Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3
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: 6198200
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 200361 characters in sequence are not A, C, G, or T
File 27 of 32
Found at i:4742655 original size:17 final size:18
Alignment explanation
Indices: 4742613--4742656 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
4742603 TTACACGTAA
4742613 ATTTAAATATAAAAAAAT
1 ATTTAAATATAAAAAAAT
** *
4742631 ATACAAAT-TAAAAAAGT
1 ATTTAAATATAAAAAAAT
4742648 ATTTAAATA
1 ATTTAAATA
4742657 GTAATGCAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATTTAAATATAAAAAAAT
Found at i:4747675 original size:6 final size:7
Alignment explanation
Indices: 4747658--4747683 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4747648 CAAATTTCAG
4747658 TTTTTAA
1 TTTTTAA
4747665 TTTTTAA
1 TTTTTAA
4747672 TTTTTAA
1 TTTTTAA
4747679 TTTTT
1 TTTTT
4747684 TTGATTTAAT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:4749211 original size:137 final size:137
Alignment explanation
Indices: 4748965--4749236 Score: 544
Period size: 137 Copynumber: 2.0 Consensus size: 137
4748955 GATTCTCTTC
4748965 AAACCTTCATTCTCGTCCGTTACATCAGGGGAGAACTCTACATATGCAGGATCTACAATTTCGAA
1 AAACCTTCATTCTCGTCCGTTACATCAGGGGAGAACTCTACATATGCAGGATCTACAATTTCGAA
4749030 ATAGCGAAAGGAAAGTTAATCTGAGCACAAATATGCCAACAACTTGGTGATGCAAAGACAGTTTT
66 ATAGCGAAAGGAAAGTTAATCTGAGCACAAATATGCCAACAACTTGGTGATGCAAAGACAGTTTT
4749095 TTGCAAA
131 TTGCAAA
4749102 AAACCTTCATTCTCGTCCGTTACATCAGGGGAGAACTCTACATATGCAGGATCTACAATTTCGAA
1 AAACCTTCATTCTCGTCCGTTACATCAGGGGAGAACTCTACATATGCAGGATCTACAATTTCGAA
4749167 ATAGCGAAAGGAAAGTTAATCTGAGCACAAATATGCCAACAACTTGGTGATGCAAAGACAGTTTT
66 ATAGCGAAAGGAAAGTTAATCTGAGCACAAATATGCCAACAACTTGGTGATGCAAAGACAGTTTT
4749232 TTGCA
131 TTGCA
4749237 TCAATTTTCC
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 135 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (137 bp):
AAACCTTCATTCTCGTCCGTTACATCAGGGGAGAACTCTACATATGCAGGATCTACAATTTCGAA
ATAGCGAAAGGAAAGTTAATCTGAGCACAAATATGCCAACAACTTGGTGATGCAAAGACAGTTTT
TTGCAAA
Found at i:4751325 original size:2 final size:2
Alignment explanation
Indices: 4751313--4751360 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
4751303 CCACCAACAC
* *
4751313 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4751355 GA GA GA
1 GA GA GA
4751361 TTTTCAAGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4758344 original size:1 final size:1
Alignment explanation
Indices: 4758338--4758367 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
4758328 ACTGCCCACT
*
4758338 CCCCCCCCCCCTCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
4758368 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:4758353 original size:12 final size:12
Alignment explanation
Indices: 4758336--4758367 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4758326 AAACTGCCCA
4758336 CTCCCCCCCCCC
1 CTCCCCCCCCCC
4758348 CTCCCCCCCCCC
1 CTCCCCCCCCCC
4758360 C-CCCCCCC
1 CTCCCCCCC
4758368 GAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.00, C:0.94, G:0.00, T:0.06
Consensus pattern (12 bp):
CTCCCCCCCCCC
Found at i:4761861 original size:21 final size:21
Alignment explanation
Indices: 4761799--4761861 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
4761789 CTTTTTTTTT
*
4761799 TTATTTTTTAT--TAAATATA
1 TTATTTTTTATAATTAATATA
* * *
4761818 -AATTTTTTATGATTATTATA
1 TTATTTTTTATAATTAATATA
4761838 TTATTTTTTATAATTTAATA-A
1 TTATTTTTTATAA-TTAATATA
4761859 TTA
1 TTA
4761862 AAAAATTCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.26
20 6 0.18
21 14 0.41
22 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTTTTTATAATTAATATA
Found at i:4762130 original size:16 final size:15
Alignment explanation
Indices: 4762094--4762144 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
4762084 ATTATAAATT
4762094 TTTAAAAAAATA-AA
1 TTTAAAAAAATATAA
*
4762108 TCATAAAATAAATATAA
1 T-TTAAAA-AAATATAA
*
4762125 TTTAAAACAAATGTAA
1 TTTAAAA-AAATATAA
4762141 TTTA
1 TTTA
4762145 TATATTAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 5 0.17
16 21 0.70
17 3 0.10
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (15 bp):
TTTAAAAAAATATAA
Found at i:4763350 original size:30 final size:30
Alignment explanation
Indices: 4763315--4763375 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
4763305 TTTGAAACAA
4763315 TATTTAAATATCTATTTATTATTAAAAAAT
1 TATTTAAATATCTATTTATTATTAAAAAAT
*
4763345 TATTTAAATATTTATTTATTATTAAAAAAT
1 TATTTAAATATCTATTTATTATTAAAAAAT
4763375 T
1 T
4763376 TCACTTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
TATTTAAATATCTATTTATTATTAAAAAAT
Found at i:4763415 original size:17 final size:18
Alignment explanation
Indices: 4763395--4763428 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4763385 TAAAATCAAC
4763395 CTTTT-ACTTAAAAAAAA
1 CTTTTCACTTAAAAAAAA
4763412 CTTTTCACTTAAAAAAA
1 CTTTTCACTTAAAAAAA
4763429 TCAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (18 bp):
CTTTTCACTTAAAAAAAA
Found at i:4764006 original size:19 final size:18
Alignment explanation
Indices: 4763963--4764013 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
4763953 ATTGATCGAA
* *
4763963 ATAATTAATTTATAATAG
1 ATAATAAATTTATAACAG
* *
4763981 ATTATAATATTTATAACAT
1 ATAATAA-ATTTATAACAG
4764000 ATAATAAATTTATA
1 ATAATAAATTTATA
4764014 TAAAATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATAATAAATTTATAACAG
Found at i:4774448 original size:30 final size:29
Alignment explanation
Indices: 4774387--4774464 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
4774377 ATCAAAAACA
* * *
4774387 CAAAATTACACTT-AAAATTATATTCAGG
1 CAAAATTACACTTCAAAATTAAATACAAG
4774415 CAAAATTACACCTTCAAAATTAAATACAAG
1 CAAAATTACA-CTTCAAAATTAAATACAAG
*
4774445 C-AAAGTACACTTACAAAATT
1 CAAAATTACACTT-CAAAATT
4774465 GAGCAACCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 13 0.30
29 17 0.40
30 13 0.30
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (29 bp):
CAAAATTACACTTCAAAATTAAATACAAG
Found at i:4777123 original size:21 final size:21
Alignment explanation
Indices: 4777097--4777137 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4777087 GAAATCAGGG
4777097 TTTGATTTATGCGAACCAGAT
1 TTTGATTTATGCGAACCAGAT
*
4777118 TTTGATTTATGTGAACCAGA
1 TTTGATTTATGCGAACCAGA
4777138 AACCTTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (21 bp):
TTTGATTTATGCGAACCAGAT
Found at i:4782904 original size:21 final size:20
Alignment explanation
Indices: 4782878--4782926 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
4782868 TGTCCAATTC
**
4782878 TTAAAAAAATATTTGATAATA
1 TTAAAAAAATAAAT-ATAATA
4782899 TTAAAAATAATAAATATAATA
1 TTAAAAA-AATAAATATAATA
4782920 -TAAAAAA
1 TTAAAAAA
4782927 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 6 0.24
21 13 0.52
22 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TTAAAAAAATAAATATAATA
Found at i:4782927 original size:21 final size:23
Alignment explanation
Indices: 4782893--4782945 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
4782883 AAAATATTTG
* *
4782893 ATAATATTAAAAA-TAA-TAAAT
1 ATAATATAAAAAATTAATTAAAA
4782914 ATAATATAAAAAATTAATTAAAA
1 ATAATATAAAAAATTAATTAAAA
*
4782937 ATTATATAA
1 ATAATATAA
4782946 TTTTAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 12 0.44
22 3 0.11
