Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold206
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: 2736418
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 22040 characters in sequence are not A, C, G, or T
File 6 of 20
Found at i:792984 original size:29 final size:29
Alignment explanation
Indices: 792951--793020 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
792941 TTAAGTTGTT
792951 TTTATTATATAAAATAAAAAATATA-TAA
1 TTTATTATATAAAATAAAAAATATATTAA
* * *
792979 TATTATTTTATTAATATTAAAAATATATTAA
1 T-TTATTATA-TAAAATAAAAAATATATTAA
793010 TTTATTTATAT
1 TTTA-TTATAT
793021 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 1 0.03
29 7 0.21
30 18 0.53
31 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTATTATATAAAATAAAAAATATATTAA
Found at i:793068 original size:24 final size:23
Alignment explanation
Indices: 793016--793068 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
793006 TTAATTTATT
*
793016 TATATT-TTAAAATTTAATAAAA
1 TATATTATTAAAATTAAATAAAA
*
793038 TAAATTATTAAAATTAAATTAAAA
1 TATATTATTAAAATTAAA-TAAAA
793062 TATATTA
1 TATATTA
793069 AAAATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
24 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATATTATTAAAATTAAATAAAA
Found at i:793072 original size:22 final size:23
Alignment explanation
Indices: 793023--793083 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
793013 ATTTATATTT
*
793023 TAAAATTTAA-TAAAATAAATTA
1 TAAAATTAAATTAAAATAAATTA
*
793045 TTAAAATTAAATTAAAATATATTA
1 -TAAAATTAAATTAAAATAAATTA
*
793069 -AAAATAAAATATAAA
1 TAAAATTAAAT-TAAA
793084 CAAGTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 9 0.27
23 13 0.39
24 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAATTAAATTAAAATAAATTA
Found at i:793382 original size:22 final size:22
Alignment explanation
Indices: 793340--793389 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
793330 ATTTTGATAC
793340 ATATTTAATTGAATTGAATAAAA
1 ATATTTAATTGAATTGAAT-AAA
793363 ATATTTAATTGAA-TGAATAAA
1 ATATTTAATTGAATTGAATAAA
793384 ATATTT
1 ATATTT
793390 GATTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 9 0.33
22 5 0.19
23 13 0.48
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (22 bp):
ATATTTAATTGAATTGAATAAA
Found at i:797321 original size:17 final size:18
Alignment explanation
Indices: 797275--797326 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
797265 ATTATTATTT
*
797275 AATATTTATATTCAATAAA
1 AATATATATATT-AATAAA
* *
797294 AATTTAAATATTAATAAA
1 AATATATATATTAATAAA
*
797312 AA-ATATATATAAATA
1 AATATATATATTAATA
797327 TTTAGATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 10 0.37
18 8 0.30
19 9 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATATATATTAATAAA
Found at i:801212 original size:5 final size:5
Alignment explanation
Indices: 801202--801287 Score: 63
Period size: 5 Copynumber: 17.4 Consensus size: 5
801192 ATATTATTAA
* * * *
801202 AATAT AATAT AAT-T -ATAT AATATT AATTT AATAT AAAAT AATA- ATTAA
1 AATAT AATAT AATAT AATAT AATA-T AATAT AATAT AATAT AATAT AATAT
* *
801250 AATAT AATAAA AAAAT AATAT -ATAT AATAT AAATAT AA
1 AATAT AAT-AT AATAT AATAT AATAT AATAT -AATAT AA
801288 ATTTTTTAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
3 2 0.03
4 9 0.14
5 40 0.63
6 12 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:801259 original size:22 final size:20
Alignment explanation
Indices: 801234--801284 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
801224 TTAATTTAAT
801234 ATAAAATAATAATTAAAATATA
1 ATAAAATAATAA-T-AAATATA
* *
801256 ATAAAAAAATAATATATATA
1 ATAAAATAATAATAAATATA
801276 ATATAAATA
1 ATA-AAATA
801285 TAAATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 5 0.20
22 11 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAATAATAATAAATATA
Found at i:801283 original size:18 final size:18
Alignment explanation
Indices: 801202--801284 Score: 57
Period size: 18 Copynumber: 4.6 Consensus size: 18
801192 ATATTATTAA
801202 AATATAATATAAT-TATAT
1 AATATAA-ATAATATATAT
*
801220 AATATTAATTTAATATA-A-
1 AATA-TAA-ATAATATATAT
* *
801238 AATAATAATTAAAATATAAT
1 AAT-ATAAATAATATAT-AT
*
801258 AA-AAAAATAATATATAT
1 AATATAAATAATATATAT
801275 AATATAAATA
1 AATATAAATA
801285 TAAATTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
17 11 0.21
18 26 0.50
19 11 0.21
20 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATAAATAATATATAT
Found at i:801643 original size:20 final size:21
Alignment explanation
Indices: 801607--801648 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
801597 TCTTAATGAT
*
801607 TAAAATATTATTATATTAATA
1 TAAAATATTAATATATTAATA
801628 TAAAAT-TTAATATATTAATA
1 TAAAATATTAATATATTAATA
801648 T
1 T
801649 TTAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAATATTAATATATTAATA
Found at i:802050 original size:11 final size:12
Alignment explanation
Indices: 802034--802066 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
802024 AATTTTAAAA
802034 ATTTATATTA-T
1 ATTTATATTATT
802045 ATTTATATTATT
1 ATTTATATTATT
*
802057 TTTTATATTA
1 ATTTATATTA
802067 CATCATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTATATTATT
Found at i:803293 original size:48 final size:48
Alignment explanation
Indices: 803234--803363 Score: 131
Period size: 48 Copynumber: 2.7 Consensus size: 48
803224 TCTTAACAAG
* * *
803234 ATTTAAATTAAATTAATTTAAAATTTTATTTATAT-ATTAATATTTATA
1 ATTTAATTTAAATTAATTTAAAATTTTATTTATATAAATAATAATT-TA
** *
803282 ATTTAATTTAAATATAAAAT-AAATTTTA-TTATTTAAATAATAATTTA
1 ATTTAATTTAAAT-TAATTTAAAATTTTATTTATATAAATAATAATTTA
*
803329 ATTTAATTTAATTTAAATTATAAAAATTTTATTTA
1 ATTTAATTTAAATT-AATT-T-AAAATTTTATTTA
803364 AACTTAATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
46 1 0.02
47 21 0.32
48 29 0.44
49 4 0.06
50 8 0.12
51 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (48 bp):
ATTTAATTTAAATTAATTTAAAATTTTATTTATATAAATAATAATTTA
Found at i:803356 original size:25 final size:26
Alignment explanation
Indices: 803280--803383 Score: 88
Period size: 25 Copynumber: 4.0 Consensus size: 26
803270 TTAATATTTA
*
803280 TAATTTAATTTAAATATAAAATAAATT
1 TAATTTAATTTAAAT-TATAATAAATT
* * *
803307 TTA-TT-ATTTAAATAATAATTTAATT
1 TAATTTAATTTAAATTATAA-TAAATT
803332 TAATTTAATTTAAATTATAA-AAATT
1 TAATTTAATTTAAATTATAATAAATT
* * *
803357 TTATTTAAACTTAATTTATAAATAAAT
1 TAATTT-AATTTAAATTAT-AATAAAT
803384 CTGTTAATAG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
24 3 0.05
25 24 0.39
26 14 0.23
27 16 0.26
28 4 0.07
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATTTAATTTAAATTATAATAAATT
Found at i:803361 original size:47 final size:49
Alignment explanation
Indices: 803234--803371 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 49
803224 TCTTAACAAG
* * *
803234 ATTTAAATTAAATTAATTTAAAATTTTATTTATATATTAATATTTATAATTTA
1 ATTTAATTTAAATT-A-TAAAAATTTTATTTA-A-ATTAATAATTATAATTTA
* **
803287 ATTTAAATATAAA--ATAAATTTTATTATTTAAA-TAATAATT-TAATTTA
1 ATTT-AATTTAAATTATAAAAATT-TTATTTAAATTAATAATTATAATTTA
803334 ATTTAATTTAAATTATAAAAATTTTATTTAAACTTAAT
1 ATTTAATTTAAATTATAAAAATTTTATTTAAA-TTAAT
803372 TTATAAATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
46 7 0.10
47 20 0.29
48 14 0.20
49 5 0.07
50 6 0.09
51 8 0.11
53 4 0.06
