Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold230
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: 2055625
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 8 of 14
Found at i:803491 original size:29 final size:28
Alignment explanation
Indices: 803436--803493 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
803426 GAAAAAAATT
*
803436 AATATGATATAATATAAAAATTAATATA
1 AATATAATATAATATAAAAATTAATATA
** *
803464 AATATAATATAAATATTTAAATTTATATA
1 AATATAATAT-AATATAAAAATTAATATA
803493 A
1 A
803494 TATTAATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
AATATAATATAATATAAAAATTAATATA
Found at i:807855 original size:11 final size:11
Alignment explanation
Indices: 807839--807868 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
807829 AATTTTTTCA
807839 AGTATTTGAGG
1 AGTATTTGAGG
807850 AGTATTTGAGG
1 AGTATTTGAGG
*
807861 AGTCTTTG
1 AGTATTTG
807869 GAGAGTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.40
Consensus pattern (11 bp):
AGTATTTGAGG
Found at i:810485 original size:17 final size:19
Alignment explanation
Indices: 810463--810504 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
810453 ATGGATTTAA
810463 TTTAAAATTT-TTAAT-TT
1 TTTAAAATTTATTAATATT
*
810480 TTTAAAATTTATTATTATT
1 TTTAAAATTTATTAATATT
810499 TTTAAA
1 TTTAAA
810505 TAGTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAAAATTTATTAATATT
Found at i:810667 original size:20 final size:20
Alignment explanation
Indices: 810630--810667 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
810620 CTTTATTTAT
*
810630 TATTTCAATAATTTTTTTGG
1 TATTTCAATAATTATTTTGG
810650 TATTT-AATATATTATTTT
1 TATTTCAATA-ATTATTTT
810668 AAAGAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (20 bp):
TATTTCAATAATTATTTTGG
Found at i:810800 original size:23 final size:22
Alignment explanation
Indices: 810750--810802 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
810740 TAGATTTGAT
* *
810750 TAAT-TTTTTATATATTTATAA
1 TAATATTTTAATATATTAATAA
810771 TAA-ATTTTAATATATTAATAA
1 TAATATTTTAATATATTAATAA
810792 CTAATATTTTA
1 -TAATATTTTA
810803 TAAATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 18 0.67
22 3 0.11
23 6 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATATTTTAATATATTAATAA
Found at i:810851 original size:23 final size:24
Alignment explanation
Indices: 810793--810853 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
810783 TATTAATAAC
*
810793 TAATATTTTATA-AATTTTGATAT
1 TAATATTTTATATTATTTTGATAT
* *
810816 TAATATTTT-TATTATTTTTATCT
1 TAATATTTTATATTATTTTGATAT
810839 TAA-ATTTTATATTAT
1 TAATATTTTATATTAT
810854 ATTATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 7 0.21
23 26 0.79
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TAATATTTTATATTATTTTGATAT
Found at i:810881 original size:12 final size:11
Alignment explanation
Indices: 810812--810902 Score: 58
Period size: 12 Copynumber: 7.7 Consensus size: 11
810802 ATAAATTTTG
810812 ATATTAATATTT
1 ATATT-ATATTT
* *
810824 TTATTATTTTT
1 ATATTATATTT
* *
810835 ATCTTAAATTTT
1 ATATTATA-TTT
810847 ATATTATA-TT
1 ATATTATATTT
*
810857 ATAATTATTTTT
1 AT-ATTATATTT
810869 AATATTATATTT
1 -ATATTATATTT
*
810881 ATAAATATATAATT
1 AT--AT-TATATTT
810895 ATATTATA
1 ATATTATA
810903 ATCTAAAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
10 4 0.07
11 20 0.33
12 25 0.41
13 4 0.07
14 8 0.13
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTATATTT
Found at i:810914 original size:18 final size:20
Alignment explanation
Indices: 810872--810914 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
810862 TATTTTTAAT
*
810872 ATTATATTTATAAATATATA
1 ATTATATTTATAAATATAAA
*
810892 ATTATA-TTAT-AATCTAAA
1 ATTATATTTATAAATATAAA
810910 ATTAT
1 ATTAT
810915 TCATCATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 4 0.19
20 6 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATATTTATAAATATAAA
Found at i:811606 original size:16 final size:16
Alignment explanation
Indices: 811585--811618 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
811575 TTTAAAATTA
*
811585 AATAAATATTAAAAAT
1 AATAAATAATAAAAAT
*
811601 AATAAATAATAAATAT
1 AATAAATAATAAAAAT
811617 AA
1 AA
811619 ATATATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAATAATAAAAAT
Found at i:818523 original size:2 final size:2
Alignment explanation
Indices: 818518--818546 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
818508 AGAATGCTTT
818518 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
818547 TGCATGCGTG
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:823191 original size:14 final size:14
Alignment explanation
Indices: 823172--823199 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
823162 CACCTCTTTA
823172 CCTGTCACTGGTAC
1 CCTGTCACTGGTAC
823186 CCTGTCACTGGTAC
1 CCTGTCACTGGTAC
823200 TTTTTGCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.36, G:0.21, T:0.29
Consensus pattern (14 bp):
CCTGTCACTGGTAC
Found at i:823884 original size:22 final size:20
Alignment explanation
Indices: 823861--823900 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
823851 AATATGTATA
*
823861 AAAATTAATATATAATTTTTT
1 AAAATTAA-ATAAAATTTTTT
*
823882 AAATTTAAATAAAATTTTT
1 AAAATTAAATAAAATTTTT
823901 ATAATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAATTAAATAAAATTTTTT
Found at i:823896 original size:31 final size:29
Alignment explanation
Indices: 823837--823909 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 29
823827 TTAACATAAT
*
823837 TTTA-ATAATTTTTTAATATGTATAAAAA
1 TTTATATAATTTTTTAATATGTAAAAAAA
*
823865 TTAATATATAATTTTTTAA-ATTTAAATAAAA
1 TT--TATATAATTTTTTAATATGTAAA-AAAA
*
823896 TTTTTATAATTTTT
1 TTTATATAATTTTT
823910 ATATTAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 2 0.05
29 11 0.29
30 7 0.18
31 18 0.47
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTATATAATTTTTTAATATGTAAAAAAA
Found at i:823923 original size:21 final size:20
Alignment explanation
Indices: 823898--823942 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
823888 AAATAAAATT
823898 TTTATAATTTTTAT-ATTAATA
1 TTTAT-ATTTTTATAATTAA-A
*
823919 TTTATATTTTTGTAATTAAA
1 TTTATATTTTTATAATTAAA
823939 TTTA
1 TTTA
823943 AATAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATATTTTTATAATTAAA
Found at i:823981 original size:36 final size:35
Alignment explanation
Indices: 823919--823987 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
823909 TATATTAATA
*
823919 TTTATATTTTTGTAATTAAATTTAAATAAAATTAT
1 TTTATATTTTTGTAATAAAATTTAAATAAAATTAT
*
823954 TTTATATTTGTTG-AATAATAATTTAAATTAAATT
1 TTTATATTT-TTGTAATAA-AATTTAAATAAAATT
823988 GAATAAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (35 bp):
TTTATATTTTTGTAATAAAATTTAAATAAAATTAT
Found at i:824614 original size:12 final size:12
Alignment explanation
Indices: 824594--824639 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
824584 CCACAGTCAC
824594 ATAACATAAAAA
1 ATAACATAAAAA
* *
824606 ATAAAATAAAAT
1 ATAACATAAAAA
* *
824618 ATAATATAAATA
1 ATAACATAAAAA
824630 ATAACATAAA
1 ATAACATAAA
824640 TATATTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATAAAAA
Found at i:824626 original size:24 final size:25
Alignment explanation
Indices: 824594--824644 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
824584 CCACAGTCAC
824594 ATAACATAAAAAATAAAATAAA-AT
1 ATAACATAAAAAATAAAATAAATAT
* * *
824618 ATAATATAAATAATAACATAAATAT
1 ATAACATAAAAAATAAAATAAATAT
824643 AT
1 AT
824645 TAAAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (25 bp):
ATAACATAAAAAATAAAATAAATAT
Found at i:824893 original size:24 final size:25
Alignment explanation
Indices: 824866--824931 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
824856 TTATACCCTC
824866 ATTTTTATTTTATTATTAATATA-T
1 ATTTTTATTTTATTATTAATATATT
* *
824890 ATTTGTATTGATATATT-TTGATATATT
1 ATTTTTATT--T-TATTATTAATATATT
*
824917 ATTTTTAATTTATTA
1 ATTTTTATTTTATTA
824932 ATTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
24 12 0.36
25 1 0.03
26 8 0.24
27 12 0.36
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (25 bp):
ATTTTTATTTTATTATTAATATATT
Found at i:828056 original size:2 final size:2
Alignment explanation
Indices: 828049--828087 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
828039 AAGAAGAGTA
828049 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