23 12 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATATAAAAAATTAATTAAAA
Found at i:4782966 original size:16 final size:15
Alignment explanation
Indices: 4782939--4782987 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
4782929 AATTAAAAAT
*
4782939 TATATAATTTTAATA
1 TATAAAATTTTAATA
*
4782954 TATAAATATTTTAAATT
1 TATAAA-ATTTT-AATA
4782971 TATAAAATTTT-ATA
1 TATAAAATTTTAATA
4782985 TAT
1 TAT
4782988 TATATAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 10 0.34
17 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAAAATTTTAATA
Found at i:4782976 original size:17 final size:17
Alignment explanation
Indices: 4782945--4782996 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
4782935 AAATTATATA
*
4782945 ATTTT-AATATATAAAT
1 ATTTTAAATTTATAAAT
4782961 ATTTTAAATTTATAAA-
1 ATTTTAAATTTATAAAT
*
4782977 ATTTTATATATTATATAAT
1 ATTTTAAAT-TTATA-AAT
4782996 A
1 A
4782997 AAATATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 13 0.43
17 14 0.47
18 2 0.07
19 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTAAATTTATAAAT
Found at i:4783650 original size:25 final size:25
Alignment explanation
Indices: 4783622--4783673 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
4783612 GAATGGATAA
4783622 TTAATTGA-TATTGATTAAAA-ATTAT
1 TTAATT-ATTATT-ATTAAAATATTAT
*
4783647 TTAATTATTATTTTTAAAATATTAT
1 TTAATTATTATTATTAAAATATTAT
4783672 TT
1 TT
4783674 TAATCCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTAATTATTATTATTAAAATATTAT
Found at i:4783910 original size:25 final size:21
Alignment explanation
Indices: 4783868--4783933 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
4783858 TTTTTGTAAT
4783868 TTTTTATTA-TTA-AATATAAA
1 TTTTTATTATTTATAATAT-AA
4783888 TTTAATTATTATTTATAAGTATAA
1 TTT--TTATTATTTATAA-TATAA
*
4783912 TTTTTATAATTTAT-ATA-AA
1 TTTTTATTATTTATAATATAA
4783931 TTT
1 TTT
4783934 ATAGATATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
19 5 0.12
20 5 0.12
21 1 0.03
22 16 0.40
23 3 0.08
24 7 0.17
25 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTTATTATTTATAATATAA
Found at i:4783918 original size:22 final size:22
Alignment explanation
Indices: 4783868--4783926 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
4783858 TTTTTGTAAT
4783868 TTTTTATTA-TTA-AATATAAA
1 TTTTTATTATTTATAATATAAA
4783888 TTTAATTATTATTTATAAGTAT-AA
1 TTT--TTATTATTTATAA-TATAAA
*
4783912 TTTTTATAATTTATA
1 TTTTTATTATTTATA
4783927 TAAATTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 3 0.09
22 17 0.52
23 3 0.09
24 7 0.21
25 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTATTATTTATAATATAAA
Found at i:4784145 original size:3 final size:3
Alignment explanation
Indices: 4784137--4784184 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
4784127 TCTTATTAAT
*
4784137 TAA TAA TAA TAA TAA TTA TAA TAA TAA -AA TAA -ATA TAA -AA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
4784179 TAA TAA
1 TAA TAA
4784185 ATTTATGACA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 30 0.79
4 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4784171 original size:12 final size:13
Alignment explanation
Indices: 4784139--4784184 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 13
4784129 TTATTAATTA
4784139 ATAATAATAATAATT
1 ATAATAATAA-AA-T
4784154 ATAATAATAAAAT
1 ATAATAATAAAAT
4784167 A-AAT-ATAAAAT
1 ATAATAATAAAAT
4784178 ATAATAA
1 ATAATAA
4784185 ATTTATGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.28
12 6 0.21
13 3 0.10
14 2 0.07
15 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAATAAAAT
Found at i:4786207 original size:16 final size:17
Alignment explanation
Indices: 4786179--4786212 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
4786169 ATACAAGCAT
4786179 GAAGGGAAAAAAAATAA
1 GAAGGGAAAAAAAATAA
4786196 GAAGGG-AAAAAAATAA
1 GAAGGGAAAAAAAATAA
4786212 G
1 G
4786213 TCAAAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (17 bp):
GAAGGGAAAAAAAATAA
Found at i:4792479 original size:2 final size:2
Alignment explanation
Indices: 4792472--4792501 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4792462 TACGGGTATT
4792472 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4792502 CAAATAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4796071 original size:2 final size:2
Alignment explanation
Indices: 4796058--4796090 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4796048 TATGTGAGGC
*
4796058 TG TG TT TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4796091 TTAATCTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (2 bp):
TG
Found at i:4800171 original size:15 final size:15
Alignment explanation
Indices: 4800129--4800173 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
4800119 ATTATTAAAA
*
4800129 TAATATTTAATAAATT
1 TAATATTT-ATAATTT
4800145 T-ATATTTA-AATTT
1 TAATATTTATAATTT
4800158 TAATATTTATAATTT
1 TAATATTTATAATTT
4800173 T
1 T
4800174 TTTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.19
14 8 0.31
15 12 0.46
16 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATATTTATAATTT
Found at i:4800921 original size:50 final size:50
Alignment explanation
Indices: 4800862--4801120 Score: 448
Period size: 50 Copynumber: 5.2 Consensus size: 50
4800852 TATACTTAGA
*
4800862 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
4800912 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
4800962 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
4801012 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
4801062 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAATG-ATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAATC
4801112 GTCAACAAT
1 GTCAACAAT
4801121 GACAACAACT
Statistics
Matches: 199, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
50 198 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:4805572 original size:50 final size:50
Alignment explanation
Indices: 4805513--4805771 Score: 448
Period size: 50 Copynumber: 5.2 Consensus size: 50
4805503 TATACTTAGA
*
4805513 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
4805563 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
4805613 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
4805663 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
4805713 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAATG-ATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAATC
4805763 GTCAACAAT
1 GTCAACAAT
4805772 GACAACAACT
Statistics
Matches: 199, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
50 198 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:4821676 original size:11 final size:11
Alignment explanation
Indices: 4821668--4821696 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
4821658 GCAAAAAACA
4821668 AAAAAAAAAAG
1 AAAAAAAAAAG
4821679 AAAAAAAAAAG
1 AAAAAAAAAAG
4821690 AAAAAAA
1 AAAAAAA
4821697 GGTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:4821694 original size:12 final size:12
Alignment explanation
Indices: 4821660--4821696 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
4821650 TTCCACATGC
*
4821660 AAAAAACAAAAA
1 AAAAAAGAAAAA
4821672 AAAAAAG-AAAA
1 AAAAAAGAAAAA
4821683 AAAAAAGAAAAA
1 AAAAAAGAAAAA
4821695 AA
1 AA
4821697 GGTTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.92, C:0.03, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:4824035 original size:12 final size:13
