAT-ATC
55066497 TTTAA
1 TTTAA
55066502 CGTGTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 13 0.48
28 12 0.44
29 2 0.07
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (27 bp):
TTTAATATGTCTTAGTTAATACATATC
Found at i:55069779 original size:25 final size:24
Alignment explanation
Indices: 55069751--55069810 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
55069741 TCTGTGGAAC
55069751 AAATGAGAGAAAAAGAAAAGA-GTAA
1 AAATGAGAGAAAAAG-AAAGATG-AA
* *
55069776 AAATGTGAAGGAAAAGAAAGATGAA
1 AAATGAG-AGAAAAAGAAAGATGAA
55069801 AAATCGAGAG
1 AAAT-GAGAG
55069811 GGAAGATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.62, C:0.02, G:0.27, T:0.10
Consensus pattern (24 bp):
AAATGAGAGAAAAAGAAAGATGAA
Found at i:55071481 original size:28 final size:28
Alignment explanation
Indices: 55071421--55071493 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
55071411 TAATGCATGC
55071421 ATTTAATATGTCTTAG-TTAATACATAT
1 ATTTAATATGTCTTAGCTTAATACATAT
* * *
55071448 AATTAATTTGTCTTAGCTTATTACATA-
1 ATTTAATATGTCTTAGCTTAATACATAT
* *
55071475 ATTTTAATGTGTTTTAGCT
1 A-TTTAATATGTCTTAGCT
55071494 CCAACCGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (28 bp):
ATTTAATATGTCTTAGCTTAATACATAT
Found at i:55074112 original size:80 final size:79
Alignment explanation
Indices: 55074028--55074196 Score: 187
Period size: 79 Copynumber: 2.1 Consensus size: 79
55074018 CTAAGATCCG
* *
55074028 AAGGCTTTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 AAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* *
55074092 TCCGGGTTAAGTCCCA
64 ACCGGGCTAAGTCCCA
* * ** * * * *
55074108 AAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAAC
1 AAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
* *
55074173 CGGGCTATGTCCCG
66 CGGGCTAAGTCCCA
55074187 AAGGCATTTG
1 AAGGCATTTG
55074197 AACGAGGAGC
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
79 37 0.51
80 33 0.45
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
CGGGCTAAGTCCCA
Found at i:55074176 original size:39 final size:39
Alignment explanation
Indices: 55073972--55074194 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
55073962 TTGAATGCTG
* * * * * *
55073972 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
55074012 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
55074051 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
55074092 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
55074132 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
55074171 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
55074195 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 39 0.25
40 103 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:55074214 original size:79 final size:80
Alignment explanation
Indices: 55074052--55074229 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 80
55074042 AGATACAAAT
* * * *
55074052 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
** ** *
55074117 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * * *
55074132 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
*
55074196 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
55074211 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55074230 TACGTGATTT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 48 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
GAACGAGGAGCTAAA
Found at i:55076373 original size:20 final size:21
Alignment explanation
Indices: 55076335--55076373 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
55076325 TTTAAAGCAC
55076335 ATTTATTCATAAAAATTCAAA
1 ATTTATTCATAAAAATTCAAA
* *
55076356 ATTT-TTCATCAAATTTCA
1 ATTTATTCATAAAAATTCA
55076374 CAACTTTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATTCATAAAAATTCAAA
Found at i:55084259 original size:27 final size:26
Alignment explanation
Indices: 55084203--55084259 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
55084193 CAACCTTAAC
* *
55084203 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTGCA
* *
55084229 CCTAGGGGTAAATCTGTAAATTTTTCA
1 CCTAGGGGTAAATCAGT-AATTTTGCA
55084256 CCTA
1 CCTA
55084260 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTGCA
Found at i:55085517 original size:15 final size:16
Alignment explanation
Indices: 55085476--55085524 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
55085466 GGCTATGGGG
55085476 GAAAAGAAGAAGAGAAA
1 GAAAAGAAGAAGA-AAA
* *
55085493 GTAGATGAAG-AGAAAA
1 G-AAAAGAAGAAGAAAA
55085509 GAAAAGAAGAAGAAAA
1 GAAAAGAAGAAGAAAA
55085525 AACTAAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 4 0.15
18 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (16 bp):
GAAAAGAAGAAGAAAA
Found at i:55086484 original size:27 final size:25
