Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold158
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: 1811518
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:1515044 original size:2 final size:2
Alignment explanation
Indices: 1515037--1515071 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1515027 CAAACAGCTT
1515037 TA 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 TA T
1515072 TCAAGTACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1515495 original size:18 final size:18
Alignment explanation
Indices: 1515472--1515520 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
1515462 TTATATTATT
1515472 TAAAATTAAAAATAATAA
1 TAAAATTAAAAATAATAA
*
1515490 TAAAATTAATTATTATAATAA
1 TAAAATTAA--A-AATAATAA
1515511 T-AAATTAAAA
1 TAAAATTAAAA
1515521 TCAGTAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 10 0.38
20 8 0.31
21 8 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAATTAAAAATAATAA
Found at i:1516386 original size:31 final size:31
Alignment explanation
Indices: 1516340--1516413 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
1516330 TAATTTTTTA
* *
1516340 TTTATAAATTTAATTATTTTTATATCGA-TATT
1 TTTAT-AA-TTAATTATATTAATATCGATTATT
**
1516372 TATTATAATTAATTATATTAATATTTATTATT
1 T-TTATAATTAATTATATTAATATCGATTATT
1516404 TTTATAATTA
1 TTTATAATTA
1516414 TAATAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 24 0.67
32 8 0.22
33 4 0.11
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (31 bp):
TTTATAATTAATTATATTAATATCGATTATT
Found at i:1516765 original size:29 final size:29
Alignment explanation
Indices: 1516707--1516767 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
1516697 TTAATATAAT
1516707 TAATAAAAAAATTTAAAAAATAATTAAAA
1 TAATAAAAAAATTTAAAAAATAATTAAAA
* * * *
1516736 TAATAAAAAATTTTAAATAATGATTGAAA
1 TAATAAAAAAATTTAAAAAATAATTAAAA
1516765 TAA
1 TAA
1516768 ATAAGATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
TAATAAAAAAATTTAAAAAATAATTAAAA
Found at i:1516986 original size:19 final size:19
Alignment explanation
Indices: 1516950--1517010 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
1516940 TTGTTAAAAA
*
1516950 TATATTTATTTTTA-ATTT
1 TATAATTATTTTTATATTT
1516968 TATAATTATTTTTATATTT
1 TATAATTATTTTTATATTT
1516987 TA-AATATAATTTTT-TATTT
1 TATAAT-T-ATTTTTATATTT
1517006 T-TAAT
1 TATAAT
1517011 AAATTTTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 16 0.42
19 16 0.42
20 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATAATTATTTTTATATTT
Found at i:1517011 original size:19 final size:19
Alignment explanation
Indices: 1516957--1517017 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
1516947 AAATATATTT
*
1516957 ATTTTTAATTTTATAAT-T-
1 ATTTTTTATTTT-TAATATA
*
1516975 ATTTTTATATTTTAAATATA
1 ATTTTT-TATTTTTAATATA
1516995 ATTTTTTATTTTTAATA-A
1 ATTTTTTATTTTTAATATA
1517013 ATTTT
1 ATTTT
1517018 ATGATAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 15 0.41
19 16 0.43
20 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTTATTTTTAATATA
Found at i:1517017 original size:18 final size:18
Alignment explanation
Indices: 1516957--1517017 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
1516947 AAATATATTT
* *
1516957 ATTTTTAATTTTATAAT-T
1 ATTTTTTATTTT-TAATAA
*
1516975 ATTTTTATATTTTAAATATA
1 ATTTTT-TATTTTTAATA-A
1516995 ATTTTTTATTTTTAATAA
1 ATTTTTTATTTTTAATAA
1517013 ATTTT
1 ATTTT
1517018 ATGATAAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 15 0.42
19 15 0.42
20 6 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTTATTTTTAATAA
Found at i:1517563 original size:3 final size:3
Alignment explanation
Indices: 1517555--1517589 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1517545 AAAAAATAAC