828088 CATTCTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:828980 original size:2 final size:2
Alignment explanation
Indices: 828973--828998 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
828963 GCCAAAGATA
828973 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
828999 TTATGGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:829308 original size:9 final size:9
Alignment explanation
Indices: 829290--829342 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
829280 GGAGGTCAAA
829290 TTAATGTAAT
1 TTAAT-TAAT
829300 TTAATTAAT
1 TTAATTAAT
*
829309 TTGATTAAT
1 TTAATTAAT
*
829318 TAAATTAAT
1 TTAATTAAT
*
829327 TAAATTAA-
1 TTAATTAAT
829335 TTAATTAA
1 TTAATTAA
829343 AATTAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
8 7 0.18
9 27 0.69
10 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (9 bp):
TTAATTAAT
Found at i:829309 original size:4 final size:4
Alignment explanation
Indices: 829288--829342 Score: 56
Period size: 4 Copynumber: 12.5 Consensus size: 4
829278 TAGGAGGTCA
*
829288 AATT AATGT AATTT AATT AATTT GATT AATT AAATT AATT AAATT AATT
1 AATT AAT-T AA-TT AATT AA-TT AATT AATT -AATT AATT -AATT AATT
829337 AATT AA
1 AATT AA
829343 AATTAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 26 0.59
5 17 0.39
6 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:829318 original size:13 final size:13
Alignment explanation
Indices: 829288--829342 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
829278 TAGGAGGTCA
*
829288 AATTAATGTAATTT
1 AATTAATTTAA-TT
*
829302 AATTAATTTGATT
1 AATTAATTTAATT
*
829315 AATTAAATTAATT
1 AATTAATTTAATT
829328 AAATTAA-TTAATT
1 -AATTAATTTAATT
829341 AA
1 AA
829343 AATTAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 2 0.06
13 19 0.53
14 15 0.42
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:829345 original size:14 final size:13
Alignment explanation
Indices: 829287--829348 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 13
829277 ATAGGAGGTC
829287 AAATTAATGTAATT
1 AAATTAAT-TAATT
* *
829301 TAATTAATTTGATT
1 AAATTAA-TTAATT
829315 -AATTAAATTAATT
1 AAATT-AATTAATT
829328 AAATTAATTAATT
1 AAATTAATTAATT
829341 AAAATTAA
1 -AAATTAA
829349 AAATAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
13 17 0.41
14 23 0.56
15 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:829451 original size:16 final size:16
Alignment explanation
Indices: 829388--829452 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 16
829378 ATTAAATAAA
829388 TAATAT-AATAATTATT
1 TAATATAAATAATT-TT
*
829404 TAATAAAAATATATTTGT
1 TAATATAAATA-ATTT-T
**
829422 TTTTATTAATATAATTTT
1 TAATA-TAA-ATAATTTT
829440 TAATATAAATAAT
1 TAATATAAATAAT
829453 ATATAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
16 10 0.26
17 8 0.21
18 11 0.29
19 6 0.16
20 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TAATATAAATAATTTT
Found at i:829655 original size:22 final size:22
Alignment explanation
Indices: 829627--829671 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
829617 GAGAGAAATG
*
829627 AAAAAAAGAAAGAAGAAGGAAAA
1 AAAAAAAGAAA-AAGAAAGAAAA
829650 AAAAAAAGAAAAAGAAAGAAAA
1 AAAAAAAGAAAAAGAAAGAAAA
829672 TGAGGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAAAAGAAAGAAAA
Found at i:829671 original size:19 final size:20
Alignment explanation
Indices: 829627--829671 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
829617 GAGAGAAATG
*
829627 AAAAAAAGAAAGAAGAAGGA
1 AAAAAAAGAAAGAAGAAAGA
829647 AAAAAAA-AAAGAA-AAAGA
1 AAAAAAAGAAAGAAGAAAGA
*
829665 AAGAAAA
1 AAAAAAA
829672 TGAGGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 7 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAGAAGAAAGA
Found at i:829749 original size:19 final size:20
Alignment explanation
Indices: 829712--829750 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
829702 ATATTTTTTA
*
829712 TTATTTAAAATATTATAAAT
1 TTATATAAAATATTATAAAT
829732 TTATATAAAATA-TATAAAT
1 TTATATAAAATATTATAAAT
829751 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATATAAAATATTATAAAT
Found at i:829795 original size:24 final size:24
Alignment explanation
Indices: 829757--829814 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
829747 AAATATTTTT
* *
829757 TTTATGTTTTTGTATT-TATGTTATA
1 TTTAT-TTTTCGTATTATATATTA-A
829782 TTTATTTTTCGTATTATATATTAA
1 TTTATTTTTCGTATTATATATTAA
*
829806 TTAATTTTT
1 TTTATTTTT
829815 AATATTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (24 bp):
TTTATTTTTCGTATTATATATTAA
Found at i:829913 original size:19 final size:19
Alignment explanation
Indices: 829885--829947 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
829875 TATTATTTAA
829885 AATA-TTATAAATTTATAT
1 AATATTTATAAATTTATAT
829903 AATATTTATAAATTT-T-T
1 AATATTTATAAATTTATAT
* * * *
829920 TATGTTTTTATATTTATAT
1 AATATTTATAAATTTATAT
*
829939 CATATTTAT
1 AATATTTAT
829948 TTTTATATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 12 0.34
18 6 0.17
19 17 0.49
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
AATATTTATAAATTTATAT
Found at i:829972 original size:23 final size:26
Alignment explanation
Indices: 829940--830002 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 26
829930 TATTTATATC
*
829940 ATATTTATTTTTATATTGT-GT-TTT
1 ATATTAATTTTTATATTGTCGTGTTT
829964 A-ATTAATTTTTA-A-TGTCGTGTTT
1 ATATTAATTTTTATATTGTCGTGTTT
*
829987 ATATTATTTTTTATAT
1 ATATTAATTTTTATAT
830003 ATTTAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.09
22 3 0.09
23 14 0.44
24 11 0.34
25 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (26 bp):
ATATTAATTTTTATATTGTCGTGTTT
Found at i:829974 original size:24 final size:23
Alignment explanation
Indices: 829947--830002 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
829937 ATCATATTTA
*
829947 TTTTTATATTGTGTTT-TAATTAAT
1 TTTTTATATCGTGTTTAT-ATT-AT
* *
829971 TTTTAATGTCGTGTTTATATTAT
1 TTTTTATATCGTGTTTATATTAT
829994 TTTTTATAT
1 TTTTTATAT
830003 ATTTAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 9 0.35
24 16 0.62
25 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (23 bp):
TTTTTATATCGTGTTTATATTAT
Found at i:830014 original size:160 final size:162
Alignment explanation
Indices: 829697--830022 Score: 453
Period size: 160 Copynumber: 2.0 Consensus size: 162
829687 CCTATTTATT
*
829697 TTTTTATATTTTTTATTATTTAAAATATTATAAATTTATATAAAATATATAAATATTTTTTTTAT
1 TTTTCATATTTTTTATTATTTAAAATATTATAAATTTATATAAAATATATAAATA-TTTTTTTAT
* * * * *
829762 GTTTTTGTATTTATGTTATATTTATTTTTCGTATTATATATTAATTAATTTTTAATATTATGTTT
65 GTTTTTATATTTATATCATATTTATTTTTCATATTATATATTAATTAATTTTTAATATCATGTTT
* * *
829827 GTATTATTTTTTGTATATTTAAAATATTTTAAAA
130 ATATTATTTTTTATATATTTAAAATA-TTAAAAA
* *
829861 TTTTCATATTTTTTTATTATTTAAAATATTATAAATTTATATAATATTTAT-AA-A-TTTTTTAT
1 TTTTCATA-TTTTTTATTATTTAAAATATTATAAATTTATATAAAATATATAAATATTTTTTTAT
* * * * *
829923 GTTTTTATATTTATATCATATTTATTTTT-ATATTGTGTTTTAATTAATTTTTAATGTCGTGTTT
65 GTTTTTATATTTATATCATATTTATTTTTCATATTATATATTAATTAATTTTTAATATCATGTTT
829987 ATATTATTTTTTATATATTTAAAATATTAAAAA
130 ATATTATTTTTTATATATTTAAAATATTAAAAA
830020 TTT
1 TTT
830023 ATATAAATTT
Statistics
Matches: 145, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
159 9 0.06
160 52 0.36
161 34 0.23
163 1 0.01
164 9 0.06
165 40 0.28
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (162 bp):
TTTTCATATTTTTTATTATTTAAAATATTATAAATTTATATAAAATATATAAATATTTTTTTATG
TTTTTATATTTATATCATATTTATTTTTCATATTATATATTAATTAATTTTTAATATCATGTTTA
TATTATTTTTTATATATTTAAAATATTAAAAA
Found at i:830746 original size:28 final size:26
Alignment explanation
Indices: 830715--830790 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 26
830705 TTTTGATACA
830715 TTTTATATTTATTTTATGTTTATATTAT
1 TTTTATATTTATTTTAT-TTTA-ATTAT
** *
830743 TTTTATACCGTATTATATTTTAATTAT
1 TTTTATA-TTTATTTTATTTTAATTAT
830770 TTTTCATATTATATTTATATT
1 TTTT-ATATT-TATTT-TATT
830791 GTGTCTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
27 9 0.24
28 18 0.47
29 11 0.29
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTTATATTTATTTTATTTTAATTAT
Found at i:830873 original size:17 final size:17
Alignment explanation
Indices: 830853--830901 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
830843 TTTTAAATTT
830853 AATTATATAAAATTTTA
1 AATTATATAAAATTTTA
*