Alignment explanation
Indices: 55086454--55086519 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
55086444 ATTATTTTCC
*
55086454 TATCTAATAATAATAATTTTATAAATA
1 TATCTAATAATAA-AAATTTA-AAATA
*
55086481 TATCTAATCATAAAAATTTAAAATA
1 TATCTAATAATAAAAATTTAAAATA
*
55086506 T-CCGTAATAATAAA
1 TATC-TAATAATAAA
55086520 TACAGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.44
26 6 0.18
27 12 0.35
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (25 bp):
TATCTAATAATAAAAATTTAAAATA
Found at i:55102099 original size:15 final size:16
Alignment explanation
Indices: 55102081--55102112 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55102071 AGATGAAGAG
55102081 AAAAGAA-AAGAAAAA
1 AAAAGAAGAAGAAAAA
55102096 AAAAGAAGAAGAAAAA
1 AAAAGAAGAAGAAAAA
55102112 A
1 A
55102113 CTGAATCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAGAAAAA
Found at i:55102104 original size:13 final size:14
Alignment explanation
Indices: 55102053--55102112 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
55102043 GCTATGGGGG
55102053 AAAAGAAGAAGAGAA
1 AAAAGAAGAAGA-AA
** *
55102068 AGTAGATGAAGAGAA
1 AAAAGAAGAAGA-AA
55102083 AAGAA-AAGAA-AAA
1 AA-AAGAAGAAGAAA
55102096 AAAAGAAGAAGAAA
1 AAAAGAAGAAGAAA
55102110 AAA
1 AAA
55102113 CTGAATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
12 2 0.06
13 9 0.25
14 7 0.19
15 17 0.47
16 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (14 bp):
AAAAGAAGAAGAAA
Found at i:55106811 original size:40 final size:40
Alignment explanation
Indices: 55106765--55106931 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
55106755 CCCGGATGTC
*
55106765 ATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
*
55106805 ATTCCAGTACGAAGCCTGCGGGTCTTTAAGCCCA-GATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAG-CCAGGATACA
* * * *
55106845 ATTTCCAGCATGAAGCCTGTGGGTCTTTAAGCCCGGATACG
1 A-TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
*
55106886 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
55106926 ATTCCA
1 ATTCCA
55106932 CATCAAATAA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
40 79 0.69
41 35 0.31
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
Found at i:55106901 original size:81 final size:81
Alignment explanation
Indices: 55106766--55106928 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 81
55106756 CCGGATGTCA
*
55106766 TTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACAATTCCAGTACGAAGCCTGCGGGTCTT
1 TTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
55106831 TAAGCCCAGATACAAT
66 TAAGCCCAGATACAAT
** * * *
55106847 TTCCAGCATGAAGCCTGTGGGTCTTTAAGCCCGGATACGATTCCAGCACGAAGCCTGCGGGTCTT
1 TTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
*
55106912 TAAGCCCGGATACAAT
66 TAAGCCCAGATACAAT
55106928 T
1 T
55106929 CCACATCAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (81 bp):
TTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
TAAGCCCAGATACAAT
Found at i:55123038 original size:39 final size:40
Alignment explanation
Indices: 55122893--55123114 Score: 228
Period size: 39 Copynumber: 5.7 Consensus size: 40
55122883 TTGAATGCTG
*
55122893 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
55122932 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
55122973 TCCGGGTTAAG--CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
55123011 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
55123050 TCTGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
55123088 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
55123115 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 37 0.24
39 64 0.41
40 42 0.27
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:55123136 original size:78 final size:78
Alignment explanation
Indices: 55122977--55123147 Score: 188
Period size: 78 Copynumber: 2.2 Consensus size: 78
55122967 ACAAATTCCG
* **
55122977 GGTTAAG-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGA
1 GGTTAAGTCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGA
* * *
55123041 GTTATTAAATCTG
66 GTGACTAAATCTC
* *
55123054 GGTTAAGTCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAAC
1 GGTTAAGTCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAAC
*
55123118 GAG-GAGCTATATC-C
64 GAGTGA-CTAAATCTC
*
55123132 GGTTAAATTCCGAAGG
1 GGTT-AAGTCCGAAGG
55123148 TACGTGATTT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
77 9 0.11
78 37 0.47
79 33 0.42
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (78 bp):
GGTTAAGTCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGA
GTGACTAAATCTC
Found at i:55127071 original size:25 final size:25
Alignment explanation
Indices: 55127043--55127094 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