Alignment explanation
Indices: 4824008--4824036 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4823998 GAAAATACAC
4824008 TTTAAATTACTTT
1 TTTAAATTACTTT
4824021 TTTAAATTA-TTT
1 TTTAAATTACTTT
4824033 TTTA
1 TTTA
4824037 TTAAAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAAATTACTTT
Found at i:4824045 original size:53 final size:54
Alignment explanation
Indices: 4823961--4824068 Score: 200
Period size: 53 Copynumber: 2.0 Consensus size: 54
4823951 TAAGGGACCA
*
4823961 TACTTTTTTTAATTATTTTTTATTAAAAACTTTCAATGAAAATACACTTTAAAT
1 TACTTTTTTAAATTATTTTTTATTAAAAACTTTCAATGAAAATACACTTTAAAT
4824015 TACTTTTTTAAATTATTTTTTATT-AAAACTTTCAATGAAAATACACTTTAAAT
1 TACTTTTTTAAATTATTTTTTATTAAAAACTTTCAATGAAAATACACTTTAAAT
4824068 T
1 T
4824069 TATTATTAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 30 0.57
54 23 0.43
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (54 bp):
TACTTTTTTAAATTATTTTTTATTAAAAACTTTCAATGAAAATACACTTTAAAT
Found at i:4826922 original size:35 final size:35
Alignment explanation
Indices: 4826876--4826945 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
4826866 TTCTGAAGAG
4826876 CAAGTATTTGACAATTGAAACTAATAGTTGAGTTT
1 CAAGTATTTGACAATTGAAACTAATAGTTGAGTTT
4826911 CAAGTATTTGACAATTGAAACTAATAGTTGAGTTT
1 CAAGTATTTGACAATTGAAACTAATAGTTGAGTTT
4826946 TTCTTTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (35 bp):
CAAGTATTTGACAATTGAAACTAATAGTTGAGTTT
Found at i:4829447 original size:15 final size:15
Alignment explanation
Indices: 4829423--4829453 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4829413 TATTTTAGTT
*
4829423 TTAAATAATAAAAAA
1 TTAAAAAATAAAAAA
4829438 TTAAAAAATAAAAAA
1 TTAAAAAATAAAAAA
4829453 T
1 T
4829454 AATTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TTAAAAAATAAAAAA
Found at i:4829468 original size:15 final size:16
Alignment explanation
Indices: 4829449--4829492 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
4829439 TAAAAAATAA
4829449 AAAATAATTTTTAATT
1 AAAATAATTTTTAATT
4829465 -AAATAA-TTTTAATT
1 AAAATAATTTTTAATT
4829479 AAAATAATTTTTAA
1 AAAATAATTTTTAA
4829493 GTATTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.31
15 12 0.46
16 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAATAATTTTTAATT
Found at i:4834228 original size:2 final size:2
Alignment explanation
Indices: 4834221--4834247 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4834211 CTAAATTCAA
4834221 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4834248 AAGAGGCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4834305 original size:33 final size:33
Alignment explanation
Indices: 4834268--4834331 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
4834258 CCAAATTAAA
*
4834268 ACCAGTGATCTAATTCAAAAGTCTTTAATATTT
1 ACCAGTGATCTAATGCAAAAGTCTTTAATATTT
*
4834301 ACCAGTGATTTAATGCAAAAGTCTTTAATAT
1 ACCAGTGATCTAATGCAAAAGTCTTTAATAT
4834332 CGCATGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (33 bp):
ACCAGTGATCTAATGCAAAAGTCTTTAATATTT
Found at i:4835015 original size:2 final size:2
Alignment explanation
Indices: 4835008--4835032 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4834998 AAAATGGACA
4835008 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4835033 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4835037 original size:2 final size:2
Alignment explanation
Indices: 4835032--4835063 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4835022 ATATATATAT
4835032 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4835064 GAAAATCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4835249 original size:15 final size:15
Alignment explanation
Indices: 4835229--4835258 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4835219 GACGAGTATA
*
4835229 AGATATAAATATATT
1 AGATATAAAGATATT
4835244 AGATATAAAGATATT
1 AGATATAAAGATATT
4835259 TAAAAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AGATATAAAGATATT
Found at i:4852163 original size:17 final size:18
Alignment explanation
Indices: 4852131--4852173 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
4852121 ATTAATTATA
*
4852131 TTTATAAAAAATAATAAT
1 TTTATAATAAATAATAAT
4852149 TTTATAATAAA-AATAAT
1 TTTATAATAAATAATAAT
*
4852166 TTAATAAT
1 TTTATAAT
4852174 TTAATGCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTATAATAAATAATAAT
Found at i:4852690 original size:22 final size:22
Alignment explanation
Indices: 4852647--4852695 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
4852637 AATTAAATAA
* *
4852647 ATTAAAATTAATAAAATTTATT
1 ATTAAAAATAATAAAATATATT
*
4852669 -TTAAAAATAATATGAATATATT
1 ATTAAAAATAATA-AAATATATT
4852691 ATTAA
1 ATTAA
4852696 CATATAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.50
22 7 0.32
23 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTAAAAATAATAAAATATATT
Found at i:4852727 original size:18 final size:19
Alignment explanation
Indices: 4852683--4852737 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
4852673 AAATAATATG
*
4852683 AATATATTATTAACA-TATA
1 AATATTTTATTAA-ATTATA
*
4852702 AATTTTTTATTAAATTA-A
1 AATATTTTATTAAATTATA
4852720 AATATTTTGA-TAAATTAT
1 AATATTTT-ATTAAATTAT
4852738 GTAAAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
AATATTTTATTAAATTATA
Found at i:4853915 original size:21 final size:21
Alignment explanation
Indices: 4853889--4853938 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
4853879 AATATATAAA
4853889 TATTTTTT-TCTTTCTTTTCTT
1 TATTTTTTCTCTTTCTTTT-TT
4853910 TATTTTTTTCTCTTTCTTTTTT
1 TA-TTTTTTCTCTTTCTTTTTT
*
4853932 TCTTTTT
1 TATTTTT
4853939 CGACTGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 9 0.35
23 10 0.38
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (21 bp):
TATTTTTTCTCTTTCTTTTTT
Found at i:4853923 original size:23 final size:21
Alignment explanation
Indices: 4853891--4853938 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
4853881 TATATAAATA
4853891 TTTTTTTCTTTCTTTTCTTTAT
1 TTTTTTTCTTTCTTTT-TTTAT
*
4853913 TTTTTTCTCTTTCTTTTTTTCT
1 TTTTTT-TCTTTCTTTTTTTAT
4853935 TTTT
1 TTTT
4853939 CGACTGAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTCTTTCTTTTTTTAT
Found at i:4853929 original size:14 final size:14
Alignment explanation
Indices: 4853895--4853939 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4853885 TAAATATTTT
*
4853895 TTTCTTTCTTT-TC
1 TTTCTTTTTTTCTC
*
4853908 TTTATTTTTTTCTC
1 TTTCTTTTTTTCTC
*
4853922 TTTCTTTTTTTCTT
1 TTTCTTTTTTTCTC
4853936 TTTC
1 TTTC
4853940 GACTGAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTTTCTC
Found at i:4854432 original size:8 final size:7
Alignment explanation
Indices: 4854400--4854431 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
4854390 ATTTAATGAA
4854400 TTTAAAT
1 TTTAAAT
4854407 TTTAAAT
1 TTTAAAT
4854414 TTTAATAT
1 TTTAA-AT
4854422 TTTAAAT
1 TTTAAAT
4854429 TTT
1 TTT
4854432 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTAAAT
Found at i:4854437 original size:15 final size:15
Alignment explanation
Indices: 4854400--4854431 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4854390 ATTTAATGAA
4854400 TTTAA-ATTTTAAAT
1 TTTAATATTTTAAAT
4854414 TTTAATATTTTAAAT
1 TTTAATATTTTAAAT
4854429 TTT
1 TTT
4854432 TTTATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATATTTTAAAT
Found at i:4855551 original size:17 final size:19
Alignment explanation
Indices: 4855519--4855553 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
4855509 TCACTATTAA
4855519 ATAAATATTCAAAAAATAT
1 ATAAATATTCAAAAAATAT
4855538 ATAAAT-TT-AAAAAATA
1 ATAAATATTCAAAAAATA
4855554 ATTATTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAATATTCAAAAAATAT
Found at i:4856264 original size:2 final size:2
Alignment explanation
Indices: 4856257--4856281 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4856247 TATGTCACAT
4856257 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4856282 TTTTTTGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4857963 original size:24 final size:25
Alignment explanation
Indices: 4857936--4858001 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
4857926 TATTTAATTG
4857936 TATTTATAAATATTAATT-AAAAAT
1 TATTTATAAATATTAATTAAAAAAT
**
4857960 TATTTACTAAATTATTTTTTAAAAAAT
1 TATTTA-TAAA-TATTAATTAAAAAAT
*
4857987 TATCTAATAAATATT
1 TAT-TTATAAATATT
4858002 TTTTACTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
24 6 0.17
25 4 0.11
26 10 0.29
27 13 0.37
28 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTTATAAATATTAATTAAAAAAT
Found at i:4858001 original size:26 final size:26
Alignment explanation
Indices: 4857941--4858006 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
4857931 AATTGTATTT
** *
4857941 ATAAATATTAATT-AAAAATTATTTA
1 ATAAATATTTTTTAAAAAATTATCTA
*
4857966 CTAAATTATTTTTTAAAAAATTATCTA
1 ATAAA-TATTTTTTAAAAAATTATCTA
4857993 ATAAATATTTTTTA
1 ATAAATATTTTTTA
4858007 CTGTATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 4 0.12
26 15 0.44
27 15 0.44
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAAATATTTTTTAAAAAATTATCTA
Found at i:4859295 original size:27 final size:25
Alignment explanation
Indices: 4859262--4859386 Score: 70
Period size: 27 Copynumber: 4.6 Consensus size: 25
4859252 ACTATATTTA
*
4859262 AAAATATAAATTAATAATGTTAAATAT
1 AAAATATAAATAAATAA--TTAAATAT
* *
4859289 ATTATATATATATAAATAATTAAATAT
1 A--AAATATAAATAAATAATTAAATAT
* * ** *
4859316 AAAATATAAATATATAAATATTTTT
1 AAAATATAAATAAATAATTAAATAT
*
4859341 AAATTATATAATATAAATTATTTAAATATT
1 AAA--ATATAA-ATAAA-TAATTAAATA-T
* *
4859371 AAAATTTATATAAATA
1 AAAATATAAATAAATA
4859387 TAAAAGATAT
Statistics
Matches: 73, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
25 20 0.27
26 2 0.03
27 21 0.29
28 8 0.11
29 18 0.25
30 4 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (25 bp):
AAAATATAAATAAATAATTAAATAT
Found at i:4859306 original size:29 final size:28
Alignment explanation
Indices: 4859265--4859386 Score: 85
Period size: 29 Copynumber: 4.5 Consensus size: 28
4859255 ATATTTAAAA
* *
4859265 ATATAAATTAATAATGTTAAATATATTAT
1 ATATATATAAATAAT-TTAAATATATTAT
*
4859294 ATATATATAAATAA-TTAAATATAAAATAT
1 ATATATATAAATAATTTAAATAT--ATTAT
* * *
4859323 AAATATATAAAT-ATTT--TTAAATTAT
1 ATATATATAAATAATTTAAATATATTAT
* * *
4859348 ATA-ATATAAATTATTTAAATAT-TAAA
1 ATATATATAAATAATTTAAATATATTAT
*
4859374 ATTTATATAAATA
1 ATATATATAAATA
4859387 TAAAAGATAT
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
24 8 0.11
25 10 0.14
26 4 0.06
27 20 0.28
28 1 0.01
29 29 0.40
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATATATAAATAATTTAAATATATTAT
Found at i:4859330 original size:8 final size:8
Alignment explanation
Indices: 4859291--4859402 Score: 58
Period size: 8 Copynumber: 14.0 Consensus size: 8
4859281 TTAAATATAT
*
4859291 TATATATA
1 TATAAATA
4859299 TATAAATA
1 TATAAATA
*
4859307 -ATTAA-A
1 TATAAATA
4859313 TATAAA-A
1 TATAAATA
4859320 TATAAATA
1 TATAAATA
4859328 TATAAATA
1 TATAAATA
*
4859336 TTTTTAAAT-
1 --TATAAATA
4859345 TATATAATA
1 TATA-AATA
*
4859354 TA-AATTA
1 TATAAATA
*
4859361 TTTAAATA
1 TATAAATA
4859369 T-TAAAATTTA
1 TAT-AAA--TA
4859379 TATAAATA
1 TATAAATA
*
4859387 TA-AAAGA
1 TATAAATA
4859394 TATTAAATA
1 TA-TAAATA
4859403 CAATGACAAC
Statistics
Matches: 81, Mismatches: 10, Indels: 25
0.70 0.09 0.22
Matches are distributed among these distances:
6 1 0.01
7 29 0.36
8 32 0.40
9 6 0.07
10 12 0.15
11 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (8 bp):
TATAAATA
Found at i:4859344 original size:39 final size:40
Alignment explanation
Indices: 4859282--4859386 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 40
4859272 TTAATAATGT
*
4859282 TAAATATATTATATATATATAAATAAT-TAAATATAAAATA
1 TAAATATATTAAATATATATAAATAATAT-AATATAAAATA
* * * *
4859322 TAAATATA-TAAATATTTTTAAATTATATAATATAAATTATT
1 TAAATATATTAAATATATATAAATAATATAATATAAA--ATA
* *
4859363 TAAATAT-TAAAATTTATATAAATA
1 TAAATATATTAAATATATATAAATA
4859387 TAAAAGATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
39 22 0.43
40 9 0.18
41 20 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (40 bp):
TAAATATATTAAATATATATAAATAATATAATATAAAATA
Found at i:4859380 original size:32 final size:31
Alignment explanation
Indices: 4859285--4859390 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 31
4859275 ATAATGTTAA
* * *
4859285 ATATATTATATATATATAAATAATT-AAA-T
1 ATATAATATAAATATATAAATATTTAAAATT
* *
4859314 ATAAAATATAAATATATAAATATTTTTAAATT
1 ATATAATATAAATATATAAATA-TTTAAAATT
*
4859346 ATATAATATAAATTATTTAAATA-TTAAAATTT
1 ATATAATATAAA-TATATAAATATTTAAAA-TT
4859378 ATATAAATATAAA
1 ATAT-AATATAAA
4859391 AGATATTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
29 19 0.30
30 2 0.03
31 8 0.12
32 18 0.28
33 17 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
ATATAATATAAATATATAAATATTTAAAATT
Found at i:4859390 original size:17 final size:16
Alignment explanation
Indices: 4859297--4859391 Score: 67
Period size: 18 Copynumber: 5.9 Consensus size: 16
4859287 ATATTATATA
*
4859297 TATATAAATAATTAAA-
1 TATATAAAT-ATAAAAT
4859313 TATA-AAATAT-AAA-
1 TATATAAATATAAAAT
*
4859326 TATATAAATATTTTTAAAT
1 TATATAAATA---TAAAAT
4859345 TATAT-AATAT-AAAT
1 TATATAAATATAAAAT
*
4859359 TATTTAAATATTAAAATT
1 TATATAAATA-TAAAA-T
4859377 TATATAAATATAAAA
1 TATATAAATATAAAA
4859392 GATATTAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
13 7 0.10
14 15 0.22
15 9 0.13
16 5 0.07
17 9 0.13
18 17 0.25
19 5 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATATAAATATAAAAT
Found at i:4862416 original size:3 final size:3
Alignment explanation
Indices: 4862408--4862436 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4862398 TCCGAGGCTT
4862408 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
4862437 ATTATTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:4866973 original size:20 final size:20
Alignment explanation
Indices: 4866941--4866979 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4866931 TTTTAATCAT
*
4866941 TTAAATTGATATTTTATAAC
1 TTAAATTGATATTTAATAAC
4866961 TTAAATT-ATTATTTAATAA
1 TTAAATTGA-TATTTAATAA
4866980 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TTAAATTGATATTTAATAAC
Found at i:4874794 original size:13 final size:13
Alignment explanation
Indices: 4874761--4874785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4874751 TAAAAATTAT
4874761 AAAATTAAATTTA
1 AAAATTAAATTTA
4874774 AAAATTAAATTT
1 AAAATTAAATTT
4874786 GAAATTTAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTAAATTTA
Found at i:4876171 original size:28 final size:31
Alignment explanation
Indices: 4876086--4876173 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
4876076 ATTGATTCAT