830870 AATTATAAAAAATATTTA
1 AATTATATAAAAT-TTTA
830888 AATTA-ATAATAATT
1 AATTATATAA-AATT
830902 ATCTAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTATATAAAATTTTA
Found at i:830889 original size:18 final size:18
Alignment explanation
Indices: 830849--830892 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
830839 TTTATTTTAA
*
830849 ATTT-AATTATATAAAAT
1 ATTTAAATTATAAAAAAT
830866 -TTTAAATTATAAAAAAT
1 ATTTAAATTATAAAAAAT
830883 ATTTAAATTA
1 ATTTAAATTA
830893 ATAATAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAAATTATAAAAAAT
Found at i:830954 original size:34 final size:36
Alignment explanation
Indices: 830879--830957 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 36
830869 AAATTATAAA
*
830879 AAATATTTAAATTAATAATAATTATCTAATATAATT
1 AAATATTTATATTAATAATAATTATCTAATATAATT
* * *
830915 --TTATTTATATTTAT-ATAATTAT-TAATTTAATT
1 AAATATTTATATTAATAATAATTATCTAATATAATT
830947 AAATATTTATA
1 AAATATTTATA
830958 AATATTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
32 9 0.25
33 8 0.22
34 19 0.53
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (36 bp):
AAATATTTATATTAATAATAATTATCTAATATAATT
Found at i:835720 original size:31 final size:33
Alignment explanation
Indices: 835679--835748 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
835669 AAATTATATC
* *
835679 ATATTTTAT-AATTTTTATATGA-TAATA-ATTT
1 ATATTATATAAATTTTGATAT-ATTAATATATTT
*
835710 ATATTATATAAATTTTGATATATTTATATATTT
1 ATATTATATAAATTTTGATATATTAATATATTT
835743 ATATTA
1 ATATTA
835749 ATTTTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 9 0.27
32 14 0.42
33 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (33 bp):
ATATTATATAAATTTTGATATATTAATATATTT
Found at i:835765 original size:19 final size:18
Alignment explanation
Indices: 835700--835806 Score: 58
Period size: 14 Copynumber: 6.3 Consensus size: 18
835690 TTTTTATATG
*
835700 ATAATAATTT-ATATTAT
1 ATAATATTTTAATATTAT
835717 ATAA-ATTTTGATATATT-T
1 ATAATATTTT-A-ATATTAT
835735 AT-ATA-TTT-ATATTA-
1 ATAATATTTTAATATTAT
835749 AT--T-TTTTAATATTAT
1 ATAATATTTTAATATTAT
835764 ATAATATTTTAATTATTTTTAT
1 ATAATATTTTAA-TA---TTAT
*
835786 ATCATATTTT--TATTAT
1 ATAATATTTTAATATTAT
835802 ATAAT
1 ATAAT
835807 CATAAACATT
Statistics
Matches: 72, Mismatches: 3, Indels: 31
0.68 0.03 0.29
Matches are distributed among these distances:
13 4 0.06
14 13 0.18
15 2 0.03
16 12 0.17
17 9 0.12
18 10 0.14
19 9 0.12
22 13 0.18
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
ATAATATTTTAATATTAT
Found at i:835768 original size:18 final size:19
Alignment explanation
Indices: 835727--835776 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
835717 ATAAATTTTG
835727 ATATATTTATATATTTATATTA
1 ATAT-TTTA-ATA-TTATATTA
*
835749 ATTTTTTAATATTATA-TA
1 ATATTTTAATATTATATTA
835767 ATATTTTAAT
1 ATATTTTAAT
835777 TATTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 11 0.42
19 5 0.19
20 3 0.12
21 4 0.15
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTTTAATATTATATTA
Found at i:835792 original size:22 final size:22
Alignment explanation
Indices: 835760--835801 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
835750 TTTTTTAATA
835760 TTATATAATATTTTAATTATTT
1 TTATATAATATTTTAATTATTT
* *
835782 TTATATCATATTTTTATTAT
1 TTATATAATATTTTAATTAT
835802 ATAATCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATATAATATTTTAATTATTT
Found at i:837212 original size:19 final size:18
Alignment explanation
Indices: 837177--837216 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
837167 AATTAAATAA
837177 TTATAGATGTAATTGATAT
1 TTATAGATGTAATTGAT-T
837196 TTATAGATGATAA-TGATT
1 TTATAGATG-TAATTGATT
837214 TTA
1 TTA
837217 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 13 0.65
20 3 0.15
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TTATAGATGTAATTGATT
Found at i:838160 original size:19 final size:19
Alignment explanation
Indices: 838123--838162 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
838113 TTATGATTCG
*
838123 TATTTATTATAATTGATTA
1 TATTTATTATAATTAATTA
838142 TATTTATTAT-ATTAAATTA
1 TATTTATTATAATT-AATTA
838161 TA
1 TA
838163 AATATGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTTATTATAATTAATTA
Found at i:838343 original size:31 final size:32
Alignment explanation
Indices: 838284--838344 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
838274 ATTTTTTAAA
838284 AATTAAATTAAATATTATATTTTATTAATTCG
1 AATTAAATTAAATATTATATTTTATTAATTCG
* *
838316 AATT-AATTTAAT-TTATAATTTTTTTAATT
1 AATTAAATTAAATATTAT-ATTTTATTAATT
838345 AAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 4 0.15
31 18 0.69
32 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
AATTAAATTAAATATTATATTTTATTAATTCG
Found at i:840623 original size:20 final size:20
Alignment explanation
Indices: 840600--840643 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
840590 TTGATAATCC
* *
840600 TTTTAATGTAATTTTGATAA
1 TTTTAATATAATATTGATAA
*
840620 TTTTAGTATAATATTGATAA
1 TTTTAATATAATATTGATAA
840640 TTTT
1 TTTT
840644 TAATTTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTTAATATAATATTGATAA
Found at i:844376 original size:17 final size:17
Alignment explanation
Indices: 844356--844389 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
844346 TTGTGATACA
* *
844356 TATTATGTTTTAAATAT
1 TATTATGATGTAAATAT
844373 TATTATGATGTAAATAT
1 TATTATGATGTAAATAT
844390 GAACATAGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
TATTATGATGTAAATAT
Found at i:845535 original size:25 final size:27
Alignment explanation
Indices: 845486--845535 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
845476 TTTAATTTAA
845486 TTTATCAAATTATAATTATAAATTTTT
1 TTTATCAAATTATAATTATAAATTTTT
845513 TTTATC-AATT-TAA-TATAATATTT
1 TTTATCAAATTATAATTATAA-ATTT
845536 ACTATAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 7 0.32
26 4 0.18
27 6 0.27
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTATCAAATTATAATTATAAATTTTT
Found at i:846218 original size:22 final size:24
Alignment explanation
Indices: 846171--846215 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 24
846161 AATAATTGAT
846171 TAAATATAAATATTTTAAATAAAA
1 TAAATATAAATATTTTAAATAAAA
846195 TAAATA-AAAT-TTTT-AATAAAA
1 TAAATATAAATATTTTAAATAAAA
846216 ATATTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 4 0.19
23 4 0.19
24 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAATATAAATATTTTAAATAAAA
Found at i:846610 original size:11 final size:11
Alignment explanation
Indices: 846560--846610 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
846550 AGAATTTTAA
*
846560 ATATTAATATT
1 ATATTTATATT
846571 ATATATTA-ATT
1 ATAT-TTATATT
**
846582 ATATTTA-AAA
1 ATATTTATATT
846592 ATATTTATATT
1 ATATTTATATT
846603 ATATTTAT
1 ATATTTAT
846611 GTTTTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 11 0.33
11 20 0.61
12 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATTTATATT
Found at i:847210 original size:15 final size:15
Alignment explanation
Indices: 847190--847219 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
847180 TCATAAATTT
*
847190 TTTTAAAATATAAAA
1 TTTTAAAAAATAAAA
847205 TTTTAAAAAATAAAA
1 TTTTAAAAAATAAAA
847220 CATCTAACTA
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):
TTTTAAAAAATAAAA
Found at i:847453 original size:20 final size:21
Alignment explanation
Indices: 847417--847458 Score: 52
Period size: 19 Copynumber: 2.0 Consensus size: 21
847407 TAATTTATTA
*
847417 TTTATTTATTAAAAT-AATAT
1 TTTATTTATAAAAATAAATAT
847437 TTTA-TTATAAAATATAAATAT
1 TTTATTTATAAAA-ATAAATAT
847458 T
1 T
847459 AATATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 7 0.37
20 6 0.32
21 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATTTATAAAAATAAATAT
Found at i:847705 original size:15 final size:15
Alignment explanation
Indices: 847687--847715 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
847677 ATTATAATTT
847687 AATAAAAAATTTAAA
1 AATAAAAAATTTAAA
847702 AATAAAAAATTTAA
1 AATAAAAAATTTAA
847716 CCAGAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAAAAATTTAAA
Found at i:847739 original size:21 final size:21
Alignment explanation
Indices: 847710--847758 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
847700 AAAATAAAAA
847710 ATTTAACCAGAAATAATTAAT
1 ATTTAACCAGAAATAATTAAT
*