54 6 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (49 bp):
ATTTAATTTAAATTATAAAAATTTTATTTAAATTAATAATTATAATTTA
Found at i:803370 original size:26 final size:25
Alignment explanation
Indices: 803328--803378 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
803318 ATAATAATTT
*
803328 AATTTAATTTAATTTAAATTATAAA
1 AATTTAATTTAACTTAAATTATAAA
* *
803353 AATTTTATTTAAACTTAATTTATAAA
1 AATTTAATTT-AACTTAAATTATAAA
803379 TAAATCTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTTAATTTAACTTAAATTATAAA
Found at i:803382 original size:30 final size:29
Alignment explanation
Indices: 803315--803382 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
803305 TTTTATTATT
* *
803315 TAAATAATAATTTAATTTAATTTAATTTA
1 TAAATAAAAATTTAATTTAACTTAATTTA
*
803344 -AATTATAAAAATTTTATTTAAACTTAATTTA
1 TAA--ATAAAAATTTAATTT-AACTTAATTTA
803375 TAAATAAA
1 TAAATAAA
803383 TCTGTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 2 0.06
30 18 0.56
31 10 0.31
32 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (29 bp):
TAAATAAAAATTTAATTTAACTTAATTTA
Found at i:804211 original size:29 final size:31
Alignment explanation
Indices: 804166--804225 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
804156 AATAAATACG
* *
804166 TTAAAATTAAATTATCT-AATTAAATAAATT
1 TTAAAATTAAATAATCTGAACTAAATAAATT
*
804196 TTAAAA-TAAATAATCTGAACTAAATTAATT
1 TTAAAATTAAATAATCTGAACTAAATAAATT
804226 GAATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (31 bp):
TTAAAATTAAATAATCTGAACTAAATAAATT
Found at i:814419 original size:22 final size:20
Alignment explanation
Indices: 814390--814447 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
814380 GCTCGAATAG
814390 TTATAT-TTTTATATTAATAT
1 TTATATATTTTATATTAA-AT
814410 TTATATATTTTATAATTAAAT
1 TTATATATTTTAT-ATTAAAT
* *
814431 TTAAATAATATTATATT
1 TTATAT-ATTTTATATT
814448 TTAATCAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 6 0.18
21 16 0.48
22 11 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATTTTATATTAAAT
Found at i:815011 original size:33 final size:36
Alignment explanation
Indices: 814974--815050 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 36
814964 TATAGTATAA
814974 TAAATAATTAAAAT-T-TATTAAAATTATATTTA-T
1 TAAATAATTAAAATATATATTAAAATTATATTTAGT
*
815007 TAAATAA-TAAAATATATATTAAAATTATTTTTATGT
1 TAAATAATTAAAATATATATTAAAATTATATTTA-GT
815043 TAAATAAT
1 TAAATAAT
815051 AATTAAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
32 6 0.16
33 8 0.21
34 16 0.42
36 8 0.21
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (36 bp):
TAAATAATTAAAATATATATTAAAATTATATTTAGT
Found at i:815723 original size:8 final size:8
Alignment explanation
Indices: 815710--815825 Score: 53
Period size: 8 Copynumber: 13.6 Consensus size: 8
815700 TACAAAAGTA
815710 ATATAAAT
1 ATATAAAT
815718 ATATAAA-
1 ATATAAAT
815725 ATATTAAA-
1 ATA-TAAAT
*
815733 ATATATAT
1 ATATAAAT
815741 AATATAAAT
1 -ATATAAAT
*
815750 -TATTAATTT
1 ATA-TAA-AT
815759 ATATAAA-
1 ATATAAAT
815766 ATTATAAAAT
1 A-TAT-AAAT
815776 ATAATAAAAT
1 AT-AT-AAAT
815786 ATATTAATAT
1 ATA-TAA-AT
*
815796 GATATTAAT
1 -ATATAAAT
815805 ATATAAAT
1 ATATAAAT
815813 -TATTAAAT
1 ATA-TAAAT
*
815821 TTATA
1 ATATA
815826 CATGATAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 30
0.71 0.05 0.24
Matches are distributed among these distances:
7 11 0.13
8 34 0.39
9 22 0.25
10 17 0.20
11 3 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (8 bp):
ATATAAAT
Found at i:815734 original size:17 final size:17
Alignment explanation
Indices: 815714--815819 Score: 69
Period size: 17 Copynumber: 6.1 Consensus size: 17
815704 AAAGTAATAT
815714 AAATATATAAAATATTA
1 AAATATATAAAATATTA
*
815731 AAATATATATAATA-TA
1 AAATATATAAAATATTA
* **
815747 AATTAT-TAATTTATATA
1 AAATATATAAAATAT-TA
815764 AAAT-TATAAAATATAATA
1 AAATATATAAAATAT--TA
815782 AAATATATTAATATGATATT-
1 AAATATA-TAA-A--ATATTA
*
815802 -AATATATAAATTATTA
1 AAATATATAAAATATTA
815818 AA
1 AA
815820 TTTATACATG
Statistics
Matches: 69, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
15 8 0.12
16 8 0.12
17 26 0.38
18 10 0.14
19 8 0.12
20 3 0.04
21 2 0.03
23 4 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (17 bp):
AAATATATAAAATATTA
Found at i:815744 original size:32 final size:32
Alignment explanation
Indices: 815708--815807 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 32
815698 AATACAAAAG
*
815708 TAATATAAATATATAAAATATTAAAATATATA
1 TAATATAAATATATAATATATTAAAATATATA
*
815740 TAATATAAAT-TATTAATTTATATAAAAT-TATA
1 TAATATAAATATA-TAATATAT-TAAAATATATA
* *
815772 AAATAT-AATA-A-AATATATTAATATGATAT-
1 TAATATAAATATATAATATATTAAAAT-ATATA
815801 TAATATA
1 TAATATA
815808 TAAATTATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
28 5 0.09
29 11 0.20
30 3 0.05
31 6 0.11
32 25 0.45
33 6 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (32 bp):
TAATATAAATATATAATATATTAAAATATATA
Found at i:815769 original size:18 final size:18
Alignment explanation
Indices: 815735--815800 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 18
815725 ATATTAAAAT
815735 ATATATAATATAAATTATTA
1 ATATAT-ATA-AAATTATTA
*
815755 ATTTATATAAAATTA-TA
1 ATATATATAAAATTATTA
*
815772 AAATATAATAAAATATATTA
1 ATATAT-ATAAAAT-TATTA
815792 ATATGATAT
1 ATAT-ATAT
815801 TAATATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 6 0.16
18 13 0.34
19 5 0.13
20 12 0.32
21 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATATATAAAATTATTA
Found at i:815960 original size:18 final size:19
Alignment explanation
Indices: 815926--815961 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
815916 AGTTTATATA
*
815926 TATTTAATATTTATATTTT
1 TATTTAATATATATATTTT
815945 TATTTAA-ATATATATTT
1 TATTTAATATATATATTT
815962 AATAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTAATATATATATTTT
Found at i:816301 original size:165 final size:166
Alignment explanation
Indices: 816029--816359 Score: 576
Period size: 165 Copynumber: 2.0 Consensus size: 166
816019 ACTTTAACCT
*
816029 AACTGTCATGAAGCCTAATTGGGAGCCTAATTTCAAGATGAAGAACCGAACAAGCTGGTTTCTTT
1 AACTGTCATGAAGCCTAATTGGGAGCCTAATTTCAACATGAAGAACCGAACAAGCTGGTTTCTTT
*
816094 CAAAACAATCTTCTCTTAGAAGATTGAATATAGGACAAGACAGTCGATTGGGT-GTGTTTGAAAC
66 CAAAACAATCTTCTCTGAGAAGATTGAATATAGGACAAGACAGTCGATTGGGTGGTGTTTGAAAC
*
816158 CTAATTCTAGTTTACGGCCACCATTGAACCTAATCC
131 CTAATTCTAGTTTACGGCCACAATTGAACCTAATCC
* *
816194 AACTGTCATGAGGCCTAATTGGGAGCCTACTTTCAACATGAAGAACCGAACAAGCTGGTTTCTTT
1 AACTGTCATGAAGCCTAATTGGGAGCCTAATTTCAACATGAAGAACCGAACAAGCTGGTTTCTTT
*
816259 CAAAACAATCTTCTCGTGA-AAGATTGAATATAGGACAAGACAGTCGATTGGGTGGTGTTTGAAG
66 CAAAACAATCTTCTC-TGAGAAGATTGAATATAGGACAAGACAGTCGATTGGGTGGTGTTTGAAA
*
816323 CCTAATTCTAGTTTACGGCTACAATTGAACCTAATCC
130 CCTAATTCTAGTTTACGGCCACAATTGAACCTAATCC
816360 TTGGTCTTGT
Statistics
Matches: 157, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
165 111 0.71
166 46 0.29
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (166 bp):
AACTGTCATGAAGCCTAATTGGGAGCCTAATTTCAACATGAAGAACCGAACAAGCTGGTTTCTTT
CAAAACAATCTTCTCTGAGAAGATTGAATATAGGACAAGACAGTCGATTGGGTGGTGTTTGAAAC
CTAATTCTAGTTTACGGCCACAATTGAACCTAATCC
Found at i:816503 original size:22 final size:24
Alignment explanation
Indices: 816478--816523 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
816468 AATATTAATT
