Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 169 of 230
Found at i:50243849 original size:12 final size:12
Alignment explanation
Indices: 50243832--50243858 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50243822 ATTGATTTTA
50243832 TTTTTTATAATT
1 TTTTTTATAATT
50243844 TTTTTTATAATT
1 TTTTTTATAATT
50243856 TTT
1 TTT
50243859 AATAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:50247807 original size:10 final size:10
Alignment explanation
Indices: 50247792--50247824 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
50247782 ATTTTTCAAT
50247792 TTTAAAATTA
1 TTTAAAATTA
50247802 TTTAAAATTA
1 TTTAAAATTA
*
50247812 TTTAAAATAA
1 TTTAAAATTA
50247822 TTT
1 TTT
50247825 TTAAATGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:50249130 original size:21 final size:18
Alignment explanation
Indices: 50249104--50249143 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
50249094 AGAGATGTGG
50249104 AAATATCTAAGAAAAAATGGA
1 AAATAT-TAA-AAAAAA-GGA
50249125 AAATATTAAAAAAAAGGA
1 AAATATTAAAAAAAAGGA
50249143 A
1 A
50249144 TAAAGGGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 3 0.16
21 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.17
Consensus pattern (18 bp):
AAATATTAAAAAAAAGGA
Found at i:50250003 original size:16 final size:16
Alignment explanation
Indices: 50249984--50250014 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50249974 ATTATTTTAA
50249984 ATTTTAATTAGATAAT
1 ATTTTAATTAGATAAT
*
50250000 ATTTTATTTAGATAA
1 ATTTTAATTAGATAA
50250015 ATGACTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATTTTAATTAGATAAT
Found at i:50258035 original size:20 final size:20
Alignment explanation
Indices: 50258006--50258065 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
50257996 ATTTTAAAAT
* *
50258006 CAAGTGAAAATTATTTTAAC
1 CAAGTTAAAATCATTTTAAC
* * *
50258026 CAAGTTAAAATGATCTTAAT
1 CAAGTTAAAATCATTTTAAC
*
50258046 TAAGTTAAAATCATTTTAAC
1 CAAGTTAAAATCATTTTAAC
50258066 ACATCAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (20 bp):
CAAGTTAAAATCATTTTAAC
Found at i:50260476 original size:12 final size:12
Alignment explanation
Indices: 50260459--50260507 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 12
50260449 TTTAAAATTT
50260459 AAAATTTATT-A
1 AAAATTTATTAA
50260470 AAAA---ATTAA
1 AAAATTTATTAA
*
50260479 AAAATTTATAAA
1 AAAATTTATTAA
50260491 AAAATTTA-TAA
1 AAAATTTATTAA
50260502 AAAATT
1 AAAATT
50260508 AAAATTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
8 3 0.09
9 5 0.16
11 12 0.38
12 12 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTTATTAA
Found at i:50260476 original size:19 final size:19
Alignment explanation
Indices: 50260452--50260498 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
50260442 AAGTCCTTTT
*
50260452 AAAATTTAAAATTTATTAA
1 AAAATTTAAAATTTATAAA
*
50260471 AAAATTAAAAAATTTATAAA
1 AAAATT-TAAAATTTATAAA
50260491 AAAATTTA
1 AAAATTTA
50260499 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTTAAAATTTATAAA
Found at i:50260490 original size:11 final size:11
Alignment explanation
Indices: 50260459--50260507 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
50260449 TTTAAAATTT
50260459 AAAATTTATTAA
1 AAAATTTA-TAA
50260471 AAAA--T-TAA
1 AAAATTTATAA
50260479 AAAATTTATAAA
1 AAAATTTAT-AA
50260491 AAAATTTATAA
1 AAAATTTATAA
50260502 AAAATT
1 AAAATT
50260508 AAAATTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.21
10 2 0.06
11 9 0.27
12 15 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTTATAA
Found at i:50261577 original size:30 final size:31
Alignment explanation
Indices: 50261522--50261596 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
50261512 CAAAAATATT
*
50261522 AAAAATGAATAAATTTTACAAAATAT-TAT-AA
1 AAAAAT-AA-AAATATTACAAAATATATATGAA
* *
50261553 AAAGCATAAAAATATTAGAAAATATATATGAA
1 AAA-AATAAAAATATTACAAAATATATATGAA
50261585 AAAAATAAAAAT
1 AAAAATAAAAAT
50261597 CATTTTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
30 14 0.38
31 16 0.43
32 7 0.19
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (31 bp):
AAAAATAAAAATATTACAAAATATATATGAA
Found at i:50261802 original size:18 final size:18
Alignment explanation
Indices: 50261779--50261855 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 18
50261769 AGGTTGTATA
*
50261779 TAAAATTGTAAATATTTT
1 TAAAATTGTATATATTTT
*
50261797 TAAAATTTGTATCT-TTTT
1 TAAAA-TTGTATATATTTT
*
50261815 TAAAATTTTATATAATTTT
1 TAAAATTGTATAT-ATTTT
* *
50261834 TAAAATTTTCTATTATTTT
1 TAAAATTGTATA-TATTTT
50261853 TAA
1 TAA
50261856 TATTTTTTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.12
18 14 0.28
19 29 0.58
20 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TAAAATTGTATATATTTT
Found at i:50261823 original size:9 final size:9
Alignment explanation
Indices: 50261787--50261862 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
50261777 TATAAAATTG
50261787 TAAATATTTT
1 TAAA-ATTTT
*
50261797 TAAAATTTG
1 TAAAATTTT
***
50261806 TATCTTTTT
1 TAAAATTTT
50261815 TAAAATTTT
1 TAAAATTTT
*
50261824 ATATAATTTT
1 -TAAAATTTT
50261834 TAAAATTTT
1 TAAAATTTT
**
50261843 CTATTATTTT
1 -TAAAATTTT
*
50261853 TAATATTTT
1 TAAAATTTT
50261862 T
1 T
50261863 TGCACTTTTC
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
9 32 0.63
10 19 0.37
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
TAAAATTTT
Found at i:50261852 original size:29 final size:29
Alignment explanation
Indices: 50261819--50261892 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
50261809 CTTTTTTAAA
50261819 ATTTTAT-ATAATTTTTAAAATTTTCTATT
1 ATTTTATAATAATTTTTAAAATTTTCTA-T
* ** *
50261848 ATTTT-TAATATTTTTTGCACTTTTCTAT
1 ATTTTATAATAATTTTTAAAATTTTCTAT
50261876 ATTTTTATAATAATTTT
1 A-TTTTATAATAATTTT
50261893 CTATATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 3 0.08
29 25 0.68
30 9 0.24
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (29 bp):
ATTTTATAATAATTTTTAAAATTTTCTAT
Found at i:50262079 original size:37 final size:38
Alignment explanation
Indices: 50262034--50262109 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
50262024 TGCATTTATA
* *
50262034 TTTA-TTTTTT-ATAATTT-TTTTGTGATTTTGAATAT
1 TTTAGTTTTTTAATAATTTCTTTTATGATTTTCAATAT
*
50262069 TTTAGTTTTTTAATAATTTCTTTTATGATTTTCAGTAT
1 TTTAGTTTTTTAATAATTTCTTTTATGATTTTCAATAT
50262107 TTT
1 TTT
50262110 TTACCGATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 4 0.11
36 6 0.17
37 7 0.20
38 18 0.51
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (38 bp):
TTTAGTTTTTTAATAATTTCTTTTATGATTTTCAATAT
Found at i:50264960 original size:18 final size:19
Alignment explanation
Indices: 50264933--50264968 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50264923 TGTTTTCACC
*
50264933 TTTTTTCTTTTTC-TTTCA
1 TTTTTGCTTTTTCATTTCA
50264951 TTTTTGCTTTTTCATTTC
1 TTTTTGCTTTTTCATTTC
50264969 CAGCAAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTGCTTTTTCATTTCA
Found at i:50265931 original size:27 final size:26
Alignment explanation
Indices: 50265895--50265949 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
50265885 TATAAAATAT
*
50265895 TTATTTTATATTATAA-AAAAATTAAA
1 TTATTTTATATTA-AATAAAAATAAAA
50265921 TTATTTATATATTAAATAAAAATAAAA
1 TTATTT-TATATTAAATAAAAATAAAA
50265948 TT
1 TT
50265950 TAATTCGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTATTTTATATTAAATAAAAATAAAA
Found at i:50265941 original size:26 final size:26
Alignment explanation
Indices: 50265895--50265946 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
50265885 TATAAAATAT
*
50265895 TTATTTTATATTATAAAAAAATTAAA
1 TTATTTTATATTATAAAAAAAATAAA
*
50265921 TTATTTATATATTA-AATAAAAATAAA
1 TTATTT-TATATTATAAAAAAAATAAA
50265947 ATTTAATTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TTATTTTATATTATAAAAAAAATAAA
Found at i:50272663 original size:5 final size:5
Alignment explanation
Indices: 50272653--50272677 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
50272643 TAGAAGTTAG
50272653 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
50272678 GTGATGGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:50283873 original size:33 final size:34
Alignment explanation
Indices: 50283815--50283880 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
50283805 TAAGGGGTGT
*
50283815 TACATCACTGTTCAATTTTTTTTACTTGTATTGA
1 TACATCACTGCTCAATTTTTTTTACTTGTATTGA
50283849 TACATCACTGCTCAA-TTTTTTTACTTGTATTG
1 TACATCACTGCTCAATTTTTTTTACTTGTATTG
50283881 GTACTTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 17 0.55
34 14 0.45
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.52
Consensus pattern (34 bp):
TACATCACTGCTCAATTTTTTTTACTTGTATTGA
Found at i:50284043 original size:15 final size:15
Alignment explanation
Indices: 50284025--50284054 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50284015 TTTTACCATA
50284025 TTGAATGTTGAATTT
1 TTGAATGTTGAATTT
50284040 TTGAATGTTGAATTT
1 TTGAATGTTGAATTT
50284055 GTATATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
TTGAATGTTGAATTT
Found at i:50284413 original size:10 final size:10
Alignment explanation
Indices: 50284382--50284485 Score: 69
Period size: 10 Copynumber: 10.6 Consensus size: 10
50284372 AAGATTAATA
50284382 AAAAACTTA-T
1 AAAAA-TTATT
50284392 AAAAA-TATTT
1 AAAAATTA-TT
50284402 AAAAATTATT
1 AAAAATTATT
*
50284412 AATAATTA-T
1 AAAAATTATT
50284421 AAGAAATTA-T
1 AA-AAATTATT
50284431 AAGAAATTATT
1 AA-AAATTATT
*
50284442 -AAATTTATT
1 AAAAATTATT
**
50284451 AAAGAA-TAAC
1 AAA-AATTATT
50284461 AAAAA-TATT
1 AAAAATTATT
*
50284470 TAAAATTATT
1 AAAAATTATT
50284480 AAAAAT
1 AAAAAT
50284486 CACGTCTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
8 2 0.03
9 18 0.24
10 52 0.68
11 4 0.05
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:50284439 original size:30 final size:29