55127033 TTCAGAGTTG
*
55127043 ATTCAGATGATTTTAAATGAAACTC
1 ATTCAGATAATTTTAAATGAAACTC
* *
55127068 ATTCATATAATTTTCAATGAAACTC
1 ATTCAGATAATTTTAAATGAAACTC
55127093 AT
1 AT
55127095 AGCAGTCAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (25 bp):
ATTCAGATAATTTTAAATGAAACTC
Found at i:55129310 original size:40 final size:40
Alignment explanation
Indices: 55129245--55129339 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
55129235 GACTATGTTC
*
55129245 GGCACTAAGTGTGCGGTTTGAAATAGCTTTGGCTACA-AA
1 GGCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACATAA
* * *
55129284 TGGCACTAAGTGTGC-GTGTTGGAATAGCTTCGGCTATATGA
1 -GGCACTAAGTGTGCGGT-TTGAAATAGCTTCGGCTACATAA
55129325 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
55129340 ATACCAAGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.04
40 45 0.94
41 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACATAA
Found at i:55133578 original size:20 final size:20
Alignment explanation
Indices: 55133553--55133720 Score: 187
Period size: 20 Copynumber: 8.4 Consensus size: 20
55133543 TGATATTTAA
55133553 GGCTTTGTGCCGCTATCGAT
1 GGCTTTGTGCCGCTATCGAT
*
55133573 GGCTTTGTGCCACTATCGAT
1 GGCTTTGTGCCGCTATCGAT
* *
55133593 GGCTTTGTGCCCCTATTGAT
1 GGCTTTGTGCCGCTATCGAT
55133613 GGCTTTGTGCCGCTA-CTGAT
1 GGCTTTGTGCCGCTATC-GAT
*
55133633 GGCTTTGTGCCGCTATTGAT
1 GGCTTTGTGCCGCTATCGAT
* ** *
55133653 GGCTTTTTGCCATTATTGAT
1 GGCTTTGTGCCGCTATCGAT
* *
55133673 GGCTTTGTACCGCTATTGAT
1 GGCTTTGTGCCGCTATCGAT
* * *
55133693 GGCTTCGTGCTGCCACTC-AT
1 GGCTTTGTGCCGCTA-TCGAT
55133713 GGCTTTGT
1 GGCTTTGT
55133721 CCCATATACT
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
20 125 0.99
21 1 0.01
ACGTcount: A:0.11, C:0.23, G:0.27, T:0.39
Consensus pattern (20 bp):
GGCTTTGTGCCGCTATCGAT
Found at i:55133597 original size:40 final size:40
Alignment explanation
Indices: 55133553--55133702 Score: 212
Period size: 40 Copynumber: 3.8 Consensus size: 40
55133543 TGATATTTAA
*
55133553 GGCTTTGTGCCGCTATCGATGGCTTTGTGCCACTATCGAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATCGAT
* *
55133593 GGCTTTGTGCCCCTATTGATGGCTTTGTGCCGCTA-CTGAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATC-GAT
* * *
55133633 GGCTTTGTGCCGCTATTGATGGCTTTTTGCCATTATTGAT
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATCGAT
* *
55133673 GGCTTTGTACCGCTATTGATGGCTTCGTGC
1 GGCTTTGTGCCGCTATTGATGGCTTTGTGC
55133703 TGCCACTCAT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 96 0.99
ACGTcount: A:0.11, C:0.23, G:0.27, T:0.39
Consensus pattern (40 bp):
GGCTTTGTGCCGCTATTGATGGCTTTGTGCCACTATCGAT
Found at i:55133621 original size:60 final size:60
Alignment explanation
Indices: 55133553--55133702 Score: 212
Period size: 60 Copynumber: 2.5 Consensus size: 60
55133543 TGATATTTAA
*
55133553 GGCTTTGTGCCGCTATCGATGGCTTTGTGCCACTATCGATGGCTTTGTGCCCCTATTGAT
1 GGCTTTGTGCCGCTATCGATGGCTTTGTGCCACTATCGATGGCTTTGTGCCACTATTGAT
* * * *
55133613 GGCTTTGTGCCGCTA-CTGATGGCTTTGTGCCGCTATTGATGGCTTTTTGCCATTATTGAT
1 GGCTTTGTGCCGCTATC-GATGGCTTTGTGCCACTATCGATGGCTTTGTGCCACTATTGAT
* * *
55133673 GGCTTTGTACCGCTATTGATGGCTTCGTGC
1 GGCTTTGTGCCGCTATCGATGGCTTTGTGC
55133703 TGCCACTCAT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.01
60 79 0.99
ACGTcount: A:0.11, C:0.23, G:0.27, T:0.39
Consensus pattern (60 bp):
GGCTTTGTGCCGCTATCGATGGCTTTGTGCCACTATCGATGGCTTTGTGCCACTATTGAT
Found at i:55137211 original size:19 final size:19
Alignment explanation
Indices: 55137167--55137211 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
55137157 TAAATTAAAG
*
55137167 AAGATGACTCTCTTTTCTA
1 AAGATGGCTCTCTTTTCTA
55137186 AAGATGGCTCTCTTTTCTA
1 AAGATGGCTCTCTTTTCTA
55137205 AAGATGG
1 AAGATGG
55137212 AATGTTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (19 bp):
AAGATGGCTCTCTTTTCTA
Found at i:55138734 original size:12 final size:12
Alignment explanation
Indices: 55138717--55138741 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55138707 GAGAGAGAAT
55138717 AATGAATGAGAG
1 AATGAATGAGAG
55138729 AATGAATGAGAG
1 AATGAATGAGAG
55138741 A
1 A
55138742 TAAGTGTTGA
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:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (12 bp):
AATGAATGAGAG
Found at i:55140536 original size:20 final size:20
Alignment explanation
Indices: 55140486--55140528 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
55140476 ATCCATTTGC
**
55140486 AAACAATAGCTCATCCATAT
1 AAACAATATTTCATCCATAT
*
55140506 AAACAATATTTCATCTATAT
1 AAACAATATTTCATCCATAT
55140526 AAA
1 AAA
55140529 TAGTATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (20 bp):
AAACAATATTTCATCCATAT
Found at i:55143118 original size:30 final size:30