847731 ATTTGACCAGAAATAATTAAT
1 ATTTAACCAGAAATAATTAAT
847752 ATTTAAC
1 ATTTAAC
847759 AAAAACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (21 bp):
ATTTAACCAGAAATAATTAAT
Found at i:852432 original size:3 final size:3
Alignment explanation
Indices: 852424--852456 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
852414 ACATTATTCA
852424 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
852457 TTTAAATCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:857783 original size:24 final size:24
Alignment explanation
Indices: 857756--857809 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
857746 GAACGCGTCA
* * *
857756 GTGGTGGCGGAGAAAGCACTAGTG
1 GTGGTGGCAGAGAAAGCACCAGAG
*
857780 GTGGTGGCAGAGAACGCACCAGAG
1 GTGGTGGCAGAGAAAGCACCAGAG
857804 GTGGTG
1 GTGGTG
857810 AAGAGTGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.46, T:0.15
Consensus pattern (24 bp):
GTGGTGGCAGAGAAAGCACCAGAG
Found at i:857872 original size:21 final size:21
Alignment explanation
Indices: 857848--857922 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
857838 GTGAATTGGA
*
857848 GGTGGCGGAGAACTTACCGGT
1 GGTGGCGGAGAACTTACTGGT
* * *
857869 GGTGGTGG-GGA-TTGAACTGGA
1 GGTGGCGGAGAACTT--ACTGGT
857890 GGTGGCGGAGAACTTACTGGT
1 GGTGGCGGAGAACTTACTGGT
*
857911 GGCGGCGGAGAA
1 GGTGGCGGAGAA
857923 TGGACCAGTC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 34 0.81
22 2 0.05
23 2 0.05
ACGTcount: A:0.20, C:0.13, G:0.48, T:0.19
Consensus pattern (21 bp):
GGTGGCGGAGAACTTACTGGT
Found at i:857890 original size:42 final size:42
Alignment explanation
Indices: 857828--857912 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
857818 ATTGGTGGCA
* *
857828 GTGGTGGTGAGTGAATTGGAGGTGGCGGAGAACTTACCGGTG
1 GTGGTGGGGAGTGAACTGGAGGTGGCGGAGAACTTACCGGTG
* *
857870 GTGGTGGGGATTGAACTGGAGGTGGCGGAGAACTTACTGGTG
1 GTGGTGGGGAGTGAACTGGAGGTGGCGGAGAACTTACCGGTG
857912 G
1 G
857913 CGGCGGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.19, C:0.09, G:0.48, T:0.24
Consensus pattern (42 bp):
GTGGTGGGGAGTGAACTGGAGGTGGCGGAGAACTTACCGGTG
Found at i:858075 original size:21 final size:21
Alignment explanation
Indices: 858051--858104 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 21
858041 ATGCTATTTT
*
858051 TGGAGGTGGTGGAGAGTGAAC
1 TGGAGGTGGTGGAGAGTAAAC
858072 TGGAGGTGGT---GAGTAAAC
1 TGGAGGTGGTGGAGAGTAAAC
*
858090 TGGAGGTGGCGGAGA
1 TGGAGGTGGTGGAGA
858105 ACTCACCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 16 0.57
21 12 0.43
ACGTcount: A:0.24, C:0.06, G:0.52, T:0.19
Consensus pattern (21 bp):
TGGAGGTGGTGGAGAGTAAAC
Found at i:858193 original size:21 final size:21
Alignment explanation
Indices: 858153--858194 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
858143 GAGAACTTAA
858153 CGGTGGCGGTGGAGAATGGAC
1 CGGTGGCGGTGGAGAATGGAC
* *
858174 CGGTGGCGGTGGGGAGTGGAC
1 CGGTGGCGGTGGAGAATGGAC
858195 GAAAGGTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.57, T:0.14
Consensus pattern (21 bp):
CGGTGGCGGTGGAGAATGGAC
Found at i:858265 original size:246 final size:246
Alignment explanation
Indices: 857830--858301 Score: 750
Period size: 246 Copynumber: 1.9 Consensus size: 246
857820 TGGTGGCAGT
* * * ** * **
857830 GGTGGTGAGTGAATTGGAGGTGGCGGAGAACTTACCGGTGGTGGTGGGGATTGAACTGGAGGTGG
1 GGTGGTGAGTAAACTGGAGGTGGCGGAGAACTCACCAATGGTGGTGGGGAATGAACAAGAGGTGG
*
857895 CGGAGAACTTACTGGTGGCGGCGGAGAATGGACCAGTCGCGGTGGAGAGTAGACGAGAGGTGGTG
66 CGGAGAACTTACTGGTGGCGGCGGAGAATGGACCAGTCGCGGTGGAGAGTAGACGAAAGGTGGTG
*
857960 ACAACTGTACAGGAGGAGGTGGAGGCCGCTGTCTTCCGACAGGGGATCTTCCATTAGGGTCATCT
131 ACAACTGTACAGGAGGAGGTGGAGGCCGCTGCCTTCCGACAGGGGATCTTCCATTAGGGTCATCT
*
858025 ATTGGTCCTGGTGGCGATGCTATTTTTGGAGGTGGTGGAGAGTGAACTGGA
196 ATTGGTCCTGGTGGAGATGCTATTTTTGGAGGTGGTGGAGAGTGAACTGGA
858076 GGTGGTGAGTAAACTGGAGGTGGCGGAGAACTCACCAATGGTGGTGGGGAATGAACAAGAGGTGG
1 GGTGGTGAGTAAACTGGAGGTGGCGGAGAACTCACCAATGGTGGTGGGGAATGAACAAGAGGTGG
* * * * *
858141 CGGAGAACTTAAC-GGTGGCGGTGGAGAATGGACCGGTGGCGGTGGGGAGTGGACGAAAGGTGGT
66 CGGAGAACTT-ACTGGTGGCGGCGGAGAATGGACCAGTCGCGGTGGAGAGTAGACGAAAGGTGGT
* *
858205 GACAACTGTATA-GATGGAGGTGGAGGCCGCTGCCTTCCGACAGGGGATCTTCCGTTAGGGTCAT
130 GACAACTGTACAGGA-GGAGGTGGAGGCCGCTGCCTTCCGACAGGGGATCTTCCATTAGGGTCAT
858269 CTATTGGTCCTGGTGGAGATGCTATTTTTGGAG
194 CTATTGGTCCTGGTGGAGATGCTATTTTTGGAG
858302 TGTCGGGAAC
Statistics
Matches: 206, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
245 2 0.01
246 202 0.98
247 2 0.01
ACGTcount: A:0.21, C:0.14, G:0.42, T:0.22
Consensus pattern (246 bp):
GGTGGTGAGTAAACTGGAGGTGGCGGAGAACTCACCAATGGTGGTGGGGAATGAACAAGAGGTGG
CGGAGAACTTACTGGTGGCGGCGGAGAATGGACCAGTCGCGGTGGAGAGTAGACGAAAGGTGGTG
ACAACTGTACAGGAGGAGGTGGAGGCCGCTGCCTTCCGACAGGGGATCTTCCATTAGGGTCATCT
ATTGGTCCTGGTGGAGATGCTATTTTTGGAGGTGGTGGAGAGTGAACTGGA
Found at i:858479 original size:33 final size:33
Alignment explanation
Indices: 858398--858563 Score: 129
Period size: 33 Copynumber: 5.0 Consensus size: 33
858388 TTTGGGGTTA
* * *
858398 GTTCTGTTTTAGGCGGTTGCGGCTTTGGAGACG
1 GTTCTGTTTTAGGTGGTTGTGGCTTTGGAGATG
*
858431 GCTT-TGGTTTAGGTGGTTGTGGCTTTGGTA-ATG
1 G-TTCTGTTTTAGGTGGTTGTGGCTTTGG-AGATG
* * *
858464 GTTCTGTTTTCGGTGGCTCTGGCTTTGGAGATG
1 GTTCTGTTTTAGGTGGTTGTGGCTTTGGAGATG
* * * * * * * *
858497 GTTTTGGTTCAGATGATGGTGGCTTTGGTGGTG
1 GTTCTGTTTTAGGTGGTTGTGGCTTTGGAGATG
* * * *
858530 GTTCTGTTTTTGGTTGCTCTGGCTTTGGAGATG
1 GTTCTGTTTTAGGTGGTTGTGGCTTTGGAGATG
858563 G
1 G
858564 CTTTGGTTCA
Statistics
Matches: 98, Mismatches: 31, Indels: 8
0.72 0.23 0.06
Matches are distributed among these distances:
32 3 0.03
33 92 0.94
34 3 0.03
ACGTcount: A:0.08, C:0.11, G:0.39, T:0.43
Consensus pattern (33 bp):
GTTCTGTTTTAGGTGGTTGTGGCTTTGGAGATG
Found at i:858494 original size:66 final size:66
Alignment explanation
Indices: 858418--858576 Score: 228
Period size: 66 Copynumber: 2.4 Consensus size: 66
858408 AGGCGGTTGC
* * * * *
858418 GGCTTTGGAGACGGCTTTGGTTTAGGTGGTTGTGGCTTTGGTAATGGTTCTGTTTTCGGTGGCTC
1 GGCTTTGGAGATGGCTTTGGTTCAGATGATGGTGGCTTTGGTAATGGTTCTGTTTTCGGTGGCTC
858483 T
66 T
* ** * *
858484 GGCTTTGGAGATGGTTTTGGTTCAGATGATGGTGGCTTTGGTGGTGGTTCTGTTTTTGGTTGCTC
1 GGCTTTGGAGATGGCTTTGGTTCAGATGATGGTGGCTTTGGTAATGGTTCTGTTTTCGGTGGCTC
858549 T
66 T
858550 GGCTTTGGAGATGGCTTTGGTTCAGAT
1 GGCTTTGGAGATGGCTTTGGTTCAGAT
858577 AGTTGTTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 82 1.00
ACGTcount: A:0.09, C:0.11, G:0.38, T:0.43
Consensus pattern (66 bp):
GGCTTTGGAGATGGCTTTGGTTCAGATGATGGTGGCTTTGGTAATGGTTCTGTTTTCGGTGGCTC
T
Found at i:858631 original size:66 final size:65
Alignment explanation
Indices: 858561--858930 Score: 241
Period size: 66 Copynumber: 5.6 Consensus size: 65
858551 GCTTTGGAGA
* * * *
858561 TGGCTTTGG-TTCAGATAGTTGTTTT-TTCTGG-GGTTGTGGCTTTGGTGGTGGTGGTTCTGTTT
1 TGGCTCTGGCTTCAGATA-TGGTTTTGTTCAGGTGGTTGTGGC-TT--TGGAGGTGGTTCTGTTT
858623 TAGG
62 TAGG
** *
858627 TGGCTCTGGCTTTGGATATGGTTTTGGTTCAGGTGGTTGTGGCTTTGGAGGTGGTTCTGTTTTTG
1 TGGCTCTGGCTTCAGATATGGTTTT-GTTCAGGTGGTTGTGGCTTTGGAGGTGGTTCTGTTTTAG
858692 G
65 G
** * * * *
858693 TGGCTCTGGCTTTGGAGATGGTTTCGGTTCAGGTGGTTGTGGCTTTGGTGGTGGTTCTGTTTTGG
1 TGGCTCTGGCTTCAGATATGGTTT-TGTTCAGGTGGTTGTGGCTTTGGAGGTGGTTCTGTTTTAG
858758 G
65 G
* * * * * * * * * *
858759 CGACTCTGGC-TCTGGAGATGGTCTTGGTTCAGGTGGCTCT-TCTTTTGGTGGTGGTTCTATTTT
1 TGGCTCTGGCTTC-AGATATGGT-TTTGTTCAGGTGGTTGTGGC-TTTGGAGGTGGTTCTGTTTT
*
858822 GGG
63 AGG
* * * * * * * * *
858825 CGACTCTGGCTT-TGGTGATGGTTTTGGTTCTGGTGGTTGTCGCTTTGGTGGTGGTTCTATTTTT
1 TGGCTCTGGCTTCAGAT-ATGGTTTT-GTTCAGGTGGTTGTGGCTTTGGAGGTGGTTCTGTTTTA
858889 GG
64 GG
* ** *
858891 GGGCTGAGGCTTC-GGTGATGGTTTTGGTTCAGGTGGTTGT
1 TGGCTCTGGCTTCAGAT-ATGGTTTT-GTTCAGGTGGTTGT
858931 TCTTTTGGTG
Statistics
Matches: 259, Mismatches: 32, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
65 5 0.02
66 228 0.88
67 10 0.04
68 7 0.03
69 9 0.03
ACGTcount: A:0.06, C:0.11, G:0.39, T:0.44
Consensus pattern (65 bp):
TGGCTCTGGCTTCAGATATGGTTTTGTTCAGGTGGTTGTGGCTTTGGAGGTGGTTCTGTTTTAGG
Found at i:858661 original size:33 final size:33
Alignment explanation
Indices: 858624--858860 Score: 161
Period size: 33 Copynumber: 7.2 Consensus size: 33
858614 GTTCTGTTTT
*
858624 AGGTGGCTCTGGCTTTGGATATGGTTTTGGTTC
1 AGGTGGCTCTGGCTTTGGAGATGGTTTTGGTTC
* * * * * *
858657 AGGTGGTTGTGGCTTTGGAGGTGGTTCTGTTTT
1 AGGTGGCTCTGGCTTTGGAGATGGTTTTGGTTC