Alignment explanation
Indices: 50284388--50284485 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 29
50284378 AATAAAAAAC
*
50284388 TTATAAAAATATTTAAAAATTATTAATAA
1 TTATAAAAATATATAAAAATTATTAATAA
*
50284417 TTATAAGAAAT-TATAAGAAATTATTAA-AT
1 TTATAA-AAATATATAA-AAATTATTAATAA
*
50284446 TTATTAAAGAATA-ACAAAAA-TATTTAA-AA
1 TTA-TAAA-AATATATAAAAATTA-TTAATAA
50284475 TTATTAAAAAT
1 TTA-TAAAAAT
50284486 CACGTCTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
28 5 0.08
29 31 0.53
30 23 0.39
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (29 bp):
TTATAAAAATATATAAAAATTATTAATAA
Found at i:50286160 original size:21 final size:22
Alignment explanation
Indices: 50286114--50286160 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
50286104 ACCATTATTT
* * *
50286114 TATTTTATTTTATTTATTTTTA
1 TATTTAATTTTATATATTTTAA
50286136 -ATTTAATTTT-TATATTTTAA
1 TATTTAATTTTATATATTTTAA
50286156 TATTT
1 TATTT
50286161 TCGTTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTAATTTTATATATTTTAA
Found at i:50288054 original size:46 final size:46
Alignment explanation
Indices: 50287983--50288078 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
50287973 TTATAAGATG
*
50287983 TTCAAACAACTTGGTCTTGAAAAACCCAAACCCACTAGGATGAGTA
1 TTCAAAAAACTTGGTCTTGAAAAACCCAAACCCACTAGGATGAGTA
**
50288029 TTCAAAAAACTTGGTCTTGGGAAACCCAAACCCACTAGGATGAGTA
1 TTCAAAAAACTTGGTCTTGAAAAACCCAAACCCACTAGGATGAGTA
50288075 TTCA
1 TTCA
50288079 GTTAGCGAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (46 bp):
TTCAAAAAACTTGGTCTTGAAAAACCCAAACCCACTAGGATGAGTA
Found at i:50289931 original size:5 final size:5
Alignment explanation
Indices: 50289921--50289963 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
50289911 TCCTCCTCTC
* *
50289921 TTATT TTATT TTACTT ATTATT TTATT ATATT TTATT ATATT T
1 TTATT TTATT TTA-TT -TTATT TTATT TTATT TTATT TTATT T
50289964 ATTATTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 25 0.78
6 4 0.12
7 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:50289954 original size:10 final size:10
Alignment explanation
Indices: 50289921--50289968 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
50289911 TCCTCCTCTC
*
50289921 TTATTTTATT
1 TTATTATATT
50289931 TTACTTATTATT
1 TTA-TTA-TATT
50289943 TTATTATATT
1 TTATTATATT
50289953 TTATTATA-T
1 TTATTATATT
50289962 TTATTAT
1 TTATTAT
50289969 TACTGTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
9 8 0.23
10 15 0.43
11 5 0.14
12 7 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATATT
Found at i:50290158 original size:20 final size:20
Alignment explanation
Indices: 50290135--50290208 Score: 58
Period size: 27 Copynumber: 3.2 Consensus size: 20
50290125 AGCAGTTGCA
50290135 TTTTAATTTTATTAGAGTTTT
1 TTTTAATTTTATTAGAG-TTT
50290156 TTTTATTATGTTTCATTTTAGCAGTTGT
1 TTTTA--AT-TTT-A--TTAG-AGTT-T
50290184 ATTTTAATTTTATTAGAGTTT
1 -TTTTAATTTTATTAGAGTTT
50290205 TTTT
1 TTTT
50290209 TATTATGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 19
0.70 0.00 0.30
Matches are distributed among these distances:
20 4 0.09
21 6 0.14
22 4 0.09
23 6 0.14
24 3 0.07
25 2 0.05
26 3 0.07
27 8 0.18
28 3 0.07
29 5 0.11
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.65
Consensus pattern (20 bp):
TTTTAATTTTATTAGAGTTT
Found at i:50290180 original size:50 final size:50
Alignment explanation
Indices: 50290120--50290224 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
50290110 TATTATTAAT
50290120 ATTTTAGCAGTTGCATTTTAATTTTATTAGAGTTTTTTTTATTATGTTTC
1 ATTTTAGCAGTTGCATTTTAATTTTATTAGAGTTTTTTTTATTATGTTTC
*
50290170 ATTTTAGCAGTTGTATTTTAATTTTATTAGAGTTTTTTTTATTATGTTTC
1 ATTTTAGCAGTTGCATTTTAATTTTATTAGAGTTTTTTTTATTATGTTTC
50290220 ATTTT
1 ATTTT
50290225 TGTTTTTCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (50 bp):
ATTTTAGCAGTTGCATTTTAATTTTATTAGAGTTTTTTTTATTATGTTTC
Found at i:50295470 original size:13 final size:13
Alignment explanation
Indices: 50295437--50295463 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50295427 CAAATTCAAT
50295437 ACATAATAGATTG
1 ACATAATAGATTG
50295450 ACATAATAGATTG
1 ACATAATAGATTG
50295463 A
1 A
50295464 ATCAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
ACATAATAGATTG
Found at i:50300201 original size:12 final size:11
Alignment explanation
Indices: 50300184--50300226 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
50300174 ATCATGTTTT
50300184 AAGGTTAAATTA
1 AAGGTT-AATTA
50300196 AAGGTTAATT-
1 AAGGTTAATTA
*
50300206 AAGCTTAATTA
1 AAGGTTAATTA
50300217 AATGGTTAAT
1 AA-GGTTAAT
50300227 CAACTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
11 6 0.22
12 12 0.44
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (11 bp):
AAGGTTAATTA
Found at i:50300207 original size:22 final size:22
Alignment explanation
Indices: 50300182--50300226 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
50300172 TAATCATGTT
*
50300182 TTAAGGTTAAATTAAA-GGTTAA
1 TTAAGCTT-AATTAAATGGTTAA
50300204 TTAAGCTTAATTAAATGGTTAA
1 TTAAGCTTAATTAAATGGTTAA
50300226 T
1 T
50300227 CAACTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (22 bp):
TTAAGCTTAATTAAATGGTTAA
Found at i:50300233 original size:21 final size:21
Alignment explanation
Indices: 50300191--50300233 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
50300181 TTTAAGGTTA
*
50300191 AATTAAAGGTTAATTAAGCTT
1 AATTAAAGGTTAATCAAGCTT
50300212 AATTAAATGGTTAATCAA-CTT
1 AATTAAA-GGTTAATCAAGCTT
50300233 A
1 A
50300234 TATAAGCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
AATTAAAGGTTAATCAAGCTT
Found at i:50304730 original size:25 final size:25
Alignment explanation
Indices: 50304675--50304818 Score: 148
Period size: 25 Copynumber: 5.8 Consensus size: 25
50304665 CGGATACTCC
* *
50304675 ACAGCTCGTGTGAGCATA-CAAGTTT
1 ACAGCTCGTGTGAGCATACCGA-TCT
* *
50304700 ATAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATCT
* *
50304725 ACAGCTCGTGCGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCGATCT
* * *
50304750 ACAGCTTGTGTGAGCGTACTGATCT
1 ACAGCTCGTGTGAGCATACCGATCT
* *
50304775 ACCGCTGGTGTGAGCATACCGAT-T
1 ACAGCTCGTGTGAGCATACCGATCT
*
50304799 CACAGCTCGTATGAGCATAC
1 -ACAGCTCGTGTGAGCATAC
50304819 ATGTATAGGA
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
24 1 0.01
25 95 0.97
26 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATCT
Found at i:50304774 original size:50 final size:50
Alignment explanation
Indices: 50304675--50304818 Score: 173
Period size: 50 Copynumber: 2.9 Consensus size: 50
50304665 CGGATACTCC
* * *
50304675 ACAGCTCGTGTGAGCATA-CAAGTTTATAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGA-TTTACAGCTCGTGTGAGCATACCGATCT
* * * *
50304725 ACAGCTCGTGCGAGCATACCGATTTACAGCTTGTGTGAGCGTACTGATCT
1 ACAGCTCGTGTGAGCATACCGATTTACAGCTCGTGTGAGCATACCGATCT
* * * *
50304775 ACCGCTGGTGTGAGCATACCGATTCACAGCTCGTATGAGCATAC
1 ACAGCTCGTGTGAGCATACCGATTTACAGCTCGTGTGAGCATAC
50304819 ATGTATAGGA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 77 0.97
51 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (50 bp):
ACAGCTCGTGTGAGCATACCGATTTACAGCTCGTGTGAGCATACCGATCT
Found at i:50315896 original size:50 final size:51
Alignment explanation
Indices: 50315763--50315897 Score: 139
Period size: 51 Copynumber: 2.7 Consensus size: 51
50315753 ACACCATTTG
* * * *
50315763 TGGACAAGCCACCATTGATTTGCAGATAAAATGCCACTCATAACATTTTTG
1 TGGACAAGCCACCACTGATTTGCAGATATACTGCCACTCATAACATTTTTA
* * * * * *
50315814 TGGACAAGCGACCACTGAATTGCAAATTTACTGCCACTGATGTA-A-TTTTA
1 TGGACAAGCCACCACTGATTTGCAGATATACTGCCACTCAT-AACATTTTTA
* *
50315864 TGGACATGCCACTACTGATTTGCAGATATACTGC
1 TGGACAAGCCACCACTGATTTGCAGATATACTGC
50315898 TGCTGCTTCC
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
50 32 0.48
51 34 0.51
52 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (51 bp):
TGGACAAGCCACCACTGATTTGCAGATATACTGCCACTCATAACATTTTTA
Found at i:50320292 original size:30 final size:30
Alignment explanation
Indices: 50320256--50320339 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
50320246 AGCTGTAGGG
50320256 GTCACACAGCCATGTGGCCAGGTCGTGTGA
1 GTCACACAGCCATGTGGCCAGGTCGTGTGA
* * *
50320286 GTCACACAACCATATGGCCAAGTCGTGTGA
1 GTCACACAGCCATGTGGCCAGGTCGTGTGA
** * *
50320316 CCCACACAGCCGTGTGGTCAGGTC
1 GTCACACAGCCATGTGGCCAGGTC
50320340 ATGTCTTAGG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.19
Consensus pattern (30 bp):
GTCACACAGCCATGTGGCCAGGTCGTGTGA
Found at i:50325645 original size:39 final size:40
Alignment explanation
Indices: 50325435--50325657 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
50325425 TTGAATGCTG
* * * * * *
50325435 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
50325475 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
50325515 TCCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
50325555 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
50325595 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
50325634 ACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50325658 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 34 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:50325677 original size:79 final size:80
Alignment explanation
Indices: 50325510--50325692 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
50325500 GTGCGAGATA
* ** * *
50325510 CTAAATCCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
50325575 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
50325590 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACTGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
50325654 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
50325669 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
