Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 101 of 145
Found at i:33862617 original size:26 final size:27
Alignment explanation
Indices: 33862564--33862618 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
33862554 TCAAGGAAAA
* *
33862564 TATTATAAATTGTGGATAAATATGGGC
1 TATTATAAATTGTGGATAAAAATCGGC
33862591 TATTATAAGATTG-GG-TAAAAATCGGC
1 TATTATAA-ATTGTGGATAAAAATCGGC
33862617 TA
1 TA
33862619 GCATGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 10 0.40
28 4 0.16
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (27 bp):
TATTATAAATTGTGGATAAAAATCGGC
Found at i:33865442 original size:17 final size:17
Alignment explanation
Indices: 33865420--33865452 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33865410 CTATTATTTT
33865420 AATTTAATCTAATATTA
1 AATTTAATCTAATATTA
33865437 AATTTAATCTAATATT
1 AATTTAATCTAATATT
33865453 TAATCATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAATCTAATATTA
Found at i:33869036 original size:30 final size:29
Alignment explanation
Indices: 33868992--33869065 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
33868982 TTGATGAAGC
*
33868992 TTCA-AAAACCAAAAAAATGGAGA-AAGT
1 TTCAGAAAACCAAAAAAATGGAGAGAACT
* *
33869019 TTCAAGAAAACCCAAAAAATGGATAGAACT
1 TTC-AGAAAACCAAAAAAATGGAGAGAACT
33869049 TTCAGAAAACCAAAAAA
1 TTCAGAAAACCAAAAAA
33869066 GAAAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 3 0.08
28 1 0.03
29 30 0.75
30 6 0.15
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (29 bp):
TTCAGAAAACCAAAAAAATGGAGAGAACT
Found at i:33870004 original size:9 final size:9
Alignment explanation
Indices: 33869990--33870020 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33869980 GTTAAACGAA
33869990 TCGAGTTAT
1 TCGAGTTAT
*
33869999 TCGAGTTAA
1 TCGAGTTAT
33870008 TCGAGTTAT
1 TCGAGTTAT
33870017 TCGA
1 TCGA
33870021 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:33880388 original size:23 final size:23
Alignment explanation
Indices: 33880359--33880405 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
33880349 ATCTCTAACC
33880359 AAATATTGAAACCTCTAACATAT
1 AAATATTGAAACCTCTAACATAT
*
33880382 AAATATTGAAATCTCTAACATAT
1 AAATATTGAAACCTCTAACATAT
33880405 A
1 A
33880406 CCCAAATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (23 bp):
AAATATTGAAACCTCTAACATAT
Found at i:33886761 original size:89 final size:89
Alignment explanation
Indices: 33886598--33886842 Score: 325
Period size: 89 Copynumber: 2.7 Consensus size: 89
33886588 ATTCAATTTT
* * ** * *
33886598 TTTGTATTATTTTTGTATATGTAAATCAAATTTAGTCAGTATTATTTGTTGTTCGAATTTTATAT
1 TTTGTATT-TTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTATTGTTCGAATTTTATAT
* * *
33886663 TTTCGTGTATTAATTTTTTAGAATG
65 TTTCATGTATTAATATTCTAGAATG
33886688 TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTATTGTTCGAATTTTATATT
1 TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTATTGTTCGAATTTTATATT
33886753 TTCATGTATTAATATTCTAGAATG
66 TTCATGTATTAATATTCTAGAATG
* * *
33886777 TTTGTATTTTCTTGTATCTATAAATTTAATTT-GT-TGCGTATTA-TTATTTTTTCGAATTATAT
1 TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCT--GTATTATTTA-TTGTTCGAATTTTAT
33886839 ATTT
63 ATTT
33886843 GTTCTATTAA
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
87 1 0.01
88 5 0.04
89 126 0.90
90 8 0.06
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (89 bp):
TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTATTGTTCGAATTTTATATT
TTCATGTATTAATATTCTAGAATG
Found at i:33886851 original size:16 final size:17
Alignment explanation
Indices: 33886805--33886858 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
33886795 TATAAATTTA
33886805 ATTTGTTGCGTATTAT-T
1 ATTTGTT-CGTATTATAT
* *
33886822 ATTTTTTCGAATTATAT
1 ATTTGTTCGTATTATAT
*
33886839 ATTTGTTC-TATTAAAT
1 ATTTGTTCGTATTATAT
33886855 ATTT
1 ATTT
33886859 TGAAGTCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (17 bp):
ATTTGTTCGTATTATAT
Found at i:33886903 original size:22 final size:20
Alignment explanation
Indices: 33886878--33886927 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
33886868 TTATCCAAAC
*
33886878 AAATAATTATTTTAGAAAAATT
1 AAATAATTATATT-GAAAAA-T
33886900 AAAT--TTATATTGAAAAAT
1 AAATAATTATATTGAAAAAT
33886918 AGAATAATTA
1 A-AATAATTA
33886928 CAAACTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 6 0.25
21 3 0.12
22 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
AAATAATTATATTGAAAAAT
Found at i:33889505 original size:19 final size:20
Alignment explanation
Indices: 33889466--33889518 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
33889456 CAACAGAACC
*
33889466 GAACAAAACAGAATGAAGCA
1 GAACAAAACAGAATCAAGCA
*
33889486 GAACATAACA-AATCAAGCA
1 GAACAAAACAGAATCAAGCA
* *
33889505 GAGCAGAACAGAAT
1 GAACAAAACAGAAT
33889519 AGAGCATAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.57, C:0.17, G:0.19, T:0.08
Consensus pattern (20 bp):
GAACAAAACAGAATCAAGCA
Found at i:33890151 original size:79 final size:78
Alignment explanation
Indices: 33890001--33890159 Score: 210
Period size: 79 Copynumber: 2.0 Consensus size: 78
33889991 TCACATGCAT
* * ***
33890001 GGTTATAAATCAGAATCAATAACAATCAGTCTAACATATTTAGATATCGTGTATTCCTCATCAAC
1 GGTTATAAATCAGAATCAATAACAATCAATCTAACATAATTAGATATCACATATTCCTCATCAAC
*
33890066 AAAGTAATGCAGAA
66 AAAGTAACGCA-AA
* * * *
33890080 GGTTATAAATCAGAATCAGTAACAATCAATCTAACATAATTAGATGTCACATATTCTTCATCAAT
1 GGTTATAAATCAGAATCAATAACAATCAATCTAACATAATTAGATATCACATATTCCTCATCAAC
*
33890145 AGAGTAACGCAAA
66 AAAGTAACGCAAA
33890158 GG
1 GG
33890160 CGTATCAACA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
78 4 0.06
79 65 0.94
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (78 bp):
GGTTATAAATCAGAATCAATAACAATCAATCTAACATAATTAGATATCACATATTCCTCATCAAC
AAAGTAACGCAAA
Found at i:33893354 original size:6 final size:6
Alignment explanation
Indices: 33893345--33893422 Score: 83
Period size: 6 Copynumber: 13.5 Consensus size: 6
33893335 TTTTTATTTT
* *
33893345 ATTTGA ATTTC- ATTTCA ATTTCA ATTTGA ATTTC- ATTTCA ATTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
* *
33893391 ATTTGA ATTTCA A-TTCA A-TGCA ACTTTCA ATT
1 ATTTCA ATTTCA ATTTCA ATTTCA A-TTTCA ATT
33893423 AAACTTTATT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
5 19 0.31
6 38 0.62
7 4 0.07
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (6 bp):
ATTTCA
Found at i:33893422 original size:23 final size:23
Alignment explanation
Indices: 33893345--33893409 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
33893335 TTTTTATTTT
33893345 ATTTGAATTTCATTTCAATTTCA
1 ATTTGAATTTCATTTCAATTTCA
33893368 ATTTGAATTTCATTTCAATTTCA
1 ATTTGAATTTCATTTCAATTTCA
*
33893391 ATTTGAATTTCAATTCAAT
1 ATTTGAATTTCATTTCAAT
33893410 GCAACTTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (23 bp):
ATTTGAATTTCATTTCAATTTCA
Found at i:33895518 original size:23 final size:23
Alignment explanation
Indices: 33895484--33895547 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
33895474 CGGCCCAGCC
*
33895484 TATTTTTAATTAAAATTAAAATTA
1 TATTTTT-ATTAAAATTAAAACTA
33895508 TATTTTTATTAAAATTAAAACTA
1 TATTTTTATTAAAATTAAAACTA
*
33895531 -ATTGTTATTAAAATTAA
1 TATTTTTATTAAAATTAA
33895548 TTGTTATCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.42
23 15 0.39
24 7 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTTTTATTAAAATTAAAACTA
Found at i:33895542 original size:16 final size:16
Alignment explanation
Indices: 33895521--33895577 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
33895511 TTTTATTAAA
*
33895521 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
33895537 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
33895553 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
33895569 ATTAAAATT
1 ATTAAAATT
33895578 GTATCTAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:33895634 original size:19 final size:18
Alignment explanation
Indices: 33895610--33895780 Score: 61
Period size: 18 Copynumber: 9.3 Consensus size: 18
33895600 ATCTAACATT
33895610 TTGTTAGTAAAATTATTAA
1 TTGTTA-TAAAATTATTAA
**
33895629 TTG-T-TAATTTTATTAA
1 TTGTTATAAAATTATTAA
*
33895645 TTGTTACTAAAATTATCAAA
1 TTGTTA-TAAAATTAT-TAA
* *
33895665 TT-ATATCAAATTATTAA
1 TTGTTATAAAATTATTAA
* *** *
33895682 TTATTA-ATTGTTACTAACA
1 TTGTTATAAAATTA-TTA-A
33895701 TTTTGTTAGTAAAATTATTAA
1 --TTGTTA-TAAAATTATTAA
*
33895722 TTG-T-T-AATTGTATTAA
1 TTGTTATAAAAT-TATTAA
*
33895738 TTGTTAGTAAAATTATCAAA
1 TTGTTA-TAAAATTAT-TAA
* *
33895758 TT-ATATCAAATTATTAA
1 TTGTTATAAAATTATTAA
33895775 TTGTTA
1 TTGTTA
33895781 ATTGTATTAA
Statistics
Matches: 108, Mismatches: 26, Indels: 37
0.63 0.15 0.22
Matches are distributed among these distances:
15 3 0.03
16 23 0.21
17 13 0.12
18 24 0.22
19 22 0.20
20 11 0.10
21 6 0.06
22 2 0.02
23 4 0.04
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (18 bp):
TTGTTATAAAATTATTAA
Found at i:33895721 original size:93 final size:93
Alignment explanation
Indices: 33895602--33895785 Score: 341
Period size: 93 Copynumber: 2.0 Consensus size: 93
33895592 TTTGTAAAAT
*
33895602 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTTTATTAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
33895667 ATATCAAATTATTAATTATTAATTGTTA
66 ATATCAAATTATTAATTATTAATTGTTA
*
33895695 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
*
33895760 ATATCAAATTATTAATTGTTAATTGT
66 ATATCAAATTATTAATTATTAATTGT
33895786 ATTAATTGTT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (93 bp):
CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATT
ATATCAAATTATTAATTATTAATTGTTA
Found at i:33895875 original size:21 final size:22
Alignment explanation
Indices: 33895834--33895876 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33895824 AAACTTAAAA
* *
33895834 TAAAACTAAAACTAGTATATTT
1 TAAAAATAAAAATAGTATATTT
33895856 TAAAAATAAAAATA-TATATTT
1 TAAAAATAAAAATAGTATATTT
33895877 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAAATAAAAATAGTATATTT
Found at i:33898939 original size:16 final size:16
Alignment explanation
Indices: 33898918--33898948 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33898908 TTTCATTTGA
33898918 TGTATGTATGTGTGTC
1 TGTATGTATGTGTGTC
33898934 TGTATGTATGTGTGT
1 TGTATGTATGTGTGT
33898949 ATGTGGAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.32, T:0.52
Consensus pattern (16 bp):
TGTATGTATGTGTGTC
Found at i:33903899 original size:43 final size:42
Alignment explanation
Indices: 33903852--33903979 Score: 104
Period size: 37 Copynumber: 3.1 Consensus size: 42
33903842 TGAAATAGCG
* *
33903852 AAAAAGTCATTACATAAATAAAAAGTTGACAATTTAAATTGT
1 AAAAAATCATTACATAAATAAAAAGTTGACAATTTAAATTGC
* * * * * * * *
33903894 AAAAAATTA-AAC-T-CAT-AAAA-TTAATAAATAAAATGGC
1 AAAAAATCATTACATAAATAAAAAGTTGACAATTTAAATTGC
* *
33903931 AAAAAATTCATTACATAAATACAAAGTTGACTATTTAAATTGC
1 AAAAAA-TCATTACATAAATAAAAAGTTGACAATTTAAATTGC
33903974 AAAAAA
1 AAAAAA
33903980 AAAACCCCAT
Statistics
Matches: 60, Mismatches: 20, Indels: 11
0.66 0.22 0.12
Matches are distributed among these distances:
37 17 0.28
38 6 0.10
39 4 0.07
40 2 0.03
41 4 0.07
42 10 0.17
43 17 0.28
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (42 bp):
AAAAAATCATTACATAAATAAAAAGTTGACAATTTAAATTGC