* * *
4876086 AAATTTATTTTATTATTTTAA-AAATATAAAA
1 AAATTTATTTTA-TAATTAAATAAAAATAAAA
**
4876117 AAATTTATTTTATAATTAAATTTAAATAAAA
1 AAATTTATTTTATAATTAAATAAAAATAAAA
4876148 AAA-TTATTTT-T-ATTAAATAAAAATAA
1 AAATTTATTTTATAATTAAATAAAAATAA
4876174 TTTACAGTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 13 0.27
29 1 0.02
30 13 0.27
31 22 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AAATTTATTTTATAATTAAATAAAAATAAAA
Found at i:4876432 original size:23 final size:24
Alignment explanation
Indices: 4876417--4876522 Score: 83
Period size: 24 Copynumber: 4.3 Consensus size: 24
4876407 ATATTATAAG
*
4876417 AAAAAATAAT-TTAATATATAAAT
1 AAAATATAATATTAATATATAAAT
*
4876440 AAAATATAATATTAAAATAAAATAAAAT
1 AAAATATAATATT--AAT-ATAT-AAAT
* * * *
4876468 AAAATAAAATATTAAAATTTATAT
1 AAAATATAATATTAATATATAAAT
*
4876492 AAAATA-AATTATTAATATATTAA-
1 AAAATATAA-TATTAATATATAAAT
4876515 AAAATATA
1 AAAATATA
4876523 TAAATAATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
23 17 0.26
24 22 0.34
25 2 0.03
26 5 0.08
27 3 0.05
28 16 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAATATAATATTAATATATAAAT
Found at i:4876444 original size:5 final size:5
Alignment explanation
Indices: 4876436--4876478 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
4876426 TTTAATATAT
4876436 AAATA AAATA TAATATTA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA -AA-A-TA AAATA AAATA AAATA AAATA AAATA
4876479 TTAAAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 27 0.77
6 3 0.09
7 3 0.09
8 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
AAATA
Found at i:4876451 original size:18 final size:18
Alignment explanation
Indices: 4876428--4876584 Score: 73
Period size: 18 Copynumber: 8.7 Consensus size: 18
4876418 AAAAATAATT
4876428 TAATATATAAATAAAATA
1 TAATATATAAATAAAATA
4876446 TAATAT-TAAAATAAAATA
1 TAATATAT-AAATAAAATA
4876464 -AA-ATA-AAATAAAATA
1 TAATATATAAATAAAATA
* * *
4876479 TTAAAATTTATATAAAATA
1 -TAATATATAAATAAAATA
4876498 -AAT-TATTAATATATTAAA-A
1 TAATATA-TAA-ATA--AAATA
*
4876517 -AATATATAAATAATA-A
1 TAATATATAAATAAAATA
*
4876533 TAATATTTTAAATATAAATA
1 TAATA-TATAAATA-AAATA
* * *
4876553 TGATA-AAAAATAATATA
1 TAATATATAAATAAAATA
*
4876570 AACATAATATAAATA
1 TA-AT-ATATAAATA
4876585 TACATATTAT
Statistics
Matches: 106, Mismatches: 15, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
15 10 0.09
16 6 0.06
17 17 0.16
18 38 0.36
19 19 0.18
20 16 0.15
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (18 bp):
TAATATATAAATAAAATA
Found at i:4876578 original size:11 final size:11
Alignment explanation
Indices: 4876418--4876582 Score: 53
Period size: 11 Copynumber: 15.3 Consensus size: 11
4876408 TATTATAAGA
*
4876418 AAAAATAATTT
1 AAAAATAATAT
*
4876429 AATATATAA-AT
1 AA-AAATAATAT
4876440 AAAATATAATAT
1 AAAA-ATAATAT
* *
4876452 TAAAATAAAAT
1 AAAAATAATAT
*
4876463 -AAAATAAAAT
1 AAAAATAATAT
4876473 -AAAAT-AT-T
1 AAAAATAATAT
* *
4876481 AAAATTTATAT
1 AAAAATAATAT
4876492 -AAAATAAATTAT
1 AAAAAT-AA-TAT
* * *
4876504 TAATATATTA-
1 AAAAATAATAT
4876514 AAAAAT-ATAT
1 AAAAATAATAT
4876524 AAATAATAATA-
1 AAA-AATAATAT
***
4876535 ATATTTTAAATAT
1 A-AAAAT-AATAT
* *
4876548 AAATATGATA-
1 AAAAATAATAT
4876558 AAAAATAATAT
1 AAAAATAATAT
*
4876569 AAACATAATAT
1 AAAAATAATAT
4876580 AAA
1 AAA
4876583 TATACATATT
Statistics
Matches: 115, Mismatches: 23, Indels: 32
0.68 0.14 0.19
Matches are distributed among these distances:
8 1 0.01
9 7 0.06
10 37 0.32
11 40 0.35
12 25 0.22
13 5 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.34
Consensus pattern (11 bp):
AAAAATAATAT
Found at i:4883283 original size:2 final size:2
Alignment explanation
Indices: 4883276--4883309 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4883266 GAAGTAGGGC
4883276 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4883310 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4883314 original size:2 final size:2
Alignment explanation
Indices: 4883309--4883346 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4883299 TCTCTCTCTC
4883309 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4883347 ATCCCATTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4889656 original size:15 final size:15
Alignment explanation
Indices: 4889636--4889665 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4889626 CGATCATTAT
*
4889636 AATAAATATTTTAAA
1 AATAAAAATTTTAAA
4889651 AATAAAAATTTTAAA
1 AATAAAAATTTTAAA
4889666 TGTACCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAAAAATTTTAAA
Found at i:4898035 original size:20 final size:17
Alignment explanation
Indices: 4897981--4898038 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
4897971 AAAAACCCTC
*
4897981 TAAATAAA-TTATAATA
1 TAAATAAATTTTTAATA
*
4897997 AAAATAAATTTTTAATA
1 TAAATAAATTTTTAATA
4898014 TAAATCAAATTATTTGAATA
1 TAAAT-AAATT-TTT-AATA
4898034 TAAAT
1 TAAAT
4898039 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.20
17 11 0.31
18 5 0.14
19 3 0.09
20 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAATAAATTTTTAATA
Found at i:4898050 original size:27 final size:27
Alignment explanation
Indices: 4898015--4898074 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
4898005 TTTTTAATAT
* * *
4898015 AAATCAAA-TTATTTGAATATAAATTAA
1 AAATAAAATTTATTTAAATAT-AATAAA
4898042 AAATAAAATTTTATTTAAATATAATAAA
1 AAATAAAA-TTTATTTAAATATAATAAA
4898070 AAATA
1 AAATA
4898075 TAAGACACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.25
28 10 0.36
29 11 0.39
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
AAATAAAATTTATTTAAATATAATAAA
Found at i:4913763 original size:24 final size:27
Alignment explanation
Indices: 4913719--4913775 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 27
4913709 AACGTATTAA
* *
4913719 TTAATA-ATTAATTTTTGATAA-TT-T
1 TTAATATATTAAATATTGATAATTTAT
4913743 TTAATATATTAAATATT-ATAATTTAT
1 TTAATATATTAAATATTGATAATTTAT
4913769 TTAATAT
1 TTAATAT
4913776 GATAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.36
25 10 0.36
26 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TTAATATATTAAATATTGATAATTTAT
Found at i:4917815 original size:41 final size:41
Alignment explanation
Indices: 4917740--4917817 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
4917730 CATTCCTTAT
* *
4917740 TTTTTAAAACTTAATAATATTAACCACAATAATATATTTAA
1 TTTTTAAAACTTAATAATATTAAACACAAAAATATATTTAA
* * *
4917781 TTTTTAAAATTTAATAATATTAAATATAAAAATATAT
1 TTTTTAAAACTTAATAATATTAAACACAAAAATATAT
4917818 CAAATTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (41 bp):
TTTTTAAAACTTAATAATATTAAACACAAAAATATATTTAA
Found at i:4917817 original size:17 final size:17
Alignment explanation
Indices: 4917797--4917895 Score: 66
Period size: 17 Copynumber: 6.1 Consensus size: 17
4917787 AAATTTAATA
4917797 ATATTAAATATAAAAAT
1 ATATTAAATATAAAAAT
* * *
4917814 ATATCAAAT-TTAATA-
1 ATATTAAATATAAAAAT
* * *
4917829 ATATTAAGTATGATAAT
1 ATATTAAATATAAAAAT
4917846 ATATTAAAATATTAAAAAT
1 ATATT-AAATA-TAAAAAT
4917865 -TA-T-AA-ATAAAAAT
1 ATATTAAATATAAAAAT
* *
4917878 ATTTTAATTATAAAAAT
1 ATATTAAATATAAAAAT
4917895 A
1 A
4917896 ATATAAATTT
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
13 7 0.11
14 2 0.03
15 10 0.16
16 8 0.13
17 23 0.38
18 6 0.10
19 5 0.08
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (17 bp):
ATATTAAATATAAAAAT