50325693 TACGTGATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 44 0.52
80 26 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:50328979 original size:12 final size:12
Alignment explanation
Indices: 50328962--50328991 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50328952 AGCCACACAC
50328962 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
50328974 CCGTGTGCTAGG
1 CCGTGTGCCAGG
50328986 CCGTGT
1 CCGTGT
50328992 ACAGCCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:50352906 original size:11 final size:11
Alignment explanation
Indices: 50352892--50352941 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
50352882 GTGGTGATAC
50352892 GGTGGTTGTAT
1 GGTGGTTGTAT
* *
50352903 GGTGGTAGTGT
1 GGTGGTTGTAT
*
50352914 AGTGG-TGCTAT
1 GGTGGTTG-TAT
50352925 GGTGGTTGTAT
1 GGTGGTTGTAT
50352936 GGTGGT
1 GGTGGT
50352942 GTTTCGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 1 0.03
11 28 0.90
12 2 0.06
ACGTcount: A:0.10, C:0.02, G:0.48, T:0.40
Consensus pattern (11 bp):
GGTGGTTGTAT
Found at i:50352940 original size:22 final size:22
Alignment explanation
Indices: 50352870--50352942 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
50352860 CTGTTTTCAA
* * *
50352870 GGTGGTGCAAGGGTGG-TGATAC
1 GGTGGTGCTATGGTGGTTG-TAT
* *
50352892 GGTGGTTG-TATGGTGGTAGTGT
1 GGTGG-TGCTATGGTGGTTGTAT
*
50352914 AGTGGTGCTATGGTGGTTGTAT
1 GGTGGTGCTATGGTGGTTGTAT
50352936 GGTGGTG
1 GGTGGTG
50352943 TTTCGTTTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 2 0.05
22 34 0.87
23 3 0.08
ACGTcount: A:0.12, C:0.04, G:0.49, T:0.34
Consensus pattern (22 bp):
GGTGGTGCTATGGTGGTTGTAT
Found at i:50364492 original size:39 final size:40
Alignment explanation
Indices: 50364288--50364510 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
50364278 TTGAATGCTG
* * * * * *
50364288 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
50364328 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
50364368 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
50364408 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
50364448 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
50364487 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50364511 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:50364530 original size:79 final size:80
Alignment explanation
Indices: 50364363--50364545 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
50364353 GTGCGAGATA
* * *
50364363 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
50364428 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
50364443 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
50364507 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
50364522 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
50364546 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:50372319 original size:80 final size:79
Alignment explanation
Indices: 50372182--50372441 Score: 240
Period size: 80 Copynumber: 3.3 Consensus size: 79
50372172 TTGAATGCTG
* * * * * * * *
50372182 TCCGGGCTAAGTCCCGAAGGCT-TTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGG-TATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCAT
*
50372245 TTGTGCGAGATACTAAA
63 TTGTGCGAGATGCTAAA
* * * *
50372262 TCCGGGTTAAGTCCCGAAGGTATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGTATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* *
50372327 GTGCGAGTTGTTAAA
65 GTGCGAGATGCTAAA
* * * *
50372342 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGTATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
** *
50372407 AACGAGGA-GCTATA
66 TGCGA-GATGCTAAA
*
50372421 TCC-GGTTAAATCCCGAAGGTA
1 TCCGGGTTAAGTCCCGAAGGTA
50372442 CGTGATTTGG
Statistics
Matches: 148, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
78 15 0.10
79 47 0.32
80 82 0.55
81 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGTATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATGCTAAA
Found at i:50372386 original size:39 final size:40
Alignment explanation
Indices: 50372182--50372404 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
50372172 TTGAATGCTG
* * * * * *
50372182 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
50372222 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
50372262 TCCGGGTTAAGTCCCGAAGGTATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
50372302 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
50372342 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
50372381 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50372405 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:50372424 original size:79 final size:80
Alignment explanation
Indices: 50372257--50372439 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
50372247 GTGCGAGATA
* * * *
50372257 CTAAATCCGGGTTAAGTCCCGAAGGTATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
50372322 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
50372337 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
50372401 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
50372416 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
50372440 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 26 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:50373006 original size:16 final size:17
Alignment explanation
Indices: 50372985--50373016 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50372975 TTTAAGTATA
50372985 ATGTTAT-ATCATTTAT
1 ATGTTATAATCATTTAT
50373001 ATGTTATAATCATTTA
1 ATGTTATAATCATTTA
50373017 GTGTGGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
ATGTTATAATCATTTAT
Found at i:50375459 original size:40 final size:40
Alignment explanation
Indices: 50375399--50375582 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
50375389 TATTCGAATG
*
50375399 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
50375439 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
50375479 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
50375519 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
50375559 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
50375583 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:50375532 original size:80 final size:80
Alignment explanation
Indices: 50375399--50375582 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
50375389 TATTCGAATG
* * *
50375399 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
50375463 ATTTGTGCAAGTTG-CT
65 ATTTATGCAAG-TGACC
* *
50375479 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
50375544 TTTATGCTAGTGACC
66 TTTATGCAAGTGACC
50375559 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
50375583 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCAAGTGACC
Found at i:50375887 original size:22 final size:22
Alignment explanation
Indices: 50375845--50375888 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
50375835 AAAATGTGCA
* *
50375845 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
50375867 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
50375889 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:50389254 original size:69 final size:69
Alignment explanation
Indices: 50389126--50389255 Score: 199
Period size: 70 Copynumber: 1.9 Consensus size: 69
50389116 TGAAATGAGC
*
50389126 CAACCATATCTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAAAGAAAATAAGAGAAAAAAAAATG
1 CAACCATATCTTTTGAAGAAAAAAAATGGTGTTTGGCAAGAAAGAAAATAAGAGAAAAAAAAATG
50389191 GTAG
66 GTAG
* * *
50389195 CAACCATGTGTTTTGAAGAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAA-AGAAAAAA
1 CAACCATATCTTTTGAAGAAAAAAAA-TGGTGTTTGGCAAGAAAGAAAAT-AAGAGAAAAAA
50389256 TTTTGTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
69 23 0.42
70 30 0.55
71 2 0.04
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (69 bp):
CAACCATATCTTTTGAAGAAAAAAAATGGTGTTTGGCAAGAAAGAAAATAAGAGAAAAAAAAATG
GTAG
Found at i:50398533 original size:16 final size:18
Alignment explanation
Indices: 50398507--50398540 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
50398497 TTAAAATTGG
50398507 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
50398524 ATTG-GAAAATTAATTTA
1 ATTGAGAAAATTAATTTA
50398541 TCTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:50401621 original size:18 final size:18
Alignment explanation
Indices: 50401581--50401624 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
50401571 ATAAAAAAAG
50401581 TTTTGAAATTGAATAACA
1 TTTTGAAATTGAATAACA
* *
50401599 ATTTGTAAA-TGAATAATA
1 TTTTG-AAATTGAATAACA
50401617 TTTTGAAA
1 TTTTGAAA
50401625 ACGAACGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (18 bp):
TTTTGAAATTGAATAACA
Found at i:50402477 original size:28 final size:28
Alignment explanation
Indices: 50402398--50402477 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
50402388 CTCAAGGAAT
* * *
50402398 GAAGAGTCTTACTTCAACTAGGACTATT
1 GAAGAATCCTACTTCAACTAGGACTATA
* * *
50402426 GAA-AATCCAACTTCAAGTAAGACTCA-A
1 GAAGAATCCTACTTCAACTAGGACT-ATA
50402453 GAAGAATCCTACTTCAACTAGGACT
1 GAAGAATCCTACTTCAACTAGGACT
50402478 TTTATCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (28 bp):
GAAGAATCCTACTTCAACTAGGACTATA
Found at i:50405421 original size:37 final size:36
Alignment explanation
Indices: 50405370--50405445 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
50405360 TTTCCAAAAA
*
50405370 TAATATTATTTTAATAGT-TTAATATTAAATTAAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTAAATAT
*
50405406 TAATACTTATCTTAATAGTATTTTATTAATTAAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTAAATAT
50405443 TAA
1 TAA
50405446 AGTGACTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTAAATAT
Found at i:50420428 original size:12 final size:12