816478 TTTTTA-GATTTTAAAA-AATTTA
1 TTTTTATGATTTTAAAATAATTTA
*
816500 -TTTTATTATTTTAAAATAATTTA
1 TTTTTATGATTTTAAAATAATTTA
816523 T
1 T
816524 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTTATGATTTTAAAATAATTTA
Found at i:816503 original size:23 final size:23
Alignment explanation
Indices: 816464--816523 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
816454 AGGAAAGAGA
*
816464 TTTAAATATTAATTT-TTTTA-GAT
1 TTTAAA-A-TAATTTATTTTATTAT
816487 TTTAAAA-AATTTATTTTATTAT
1 TTTAAAATAATTTATTTTATTAT
816509 TTTAAAATAATTTAT
1 TTTAAAATAATTTAT
816524 ATTAATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 10 0.30
23 13 0.39
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAAATAATTTATTTTATTAT
Found at i:816515 original size:20 final size:22
Alignment explanation
Indices: 816492--816541 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
816482 TAGATTTTAA
816492 AAAATTTATTT-TATT-ATTTT
1 AAAATTTATTTATATTAATTTT
*
816512 AAAA-TAATTTATATTAATTTT
1 AAAATTTATTTATATTAATTTT
*
816533 AATATTTAT
1 AAAATTTAT
816542 AGATTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 8 0.33
22 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAAATTTATTTATATTAATTTT
Found at i:818870 original size:14 final size:15
Alignment explanation
Indices: 818853--818889 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
818843 TATATAAATT
818853 ATATAATATT-TTAA
1 ATATAATATTATTAA
*
818867 ATATAATTTTATTAA
1 ATATAATATTATTAA
818882 A-ATAATAT
1 ATATAATAT
818890 AAATATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATAATATTATTAA
Found at i:821334 original size:11 final size:11
Alignment explanation
Indices: 821318--821358 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
821308 TTCAAACTGG
821318 TAAAAAATCAA
1 TAAAAAATCAA
821329 TAAAAAATCAA
1 TAAAAAATCAA
*
821340 -AAAAAAT-TA
1 TAAAAAATCAA
821349 T-AAAAATCAA
1 TAAAAAATCAA
821359 AACTTATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 7 0.27
10 8 0.31
11 11 0.42
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (11 bp):
TAAAAAATCAA
Found at i:821454 original size:19 final size:18
Alignment explanation
Indices: 821432--821484 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
821422 TTAAATTTTA
821432 TAATAAATATTATATCATT
1 TAATAAATATTATATC-TT
*
821451 TAATAAA-ATACATATCTT
1 TAATAAATAT-TATATCTT
*
821469 TATTAAATATTTATAT
1 TAATAAATA-TTATAT
821485 AATATTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.36
19 17 0.61
20 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATAAATATTATATCTT
Found at i:821534 original size:20 final size:19
Alignment explanation
Indices: 821489--821536 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
821479 TTATATAATA
*
821489 TTTATTTATTATTAAAATT
1 TTTATTTAATATTAAAATT
* * *
821508 ATAATTTAATATTTAAATTT
1 TTTATTTAATA-TTAAAATT
821528 TTTATTTAA
1 TTTATTTAA
821537 ATACAATCAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATTTAATATTAAAATT
Found at i:822433 original size:22 final size:23
Alignment explanation
Indices: 822392--822438 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
822382 AATGACTAAT
822392 AATTATTTTTAGAAAATAAA-AA
1 AATTATTTTTAGAAAATAAAGAA
822414 AATTA-TTTTA-AAAATTTAAAGAA
1 AATTATTTTTAGAAAA--TAAAGAA
822437 AA
1 AA
822439 AAATTCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.18
21 5 0.23
22 9 0.41
23 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AATTATTTTTAGAAAATAAAGAA
Found at i:823413 original size:2 final size:2
Alignment explanation
Indices: 823406--823438 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
823396 AATGATGCAC
823406 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
823439 TTCTTTCAAA
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:824133 original size:12 final size:12
Alignment explanation
Indices: 824118--824167 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
824108 ATTTTAAAAA
824118 TTATATTAATAT
1 TTATATTAATAT
*
824130 TTATA-T-ATTT
1 TTATATTAATAT
824140 TTATAATTAA-AT
1 TTAT-ATTAATAT
*
824152 TTATATTAAAAT
1 TTATATTAATAT
824164 TTAT
1 TTAT
824168 TTTTATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 7 0.22
11 7 0.22
12 17 0.53
13 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATATTAATAT
Found at i:824565 original size:17 final size:17
Alignment explanation
Indices: 824543--824577 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
824533 AAATATCTTT
824543 TTTTATTT-TTATTTTTA
1 TTTTATTTATT-TTTTTA
824560 TTTTATTTATTTTTTTA
1 TTTTATTTATTTTTTTA
824577 T
1 T
824578 GCGTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTATTTATTTTTTTA
Found at i:827468 original size:30 final size:30
Alignment explanation
Indices: 827423--827502 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
827413 AATAATATGC
*
827423 ATATTTATA-TAATTTTATATA-TTATAAT
1 ATATTAATATTAATTTTATATATTTATAAT
*
827451 ATATTAATAATTAATTTTATATATTTATATT
1 ATATTAAT-ATTAATTTTATATATTTATAAT
* *
827482 ATATTTATATAAATTTTATAT
1 ATATTAATATTAATTTTATAT
827503 TATATTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 7 0.16
29 1 0.02
30 24 0.53
31 13 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
ATATTAATATTAATTTTATATATTTATAAT
Found at i:827472 original size:20 final size:19
Alignment explanation
Indices: 827423--827513 Score: 59
Period size: 19 Copynumber: 4.8 Consensus size: 19
827413 AATAATATGC
*
827423 ATATTTATATAATT-TTA-T
1 ATATTTATAT-ATTAATATT
827441 ATATTATAATATATTAATAATT
1 ATATT-T-ATATATTAAT-ATT
*
827463 A-ATTTTATATATTTATATT
1 ATA-TTTATATATTAATATT
*
827482 ATATTTATATA--AATTTT
1 ATATTTATATATTAATATT
*
827499 ATA-TTATATTTTAAT
1 ATATTTATATATTAAT
827514 TTTTTTACAT
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
16 6 0.10
17 7 0.12
18 8 0.14
19 16 0.27
20 15 0.25
21 3 0.05
22 4 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTATATATTAATATT
Found at i:827515 original size:28 final size:28
Alignment explanation
Indices: 827425--827515 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
827415 TAATATGCAT
* * *
827425 ATTTATATAATTTTATATATTATAATAT-
1 ATTTATATAAATTT-TATATTATATTTTA
* * * *
827453 ATTAATAATTAATTTTATATATTTATATTA
1 ATTTAT-ATAAATTTTATAT-TATATTTTA
827483 TATTTATATAAATTTTATATTATATTTTA
1 -ATTTATATAAATTTTATATTATATTTTA
827512 ATTT
1 ATTT
827516 TTTTACATCA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
28 14 0.29
29 17 0.35
30 12 0.25
31 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTATATAAATTTTATATTATATTTTA
Found at i:828193 original size:19 final size:19
Alignment explanation
Indices: 828169--828207 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
828159 AATATTTTTT
828169 AAATAAATAAAT-TAAATAA
1 AAATAAA-AAATATAAATAA
*
828188 AAATAAAAATTATAAATAA
1 AAATAAAAAATATAAATAA
828207 A
1 A
828208 TTAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAAAAATATAAATAA
Found at i:828214 original size:18 final size:19
Alignment explanation
Indices: 828181--828216 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
828171 ATAAATAAAT
828181 TAAATAAAAATAAAAATTA
1 TAAATAAAAATAAAAATTA
*
828200 TAAAT-AAATTAAAAATT
1 TAAATAAAAATAAAAATT
828217 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATAAAAATAAAAATTA
Found at i:833472 original size:21 final size:21
Alignment explanation