Found at i:33903942 original size:80 final size:79
Alignment explanation
Indices: 33903819--33904038 Score: 271
Period size: 80 Copynumber: 2.8 Consensus size: 79
33903809 TTTAAATTGC
* * * * * *
33903819 AAAAAACTCCTAAAATTAATAATTGAAATAGCGAAAAAGTCATTACATAAATAAAAAGTTGACAA
1 AAAAAACTCATAAAATTAATAAATAAAATGGCAAAAAATTCATTACATAAATAAAAAGTTGACAA
*
33903884 TTTAAATTGTAAAA
66 TTTAAATTGCAAAA
* * *
33903898 AATTAAACTCATAAAATTAATAAATAAAATGGCAAAAAATTCATTACATAAATACAAAGTTGACT
1 AA-AAAACTCATAAAATTAATAAATAAAATGGCAAAAAATTCATTACATAAATAAAAAGTTGACA
33903963 ATTTAAATTGCAAAA
65 ATTTAAATTGCAAAA
* * * * *
33903978 AAAAAACCCCATAAAATTAATAACTAAAATGGAAAAAAAGTT-ATTATATAAATATAAAGTT
1 AAAAAA-CTCATAAAATTAATAAATAAAATGGCAAAAAA-TTCATTACATAAATAAAAAGTT
33904039 ATTTAAATTA
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
79 5 0.04
80 115 0.94
81 2 0.02
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.27
Consensus pattern (79 bp):
AAAAAACTCATAAAATTAATAAATAAAATGGCAAAAAATTCATTACATAAATAAAAAGTTGACAA
TTTAAATTGCAAAA
Found at i:33904313 original size:33 final size:33
Alignment explanation
Indices: 33904271--33904342 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
33904261 GGGAGGAGTA
* *
33904271 GATACGGGTC-GAGAGGAGTGGAGTACGGCGGTG
1 GATACGGGTCGGA-AGGAGCGGAGTACGGAGGTG
*
33904304 GATACGGGTCGGAAGGAGCGGAGTACTGAGGTG
1 GATACGGGTCGGAAGGAGCGGAGTACGGAGGTG
33904337 GATACG
1 GATACG
33904343 AGCCGGGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.24, C:0.12, G:0.49, T:0.15
Consensus pattern (33 bp):
GATACGGGTCGGAAGGAGCGGAGTACGGAGGTG
Found at i:33915381 original size:11 final size:11
Alignment explanation
Indices: 33915365--33915416 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
33915355 TCAATTATTT
33915365 TCTCAAATTCC
1 TCTCAAATTCC
* *
33915376 TCTCAATTTGC
1 TCTCAAATTCC
*
33915387 TCTCAATTTCC
1 TCTCAAATTCC
*
33915398 T-TCCAAATTTC
1 TCT-CAAATTCC
33915409 TCTCAAAT
1 TCTCAAAT
33915417 CCATATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 1 0.03
11 32 0.94
12 1 0.03
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (11 bp):
TCTCAAATTCC
Found at i:33915397 original size:22 final size:22
Alignment explanation
Indices: 33915361--33915416 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
33915351 TCTCTCAATT
33915361 ATTT-TCTCAAATTCC-TCTC-A
1 ATTTCTCTCAAATTCCTTC-CAA
*
33915381 ATTTGCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAAATTCCTTCCAA
33915404 ATTTCTCTCAAAT
1 ATTTCTCTCAAAT
33915417 CCATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTCTCTCAAATTCCTTCCAA
Found at i:33915434 original size:40 final size:40
Alignment explanation
Indices: 33915387--33915464 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
33915377 CTCAATTTGC
33915387 TCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
33915427 TCTCAATTTGCTCTCAATTTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
33915465 TTTATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.46
Consensus pattern (40 bp):
TCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:33916413 original size:21 final size:20
Alignment explanation
Indices: 33916374--33916411 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33916364 TAACGAGGTA
33916374 AATTTTATATTAGATTTTAC
1 AATTTTATATTAGATTTTAC
33916394 AATTATTATA-TAGATTTT
1 AATT-TTATATTAGATTTT
33916412 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
AATTTTATATTAGATTTTAC
Found at i:33916592 original size:7 final size:7
Alignment explanation
Indices: 33916580--33916605 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33916570 TAGTCGATTG
33916580 GTATTTA
1 GTATTTA
33916587 GTATTTA
1 GTATTTA
33916594 GTATTTA
1 GTATTTA
33916601 GTATT
1 GTATT
33916606 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:33917288 original size:18 final size:18
Alignment explanation
Indices: 33917252--33917294 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
33917242 TGCTAGGTGC
* * *
33917252 GTATCCTAGCTCTTTTAT
1 GTATCCTAACCCTTATAT
33917270 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
33917288 GTTTCCT
1 GTATCCT
33917295 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:33917876 original size:21 final size:21
Alignment explanation
Indices: 33917845--33918902 Score: 1315
Period size: 21 Copynumber: 49.7 Consensus size: 21
33917835 AAACCCTAAC
*
33917845 AAAAATCCTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
*
33917866 AAAAACACTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
* *
33917887 AAAAATCCTAACCCTTAACAT
1 AAAAACCCTAACCCTTAACTT
*
33917908 AGAAAACTCTAAACCCTTAACTT
1 A-AAAACCCT-AACCCTTAACTT
33917931 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
*
33917952 AAAAACACTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
**
33917973 AAAAACCCTAAAGCTTAACTT
1 AAAAACCCTAACCCTTAACTT
33917994 AAAAACCCTAACCCTTAA-TCT
1 AAAAACCCTAACCCTTAACT-T
* *
33918015 AAAAACCGTAAACACTTAACTT
1 AAAAACCCT-AACCCTTAACTT
** *
33918037 AAAAATTCTAACCCTTAACCT
1 AAAAACCCTAACCCTTAACTT
*
33918058 AAAAACCCTAACCCTTAACATA
1 AAAAACCCTAACCCTTAAC-TT
* *
33918080 AAAAATCCTAAACCTTTAACTT
1 AAAAACCCT-AACCCTTAACTT
*
33918102 AAAAACCCTAACCCTTAACCT
1 AAAAACCCTAACCCTTAACTT
* *
33918123 AAAAGCCCTAACCTTTAACTT
1 AAAAACCCTAACCCTTAACTT
33918144 AAAAACCCTAAACCCTTAACTT
1 AAAAACCCT-AACCCTTAACTT
33918166 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
**
33918187 AAAAACATTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
* *
33918208 AAAAACCCTAACCCATAACCT
1 AAAAACCCTAACCCTTAACTT
* *
33918229 AAAAACCATAACCCTTCACTT
1 AAAAACCCTAACCCTTAACTT
33918250 AAAAACTCC-AACCCTTAACTT
1 AAAAAC-CCTAACCCTTAACTT
* *
33918271 AAAAACCCCAACCATTAACTT
1 AAAAACCCTAACCCTTAACTT
* *
33918292 AAAAACACTAACACTTAACTT
1 AAAAACCCTAACCCTTAACTT
33918313 -AAAACCCTAAACCCTTAA-TAT
1 AAAAACCCT-AACCCTTAACT-T
*
33918334 AAAAAACCCTAACCCTTAACCT
1 -AAAAACCCTAACCCTTAACTT
*
33918356 AAAAACCCTAA-CCTTAACCT
1 AAAAACCCTAACCCTTAACTT
*
33918376 AAAAACCCTAAACCCTTAACATA
1 AAAAACCCT-AACCCTTAAC-TT
*
33918399 AAAAACACTAAACCCTTAACTT
1 AAAAACCCT-AACCCTTAACTT
33918421 AAAAACCCTAACCCTTAA-TCT
1 AAAAACCCTAACCCTTAACT-T
* *
33918442 AAAAACCCTAGCCCTTAACATA
1 AAAAACCCTAACCCTTAAC-TT
33918464 AAAAACCCTAAACCCTTAACTT
1 AAAAACCCT-AACCCTTAACTT
*
33918486 AAAAACCCTAACCCTTAACCT
1 AAAAACCCTAACCCTTAACTT
33918507 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
* * *
33918528 AAAAACACTAACTCTTAATTT
1 AAAAACCCTAACCCTTAACTT
*
33918549 AAAAACCCTAACCCTTAACCT
1 AAAAACCCTAACCCTTAACTT
*
33918570 AAAAACCCTAATCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
* * *
33918591 AAAGACACTAACCCTTAACCT
1 AAAAACCCTAACCCTTAACTT
* * *
33918612 AAAAAACCTAACCTTTAACCT
1 AAAAACCCTAACCCTTAACTT
*
33918633 AAAAACTCTAAACCCTTAA-TT
1 AAAAACCCT-AACCCTTAACTT
*
33918654 -AAAACCCTAACCCTTAACAT
1 AAAAACCCTAACCCTTAACTT
33918674 AAAAACCCTAAACCCTTAACTT
1 AAAAACCCT-AACCCTTAACTT
*
33918696 AAAAACCCTAACCCTTAACCT
1 AAAAACCCTAACCCTTAACTT
* *
33918717 AAAACCCCAAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
* *
33918738 GAAAACCCTAACCCTTAACATA
1 AAAAACCCTAACCCTTAAC-TT
33918760 AAAAACCCTAAACCCTTAACTT
1 AAAAACCCT-AACCCTTAACTT
33918782 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
* *
33918803 -AAAACTCTTAACCCTTAACCT
1 AAAAAC-CCTAACCCTTAACTT
33918824 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
* *
33918845 AAAAACCTTAAATCCTTAACTT
1 AAAAACCCT-AACCCTTAACTT
*
33918867 AAAAACACTAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTT
33918888 AAAAACCCTAACCCT
1 AAAAACCCTAACCCT
33918903 AAACCTAGCC
Statistics
Matches: 894, Mismatches: 112, Indels: 62
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.01
20 43 0.05
21 592 0.66
22 181 0.20
23 69 0.08
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (21 bp):
AAAAACCCTAACCCTTAACTT
Found at i:33918039 original size:64 final size:63
Alignment explanation
Indices: 33917845--33918902 Score: 1315
Period size: 64 Copynumber: 16.6 Consensus size: 63
33917835 AAACCCTAAC
* * * *
33917845 AAAAATCCTAACCCTTAACTTAAAAACACTAACCCTTAACTTAAAAATCCTAACCCTTAACAT
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTT
* *
33917908 AGAAAACTCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACACTAACCCTTAACTT
1 A-AAAACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTT
** * *
33917973 AAAAACCCTAAAGCTTAACTTAAAAACCCTAACCCTTAA-TCTAAAAACCGTAAACACTTAACTT
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACT-TAAAAACCCT-AACCCTTAACTT
** * * * *
33918037 AAAAATTCTAACCCTTAACCTAAAAACCCTAACCCTTAACATAAAAAATCCTAAACCTTTAACTT
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAC-TTAAAAACCCT-AACCCTTAACTT
* * *
33918102 AAAAACCCTAACCCTTAACCTAAAAGCCCTAACCTTTAACTTAAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTT
** * *
33918166 AAAAACCCTAACCCTTAACTTAAAAACATTAACCCTTAACTTAAAAACCCTAACCCATAACCT
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTT
* * * *
33918229 AAAAACCATAACCCTTCACTTAAAAACTCC-AACCCTTAACTTAAAAACCCCAACCATTAACTT
1 AAAAACCCTAACCCTTAACTTAAAAAC-CCTAACCCTTAACTTAAAAACCCTAACCCTTAACTT
* * *
33918292 AAAAACACTAACACTTAACTT-AAAACCCTAAACCCTTAA-TATAAAAAACCCTAACCCTTAACC
1 AAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACT-T-AAAAACCCTAACCCTTAACT
33918355 T
63 T
* * *
33918356 AAAAACCCTAA-CCTTAACCTAAAAACCCTAAACCCTTAACATAAAAAACACTAAACCCTTAACT
1 AAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAAC-TTAAAAACCCT-AACCCTTAACT
33918420 T
63 T
* *
33918421 AAAAACCCTAACCCTTAA-TCTAAAAACCCTAGCCCTTAACATAAAAAACCCTAAACCCTTAACT
1 AAAAACCCTAACCCTTAACT-TAAAAACCCTAACCCTTAAC-TTAAAAACCCT-AACCCTTAACT
33918485 T
63 T
* * * *
33918486 AAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACACTAACTCTTAATTT
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTT
* * * * *
33918549 AAAAACCCTAACCCTTAACCTAAAAACCCTAATCCTTAACTTAAAGACACTAACCCTTAACCT
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTT
* * * * *
33918612 AAAAAACCTAACCTTTAACCTAAAAACTCTAAACCCTTAA-TT-AAAACCCTAACCCTTAACAT
1 AAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTT
* * *
33918674 AAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAACCCCAAACCCTTAACTT
1 AAAAACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTT
* *
33918738 GAAAACCCTAACCCTTAACATAAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTTAAC-TTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTT
* * * *
33918803 -AAAACTCTTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACCTTAAATCCTTAACTT
1 AAAAAC-CCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTT
*
33918867 AAAAACACTAACCCTTAACTTAAAAACCCTAACCCT
1 AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCT
33918903 AAACCTAGCC
Statistics
Matches: 869, Mismatches: 99, Indels: 53
0.85 0.10 0.05
Matches are distributed among these distances:
61 2 0.00
62 41 0.05
63 281 0.32
64 283 0.33
65 244 0.28
66 18 0.02
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (63 bp):
AAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTT
Found at i:33922446 original size:16 final size:16
Alignment explanation
Indices: 33922421--33922469 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
33922411 AAAAAAAAAT
*
33922421 ATTATTAATTAATTAA
1 ATTATAAATTAATTAA
*
33922437 ATTATAAATTTATTAA
1 ATTATAAATTAATTAA