* *
858690 TGGTGGCTCTGGCTTTGGAGATGGTTTCGGTTC
1 AGGTGGCTCTGGCTTTGGAGATGGTTTTGGTTC
* * * * * * *
858723 AGGTGGTTGTGGCTTTGGTGGTGGTTCTGTTTT
1 AGGTGGCTCTGGCTTTGGAGATGGTTTTGGTTC
* * * * *
858756 GGGCGACTCTGGCTCTGGAGATGGTCTTGGTTC
1 AGGTGGCTCTGGCTTTGGAGATGGTTTTGGTTC
* * * * ** *
858789 AGGTGGCTCT-TCTTTTGGTGGTGGTTCTATTTT
1 AGGTGGCTCTGGC-TTTGGAGATGGTTTTGGTTC
* * * *
858822 GGGCGACTCTGGCTTTGGTGATGGTTTTGGTTC
1 AGGTGGCTCTGGCTTTGGAGATGGTTTTGGTTC
*
858855 TGGTGG
1 AGGTGG
858861 TTGTCGCTTT
Statistics
Matches: 142, Mismatches: 60, Indels: 4
0.69 0.29 0.02
Matches are distributed among these distances:
32 1 0.01
33 140 0.99
34 1 0.01
ACGTcount: A:0.06, C:0.12, G:0.39, T:0.42
Consensus pattern (33 bp):
AGGTGGCTCTGGCTTTGGAGATGGTTTTGGTTC
Found at i:858694 original size:84 final size:84
Alignment explanation
Indices: 858520--858695 Score: 203
Period size: 84 Copynumber: 2.1 Consensus size: 84
858510 TGATGGTGGC
* * **
858520 TTTGGTGGTGGTTCTGTTTTTGGTTGCTCTGGCTTTGGAGATGGCTTTGGTTCAGATAGTTGTTT
1 TTTGGTGGTGGTTCTGTTTTAGGTGGCTCTGGCTTTGGAGATGGCTTTGGTTCAGATAGTTGTGG
* *
858585 TTTCTGGGGTTGTGGCTTT
66 CTTCTGGGGTGGTGGCTTT
** * * * *
858604 GGTGGTGGTGGTTCTGTTTTAGGTGGCTCTGGCTTTGGATATGGTTTTGGTTCAGGTGGTTGTGG
1 TTTGGTGGTGGTTCTGTTTTAGGTGGCTCTGGCTTTGGAGATGGCTTTGGTTCAGATAGTTGTGG
*
858669 CTT-TGGAGGTGGT-TCTGTT
66 CTTCTGG-GGTGGTGGCT-TT
858688 TTTGGTGG
1 TTTGGTGG
858696 CTCTGGCTTT
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
83 5 0.07
84 70 0.93
ACGTcount: A:0.06, C:0.09, G:0.39, T:0.47
Consensus pattern (84 bp):
TTTGGTGGTGGTTCTGTTTTAGGTGGCTCTGGCTTTGGAGATGGCTTTGGTTCAGATAGTTGTGG
CTTCTGGGGTGGTGGCTTT
Found at i:858777 original size:216 final size:216
Alignment explanation
Indices: 858398--858790 Score: 587
Period size: 216 Copynumber: 1.8 Consensus size: 216
858388 TTTGGGGTTA
* *
858398 GTTCTGTTTTAGGCGGTTGCGGCTTTGGAGACGGCTTTGGTTTAGGTGGTTGTGGCTTTGGTAAT
1 GTTCTGTTTTAGGCGGCTGCGGCTTTGGAGACGGCTTTGGTTCAGGTGGTTGTGGCTTTGGTAAT
*
858463 GGTTCTGTTTTCGGTGGCTCTGGCTTTGGAGATGGTTTTGGTTCAGATGATGGTGGCTTTGGTGG
66 GGTTCTGTTTTCGGTGGCTCTGGCTTTGGAGATGGTTTCGGTTCAGATGATGGTGGCTTTGGTGG
** *
858528 TGGTTCTGTTTTTGGTTGCTCTGGCTTTGGAGATGG-CTTTGGTTCAGATAGTTGTTTTTTCTGG
131 TGGTTCTGTTTTTGGGCGCTCTGGCTCTGGAGATGGTC-TTGGTTCAGATAGTTGTTTTTTCTGG
858592 GGTTGTGGCTTTGGTGGTGGTG
195 GGTTGTGGCTTTGGTGGTGGTG
* * * *
858614 GTTCTGTTTTAGGTGGCT-CTGGCTTTGGATATGGTTTTGGTTCAGGTGGTTGTGGCTTTGG-AG
1 GTTCTGTTTTAGGCGGCTGC-GGCTTTGGAGACGGCTTTGGTTCAGGTGGTTGTGGCTTTGGTA-
* * * * *
858677 GTGGTTCTGTTTTTGGTGGCTCTGGCTTTGGAGATGGTTTCGGTTCAGGTGGTTGTGGCTTTGGT
64 ATGGTTCTGTTTTCGGTGGCTCTGGCTTTGGAGATGGTTTCGGTTCAGATGATGGTGGCTTTGGT
858742 GGTGGTTCTG-TTTTGGGCGACTCTGGCTCTGGAGATGGTCTTGGTTCAG
129 GGTGGTTCTGTTTTTGGGCG-CTCTGGCTCTGGAGATGGTCTTGGTTCAG
858791 GTGGCTCTTC
Statistics
Matches: 158, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
215 9 0.06
216 148 0.94
217 1 0.01
ACGTcount: A:0.07, C:0.11, G:0.39, T:0.43
Consensus pattern (216 bp):
GTTCTGTTTTAGGCGGCTGCGGCTTTGGAGACGGCTTTGGTTCAGGTGGTTGTGGCTTTGGTAAT
GGTTCTGTTTTCGGTGGCTCTGGCTTTGGAGATGGTTTCGGTTCAGATGATGGTGGCTTTGGTGG
TGGTTCTGTTTTTGGGCGCTCTGGCTCTGGAGATGGTCTTGGTTCAGATAGTTGTTTTTTCTGGG
GTTGTGGCTTTGGTGGTGGTG
Found at i:858806 original size:132 final size:130
Alignment explanation
Indices: 858592--858938 Score: 417
Period size: 132 Copynumber: 2.6 Consensus size: 130
858582 TTTTTTCTGG
* *
858592 GGTTGTGGCTTTGGTGGTGGTGGTTCTGTTTTAGGTGGCTCTGGCTTTGGATATGGTTTTGGTTC
1 GGTTGTGGC-TT--TGGTGGTGGTTCTGTTTT-GGGGGCTCTGGC-TTGGAGATGGTTTTGGTTC
* * * * *
858657 AGGTGGTTGTGGC-TTTGGAGGTGGTTCTGTTTTTGGTGGCTCTGGCTTTGGAGATGGTTTCGGT
61 AGGTGGTTGT-TCTTTTGGAGGTGGTTCTATTTTGGGCGACTCTGGCTTTGGAGATGGTTTCGGT
858721 TCAGGT
125 TCAGGT
* *
858727 GGTTGTGGCTTTGGTGGTGGTTCTGTTTTGGGCGACTCTGGCTCTGGAGATGGTCTTGGTTCAGG
1 GGTTGTGGCTTTGGTGGTGGTTCTGTTTTGGG-GGCTCTGGCT-TGGAGATGGTTTTGGTTCAGG
* * * * * *
858792 TGGCTCTTCTTTTGGTGGTGGTTCTATTTTGGGCGACTCTGGCTTTGGTGATGGTTTTGGTTCTG
64 TGGTTGTTCTTTTGGAGGTGGTTCTATTTTGGGCGACTCTGGCTTTGGAGATGGTTTCGGTTCAG
858857 GT
129 GT
* * ** *
858859 GGTTGTCGCTTTGGTGGTGGTTCTATTTTTGGGGGCTGAGGCTTCGGTGATGGTTTTGGTTCAGG
1 GGTTGTGGCTTTGGTGGTGGTTCT-GTTTTGGGGGCTCTGGCTT-GGAGATGGTTTTGGTTCAGG
858924 TGGTTGTTCTTTTGG
64 TGGTTGTTCTTTTGG
858939 TGGTTGTGGC
Statistics
Matches: 183, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
131 5 0.03
132 160 0.87
133 7 0.04
134 2 0.01
135 9 0.05
ACGTcount: A:0.05, C:0.11, G:0.39, T:0.44
Consensus pattern (130 bp):
GGTTGTGGCTTTGGTGGTGGTTCTGTTTTGGGGGCTCTGGCTTGGAGATGGTTTTGGTTCAGGTG
GTTGTTCTTTTGGAGGTGGTTCTATTTTGGGCGACTCTGGCTTTGGAGATGGTTTCGGTTCAGGT
Found at i:858870 original size:33 final size:33
Alignment explanation
Indices: 858833--858930 Score: 97
Period size: 33 Copynumber: 3.0 Consensus size: 33
858823 GGCGACTCTG
858833 GCTTTGGTGATGGTTTTGGTTCTGGTGGTTGTC
1 GCTTTGGTGATGGTTTTGGTTCTGGTGGTTGTC
* * ** * * * **
858866 GCTTTGGTGGTGGTTCTATTTTTGGGGGCTGAG
1 GCTTTGGTGATGGTTTTGGTTCTGGTGGTTGTC
* *
858899 GCTTCGGTGATGGTTTTGGTTCAGGTGGTTGT
1 GCTTTGGTGATGGTTTTGGTTCTGGTGGTTGT
858931 TCTTTTGGTG
Statistics
Matches: 46, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.05, C:0.09, G:0.41, T:0.45
Consensus pattern (33 bp):
GCTTTGGTGATGGTTTTGGTTCTGGTGGTTGTC
Found at i:858938 original size:66 final size:65
Alignment explanation
Indices: 858606--858942 Score: 374
Period size: 66 Copynumber: 5.1 Consensus size: 65
858596 GTGGCTTTGG
* * * *
858606 TGGTGGTGGTTCTGTTTTAGGTGGCTCTGGCTTTGGAT-ATGGTTTTGGTTCAGGTGGTTGTGGC
1 TGGTGGTGGTTCTATTTTTGGGGGCTCTGGCTTTGG-TGATGGTTTTGGTTCAGGTGGTTGT-TC
858670 TT
64 TT
* * * * * *
858672 TGGAGGTGGTTCTGTTTTTGGTGGCTCTGGCTTTGGAGATGGTTTCGGTTCAGGTGGTTGTGGCT
1 TGGTGGTGGTTCTATTTTTGGGGGCTCTGGCTTTGGTGATGGTTTTGGTTCAGGTGGTTGT-TCT
858737 T
65 T
* * * * * * *
858738 TGGTGGTGGTTCT-GTTTTGGGCGACTCTGGCTCTGGAGATGGTCTTGGTTCAGGTGGCTCTTCT
1 TGGTGGTGGTTCTATTTTTGGG-GGCTCTGGCTTTGGTGATGGTTTTGGTTCAGGTGGTTGTTC-
858802 TT
64 TT
* * *
858804 TGGTGGTGGTTCTA-TTTTGGGCGACTCTGGCTTTGGTGATGGTTTTGGTTCTGGTGGTTGTCGC
1 TGGTGGTGGTTCTATTTTTGGG-GGCTCTGGCTTTGGTGATGGTTTTGGTTCAGGTGGTTGT-TC
858868 TT
64 TT
** *
858870 TGGTGGTGGTTCTATTTTTGGGGGCTGAGGCTTCGGTGATGGTTTTGGTTCAGGTGGTTGTTCTT
1 TGGTGGTGGTTCTATTTTTGGGGGCTCTGGCTTTGGTGATGGTTTTGGTTCAGGTGGTTGTTC-T
858935 T
65 T
858936 TGGTGGT
1 TGGTGGT
858943 TGTGGCTTTG
Statistics
Matches: 237, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
65 8 0.03
66 221 0.93
67 8 0.03
ACGTcount: A:0.06, C:0.11, G:0.39, T:0.44
Consensus pattern (65 bp):
TGGTGGTGGTTCTATTTTTGGGGGCTCTGGCTTTGGTGATGGTTTTGGTTCAGGTGGTTGTTCTT
Found at i:860657 original size:29 final size:30
Alignment explanation
Indices: 860625--860681 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
860615 ATCTTAACAT
*
860625 TTTAAATTGCA-ACAAATAAATTTTTAATG
1 TTTAAATTACATACAAATAAATTTTTAATG
* * *
860654 TTTAATTTATATATAAATAAATTTTTAA
1 TTTAAATTACATACAAATAAATTTTTAA
860682 CTCTTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.35
30 15 0.65
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (30 bp):
TTTAAATTACATACAAATAAATTTTTAATG
Found at i:860672 original size:30 final size:30
Alignment explanation
Indices: 860638--860711 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
860628 AAATTGCAAC
*
860638 AAATAAATTTTTAA-TGTTTAATTTATATAT
1 AAATAAATTTTTAACT-CTTAATTTATATAT
* *
860668 AAATAAATTTTTAACTCTTAATTTATGTTT
1 AAATAAATTTTTAACTCTTAATTTATATAT
*
860698 AAATAAACTTTTAA
1 AAATAAATTTTTAA
860712 ATAAATTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (30 bp):
AAATAAATTTTTAACTCTTAATTTATATAT
Found at i:861082 original size:15 final size:17
Alignment explanation
Indices: 861058--861103 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
861048 CTAAGCCCAA
861058 AAATATATATTTATATT
1 AAATATATATTTATATT
861075 AAATATATATTTATATT
1 AAATATATATTTATATT
* *
861092 TAATATTTATTT
1 AAATATATATTT
861104 CGAATCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATATATATTTATATT
Found at i:861314 original size:19 final size:19
Alignment explanation
Indices: 861292--861346 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
861282 ATATATTGTG
861292 ATATAAAAATAATATAAAT
1 ATATAAAAATAATATAAAT
* * *
861311 ATATAAATATATTAAAAAT
1 ATATAAAAATAATATAAAT
*
861330 TTATATAAAATAA-ATAA
1 ATATA-AAAATAATATAA