Indices: 833440--833481 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
833430 CAAAAACACG
*
833440 TTTTATTATATTTATATATTT
1 TTTTATTATATTAATATATTT
*
833461 TTTTATGT-TATTAATTTATTT
1 TTTTAT-TATATTAATATATTT
833482 AAAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTATTATATTAATATATTT
Found at i:833541 original size:22 final size:22
Alignment explanation
Indices: 833505--833562 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
833495 TTATATACAT
*
833505 TATAATATATTAATA-ATTTATA
1 TATAA-ATATTAAAATATTTATA
*
833527 T-TAAATTTTAAAATATTTATA
1 TATAAATATTAAAATATTTATA
*
833548 TATTAATATTAAAAT
1 TATAAATATTAAAAT
833563 TATATTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.23
21 11 0.37
22 12 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATAAATATTAAAATATTTATA
Found at i:833928 original size:11 final size:10
Alignment explanation
Indices: 833911--833952 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
833901 AATATTAATT
833911 TAATTAAAAA
1 TAATTAAAAA
833921 TAATTTAAAATA
1 TAA-TTAAAA-A
*
833933 AAATTAAAAA
1 TAATTAAAAA
833943 T-ATTAAAAA
1 TAATTAAAAA
833952 T
1 T
833953 TTTATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 9 0.32
10 4 0.14
11 12 0.43
12 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAATTAAAAA
Found at i:833940 original size:22 final size:21
Alignment explanation
Indices: 833912--833952 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
833902 ATATTAATTT
*
833912 AATTAAAAATAATTTAAAATAA
1 AATTAAAAAT-ATTAAAAATAA
833934 AATTAAAAATATTAAAAAT
1 AATTAAAAATATTAAAAAT
833953 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AATTAAAAATATTAAAAATAA
Found at i:834096 original size:16 final size:16
Alignment explanation
Indices: 834039--834097 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
834029 ATAAATTATT
*
834039 TTTTATTTTTT-AATA
1 TTTTATTTTTTAAAAA
*
834054 TATTATTTTTTAAAAA
1 TTTTATTTTTTAAAAA
* * *
834070 ATTAATATTTTAAAAA
1 TTTTATTTTTTAAAAA
834086 TTTTATTTTTTA
1 TTTTATTTTTTA
834098 TGATGTGATA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
15 10 0.29
16 24 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATTTTTTAAAAA
Found at i:834390 original size:11 final size:11
Alignment explanation
Indices: 834346--834402 Score: 61
Period size: 10 Copynumber: 5.5 Consensus size: 11
834336 TATAATTTAA
834346 TATATTAT-TT
1 TATATTATATT
834356 TA-ATTATATT
1 TATATTATATT
*
834366 TA-AATATA-T
1 TATATTATATT
834375 TATATTATATT
1 TATATTATATT
834386 TATATTAT-TT
1 TATATTATATT
834396 TCATATT
1 T-ATATT
834403 TAAATTCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.20
10 19 0.46
11 14 0.34
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTATATT
Found at i:834864 original size:16 final size:17
Alignment explanation
Indices: 834838--834880 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
834828 TATTATTAAA
834838 TAAAATAATTAATT-TAT
1 TAAAAT-ATTAATTATAT
834855 TAAAATATTAATTATAT
1 TAAAATATTAATTATAT
834872 TAAAA-ATTA
1 TAAAATATTA
834881 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATATTAATTATAT
Found at i:834884 original size:9 final size:9
Alignment explanation
Indices: 834872--834900 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
834862 TTAATTATAT
834872 TAAAAATTA
1 TAAAAATTA
834881 TAAAAATTA
1 TAAAAATTA
834890 T-AAAATTA
1 TAAAAATTA
834898 TAA
1 TAA
834901 TTTTTTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:835176 original size:18 final size:20
Alignment explanation
Indices: 835154--835200 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
835144 AAAATATTTT
* *
835154 TATATTTTTATAATTAATAA
1 TATATTTTAATAATAAATAA
835174 TATAATTTTAATAATAAATAA
1 TAT-ATTTTAATAATAAATAA
835195 TA-ATTT
1 TATATTT
835201 AAATTTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 3 0.12
21 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATTTTAATAATAAATAA
Found at i:835187 original size:21 final size:21
Alignment explanation
Indices: 835157--835196 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
835147 ATATTTTTAT
* *
835157 ATTTTTATAATTAATAATATA
1 ATTTTAATAATAAATAATATA
835178 ATTTTAATAATAAATAATA
1 ATTTTAATAATAAATAATA
835197 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTAATAATAAATAATATA
Found at i:837307 original size:21 final size:21
Alignment explanation
Indices: 837283--837326 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
837273 TTATTTTATT
*
837283 TATA-TTTATCTTAATTTATCA
1 TATATTTTATATT-ATTTATCA
837304 TATATTTTATATTATTTATCA
1 TATATTTTATATTATTTATCA
837325 TA
1 TA
837327 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTTTATATTATTTATCA
Found at i:837334 original size:22 final size:22
Alignment explanation
Indices: 837286--837334 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
837276 TTTTATTTAT
*
837286 ATTTATCTTAATTTATCATATA
1 ATTTATATTAATTTATCATATA
*
837308 TTTTATATT-ATTTATCATAATA
1 ATTTATATTAATTTATCAT-ATA
837330 ATTTA
1 ATTTA
837335 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTATATTAATTTATCATATA
Found at i:841253 original size:25 final size:24
Alignment explanation
Indices: 841211--841258 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
841201 ATTTAAATTA
841211 TTATTTAATTAATAAAAAATATTT
1 TTATTTAATTAATAAAAAATATTT
841235 TTATTTAAATTTAAT-AAAAATATT
1 TTATTT-AA-TTAATAAAAAATATT
841259 AATATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.27
25 11 0.50
26 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTATTTAATTAATAAAAAATATTT
Found at i:842505 original size:10 final size:9
Alignment explanation
Indices: 842459--842531 Score: 53
Period size: 9 Copynumber: 7.9 Consensus size: 9
842449 CTCATCTCTC
842459 TTTTA-ATA
1 TTTTATATA
842467 -TTTATATA
1 TTTTATATA
842475 TTTT-TATCA
1 TTTTATAT-A
842484 TATTTATATA
1 T-TTTATATA
842494 TTTTATTATA
1 TTTTA-TATA
*
842504 TTATAATCATA
1 TT-TTAT-ATA
* *
842515 TTTAAAATA
1 TTTTATATA
842524 TTTTATAT
1 TTTTATAT
842532 TTAAATTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
7 4 0.08
8 6 0.11
9 18 0.34
10 15 0.28
11 10 0.19
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTATATA
Found at i:842507 original size:17 final size:18
Alignment explanation
Indices: 842459--842508 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
842449 CTCATCTCTC
*
842459 TTTTAATAT-TTATATAT
1 TTTTATTATATTATATAT
*
842476 TTTTATCATATT-TATAT
1 TTTTATTATATTATATAT
842493 ATTTTATTATATTATA
1 -TTTTATTATATTATA
842509 ATCATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 12 0.44
18 13 0.48
19 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATTATATTATATAT
Found at i:842517 original size:21 final size:18
Alignment explanation
Indices: 842464--842505 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
842454 CTCTCTTTTA
842464 ATATTTATATATTTTTATC
1 ATATTTATATA-TTTTATC
*
842483 ATATTTATATATTTTATT
1 ATATTTATATATTTTATC
842501 ATATT
1 ATATT
842506 ATAATCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTTATATATTTTATC
Found at i:845923 original size:2 final size:2
Alignment explanation
Indices: 845918--845947 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
845908 CAATTCCACC
*
845918 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
845948 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:846993 original size:14 final size:15