*
33922453 ATCATTAAATATAATTA
1 ATTA-TAAAT-TAATTA
33922470 GATAAATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 17 0.63
17 5 0.19
18 5 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTATAAATTAATTAA
Found at i:33922449 original size:24 final size:24
Alignment explanation
Indices: 33922417--33922466 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
33922407 TCACAAAAAA
*
33922417 AAATATTATTAATTAATTAAATTAT
1 AAATATTATTAAATAATTAAA-TAT
*
33922442 AAAT-TTATTAAATCATTAAATAT
1 AAATATTATTAAATAATTAAATAT
33922465 AA
1 AA
33922467 TTAGATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 14 0.61
25 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATATTATTAAATAATTAAATAT
Found at i:33923424 original size:21 final size:22
Alignment explanation
Indices: 33923400--33923447 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
33923390 TTAATTTTCA
*
33923400 AAATTA-ATGAACTTTTATTAT
1 AAATTAGATCAACTTTTATTAT
*
33923421 AAATTAGATCAATTTTTATT-T
1 AAATTAGATCAACTTTTATTAT
33923442 -AATTAG
1 AAATTAG
33923448 TGAATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 11 0.46
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (22 bp):
AAATTAGATCAACTTTTATTAT
Found at i:33923476 original size:21 final size:23
Alignment explanation
Indices: 33923450--33923495 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
33923440 TTAATTAGTG
*
33923450 AATATA-TATTTTA-AAATTAAA
1 AATATATTATTTAATAAATTAAA
33923471 AATATATTATTTAATAAATTAAA
1 AATATATTATTTAATAAATTAAA
33923494 AA
1 AA
33923496 ATACATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATATTATTTAATAAATTAAA
Found at i:33924543 original size:8 final size:8
Alignment explanation
Indices: 33924530--33924554 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33924520 TCTGCTTTCA
33924530 TATTTAAT
1 TATTTAAT
33924538 TATTTAAT
1 TATTTAAT
33924546 TATTTAAT
1 TATTTAAT
33924554 T
1 T
33924555 TTCACAATCA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTAAT
Found at i:33926209 original size:18 final size:17
Alignment explanation
Indices: 33926178--33926212 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
33926168 GATTTAGGGT
33926178 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
33926195 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
33926213 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:33932457 original size:43 final size:43
Alignment explanation
Indices: 33932397--33932542 Score: 229
Period size: 43 Copynumber: 3.4 Consensus size: 43
33932387 GCTTTGACCA
* * *
33932397 CATGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTATCCGACAAACGCCGCTAAAGAC
*
33932440 CATGACCTTTAGTGGCGCTTATCCGACAAACGCCGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTATCCGACAAACGCCGCTAAAGAC
*
33932483 CATGACCTTTAGCGGCGCTTATCCGACAAATGCCGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTATCCGACAAACGCCGCTAAAGAC
* *
33932526 AATGACCTTTAGTGGCG
1 CATGACCTTTAGCGGCG
33932543 TTTTTTTTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 95 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTATCCGACAAACGCCGCTAAAGAC
Found at i:33932939 original size:21 final size:21
Alignment explanation
Indices: 33932894--33932942 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
33932884 TCTACGCTAC
*
33932894 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCA
* * *
33932915 TCTGCTTCTCTCGCTGCCGTA
1 TCTGCTTCCCTCGCTGCAGCA
33932936 TCTGCTT
1 TCTGCTT
33932943 TAAGCTGCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.41, G:0.18, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCA
Found at i:33932995 original size:66 final size:66
Alignment explanation
Indices: 33932913--33933059 Score: 188
Period size: 66 Copynumber: 2.2 Consensus size: 66
33932903 CTCGCTGCAG
* * * * *
33932913 CCTCTGCTTCTCTCGCTGCCGTATCTGCTTTAAGCTGCAGCTGGTGTTCTTCATA-CTTTCATTG
1 CCTCAGCTTCTCTCGCTACCGCATCTGCTTTAAGCTGCAGCTAGAGTTCTTCATATCTTT-ATTG
33932977 AA
65 AA
** * * *
33932979 CCTCAGCTTCTCTCGCTATTGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTACCGCATCTGCTTTAAGCTGCAGCTAGAGTTCTTCATATCTTTATTGA
33933044 A
66 A
33933045 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
33933060 ATGCTACCTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
66 66 0.94
67 4 0.06
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTACCGCATCTGCTTTAAGCTGCAGCTAGAGTTCTTCATATCTTTATTGA
A
Found at i:33933076 original size:66 final size:66
Alignment explanation
Indices: 33932940--33933082 Score: 162
Period size: 66 Copynumber: 2.2 Consensus size: 66
33932930 GCCGTATCTG
* * * * * * * *
33932940 CTTTAAGCTGCAGCTGGTGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGCTATTGCATCT
1 CTTTAAGTTGTAGCTAGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGATACTACATCC
*
33933005 G
66 A
* * *
33933006 CTTTAAGTTGTAGCTAGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGCTACCTC
1 CTTTAAGTTGTAGCTAGAGTTCTTCATA-CTTTCATTGAACCTCAGCTTCTCTCGATACTACATC
33933070 CA
65 CA
33933072 CTTTAAGTTGT
1 CTTTAAGTTGT
33933083 GTAATTTGCT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 60 0.94
67 4 0.06
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.41
Consensus pattern (66 bp):
CTTTAAGTTGTAGCTAGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGATACTACATCC
A
Found at i:33933414 original size:38 final size:38
Alignment explanation
Indices: 33933359--33933441 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
33933349 TAGTTTTTCC
33933359 TAAAAAATAAATAACATAGTTAGGAACGCAATATATAT
1 TAAAAAATAAATAACATAGTTAGGAACGCAATATATAT
*
33933397 TAAAAAATAAATCACATAGTTAGGAACGCAATATATAT
1 TAAAAAATAAATAACATAGTTAGGAACGCAATATATAT
33933435 TAAAAAA
1 TAAAAAA
33933442 AACAAATGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (38 bp):
TAAAAAATAAATAACATAGTTAGGAACGCAATATATAT
Found at i:33936288 original size:15 final size:15
Alignment explanation
Indices: 33936253--33936295 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
33936243 CAAGTTTTGG
*
33936253 AAAAATATATAAATT
1 AAAAATATATATATT
**
33936268 TTAAATATATATATT
1 AAAAATATATATATT
*
33936283 AAAAATGTATATA
1 AAAAATATATATA
33936296 AATATTAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAAAATATATATATT
Found at i:33937253 original size:26 final size:26
Alignment explanation
Indices: 33937223--33937280 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
33937213 ATAGATTTAT
*
33937223 ATTATTTTATAAGCTATAGAGTAAGA
1 ATTATTTGATAAGCTATAGAGTAAGA
33937249 ATTATTTGATAAGCTATAGAGTAAGA
1 ATTATTTGATAAGCTATAGAGTAAGA
33937275 ATTATT
1 ATTATT
33937281 ATGCAACGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.40
Consensus pattern (26 bp):
ATTATTTGATAAGCTATAGAGTAAGA
Found at i:33937670 original size:12 final size:12
Alignment explanation
Indices: 33937653--33937677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33937643 CAGGATAGTG
33937653 AAAATTATGAAC
1 AAAATTATGAAC
33937665 AAAATTATGAAC
1 AAAATTATGAAC
33937677 A
1 A
33937678 GTTTCAAACT
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:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATTATGAAC
Found at i:33938112 original size:24 final size:24
Alignment explanation
Indices: 33938080--33938125 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
33938070 TTCTAGATTT
33938080 GGGGGATTTTTGGGGA-AAAATTG
1 GGGGGATTTTTGGGGAGAAAATTG
33938103 GGGGGAATTTTTGGGGAGAAAAT
1 GGGGG-ATTTTTGGGGAGAAAAT
33938126 AGCTTTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.43, T:0.28
Consensus pattern (24 bp):
GGGGGATTTTTGGGGAGAAAATTG
Found at i:33938825 original size:4 final size:4
Alignment explanation
Indices: 33938816--33938842 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33938806 TCTCACATCT
33938816 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
33938843 CTTCTATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:33939206 original size:36 final size:36
Alignment explanation
Indices: 33939161--33939236 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
33939151 AACATTACCA
*
33939161 AAATACCGAATGGGGGCTTCTAGCTTCCAACACTCC
1 AAATACCGAAAGGGGGCTTCTAGCTTCCAACACTCC
33939197 AAATACCGAAAGGGGGCTTCTAGCTTCCAACACTCC
1 AAATACCGAAAGGGGGCTTCTAGCTTCCAACACTCC
33939233 AAAT
1 AAAT
33939237 CCCGTCGTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (36 bp):
AAATACCGAAAGGGGGCTTCTAGCTTCCAACACTCC
Found at i:33939492 original size:17 final size:17
Alignment explanation
Indices: 33939470--33939504 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
33939460 ACCCTTGACA
33939470 CCCTAACCCCTAAATCC
1 CCCTAACCCCTAAATCC
*
33939487 CCCTAACCCTTAAATCC
1 CCCTAACCCCTAAATCC
33939504 C
1 C
33939505 TAACTCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.51, G:0.00, T:0.20
Consensus pattern (17 bp):
CCCTAACCCCTAAATCC
Found at i:33939507 original size:15 final size:16
Alignment explanation
Indices: 33939470--33939514 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
33939460 ACCCTTGACA
33939470 CCCTAACCCCTAAATCC
1 CCCTAACCCCTAAAT-C
*
33939487 CCCTAACCCTTAAAT-
1 CCCTAACCCCTAAATC
*
33939502 CCCTAACTCCTAA
1 CCCTAACCCCTAA
33939515 CCCCTAATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.44
17 14 0.56
ACGTcount: A:0.31, C:0.47, G:0.00, T:0.22
Consensus pattern (16 bp):
CCCTAACCCCTAAATC
Found at i:33940238 original size:19 final size:21
Alignment explanation
Indices: 33940202--33940241 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
33940192 AAATCATACT
33940202 ATTTGTTTTACGATTATATAA
1 ATTTGTTTTACGATTATATAA
*
33940223 ATTT-TTTTACTA-TATATAA
1 ATTTGTTTTACGATTATATAA
33940242 TATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTGTTTTACGATTATATAA
Found at i:33940559 original size:97 final size:98
Alignment explanation
Indices: 33940392--33940570 Score: 324
Period size: 97 Copynumber: 1.8 Consensus size: 98
33940382 GATTTAAGTT
*
33940392 GAATTTTATTTAATTAATCTAAATAATAAACCAATTAAGATAAAATGTTTTTTGCGGCGCTTCAA
1 GAATTTTATTTAATTAATCTAAATAATAAACCAATTAAGATAAAATATTTTTTGCGGCGCTTCAA
*
33940457 CAAAAACGCCGCTAAAAGACCATATATTAGCGA
66 CAAAAAAGCCGCTAAAAGACCATATATTAGCGA
*
33940490 GAATTTTA-TTAATTAATCTAAATAATAAACCAATTAAGGTAAAATATTTTTTGCGGCGCTTCAA
1 GAATTTTATTTAATTAATCTAAATAATAAACCAATTAAGATAAAATATTTTTTGCGGCGCTTCAA
33940554 CAAAAAAGCCGCTAAAA
66 CAAAAAAGCCGCTAAAA
33940571 CCCCTAACAT
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 70 0.90
98 8 0.10
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (98 bp):
GAATTTTATTTAATTAATCTAAATAATAAACCAATTAAGATAAAATATTTTTTGCGGCGCTTCAA
CAAAAAAGCCGCTAAAAGACCATATATTAGCGA
Found at i:33940765 original size:40 final size:41
Alignment explanation
Indices: 33940704--33940817 Score: 169
Period size: 40 Copynumber: 2.8 Consensus size: 41
33940694 TACCTTAACG
33940704 TTAGCGGCGGTTGATTAAAAACGCCACTAAAACCCTCGACCA
1 TTAGCGGC-GTTGATTAAAAACGCCACTAAAACCCTCGACCA
33940746 TTAGCGGC-TTGATTAAAAACGCCACTAAAACCCTCGACCA
1 TTAGCGGCGTTGATTAAAAACGCCACTAAAACCCTCGACCA
* *
33940786 TTAGCGGCGAAT-ACTTAAAAACGCCGCTAAAA
1 TTAGCGGCG-TTGA-TTAAAAACGCCACTAAAA
33940818 GTCACGGCAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
40 40 0.60
41 1 0.01
42 26 0.39
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGTTGATTAAAAACGCCACTAAAACCCTCGACCA