Found at i:4917824 original size:32 final size:33
Alignment explanation
Indices: 4917784--4917884 Score: 111
Period size: 32 Copynumber: 3.1 Consensus size: 33
4917774 TATTTAATTT
4917784 TTAAAATTTAATAATATTAAATATAAAAATATA
1 TTAAAATTTAATAATATTAAATATAAAAATATA
* * * *
4917817 -TCAAATTTAATAATATTAAGTATGATAATATA
1 TTAAAATTTAATAATATTAAATATAAAAATATA
*
4917849 TTAAAATATTAA-AA-ATTATAA-ATAAAAATATT
1 TTAAAAT-TTAATAATATTA-AATATAAAAATATA
4917881 TTAA
1 TTAA
4917885 TTATAAAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
32 44 0.79
33 8 0.14
34 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (33 bp):
TTAAAATTTAATAATATTAAATATAAAAATATA
Found at i:4918339 original size:15 final size:15
Alignment explanation
Indices: 4918292--4918341 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
4918282 AAAAGAAATA
*
4918292 TTTTAATTTTTATAT
1 TTTTAATATTTATAT
4918307 TATTT-A-ATTTAT-T
1 T-TTTAATATTTATAT
4918320 ATTTTAATATTTATAT
1 -TTTTAATATTTATAT
4918336 TTTTAA
1 TTTTAA
4918342 AGTTATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 14 0.48
16 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTAATATTTATAT
Found at i:4918347 original size:29 final size:29
Alignment explanation
Indices: 4918290--4918347 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4918280 ATAAAAGAAA
* *
4918290 TATTTTAATTTTTATATTATTTAATTTAT
1 TATTTTAATATTTATATTATTTAAGTTAT
4918319 TATTTTAATATTTATATT-TTTAAAGTTAT
1 TATTTTAATATTTATATTATTT-AAGTTAT
4918348 ATAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (29 bp):
TATTTTAATATTTATATTATTTAAGTTAT
Found at i:4918389 original size:18 final size:20
Alignment explanation
Indices: 4918353--4918391 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4918343 GTTATATAAA
*
4918353 TAAAAAATAATTATTAATAT
1 TAAAAAATAATTATAAATAT
4918373 TAAAAAAT-ATT-TAAATAT
1 TAAAAAATAATTATAAATAT
4918391 T
1 T
4918392 GATAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAAATAATTATAAATAT
Found at i:4918398 original size:18 final size:18
Alignment explanation
Indices: 4918377--4918415 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4918367 TAATATTAAA
4918377 AAATATTTAA-ATATTGAT
1 AAATATTTAACATA-TGAT
*
4918395 AAATTTTTAACATATGAT
1 AAATATTTAACATATGAT
4918413 AAA
1 AAA
4918416 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (18 bp):
AAATATTTAACATATGAT
Found at i:4918905 original size:24 final size:22
Alignment explanation
Indices: 4918868--4918912 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
4918858 ATTATTTTAA
*
4918868 ATTTTTAAAATTTAAATATATT
1 ATTTTTAAAATTTAAAAATATT
4918890 ATTTTTATTAAATTTAAAAATAT
1 ATTTTTA--AAATTTAAAAATAT
4918913 AAAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTTAAAATTTAAAAATATT
Found at i:4918910 original size:32 final size:32
Alignment explanation
Indices: 4918855--4918922 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
4918845 AAATTATTTA
* * *
4918855 ATTATTATTTTAAATTTTTAAAATTTAAATAT
1 ATTATTATTTTAAATTTTAAAAATATAAAAAT
*
4918887 ATTATTTTTATTAAA-TTTAAAAATATAAAAAT
1 ATTATTATT-TTAAATTTTAAAAATATAAAAAT
4918919 ATTA
1 ATTA
4918923 ATTAATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
ATTATTATTTTAAATTTTAAAAATATAAAAAT
Found at i:4922490 original size:22 final size:22
Alignment explanation
Indices: 4922464--4922509 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
4922454 TTATTATTTT
4922464 ATTTTT-TAAATATT-CTATATA
1 ATTTTTGT-AATATTACTATATA
*
4922485 ATTTTTGTAATTTTACTATATA
1 ATTTTTGTAATATTACTATATA
4922507 ATT
1 ATT
4922510 AGATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTTGTAATATTACTATATA
Found at i:4924948 original size:16 final size:17
Alignment explanation
Indices: 4924927--4924959 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4924917 AGACATAAAT
4924927 ATGAAT-GAACAGAAAG
1 ATGAATCGAACAGAAAG
*
4924943 ATGAATCGCACAGAAAG
1 ATGAATCGAACAGAAAG
4924960 CTAGAACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.12, G:0.24, T:0.12
Consensus pattern (17 bp):
ATGAATCGAACAGAAAG
Found at i:4938310 original size:23 final size:24
Alignment explanation
Indices: 4938275--4938323 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
4938265 AATATCAAAC
* *
4938275 ATTAATTTATTTTAAAATTTAAAA
1 ATTAATATATTTTAAAATTAAAAA
4938299 ATTAATAT-TTTTAAAATTAAAAA
1 ATTAATATATTTTAAAATTAAAAA
4938322 AT
1 AT
4938324 CACAAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTAATATATTTTAAAATTAAAAA
Found at i:4938549 original size:14 final size:13
Alignment explanation
Indices: 4938519--4938554 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4938509 ATAATAAAAT
4938519 TAAA-AAAATTAA
1 TAAATAAAATTAA
4938531 TAAATAAAATTAA
1 TAAATAAAATTAA
4938544 TAAAATAAAAT
1 T-AAATAAAAT
4938555 ACATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.18
13 9 0.41
14 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAATAAAATTAA
Found at i:4945276 original size:2 final size:2
Alignment explanation
Indices: 4945269--4945297 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4945259 TGTATGTATC
4945269 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4945298 CAGTTGAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4945647 original size:11 final size:11
Alignment explanation
Indices: 4945633--4945689 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
4945623 ATTTAATTAC
4945633 ATAATATAAAT
1 ATAATATAAAT
*
4945644 ATAATATAAAA
1 ATAATATAAAT
4945655 ATAAT-TAAAAT
1 ATAATAT-AAAT
*
4945666 AAAATATAATAT
1 ATAATATAA-AT
4945678 AATAATATAAAT
1 -ATAATATAAAT
4945690 TATTAATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 1 0.03
11 24 0.63
12 5 0.13
13 8 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:4945673 original size:27 final size:30
Alignment explanation
Indices: 4945626--4945684 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 30
4945616 AAATATAATT
4945626 TAATTACATAATATAAATATAATATAAAAA
1 TAATTACATAATATAAATATAATATAAAAA
*
4945656 TAATTA-A-AATA-AAATATAATATAATAA
1 TAATTACATAATATAAATATAATATAAAAA
4945683 TA
1 TA
4945685 TAAATTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 17 0.61
28 4 0.14
29 1 0.04
30 6 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (30 bp):
TAATTACATAATATAAATATAATATAAAAA
Found at i:4946033 original size:16 final size:15
Alignment explanation
Indices: 4946014--4946051 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4946004 AAATTATTGA
4946014 TATTAAAATTTATATT
1 TATTAAAATTT-TATT
4946030 TATT-AAATTTTATT
1 TATTAAAATTTTATT
*
4946044 TTTTAAAA
1 TATTAAAA
4946052 ATAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 9 0.45
16 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTAAAATTTTATT
Found at i:4946223 original size:2 final size:2
Alignment explanation
Indices: 4946216--4946242 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4946206 GTATGATGCC
4946216 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4946243 GTATGTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4947394 original size:22 final size:24
Alignment explanation
Indices: 4947358--4947403 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
4947348 AAAATATAAA
4947358 TTTTAATATTTATAATTTTTTTAT
1 TTTTAATATTTATAATTTTTTTAT
4947382 TTTTAA-A-TTATAATTTTTTTAT
1 TTTTAATATTTATAATTTTTTTAT
4947404 ATAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 15 0.68
23 1 0.05