Alignment explanation
Indices: 846969--846997 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
846959 TTTGCTTTCC
846969 TGCATCCAAAAATTT
1 TGCATCCAAAAATTT
846984 TGCA-CCAAAAATTT
1 TGCATCCAAAAATTT
846998 AGCTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (15 bp):
TGCATCCAAAAATTT
Found at i:848555 original size:8 final size:8
Alignment explanation
Indices: 848542--848566 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
848532 GTTATTTTTC
848542 AAAATATT
1 AAAATATT
848550 AAAATATT
1 AAAATATT
848558 AAAATATT
1 AAAATATT
848566 A
1 A
848567 TTTTTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATATT
Found at i:854972 original size:4 final size:4
Alignment explanation
Indices: 854963--854987 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
854953 CCTTGTTCCC
854963 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
854988 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:855956 original size:18 final size:18
Alignment explanation
Indices: 855933--855975 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
855923 GTTTTTATTT
855933 AATATATTATTA-TATATA
1 AATATATTATTATTA-ATA
855951 AATATA-TATTATTAATA
1 AATATATTATTATTAATA
855968 AATTATAT
1 AA-TATAT
855976 AAAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATATTATTATTAATA
Found at i:855976 original size:18 final size:20
Alignment explanation
Indices: 855934--855976 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
855924 TTTTTATTTA
855934 ATATATTATTATATATAAAT
1 ATATATTATTATATATAAAT
*
855954 ATATATTATTA-ATA-AATT
1 ATATATTATTATATATAAAT
855972 ATATA
1 ATATA
855977 AAAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATATTATTATATATAAAT
Found at i:855978 original size:26 final size:25
Alignment explanation
Indices: 855945--856022 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
855935 TATATTATTA
855945 TATATAAATATATATTATTAATAAAT
1 TATATAAA-ATATATTATTAATAAAT
* *
855971 TATATAAAAAATTTTATTAATAAAT
1 TATATAAAATATATTATTAATAAAT
* *
855996 T-TAAAAAATA-AATATTAAT-AAT
1 TATATAAAATATATTATTAATAAAT
856018 TATAT
1 TATAT
856023 TTTTTTAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.09
23 9 0.20
24 7 0.16
25 16 0.36
26 8 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATAAAATATATTATTAATAAAT
Found at i:855997 original size:13 final size:13
Alignment explanation
Indices: 855959--855997 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
855949 TAAATATATA
855959 TTATTAATAAATT
1 TTATTAATAAATT
* *
855972 ATA-TAAAAAATT
1 TTATTAATAAATT
855984 TTATTAATAAATT
1 TTATTAATAAATT
855997 T
1 T
855998 AAAAAATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTATTAATAAATT
Found at i:856846 original size:28 final size:29
Alignment explanation
Indices: 856798--856865 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
856788 TTTTAGTTGA
* *
856798 TTTTTTAACTATTCACTAAAT-GATAAAT
1 TTTTTTAATTATTCACTAAATAAATAAAT
*
856826 TTTTTTAATTATTCA-TCAAATAAATAGAT
1 TTTTTTAATTATTCACT-AAATAAATAAAT
856855 TTTTTT-ATTAT
1 TTTTTTAATTAT
856866 CAATTAAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.03
28 23 0.66
29 11 0.31
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (29 bp):
TTTTTTAATTATTCACTAAATAAATAAAT
Found at i:858196 original size:13 final size:15
Alignment explanation
Indices: 858166--858209 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
858156 TATAAAAAAT
858166 AATTATAAATATTAA
1 AATTATAAATATTAA
*
858181 AATTA-AAATTTTAA
1 AATTATAAATATTAA
*
858195 ATTTATTAAATATTA
1 AATTA-TAAATATTA
858210 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.50
15 5 0.21
16 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTATAAATATTAA
Found at i:858653 original size:15 final size:15
Alignment explanation
Indices: 858629--858659 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
858619 AGATATGAAT
858629 TAAAAATAAAATTAA
1 TAAAAATAAAATTAA
*
858644 TAAAACTAAAATTAA
1 TAAAAATAAAATTAA
858659 T
1 T
858660 TGGTTTCGTT
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATAAAATTAA
Found at i:859715 original size:11 final size:12
Alignment explanation
Indices: 859712--859741 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
859702 ATTTAATATT
859712 TATTATATTTAA
1 TATTATATTTAA
859724 TATT-TATTTAA
1 TATTATATTTAA
859735 TATTATA
1 TATTATA
859742 ATTACTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATATTTAA
Found at i:859722 original size:16 final size:16
Alignment explanation
Indices: 859701--859731 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
859691 CACATATTTT
859701 TATTTAATATTTATTA
1 TATTTAATATTTATTA
859717 TATTTAATATTTATT
1 TATTTAATATTTATT
859732 TAATATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTAATATTTATTA
Found at i:859731 original size:20 final size:21
Alignment explanation
Indices: 859708--859761 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
859698 TTTTATTTAA
*
859708 TATTTATTATATTTAA-TATT
1 TATTTATTATATTTAATTACT
859728 TATTTA--ATATTATAATTACT
1 TATTTATTATATT-TAATTACT
859748 TA-TT-TTATATTTAA
1 TATTTATTATATTTAA
859762 ATTCTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
18 5 0.17
19 8 0.28
20 16 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTATTATATTTAATTACT
Found at i:859758 original size:27 final size:26
Alignment explanation
Indices: 859695--859761 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
859685 ACCAAACACA
* *
859695 TATTTTTATTTAATATTTATTATATT
1 TATTTTTATTTAATATTTAATATACT
*
859721 TAATATTTATTTAATATTATAAT-TACT
1 T-ATTTTTATTTAATATT-TAATATACT
859748 TATTTTATATTTAA
1 TATTTT-TATTTAA
859762 ATTCTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.15
27 26 0.76
28 3 0.09
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTTTTATTTAATATTTAATATACT
Found at i:859764 original size:20 final size:20
Alignment explanation
Indices: 859714--859772 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
859704 TTAATATTTA
*
859714 TTATATTT-AA-TATTTATT
1 TTATATTTAAATTACTTATT
*
859732 TAATA-TTATAATTACTTATT
1 TTATATTTA-AATTACTTATT
859752 TTATATTTAAATT-CTT-TT
1 TTATATTTAAATTACTTATT
859770 TTA
1 TTA
859773 ATTAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 2 0.06
18 9 0.26
19 5 0.15
20 15 0.44
21 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATATTTAAATTACTTATT
Found at i:861383 original size:2 final size:2
Alignment explanation
Indices: 861378--861403 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
861368 GAGAGGATAC
861378 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
861404 TAATTATATT
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:861515 original size:13 final size:12
Alignment explanation
Indices: 861495--861529 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
861485 ATATAAATAA
861495 TATTTTTAAATT
1 TATTTTTAAATT
*
861507 TTTTATTTAAATT
1 TATT-TTTAAATT
861520 TATTTTTAAA
1 TATTTTTAAA
861530 AGAGTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTTTAAATT
Found at i:861637 original size:21 final size:20
Alignment explanation
Indices: 861605--861647 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
861595 ATAATTAAAT
**
861605 TTAAATAAAATTTTTATTAA
1 TTAAATAAAATTTAAATTAA
861625 TTAAATAATAATTTAAATTAA
1 TTAAATAA-AATTTAAATTAA