Found at i:33945141 original size:467 final size:469
Alignment explanation
Indices: 33944254--33945194 Score: 1649
Period size: 467 Copynumber: 2.0 Consensus size: 469
33944244 ATTATTCATG
*
33944254 TACACATAAATTATTAAATATTTTAAAAAATATATGTTAATATTATGATATTAGATGTTTTTAAG
1 TACACATAAATTATTAAATATTTTAAAAAATATATGTTAATATTATGATATTAGATATTTTTAAG
* *
33944319 ATTATTGACTTCAAGTTTTTTTAATATGTTTATATATGTATTTTAAATCGATTTTACTTGCATGT
66 ATTATTGACTTCAAGTTCTTTTAATATGTTTATATATGTATTTTAAATCGATTTTACTTACATGT
*
33944384 AATTTGTTTTTTTAAACTACTTATGTATATGACTACCTCATTTTTTTTACATCTATATATGTATT
131 AATTTGGTTTTTTAAACTACTTATGTATATGACTACCTCA-TTTTTTTACATCTATATATGTATT
** * *
33944449 TTTTTATATGGTTTTGTTGAATATACTATGTATGTTAAATTAATAAACATATATTATTTGTTTCA
195 TTTTTATATGACTATGTTGAATATACTATGTATGTTAAATTAATAAACA-ATATTATTCGTTTCA
*
33944514 AATTCATTTCAAAATACTATTATACAATGTTGTTATTATTTTATTTCAAGTCTATTTTGAGTTCA
259 AATTCATTTCAAAATACTATTATACAATGTTGTTATTATTTTATTTCAAGTCTACTTTGAGTTCA
*
33944579 TACATAATTTTTTTAGAACTTTTGTACTTAGGATTCGTTAAGTGTAATTCCTCTTTTATCATTTG
324 TACATAAATTTTTTAGAACTTTTGTACTTAGGATTCGTTAAGTGTAATTCCTCTTTTATCATTTG
*
33944644 GGCTTATTTTTATGAAGTTTGCTCATTAATTTCTTTGATGGTTAGTTGTTAAGAATGGCATTTGT
389 GGCTTAGTTTTATGAAGTTTGCTCATTAATTTCTTTGATGGTTAGTTGTTAAGAATGGCATTTGT
*
33944709 ATAATATGTTTAGAAC
454 ATAATATGTGTAGAAC
33944725 TACACATAAA-TATTAAATATTTTAAAAAATATATGTTAATATTATGATATTAGATATTTTTAAG
1 TACACATAAATTATTAAATATTTTAAAAAATATATGTTAATATTATGATATTAGATATTTTTAAG
*
33944789 TTTATTGACTTCAAG-TCTTTTAATATGTTTATATATGTATTTTAAATCGATTTTACTTACATGT
66 ATTATTGACTTCAAGTTCTTTTAATATGTTTATATATGTATTTTAAATCGATTTTACTTACATGT
* *
33944853 AA-TTGGTTTTTTAAACTATTTATGTATATGACTACCTCA-TTTTTTGCATCTATATATGTGTTA
131 AATTTGGTTTTTTAAACTACTTATGTATATGACTACCTCATTTTTTTACATCTATATA--TG-TA
*
33944916 TTTTTTTATATGACTATGTTGAATATACTATGTATGTTAAATTAATAGAC-ATATTATTCGTTTC
193 TTTTTTTATATGACTATGTTGAATATACTATGTATGTTAAATTAATAAACAATATTATTCGTTTC
33944980 AAATTCATTTCAAAATACTATTATACAATGTTGTTATTATTTTATTTCAAGTCTACTTTGAGTTC
258 AAATTCATTTCAAAATACTATTATACAATGTTGTTATTATTTTATTTCAAGTCTACTTTGAGTTC
*
33945045 ATGCATAAATTTTTTAGAACTTTTGTACTTAGGATTCGTTAAGTGTAATTCCTCTTTTATCATTT
323 ATACATAAATTTTTTAGAACTTTTGTACTTAGGATTCGTTAAGTGTAATTCCTCTTTTATCATTT
33945110 GGGCTTAGTTTTATGAAGTTTGCTCATTAATTTCTTTGATGGTTAGTTGTTAAGAATGGCATTTG
388 GGGCTTAGTTTTATGAAGTTTGCTCATTAATTTCTTTGATGGTTAGTTGTTAAGAATGGCATTTG
33945175 TATAATATGTGTAGAAC
453 TATAATATGTGTAGAAC
33945192 TAC
1 TAC
33945195 TATTGCTGTT
Statistics
Matches: 450, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
466 16 0.04
467 223 0.50
468 37 0.08
469 97 0.22
470 67 0.15
471 10 0.02
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (469 bp):
TACACATAAATTATTAAATATTTTAAAAAATATATGTTAATATTATGATATTAGATATTTTTAAG
ATTATTGACTTCAAGTTCTTTTAATATGTTTATATATGTATTTTAAATCGATTTTACTTACATGT
AATTTGGTTTTTTAAACTACTTATGTATATGACTACCTCATTTTTTTACATCTATATATGTATTT
TTTTATATGACTATGTTGAATATACTATGTATGTTAAATTAATAAACAATATTATTCGTTTCAAA
TTCATTTCAAAATACTATTATACAATGTTGTTATTATTTTATTTCAAGTCTACTTTGAGTTCATA
CATAAATTTTTTAGAACTTTTGTACTTAGGATTCGTTAAGTGTAATTCCTCTTTTATCATTTGGG
CTTAGTTTTATGAAGTTTGCTCATTAATTTCTTTGATGGTTAGTTGTTAAGAATGGCATTTGTAT
AATATGTGTAGAAC
Found at i:33946370 original size:44 final size:46
Alignment explanation
Indices: 33946298--33946398 Score: 143
Period size: 44 Copynumber: 2.2 Consensus size: 46
33946288 CAAACTGCTT
*
33946298 CCTTTTCTTTCGCAAACGACGCCATTTTA-TT-TCTCCCCCGATTC
1 CCTTTTCTTTCGCAAACGACACCATTTTATTTCTCTCCCCCGATTC
* ** *
33946342 CCTTTTCTTTTGCAAACGGTACCGTTTTATTTCTCTCCCCCGATTC
1 CCTTTTCTTTCGCAAACGACACCATTTTATTTCTCTCCCCCGATTC
33946388 CCTTTTCTTTC
1 CCTTTTCTTTC
33946399 CCGATACCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 24 0.49
45 2 0.04
46 23 0.47
ACGTcount: A:0.13, C:0.35, G:0.09, T:0.44
Consensus pattern (46 bp):
CCTTTTCTTTCGCAAACGACACCATTTTATTTCTCTCCCCCGATTC
Found at i:33946403 original size:18 final size:18
Alignment explanation
Indices: 33946380--33946416 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33946370 ATTTCTCTCC
*
33946380 CCCGATTCCCTTTTCTTT
1 CCCGATACCCTTTTCTTT
33946398 CCCGATACCCTTTTCTTT
1 CCCGATACCCTTTTCTTT
33946416 C
1 C
33946417 TCAGCCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.41, G:0.05, T:0.46
Consensus pattern (18 bp):
CCCGATACCCTTTTCTTT
Found at i:33950308 original size:9 final size:9
Alignment explanation
Indices: 33950294--33950353 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
33950284 AATAATCACT
33950294 TTACATAAC
1 TTACATAAC
33950303 TTACATAAC
1 TTACATAAC
33950312 TTACATAA-
1 TTACATAAC
33950320 -TACATAA-
1 TTACATAAC
* * *
33950327 ATATATATC
1 TTACATAAC
*
33950336 ATATCATAAC
1 TTA-CATAAC
33950346 TTACATAA
1 TTACATAA
33950354 AAAAAAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
7 7 0.16
8 5 0.12
9 25 0.58
10 6 0.14
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (9 bp):
TTACATAAC
Found at i:33950548 original size:13 final size:13
Alignment explanation
Indices: 33950530--33950567 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
33950520 AATTAAAGGG
33950530 TTAAAATTTAAAC
1 TTAAAATTTAAAC
33950543 TTAAAATTTAAAC
1 TTAAAATTTAAAC
33950556 TTAAAATTTAAA
1 TTAAAATTTAAA
33950568 GATGATAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAATTTAAAC
Found at i:33950614 original size:35 final size:35
Alignment explanation
Indices: 33950569--33950635 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
33950559 AAATTTAAAG
33950569 ATGATAATCATAACTTACATAAACATTTAAAGTTT
1 ATGATAATCATAACTTACATAAACATTTAAAGTTT
* *
33950604 ATGATTATCATAACTTACATAATCATTTAAAG
1 ATGATAATCATAACTTACATAAACATTTAAAG
33950636 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (35 bp):
ATGATAATCATAACTTACATAAACATTTAAAGTTT
Found at i:33950706 original size:45 final size:45
Alignment explanation
Indices: 33950657--33950751 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
33950647 AACTTTGGAC
* *
33950657 CATAATTTACAGAACTTACATAAATATATATCATATCATAACTTG
1 CATAACTTACAGAACTTACATAAATATATATCATATCATAACTTA
* *
33950702 CATAACTTACATAACTTATATAAATATATATCATATCATAACTTA
1 CATAACTTACAGAACTTACATAAATATATATCATATCATAACTTA
33950747 CATAA
1 CATAA
33950752 AACTTTGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (45 bp):
CATAACTTACAGAACTTACATAAATATATATCATATCATAACTTA
Found at i:33952404 original size:49 final size:49
Alignment explanation
Indices: 33952332--33952431 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
33952322 ACATGTTCGA
*
33952332 AGTGGTTATATAATAGGAAGTTCTCTTATATGGGGCATTGTCGGTGGTT
1 AGTGGTTATATAATAGGAAGTTCTCTTATATGGGGCATCGTCGGTGGTT
*
33952381 AGTGGTTATATAATGGGAAGTTCTCTTATATGGGGCATCGTCGGTGGTT
1 AGTGGTTATATAATAGGAAGTTCTCTTATATGGGGCATCGTCGGTGGTT
33952430 AG
1 AG
33952432 ATGAAAATCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.22, C:0.09, G:0.32, T:0.37
Consensus pattern (49 bp):
AGTGGTTATATAATAGGAAGTTCTCTTATATGGGGCATCGTCGGTGGTT
Found at i:33961589 original size:14 final size:14
Alignment explanation
Indices: 33961551--33961593 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
33961541 TAAAATGTAC
33961551 AATATAATTAAA-T
1 AATATAATTAAATT
33961564 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
33961579 AA-ATAATTTAATT
1 AATATAATTAAATT
33961592 AA
1 AA
33961594 CTGTTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:33964382 original size:23 final size:25
Alignment explanation
Indices: 33964338--33964405 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
33964328 TGAAATTGAA
**
33964338 ATATATTAAAATTGAATTAAATATT
1 ATATATTAAAATAAAATTAAATATT
*
33964363 A-ATATTAAAA-AAAATTAAATCTT
1 ATATATTAAAATAAAATTAAATATT
*
33964386 ATTATTTTAAAATAAAATTA
1 A-TATATTAAAATAAAATTA
33964406 TTTAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 11 0.31
24 9 0.25
25 9 0.25
26 7 0.19
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (25 bp):
ATATATTAAAATAAAATTAAATATT
Found at i:33964405 original size:16 final size:16
Alignment explanation
Indices: 33964386--33964418 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33964376 ATTAAATCTT
*
33964386 ATTATTTTAAAATAAA
1 ATTATTTAAAAATAAA
33964402 ATTATTTAAAAATAAA
1 ATTATTTAAAAATAAA
33964418 A
1 A
33964419 ATATCATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATTTAAAAATAAA
Found at i:33964930 original size:23 final size:25
Alignment explanation
Indices: 33964886--33964953 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
33964876 TGAAATTGAA
**
33964886 ATATATTAAAATTGAATTAAATATT
1 ATATATTAAAATAAAATTAAATATT
*
33964911 A-ATATTAAAA-AAAATTAAATCTT
1 ATATATTAAAATAAAATTAAATATT
*
33964934 ATTATTTTAAAATAAAATTA
1 A-TATATTAAAATAAAATTA
33964954 TTTAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 11 0.31
24 9 0.25
25 9 0.25
26 7 0.19
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (25 bp):
ATATATTAAAATAAAATTAAATATT
Found at i:33964953 original size:16 final size:16
Alignment explanation
Indices: 33964934--33964966 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33964924 ATTAAATCTT
*
33964934 ATTATTTTAAAATAAA
1 ATTATTTAAAAATAAA
33964950 ATTATTTAAAAATAAA
1 ATTATTTAAAAATAAA
33964966 A
1 A
33964967 ATATCATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATTTAAAAATAAA
Found at i:33965026 original size:548 final size:547
Alignment explanation
Indices: 33963991--33965085 Score: 2172
Period size: 548 Copynumber: 2.0 Consensus size: 547
33963981 ACATGGAAAA
33963991 ATTAAATTTATTGCATAATCCATAATTTATTATTTTTTAAAAAACAACAATATCATAACCCATTA
1 ATTAAATTTATTGCATAATCCATAATTTATTATTTTTTAAAAAACAACAATATCATAACCCATTA
*
33964056 TTACTTGGTTTCAAAGTTTTTGTTATAAATAGTTTGTTTTGTTCCATCTTAATGAAATTTAAATT
66 TTACTTGGTTTCAAAGTTTTTGTTATAAATAGTTTGTTTTGTTCCATCTTAATAAAATTTAAATT
33964121 CAAATTGGATCAAATAAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTTA
131 CAAATTGGATCAAATAAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTTA
33964186 TCTAATGTTGAATTGAAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTGA
196 TCTAATGTTGAATTGAAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTGA
33964251 TTTTTTACCTTTAATAATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATAA
261 TTTTTTACCTTTAATAATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATAA
33964316 TAAAATAAATTATGAAATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTAA
326 TAAAATAAATTATGAAATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTAA
33964381 ATCTTATTATTTTAAAATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTTA
391 ATCTTATTATTTTAAAATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTTA
33964446 ATTAGAAAATTTTAGACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTATC
456 ATTAGAAAATTTTAGACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTATC
33964511 CACTATCCAGCACATCAATGCCTGTGC
521 CACTATCCAGCACATCAATGCCTGTGC
33964538 ATTAAATTTATTGCATAATCCATAATTTATTATTTTTTAAAAAACAACAATATCATAACCCATTA
1 ATTAAATTTATTGCATAATCCATAATTTATTATTTTTTAAAAAACAACAATATCATAACCCATTA
33964603 TTACTTGGTTTCAAAGTTTTTGTTATAAATAGTTTGTTTTGTTCCATCTTAATAAAATTTAAATT
66 TTACTTGGTTTCAAAGTTTTTGTTATAAATAGTTTGTTTTGTTCCATCTTAATAAAATTTAAATT
33964668 CAAATTGGATCAAATTAAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTT
131 CAAATTGGATCAAA-TAAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTT
33964733 ATCTAATGTTGAATTGAAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTG
195 ATCTAATGTTGAATTGAAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTG
33964798 ATTTTTTACCTTTAATAATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATA
260 ATTTTTTACCTTTAATAATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATA
33964863 ATAAAATAAATTATGAAATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTA
325 ATAAAATAAATTATGAAATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTA
33964928 AATCTTATTATTTTAAAATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTT
390 AATCTTATTATTTTAAAATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTT
33964993 AATTAGAAAATTTTAGACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTAT
455 AATTAGAAAATTTTAGACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTAT
33965058 CCACTATCCAGCACATCAATGCCTGTGC
520 CCACTATCCAGCACATCAATGCCTGTGC
33965086 CAGGAGCAAA
Statistics
Matches: 546, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
547 143 0.26
548 403 0.74
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (547 bp):
ATTAAATTTATTGCATAATCCATAATTTATTATTTTTTAAAAAACAACAATATCATAACCCATTA
TTACTTGGTTTCAAAGTTTTTGTTATAAATAGTTTGTTTTGTTCCATCTTAATAAAATTTAAATT
CAAATTGGATCAAATAAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTTA
TCTAATGTTGAATTGAAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTGA
TTTTTTACCTTTAATAATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATAA
TAAAATAAATTATGAAATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTAA
ATCTTATTATTTTAAAATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTTA
ATTAGAAAATTTTAGACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTATC
CACTATCCAGCACATCAATGCCTGTGC
Found at i:33965339 original size:23 final size:25
Alignment explanation
Indices: 33965295--33965362 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
33965285 TGAAATTGAA
**
33965295 ATATATTAAAATTGAATTAAATATT
1 ATATATTAAAATAAAATTAAATATT
*
33965320 A-ATATTAAAA-AAAATTAAATCTT
1 ATATATTAAAATAAAATTAAATATT
*
33965343 ATTATTTTAAAATAAAATTA
1 A-TATATTAAAATAAAATTA
33965363 TTTAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 11 0.31
24 9 0.25
25 9 0.25
26 7 0.19
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (25 bp):
ATATATTAAAATAAAATTAAATATT
Found at i:33965362 original size:16 final size:16
Alignment explanation
Indices: 33965343--33965375 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33965333 ATTAAATCTT
*
33965343 ATTATTTTAAAATAAA
1 ATTATTTAAAAATAAA
33965359 ATTATTTAAAAATAAA
1 ATTATTTAAAAATAAA
33965375 A
1 A
33965376 ATATCATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATTTAAAAATAAA
Found at i:33965443 original size:409 final size:409
Alignment explanation
Indices: 33964684--33965502 Score: 1638
Period size: 409 Copynumber: 2.0 Consensus size: 409
33964674 GGATCAAATT
33964684 AAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTTATCTAATGTTGAATTG
1 AAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTTATCTAATGTTGAATTG
33964749 AAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTGATTTTTTACCTTTAAT
66 AAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTGATTTTTTACCTTTAAT
33964814 AATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATAATAAAATAAATTATGA
131 AATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATAATAAAATAAATTATGA
33964879 AATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTAAATCTTATTATTTTAA
196 AATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTAAATCTTATTATTTTAA
33964944 AATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTTAATTAGAAAATTTTAG
261 AATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTTAATTAGAAAATTTTAG
33965009 ACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTATCCACTATCCAGCACAT
326 ACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTATCCACTATCCAGCACAT
33965074 CAATGCCTGTGCCAGGAGC
391 CAATGCCTGTGCCAGGAGC
33965093 AAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTTATCTAATGTTGAATTG
1 AAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTTATCTAATGTTGAATTG
33965158 AAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTGATTTTTTACCTTTAAT
66 AAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTGATTTTTTACCTTTAAT
33965223 AATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATAATAAAATAAATTATGA
131 AATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATAATAAAATAAATTATGA
33965288 AATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTAAATCTTATTATTTTAA
196 AATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTAAATCTTATTATTTTAA
33965353 AATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTTAATTAGAAAATTTTAG
261 AATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTTAATTAGAAAATTTTAG
33965418 ACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTATCCACTATCCAGCACAT
326 ACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTATCCACTATCCAGCACAT
33965483 CAATGCCTGTGCCAGGAGC
391 CAATGCCTGTGCCAGGAGC
33965502 A
1 A
33965503 GGAGCTAATA
Statistics
Matches: 410, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
409 410 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (409 bp):
AAAAAATTTAAGTTTTTCATATTATGCAAACTGAAATCAATAGAGATTTATCTAATGTTGAATTG
AAGTCATCTATCGGATTTGATGAAGAAAAACACGAATTAATTTGTCTTGATTTTTTACCTTTAAT
AATATAAGTCATAAGTGATGGAGGCTATAATTTTTTCATTAAAAGCATAATAAAATAAATTATGA
AATTGAAATATATTAAAATTGAATTAAATATTAATATTAAAAAAAATTAAATCTTATTATTTTAA
AATAAAATTATTTAAAAATAAAAATATCATTATGCATTCAATAAATTTTAATTAGAAAATTTTAG
ACCATGCATTAAATAATGTTTTTTTTGAAGATTTAATGCGTTAAACTATCCACTATCCAGCACAT
CAATGCCTGTGCCAGGAGC
Found at i:33969163 original size:20 final size:21
Alignment explanation
Indices: 33969124--33969163 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33969114 AACAAAAGGT
*
33969124 AATTTGAACATTTTATGACTA
1 AATTTGAACATTTTACGACTA
*
33969145 AATTTTAACA-TTTACGACT
1 AATTTGAACATTTTACGACT
33969164 TATTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
AATTTGAACATTTTACGACTA
Found at i:33970054 original size:28 final size:28
Alignment explanation
Indices: 33970000--33970054 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
33969990 ACAAATCGAG
* *
33970000 TAATCGAGCTTATATATACCTTAATTCA
1 TAATCGAGCTTATACATAACTTAATTCA
* * *
33970028 TAATTGAGCTTATGCATAACTTGATTC
1 TAATCGAGCTTATACATAACTTAATTC
33970055 GATTAACTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (28 bp):
TAATCGAGCTTATACATAACTTAATTCA
Found at i:33992573 original size:646 final size:647
Alignment explanation
Indices: 33991331--33992624 Score: 2581
Period size: 646 Copynumber: 2.0 Consensus size: 647
33991321 ATTTGATGCT
33991331 CCTAATCCTTTAAATTCATGTTTCTATGCTTAGGAGAACATTTGGGAGCGAGAAGAGTGAAAAAT
1 CCTAATCCTTTAAATTCATGTTTCTATGCTTAGGAGAACATTTGGGAGCGAGAAGAGTGAAAAAT
33991396 GAGCCAAATTCAGACAAAATAGCTATTTTCAGGGTCCACACGCCCTGCGCATTTCCACATGGGCT
66 GAGCCAAATTCAGACAAAATAGCTATTTTCAGGGTCCACACGCCCTGCGCATTTCCACATGGGCT
33991461 GGACACATGCCCATGTGCTATCCCGTTCGATTTCACACCGTACTTCCCATATTTGTGGAAAAATC
131 GGACACATGCCCATGTGCTATCCCGTTCGATTTCACACCGTACTTCCCATATTTGTGGAAAAATC
33991526 TAATTTATAGGGTTTCTTAGCATTCTAAATTCTATAAATACCCATTAGAAGAAGATATAAAGGGG
196 TAATTTATAGGGTTTCTTAGCATTCTAAATTCTATAAATACCCATTAGAAGAAGATATAAAGGGG
33991591 TAATCAAGGAAGATCGAAGAAAACACAAGAAGAACACCATTGGAATCAACTCGGAAGCGGATCTC
261 TAATCAAGGAAGATCGAAGAAAACACAAGAAGAACACCATTGGAATCAACTCGGAAGCGGATCTC
33991656 CATCAAGATCTAAGATCTCCTTTTAATTTCTTTCGAAGTTTTATTGAGTTTCTTTATGTCTTGTG
326 CATCAAGATCTAAGATCTCCTTTTAATTTCTTTCGAAGTTTTATTGAGTTTCTTTATGTCTTGTG
33991721 ATTATTCTGACTTTGAGATTTTTCTATACAGGATTATGAACTAAATTCCCTAGATACCTAGGGAA
391 ATTATTCTGACTTTGAGATTTTTCTATACAGGATTATGAACTAAATTCCCTAGATACCTAGGGAA
33991786 AATGAAACCTATGATGAATCCTTTTATTTAATTTCTATTTTTACGCGATAAATACTTGATTCTTG
456 AATGAAACCTATGATGAATCCTTTTATTTAATTTCTATTTTTACGCGATAAATACTTGATTCTTG
33991851 TTCTCAATTATGTATGCTTATTTCATAGTTTAATATTTCCGGGATATTAATTCTTGTTCAATGTG
521 TTCTCAATTATGTATGCTTATTTCATAGTTTAATATTTCCGGGATATTAATTCTTGTTCAATGTG
33991916 CTTATTTCAGTGGAGGAAAATTCCCTGTTTAATAGTACATCTAGCATAATTGAGTGGCGTTG
586 CTTATTTCAGTGGAGGAAAATTCCCTGTTTAATAGTACATCTAGCATAATTGAGTGGCGTTG
33991978 CCTAATCCTTT-AATTCATGTTTCTATGCTTAGGAGAACATTTGGGAGCGAGAAGAGTGAAAAAT
1 CCTAATCCTTTAAATTCATGTTTCTATGCTTAGGAGAACATTTGGGAGCGAGAAGAGTGAAAAAT
33992042 GAGCCAAATTCAGACAAAATAGCTATTTTCAGGGTCCACACGCCCTGCGCATTTCCACATGGGCT
66 GAGCCAAATTCAGACAAAATAGCTATTTTCAGGGTCCACACGCCCTGCGCATTTCCACATGGGCT
33992107 GGACACATGCCCATGTGCTATCCCGTTCGATTTCACACCGTACTTCCCATATTTGTGGAAAAATC
131 GGACACATGCCCATGTGCTATCCCGTTCGATTTCACACCGTACTTCCCATATTTGTGGAAAAATC
33992172 TAATTTATAGGGTTTCTTAGCATTCTAAATTCTATAAATACCCATTAGAAGAAGATATAAAGGGG
196 TAATTTATAGGGTTTCTTAGCATTCTAAATTCTATAAATACCCATTAGAAGAAGATATAAAGGGG
33992237 TAATCAAGGAAGATCGAAGAAAACACAAGAAGAACACCATTGGAATCAACTCGGAAGCGGATCTC
261 TAATCAAGGAAGATCGAAGAAAACACAAGAAGAACACCATTGGAATCAACTCGGAAGCGGATCTC
33992302 CATCAAGATCTAAGATCTCCTTTTAATTTCTTTCGAAGTTTTATTGAGTTTCTTTATGTCTTGTG
326 CATCAAGATCTAAGATCTCCTTTTAATTTCTTTCGAAGTTTTATTGAGTTTCTTTATGTCTTGTG
33992367 ATTATTCTGACTTTGAGATTTTTCTATACAGGATTATGAACTAAATTCCCTAGATACCTAGGGAA
391 ATTATTCTGACTTTGAGATTTTTCTATACAGGATTATGAACTAAATTCCCTAGATACCTAGGGAA
33992432 AATGAAACCTATGATGAATCCTTTTATTTAATTTCTATTTTTACGCGATAAATACTTGATTCTTG
456 AATGAAACCTATGATGAATCCTTTTATTTAATTTCTATTTTTACGCGATAAATACTTGATTCTTG
33992497 TTCTCAATTATGTATGCTTATTTCATAGTTTAATATTTCCGGGATATTAATTCTTGTTCAATGTG
521 TTCTCAATTATGTATGCTTATTTCATAGTTTAATATTTCCGGGATATTAATTCTTGTTCAATGTG
33992562 CTTATTTCAGTGGAGGAAAATTCCCTGTTTAATAGTACATCTAGCATAATTGAGTGGCGTTG
586 CTTATTTCAGTGGAGGAAAATTCCCTGTTTAATAGTACATCTAGCATAATTGAGTGGCGTTG
33992624 C
1 C
33992625 ATGAAATCCT
Statistics
Matches: 647, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
646 636 0.98
647 11 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (647 bp):
CCTAATCCTTTAAATTCATGTTTCTATGCTTAGGAGAACATTTGGGAGCGAGAAGAGTGAAAAAT
GAGCCAAATTCAGACAAAATAGCTATTTTCAGGGTCCACACGCCCTGCGCATTTCCACATGGGCT
GGACACATGCCCATGTGCTATCCCGTTCGATTTCACACCGTACTTCCCATATTTGTGGAAAAATC
TAATTTATAGGGTTTCTTAGCATTCTAAATTCTATAAATACCCATTAGAAGAAGATATAAAGGGG
TAATCAAGGAAGATCGAAGAAAACACAAGAAGAACACCATTGGAATCAACTCGGAAGCGGATCTC
CATCAAGATCTAAGATCTCCTTTTAATTTCTTTCGAAGTTTTATTGAGTTTCTTTATGTCTTGTG
ATTATTCTGACTTTGAGATTTTTCTATACAGGATTATGAACTAAATTCCCTAGATACCTAGGGAA
AATGAAACCTATGATGAATCCTTTTATTTAATTTCTATTTTTACGCGATAAATACTTGATTCTTG
TTCTCAATTATGTATGCTTATTTCATAGTTTAATATTTCCGGGATATTAATTCTTGTTCAATGTG
CTTATTTCAGTGGAGGAAAATTCCCTGTTTAATAGTACATCTAGCATAATTGAGTGGCGTTG
Found at i:33994631 original size:34 final size:34
Alignment explanation
Indices: 33994557--33994659 Score: 95
Period size: 34 Copynumber: 3.0 Consensus size: 34
33994547 ATAAAACATT
* * * *
33994557 AGTTCATA-TGATATAATAGTTCATACCAAATAGC
1 AGTTCATACT-ATATAACAGTTCATAACACATAAC
33994591 AGTTCATACTATATAACAGTTCATAACACATAAC
1 AGTTCATACTATATAACAGTTCATAACACATAAC
* * *
33994625 ATTTCATAGC-ACATAACAGATT-ATATCACATAAC
1 AGTTCATA-CTATATAACAG-TTCATAACACATAAC
33994659 A
1 A
33994660 ATGCATACCA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 55 0.93
35 4 0.07
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (34 bp):
AGTTCATACTATATAACAGTTCATAACACATAAC