Alignment explanation
Indices: 55143077--55143133 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
55143067 GAGTGTTTCT
* *
55143077 TGGCTGTGTGAGTCACATAGCCTAGCCACA
1 TGGCCGTGTGAGTCACACAGCCTAGCCACA
*
55143107 TGGCCGTGTGAGTCACACAGCTTAGCC
1 TGGCCGTGTGAGTCACACAGCCTAGCC
55143134 CCACAGCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (30 bp):
TGGCCGTGTGAGTCACACAGCCTAGCCACA
Found at i:55143198 original size:21 final size:21
Alignment explanation
Indices: 55143161--55143200 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
55143151 CTACAATGTT
*
55143161 AAAAATTTTCAATGTTTTTCA
1 AAAAATTCTCAATGTTTTTCA
55143182 AAAAATTCTCTAA-GTTTTT
1 AAAAATTCTC-AATGTTTTT
55143201 GATTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (21 bp):
AAAAATTCTCAATGTTTTTCA
Found at i:55145711 original size:27 final size:26
Alignment explanation
Indices: 55145663--55145745 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 26
55145653 GTGAAGCTGC
*
55145663 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
*
55145690 CAGATATTGTGGC-AAGGCCACCAGAA
1 CAGATATTGTGACGAA-GCCACCAGAA
*
55145716 CAGGTATATATATGTGGCGAAGCCACCAGA
1 CA-G---ATAT-TGTGACGAAGCCACCAGA
55145746 TTACAGCGAG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
26 5 0.11
27 21 0.45
30 4 0.09
31 15 0.32
32 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55153157 original size:27 final size:28
Alignment explanation
Indices: 55153127--55153188 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
55153117 GTGACGAAGT
*
55153127 CACCAGATATAGATAT-TCTGGCTAGGC
1 CACCAGATATAGATATATCTGGCGAGGC
*
55153154 CACCAGA-ATAGATATATGTGGCGAGGC
1 CACCAGATATAGATATATCTGGCGAGGC
55153181 CACCAGAT
1 CACCAGAT
55153189 TGCAGCGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGATATAGATATATCTGGCGAGGC
Found at i:55158836 original size:22 final size:21
Alignment explanation
Indices: 55158786--55158839 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
55158776 CGACCTATAG
*
55158786 CACGGGCGTGTACCTGGGTCA
1 CACGGGCGTGTACCTGGATCA
* *
55158807 CACAGGCGTGTCCCTTGGATCA
1 CACGGGCGTGTACC-TGGATCA
55158829 CACGGGCGTGT
1 CACGGGCGTGT
55158840 GAGCCCTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (21 bp):
CACGGGCGTGTACCTGGATCA
Found at i:55161265 original size:42 final size:43
Alignment explanation
Indices: 55161164--55161276 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
55161154 AGCTCGTACA
* * * *
55161164 ATGCCAACGTCCCCGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACATCCCAGACAGGGTCTTACATGAAATCAAATATCG
* *
55161207 ATGCC-ACTATCCCAGACAGGGTCTTACATGAAATCAAGT-TTG
1 ATGCCAAC-ATCCCAGACAGGGTCTTACATGAAATCAAATATCG
55161249 ATGCCAACATCCCAGAC-GTGGTCTTACA
1 ATGCCAACATCCCAGACAG-GGTCTTACA
55161277 CGATAACACA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 33 0.54
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACATCCCAGACAGGGTCTTACATGAAATCAAATATCG
Found at i:55162756 original size:42 final size:43
Alignment explanation
Indices: 55162658--55162770 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
55162648 AGCTCGTACA
* * * * *
55162658 ATGCCAACGTCCCCGACATGGTTTTACATGTAATCAAATATCG
1 ATGCCAACATCCCAGACAGGGTCTTACATGAAATCAAATATCG
* *
55162701 ATGCC-ACTATCCCAGACAGGGTCTTACATGAAATCAAGT-TTG
1 ATGCCAAC-ATCCCAGACAGGGTCTTACATGAAATCAAATATCG
55162743 ATGCCAACATCCCAGAC-GTGGTCTTACA
1 ATGCCAACATCCCAGACAG-GGTCTTACA
55162771 CAATAACACA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 27 0.45
43 32 0.53
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACATCCCAGACAGGGTCTTACATGAAATCAAATATCG
Found at i:55170310 original size:43 final size:43
Alignment explanation
Indices: 55170243--55170403 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 43
55170233 GAAAGCTCTA
* *
55170243 CAATGCCAATGTCCCCGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAT
* * *
55170286 CAATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAGTA-
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAT
* ** *
55170328 CGATGCCAATGTCCCAGACGCGGTCTTACATGTAAATCATAA-GT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGT-AATCA-AATAT
* *
55170372 CGATCCCAATGTCCCAGACATGGTCTTACATG
1 CAATGCCAATGTCCCAGACATGGTCTTACATG
55170404 ATAACACATG
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
42 28 0.28
43 42 0.42
44 30 0.30
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAT
Found at i:55170402 original size:86 final size:85
Alignment explanation
Indices: 55170245--55170404 Score: 241
Period size: 86 Copynumber: 1.9 Consensus size: 85
55170235 AAGCTCTACA
* * * *
55170245 ATGCCAATGTCCCCGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACATGGT
1 ATGCCAATGTCCCAGACGCGGTCTTACATGTAATCAAATATCAATCCCAATGTCCCAGACATGGT
55170310 CTTACATGAAATCAAGTACG
66 CTTACATGAAATCAAGTACG
* *
55170330 ATGCCAATGTCCCAGACGCGGTCTTACATGTAAATCATAA-GTCGATCCCAATGTCCCAGACATG
1 ATGCCAATGTCCCAGACGCGGTCTTACATGT-AATCA-AATATCAATCCCAATGTCCCAGACATG
55170394 GTCTTACATGA
64 GTCTTACATGA
55170405 TAACACATGT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 29 0.43
86 36 0.54
87 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACGCGGTCTTACATGTAATCAAATATCAATCCCAATGTCCCAGACATGGT
CTTACATGAAATCAAGTACG
Found at i:55170421 original size:44 final size:43
Alignment explanation
Indices: 55170248--55170421 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
55170238 CTCTACAATG
* * * * * *
55170248 CCAATGTCCCCGACGTGGTCTTACATGTAATCAAATATCAATG
1 CCAATGTCCCAGACATGGTCTTACATGTAATCACATGTCGATC
* * *
55170291 CCACTGTCCCAGACATGGTCTTACATGAAATCA-A-GTACGATG
1 CCAATGTCCCAGACATGGTCTTACATGTAATCACATGT-CGATC
** * *
55170333 CCAATGTCCCAGACGCGGTCTTACATGTAAATCATAAGTCGATC
1 CCAATGTCCCAGACATGGTCTTACATGT-AATCACATGTCGATC
55170377 CCAATGTCCCAGACATGGTCTTACATGATAA-CACATGTCGGATC
1 CCAATGTCCCAGACATGGTCTTACATG-TAATCACATGTC-GATC
55170421 C
1 C
55170422 TATGTCATGA
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.26
43 40 0.36
44 37 0.34
45 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACATGTAATCACATGTCGATC
Found at i:55171453 original size:20 final size:20
Alignment explanation
Indices: 55171428--55171467 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
55171418 AGACATAACA
55171428 AAAAGGCCACTTTAACAATT
1 AAAAGGCCACTTTAACAATT
* *
55171448 AAAAGGTCACTTTTACAATT
1 AAAAGGCCACTTTAACAATT
55171468 TATGCGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (20 bp):
AAAAGGCCACTTTAACAATT
Found at i:55175541 original size:38 final size:38
Alignment explanation
Indices: 55175487--55175564 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
55175477 GAACAATAAT
*
55175487 TTATTTAAGCATACTTAAGTAAAAATATTGAAACATAC
1 TTATTTAAGCACACTTAAGTAAAAATATTGAAACATAC
55175525 TTATTTAAGCACACTTAAGTAAAAATATTGAAACATAC
1 TTATTTAAGCACACTTAAGTAAAAATATTGAAACATAC
55175563 TT
1 TT
55175565 TAAAATTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (38 bp):
TTATTTAAGCACACTTAAGTAAAAATATTGAAACATAC
Found at i:55178225 original size:39 final size:39
Alignment explanation
Indices: 55178050--55178232 Score: 143
Period size: 40 Copynumber: 4.6 Consensus size: 39
55178040 TTGAATGCTG
* * * ** * *
55178050 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTG-TGAGTTACTAAA
** * * *
55178090 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGTGAGTTACTAAA
* * **
55178130 TCCGGGTTAAGTCCCGAAGGCATACGTGTTAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCAT-TGTGTGAGTTACTAAA
*
55178170 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
* * *
55178209 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
55178233 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
39 36 0.31
40 71 0.62
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
Found at i:55193295 original size:40 final size:40
Alignment explanation
Indices: 55193240--55193426 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
55193230 NNNNAGATAC
55193240 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
55193280 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
55193320 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* **
55193360 TAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTAC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
* * *
55193399 TAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAATCCGGGTTAAGTCCCGAAGGCATT
55193427 TGAACGAGGA
Statistics
Matches: 141, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 33 0.23
40 108 0.77
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
Found at i:55194910 original size:11 final size:11
Alignment explanation
Indices: 55194890--55194923 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
55194880 AATTTTGAAC
55194890 TTACCGTTTCA
1 TTACCGTTTCA
*
55194901 TTACCTTTTC-
1 TTACCGTTTCA
55194911 TTACCGTTTCA
1 TTACCGTTTCA
55194922 TT
1 TT
55194924 TGTATAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.15, C:0.26, G:0.06, T:0.53
Consensus pattern (11 bp):
TTACCGTTTCA
Found at i:55195420 original size:32 final size:34
Alignment explanation
Indices: 55195342--55195422 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 34
55195332 ACATTGTCAG
*
55195342 TCCAACCGAACACACAAGATGCTCACACGAGCCAA
1 TCCAACC-AACACACAAGATGCTCACAAGAGCCAA
** * * *
55195377 TCCCTCAAACACAC-A-ATGCTCATAAGAGCTAA
1 TCCAACCAACACACAAGATGCTCACAAGAGCCAA
55195409 TCCAACCAACACAC
1 TCCAACCAACACAC
55195423 CAAATAGAGT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 25 0.68