Alignment explanation
Indices: 50420411--50420440 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50420401 TCAGACTGTT
50420411 ACACGGCCTAGC
1 ACACGGCCTAGC
*
50420423 ACACGGCCTGGC
1 ACACGGCCTAGC
50420435 ACACGG
1 ACACGG
50420441 GCATGTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:50424575 original size:15 final size:15
Alignment explanation
Indices: 50424555--50424586 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50424545 CATTTCATTG
50424555 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
50424570 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
50424585 TT
1 TT
50424587 TGTATGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:50426258 original size:17 final size:18
Alignment explanation
Indices: 50426238--50426308 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 18
50426228 AAAATAAATA
50426238 TTTATCTTTAATATT-AG
1 TTTATCTTTAATATTAAG
*
50426255 TTTATTAATTTAATATTAAGG
1 TTTA-T-CTTTAATATTAA-G
*
50426276 TAATTATC-TTAATATTAAA
1 T--TTATCTTTAATATTAAG
50426295 TTTAT-TTTAATATT
1 TTTATCTTTAATATT
50426309 TATCTTGTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
17 16 0.36
18 1 0.02
19 10 0.23
20 11 0.25
21 2 0.05
22 1 0.02
23 3 0.07
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (18 bp):
TTTATCTTTAATATTAAG
Found at i:50440345 original size:39 final size:39
Alignment explanation
Indices: 50440296--50440373 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
50440286 AACTTCTCAA
*
50440296 AACTATCTCACAGATCATTCAACCACTTAAAAGGAGTGT
1 AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
50440335 AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
1 AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
50440374 TCTTTCTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.24
Consensus pattern (39 bp):
AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
Found at i:50441945 original size:13 final size:13
Alignment explanation
Indices: 50441927--50441951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50441917 TAATGGTATA
50441927 TTGAATCCATGAT
1 TTGAATCCATGAT
50441940 TTGAATCCATGA
1 TTGAATCCATGA
50441952 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:50443747 original size:47 final size:47
Alignment explanation
Indices: 50443562--50444020 Score: 684
Period size: 47 Copynumber: 9.6 Consensus size: 47
50443552 TTATTCATTG
* *
50443562 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
50443609 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
50443658 GAATGCGAAAGTGTATATATATGTAGTAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTG-A-TAAGGCCTAATGGCCGATGTGAT
*
50443707 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
50443754 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
50443801 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
50443850 GAATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
50443899 GAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * *
50443946 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
50443993 GGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
50444021 TCCCGATGGG
Statistics
Matches: 378, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 197 0.52
48 2 0.01
49 179 0.47
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:50443799 original size:192 final size:192
Alignment explanation
Indices: 50443562--50444020 Score: 798
Period size: 192 Copynumber: 2.4 Consensus size: 192
50443552 TTATTCATTG
50443562 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
50443627 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGT-AGTAAGGCC
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGA-TAAGGCC
*
50443691 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
130 TAATGGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
50443754 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* *
50443819 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGATAAGGCCT
* *
50443884 AATGGCCGATATGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGAT
131 AATGGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
* * * * *
50443946 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
50444010 A-ATGTGATAAG
66 ATATGTGATAAG
50444021 TCCCGATGGG
Statistics
Matches: 256, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
190 10 0.04
191 1 0.00
192 244 0.95
193 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (192 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGATAAGGCCT
AATGGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
Found at i:50448250 original size:23 final size:22
Alignment explanation
Indices: 50448209--50448251 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
50448199 CGGTTGGGAA
*
50448209 GAAAAAGAAAAAAATAAAAGAT
1 GAAAAAGAAAAAAACAAAAGAT
*
50448231 GAAAACAGAAAAAACCAAAAG
1 GAAAA-AGAAAAAAACAAAAG
50448252 CAGAAACGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.74, C:0.07, G:0.14, T:0.05
Consensus pattern (22 bp):
GAAAAAGAAAAAAACAAAAGAT
Found at i:50448257 original size:23 final size:21
Alignment explanation
Indices: 50448208--50448257 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
50448198 TCGGTTGGGA
*
50448208 AGAAAAAGAAAAAAATAAAAG
1 AGAAAAAGAAAAAAACAAAAG
*
50448229 ATGAAAACAGAAAAAACCAAAAG
1 A-GAAAA-AGAAAAAAACAAAAG
50448252 CAGAAA
1 -AGAAA
50448258 CGACAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 5 0.21
23 17 0.71
24 1 0.04
ACGTcount: A:0.74, C:0.08, G:0.14, T:0.04
Consensus pattern (21 bp):
AGAAAAAGAAAAAAACAAAAG
Found at i:50462661 original size:41 final size:41
Alignment explanation
Indices: 50462604--50462750 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
50462594 AATAATGATG
* *
50462604 AATTGCACATACGTGCCCCTGTTCGTACTTTGGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
* * *
50462645 AATTCCACATATGTGCCCGTGTTTGTACTTTGGTACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
* * * * *
50462686 AATTGCACATATGTGCCCCTATTTTTACTTCGGTACCCTTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
50462727 AATTGCACATACGTGCCCCTGTTT
1 AATTGCACATACGTGCCCCTGTTT
50462751 AGACTTCGAT
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
Found at i:50469465 original size:10 final size:10
Alignment explanation
Indices: 50469431--50469473 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
50469421 GGCCCAAATC
50469431 AAATAAATAAA
1 AAAT-AATAAA
*
50469442 CAA-AATATAA
1 AAATAATA-AA
50469452 AAATAATAAA
1 AAATAATAAA
50469462 AAATAATAAA
1 AAATAATAAA
50469472 AA
1 AA
50469474 CAAAGTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 18 0.64
11 6 0.21
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAATAAA
Found at i:50475092 original size:36 final size:36
Alignment explanation
Indices: 50475023--50475093 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
50475013 GAGTTACCAA
* *
50475023 TATTCTAATTCGCATATTAAATATGTTAATATTTTT
1 TATTCTAATTCGCATATTAAACATGGTAATATTTTT
* * * *
50475059 TATTCTAATTCGTATGTTAAGCATGGTACTATTTT
1 TATTCTAATTCGCATATTAAACATGGTAATATTTT
50475094 GATTTTGACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.51
Consensus pattern (36 bp):
TATTCTAATTCGCATATTAAACATGGTAATATTTTT
Found at i:50475151 original size:36 final size:35
Alignment explanation
Indices: 50475072--50475202 Score: 138
Period size: 36 Copynumber: 3.7 Consensus size: 35
50475062 TCTAATTCGT
* * *
50475072 ATGTTAAGCATGGT-ACTATTTTGATTTTGACTCAC
1 ATGTTAAGCAT-GTCATTATTTTAATTTTGATTCAC
* *
50475107 ATGCTAAGCATGTCATTATTTCTAATTCTGATTCAC
1 ATGTTAAGCATGTCATTATTT-TAATTTTGATTCAC
* *
50475143 ATGTTAAGCATGCCATTATTTTTTATTTTGATTCAC
1 ATGTTAAGCATGTCATTA-TTTTAATTTTGATTCAC
* * *
50475179 ATGTTAAGTATGACATTATGTTAA
1 ATGTTAAGCATGTCATTATTTTAA
50475203 ACCGTAATGA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
34 2 0.03
35 20 0.25
36 55 0.69
37 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (35 bp):
ATGTTAAGCATGTCATTATTTTAATTTTGATTCAC
Found at i:50475943 original size:20 final size:20
Alignment explanation
Indices: 50475896--50475948 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
50475886 TTATTTACCG
*
50475896 TGGACTTTGATTTTGGACTT
1 TGGATTTTGATTTTGGACTT
*** *
50475916 TTTTTTTTGTTTTTGGACTT
1 TGGATTTTGATTTTGGACTT
50475936 TGGATTTTGATTT
1 TGGATTTTGATTT
50475949 GATAATTATT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.06, G:0.21, T:0.62
Consensus pattern (20 bp):
TGGATTTTGATTTTGGACTT
Found at i:50478093 original size:22 final size:20
Alignment explanation
Indices: 50478046--50478093 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
50478036 CAATTTAACT
*
50478046 ACAATTATGTAGTCGTTATC
1 ACAATTATGTAGTAGTTATC
*
50478066 AGCAATTATGTGGTAGTTTATCC
1 A-CAATTATGTAGTAG-TTAT-C
50478089 ACAAT
1 ACAAT
50478094 GTGCTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 8 0.35
23 2 0.09
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ACAATTATGTAGTAGTTATC
Found at i:50478124 original size:48 final size:48
Alignment explanation
Indices: 50478072--50478188 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 48
50478062 TATCAGCAAT
*
50478072 TATGTGGTAGTTTATCCACAATGTGCTATGTGACCATTAATCGATATC
1 TATGTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATC
* ** ** * * *
50478120 TATGTGGTGGTATATCCATGATGTGCTATGTGATTATTCATTGGTATC
1 TATGTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATC
*
50478168 TATGTGGTGGTTTTTCCACAA
1 TATGTGGTGGTTTATCCACAA
50478189 ACTGGTGTGT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (48 bp):
TATGTGGTGGTTTATCCACAATGTGCTATGTGACCATTAATCGATATC
Found at i:50479817 original size:11 final size:11
Alignment explanation
Indices: 50479801--50479827 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50479791 TGTGGGATTA