Found at i:33994654 original size:17 final size:17
Alignment explanation
Indices: 33994569--33994659 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 17
33994559 TTCATATGAT
* * *
33994569 ATAATAGTTCATACCAA
1 ATAACAGTTCATAACAC
* *
33994586 ATAGCAGTTCAT-ACTAT
1 ATAACAGTTCATAAC-AC
33994603 ATAACAGTTCATAACAC
1 ATAACAGTTCATAACAC
* *
33994620 ATAACATTTCATAGCAC
1 ATAACAGTTCATAACAC
*
33994637 ATAACAGATT-ATATCAC
1 ATAACAG-TTCATAACAC
33994654 ATAACA
1 ATAACA
33994660 ATGCATACCA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
16 1 0.02
17 56 0.92
18 4 0.07
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.29
Consensus pattern (17 bp):
ATAACAGTTCATAACAC
Found at i:33994671 original size:17 final size:16
Alignment explanation
Indices: 33994611--33994672 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
33994601 ATATAACAGT
*
33994611 TCATAACACATAACATT
1 TCATAACACATAACA-A
*
33994628 TCATAGCACATAACAGA
1 TCATAACACATAACA-A
* *
33994645 TTATATCACATAACAA
1 TCATAACACATAACAA
*
33994661 TGCATACCACAT
1 T-CATAACACAT
33994673 CATAACTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
16 2 0.05
17 35 0.95
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (16 bp):
TCATAACACATAACAA
Found at i:33994672 original size:34 final size:34
Alignment explanation
Indices: 33994603--33994672 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
33994593 TTCATACTAT
* * *
33994603 ATAACAGTTCATAACACATAACATTTCATAGCAC
1 ATAACAGTTCATAACACATAACAATGCATACCAC
*
33994637 ATAACAGATT-ATATCACATAACAATGCATACCAC
1 ATAACAG-TTCATAACACATAACAATGCATACCAC
33994671 AT
1 AT
33994673 CATAACTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (34 bp):
ATAACAGTTCATAACACATAACAATGCATACCAC
Found at i:33995679 original size:35 final size:33
Alignment explanation
Indices: 33995614--33995679 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 33
33995604 CAAGCATTAC
*
33995614 AAAACCCATATACATATTTATTATATATATAAT
1 AAAACCCATATACATATTTATTATACATATAAT
*
33995647 AAAACCCACGTATATATATTGTA-TATACATATA
1 AAAACCCA--TATACATATT-TATTATACATATA
33995680 CCTTTTTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 8 0.29
35 18 0.64
36 2 0.07
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (33 bp):
AAAACCCATATACATATTTATTATACATATAAT
Found at i:33998419 original size:5 final size:5
Alignment explanation
Indices: 33998409--33998442 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
33998399 CAAAAATTAG
*
33998409 AAAGA AAAGA AAAGA AAAGA AAA-C AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
33998443 GAAGGAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:33998436 original size:14 final size:15
Alignment explanation
Indices: 33998409--33998442 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
33998399 CAAAAATTAG
33998409 AAAGAAAAGAAAAGA
1 AAAGAAAAGAAAAGA
*
33998424 AAAGAAAA-CAAAGA
1 AAAGAAAAGAAAAGA
33998438 AAAGA
1 AAAGA
33998443 GAAGGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAGA
Found at i:34000577 original size:42 final size:42
Alignment explanation
Indices: 34000531--34000626 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
34000521 GCGACATGGC
* * * **
34000531 CGTGTGACCCAAGTCAGCGAGTTACACGGGTTGGGACACGGT
1 CGTGTGTCCCAAGTCAACGAGTTACACGGGCTGGGACACAAT
* * *
34000573 CGTGTGTCTCAAGTCAATGAGTTACATGGGCTGGGACACAAT
1 CGTGTGTCCCAAGTCAACGAGTTACACGGGCTGGGACACAAT
34000615 CGTGTGTCCCAA
1 CGTGTGTCCCAA
34000627 CTTCAAAAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (42 bp):
CGTGTGTCCCAAGTCAACGAGTTACACGGGCTGGGACACAAT
Found at i:34011283 original size:68 final size:69
Alignment explanation
Indices: 34011140--34011284 Score: 170
Period size: 68 Copynumber: 2.1 Consensus size: 69
34011130 TTAATCACTT
* * * * *
34011140 TAATATTAAATTAATATAATACTTTTCAAGATAAATATTAAATTGAATTTAATGTTAAGATAATC
1 TAATATTAAATTAATAAAATACTATTCAAGATAAATATTAAATTAAATTTAATGTTAAAATAATA
**
34011205 AATT
66 AAAA
* *
34011209 TGATATTAAATTAATAAAATACTATT-AAGATAAGTATTAAATTAAATTTAA-GATTAAAACT-A
1 TAATATTAAATTAATAAAATACTATTCAAGATAAATATTAAATTAAATTTAATG-TTAAAA-TAA
34011271 TAAAAA
64 TAAAAA
34011277 TAATATTA
1 TAATATTA
34011285 CTTTTGGAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
67 1 0.02
68 39 0.61
69 24 0.38
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATACTATTCAAGATAAATATTAAATTAAATTTAATGTTAAAATAATA
AAAA
Found at i:34025519 original size:12 final size:10
Alignment explanation
Indices: 34025493--34025535 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
34025483 AACTAAATCC
34025493 TTTCTCTCAA
1 TTTCTCTCAA
34025503 TTTCTCTCTAA
1 TTTCTCTC-AA
34025514 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
34025526 TTCCTCTCAA
1 TTTCTCTCAA
34025536 ATTGCTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:34025554 original size:11 final size:11
Alignment explanation
Indices: 34025493--34025552 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
34025483 AACTAAATCC
34025493 TTTCTCTC-AA
1 TTTCTCTCAAA
*
34025503 TTTCTCTCTAA
1 TTTCTCTCAAA
34025514 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
34025526 TTCCTCTCAAA
1 TTTCTCTCAAA
* *
34025537 TTGCTATCAAA
1 TTTCTCTCAAA
34025548 TTTCT
1 TTTCT
34025553 ATTTAAAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
10 8 0.19
11 25 0.58
12 10 0.23
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.47
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:34027699 original size:21 final size:22
Alignment explanation
Indices: 34027653--34027700 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
34027643 CCAACACCGA
34027653 CAACCAGATCCCCTACCGGATG
1 CAACCAGATCCCCTACCGGATG
34027675 -AACCAGGATCCCC-ACCGGA-G
1 CAACCA-GATCCCCTACCGGATG
34027695 CAACCA
1 CAACCA
34027701 CAACCCCCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.31, C:0.42, G:0.19, T:0.08
Consensus pattern (22 bp):
CAACCAGATCCCCTACCGGATG
Found at i:34027887 original size:49 final size:49
Alignment explanation
Indices: 34027833--34027953 Score: 224
Period size: 49 Copynumber: 2.5 Consensus size: 49
34027823 GTTTATATTA
34027833 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
*
34027882 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
*
34027931 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
34027954 AATATTCTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
Found at i:34027958 original size:42 final size:43
Alignment explanation
Indices: 34027836--34028041 Score: 130
Period size: 49 Copynumber: 4.5 Consensus size: 43
34027826 TATATTAATG
* *
34027836 TAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTCATG
1 TAATAAAATACAAAATAG-TTA-----AATATTTTGATATTATTTCATT
34027885 TAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTCATT
1 TAATAAAATACAAAATAG-TTA-----AATATTTTGATATTATTTCATT
* * * *
34027934 TAATAAAATACAAAATAGTT-AATATTCTTAATAATAGAAATTCTTT
1 TAATAAAATACAAAATAGTTAAATATT-TTGAT-AT--TATTTCATT
* * * * * *
34027980 TAA-ATAAGACAATAT-GTTAAACACTTGGCATATTATTTCATT
1 TAATAAAATACAAAATAGTTAAATATTTTG-ATATTATTTCATT
34028022 TAATAAAATACAAAATAGTT
1 TAATAAAATACAAAATAGTT
34028042 TTGAATAAAG
Statistics
Matches: 130, Mismatches: 19, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
42 15 0.12
43 13 0.10
44 11 0.08
45 15 0.12
46 9 0.07
48 2 0.02
49 65 0.50
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (43 bp):
TAATAAAATACAAAATAGTTAAATATTTTGATATTATTTCATT
Found at i:34028728 original size:20 final size:20
Alignment explanation
Indices: 34028703--34028747 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
34028693 CACTACCTTA
34028703 CTACACCATACATGGCCTCC
1 CTACACCATACATGGCCTCC
34028723 CTACACCATACATGGCCTCC
1 CTACACCATACATGGCCTCC
34028743 CTACA
1 CTACA
34028748 TCTGGCCTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.44, G:0.09, T:0.20
Consensus pattern (20 bp):
CTACACCATACATGGCCTCC
Found at i:34030115 original size:59 final size:59
Alignment explanation
Indices: 34030049--34030168 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
34030039 TGGATTTAAC
*
34030049 CACGTGGTAGTTAACGTTGTTATTGATGCTATGTTGTTTCAAAGCACCGATAAAACTAT
1 CACGTGGTAGTTAACGTTGTTATTGATGCTATGTTGTTTCAAAGCACCAATAAAACTAT
*
34030108 CACGTGGTAGTTAACGTTGTTATTGATGTTATGTTGTTTCAAAGCACCAATAAAACTAT
1 CACGTGGTAGTTAACGTTGTTATTGATGCTATGTTGTTTCAAAGCACCAATAAAACTAT
34030167 CA
1 CA
34030169 TTATTGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (59 bp):
CACGTGGTAGTTAACGTTGTTATTGATGCTATGTTGTTTCAAAGCACCAATAAAACTAT
Found at i:34031491 original size:125 final size:124
Alignment explanation
Indices: 34031221--34031507 Score: 475
Period size: 125 Copynumber: 2.3 Consensus size: 124
34031211 CCCAAACATG
*
34031221 CTACTGTAGCAAAAACGCGTCCATGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
34031286 TTGAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTTGGAATTATTTTTTCAGGAC
66 TTCAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
34031345 CTACTGTAGCAAAAGCACGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
34031410 TTCAAGCGTTTTTTATACTATTTTCTCATAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTCAAGC-ATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
34031470 CTACTGTAGCAAAAACGCGTCCACGTAGGAGCGATTTC
1 CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTC
34031508 CTTAATAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 68 0.45
125 82 0.55
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTCAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:34031682 original size:9 final size:9
Alignment explanation
Indices: 34031670--34031720 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
34031660 ATTTTTCTCC
34031670 AAAACCCTA
1 AAAACCCTA
*
34031679 AAAATCCTA
1 AAAACCCTA
34031688 AAAACCC--
1 AAAACCCTA
34031695 AAAACCCT-
1 AAAACCCTA
34031703 --AACCCTA
1 AAAACCCTA
34031710 AAAACCC-A
1 AAAACCCTA
34031718 AAA
1 AAA
34031721 CCTAACGTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 6 0.17
7 7 0.19
8 4 0.11
9 19 0.53
ACGTcount: A:0.57, C:0.33, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAACCCTA
Found at i:34031724 original size:21 final size:22
Alignment explanation
Indices: 34031684--34031726 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
34031674 CCCTAAAAAT
34031684 CCTAAAAACCCAAAACCCTAAC
1 CCTAAAAACCCAAAACCCTAAC
34031706 CCTAAAAACCCAAAA-CCTAAC
1 CCTAAAAACCCAAAACCCTAAC
34031727 GTGGAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (22 bp):
CCTAAAAACCCAAAACCCTAAC
Found at i:34038804 original size:34 final size:31
Alignment explanation
Indices: 34038736--34038794 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
34038726 TAGCTCAATA
*
34038736 ATTTAAATAAAAACTTTCGAATAATTTAATC
1 ATTTAAATAAAAAATTTCGAATAATTTAATC
* *
34038767 ATTTAAATAAAAAATTTTGAATAGTTTA
1 ATTTAAATAAAAAATTTCGAATAATTTA
34038795 TTAATCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTTAAATAAAAAATTTCGAATAATTTAATC
Found at i:34049138 original size:95 final size:95
Alignment explanation
Indices: 34049024--34049219 Score: 304
Period size: 95 Copynumber: 2.1 Consensus size: 95
34049014 AAGATCTGAA
* *
34049024 ATCTTCAATCTATTGCACTGCCAACCAAAGAGATAGAATTA-CTGGCTTCAATATACTCCACTGT
1 ATCTTCAATCTATTCCACTGCCAACCAAAGAAATAGAATTATC-GGCTTCAATATACTCCACTGT
* *