33 1 0.03
34 7 0.19
35 4 0.11
ACGTcount: A:0.41, C:0.37, G:0.10, T:0.12
Consensus pattern (34 bp):
TCCAACCAACACACAAGATGCTCACAAGAGCCAA
Found at i:55196393 original size:20 final size:21
Alignment explanation
Indices: 55196355--55196393 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55196345 GAAGTTAAAA
55196355 TGTTTTAATTTCACTTTTATT
1 TGTTTTAATTTCACTTTTATT
55196376 TGTTTTAATTTC-CTTTTA
1 TGTTTTAATTTCACTTTTA
55196394 ATTACAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (21 bp):
TGTTTTAATTTCACTTTTATT
Found at i:55202430 original size:215 final size:214
Alignment explanation
Indices: 55202047--55202479 Score: 785
Period size: 215 Copynumber: 2.0 Consensus size: 214
55202037 CATAGATGAT
* *
55202047 TGATAAACCATAATATATACATATTTTTACCCCGTGCTTGGCATATTTATGGATGATTTTTCCTT
1 TGATAAAACATAATATATACATATTTTTACCCCATGCTTGGCATATTTATGGATGATTTTTCCTT
55202112 GGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGAAAAGCTTAGGA
66 GGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGAAAAGCTTAGGA
*
55202177 TAGCAAAAAGAGTGAGAAATGGGCCAAAAACAGACAAATTAGGCCTAAATCAGTGTTTCACACGG
131 TAGCAAAAAGAGTGAGAAACGGGCCAAAAACAGACAAATTAGGCCTAAATCAGTGTTTCACACGG
55202242 GCTAGGCACTTCCACATGGG
196 G-TAGGCACTTCCACATGGG
*
55202262 TGATAAAATATAATATATACATATTTTTACCCCATGCTTGGCATATTTATGGATGATTTTTCCTT
1 TGATAAAACATAATATATACATATTTTTACCCCATGCTTGGCATATTTATGGATGATTTTTCCTT
* *
55202327 GGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCGTGTTTTATACTTAGGAAAGCTTAGGA
66 GGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGAAAAGCTTAGGA
* *
55202392 TAGCAAAAAGAGTGAGAAACGGGCCATAAACGGACAAATTAGGCCTAAATCAGTGTTTCACACGG
131 TAGCAAAAAGAGTGAGAAACGGGCCAAAAACAGACAAATTAGGCCTAAATCAGTGTTTCACACGG
55202457 GTAGGCACTTCCACATGGG
196 GTAGGCACTTCCACATGGG
55202476 TGAT
1 TGAT
55202480 CCACACGCCA
Statistics
Matches: 210, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
214 22 0.10
215 188 0.90
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (214 bp):
TGATAAAACATAATATATACATATTTTTACCCCATGCTTGGCATATTTATGGATGATTTTTCCTT
GGTTTCATTGAATTTGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGAAAAGCTTAGGA
TAGCAAAAAGAGTGAGAAACGGGCCAAAAACAGACAAATTAGGCCTAAATCAGTGTTTCACACGG
GTAGGCACTTCCACATGGG
Found at i:55209834 original size:21 final size:20
Alignment explanation
Indices: 55209790--55209834 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
55209780 ATAAGCCATG
* * *
55209790 AACACGGGCGTGGAGAACCT
1 AACACGGGCATGGAGAAACA
55209810 AACACGGGCATGGGAGAAACA
1 AACACGGGCAT-GGAGAAACA
55209831 AACA
1 AACA
55209835 AAAGTGTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.40, C:0.22, G:0.31, T:0.07
Consensus pattern (20 bp):
AACACGGGCATGGAGAAACA
Found at i:55210116 original size:19 final size:20
Alignment explanation
Indices: 55210078--55210118 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
55210068 ACCAGCCACC
* *
55210078 CTTTTTTTTCTCTTTTCTTT
1 CTTTATTTTCTCTTTCCTTT
55210098 CTTTATTTT-TCTTTCCTTT
1 CTTTATTTTCTCTTTCCTTT
55210117 CT
1 CT
55210119 CTCTTTTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTTATTTTCTCTTTCCTTT
Found at i:55210125 original size:19 final size:20
Alignment explanation
Indices: 55210083--55210126 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
55210073 CCACCCTTTT
* *
55210083 TTTTCTCTTTTCTTTCTTTA
1 TTTTCTCTTTCCTTTCTCTA
*
55210103 TTTT-TCTTTCCTTTCTCTC
1 TTTTCTCTTTCCTTTCTCTA
55210122 TTTTC
1 TTTTC
55210127 CCTTCTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCTCTTTCCTTTCTCTA
Found at i:55212129 original size:6 final size:6
Alignment explanation
Indices: 55212114--55212147 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
55212104 TTTCAACTTG
*
55212114 TTTTTC TTTTTA -TTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
55212148 GCGTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:55212129 original size:12 final size:12
Alignment explanation
Indices: 55212114--55212147 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
55212104 TTTCAACTTG
*
55212114 TTTTTCTTTTTA
1 TTTTTATTTTTA
55212126 -TTTTATTTTTA
1 TTTTTATTTTTA
55212137 TTTTTATTTTT
1 TTTTTATTTTT
55212148 GCGTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:55212134 original size:17 final size:17
Alignment explanation
Indices: 55212114--55212146 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55212104 TTTCAACTTG
*
55212114 TTTTTCTTTTTATTTTA
1 TTTTTATTTTTATTTTA
55212131 TTTTTATTTTTATTTT
1 TTTTTATTTTTATTTT
55212147 TGCGTTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTATTTTTATTTTA
Found at i:55216822 original size:31 final size:31
Alignment explanation
Indices: 55216778--55216853 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