50479801 CTTTCTAGAGG
1 CTTTCTAGAGG
50479812 CTTTCTAGAGG
1 CTTTCTAGAGG
50479823 CTTTC
1 CTTTC
50479828 CAGAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (11 bp):
CTTTCTAGAGG
Found at i:50486002 original size:29 final size:28
Alignment explanation
Indices: 50485949--50486004 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
50485939 CAACGGTGCC
*
50485949 TTCGAACCAAAACTCAGATATCACTTGG
1 TTCGAACCAAAACTCAGATACCACTTGG
*
50485977 TTCGAACCAACAGCTCAGATACCACTTG
1 TTCGAACCAA-AACTCAGATACCACTTG
50486005 TCACGGGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (28 bp):
TTCGAACCAAAACTCAGATACCACTTGG
Found at i:50487653 original size:13 final size:13
Alignment explanation
Indices: 50487635--50487659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50487625 TTAATAATAT
50487635 AATAATTTATTAA
1 AATAATTTATTAA
50487648 AATAATTTATTA
1 AATAATTTATTA
50487660 TTTTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAATTTATTAA
Found at i:50492129 original size:27 final size:27
Alignment explanation
Indices: 50492075--50492129 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
50492065 ATACATGAAT
**
50492075 TCATTTCAATATTCATATCCCATTTCA
1 TCATTTCAATATTCATATCCCAACTCA
*
50492102 TCATTTC-ATATTCCATTTCCCAACTCA
1 TCATTTCAATATT-CATATCCCAACTCA
50492129 T
1 T
50492130 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCCAACTCA
Found at i:50492686 original size:15 final size:16
Alignment explanation
Indices: 50492659--50492688 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50492649 ATTACTTACC
50492659 ATATGCAAACAATTTA
1 ATATGCAAACAATTTA
50492675 ATATGC-AACAATTT
1 ATATGCAAACAATTT
50492689 GTAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (16 bp):
ATATGCAAACAATTTA
Found at i:50495748 original size:43 final size:43
Alignment explanation
Indices: 50495700--50495800 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
50495690 GTATTATATC
* * *
50495700 TTAAATTAGATTTTTGGACTTT-TAGTTTTTTAGATTTTAAATA
1 TTAAATTAGATTTTAGGA-TTTCTAGATTTTTAGATTTAAAATA
*
50495743 TTAAATTAGATTTTAGGATTTCTAGATTTTTAGGTTTAAAATA
1 TTAAATTAGATTTTAGGATTTCTAGATTTTTAGATTTAAAATA
*
50495786 TTTAATTAGATTTTA
1 TTAAATTAGATTTTA
50495801 AGATGTTTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
42 3 0.06
43 49 0.94
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (43 bp):
TTAAATTAGATTTTAGGATTTCTAGATTTTTAGATTTAAAATA
Found at i:50495825 original size:43 final size:44
Alignment explanation
Indices: 50495738--50495859 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 44
50495728 TTTAGATTTT
* * * *
50495738 AAATATTAAATTAGATTTTAGGAT-TTCTAGATTTT-TAGGTTTA
1 AAATATTTAATTAGATTTTAAGATGTT-TAGGTTTTAAAGGTTTA
*
50495781 AAATATTTAATTAGATTTTAAGATGTTTAGGTTTTAAATG-TTA
1 AAATATTTAATTAGATTTTAAGATGTTTAGGTTTTAAAGGTTTA
** * *
50495824 AAATAGAT-ATTAGATTTGT-TGATGTTTAGGTCTTAA
1 AAATATTTAATTAGATTT-TAAGATGTTTAGGTTTTAA
50495860 TTATTAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 24 0.36
43 39 0.58
44 4 0.06
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.48
Consensus pattern (44 bp):
AAATATTTAATTAGATTTTAAGATGTTTAGGTTTTAAAGGTTTA
Found at i:50496256 original size:18 final size:18
Alignment explanation
Indices: 50496229--50496274 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
50496219 CGTAAAAAGT
50496229 ATTTA-AAAAAGT-GTAAA
1 ATTTATAAAAA-TCGTAAA
50496246 ATTTTATAAAAATCGTAAA
1 A-TTTATAAAAATCGTAAA
*
50496265 AATTATAAAA
1 ATTTATAAAA
50496275 TATATAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 13 0.52
19 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (18 bp):
ATTTATAAAAATCGTAAA
Found at i:50496266 original size:20 final size:20
Alignment explanation
Indices: 50496209--50496268 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
50496199 TTAGAAAAAA
*
50496209 TTATAAAAACCGTAAAAAGTAT
1 TTATAAAAATCGTAAAAA-T-T
50496231 TTA-AAAAAGT-GT-AAAATT
1 TTATAAAAA-TCGTAAAAATT
50496249 TTATAAAAATCGTAAAAATT
1 TTATAAAAATCGTAAAAATT
50496269 ATAAAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 10 0.30
21 7 0.21
22 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (20 bp):
TTATAAAAATCGTAAAAATT
Found at i:50496346 original size:20 final size:20
Alignment explanation
Indices: 50496317--50496373 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
50496307 CATAAATTTC
*
50496317 GTAATAAAATTATAAAAAAT
1 GTAAAAAAATTATAAAAAAT
* **
50496337 G-AAAAGAAA-TATCAAATTT
1 GTAAAA-AAATTATAAAAAAT
50496356 GTAAAAAAATTATAAAAA
1 GTAAAAAAATTATAAAAA
50496374 TTATCGTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAAAT
Found at i:50496413 original size:26 final size:26
Alignment explanation
Indices: 50496357--50496406 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
50496347 ATCAAATTTG
50496357 TAAAAAAATTATAAAAATTATCGTTC
1 TAAAAAAATTATAAAAATTATCGTTC
*
50496383 TAAAATAATTATAAAAATTATCGT
1 TAAAAAAATTATAAAAATTATCGT
50496407 ATCAAAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (26 bp):
TAAAAAAATTATAAAAATTATCGTTC
Found at i:50496420 original size:26 final size:26
Alignment explanation
Indices: 50496357--50496420 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
50496347 ATCAAATTTG
*
50496357 TAAAAAAATTATAAAAATTATCGTTC
1 TAAAAGAATTATAAAAATTATCGTTC
*
50496383 TAAAATAATTATAAAAATTATCGTATC
1 TAAAAGAATTATAAAAATTATCGT-TC
*
50496410 -AAAAGATTTAT
1 TAAAAGAATTAT
50496421 TTTATAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 32 0.94
27 2 0.06
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (26 bp):
TAAAAGAATTATAAAAATTATCGTTC
Found at i:50496613 original size:28 final size:28
Alignment explanation
Indices: 50496581--50496667 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
50496571 CATTTTTTAT
*
50496581 TTTAAATTTTTTCTAATTTTTAATAAAA
1 TTTAAATTTTTTATAATTTTTAATAAAA
* *
50496609 TTTAAATATTTTAT-ATTTTTATTAAAA
1 TTTAAATTTTTTATAATTTTTAATAAAA
* *
50496636 TTTAATAATTTTTATAATTTTT-ATAAAT
1 TTTAA-ATTTTTTATAATTTTTAATAAAA
50496664 TTTA
1 TTTA
50496668 TTGAATTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 17 0.34
28 27 0.54
29 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTAAATTTTTTATAATTTTTAATAAAA
Found at i:50496638 original size:19 final size:19
Alignment explanation
Indices: 50496616--50496678 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
50496606 AAATTTAAAT
50496616 ATTTTAT-ATTTTTATTAAA
1 ATTTTATAATTTTTATT-AA
*
50496635 ATTTAATAATTTTTA-TAA
1 ATTTTATAATTTTTATTAA
* * *
50496653 TTTTTATAAATTTTATTGA
1 ATTTTATAATTTTTATTAA
50496672 ATTTTAT
1 ATTTTAT
50496679 TTTTTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 14 0.39
19 15 0.42
20 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTATAATTTTTATTAA
Found at i:50496675 original size:37 final size:37
Alignment explanation
Indices: 50496599--50496693 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 37
50496589 TTTTCTAATT
** *
50496599 TTTAATAAAATTTA-AATATTTTATATTTTTATTAAAA
1 TTTAATAATTTTTATAAT-TTTTATAATTTTATTAAAA
*
50496636 TTTAATAATTTTTATAATTTTTATAAATTTTATT-GAA
1 TTTAATAATTTTTATAATTTTTAT-AATTTTATTAAAA
*
50496673 TTT--TATTTTTTATATATTTTT
1 TTTAATAATTTTTATA-ATTTTT
50496694 TCTGCATGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
35 10 0.20
36 6 0.12
37 23 0.46
38 11 0.22
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (37 bp):
TTTAATAATTTTTATAATTTTTATAATTTTATTAAAA
Found at i:50496676 original size:28 final size:26
Alignment explanation
Indices: 50496596--50496692 Score: 90
Period size: 28 Copynumber: 3.6 Consensus size: 26
50496586 ATTTTTTCTA
*
50496596 ATTTTTAATAAAATTTAA-ATATTTTAT
1 ATTTTT-ATAAATTTTAATA-ATTTTAT
*
50496623 ATTTTTATTAAAATTTAATAATTTTTAT
1 ATTTTTA-TAAATTTTAATAA-TTTTAT
*
50496651 AATTTTTATAAATTTTATTGAATTTTAT
1 -ATTTTTATAAATTTTAAT-AATTTTAT
*
50496679 -TTTTTATATATTTT
1 ATTTTTATAAATTTT
50496693 TTCTGCATGT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
26 14 0.23
27 17 0.27
28 22 0.35
29 9 0.15
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (26 bp):
ATTTTTATAAATTTTAATAATTTTAT
Found at i:50515847 original size:42 final size:42
Alignment explanation
Indices: 50515728--50515998 Score: 325
Period size: 42 Copynumber: 6.4 Consensus size: 42
50515718 ACGTCGCAAA
* * * *
50515728 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAATAAACGCCACTAAAGATCATGTT
*
50515772 CTTTAGCGGCGCTAAGGAAATAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAATAAACGCCACTAAAGATCATGTT
*
50515815 CTTTAGTGGCGCTTAGAAATAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTT
*
50515857 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTA
1 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTT
* * *
50515899 CTTTAGCTGCGCTAAGGAAAAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAATAAACGCCACTAAAGATCATGTT
* * *
50515942 CTTTAGCAGCGCTT-GTTCAA-AAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG--AAATAAACGCCACTAAAGA-TCA-TGTT
50515984 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
50515999 TTTCACAAAC
Statistics
Matches: 202, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
41 3 0.01
42 111 0.55
43 76 0.38
44 12 0.06
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTT
Found at i:50515911 original size:127 final size:126
Alignment explanation
Indices: 50515728--50515998 Score: 359
Period size: 127 Copynumber: 2.1 Consensus size: 126
50515718 ACGTCGCAAA
* * * * *
50515728 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCACTAAAGATCATGTACTTTAGCGGCGCTAAGGAAAA
**
50515793 AAACGCCACTAAAGATCATGTTCTTTAGTGGCGCTTAG-AAATAAACGCCACT-AAAGATCA-TG
64 AAACGCCACTAAAGATCATGTTCTTTAGCAGCGCTT-GTAAA-AAACGCCACTAAAAG-T-AGTG
50515855 TT
125 TT
* *
50515857 CTTTAGCGGCGCTTAGAAATAAACGCCACTAAAGATCATGTACTTTAGCTGCGCTAAGGAAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTACTTTAGCGGCGCTAAGGAAAAAA