24 6 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTAATATTTATAATTTTTTTAT
Found at i:4948011 original size:3 final size:3
Alignment explanation
Indices: 4948003--4948033 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4947993 ACTTTGATTG
4948003 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4948034 TAGTTTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4948082 original size:74 final size:74
Alignment explanation
Indices: 4947961--4948104 Score: 270
Period size: 74 Copynumber: 1.9 Consensus size: 74
4947951 AAATAAAATG
4947961 AGTTTTACAAACTAATCTCTGCTCTGCTTCCAACTTTGATTGTATTATTATTATTATTATTATTA
1 AGTTTTACAAACTAATCTCTGCTCTGCTTCCAACTTTGATTGTATTATTATTATTATTATTATTA
4948026 TTATTATTT
66 TTATTATTT
* *
4948035 AGTTTTACAAACTAATCTTTGCTCTGCTTCCACCTTTGATTGTATTATTATTATTATTATTATTA
1 AGTTTTACAAACTAATCTCTGCTCTGCTTCCAACTTTGATTGTATTATTATTATTATTATTATTA
4948100 TTATT
66 TTATT
4948105 GCCATTTCTC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (74 bp):
AGTTTTACAAACTAATCTCTGCTCTGCTTCCAACTTTGATTGTATTATTATTATTATTATTATTA
TTATTATTT
Found at i:4948085 original size:3 final size:3
Alignment explanation
Indices: 4948077--4948104 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4948067 CCTTTGATTG
4948077 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4948105 GCCATTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4948877 original size:32 final size:31
Alignment explanation
Indices: 4948817--4948878 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
4948807 GTTACTATTT
*
4948817 ATAATAATAATTTTTAATTAATACATTTAAA
1 ATAATAAAAATTTTTAATTAATACATTTAAA
* *
4948848 ATAATAAAAATTTATTAATTATTATATTTAA
1 ATAATAAAAATTT-TTAATTAATACATTTAA
4948879 TACAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
ATAATAAAAATTTTTAATTAATACATTTAAA
Found at i:4950588 original size:14 final size:15
Alignment explanation
Indices: 4950555--4950589 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
4950545 AATTTACATT
4950555 GAAACAGAGCAATAA
1 GAAACAGAGCAATAA
*
4950570 AAAACAGAGC-ATAA
1 GAAACAGAGCAATAA
4950584 GAAACA
1 GAAACA
4950590 ACTCTCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.63, C:0.14, G:0.17, T:0.06
Consensus pattern (15 bp):
GAAACAGAGCAATAA
Found at i:4953730 original size:19 final size:19
Alignment explanation
Indices: 4953689--4953735 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
4953679 ATATAATTTT
4953689 TTAAATATA-TAAAATAAA
1 TTAAATATATTAAAATAAA
*
4953707 TTAAATATATTTAAATTAAA
1 TTAAATATA-TTAAAATAAA
4953727 -TAAATATAT
1 TTAAATATAT
4953736 ATTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 8 0.31
20 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAATATATTAAAATAAA
Found at i:4953737 original size:21 final size:20
Alignment explanation
Indices: 4953693--4953740 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4953683 AATTTTTTAA
* * *
4953693 ATATATAAAATAAATTAAAT
1 ATATTTAAATTAAATAAAAT
4953713 ATATTTAAATTAAATAAATAT
1 ATATTTAAATTAAATAAA-AT
4953734 ATATTTA
1 ATATTTA
4953741 TATTTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATTTAAATTAAATAAAAT
Found at i:4954174 original size:53 final size:53
Alignment explanation
Indices: 4954104--4954211 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
4954094 TCAAAAACCC
**
4954104 CCTTACTGATTTGGCAACAATTTTCACCCCTTTTATTAATGGCTACATCACTT
1 CCTTACTGATTTGGCAACAATTTTCACCCCTTGCATTAATGGCTACATCACTT
* * *
4954157 CCTTACTGTTTTTGCAACAATTTTCGCCCCTTGCATTAATGGCTACATCACTT
1 CCTTACTGATTTGGCAACAATTTTCACCCCTTGCATTAATGGCTACATCACTT
4954210 CC
1 CC
4954212 CTCACTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.39
Consensus pattern (53 bp):
CCTTACTGATTTGGCAACAATTTTCACCCCTTGCATTAATGGCTACATCACTT
Found at i:4954316 original size:13 final size:14
Alignment explanation
Indices: 4954293--4954321 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4954283 ATTGATTTAA
4954293 ATAATAATTATAAT
1 ATAATAATTATAAT
4954307 ATAA-AATTATAAT
1 ATAATAATTATAAT
4954320 AT
1 AT
4954322 TTATTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATTATAAT
Found at i:4957647 original size:11 final size:11
Alignment explanation
Indices: 4957631--4957659 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4957621 ATCACCCTAC
4957631 TAATTTTCTTA
1 TAATTTTCTTA
4957642 TAA-TTTCTTA
1 TAATTTTCTTA
4957652 TAATTTTC
1 TAATTTTC
4957660 CCTGTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATTTTCTTA
Found at i:4962096 original size:2 final size:2
Alignment explanation
Indices: 4962089--4962113 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4962079 GAAAATAGAT
4962089 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
4962114 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4962118 original size:2 final size:2
Alignment explanation
Indices: 4962113--4962139 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4962103 ACACACACAC
4962113 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4962140 CTTCAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4963703 original size:2 final size:2
Alignment explanation
Indices: 4963696--4963735 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4963686 TGCTTATTGA
* *
4963696 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4963736 GTCTACGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4971293 original size:2 final size:2
Alignment explanation
Indices: 4971286--4971315 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4971276 CAAACATTTC
4971286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4971316 TACTTTCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4971968 original size:25 final size:26
Alignment explanation
Indices: 4971940--4971988 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
4971930 CTTTTGCAAA
* *
4971940 AAAAAATTCCAA-CTTTTTTATTTTT
1 AAAAAATACCAATCTTTTTAATTTTT
4971965 AAAAAATACCAATCTTTTTAATTT
1 AAAAAATACCAATCTTTTTAATTT
4971989 ATTACTCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (26 bp):
AAAAAATACCAATCTTTTTAATTTTT
Found at i:4972150 original size:16 final size:17
Alignment explanation
Indices: 4972121--4972153 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4972111 ACTTATTTAA
*
4972121 AAACATTAATAATAAAT
1 AAACATTAACAATAAAT
4972138 AAAC-TTAACAATAAAT
1 AAACATTAACAATAAAT
4972154 GAACCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (17 bp):
AAACATTAACAATAAAT
Found at i:4978676 original size:2 final size:2
Alignment explanation
Indices: 4978669--4978697 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4978659 AAAAGTGCCT
4978669 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4978698 GATTTCACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4979188 original size:44 final size:44
Alignment explanation
Indices: 4979132--4979218 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
4979122 TGGAGGAAAA
4979132 TGATTAACTCTTTTTATACAAAAAAAATAAATAAAAAAAAATAT
1 TGATTAACTCTTTTTATACAAAAAAAATAAATAAAAAAAAATAT
* * *
4979176 TGATTGAA-TCTTTTTATACAAAAAATATATATATAAAAAAATA
1 TGATT-AACTCTTTTTATACAAAAAAAATAAATAAAAAAAAATA
4979219 AGGTAAAGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 37 0.95
45 2 0.05
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (44 bp):
TGATTAACTCTTTTTATACAAAAAAAATAAATAAAAAAAAATAT
Found at i:4979586 original size:12 final size:12
Alignment explanation