55216768 TCATAAAGTA
*
55216778 TCACACGCTCGTGTAAGTGGGCCGTGTAGAC
1 TCACACGCCCGTGTAAGTGGGCCGTGTAGAC
* * *
55216809 TCACATGCCCGTGTAAGTGGGTCGTGTGGAC
1 TCACACGCCCGTGTAAGTGGGCCGTGTAGAC
55216840 TCACACGCCCGTGT
1 TCACACGCCCGTGT
55216854 GACATGTGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.24
Consensus pattern (31 bp):
TCACACGCCCGTGTAAGTGGGCCGTGTAGAC
Found at i:55224616 original size:55 final size:55
Alignment explanation
Indices: 55224556--55224660 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
55224546 GCCGTGGGCA
55224556 ACACTGACTTATCAACACGGCCATGGCA-CACACCCGTGCT-GCCTACCCGTGGATG
1 ACACTGACTTATCAACACGGCCATGG-AGCACACCCGTG-TGGCCTACCCGTGGATG
* * * *
55224611 ACACTGTCTTTTTAACACGGCCATGGAGCACGCCCGTGTGGCCTACCCGT
1 ACACTGACTTATCAACACGGCCATGGAGCACACCCGTGTGGCCTACCCGT
55224661 ATACAACTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 2 0.05
55 42 0.95
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.21
Consensus pattern (55 bp):
ACACTGACTTATCAACACGGCCATGGAGCACACCCGTGTGGCCTACCCGTGGATG
Found at i:55227109 original size:2 final size:2
Alignment explanation
Indices: 55227102--55227136 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
55227092 GATGTTACAT
55227102 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
55227137 TTTTGGTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:55228977 original size:13 final size:12
Alignment explanation
Indices: 55228948--55228973 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55228938 GTAATGGACA
55228948 TTGGACATTTAT
1 TTGGACATTTAT
55228960 TTGGACATTTAT
1 TTGGACATTTAT
55228972 TT
1 TT
55228974 TGGAGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:55230630 original size:49 final size:49
Alignment explanation
Indices: 55230525--55230841 Score: 205
Period size: 49 Copynumber: 6.6 Consensus size: 49
55230515 TGATGTGTTT
* * *
55230525 GCTAGTGTAAGACCTGTCTGGGACATGGCTTCTGCGCCAATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGAGATGAGA
* * * * *
55230574 GCCAGTGTAAGACCTGTTTGGGACACGGAATCGGC-CTCAAGATATGCA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGC-CAAGAGATG-AGA
** * *
55230623 GCTAGTGTAAGACCTGTCTGGGACATGGCATC-G-G-CTTGAG--GTGT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGAGATGAGA
* * *
55230667 G-TATGTGTAAGACCTGTCTGGGACATGGCATCGAC-AC-AGATAAGTGAGA
1 GCTA-GTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGA-GA-TGAGA
* * * ** * *
55230716 GCCAGTATAAGATCTGTCTGGGACATGGCATCGGC-CTTGATATATG-GAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGC-CAAGAGATGAG-A
* * *
55230765 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-AC-AGATAAGTGAGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGA-GA-TGAGA
*
55230814 GCCAGTGTAAGACCTGTCTGGGACATGG
1 GCTAGTGTAAGACCTGTCTGGGACATGG
55230842 TATTGGCCTC
Statistics
Matches: 208, Mismatches: 39, Indels: 42
0.72 0.13 0.15
Matches are distributed among these distances:
43 2 0.01
44 30 0.14
45 2 0.01
46 4 0.02
47 2 0.01
48 4 0.02
49 158 0.76
50 4 0.02
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGAGATGAGA
Found at i:55230785 original size:142 final size:142
Alignment explanation
Indices: 55230529--55230797 Score: 375
Period size: 142 Copynumber: 1.9 Consensus size: 142
55230519 GTGTTTGCTA
* * * *
55230529 GTGTAAGACCTGTCTGGGACATGGCTTCTGCGCCAATAGATGAGAGCCAGTGTAAGACCTGTTTG
1 GTGTAAGACCTGTCTGGGACATGGCATCTGCGACAATAGATGAGAGCCAGTATAAGACCTGTCTG
55230594 GGACACGGAATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCT
66 GGACACGGAATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCT
55230659 TGAGGTGTGTAT
131 TGAGGTGTGTAT
*
55230671 GTGTAAGACCTGTCTGGGACATGGCATC-GAC-ACAGATA-AGTGAGAGCCAGTATAAGATCTGT
1 GTGTAAGACCTGTCTGGGACATGGCATCTG-CGACA-ATAGA-TGAGAGCCAGTATAAGACCTGT
* * ** * *
55230733 CTGGGACATGGCATCGGCCTTGATATATGGAAG-TCAGTGTAAGACCTGTCTGGGACATGGCATC
63 CTGGGACACGGAATCGGCCTCAAGATATGCAAGCT-AGTGTAAGACCTGTCTGGGACATGGCATC
55230797 G
127 G
55230798 ACACAGATAA
Statistics
Matches: 112, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
141 5 0.04
142 107 0.96
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (142 bp):
GTGTAAGACCTGTCTGGGACATGGCATCTGCGACAATAGATGAGAGCCAGTATAAGACCTGTCTG
GGACACGGAATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCT
TGAGGTGTGTAT
Found at i:55230795 original size:98 final size:98
Alignment explanation
Indices: 55230630--55230893 Score: 358
Period size: 98 Copynumber: 2.7 Consensus size: 98
55230620 CAAGCTAGTG
* * *
55230630 TAAGACCTGTCTGGGACATGGCATCGG-CTTGAGGTGT-GTA-T--GTGTAAGACCTGTCTGGGA
1 TAAGACCTGTCTGGGACATGGCATCGGCCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTGGGA
55230690 CATGGCATCGACACAGATAAGTGAGAGCCAGTA