1517555 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1517590 GCTTATGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1517604 original size:17 final size:17
Alignment explanation
Indices: 1517560--1517609 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
1517550 ATAACTATTA
*
1517560 TTATTATTATTATTA--
1 TTATTATTATTATAAGC
*
1517575 TTATTATTATTATTAGC
1 TTATTATTATTATAAGC
1517592 TTATGTATT-TTATAAGC
1 TTAT-TATTATTATAAGC
1517609 T
1 T
1517610 CTTTGTTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 15 0.48
17 12 0.39
18 4 0.13
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (17 bp):
TTATTATTATTATAAGC
Found at i:1517987 original size:22 final size:21
Alignment explanation
Indices: 1517962--1518011 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
1517952 TATAAATTTT
*
1517962 AATTTAAATTGATTTAAATATA
1 AATTTAAATTAATTT-AATATA
* * *
1517984 AATTTTATTTAATTTAATATT
1 AATTTAAATTAATTTAATATA
1518005 AATTTAA
1 AATTTAA
1518012 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATTTAAATTAATTTAATATA
Found at i:1518006 original size:28 final size:28
Alignment explanation
Indices: 1517938--1518006 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
1517928 ATAATGAATC
* *
1517938 AAATTAATTTTCATTATAAATTTTAATTT
1 AAATTAA-TTTAAATATAAATTTTAATTT
*
1517967 AAATTGATTTAAATATAAATTTT-ATTT
1 AAATTAATTTAAATATAAATTTTAATTT
*
1517994 AATTTAATATTAA
1 AAATTAAT-TTAA
1518007 TTTAATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 10 0.29
28 18 0.53
29 6 0.18
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
AAATTAATTTAAATATAAATTTTAATTT
Found at i:1518008 original size:21 final size:22
Alignment explanation
Indices: 1517962--1518014 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
1517952 TATAAATTTT
* *
1517962 AATTTAAATTGATTTAAATATA
1 AATTTAATTTAATTTAAATATA
* *
1517984 AATTTTATTTAATTT-AATATT
1 AATTTAATTTAATTTAAATATA
1518005 AATTTAATTT
1 AATTTAATTT
1518015 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTAATTTAATTTAAATATA
Found at i:1518011 original size:16 final size:15
Alignment explanation
Indices: 1517959--1518014 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
1517949 CATTATAAAT
*
1517959 TTTAATTTAAATTGA
1 TTTAATTTAAATTAA
* *
1517974 TTTAAATATAAATTTTA
1 TTT-AATTTAAA-TTAA
1517991 TTTAATTTAATATTAA
1 TTTAATTTAA-ATTAA
1518007 TTTAATTT
1 TTTAATTT
1518015 TTAAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.09
16 24 0.71
17 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TTTAATTTAAATTAA
Found at i:1518410 original size:31 final size:32
Alignment explanation
Indices: 1518375--1518444 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 32
1518365 GTTTGAATTT
*
1518375 TTAAAAAT-TTT-TATTTAAATTTATTTTATTA
1 TTAAAAATATTTATATTTAAATTT-TTTTATAA
*
1518406 TTAAAAATATTTAAATTTTTAAATTTTTTTATAA
1 TTAAAAATATTT--ATATTTAAATTTTTTTATAA
1518440 TTAAA
1 TTAAA
1518445 TTTAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 8 0.24
32 3 0.09
34 12 0.36
35 10 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TTAAAAATATTTATATTTAAATTTTTTTATAA
Found at i:1518459 original size:34 final size:35
Alignment explanation
Indices: 1518388--1518468 Score: 83
Period size: 34 Copynumber: 2.3 Consensus size: 35
1518378 AAAATTTTTA
* **
1518388 TTTAAATTTATTTTATTATTAAAAATATTTAAATT
1 TTTAAATTTATTTTATAATTAAAAATAAATAAATT
** *
1518423 TTTAAATTT-TTTTATAATTAAATTTAAATAATTTT
1 TTTAAATTTATTTTATAATTAAAAATAAATAA-ATT
1518458 TTTATAATTTA
1 TTTA-AATTTA
1518469 AATAATAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
34 17 0.46
35 15 0.41
36 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TTTAAATTTATTTTATAATTAAAAATAAATAAATT
Found at i:1518679 original size:53 final size:59
Alignment explanation
Indices: 1518554--1518688 Score: 156