861347 TTTATTTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATAAAAATAATATAAAT
Found at i:861382 original size:29 final size:30
Alignment explanation
Indices: 861303--861382 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 30
861293 TATAAAAATA
*
861303 ATATAAATATATAAATATATTAAAAATTTAT
1 ATATAAATATAT-AATTTATTAAAAATTTAT
*
861334 ATA-AAATAAATAATTTATTTATTAAAATTTAT
1 ATATAAATATATAATTTA-TTA--AAAATTTAT
*
861366 ATATAAATATATCATTT
1 ATATAAATATATAATTT
861383 TAAAATATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.12
30 10 0.24
31 3 0.07
32 12 0.29
33 11 0.27
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (30 bp):
ATATAAATATATAATTTATTAAAAATTTAT
Found at i:861693 original size:55 final size:56
Alignment explanation
Indices: 861585--861693 Score: 127
Period size: 57 Copynumber: 1.9 Consensus size: 56
861575 AATTTAAGTG
** *
861585 AAATATTTTATTATTTAAATTAATTTAATTTAAATTAAATTATTATTTATAAAATAA
1 AAATATTTTATTATTTAAATTAATTTAATAAAAATTAAATAATTA-TTATAAAATAA
861642 AAATA-TTTA-TATTTAAATTTAATTATAA-AAAAATATAAATAATTA-TATAAAA
1 AAATATTTTATTATTTAAA-TTAATT-TAATAAAAAT-TAAATAATTATTATAAAA
861694 ATAATTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
55 15 0.33
56 14 0.30
57 17 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (56 bp):
AAATATTTTATTATTTAAATTAATTTAATAAAAATTAAATAATTATTATAAAATAA
Found at i:867581 original size:25 final size:25
Alignment explanation
Indices: 867534--867605 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
867524 ATTAATATTA
* **
867534 ATATATATATTTAAAAAATTATATTTT
1 ATATATATATTT-AAATA-TATATCAT
*
867561 ATATTTATATTTAAATATATATCAT
1 ATATATATATTTAAATATATATCAT
*
867586 GTATATATA-TTAAATATATA
1 ATATATATATTTAAATATATA
867606 AAAAATAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 11 0.28
25 13 0.33
26 4 0.10
27 11 0.28
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (25 bp):
ATATATATATTTAAATATATATCAT
Found at i:868515 original size:21 final size:22
Alignment explanation
Indices: 868482--868539 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
868472 ATTTATTTAT
*
868482 TTATAAATATAAATAATATTAAA
1 TTATAAATTTAAATAAT-TTAAA
868505 -TA-AAATTT-AA-AATTTAAA
1 TTATAAATTTAAATAATTTAAA
868523 TTATTAAATTTAAATAA
1 TTA-TAAATTTAAATAA
868540 ATATATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 2 0.07
21 11 0.38
22 4 0.14
23 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATAAATTTAAATAATTTAAA
Found at i:869079 original size:18 final size:18
Alignment explanation
Indices: 869056--869092 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
869046 CGATAATTAT
869056 TAACTTACAATTTCTGGG
1 TAACTTACAATTTCTGGG
869074 TAACTTACAATTTCTGGG
1 TAACTTACAATTTCTGGG
869092 T
1 T
869093 TTTGTATTTT
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:0.16, G:0.16, T:0.41
Consensus pattern (18 bp):
TAACTTACAATTTCTGGG
Found at i:872538 original size:6 final size:6
Alignment explanation
Indices: 872527--872554 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
872517 TGTCGCTTTA
872527 TCCATT TCCATT TCCATT TCCATT TCCA
1 TCCATT TCCATT TCCATT TCCATT TCCA
872555 CGAGGTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (6 bp):
TCCATT
Found at i:874929 original size:18 final size:17
Alignment explanation
Indices: 874899--874954 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
874889 TATTAAAATA
874899 AAATTT-AATCAAATTT
1 AAATTTAAATCAAATTT
874915 AAATTTAATATCAAATTTT
1 AAATTTAA-ATCAAA-TTT
*
874934 AAATTTTAAATCGAATTT
1 AAA-TTTAAATCAAATTT
874952 AAA
1 AAA
874955 CTTTTTACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 6 0.17
17 1 0.03
18 12 0.34
19 11 0.31
20 5 0.14
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (17 bp):
AAATTTAAATCAAATTT
Found at i:874959 original size:19 final size:18
Alignment explanation
Indices: 874905--874959 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
874895 AATAAAATTT
874905 AATCAAATTTAAA-TTTA
1 AATCAAATTTAAATTTTA
874922 ATATCAAATTTTAAATTTTA
1 A-ATCAAA-TTTAAATTTTA
*
874942 AATCGAATTTAAACTTTT
1 AATCAAATTTAAA-TTTT
874960 TACCAGCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.03
18 12 0.36
19 15 0.45
20 5 0.15
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (18 bp):
AATCAAATTTAAATTTTA
Found at i:876195 original size:28 final size:28
Alignment explanation
Indices: 876117--876184 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
876107 GTTGATAATA
* *
876117 TTCATATAATTCGTGTCCTAAAT-GTGTT
1 TTCATATAATTCATGT-CTTAATCGTGTT
876145 TTCATATAATTCATGTCTTAATCGTGTT
1 TTCATATAATTCATGTCTTAATCGTGTT
* *
876173 TTCGTATTATTC
1 TTCATATAATTC
876185 GTGTTGTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.50
Consensus pattern (28 bp):
TTCATATAATTCATGTCTTAATCGTGTT
Found at i:876213 original size:15 final size:16
Alignment explanation
Indices: 876186--876216 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
876176 GTATTATTCG
876186 TGTTGTAATCATATTA
1 TGTTGTAATCATATTA
876202 TGTTGT-ATCATATTA
1 TGTTGTAATCATATTA
876217 ACATAAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (16 bp):
TGTTGTAATCATATTA
Found at i:876527 original size:172 final size:172
Alignment explanation
Indices: 876234--876570 Score: 586
Period size: 172 Copynumber: 2.0 Consensus size: 172
876224 CAGATCAAGT
*
876234 TTAATCGTGTCGTATCGTATAAACGTTAATAAATCAATTTTAATTGTGTCATAATCATATCTTAT
1 TTAATCGTGTCGTATCGTATAAACGTTAATAAATCAATTTTAATTGTATCATAATCATATCTTAT
876299 CATGTAAAATTTTAAAAATTAATTTTTAACATGTTAATCGTATCATATCATGTGTAAAACGAATA
66 CATGTAAAATTTTAAAAATTAATTTTTAACATGTTAATCGTATCATATCATGTGTAAAACGAATA
*
876364 TAAATCATATCATATTCGTATTTAAAAATTTGATACAAATAG
131 TAAATCATATCATATTCATATTTAAAAATTTGATACAAATAG
*
876406 TTAATCGTGTCGTATCGTATAAACGTTAATAAATCAATTTTAATTGTATCATAATCGTATCTTAT
1 TTAATCGTGTCGTATCGTATAAACGTTAATAAATCAATTTTAATTGTATCATAATCATATCTTAT
* *
876471 CATGTTAAA-TTTAAAAGATTAATTTTTAACATGTTAATCGTATCATATCGTGTGTAAAACGAAT
66 CATGTAAAATTTTAAAA-ATTAATTTTTAACATGTTAATCGTATCATATCATGTGTAAAACGAAT
* * *
876535 ATAAATCGTATCATATTTATATTTTAAAATTTGATA
130 ATAAATCATATCATATTCATATTTAAAAATTTGATA
876571 TGATTAATTA
Statistics
Matches: 156, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
171 7 0.04
172 149 0.96
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (172 bp):
TTAATCGTGTCGTATCGTATAAACGTTAATAAATCAATTTTAATTGTATCATAATCATATCTTAT
CATGTAAAATTTTAAAAATTAATTTTTAACATGTTAATCGTATCATATCATGTGTAAAACGAATA
TAAATCATATCATATTCATATTTAAAAATTTGATACAAATAG
Found at i:877072 original size:11 final size:11
Alignment explanation
Indices: 877058--877113 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
877048 ATTAATATTT
877058 AATTAATTAAA
1 AATTAATTAAA
*
877069 AATT-ATTTAA
1 AATTAATTAAA
*
877079 AATTAATTATA
1 AATTAATTAAA
877090 AATTAA-TAAA
1 AATTAATTAAA
* *
877100 TATTAATAAAA
1 AATTAATTAAA
877111 AAT
1 AAT
877114 ATAAATATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
10 17 0.47
11 19 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTAATTAAA
Found at i:877082 original size:10 final size:10
Alignment explanation
Indices: 877058--877110 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
877048 ATTAATATTT
877058 AATTAATTAAA
1 AATTAATT-AA
*
877069 AATTATTTAA
1 AATTAATTAA
877079 AATTAATTATA
1 AATTAATTA-A
877090 AATTAA-TAA
1 AATTAATTAA
877099 ATATTAA-TAA
1 A-ATTAATTAA
877109 AA
1 AA
877111 AATATAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 3 0.08
10 21 0.55
11 14 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTAATTAA
Found at i:877082 original size:21 final size:20
Alignment explanation
Indices: 877058--877113 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
877048 ATTAATATTT
*
877058 AATTAATTAAAAATTATTTAA
1 AATTAATTAAAAATTA-ATAA
*
877079 AATTAATTATAAATTAATAA
1 AATTAATTAAAAATTAATAA
*
877099 ATATTAATAAAAAAT
1 A-ATTAATTAAAAAT
877114 ATAAATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAATTAAAAATTAATAA
Found at i:877728 original size:19 final size:19
Alignment explanation
Indices: 877691--877730 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
877681 TAGTTTTTTT
*
877691 AAAATTTTATTATTGATAA
1 AAAATTTTATTAATGATAA
877710 AAAATTTTAATTAAT-ATAA
1 AAAATTTT-ATTAATGATAA
877729 AA
1 AA
877731 TATTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAATTTTATTAATGATAA
Found at i:878929 original size:21 final size:22
Alignment explanation