66 CATGGCATCGACACAGATAAGTGAGAGCCAGTA
* *
55230723 TAAGATCTGTCTGGGACATGGCATCGGCCTTGATATATGGAAGTCAGTGTAAGACCTGTCTGGGA
1 TAAGACCTGTCTGGGACATGGCATCGGCCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTGGGA
*
55230788 CATGGCATCGACACAGATAAGTGAGAGCCAGTG
66 CATGGCATCGACACAGATAAGTGAGAGCCAGTA
* * * * * * * * *
55230821 TAAGACCTGTCTGGGACATGGTATTGGCCTCGATGCATGGAAGTCAATTTAATACTTGTTTGGGA
1 TAAGACCTGTCTGGGACATGGCATCGGCCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTGGGA
55230886 CATGGCAT
66 CATGGCAT
55230894 TTACTTAGAT
Statistics
Matches: 149, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
93 26 0.17
94 7 0.05
95 2 0.01
96 1 0.01
98 113 0.76
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (98 bp):
TAAGACCTGTCTGGGACATGGCATCGGCCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTGGGA
CATGGCATCGACACAGATAAGTGAGAGCCAGTA
Found at i:55234491 original size:49 final size:49
Alignment explanation
Indices: 55234386--55234702 Score: 205
Period size: 49 Copynumber: 6.6 Consensus size: 49
55234376 TGATGTGTTT
* * *
55234386 GCTAGTGTAAGACCTGTCTGGGACATGGCTTCTGCGCCAATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGAGATGAGA
* * * * *
55234435 GCCAGTGTAAGACCTGTTTGGGACACGGAATCGGC-CTCAAGATATGCA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGC-CAAGAGATG-AGA
** * *
55234484 GCTAGTGTAAGACCTGTCTGGGACATGGCATC-G-G-CTTGAG--GTGT
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGAGATGAGA
* * *
55234528 G-TATGTGTAAGACCTGTCTGGGACATGGCATCGAC-AC-AGATAAGTGAGA
1 GCTA-GTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGA-GA-TGAGA
* * * ** * *
55234577 GCCAGTATAAGATCTGTCTGGGACATGGCATCGGC-CTTGATATATG-GAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGC-CAAGAGATGAG-A
* * *
55234626 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-AC-AGATAAGTGAGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGA-GA-TGAGA
*
55234675 GCCAGTGTAAGACCTGTCTGGGACATGG
1 GCTAGTGTAAGACCTGTCTGGGACATGG
55234703 TATTGGCCTC
Statistics
Matches: 208, Mismatches: 39, Indels: 42
0.72 0.13 0.15
Matches are distributed among these distances:
43 2 0.01
44 30 0.14
45 2 0.01
46 4 0.02
47 2 0.01
48 4 0.02
49 158 0.76
50 4 0.02
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCGCCAAGAGATGAGA
Found at i:55234646 original size:142 final size:142
Alignment explanation
Indices: 55234390--55234658 Score: 375
Period size: 142 Copynumber: 1.9 Consensus size: 142
55234380 GTGTTTGCTA
* * * *
55234390 GTGTAAGACCTGTCTGGGACATGGCTTCTGCGCCAATAGATGAGAGCCAGTGTAAGACCTGTTTG
1 GTGTAAGACCTGTCTGGGACATGGCATCTGCGACAATAGATGAGAGCCAGTATAAGACCTGTCTG
55234455 GGACACGGAATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCT
66 GGACACGGAATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCT
55234520 TGAGGTGTGTAT
131 TGAGGTGTGTAT
*
55234532 GTGTAAGACCTGTCTGGGACATGGCATC-GAC-ACAGATA-AGTGAGAGCCAGTATAAGATCTGT
1 GTGTAAGACCTGTCTGGGACATGGCATCTG-CGACA-ATAGA-TGAGAGCCAGTATAAGACCTGT
* * ** * *
55234594 CTGGGACATGGCATCGGCCTTGATATATGGAAG-TCAGTGTAAGACCTGTCTGGGACATGGCATC
63 CTGGGACACGGAATCGGCCTCAAGATATGCAAGCT-AGTGTAAGACCTGTCTGGGACATGGCATC
55234658 G
127 G
55234659 ACACAGATAA
Statistics
Matches: 112, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
141 5 0.04
142 107 0.96
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (142 bp):
GTGTAAGACCTGTCTGGGACATGGCATCTGCGACAATAGATGAGAGCCAGTATAAGACCTGTCTG
GGACACGGAATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCT
TGAGGTGTGTAT
Found at i:55234656 original size:98 final size:98
Alignment explanation
Indices: 55234491--55234754 Score: 358
Period size: 98 Copynumber: 2.7 Consensus size: 98
55234481 CAAGCTAGTG
* * *
55234491 TAAGACCTGTCTGGGACATGGCATCGG-CTTGAGGTGT-GTA-T--GTGTAAGACCTGTCTGGGA
1 TAAGACCTGTCTGGGACATGGCATCGGCCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTGGGA
55234551 CATGGCATCGACACAGATAAGTGAGAGCCAGTA
66 CATGGCATCGACACAGATAAGTGAGAGCCAGTA
* *
55234584 TAAGATCTGTCTGGGACATGGCATCGGCCTTGATATATGGAAGTCAGTGTAAGACCTGTCTGGGA
1 TAAGACCTGTCTGGGACATGGCATCGGCCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTGGGA
*
55234649 CATGGCATCGACACAGATAAGTGAGAGCCAGTG
66 CATGGCATCGACACAGATAAGTGAGAGCCAGTA
* * * * * * * * *
55234682 TAAGACCTGTCTGGGACATGGTATTGGCCTCGATGCATGGAAGTCAATTTAATACTTGTTTGGGA
1 TAAGACCTGTCTGGGACATGGCATCGGCCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTGGGA
55234747 CATGGCAT
66 CATGGCAT
55234755 TTACTTAGAT
Statistics
Matches: 149, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
93 26 0.17
94 7 0.05
95 2 0.01
96 1 0.01
98 113 0.76
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (98 bp):
TAAGACCTGTCTGGGACATGGCATCGGCCTTGATGTATGGAAGTCAGTGTAAGACCTGTCTGGGA
CATGGCATCGACACAGATAAGTGAGAGCCAGTA
Done.