34049088 AGTCACAGGGAGGTAAAATCTGTCATCTTCG
65 AGCCACAGGGAGGTAAAATCTGCCATCTTCG
** *
34049119 ATCTTCAATCTATTCCACTGCCAACCAGGGAAATAGAATTATCGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAAAGAAATAGAATTATCGGCTTCAATATACTCCACTGTA
*
34049184 GCCTCAGGGAGGTAAAATCTGCCATCTTCG
66 GCCACAGGGAGGTAAAATCTGCCATCTTCG
34049214 ATCTTC
1 ATCTTC
34049220 TCCACTTAGG
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 91 0.99
96 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAACCAAAGAAATAGAATTATCGGCTTCAATATACTCCACTGTA
GCCACAGGGAGGTAAAATCTGCCATCTTCG
Found at i:34049493 original size:99 final size:99
Alignment explanation
Indices: 34049346--34050070 Score: 1114
Period size: 99 Copynumber: 7.3 Consensus size: 99
34049336 CGTCGTAGCT
* * * * *
34049346 TCAATCTATTAAATTGCAATGTTGGGGAAGCAGGATTCACTGTTGTAGCTTCAATTTGTTCTGCT
1 TCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCTGTTGTAGCTTCAATCTGTTCCGCT
* *
34049411 GCATCGCCTTGAAGTAAGATTCATCGTTGTGGCC
66 GCATCGCCTGGAAGTAAGATTCACCGTTGTGGCC
* *
34049445 TCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCGCTGTTGTAGCTTCAATCTGTTCCGTT
1 TCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCTGTTGTAGCTTCAATCTGTTCCGCT
*
34049510 GCATCGCCTGGAAGTAAGATTCACCATTGTGGCC
66 GCATCGCCTGGAAGTAAGATTCACCGTTGTGGCC
* * *
34049544 TCAATATTTTAAATTGCAGTGTCGGGGAAGCATGATTCG-TCGTTGTAGCTTCAATCTGTTCCGC
1 TCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCT-GTTGTAGCTTCAATCTGTTCCGC
* *
34049608 TGCATTGCCTGGAAGTAAGATTCGCCGTTGTGGCC
65 TGCATCGCCTGGAAGTAAGATTCACCGTTGTGGCC
* *
34049643 TCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCGCTGTTGTAGCTTCAATCTGTTCCGTT
1 TCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCTGTTGTAGCTTCAATCTGTTCCGCT
*
34049708 GCATCGCCTGGAAGTAAGATTCACCATTGTGGCC
66 GCATCGCCTGGAAGTAAGATTCACCGTTGTGGCC
* * *
34049742 TCAATATTTTAAATTGCAGTGTCGGGGAAGCATGATTCG-TCGTTGTAGCTTCAATCTGTTCCGC
1 TCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCT-GTTGTAGCTTCAATCTGTTCCGC
* *
34049806 TGCATTGCCTGGAAGTAAGATTCGCCGTTGTGGCC
65 TGCATCGCCTGGAAGTAAGATTCACCGTTGTGGCC
* *
34049841 TCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCGCTGTTGTAGCTTCAATCTGTTCCGTT
1 TCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCTGTTGTAGCTTCAATCTGTTCCGCT
*
34049906 GCATCGCCTGGAAGTAAGATTCACCATTGTGGCC
66 GCATCGCCTGGAAGTAAGATTCACCGTTGTGGCC
* * *
34049940 TCAATATTTTAAATTGCAGTGTCGGGGAAGCATGATTCG-TCGTTGTAGCTTCAATCTGTTCCGC
1 TCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCT-GTTGTAGCTTCAATCTGTTCCGC
* *
34050004 TGCATTGCCTGGAAGTAAGATTCGCCGTTGTGGCC
65 TGCATCGCCTGGAAGTAAGATTCACCGTTGTGGCC
*
34050039 TCAATCTTTTTAATTGCAATGTCGGGGAAGCA
1 TCAATCTTTTAAATTGCAATGTCGGGGAAGCA
34050071 NNNNNNNNNN
Statistics
Matches: 568, Mismatches: 53, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
98 3 0.01
99 563 0.99
100 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (99 bp):
TCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCTGTTGTAGCTTCAATCTGTTCCGCT
GCATCGCCTGGAAGTAAGATTCACCGTTGTGGCC
Found at i:34049659 original size:198 final size:198
Alignment explanation
Indices: 34049354--34050070 Score: 1328
Period size: 198 Copynumber: 3.6 Consensus size: 198
34049344 CTTCAATCTA
* * * * * * *
34049354 TTAAATTGCAATGTTGGGGAAGCAGGATTC-ACTGTTGTAGCTTCAATTTGTTCTGCTGCATCGC
1 TTAAATTGCAGTGTCGGGGAAGCATGATTCGTC-GTTGTAGCTTCAATCTGTTCCGCTGCATTGC
* **
34049418 CTTGAAGTAAGATTCATCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTC
65 CTGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTC
34049483 GCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCACCATTGTGGCCTCAA
130 GCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCACCATTGTGGCCTCAA
34049548 TATT
195 TATT
34049552 TTAAATTGCAGTGTCGGGGAAGCATGATTCGTCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCC
1 TTAAATTGCAGTGTCGGGGAAGCATGATTCGTCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCC
34049617 TGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCG
66 TGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCG
34049682 CTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCACCATTGTGGCCTCAAT
131 CTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCACCATTGTGGCCTCAAT
34049747 ATT
196 ATT
34049750 TTAAATTGCAGTGTCGGGGAAGCATGATTCGTCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCC
1 TTAAATTGCAGTGTCGGGGAAGCATGATTCGTCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCC
34049815 TGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCG
66 TGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCG
34049880 CTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCACCATTGTGGCCTCAAT
131 CTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCACCATTGTGGCCTCAAT
34049945 ATT
196 ATT
34049948 TTAAATTGCAGTGTCGGGGAAGCATGATTCGTCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCC
1 TTAAATTGCAGTGTCGGGGAAGCATGATTCGTCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCC
34050013 TGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCA
66 TGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCA
34050071 NNNNNNNNNN
Statistics
Matches: 508, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
198 507 1.00
199 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (198 bp):
TTAAATTGCAGTGTCGGGGAAGCATGATTCGTCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCC
TGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCG
CTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCACCATTGTGGCCTCAAT
ATT
Found at i:34058581 original size:96 final size:96
Alignment explanation
Indices: 34058469--34058660 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
34058459 GAGAGCCGCC
34058469 GCCGCGCCACCGCGCCGGTCACCGTACACAGTGGCCGAAAAAATCAAAAGAAGGTATTTTTTTGC
1 GCCGCGCCACCGCGCCGGTCACCGTACACAGTGGCCGAAAAAATCAAAAGAAGGTATTTTTTTGC
34058534 CCTTTTTTTATATGTTATAAGTTATATATAT
66 CCTTTTTTTATATGTTATAAGTTATATATAT
34058565 GCCGCGCCACCGCGCCGGTCACCGTACACAGTGGCCGAAAAAATCAAAAGAAGGTATTTTTTTGC
1 GCCGCGCCACCGCGCCGGTCACCGTACACAGTGGCCGAAAAAATCAAAAGAAGGTATTTTTTTGC
34058630 CCTTTTTTTATATGTTATAAGTTATATATAT
66 CCTTTTTTTATATGTTATAAGTTATATATAT
34058661 AGTTTTTTTA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (96 bp):
GCCGCGCCACCGCGCCGGTCACCGTACACAGTGGCCGAAAAAATCAAAAGAAGGTATTTTTTTGC
CCTTTTTTTATATGTTATAAGTTATATATAT
Found at i:34082397 original size:38 final size:38
Alignment explanation
Indices: 34082355--34082551 Score: 169
Period size: 38 Copynumber: 5.1 Consensus size: 38
34082345 ATAGAAACGT
* * *
34082355 GGTGATATTCGGGCTCTATGCCTAGCAGGCTTTGTACC
1 GGTGATATTCGAGCTCCATGCCTAGCAGGCTTTGTGCC
* * * *
34082393 GGTGATATTTGAGCTCCATTCCTAGCAGGTTTTGTGTC
1 GGTGATATTCGAGCTCCATGCCTAGCAGGCTTTGTGCC
* * *
34082431 GGTGATATTCGGGCTCCGTGTCTAGCAGGCTTTGTGCC
1 GGTGATATTCGAGCTCCATGCCTAGCAGGCTTTGTGCC
* * * * * *
34082469 AGTGATATTTGAGCTTCATGCCTAGCAGACTTCGTGTC
1 GGTGATATTCGAGCTCCATGCCTAGCAGGCTTTGTGCC
* *** * *
34082507 GGTGTATTATATCAAGCTTTGTGCTTAGCAGGCTTCGTGCC
1 GGTG-A-TAT-TCGAGCTCCATGCCTAGCAGGCTTTGTGCC
34082548 GGTG
1 GGTG
34082552 TGTTATATCA
Statistics
Matches: 125, Mismatches: 31, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
38 94 0.75
39 1 0.01
40 3 0.02
41 27 0.22
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.35
Consensus pattern (38 bp):
GGTGATATTCGAGCTCCATGCCTAGCAGGCTTTGTGCC
Found at i:34082481 original size:76 final size:76
Alignment explanation
Indices: 34082355--34082514 Score: 223
Period size: 76 Copynumber: 2.1 Consensus size: 76
34082345 ATAGAAACGT
* * *
34082355 GGTGATATTCGGGCTCTATGCCTAGCAGGCTTTGTACCGGTGATATTTGAGCTCCATTCCTAGCA
1 GGTGATATTCGGGCTCCATGCCTAGCAGGCTTTGTACCAGTGATATTTGAGCTCCATGCCTAGCA
** *
34082420 GGTTTTGTGTC
66 GACTTCGTGTC
* * * *
34082431 GGTGATATTCGGGCTCCGTGTCTAGCAGGCTTTGTGCCAGTGATATTTGAGCTTCATGCCTAGCA
1 GGTGATATTCGGGCTCCATGCCTAGCAGGCTTTGTACCAGTGATATTTGAGCTCCATGCCTAGCA
34082496 GACTTCGTGTC
66 GACTTCGTGTC
34082507 GGTG-TATT
1 GGTGATATT
34082515 ATATCAAGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
75 4 0.05
76 70 0.95
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.35
Consensus pattern (76 bp):
GGTGATATTCGGGCTCCATGCCTAGCAGGCTTTGTACCAGTGATATTTGAGCTCCATGCCTAGCA
GACTTCGTGTC
Found at i:34082588 original size:41 final size:41
Alignment explanation
Indices: 34082488--34082574 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
34082478 TGAGCTTCAT
* * *
34082488 GCCTAGCAGACTTCGTGTCGGTGTATTATATCAAGCTTTGT
1 GCCTAGCAGGCTTCGTGCCGGTGTATTATATCAAGCTTTGA
* * *
34082529 GCTTAGCAGGCTTCGTGCCGGTGTGTTATATCACGCTTTGA
1 GCCTAGCAGGCTTCGTGCCGGTGTATTATATCAAGCTTTGA
34082570 GCCTA
1 GCCTA
34082575 CTAGTCTTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.34
Consensus pattern (41 bp):
GCCTAGCAGGCTTCGTGCCGGTGTATTATATCAAGCTTTGA
Found at i:34084133 original size:19 final size:19
Alignment explanation
Indices: 34084109--34084148 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
34084099 ATTAATTTTT
34084109 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
34084128 ATCAAGTCAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
34084147 AT
1 AT
34084149 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:34089883 original size:9 final size:9
Alignment explanation
Indices: 34089869--34089894 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34089859 TTAAGCTCCC
34089869 GATGGATAT
1 GATGGATAT
34089878 GATGGATAT
1 GATGGATAT
34089887 GATGGATA
1 GATGGATA
34089895 AGTGTCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (9 bp):
GATGGATAT
Found at i:34093812 original size:16 final size:16
Alignment explanation
Indices: 34093791--34093826 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
34093781 GTTTTATCTG
*
34093791 TTTTGTTATTTTTTTA
1 TTTTGTTATTTATTTA
*
34093807 TTTTGTTCTTTATTTA
1 TTTTGTTATTTATTTA
34093823 TTTT
1 TTTT
34093827 AGTGATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTGTTATTTATTTA
Found at i:34111112 original size:19 final size:19
Alignment explanation
Indices: 34111088--34111198 Score: 170
Period size: 19 Copynumber: 5.8 Consensus size: 19
34111078 AATCTTCAGG
34111088 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34111107 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
34111126 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34111145 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34111164 GATATAG-AATCTTAGATAC
1 GATAT-GCAATCTTAGATAT
34111183 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
34111199 AGATATGATT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
18 1 0.01
19 81 0.98
20 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34111462 original size:106 final size:107
Alignment explanation
Indices: 34111276--34111488 Score: 401
Period size: 106 Copynumber: 2.0 Consensus size: 107
34111266 TGATCTGTAC
34111276 CGTTGGATTTGGGGAGGCTCAACTATAAATAGAGGCCTCTCCCTGCATTGTAAAAAAAAGAAAAG
1 CGTTGGATTTGGGGAGGCTCAACTATAAATAGAGGCCTCTCCCTGCATTGTAAAAAAAAGAAAAG
34111341 AAAGGAGGAATAAAAAAGAGAACGATTGGCAGTTTTTTAAAG
66 AAAGGAGGAATAAAAAAGAGAACGATTGGCAGTTTTTTAAAG
34111383 CGTTGGATTT-GGGAGGCTCAACTATAAATAGAGGCCTCTCCCTGCATTGTAAAAAAAAGAAAAG
1 CGTTGGATTTGGGGAGGCTCAACTATAAATAGAGGCCTCTCCCTGCATTGTAAAAAAAAGAAAAG
* *