Indices: 878899--878939 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
878889 TTTAATTTAA
*
878899 TAATATGATTTTAAATAAAAAT
1 TAATATGATTTTAAAGAAAAAT
878921 TAAT-TGATTTTAAAGAAAA
1 TAATATGATTTTAAAGAAAA
878940 TAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (22 bp):
TAATATGATTTTAAAGAAAAAT
Found at i:880630 original size:36 final size:36
Alignment explanation
Indices: 880574--880649 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
880564 AAAATATGTT
880574 TAAAAATTTATTAAATTATTTATAATATTATT-TAAA
1 TAAAAATTTATTAAATTATTTAT-ATATTATTATAAA
*
880610 TAAAATATTATATT-AA-TATTTATATATTATTATAAT
1 TAAAA-ATT-TATTAAATTATTTATATATTATTATAAA
880646 TAAA
1 TAAA
880650 TTAAAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
35 8 0.22
36 19 0.53
37 5 0.14
38 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (36 bp):
TAAAAATTTATTAAATTATTTATATATTATTATAAA
Found at i:882031 original size:23 final size:23
Alignment explanation
Indices: 882000--882052 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
881990 TATAACATAT
* *
882000 ATATTTTAATAATTTATTAAATTA
1 ATATATTAAT-ATTTATTAAAATA
*
882024 AT-TATTAATTTTTATTAAAATA
1 ATATATTAATATTTATTAAAATA
882046 ATATATT
1 ATATATT
882053 TACTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 13 0.52
23 10 0.40
24 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATTAATATTTATTAAAATA
Found at i:882331 original size:2 final size:2
Alignment explanation
Indices: 882324--882355 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
882314 GATACGGGAA
882324 AT 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 AT
882356 TGTAATGCCT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:882382 original size:36 final size:36
Alignment explanation
Indices: 882335--882404 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
882325 TATATATATA
882335 TATATATATATATATATATATTGTAATGCCTCACTC
1 TATATATATATATATATATATTGTAATGCCTCACTC
*
882371 TATATATATATATATTTATATTGTAATGCCTCAC
1 TATATATATATATATATATATTGTAATGCCTCAC
882405 CTTCATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.46
Consensus pattern (36 bp):
TATATATATATATATATATATTGTAATGCCTCACTC
Found at i:882831 original size:12 final size:12
Alignment explanation
Indices: 882814--882865 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
882804 AGTTTATAAG
882814 TTTATATTATTA
1 TTTATATTATTA
*
882826 TTTATAATATTA
1 TTTATATTATTA
*
882838 TTTA-A--ATTT
1 TTTATATTATTA
*
882847 TTTATATTAATA
1 TTTATATTATTA
882859 TTTATAT
1 TTTATAT
882866 ATTTATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 7 0.21
10 1 0.03
11 1 0.03
12 24 0.73
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:882837 original size:33 final size:31
Alignment explanation
Indices: 882800--882868 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 31
882790 ATGAGATTTG
*
882800 TATTAGTTTATAA-GTTTATATTATTATTTATAA
1 TATTA-TTTA-AATGTTTATATTAATATTTAT-A
*
882833 TATTATTTAAATTTTTTATATTAATATTTATA
1 TATTATTTAAA-TGTTTATATTAATATTTATA
882865 TATT
1 TATT
882869 TATATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 2 0.06
32 9 0.28
33 21 0.66
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TATTATTTAAATGTTTATATTAATATTTATA
Found at i:891627 original size:16 final size:16
Alignment explanation
Indices: 891606--891647 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
891596 TAGCCCAAAC
*
891606 CCAAAATGGCTTGAAT-
1 CCAAAATGAC-TGAATG
891622 CCAAAATGACTGAATG
1 CCAAAATGACTGAATG
891638 CCAAAATGAC
1 CCAAAATGAC
891648 CTGACCTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (16 bp):
CCAAAATGACTGAATG
Found at i:894080 original size:16 final size:16
Alignment explanation
Indices: 894061--894103 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
894051 TTTTAAAATA
*
894061 TATATGTATATTATGT
1 TATATTTATATTATGT
*
894077 TATACTTTA-ATTATTT
1 TATA-TTTATATTATGT
894093 TATATTTATAT
1 TATATTTATAT
894104 AATTATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.17
16 16 0.70
17 3 0.13
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (16 bp):
TATATTTATATTATGT
Found at i:894259 original size:12 final size:12
Alignment explanation
Indices: 894215--894265 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
894205 TTATTTTATT
*
894215 ATATAATAT-AA
1 ATATGATATAAA
894226 ATATGATATAAA
1 ATATGATATAAA
894238 A-A--AT-TAAA
1 ATATGATATAAA
894246 ATATGATATAAA
1 ATATGATATAAA
894258 ATATGATA
1 ATATGATA
894266 CGAAAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
8 5 0.15
9 3 0.09
11 11 0.32
12 15 0.44
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (12 bp):
ATATGATATAAA
Found at i:898947 original size:22 final size:21
Alignment explanation
Indices: 898906--898962 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
898896 TACTTTTTTA
* *
898906 ATTTTATTTATATTTAATATTT
1 ATTTTATTAAT-TTTTATATTT
898928 AATTTCT-TTAATTTTTATATTT
1 -ATTT-TATTAATTTTTATATTT
898950 ATTTTATTAATTT
1 ATTTTATTAATTT
898963 ATTTTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 11 0.37
22 9 0.30
23 8 0.27
24 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTTATTAATTTTTATATTT
Found at i:898953 original size:21 final size:22
Alignment explanation
Indices: 898902--898962 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
898892 CTTTTACTTT
* *
898902 TTTAATTTTATTTATATTTAATA
1 TTTAATTTTATTAAT-TTTTATA
898925 TTTAATTTCT-TTAATTTTTATA
1 TTTAATTT-TATTAATTTTTATA
898947 TTT-ATTTTATTAATTT
1 TTTAATTTTATTAATTT
898963 ATTTTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 9 0.26
23 12 0.35
24 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTAATTTTATTAATTTTTATA
Found at i:899000 original size:39 final size:39
Alignment explanation
Indices: 898952--899040 Score: 103
Period size: 38 Copynumber: 2.3 Consensus size: 39
898942 TTATATTTAT
*
898952 TTTATTAATTTATT-TTTAAATACAAATATAATTTTAATA-A
1 TTTA-TAATTTATTATTT-AATACAAA-ATAATTTAAATATA
*
898992 TTTATAA-TTATTATTTAATATAAAATAATTTAAATATA
1 TTTATAATTTATTATTTAATACAAAATAATTTAAATATA
*
899030 TTTATTATTTA
1 TTTATAATTTA
899041 ATATACGCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
37 11 0.26
38 19 0.44
39 9 0.21
40 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (39 bp):
TTTATAATTTATTATTTAATACAAAATAATTTAAATATA
Found at i:899013 original size:16 final size:16
Alignment explanation
Indices: 898994--899045 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
898984 TTTAATAATT
898994 TATAATTATTATTTAA
1 TATAATTATTATTTAA
* *
899010 TATAA-AATAATTTAAA
1 TATAATTATTATTT-AA
*
899026 TATATTTATTATTTAA
1 TATAATTATTATTTAA
899042 TATA
1 TATA
899046 CGCGGTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 6 0.21
16 17 0.59
17 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAATTATTATTTAA
Found at i:899189 original size:20 final size:20
Alignment explanation
Indices: 899164--899221 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
899154 ATAATAACAA
899164 AATAAATATTAATATTTAAT
1 AATAAATATTAATATTTAAT
* * *
899184 AATAAAAATTTATTTTTAAT
1 AATAAATATTAATATTTAAT
* *
899204 ATATTAATAATAATATTT
1 A-ATAAATATTAATATTT
899222 TAAATTCAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATAAATATTAATATTTAAT
Found at i:900400 original size:37 final size:33
Alignment explanation
Indices: 900343--900418 Score: 80
Period size: 37 Copynumber: 2.2 Consensus size: 33
900333 AATAAGTATC
* ** *
900343 AAATTTAAATATTTAAATTTATATTTGAATAAT
1 AAATTTAAATATTTAAATTTAAATTAAAATAAA
900376 AAATTTAAATATTTAATTATATTTAAATTAAAATAAA
1 AAATTTAAATATTT-A--A-ATTTAAATTAAAATAAA
900413 AAATTT
1 AAATTT
900419 TAAAAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 14 0.40
34 1 0.03
36 1 0.03
37 19 0.54
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (33 bp):
AAATTTAAATATTTAAATTTAAATTAAAATAAA
Found at i:904930 original size:21 final size:19
Alignment explanation
Indices: 904909--904946 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
904899 TAACTTGATA
*
904909 ATAATTAAAAATA-ATTTT
1 ATAATTAAAAAAATATTTT
904927 ATAATTAAAAAAATATTTT
1 ATAATTAAAAAAATATTTT
904946 A
1 A
904947 CGTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATTAAAAAAATATTTT
Found at i:905031 original size:18 final size:16
Alignment explanation
Indices: 905010--905064 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
905000 AAATTAATAT