861646 TT
1 TT
861648 TAATTTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATAAAATTTAAATTAA
Found at i:861653 original size:15 final size:15
Alignment explanation
Indices: 861597--861665 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 15
861587 ATATTTTTAT
*
861597 AATTAAATTTAAATAA
1 AATT-AATTTAAATTA
861613 AATT--TTTATTAATTA
1 AATTAATTTA--AATTA
861628 AATAATAATTTAAATTA
1 AAT--TAATTTAAATTA
* *
861645 ATTTAATTTAACTTA
1 AATTAATTTAAATTA
861660 AATTAA
1 AATTAA
861666 ATCAAATCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
13 4 0.09
15 23 0.53
16 4 0.09
17 8 0.19
19 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAATTTAAATTA
Found at i:861655 original size:10 final size:10
Alignment explanation
Indices: 861592--861665 Score: 51
Period size: 10 Copynumber: 7.0 Consensus size: 10
861582 TTTATATATT
861592 TTTATAATTAAA
1 TTTA-AATT-AA
*
861604 TTTAAATAAAA
1 TTTAAAT-TAA
**
861615 TTTTTATTAA
1 TTTAAATTAA
861625 -TTAAATAATAA
1 TTTAAAT--TAA
861636 TTTAAATTAA
1 TTTAAATTAA
*
861646 TTTAATTTAA
1 TTTAAATTAA
*
861656 CTTAAATTAA
1 TTTAAATTAA
861666 ATCAAATCTG
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
9 4 0.08
10 22 0.45
11 13 0.27
12 10 0.20
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (10 bp):
TTTAAATTAA
Found at i:862424 original size:24 final size:24
Alignment explanation
Indices: 862369--862425 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
862359 TGACATCTTT
* *
862369 TATTTTTATAAAATTCACTTAATA
1 TATTTTTATAAAATTCAATTAACA
* *
862393 AATATTTATAAATATT-AATTAACA
1 TATTTTTATAAA-ATTCAATTAACA
862417 TATTTTTAT
1 TATTTTTAT
862426 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTTTTATAAAATTCAATTAACA
Found at i:862465 original size:18 final size:19
Alignment explanation
Indices: 862435--862470 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
862425 TTTTTTAAAA
862435 TATTTTATATAAAATTAAT
1 TATTTTATATAAAATTAAT
862454 TATTTT-TATAAAATTAA
1 TATTTTATATAAAATTAA
862471 AAATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTATATAAAATTAAT
Found at i:863214 original size:17 final size:17
Alignment explanation
Indices: 863194--863227 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
863184 AATTTTTATG
*
863194 TTTTTATCAATTAAAAT
1 TTTTTATCAATGAAAAT
*
863211 TTTTTATTAATGAAAAT
1 TTTTTATCAATGAAAAT
863228 CATAACTGTT
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:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTTATCAATGAAAAT
Found at i:866018 original size:2 final size:2
Alignment explanation
Indices: 866011--866058 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
866001 AAGCCGTTGA
*
866011 AT AT AT AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
866051 AT AT AT AT
1 AT AT AT AT
866059 GCCTTGCAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:868035 original size:20 final size:20
Alignment explanation
Indices: 868010--868048 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
868000 TTAAAATGTA
868010 TATTTTTATCATATAATTAC
1 TATTTTTATCATATAATTAC
*
868030 TATTTTTATTATATAATTA
1 TATTTTTATCATATAATTA
868049 TTTAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTTATCATATAATTAC
Found at i:868492 original size:21 final size:21
Alignment explanation
Indices: 868442--868493 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
868432 AATTTTACAA
868442 TTAAATTTAAATAAAAATTAAT
1 TTAAA-TTAAATAAAAATTAAT
** *
868464 TTTTATTAGATAAATAA-TAAT
1 TTAAATTAAATAAA-AATTAAT
868485 TTAAATTAA
1 TTAAATTAA
868494 GTTAAACAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAATTAAATAAAAATTAAT
Found at i:868844 original size:27 final size:28
Alignment explanation
Indices: 868793--868846 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
868783 TTGTAAGTAG
*
868793 AATTATTAATTTTGATTTAAGTTTAAAA
1 AATTATTAATTTTGATTTAAATTTAAAA
868821 AATTAATTAA-TTT-ATTTAAATTTAAA
1 AATT-ATTAATTTTGATTTAAATTTAAA
868847 TTTGATTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 12 0.50
28 7 0.29
29 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
AATTATTAATTTTGATTTAAATTTAAAA
Found at i:869018 original size:16 final size:16
Alignment explanation
Indices: 868997--869043 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
868987 AATTCAATTA
868997 ATTTAAATATAAAATG
1 ATTTAAATATAAAATG
869013 ATTTAAA-ATTAAAATG
1 ATTTAAATA-TAAAATG
* * *
869029 AATCAAATAAAAAAT
1 ATTTAAATATAAAAT
869044 AACATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (16 bp):
ATTTAAATATAAAATG
Found at i:870066 original size:27 final size:26
Alignment explanation
Indices: 870030--870090 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
870020 TGAATAATTT
*
870030 ATTTAATTTTAATTATATTAAGTTAA
1 ATTTAATTTTAATTATAATAAGTTAA
* * *
870056 ATTTAAATTTTTATTTTAATAATTTAA
1 ATTT-AATTTTAATTATAATAAGTTAA
870083 A-TTAATTT
1 ATTTAATTT
870091 ATTTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.17
26 6 0.20
27 19 0.63
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTTAATTTTAATTATAATAAGTTAA
Found at i:870095 original size:27 final size:28
Alignment explanation
Indices: 870024--870095 Score: 65
Period size: 33 Copynumber: 2.4 Consensus size: 28
870014 AAAAATTGAA
* *
870024 TAATTTATTTAATTTTAATTATATTAAGT
1 TAATTTATTT-ATTTTAATAATATTAAAT
870053 TAAATTTAAATTTTTATTTTAATAAT-TTAAAT
1 T-AATTT--A--TTTATTTTAATAATATTAAAT
870085 TAATTTATTTA
1 TAATTTATTTA
870096 AATTTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
27 4 0.11
29 2 0.06
30 5 0.14
31 5 0.14
32 7 0.19
33 10 0.28
34 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (28 bp):
TAATTTATTTATTTTAATAATATTAAAT
Found at i:870171 original size:17 final size:18
Alignment explanation
Indices: 870131--870196 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 18
870121 GTAATAATTT
*
870131 AAATTTATAAATTAAATT
1 AAATTTATAAATTAAATA
* *
870149 ATATTTA-AATTTAAATA
1 AAATTTATAAATTAAATA
*
870166 AAATTTTTAAA--AAATA
1 AAATTTATAAATTAAATA
870182 AAA-TTAT-AATTAAAT
1 AAATTTATAAATTAAAT
870197 CTGATTTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 2 0.05
15 3 0.08
16 12 0.32
17 13 0.34
18 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTTATAAATTAAATA
Found at i:870196 original size:16 final size:17
Alignment explanation
Indices: 870131--870196 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 17
870121 GTAATAATTT
*
870131 AAATTTATAAATTAAATT
1 AAATTTAT-AATTAAATA
*
870149 ATATTTA-AATTTAAATA
1 AAATTTATAA-TTAAATA
* *
870166 AAATTTTTAA-AAAATA
1 AAATTTATAATTAAATA
870182 AAA-TTATAATTAAAT
1 AAATTTATAATTAAAT
870197 CTGATTTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
15 5 0.13
16 14 0.37
17 11 0.29
18 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTTATAATTAAATA
Found at i:870445 original size:13 final size:13
Alignment explanation
Indices: 870427--870468 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
870417 AGGTCATTCG
870427 ATTTAATAATTTA
1 ATTTAATAATTTA
*
870440 ATTTAATAAATTA
1 ATTTAATAATTTA
* *
870453 AATTAA-AATATA
1 ATTTAATAATTTA
870465 ATTT
1 ATTT
870469 TTTTAATCGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAATAATTTA
Found at i:871038 original size:20 final size:19
Alignment explanation
Indices: 871010--871062 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