34111447 AAAGGAGGAATAAAAAAGAGAACGATTTGCCGTTTTTTAAAG
66 AAAGGAGGAATAAAAAAGAGAACGATTGGCAGTTTTTTAAAG
34111489 GTGGCTTACT
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 94 0.90
107 10 0.10
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (107 bp):
CGTTGGATTTGGGGAGGCTCAACTATAAATAGAGGCCTCTCCCTGCATTGTAAAAAAAAGAAAAG
AAAGGAGGAATAAAAAAGAGAACGATTGGCAGTTTTTTAAAG
Found at i:34119075 original size:19 final size:19
Alignment explanation
Indices: 34119051--34119161 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
34119041 AATCTTCAGG
34119051 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34119070 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
34119089 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34119108 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
34119127 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34119146 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
34119162 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34119101 original size:38 final size:38
Alignment explanation
Indices: 34119058--34119161 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
34119048 AGGGATATGC
34119058 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
34119096 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
34119134 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
34119162 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:34119187 original size:22 final size:21
Alignment explanation
Indices: 34119051--34119187 Score: 114
Period size: 19 Copynumber: 6.9 Consensus size: 21
34119041 AATCTTCAGG
*
34119051 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
34119070 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
34119089 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
34119108 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
34119127 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
34119146 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
34119168 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
34119188 TTAATTTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
19 79 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:34125235 original size:18 final size:18
Alignment explanation
Indices: 34125214--34125263 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
34125204 TTTCTTGCAT
34125214 GTTTATTTTTTGTTTTCA
1 GTTTATTTTTTGTTTTCA
*
34125232 GTTTA--GTTTGTTTTCA
1 GTTTATTTTTTGTTTTCA
34125248 GTTT-TTATTTTGTTTT
1 GTTTATT-TTTTGTTTT
34125264 TGCTTAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.10, C:0.04, G:0.14, T:0.72
Consensus pattern (18 bp):
GTTTATTTTTTGTTTTCA
Found at i:34137229 original size:34 final size:33
Alignment explanation
Indices: 34137165--34137230 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
34137155 TCTAAATCCG
*
34137165 AAAAGTAGAAGGATTAAATTCCTAAAATAAAAAT
1 AAAAGTAGAA-GATTAAATTCCAAAAATAAAAAT
*
34137199 AAAAGTAGAA-ATTAAATTCCAAATATATAAAA
1 AAAAGTAGAAGATTAAATTCCAAAAATA-AAAA
34137231 GACATAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.52
33 4 0.14
34 10 0.34
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (33 bp):
AAAAGTAGAAGATTAAATTCCAAAAATAAAAAT
Found at i:34151305 original size:17 final size:17
Alignment explanation
Indices: 34151260--34151306 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
34151250 GAATTCGCCA
*
34151260 TTTGACAAACTCTAAGG
1 TTTGACGAACTCTAAGG
**
34151277 TTTGGTGAACTCTAAGG
1 TTTGACGAACTCTAAGG
*
34151294 TTTGACGGACTCT
1 TTTGACGAACTCT
34151307 TTTACGAGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (17 bp):
TTTGACGAACTCTAAGG
Found at i:34154642 original size:4 final size:4
Alignment explanation
Indices: 34154633--34154664 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
34154623 TAATAGAACT
34154633 AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA
1 AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA
34154665 GTACTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AGTA
Found at i:34154711 original size:26 final size:23
Alignment explanation
Indices: 34154672--34154751 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 23
34154662 GTAGTACTAA
*
34154672 TAATAATAATAATAATAATGAAAGGC
1 TAATAATAAAAATAATAAT-AAA--C
*
34154698 TAATAATAAAAATATTAATAAAC
1 TAATAATAAAAATAATAATAAAC
* *
34154721 TAATATTAAAAAATCAATAAAAAAC
1 TAATAAT-AAAAAT-AATAATAAAC
*
34154746 AAATAA
1 TAATAA
34154752 AAAGGATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.16
24 6 0.13
25 15 0.33
26 17 0.38
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (23 bp):
TAATAATAAAAATAATAATAAAC
Found at i:34154723 original size:23 final size:24
Alignment explanation
Indices: 34154672--34154741 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 24
34154662 GTAGTACTAA
* *
34154672 TAATAATAATAATAATAATGAAAGGC
1 TAATAATAAAAATATTAAT-AAA-GC
34154698 TAATAATAAAAATATTAATAAA-C
1 TAATAATAAAAATATTAATAAAGC
* *
34154721 TAATATTAAAAA-ATCAATAAA
1 TAATAATAAAAATATTAATAAA
34154742 AAACAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.20
23 12 0.30
25 3 0.08
26 17 0.43
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (24 bp):
TAATAATAAAAATATTAATAAAGC
Found at i:34154739 original size:22 final size:23
Alignment explanation
Indices: 34154697--34154741 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34154687 TAATGAAAGG
*
34154697 CTAATAATAAAAATATTAATAAA
1 CTAATAATAAAAATATCAATAAA
*
34154720 CTAATATTAAAAA-ATCAATAAA
1 CTAATAATAAAAATATCAATAAA
34154742 AAACAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (23 bp):
CTAATAATAAAAATATCAATAAA
Found at i:34155183 original size:5 final size:5
Alignment explanation
Indices: 34155175--34155203 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
34155165 TTTCGAAACG
34155175 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
34155204 ACAAGAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:34156606 original size:128 final size:128
Alignment explanation
Indices: 34156418--34157400 Score: 1335
Period size: 128 Copynumber: 7.7 Consensus size: 128
34156408 TATCGACTTC
* * * *
34156418 AATCTGCTTCCTTACTCTTGAAGATAAGATTCATCGTCCTT-AATCTGCTCCGCTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGT-CTTCGATCTGCTCCGCTATTGCTTAGG
* * * *
34156482 GAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTGGCTCA
65 GAGACAAGATCTGTAATTTCCGACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGGCTTA
* * * * *
34156546 AATCTGATTCCTTACACTTGAAGATAAGATTCACCATCTTCGATCTACTCTGTTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * * *
34156611 AGACAAGA-CGAGTAATTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGCTTA
66 AGACAAGATC-TGTAATTT-CCGACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGGCTTA
* * *
34156675 AATCTGCTTCCTTACACTTGAAAATAAGATTCGCCGTCTTCGATCTGCTCCACTACTT-CTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTA-TTGCTTAGG
* * * *
34156739 GAGACAAGATCTGCAATTTCTGACCTATTTCACTGCTGACCAAGGAAATAGGACTTGTGGCTTA
65 GAGACAAGATCTGTAATTTCCGACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGGCTTA
* *** *
34156803 AATCTGCTTCCTTACTCTTGAAGATAAGATTTGTCGTCTTCGGTCTGCTCCGCTATTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * * *
34156868 AGACAAGATCTGCAATTTCTGACCTATTTCACTGCTGACCAAGGAAATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCGACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGGCTTA
* * *
34156931 AATCTGCTTCTTTACACTTGAATATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * * *
34156996 AGACAAGATTTGTAATTTTCGACCTATTCCACTGCTAACCAGGGAGATAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTTCCGACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGGCTTA
* * *
34157059 AATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTT-CTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTA-TTGCTTAGG
** * *
34157123 GAGACAAGATCTGTAATTTTTGACCTATTCCACTGCTGACTAAGGAAATAGGACTTGTGGCTTA
65 GAGACAAGATCTGTAATTTCCGACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGGCTTA
* * * * *
34157187 AATCTGCTTTCTTACTCTTGAAGATAAGATTTACCGTCTTCGATCTGCTTCGCTATTTCTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
* * * *
34157252 AGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTAACCAGGGATAGAGGACTTGTGGCTTA
66 AGACAAGATCTGTAATTT-CCGACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGGCTTA
** * * *
34157316 AATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCCTTCGATCTGCTCCGCTACTGTTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
34157381 AGACAAGATCTGTAATTTCC
66 AGACAAGATCTGTAATTTCC
34157401 TTGATCTGTT
Statistics
Matches: 762, Mismatches: 84, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
127 8 0.01
128 528 0.69
129 223 0.29
130 3 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (128 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGG
AGACAAGATCTGTAATTTCCGACCTATTCCACTGCTGACCAGGGAAATAGGACTTGTGGCTTA
Found at i:34158660 original size:15 final size:16
Alignment explanation
Indices: 34158641--34158677 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
34158631 ATCATTTTTT
34158641 ATTTTTTA-TTTTCAC
1 ATTTTTTATTTTTCAC
*
34158656 -TTTTTCATTTTTCAC
1 ATTTTTTATTTTTCAC
34158671 ATTTTTT
1 ATTTTTT
34158678 TGACTCAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
14 6 0.33
15 7 0.39
16 5 0.28
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTATTTTTCAC
Found at i:34159555 original size:8 final size:8
Alignment explanation
Indices: 34159514--34159538 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34159504 TCTCCTTTTC
34159514 TTTTTCCT
1 TTTTTCCT
34159522 TTTTTCCT
1 TTTTTCCT
34159530 TTTTTCCT
1 TTTTTCCT
34159538 T
1 T
34159539 CTCTCTTTTT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCCT
Found at i:34159557 original size:6 final size:6
Alignment explanation
Indices: 34159546--34159620 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
34159536 CTTCTCTCTT
* * * * **
34159546 TTTTCA TTTTCA TTTTGA CTTTGA TTTTAA TTTTGA TTTTTC TTATT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT-TTGA
*
34159593 TTTTGT TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
34159621 TTTTTTGGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
6 52 0.90
7 2 0.03
ACGTcount: A:0.15, C:0.05, G:0.09, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:34159623 original size:29 final size:29
Alignment explanation
Indices: 34159565--34159625 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
34159555 TCATTTTGAC
**
34159565 TTTGATTTTAATTTTGATTTTTCTTATTT
1 TTTGATTTTAATTTTGATTTTGATTATTT
* * *
34159594 TTTGTTTTTGATTTTGATTTTGATTTTTT
1 TTTGATTTTAATTTTGATTTTGATTATTT
34159623 TTT
1 TTT
34159626 TGGATTAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.13, C:0.02, G:0.10, T:0.75
Consensus pattern (29 bp):
TTTGATTTTAATTTTGATTTTGATTATTT
Found at i:34159626 original size:12 final size:12
Alignment explanation
Indices: 34159593--34159627 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
34159583 TTTTCTTATT
34159593 TTTTGTTTTTGA
1 TTTTGTTTTTGA
*
34159605 TTTTGATTTTGA
1 TTTTGTTTTTGA
*
34159617 TTTTTTTTTTG
1 TTTTGTTTTTG
34159628 GATTAGATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (12 bp):
TTTTGTTTTTGA
Done.