905010 ATAAATAATAATTTTAAA
1 ATAAAT-AT-ATTTTAAA
905028 ATAAATATATTTT-AA
1 ATAAATATATTTTAAA
* **
905043 ATCAA-ATATTAAAAA
1 ATAAATATATTTTAAA
905058 ATAAATA
1 ATAAATA
905065 AAATTACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 5 0.16
15 12 0.39
16 6 0.19
17 2 0.06
18 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAATATATTTTAAA
Found at i:905044 original size:15 final size:15
Alignment explanation
Indices: 905011--905051 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
905001 AATTAATATA
905011 TAAAT-AATA-ATTT
1 TAAATAAATATATTT
905024 TAAAATAAATATATTT
1 T-AAATAAATATATTT
905040 TAAATCAAATAT
1 TAAAT-AAATAT
905052 TAAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.04
14 4 0.17
15 8 0.33
16 11 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATAAATATATTT
Found at i:911750 original size:2 final size:2
Alignment explanation
Indices: 911743--911775 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
911733 TGTAAATCTT
911743 TA TA TA 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 TA TA TA T
911776 TACCCTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:925291 original size:3 final size:3
Alignment explanation
Indices: 925283--925318 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
925273 AGTTCACTAG
925283 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
925319 ATATATTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:925545 original size:31 final size:29
Alignment explanation
Indices: 925483--925549 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 29
925473 TACAATAATA
925483 ATATTAAATTAAAAATTATATTAATTTTT
1 ATATTAAATTAAAAATTATATTAATTTTT
*
925512 ATAATTAAATTTAAATAA-TATATT-TTTTATT
1 AT-ATTAAA-TTAAA-AATTATATTAATTT-TT
925543 ATATTAA
1 ATATTAA
925550 TAATAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
29 2 0.06
30 14 0.42
31 15 0.45
32 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
ATATTAAATTAAAAATTATATTAATTTTT
Found at i:927591 original size:26 final size:27
Alignment explanation
Indices: 927553--927612 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
927543 TTAATTAATA
*
927553 ATAAAAAATTTTAACTCAAATTCAAAT
1 ATAAAAAATTTTAACTCAAAATCAAAT
* * *
927580 ATAAATAA-TTTAATTTAAAATCAAAT
1 ATAAAAAATTTTAACTCAAAATCAAAT
927606 ATAAAAA
1 ATAAAAA
927613 TCAAACAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (27 bp):
ATAAAAAATTTTAACTCAAAATCAAAT
Found at i:928681 original size:34 final size:35
Alignment explanation
Indices: 928642--928712 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 35
928632 CACATGAAAT
* * *
928642 AAAATA-AAT-TATTAATATGTAAAAAATTTATACA
1 AAAATATAATATATTAA-ATATAAAAAAATTAGACA
*
928676 AAAATATAATATTTTAAATATAAAAAAATTAGACA
1 AAAATATAATATATTAAATATAAAAAAATTAGACA
928711 AA
1 AA
928713 TATGAATGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 6 0.19
35 20 0.65
36 5 0.16
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (35 bp):
AAAATATAATATATTAAATATAAAAAAATTAGACA
Found at i:929188 original size:16 final size:16
Alignment explanation
Indices: 929169--929201 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
929159 ATATAAGAAC
929169 ATATAAA-TATATATAT
1 ATATAAACTAT-TATAT
929185 ATATAAACTATTATAT
1 ATATAAACTATTATAT
929201 A
1 A
929202 AGTTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAACTATTATAT
Found at i:929325 original size:20 final size:20
Alignment explanation
Indices: 929286--929326 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
929276 TCTCTCTCAT
* * *
929286 TTTTTTTCTTTTCTTTTTTC
1 TTTTTTTCTTTCCATCTTTC
929306 TTTTTTTCTTTCCATCTTTC
1 TTTTTTTCTTTCCATCTTTC
929326 T
1 T
929327 CTCTTCCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTCTTTCCATCTTTC
Found at i:929662 original size:16 final size:16
Alignment explanation
Indices: 929631--929680 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
929621 AAGACGTAAA
929631 TTTTTTCGTTT-T-TTT
1 TTTTTTC-TTTCTCTTT
929646 TTCTTTT-TTTCTCTTT
1 TT-TTTTCTTTCTCTTT
929662 TTTTTTCTTTCTCTTT
1 TTTTTTCTTTCTCTTT
929678 TTT
1 TTT
929681 CCTCCTGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.10
15 7 0.23
16 21 0.68
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTTTCTTTCTCTTT
Found at i:929942 original size:5 final size:5
Alignment explanation
Indices: 929932--930021 Score: 58
Period size: 5 Copynumber: 17.2 Consensus size: 5
929922 AAATATTTAA
* * *
929932 AATAT AATAT AAAAAT AATAT AAAAAT AATAT ACGTAT AATAT AA-AT
1 AATAT AATAT -AATAT AATAT -AATAT AATAT A-ATAT AATAT AATAT
* * *
929979 ACATAT -ATAT AATAT AAATAA AATAA AATAA AATATT AATAT A
1 A-ATAT AATAT AATAT -AATAT AATAT AATAT AATA-T AATAT A
930022 TAAAAAATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
4 7 0.10
5 40 0.58
6 22 0.32
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.32
Consensus pattern (5 bp):
AATAT
Found at i:929949 original size:11 final size:11
Alignment explanation
Indices: 929920--930038 Score: 86
Period size: 11 Copynumber: 10.6 Consensus size: 11
929910 GATATTTATA
*
929920 AAAAAT-ATTT
1 AAAAATAATAT
929930 AAAATATAATAT
1 AAAA-ATAATAT
929942 AAAAATAATAT
1 AAAAATAATAT
929953 AAAAATAATAT
1 AAAAATAATAT
***
929964 ACGTATAATAT
1 AAAAATAATAT
929975 AAATACAT-ATAT
1 AAA-A-ATAATAT
*
929987 ATAATATAA-AT
1 A-AAAATAATAT
*
929998 -AAAATAAAAT
1 AAAAATAATAT
930008 AAAATATTAATAT
1 AAAA-A-TAATAT
930021 ATAAAA-AATAT
1 A-AAAATAATAT
930032 AAAAATA
1 AAAAATA
930039 TCATATTTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
9 6 0.07
10 10 0.11
11 43 0.49
12 14 0.16
13 11 0.13
14 3 0.03
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (11 bp):
AAAAATAATAT
Found at i:929991 original size:19 final size:18
Alignment explanation
Indices: 929933--930024 Score: 74
Period size: 19 Copynumber: 5.3 Consensus size: 18
929923 AATATTTAAA
929933 ATATAATATAAA-AATA-
1 ATATAATATAAATAATAT
929949 ATAT-A-A-AAATAATAT
1 ATATAATATAAATAATAT
929964 ACGTATAATATAAATACATAT
1 A--TATAATATAAATA-ATAT
929985 ATATAATATAAATAA-A-
1 ATATAATATAAATAATAT
* *
930001 ATAAAATA-AAATATTAAT
1 ATATAATATAAATAAT-AT
930019 ATATAA
1 ATATAA
930025 AAAATATAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
13 3 0.05
14 5 0.08
15 7 0.11
16 11 0.18
17 5 0.08
18 7 0.11
19 14 0.23
20 5 0.08
21 5 0.08
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (18 bp):
ATATAATATAAATAATAT
Found at i:930009 original size:10 final size:11
Alignment explanation
Indices: 929889--930019 Score: 58
Period size: 11 Copynumber: 12.0 Consensus size: 11
929879 TTTTTATTTT
929889 AAATAT-AA-A
1 AAATATAAATA
929898 AAATATAAATA
1 AAATATAAATA
** **
929909 CGATATTTATA
1 AAATATAAATA
* **
929920 AAAAATATTTA
1 AAATATAAATA
929931 AAATATAATATA
1 AAATATAA-ATA
929943 AAA-ATAATATA
1 AAATATAA-ATA
929954 AAA-AT-AATA
1 AAATATAAATA
**
929963 TACGTATAATATA
1 -AAATATAA-ATA
* *
929976 AATACATATATA
1 AA-ATATAAATA
*
929988 TAATATAAATA
1 AAATATAAATA
929999 AAATA-AAATA
1 AAATATAAATA
*
930009 AAATATTAATA
1 AAATATAAATA
930020 TATAAAAAAT
Statistics
Matches: 90, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
9 9 0.10
10 14 0.16
11 50 0.56
12 11 0.12
13 6 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
AAATATAAATA
Found at i:930072 original size:79 final size:79
Alignment explanation
Indices: 929836--930073 Score: 201
Period size: 79 Copynumber: 3.0 Consensus size: 79
929826 GAATATGTCA
* * * *
929836 AAATATAAAT-AAAT-AAATAATTAATATAT-AAAAATTTATATAATTTTTATTTTAAATATAAA
1 AAATA-AAATAAAATAAAAT-ATTAATATATAAAAAATATA-AAAATATATATTTT-AATATAAA
*
929898 AAATATAAATA-CGATAT
62 AAATATAAATATCAATAT
** * * *
929915 TTATAAAA-AATATTTAAAATA-TAATATA-AAAATAATATAAAAATAATATACGTATAATATAA
1 AAATAAAATAA-A-ATAAAATATTAATATATAAAA-AATATAAAAAT-ATATA-TTTTAATATAA
*
929977 ATACATAT--ATAT-AATAT
61 A-AAATATAAATATCAATAT
929994 AAATAAAATAAAATAAAATATTAATATATAAAAAATATAAAAATATCATATTTTAA-ATAAAAAA
1 AAATAAAATAAAATAAAATATTAATATATAAAAAATATAAAAATAT-ATATTTTAATATAAAAAA
930058 TATAAATATCAATAT
65 TATAAATATCAATAT
930073 A
1 A
930074 TAAATTTTTT
Statistics
Matches: 125, Mismatches: 17, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
76 5 0.04
77 5 0.04
78 21 0.17
79 59 0.47
80 24 0.19
81 11 0.09
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (79 bp):
AAATAAAATAAAATAAAATATTAATATATAAAAAATATAAAAATATATATTTTAATATAAAAAAT
ATAAATATCAATAT
Done.