871000 ACAATAATTT
871010 TAAAT-TTAATTATATAA-A
1 TAAATATTAA-TATATAACA
871028 TAAAATATTAAATATATAACA
1 T-AAATATT-AATATATAACA
871049 T-AATATTAATATAT
1 TAAATATTAATATAT
871063 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 8 0.26
19 10 0.32
20 9 0.29
21 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATATTAATATATAACA
Found at i:871115 original size:35 final size:37
Alignment explanation
Indices: 871076--871161 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 37
871066 TTAAAATTTA
*
871076 TATAAAAAATTATTAATGTATTA-AA-ATAA-AATAAT
1 TATAAAAAATTATTAATATATTATAATATAATAA-AAT
*
871111 TATAAAATATT-TTAAATATATTATAATATAATAAAAT
1 TATAAAAAATTATT-AATATATTATAATATAATAAAAT
*
871148 TAT-ACAAATTATTA
1 TATAAAAAATTATTA
871162 TATTTAGCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
34 2 0.05
35 18 0.43
36 8 0.19
37 12 0.29
38 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (37 bp):
TATAAAAAATTATTAATATATTATAATATAATAAAAT
Found at i:871343 original size:21 final size:21
Alignment explanation
Indices: 871314--871360 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
871304 GATAATAAAA
* *
871314 TATATTTTTATAATTTATAAT
1 TATAATTTTATAAATTATAAT
871335 TATAATTTTATAAATTATAAT
1 TATAATTTTATAAATTATAAT
871356 T-TAAT
1 TATAAT
871361 AATATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATAATTTTATAAATTATAAT
Found at i:871347 original size:8 final size:7
Alignment explanation
Indices: 871320--871378 Score: 57
Period size: 8 Copynumber: 8.0 Consensus size: 7
871310 AAAATATATT
871320 TTTATAA
1 TTTATAA
871327 TTTATAA
1 TTTATAA
871334 -TTATAA
1 TTTATAA
871340 TTTTATAA
1 -TTTATAA
*
871348 ATTATAA
1 TTTATAA
871355 TTTAATAA
1 TTT-ATAA
*
871363 TATATTAA
1 TTTA-TAA
871371 TTTTATAA
1 -TTTATAA
871379 AAATGAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
6 6 0.14
7 16 0.37
8 18 0.42
9 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTATAA
Found at i:871350 original size:15 final size:14
Alignment explanation
Indices: 871321--871378 Score: 73
Period size: 15 Copynumber: 4.0 Consensus size: 14
871311 AAATATATTT
871321 TTATAA-TTTATAA
1 TTATAATTTTATAA
871334 TTATAATTTTATAAA
1 TTATAATTTTAT-AA
*
871349 TTATAATTTAATAA
1 TTATAATTTTATAA
871363 TATATTAATTTTATAA
1 T-TA-TAATTTTATAA
871379 AAATGAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.15
14 8 0.21
15 15 0.38
16 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAATTTTATAA
Found at i:871375 original size:31 final size:28
Alignment explanation
Indices: 871321--871379 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 28
871311 AAATATATTT
871321 TTATAATTTATAATTATAATTTTATAAA
1 TTATAATTTATAATTATAATTTTATAAA
871349 TTATAATTTAATAATATATTAATTTTATAAA
1 TTATAATTT-ATAAT-TA-TAATTTTATAAA
871380 AATGAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.32
29 5 0.18
30 2 0.07
31 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATAATTTATAATTATAATTTTATAAA
Found at i:872578 original size:2 final size:2
Alignment explanation
Indices: 872571--872628 Score: 91
Period size: 2 Copynumber: 29.0 Consensus size: 2
872561 TATCATCGAA
*
872571 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT A- ACT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
872613 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
872629 GTATGGGTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 1 0.02
2 50 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:874720 original size:12 final size:12
Alignment explanation
Indices: 874703--874730 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
874693 ACATAGTCTT
874703 CTTATGTCCAAC
1 CTTATGTCCAAC
874715 CTTATGTCCAAC
1 CTTATGTCCAAC
874727 CTTA
1 CTTA
874731 AATGAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.36
Consensus pattern (12 bp):
CTTATGTCCAAC
Found at i:876554 original size:8 final size:8
Alignment explanation
Indices: 876537--876584 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
876527 AAAAATTTAA
876537 ATAT-AAT
1 ATATAAAT
876544 ATATAAAT
1 ATATAAAT
876552 ATATAAAT
1 ATATAAAT
876560 ATATTAAA-
1 ATA-TAAAT
876568 ATATAAAT
1 ATATAAAT
*
876576 TTA-AAAT
1 ATATAAAT
876583 AT
1 AT
876585 TAATATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 13 0.36
8 19 0.53
9 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:876575 original size:37 final size:37
Alignment explanation
Indices: 876528--876637 Score: 96
Period size: 37 Copynumber: 2.9 Consensus size: 37
876518 AATTTGATAA
*
876528 AAAATTTAAATATAATATATAAATATATAAATATATT
1 AAAATATAAATATAATATATAAATATATAAATATATT
* * * *
876565 AAAATATAAATTTAAAATATTAATATTTTAAATATAATT
1 AAAATATAAATATAATATATAAATA-TATAAATAT-ATT
* * * * * *
876604 ATAATAAAAATAAAATAAATACA-ATACAAATATA
1 AAAATATAAATATAATATATAAATATATAAATATA
876638 ATTATTAATT
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
36 1 0.02
37 28 0.50
38 9 0.16
39 18 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (37 bp):
AAAATATAAATATAATATATAAATATATAAATATATT
Found at i:876594 original size:16 final size:14
Alignment explanation
Indices: 876531--876602 Score: 76
Period size: 15 Copynumber: 5.0 Consensus size: 14
876521 TTGATAAAAA
876531 ATTT-AAATATAAT
1 ATTTAAAATATAAT
*
876544 ATATAAATATATAAAT
1 ATTTAAA-ATAT-AAT
876560 ATATTAAAATATAA-
1 AT-TTAAAATATAAT
876574 ATTTAAAATATTAAT
1 ATTTAAAATA-TAAT
*
876589 ATTTTAAATATAAT
1 ATTTAAAATATAAT
876603 TATAATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
13 11 0.22
14 11 0.22
15 15 0.30
16 9 0.18
17 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTAAAATATAAT
Found at i:877667 original size:14 final size:14
Alignment explanation
Indices: 877650--877696 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
877640 TAAGATTATC
877650 AATTTTTTAAAATT
1 AATTTTTTAAAATT
877664 AATTTTTTAAAAATT
1 AATTTTTT-AAAATT
* *
877679 TATTTTCTTAAATTT
1 AATTTT-TTAAAATT
877694 AAT
1 AAT
877697 ATTTAGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 8 0.29
15 18 0.64
16 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTTTAAAATT
Found at i:878717 original size:20 final size:20
Alignment explanation
Indices: 878681--878718 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
878671 TTTTATTAAA
*
878681 TATTTTTTTCATATTAAAAT
1 TATTTATTTCATATTAAAAT
878701 TATTTATTT-ATACTTAAA
1 TATTTATTTCATA-TTAAA
878719 TTTTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTATTTCATATTAAAAT
Found at i:878726 original size:20 final size:19
Alignment explanation
Indices: 878674--878726 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
878664 TATATATTTT
*
878674 TATTAAATATTTTT-TTCA
1 TATTAAATTTTTTTATTCA
* * *
878692 TATTAAAATTATTTATTTA
1 TATTAAATTTTTTTATTCA
878711 TACTTAAATTTTTTTA
1 TA-TTAAATTTTTTTA
878727 ATTAAACAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 11 0.41
19 5 0.19
20 11 0.41
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTAAATTTTTTTATTCA
Found at i:878952 original size:22 final size:23
Alignment explanation
Indices: 878909--878953 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
878899 TTTTATATTT
*
878909 TTATATTAATCATGTAATATATA
1 TTATATTAATCATGTAAAATATA
878932 TTAT-TTAAT-ATGTAAAAATATA
1 TTATATTAATCATGT-AAAATATA
878954 AATACAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TTATATTAATCATGTAAAATATA