Indices: 4979556--4979588 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4979546 AAAATTCGGA
*
4979556 CAAGAAAACACC
1 CAAGAAAAAACC
4979568 CAA-AAAAAACC
1 CAAGAAAAAACC
4979579 CAAGAAAAAA
1 CAAGAAAAAA
4979589 AGAGAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.70, C:0.24, G:0.06, T:0.00
Consensus pattern (12 bp):
CAAGAAAAAACC
Found at i:4983135 original size:20 final size:21
Alignment explanation
Indices: 4983097--4983136 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4983087 ACCCATCAGA
*
4983097 AATTTAATTCAATTTTTATTT
1 AATTTAATTCAATTATTATTT
*
4983118 AATTT-ATTTAATTATTATT
1 AATTTAATTCAATTATTATT
4983137 ATCTTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTAATTCAATTATTATTT
Found at i:4983407 original size:13 final size:13
Alignment explanation
Indices: 4983382--4983542 Score: 75
Period size: 14 Copynumber: 12.2 Consensus size: 13
4983372 TAAATGTGGT
4983382 TATATAAATAT-A
1 TATATAAATATAA
4983394 -ATATAAA-ATAA
1 TATATAAATATAA
4983405 TA-A-AAATATAA
1 TATATAAATATAA
*
4983416 TATAATTAATATGAA
1 TAT-ATAAATAT-AA
* **
4983431 TATATAATTATTT
1 TATATAAATATAA
* **
4983444 TAAATTTTATATAA
1 TATA-TAAATATAA
*
4983458 TAT-TAATTATTAA
1 TATATAAATA-TAA
* *
4983471 TATATAAAAAT-T
1 TATATAAATATAA
4983483 TATATAAATATAAA
1 TATATAAATAT-AA
*
4983497 TATTTTAAATATAA
1 TA-TATAAATATAA
*
4983511 TTATAATATAATAAAA
1 -TAT-ATA-AATATAA
*
4983527 TATTTAAATATAA
1 TATATAAATATAA
4983540 TAT
1 TAT
4983543 TAATATTAAA
Statistics
Matches: 108, Mismatches: 25, Indels: 31
0.66 0.15 0.19
Matches are distributed among these distances:
10 5 0.05
11 15 0.14
12 14 0.13
13 20 0.19
14 28 0.26
15 20 0.19
16 6 0.06
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (13 bp):
TATATAAATATAA
Found at i:4983448 original size:58 final size:56
Alignment explanation
Indices: 4983386--4983540 Score: 143
Period size: 58 Copynumber: 2.6 Consensus size: 56
4983376 TGTGGTTATA
*
4983386 TAAATATAATATAAAATAATAAAAATATAATATAATTAATATGAATATATAATTATTT
1 TAAATATAATATAAAATAATAAAAATATAATATAATTAATAT-AA-ATATAAATATTT
* * * * *
4983444 TAAATTTTATATAATATTAATTATTAATATATAA-A-AATTTATATAAATATAAATATTT
1 TAAATATAATATAA-AATAA-TA--AAAATATAATATAATTAATATAAATATAAATATTT
* *
4983502 TAAATATAATTATAATATAATAAAATATTTAAATATAAT
1 TAAATATAA-TATAAAATAATAAAA-ATAT-AATATAAT
4983541 ATTAATATTA
Statistics
Matches: 76, Mismatches: 12, Indels: 17
0.72 0.11 0.16
Matches are distributed among these distances:
55 2 0.03
56 3 0.04
57 4 0.05
58 34 0.45
59 14 0.18
60 10 0.13
61 1 0.01
62 8 0.11
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (56 bp):
TAAATATAATATAAAATAATAAAAATATAATATAATTAATATAAATATAAATATTT
Found at i:4983459 original size:33 final size:33
Alignment explanation
Indices: 4983422--4983539 Score: 88
Period size: 33 Copynumber: 3.7 Consensus size: 33
4983412 ATAATATAAT
* * * *
4983422 TAATATGAATATA-TAATTATTTTAAATTTTATA
1 TAATATAAATATATTAA-TATATAAAAATTTATA
*
4983455 TAATATTAAT-TATTAATATATAAAAATTTATA
1 TAATATAAATATATTAATATATAAAAATTTATA
* ** *
4983487 TAAATATAAATATTTTAA-ATATAATTA-TAATA
1 T-AATATAAATATATTAATATATAAAAATTTATA
4983519 TAATA-AAATAT-TTAA-ATATAA
1 TAATATAAATATATTAATATATAA
4983540 TATTAATATT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
29 10 0.14
30 6 0.08
31 4 0.05
32 21 0.29
33 27 0.37
34 5 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (33 bp):
TAATATAAATATATTAATATATAAAAATTTATA
Found at i:4983507 original size:15 final size:15
Alignment explanation
Indices: 4983487--4983543 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
4983477 AAAATTTATA
4983487 TAAATATAAATATTT
1 TAAATATAAATATTT
* **
4983502 TAAATATAATTATAA
1 TAAATATAAATATTT
4983517 TATAATA-AAATA-TT
1 TA-AATATAAATATTT
4983531 TAAATAT-AATATT
1 TAAATATAAATATT
4983544 AATATTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
13 8 0.24
14 3 0.09
15 18 0.55
16 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAATATAAATATTT
Found at i:4983524 original size:29 final size:27
Alignment explanation
Indices: 4983484--4983554 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 27
4983474 ATAAAAATTT
4983484 ATATAA-ATAT-AAATATTTTAAATATA
1 ATATAATATATAAAATA-TTTAAATATA
4983510 ATTATAATATAATAAAATATTTAAATATA
1 A-TATAATAT-ATAAAATATTTAAATATA
4983539 ATATTAATAT-TAAAAT
1 ATA-TAATATATAAAAT
4983555 CTATAAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.03
27 11 0.28
28 4 0.10
29 19 0.47
30 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATATAATATATAAAATATTTAAATATA
Found at i:4983525 original size:20 final size:20
Alignment explanation
Indices: 4983383--4983541 Score: 62
Period size: 21 Copynumber: 8.0 Consensus size: 20
4983373 AAATGTGGTT
* *
4983383 ATATAAATATAATATAAAATA
1 ATATAATTATAATATAATA-A
* * *
4983404 ATAAAAATATAATATAATTA
1 ATATAATTATAATATAATAA
**
4983424 ATATGAATATATAATTATTTTAA
1 ATAT-AAT-TATAA-TATAATAA
* *
4983447 ATTTTA-TATAATAT--TAA
1 ATATAATTATAATATAATAA
* **
4983464 TTATTAATATATAA-A-AATTT
1 ATA-TAAT-TATAATATAATAA
* **
4983484 ATATAAATATAAATATTTTAA
1 ATATAATTAT-AATATAATAA
4983505 ATATAATTATAATATAATAA
1 ATATAATTATAATATAATAA
*
4983525 A-ATATTTA-AATATAATA
1 ATATAATTATAATATAATA
4983542 TTAATATTAA
Statistics
Matches: 102, Mismatches: 25, Indels: 25
0.67 0.16 0.16
Matches are distributed among these distances:
17 4 0.04
18 14 0.14
19 15 0.15
20 27 0.26
21 28 0.27
22 6 0.06
23 8 0.08
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.43
Consensus pattern (20 bp):
ATATAATTATAATATAATAA
Found at i:4983536 original size:44 final size:46
Alignment explanation
Indices: 4983456--4983543 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 46
4983446 AATTTTATAT
4983456 AATATTAATTATTAATATATAAAAATTTATATAAATATAAATATTTTA
1 AATATTAATTATTAATATATAAAAA-TTATATAAATAT-AATATTTTA
*
4983504 AATA-TAATTA-TAATATA-ATAAAA-TATTTAAATATAATATT
1 AATATTAATTATTAATATATA-AAAATTATATAAATATAATATT
4983544 AATATTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
43 6 0.16
44 10 0.26
45 1 0.03
46 11 0.29
47 6 0.16
48 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (46 bp):
AATATTAATTATTAATATATAAAAATTATATAAATATAATATTTTA
Found at i:4983551 original size:18 final size:18
Alignment explanation
Indices: 4983452--4983552 Score: 55
Period size: 15 Copynumber: 6.1 Consensus size: 18
4983442 TTTAAATTTT
4983452 ATATAATATTAATTATTAA
1 ATATAATATTAA-TATTAA
* *
4983471 TATATAAAAATTTATA-TAA
1 -ATAT-AATATTAATATTAA
*
4983490 ATATAA-A-T-ATTTTAA
1 ATATAATATTAATATTAA
4983505 ATATAAT-TATAATA-T-A
1 ATATAATAT-TAATATTAA
4983521 ATA-AA-A-T-AT-TTAA
1 ATATAATATTAATATTAA
4983534 ATATAATATTAATATTAA
1 ATATAATATTAATATTAA
4983552 A
1 A
4983553 ATCTATAAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 30
0.65 0.04 0.31
Matches are distributed among these distances:
12 3 0.05
13 5 0.08
14 4 0.06
15 13 0.21
16 6 0.10
17 6 0.10
18 11 0.17
19 3 0.05
20 6 0.10
21 6 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATATTAATATTAA
Found at i:4987256 original size:27 final size:27
Alignment explanation
Indices: 4987200--4987257 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
4987190 AAATAATATC
* * *
4987200 TTTATTATTTTATTATTTTTTAATTAA
1 TTTATTATTTTATAATATTTTAAATAA
*
4987227 TTTATTTATTTTA-AATATTTTAAATCA
1 TTTA-TTATTTTATAATATTTTAAATAA
4987254 TTTA
1 TTTA
4987258 AAAATTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTATTATTTTATAATATTTTAAATAA
Done.