* *
50515922 ACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTGTTCAAAAACGCCGCTAAAAGTAGTGTT
66 ACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTG-TAAAAAACGCCACTAAAAGTAGTGTT
50515984 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
50515999 TTTCACAAAC
Statistics
Matches: 127, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
126 2 0.02
127 106 0.83
128 6 0.05
129 13 0.10
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (126 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCATGTACTTTAGCGGCGCTAAGGAAAAAA
ACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTGTAAAAAACGCCACTAAAAGTAGTGTT
Found at i:50515924 original size:85 final size:85
Alignment explanation
Indices: 50515735--50515955 Score: 329
Period size: 85 Copynumber: 2.6 Consensus size: 85
50515725 AAACTTTTGC
* * *
50515735 GGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCC
1 GGCGC-TA-AGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAAACGCC
*
50515800 ACTAAAGATCATGTTCTTTAGT
64 ACTAAAGATCATGTACTTTAGT
* *
50515822 GGCGCTTAGAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAATAAACGCCAC
1 GGCGCTAAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAAACGCCAC
50515886 TAAAGATCATGTACTTTAGCT
66 TAAAGATCATGTACTTTAG-T
*
50515907 -GCGCTAAGGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCAGCGCTT
1 GGCGCTAA-GAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTT
50515956 GTTCAAAAAC
Statistics
Matches: 123, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
84 38 0.31
85 79 0.64
86 1 0.01
87 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (85 bp):
GGCGCTAAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAAACGCCAC
TAAAGATCATGTACTTTAGT
Found at i:50515996 original size:85 final size:83
Alignment explanation
Indices: 50515728--50515996 Score: 319
Period size: 85 Copynumber: 3.2 Consensus size: 83
50515718 ACGTCGCAAA
* * * *
50515728 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAT
1 CTTTAGCGGCGC-TA-AGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCT--TGAAAT
50515793 AAACGCCACTAAAGATCATGTT
62 AAACGCCACTAAAGATCATGTT
* * *
50515815 CTTTAGTGGCGCTTAGAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAATAAA
1 CTTTAGCGGCGCTAAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTT-GAAATAAA
*
50515880 CGCCACTAAAGATCATGTA
65 CGCCACTAAAGATCATGTT
* * *
50515899 CTTTAGCTGCGCTAAGGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTGTTCAA-A
1 CTTTAGCGGCGCTAA-GAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTG--AAATA
*
50515963 AACGCCGCTAAA-AGT-AGTGTT
63 AACGCCACTAAAGA-TCA-TGTT
50515984 CTTTAGCGGCGCT
1 CTTTAGCGGCGCT
50515997 TATTTCACAA
Statistics
Matches: 159, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
84 41 0.26
85 105 0.66
86 3 0.02
87 10 0.06
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (83 bp):
CTTTAGCGGCGCTAAGAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTGAAATAAAC
GCCACTAAAGATCATGTT
Found at i:50516495 original size:21 final size:21
Alignment explanation
Indices: 50516433--50516498 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
50516423 TCTATCGCTA
* *
50516433 CTTCTCTCGCTGCGGCCTCTA
1 CTTCTCTCGCTGCAGCCTCTG
* * *
50516454 CTTCTCTCACTGTAGCGTCTG
1 CTTCTCTCGCTGCAGCCTCTG
*
50516475 CTTCTCTCGCTGCCGCCTCTG
1 CTTCTCTCGCTGCAGCCTCTG
50516496 CTT
1 CTT
50516499 TAAGTTGTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.05, C:0.41, G:0.18, T:0.36
Consensus pattern (21 bp):
CTTCTCTCGCTGCAGCCTCTG
Found at i:50521803 original size:9 final size:9
Alignment explanation
Indices: 50521789--50522262 Score: 183
Period size: 9 Copynumber: 55.9 Consensus size: 9
50521779 AAGATATACA
50521789 TTATGTAAG
1 TTATGTAAG
50521798 TTATGTAAG
1 TTATGTAAG
50521807 TTATGTAAG
1 TTATGTAAG
50521816 TTATGTAAG
1 TTATGTAAG
*
50521825 TTGTGTAAG
1 TTATGTAAG
**
50521834 TTGCGTAAG
1 TTATGTAAG
* *
50521843 ATGTGT-A-
1 TTATGTAAG
* *
50521850 TTATGAAAC
1 TTATGTAAG
50521859 TTATGTAAG
1 TTATGTAAG
*
50521868 TTATGT--C
1 TTATGTAAG
50521875 TTATGTAAG
1 TTATGTAAG
*
50521884 TTATGTAAA
1 TTATGTAAG
*
50521893 ATATGT-A-
1 TTATGTAAG
*
50521900 TTATTTACA-
1 TTATGTA-AG
*
50521909 -CATGTAAG
1 TTATGTAAG
*
50521917 TTATGT--C
1 TTATGTAAG
50521924 TTATGTAAG
1 TTATGTAAG
**
50521933 TTGCGTAAG
1 TTATGTAAG
*
50521942 TTGTGT-A-
1 TTATGTAAG
*
50521949 TTATGAAAG
1 TTATGTAAG
*
50521958 TTATGT--C
1 TTATGTAAG
50521965 TTATGTAAG
1 TTATGTAAG
*
50521974 TTATGTAAT
1 TTATGTAAG
50521983 TTATGT-A-
1 TTATGTAAG
*
50521990 TTATTTACA-
1 TTATGTA-AG
*
50521999 -CATGTAAG
1 TTATGTAAG
*
50522007 TTATGT--C
1 TTATGTAAG
50522014 TTATGTAAG
1 TTATGTAAG
**
50522023 TTGCGTAAG
1 TTATGTAAG
*
50522032 TTGTGT-A-
1 TTATGTAAG
* *
50522039 TTATGAAAC
1 TTATGTAAG
50522048 TTATGTAAG
1 TTATGTAAG
**
50522057 TTGCGTAAG
1 TTATGTAAG
*
50522066 TTGTGT-A-
1 TTATGTAAG
*
50522073 TTATGTAAC
1 TTATGTAAG
* *
50522082 TTATTTAAT
1 TTATGTAAG
*
50522091 TTATGTAGG
1 TTATGTAAG
*
50522100 GTATGTATTA-
1 TTATGTA--AG
*
50522110 TTATGTAAC
1 TTATGTAAG
* *
50522119 TTATTTAAT
1 TTATGTAAG
*
50522128 TTATGTAGG
1 TTATGTAAG
*
50522137 GTATGTAAG
1 TTATGTAAG
50522146 TTATGTAAG
1 TTATGTAAG
*
50522155 TTCTGT-A-
1 TTATGTAAG
*
50522162 TTATTTACA-
1 TTATGTA-AG
*
50522171 -CATGTAAG
1 TTATGTAAG
*
50522179 TTGTGT-A-
1 TTATGTAAG
50522186 TTATGTATTA-
1 TTATGTA--AG
*
50522196 TTATGTAAC
1 TTATGTAAG
*
50522205 TTATTTAAG
1 TTATGTAAG
*
50522214 TTATGCAAG
1 TTATGTAAG
*
50522223 TTATAT-A-
1 TTATGTAAG
* *
50522230 TTAAGTAGG
1 TTATGTAAG
50522239 TTATGTAAG
1 TTATGTAAG
50522248 TTATGT--G
1 TTATGTAAG
50522255 TTATGTAA
1 TTATGTAA
50522263 ATGAATATAT
Statistics
Matches: 345, Mismatches: 81, Indels: 78
0.68 0.16 0.15
Matches are distributed among these distances:
7 72 0.21
8 27 0.08
9 232 0.67
10 14 0.04
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:50521866 original size:25 final size:25
Alignment explanation
Indices: 50521838--50521903 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
50521828 TGTAAGTTGC
*
50521838 GTAAGATGTGTATTATGAAACTTAT
1 GTAAGATATGTATTATGAAACTTAT
* * * *
50521863 GTAAGTTATGTCTTATGTAAGTTAT
1 GTAAGATATGTATTATGAAACTTAT
*
50521888 GTAAAATATGTATTAT
1 GTAAGATATGTATTAT
50521904 TTACACATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (25 bp):
GTAAGATATGTATTATGAAACTTAT
Found at i:50521877 original size:16 final size:16
Alignment explanation
Indices: 50521858--50522024 Score: 95
Period size: 16 Copynumber: 10.8 Consensus size: 16
50521848 TATTATGAAA
50521858 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
50521874 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
** *
50521890 AAAATATGT-A-TTATTT
1 --CTTATGTAAGTTATGT
**
50521906 ACACATGTAAGTTATGT
1 -CTTATGTAAGTTATGT
50521923 CTTATGTAAG-T-TG-
1 CTTATGTAAGTTATGT
*
50521936 C----GTAAGTTGTGT
1 CTTATGTAAGTTATGT
* *
50521948 ATTATGAAAGTTATGT
1 CTTATGTAAGTTATGT
50521964 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
* *
50521980 AATTTATGT-A-TTATTT
1 --CTTATGTAAGTTATGT
**
50521996 ACACATGTAAGTTATGT
1 -CTTATGTAAGTTATGT
50522013 CTTATGTAAGTT
1 CTTATGTAAGTT
50522025 GCGTAAGTTG
Statistics
Matches: 115, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
9 5 0.04
10 1 0.01
11 2 0.02
13 1 0.01
14 2 0.02
15 12 0.10
16 69 0.60
17 12 0.10
18 11 0.10
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:50521925 original size:49 final size:49
Alignment explanation
Indices: 50521861--50522024 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 49
50521851 TATGAAACTT
50521861 ATGTAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACAC
1 ATGTAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACAC
** * *
50521910 ATGTAAGTTATGTCTTATGTAAGTTGCGT-AAGT-TGT-GTA-TT----
1 ATGTAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACAC
* **
50521951 ATGAAAGTTATGTCTTATGTAAGTTATGTAATTTATGTATTATTTACAC
1 ATGTAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACAC
50522000 ATGTAAGTTATGTCTTATGTAAGTT
1 ATGTAAGTTATGTCTTATGTAAGTT
50522025 GCGTAAGTTG
Statistics
Matches: 96, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
41 26 0.27
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 2 0.02
47 3 0.03
48 3 0.03
49 51 0.53
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.46
Consensus pattern (49 bp):
ATGTAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACAC
Found at i:50521967 original size:90 final size:90
Alignment explanation
Indices: 50521859--50522053 Score: 354
Period size: 90 Copynumber: 2.2 Consensus size: 90
50521849 ATTATGAAAC
*
50521859 TTATGTAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACACATGTAAGTTATGTC
1 TTATGAAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACACATGTAAGTTATGTC
50521924 TTATGTAAGTTGCGTAAGTTGTGTA
66 TTATGTAAGTTGCGTAAGTTGTGTA
**
50521949 TTATGAAAGTTATGTCTTATGTAAGTTATGTAATTTATGTATTATTTACACATGTAAGTTATGTC
1 TTATGAAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACACATGTAAGTTATGTC
50522014 TTATGTAAGTTGCGTAAGTTGTGTA
66 TTATGTAAGTTGCGTAAGTTGTGTA
*
50522039 TTATGAAACTTATGT
1 TTATGAAAGTTATGT
50522054 AAGTTGCGTA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 101 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (90 bp):
TTATGAAAGTTATGTCTTATGTAAGTTATGTAAAATATGTATTATTTACACATGTAAGTTATGTC
TTATGTAAGTTGCGTAAGTTGTGTA
Found at i:50522051 original size:34 final size:34
Alignment explanation
Indices: 50522013--50522085 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
50522003 TAAGTTATGT
50522013 CTTATGTAAGTTGCGTAAGTTGTGTATTATGAAA
1 CTTATGTAAGTTGCGTAAGTTGTGTATTATGAAA
*
50522047 CTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
1 CTTATGTAAGTTGCGTAAGTTGTGTATTATGAAA