Found at i:878978 original size:26 final size:27
Alignment explanation
Indices: 878908--878978 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
878898 ATTTTATATT
* * * *
878908 TTTATATTAATCATGTAATATATATTA
1 TTTATATTAAACATATAATATACAATA
*
878935 TTTAATATGTAAAAATATAA-ATACAATA
1 TTT-ATAT-TAAACATATAATATACAATA
878963 TTTATATTAAACATAT
1 TTTATATTAAACATAT
878979 TTTATTAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
26 8 0.22
27 7 0.19
28 13 0.36
29 8 0.22
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (27 bp):
TTTATATTAAACATATAATATACAATA
Found at i:879033 original size:18 final size:17
Alignment explanation
Indices: 879002--879036 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
878992 CTCAAATATG
879002 TTATTTTAATTTTATTA
1 TTATTTTAATTTTATTA
*
879019 TTATTTTTATATTTATTA
1 TTATTTTAAT-TTTATTA
879037 AATTTGATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTAATTTTATTA
Found at i:879251 original size:20 final size:20
Alignment explanation
Indices: 879228--879271 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
879218 TATTAATATA
*
879228 AAATAAT-TTTTAATATTTTT
1 AAATAATATTTTAA-ATTTAT
879248 AAATAATATTTTAAATTTAT
1 AAATAATATTTTAAATTTAT
879268 AAAT
1 AAAT
879272 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATAATATTTTAAATTTAT
Found at i:879292 original size:13 final size:12
Alignment explanation
Indices: 879245--879300 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
879235 TTTTAATATT
* *
879245 TTTAAATAATAT
1 TTTAAATAAAAA
*
879257 TTTAAATTTATAAA
1 TTTAAA--TAAAAA
879271 TTTAAATAAAAA
1 TTTAAATAAAAA
*
879283 TTTAAA-ATAAA
1 TTTAAATAAAAA
879294 TTTAAAT
1 TTTAAAT
879301 TATGACTCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 10 0.28
12 17 0.47
14 9 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAAATAAAAA
Found at i:879296 original size:11 final size:12
Alignment explanation
Indices: 879265--879300 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
879255 ATTTTAAATT
879265 TATAAATTTAAA
1 TATAAATTTAAA
*
879277 TAAAAATTTAAA
1 TATAAATTTAAA
879289 -ATAAATTTAAA
1 TATAAATTTAAA
879300 T
1 T
879301 TATGACTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TATAAATTTAAA
Found at i:879613 original size:18 final size:20
Alignment explanation
Indices: 879592--879628 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
879582 TTGTTTTGTG
879592 TTTTGTAT-TTTT-ATTAAT
1 TTTTGTATATTTTAATTAAT
879610 TTTTGTATATTTTAATTAA
1 TTTTGTATATTTTAATTAA
879629 GAATTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTGTATATTTTAATTAAT
Found at i:879727 original size:29 final size:29
Alignment explanation
Indices: 879665--879720 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
879655 TAGATAAAAA
* *
879665 ATTATATTTATATTATTTTTTTATATTAT
1 ATTATATTTATATTATTTTTATAAATTAT
879694 ATTATAGTTTA-ATTATTTTTATAAATT
1 ATTATA-TTTATATTATTTTTATAAATT
879721 TTTTTATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
ATTATATTTATATTATTTTTATAAATTAT
Found at i:880592 original size:40 final size:39
Alignment explanation
Indices: 880542--880647 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 39
880532 GGTGTTTGTG
*
880542 TTTTTTTATATATTTA-A-TATATTT-TTTTATATTAATTAA
1 TTTTTTTATATATTTATATTATATTTATATTAT-TT--TTAA
880581 TTTATTTTATATATTTATATTATATTTATATTATTTTTAA
1 TTT-TTTTATATATTTATATTATATTTATATTATTTTTAA
880621 TTTTTTTATATTATATTCATATTATAT
1 TTTTTTTATA-TAT-TT-ATATTATAT
880648 ATCAATATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
39 10 0.17
40 23 0.39
41 3 0.05
42 18 0.31
43 5 0.08
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (39 bp):
TTTTTTTATATATTTATATTATATTTATATTATTTTTAA
Found at i:880593 original size:31 final size:28
Alignment explanation
Indices: 880552--880649 Score: 94
Period size: 31 Copynumber: 3.4 Consensus size: 28
880542 TTTTTTTATA
*
880552 TATTTAATATATTTTTTTATATTAATTAATT
1 TATTTTATATATTTTTTTATATTAA-T-A-T
* *
880583 TATTTTATATATTTATATTATATTTATAT
1 TATTTTATATATTT-TTTTATATTAATAT
880612 TATTTT-TA-ATTTTTTTATATT-ATAT
1 TATTTTATATATTTTTTTATATTAATAT
*
880637 TCATATTATATAT
1 T-ATTTTATATAT
880650 CAATATATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
25 5 0.09
26 12 0.21
27 6 0.10
28 4 0.07
29 7 0.12
30 1 0.02
31 14 0.24
32 9 0.16
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTTATATATTTTTTTATATTAATAT
Found at i:880606 original size:11 final size:11
Alignment explanation
Indices: 880567--880664 Score: 81
Period size: 11 Copynumber: 9.7 Consensus size: 11
880557 AATATATTTT
880567 TTTATATTA-A
1 TTTATATTATA
880577 -TTA-ATT-TA
1 TTTATATTATA
880585 TTT-TA-TATA
1 TTTATATTATA
880594 TTTATATTATA
1 TTTATATTATA
*
880605 TTTATATTATT
1 TTTATATTATA
*
880616 TTTA-ATT-TT
1 TTTATATTATA
880625 TTTATATTATA
1 TTTATATTATA
*
880636 TTCATATTATA
1 TTTATATTATA
*
880647 --TATCAATATA
1 TTTAT-ATTATA
880657 TTTATATT
1 TTTATATT
880665 TTATATAATT
Statistics
Matches: 71, Mismatches: 6, Indels: 21
0.72 0.06 0.21
Matches are distributed among these distances:
8 5 0.07
9 19 0.27
10 13 0.18
11 31 0.44
12 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTATATTATA
Found at i:881219 original size:20 final size:20
Alignment explanation
Indices: 881191--881265 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
881181 TTTTACCTTG
881191 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
881211 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
881231 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
881251 ATGTATCGATACATT
1 ATGTATCGATACATT
881266 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:881258 original size:40 final size:39
Alignment explanation
Indices: 881191--881268 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
881181 TTTTACCTTG
* *
881191 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
881231 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
881269 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:884868 original size:7 final size:7
Alignment explanation
Indices: 884856--884881 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
884846 TGAGTTTCAT
884856 AATTTAA
1 AATTTAA
884863 AATTTAA
1 AATTTAA
884870 AATTTAA
1 AATTTAA
884877 AATTT
1 AATTT
884882 TAACTTTTAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTAA
Found at i:885255 original size:26 final size:24
Alignment explanation
Indices: 885211--885284 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
885201 ATTTAAATAA
885211 TTATTTAATTAATATAAAATATTT
1 TTATTTAATTAATATAAAATATTT
*
885235 TTATTTAAATTTAAT-TAAAA-ATAT
1 TTATTT-AA-TTAATATAAAATATTT
* *
885259 ATA-AT-ATTAATATAAAATAATTT
1 TTATTTAATTAATATAAAAT-ATTT
885282 TTA
1 TTA
885285 ATATTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 5 0.12
21 6 0.15
23 6 0.15
24 11 0.28
25 7 0.17
26 5 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTATTTAATTAATATAAAATATTT
Found at i:885295 original size:21 final size:21
Alignment explanation
Indices: 885273--885316 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
885263 TATTAATATA
*
885273 AAATAAT-TTTTAATATTTTT
1 AAATAATATTTTAAAATTTTT
885293 AAATAATATTTTAAAA-TTTT
1 AAATAATATTTTAAAATTTTT
885313 AAAT
1 AAAT
885317 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATAATATTTTAAAATTTTT
Done.