50522081 CTTAT
1 CTTAT
50522086 TTAATTTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (34 bp):
CTTATGTAAGTTGCGTAAGTTGTGTATTATGAAA
Found at i:50522055 original size:25 final size:25
Alignment explanation
Indices: 50522000--50522059 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
50521990 TTATTTACAC
* * * *
50522000 ATGTAAGTTATGTCTTATGTAAGTT
1 ATGTAAGTTGTGTATTATGAAACTT
**
50522025 GCGTAAGTTGTGTATTATGAAACTT
1 ATGTAAGTTGTGTATTATGAAACTT
50522050 ATGTAAGTTG
1 ATGTAAGTTG
50522060 CGTAAGTTGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.43
Consensus pattern (25 bp):
ATGTAAGTTGTGTATTATGAAACTT
Found at i:50522119 original size:37 final size:37
Alignment explanation
Indices: 50522071--50522143 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
50522061 GTAAGTTGTG
50522071 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
50522108 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
50522144 AGTTATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (37 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
Found at i:50523480 original size:14 final size:14
Alignment explanation
Indices: 50523461--50523490 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50523451 CACGAACAGC
50523461 AAGATGATTAACTA
1 AAGATGATTAACTA
50523475 AAGATGATTAACTA
1 AAGATGATTAACTA
50523489 AA
1 AA
50523491 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:50523755 original size:53 final size:54
Alignment explanation
Indices: 50523692--50523793 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
50523682 TCAGACTTAG
50523692 AAATTATTTCAAATCCAAAGC-A-TATTTCAGAACATAACAACATAATCAAAAAC
1 AAATTATTTCAAATCC-AAGCAATTATTTCAGAACATAACAACATAATCAAAAAC
**
50523745 AAATTATTTCAAATCCACTCAATTATTTCAGAACATAACAACATAATCA
1 AAATTATTTCAAATCCAAGCAATTATTTCAGAACATAACAACATAATCA
50523794 TGTGCTATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 2 0.04
53 17 0.38
54 26 0.58
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (54 bp):
AAATTATTTCAAATCCAAGCAATTATTTCAGAACATAACAACATAATCAAAAAC
Found at i:50523999 original size:22 final size:22
Alignment explanation
Indices: 50523971--50524017 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
50523961 GTGGCTGTAA
* *
50523971 TAACAGAAACGCCTTACCTATT
1 TAACAGAAACGCCTGACATATT
50523993 TAACAGAAACGCCTGACATATT
1 TAACAGAAACGCCTGACATATT
50524015 TAA
1 TAA
50524018 TCGGAATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (22 bp):
TAACAGAAACGCCTGACATATT
Found at i:50525076 original size:8 final size:7
Alignment explanation
Indices: 50525005--50525073 Score: 57
Period size: 7 Copynumber: 9.3 Consensus size: 7
50524995 TTTGGGATTT
50525005 AACCCTA
1 AACCCTA
50525012 AACCCTA
1 AACCCTA
50525019 AACCTCTA
1 AACC-CTA
50525027 AACCCTAA
1 AACCCT-A
*
50525035 AATCCTA
1 AACCCTA
* *
50525042 AGCTACTA
1 AAC-CCTA
**
50525050 AATCGTTA
1 AA-CCCTA
50525058 AACCCTA
1 AACCCTA
50525065 AACCCTA
1 AACCCTA
50525072 AA
1 AA
50525074 ACCAACAACC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
7 27 0.55
8 21 0.43
9 1 0.02
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (7 bp):
AACCCTA
Found at i:50525076 original size:15 final size:14
Alignment explanation
Indices: 50525005--50525073 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 14
50524995 TTTGGGATTT
50525005 AACCCTAAACCCTA
1 AACCCTAAACCCTA
50525019 AACCTCTAAACCCTAA
1 AACC-CTAAACCCT-A
* * *
50525035 AATCCTAAGCTACTA
1 AACCCTAAAC-CCTA
**
50525050 AATCGTTAAACCCTA
1 AA-CCCTAAACCCTA
50525065 AACCCTAAA
1 AACCCTAAA
50525074 ACCAACAACC
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
14 9 0.22
15 22 0.54
16 10 0.24
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (14 bp):
AACCCTAAACCCTA
Found at i:50525178 original size:22 final size:21
Alignment explanation
Indices: 50525134--50525190 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
50525124 ACTAAAGTAG
*
50525134 CTTAAACCCCAAACCTTAAAC
1 CTTAAACCCCAAACCCTAAAC
*
50525155 CTTAAACCCCAGACTCCTAAAC
1 CTTAAACCCCAAAC-CCTAAAC
*
50525177 CTTAAACCCAAAAC
1 CTTAAACCCCAAAC
50525191 ACCCTAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.42, C:0.39, G:0.02, T:0.18
Consensus pattern (21 bp):
CTTAAACCCCAAACCCTAAAC
Found at i:50525207 original size:23 final size:23
Alignment explanation
Indices: 50525181--50525236 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
50525171 CTAAACCTTA
*
50525181 AACCCAAAACACCCTAATACCCT
1 AACCCTAAACACCCTAATACCCT
*
50525204 AACCCTAAACACTCTAATACCCT
1 AACCCTAAACACCCTAATACCCT
50525227 AACCCTAAAC
1 AACCCTAAAC
50525237 CTACATCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (23 bp):
AACCCTAAACACCCTAATACCCT
Found at i:50525255 original size:7 final size:7
Alignment explanation
Indices: 50525136--50525256 Score: 68
Period size: 7 Copynumber: 16.7 Consensus size: 7
50525126 TAAAGTAGCT
50525136 TAAACCC
1 TAAACCC
* *
50525143 CAAACCT
1 TAAACCC
*
50525150 TAAACCT
1 TAAACCC
50525157 TAAACCC
1 TAAACCC
* *
50525164 CAGACTCC
1 TAAAC-CC
*
50525172 TAAACCT
1 TAAACCC
50525179 TAAACCC
1 TAAACCC
*
50525186 AAAACACCC
1 -TAA-ACCC
50525195 TAATACCC
1 TAA-ACCC
50525203 T-AACCC
1 TAAACCC
50525209 TAAACACTC
1 TAAAC-C-C
50525218 TAATACCC
1 TAA-ACCC
50525226 T-AACCC
1 TAAACCC
50525232 TAAA-CC
1 TAAACCC
* * *
50525238 TACATCA
1 TAAACCC
50525245 TAAACCC
1 TAAACCC
50525252 TAAAC
1 TAAAC
50525257 TTTAAACTTT
Statistics
Matches: 87, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
6 15 0.17
7 44 0.51
8 17 0.20
9 9 0.10
10 2 0.02
ACGTcount: A:0.42, C:0.39, G:0.01, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:50525672 original size:113 final size:115
Alignment explanation
Indices: 50525470--50525988 Score: 285
Period size: 114 Copynumber: 4.6 Consensus size: 115
50525460 AACAAATCGT
* * * *
50525470 CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAATCGCCACTAAATTAAGTATACATCAAGACC
1 CGCTAATACTATGCTTTAACGGCGTTTTACCCTAAGCGCCACTAAATTAACTATACATCAAGACC
* *
50525535 AAAACGATGCGTTTTGGTTCAGATATTTGGTGGCACTTTTATCCAAGCGC
66 AAAACGATGCATTTTGGTTAAGATATTTGGTGGCACTTTTATCCAAGCGC
* * * *
50525585 CGCTAATACTATGCTTTAACGGCG-TTT-CCCTAAGCGTCACT-AATTCTACTATACATCGAGGC
1 CGCTAATACTATGCTTTAACGGCGTTTTACCCTAAGCGCCACTAAATT-AACTATACATCAAGAC
** * * * * * *
50525647 CAAAATTATGCATTTTGGTTAAGATATTTTGCGGCGC-TTTGT----GAGA
65 CAAAACGATGCATTTTGGTTAAGATATTTGGTGGCACTTTTATCCAAGCGC
** * * * * * * * * * *
50525693 AACTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTA-TATACATTAAGATC
1 CGCTAATACTATGCTTTAACGGCGTTTTACCCTAAGCGCCACTAAATTAACTATACATCAAGACC
* * * * * * *** * *
50525757 AAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTAGCCA-CGAATCGC
66 AAAACGATGCATTTTGGTTAAGATATTTGGTGGCACT-TTTATCCAAGCGC
* * * * * * * *
50525807 CGCTAATACTATTCTTTAGCGGCGTTTGACCGTATGCGCCACT-AGTTCTAGTATACATCAAGAC
1 CGCTAATACTATGCTTTAACGGCGTTTTACCCTAAGCGCCACTAAATT-AACTATACATCAAGAC
** * * * *** *
50525871 CAAAACGATGTGTTTCGGTTCAGATAGTTT-GTGGCGCTTCCGT-AAAGCGC
65 CAAAACGATGCATTTTGGTTAAGATA-TTTGGTGGCACTTTTATCCAAGCGC
* * * * * * * *
50525921 CGCTATTACTGTCCTTTAATGGCGTTTT-CCCATAAACGCCAGTAATTCTAA-TATACCTCAAGA
1 CGCTAATACTATGCTTTAACGGCGTTTTACCC-TAAGCGCCACTAAAT-TAACTATACATCAAGA
50525984 CCAAA
64 CCAAA
50525989 CTCTGCGTTT
Statistics
Matches: 311, Mismatches: 76, Indels: 35
0.74 0.18 0.08
Matches are distributed among these distances:
108 20 0.06
109 44 0.14
110 14 0.05
111 3 0.01
112 8 0.03
113 58 0.19
114 95 0.31
115 65 0.21
116 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (115 bp):
CGCTAATACTATGCTTTAACGGCGTTTTACCCTAAGCGCCACTAAATTAACTATACATCAAGACC
AAAACGATGCATTTTGGTTAAGATATTTGGTGGCACTTTTATCCAAGCGC
Found at i:50525923 original size:114 final size:112
Alignment explanation
Indices: 50525470--50526133 Score: 464
Period size: 113 Copynumber: 5.9 Consensus size: 112
50525460 AACAAATCGT
* *
50525470 CGCTAATACTATGCTTTAGCGGCGTTTTACCGTAATCGCCACTAAATT-AAGTATACATCAAGAC
1 CGCTAATACTATGCTTTAGCGGCG-TTTACCGTAAGCGCCACT-AATTCTAGTATACATCAAGAC
* * * * **
50525534 CAAAACGATGCGTTTTGGTTCAGATATTTGGTGGCACTTTTATCCAAGCGC
64 CAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCAT--AAGCGC
* * * * * *
50525585 CGCTAATACTATGCTTTAACGGCGTTT-CCCTAAGCGTCACTAATTCTACTATACATCGAGGCCA
1 CGCTAATACTATGCTTTAGCGGCGTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCA
** * ** * *
50525649 AAATTATGCATTTTGGTTAAGATATTTTGCGGCGCTT---TGTGAGA
66 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCATAAGCGC
** * * * * * *
50525693 AACTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTA-TATACATTAAGATC
1 CGCTAATACTATGCTTTAGCGGC-GTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
* * * * *
50525757 AAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTAGCCACGAATCGC
65 AAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCCA-TAAGCGC
* * *
50525807 CGCTAATACTATTCTTTAGCGGCGTTTGACCGTATGCGCCACTAGTTCTAGTATACATCAAGACC
1 CGCTAATACTATGCTTTAGCGGCGTTT-ACCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
* * * * * *
50525872 AAAACGATGTGTTTCGGTTCAGATAGTTTGTGGCGCTTCCGTAAAGCGC
65 AAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCAT-AAGCGC
* * * ** * * * * * *
50525921 CGCTATTACTGTCCTTTAATGGCGTTTTCCCATAAACGCCAGTAATTCTAATATACCTCAAGACC
1 CGCTAATACTATGCTTTAGCGGCG-TTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACC
** * * * * * *
50525986 -AAACTCTGCGTTTTGATTAAGCTATTTTACGGCGTTTCTAAAAAGCGC
65 AAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTC-CATAAGCGC
* * * * * * * * * * *
50526034 CGCTATTACTGTCCTTTAACGGTGTTT-CGCGTAAACGGCACTACTTTTAGGATACATCAAGACG
1 CGCTAATACTATGCTTTAGCGGCGTTTAC-CGTAAGCGCCACTAATTCTAGTATACATCAAGACC
* * *
50526098 AAAACACAT-CGTTTTGGTTAAGAGATTTCGCGGCGC
65 AAAAC-GATGCGTTTTGGTTAAGATATTTTGCGGCGC
50526134 ATTGTGGTAA
Statistics
Matches: 423, Mismatches: 110, Indels: 34
0.75 0.19 0.06
Matches are distributed among these distances:
108 19 0.04
109 46 0.11
110 19 0.04
111 1 0.00
112 33 0.08
113 139 0.33
114 98 0.23
115 68 0.16
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (112 bp):
CGCTAATACTATGCTTTAGCGGCGTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCA
AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCATAAGCGC
Found at i:50531583 original size:18 final size:18
Alignment explanation
Indices: 50531560--50531596 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50531550 TTAAGTTGAA
50531560 CCAGAGATGGCTAATTGG
1 CCAGAGATGGCTAATTGG
50531578 CCAGAGATGGCTAATTGG
1 CCAGAGATGGCTAATTGG
50531596 C
1 C
50531597 AACAACAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (18 bp):
CCAGAGATGGCTAATTGG
Found at i:50533045 original size:12 final size:12
Alignment explanation
Indices: 50533028--50533061 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50533018 ACAAGAATCA
50533028 GCGGCAGCAGCG
1 GCGGCAGCAGCG
*
50533040 GCGGCAGCGGCG
1 GCGGCAGCAGCG
*
50533052 GCGGAAGCAG
1 GCGGCAGCAG
50533062 TAGATTGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.18, C:0.29, G:0.53, T:0.00
Consensus pattern (12 bp):
GCGGCAGCAGCG
Found at i:50539780 original size:28 final size:28
Alignment explanation
Indices: 50539740--50539795 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
50539730 AGAAAATTCG
50539740 GTATCAGTTTATATTGTAAACATAACAC
1 GTATCAGTTTATATTGTAAACATAACAC
50539768 GTATCAGTTTATATTGTAAACATAACAC
1 GTATCAGTTTATATTGTAAACATAACAC
50539796 AACCTGACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (28 bp):
GTATCAGTTTATATTGTAAACATAACAC
Found at i:50546465 original size:25 final size:25
Alignment explanation
Indices: 50546419--50546466 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
50546409 TTAGGTTAAG
50546419 TATATATTATTTTGTATATTATATC
1 TATATATTATTTTGTATATTATATC
*
50546444 TATATATATATTTTG-ATCTTATA
1 TATATAT-TATTTTGTATATTATA
50546467 CTTGTGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATTATTTTGTATATTATATC
Found at i:50548709 original size:27 final size:27
Alignment explanation
Indices: 50548659--50549073 Score: 260
Period size: 27 Copynumber: 15.4 Consensus size: 27
50548649 ATATCTGGAT
* *
50548659 CGAAATACCCCCAAAAGGTAAAATGAC
1 CGAAATACCCTCGAAAGGTAAAATGAC
* * * *
50548686 CAAAATACCCTCGAACGGTGAAATGAT
1 CGAAATACCCTCGAAAGGTAAAATGAC
* * *
50548713 CGAAATACCCT-TAAAGAGAAAAATTAC
1 CGAAATACCCTCGAAAG-GTAAAATGAC
* *
50548740 CGAAATACCCTCGAAAGGTAAAATTAT
1 CGAAATACCCTCGAAAGGTAAAATGAC
* * * *
50548767 CGAAAAACCCCCG-AAGGATAAAATTAT
1 CGAAATACCCTCGAAAGG-TAAAATGAC
* * *
50548794 CTAAATACCCCCAAAAGGTAAAATGA-
1 CGAAATACCCTCGAAAGGTAAAATGAC
** * * *
50548820 TTAAATTACCCCCGAAGGGTAAAATGAT
1 CGAAA-TACCCTCGAAAGGTAAAATGAC
* * * *
50548848 CGAATTACCCCCG-AAGGTTAAAATAAT
1 CGAAATACCCTCGAAAGG-TAAAATGAC
* *
50548875 CGAATTACCCTCGAAGGGTAAAATGAC
1 CGAAATACCCTCGAAAGGTAAAATGAC
50548902 C-AAATTACCC-CTG-AAGAGTAAAATGAC
1 CGAAA-TACCCTC-GAAAG-GTAAAATGAC
*
50548929 CGAAATACCCTC-ATAGGGTAAAATGAC
1 CGAAATACCCTCGA-AAGGTAAAATGAC
*
50548956 CGAAATACCC-CCATAAGGTAAAATGAC
1 CGAAATACCCTCGA-AAGGTAAAATGAC
* * * *
50548983 TGAAATACCC-CTATAGGGTAGAATGAC
1 CGAAATACCCTCGA-AAGGTAAAATGAC
* * *
50549010 CAAAATACCCT-TATAGGGTAAAATGAC
1 CGAAATACCCTCGA-AAGGTAAAATGAC
* *
50549037 CGAAATACCCT-TATACGGTAAAATGAC
1 CGAAATACCCTCGA-AAGGTAAAATGAC
**
50549064 TAAAATACCC
1 CGAAATACCC
50549074 CCATAGAGTA
Statistics
Matches: 322, Mismatches: 49, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
26 20 0.06
27 283 0.88
28 19 0.06
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
CGAAATACCCTCGAAAGGTAAAATGAC
Found at i:50548994 original size:81 final size:81
Alignment explanation
Indices: 50548676--50549141 Score: 333
Period size: 81 Copynumber: 5.8 Consensus size: 81
50548666 CCCCCAAAAG
* * * * * * *
50548676 GTAAAATGACCAAAATACCCTCGAACGGTGAAATGATCGAAATACCCTTA-AAGAGAAAAATTAC
1 GTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTATAAG-GTAAAATGAC
*
50548740 CGAAATA-CCCTCGAA-A
65 TGAAATACCCCT-GAAGA
* * * * * * * * * *
50548756 GGTAAAATTATCGAAAAACCCCCGAAGGATAAAATTATCTAAATACCCCCAAAAGGTAAAATGA-
1 -GTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGAC
* * *
50548820 TTAAATTACCCCCGAAGG
65 TGAAA-TACCCCTGAAGA
* * * * * * * * *
50548838 GTAAAATGATCGAATTACCCCCGAAGGTTAAAATAATCGAATTACCCTCGA-AGGGTAAAATGAC
1 GTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCC-CTATAAGGTAAAATGAC
*
50548902 -CAAATTACCCCTGAAGA
65 TGAAA-TACCCCTGAAGA
*
50548919 GTAAAATGACCGAAATACCCTC-ATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAATGAC
1 GTAAAATGACCGAAATACCCTCGA-AGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGAC
*
50548983 TGAAATACCCCT-ATAGG
65 TGAAATACCCCTGA-AGA
* * * * *
50549000 GTAGAATGACCAAAATACCCT-TATAGGGTAAAATGACCGAAATACCCTTATACGGTAAAATGAC
1 GTAAAATGACCGAAATACCCTCGA-AGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGAC
* *
50549064 TAAAATACCCC-CATAGA
65 TGAAATACCCCTGA-AGA
* * * * * * *
50549081 GTAAAATAACTGTAATACCC-CTATAGGGTTAAATAACTGAAATACCCCTATAAGGTAAAAT
1 GTAAAATGACCGAAATACCCTCGA-AGGGTAAAATGACCGAAATACCCCTATAAGGTAAAAT
50549142 AACCGTAACG
Statistics
Matches: 314, Mismatches: 58, Indels: 26
0.79 0.15 0.07
Matches are distributed among these distances:
80 7 0.02
81 296 0.94
82 11 0.04
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (81 bp):
GTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGACT
GAAATACCCCTGAAGA
Found at i:50549084 original size:27 final size:27
Alignment explanation
Indices: 50548892--50549146 Score: 234
Period size: 27 Copynumber: 9.4 Consensus size: 27
50548882 CCCTCGAAGG
50548892 GTAAAATGACC-AAATTACCCCTGA-AGA
1 GTAAAATGACCGAAA-TACCCCT-ATAGA
*
50548919 GTAAAATGACCGAAATA-CCCTCATAGG
1 GTAAAATGACCGAAATACCCCT-ATAGA
*
50548946 GTAAAATGACCGAAATACCCCCATA-A
1 GTAAAATGACCGAAATACCCCTATAGA
* *
50548972 GGTAAAATGACTGAAATACCCCTATAGG
1 -GTAAAATGACCGAAATACCCCTATAGA
* * * *
50549000 GTAGAATGACCAAAATACCCTTATAGG
1 GTAAAATGACCGAAATACCCCTATAGA
*
50549027 GTAAAATGACCGAAATACCCTTATACG-
1 GTAAAATGACCGAAATACCCCTATA-GA
** *
50549054 GTAAAATGACTAAAATACCCCCATAGA
1 GTAAAATGACCGAAATACCCCTATAGA
* * * *
50549081 GTAAAATAACTGTAATACCCCTATAGG
1 GTAAAATGACCGAAATACCCCTATAGA
* * *
50549108 GTTAAATAACTGAAATACCCCTATA-A
1 GTAAAATGACCGAAATACCCCTATAGA
*
50549134 GGTAAAATAACCG
1 -GTAAAATGACCG
50549147 TAACGCCTCT
Statistics
Matches: 193, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.03
27 180 0.93
28 7 0.04
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCCTATAGA
Found at i:50549085 original size:54 final size:54
Alignment explanation
Indices: 50548659--50549146 Score: 275
Period size: 54 Copynumber: 9.0 Consensus size: 54
50548649 ATATCTGGAT
* * * * * *
50548659 CGAAATACCCCCAAAAGGTAAAATGACCAAAATACCCTCGA-ACG-GTGAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGACCAAAATACCC-CCATA-GAGTAAAATGAC
* * * * * * * * * *
50548713 CGAAATACCCTTAAAGAGAAAAATTACCGAAATACCCTCGAAAG-GTAAAATTAT
1 CGAAATACCCCTATAGGGTAAAATGACCAAAATACCC-CCATAGAGTAAAATGAC
* * * * * * *
50548767 CGAAAAACCCCCGA-AGGATAAAATTATCTAAATACCCCCA-AAAGGTAAAATGA-
1 CGAAATA-CCCCTATAGGGTAAAATGACCAAAATACCCCCATAGA-GTAAAATGAC
** * * * * * *
50548820 TTAAATTACCCCCGA-AGGGTAAAATGATCGAATTACCCCCGA-AG-GTTAAAATAAT
1 CGAAA-TA-CCCCTATAGGGTAAAATGACCAAAATACCCCC-ATAGAG-TAAAATGAC
* * * *
50548875 CGAATTACCCTCGA-AGGGTAAAATGACCAAATTACCCCTGA-AGAGTAAAATGAC
1 CGAAATACCC-CTATAGGGTAAAATGACCAAAATACCCC-CATAGAGTAAAATGAC
*
50548929 CGAAATA-CCCTCATAGGGTAAAATGACCGAAATACCCCCATA-AGGTAAAATGAC
1 CGAAATACCCCT-ATAGGGTAAAATGACCAAAATACCCCCATAGA-GTAAAATGAC
* * ** *
50548983 TGAAATACCCCTATAGGGTAGAATGACCAAAATACCCTTATAGGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCCATAGAGTAAAATGAC
* * * *
50549037 CGAAATACCCTTATACGGTAAAATGACTAAAATACCCCCATAGAGTAAAATAAC
1 CGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCCATAGAGTAAAATGAC
* * * * ** * *
50549091 TGTAATACCCCTATAGGGTTAAATAACTGAAATACCCCTATA-AGGTAAAATAAC
1 CGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCCATAGA-GTAAAATGAC
50549145 CG
1 CG
50549147 TAACGCCTCT
Statistics
Matches: 350, Mismatches: 66, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
52 2 0.01
53 15 0.04
54 319 0.91
55 14 0.04
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (54 bp):
CGAAATACCCCTATAGGGTAAAATGACCAAAATACCCCCATAGAGTAAAATGAC
Found at i:50549219 original size:24 final size:24
Alignment explanation
Indices: 50549187--50549249 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
50549177 GCCCCTCAAG
*
50549187 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGACTGATTTGTCCGTGA
*
50549211 TGTAAATGACTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCCGTGA
* **
50549235 TTTGTATGACTGATT
1 TGTAAATGACTGATT
50549250 CTAAGCATGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCCGTGA
Found at i:50549351 original size:27 final size:27
Alignment explanation
Indices: 50549313--50549377 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
50549303 ATGGAGGAAG
50549313 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
50549338 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
*
50549366 TACTATTACTGG
1 TACTGTTACTGG
50549378 CAGCTTTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:50549383 original size:27 final size:27
Alignment explanation
Indices: 50549331--50549383 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
50549321 TGGTGGCTCT
* **
50549331 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTATTACTGGCAGCTTG
50549358 GCCACATAT-ACTATTACTGGCAGCTT
1 GCCACA-ATCACTATTACTGGCAGCTT
50549384 TGCTGTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTATTACTGGCAGCTTG
Done.