Period size: 61 Copynumber: 2.3 Consensus size: 59
1518544 AATTTTTTTA
*
1518554 AAAATTTAAATATAAATATATAAATATGTTAATATTTATTTAATATAAAATATTAAAATATT
1 AAAATTT--ATATAAATATATAAAAATGTTAATATTTATTTAATATAAAATA-TAAAATATT
* * *
1518616 AAAATTTTATATAATTATATAAAAAT-TTAA-ATTTATTTTA-ATAAAATA-ATAATA-T
1 AAAA-TTTATATAAATATATAAAAATGTTAATATTTATTTAATATAAAATATAAAATATT
1518671 AAAA-TTATATAAATATAT
1 AAAATTTATATAAATATAT
1518689 GATATATTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
53 13 0.19
55 5 0.07
56 5 0.07
58 8 0.12
59 9 0.13
60 4 0.06
61 16 0.24
62 4 0.06
63 3 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.44
Consensus pattern (59 bp):
AAAATTTATATAAATATATAAAAATGTTAATATTTATTTAATATAAAATATAAAATATT
Found at i:1518685 original size:27 final size:27
Alignment explanation
Indices: 1518589--1518685 Score: 68
Period size: 27 Copynumber: 3.4 Consensus size: 27
1518579 ATGTTAATAT
*
1518589 TTATTTAATATAAAATATTAAAATATTAAAA
1 TTATATAA-ATAAAATA--AAAATA-TAAAA
* * * * *
1518620 TTTTATATAATTATATAAAAATTTAAAT
1 TTATATA-AATAAAATAAAAATATAAAA
* * *
1518648 TTATTTTAATAAAATAATAATATAAAA
1 TTATATAAATAAAATAAAAATATAAAA
1518675 TTATATAAATA
1 TTATATAAATA
1518686 TATGATATAT
Statistics
Matches: 49, Mismatches: 16, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
27 24 0.49
28 8 0.16
29 5 0.10
31 11 0.22
32 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TTATATAAATAAAATAAAAATATAAAA
Found at i:1518923 original size:17 final size:18
Alignment explanation
Indices: 1518901--1518934 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1518891 AAATGAAAAA
1518901 TAATTAAAAT-TTAATAT
1 TAATTAAAATATTAATAT
*
1518918 TAATTATAATATTAATA
1 TAATTAAAATATTAATA
1518935 GTTTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTAAAATATTAATAT
Found at i:1520520 original size:16 final size:16
Alignment explanation
Indices: 1520494--1520552 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
1520484 CTCGCTCATA
*
1520494 TTATTTTTTTAAAAAT
1 TTATATTTTTAAAAAT
*
1520510 GTATATTTTTAAAAAT
1 TTATATTTTTAAAAAT
*
1520526 TTA-ATCTTTATAAAAT
1 TTATATTTTTA-AAAAT
1520542 TTAATATTTTT
1 TT-ATATTTTT
1520553 TATTAAGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 6 0.17
16 23 0.66
17 1 0.03
18 5 0.14
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
TTATATTTTTAAAAAT
Found at i:1521066 original size:16 final size:16
Alignment explanation
Indices: 1521041--1521080 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1521031 ATTGTTTAAT
*
1521041 TAAAAAAATTTGAATA
1 TAAAATAATTTGAATA
*
1521057 TAAAATAATTTTAATA
1 TAAAATAATTTGAATA
*
1521073 TCAAATAA
1 TAAAATAA
1521081 ATATTAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
TAAAATAATTTGAATA
Found at i:1522890 original size:32 final size:32
Alignment explanation
Indices: 1522854--1522965 Score: 111
Period size: 32 Copynumber: 3.5 Consensus size: 32
1522844 TTAATGCAAT
* *
1522854 TCTTGTTCAGAATAATTATTGTTTAAAACAGC
1 TCTTGTTCAGAATAATTATTATTTAAAACAAC
* * *
1522886 TCTTGTTTAAAATAATTGTTATTTAAAACAAC
1 TCTTGTTCAGAATAATTATTATTTAAAACAAC
* * * *
1522918 TCTT-ATCTAGAATAGTTGA-TATTCAAAATAAC
1 TCTTGTTC-AGAATAATT-ATTATTTAAAACAAC
1522950 TCTTGTTCAGAATAAT
1 TCTTGTTCAGAATAAT
1522966 CATAGTCTAG
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
31 1 0.02
32 60 0.95
33 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.41
Consensus pattern (32 bp):
TCTTGTTCAGAATAATTATTATTTAAAACAAC
Found at i:1522923 original size:16 final size:16
Alignment explanation
Indices: 1522875--1522923 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
1522865 ATAATTATTG
* *
1522875 TTTAAAACAGCTCTTG
1 TTTAAAACAACTCTTA
* * *
1522891 TTTAAAATAATTGTTA
1 TTTAAAACAACTCTTA
1522907 TTTAAAACAACTCTTA
1 TTTAAAACAACTCTTA
1522923 T
1 T
1522924 CTAGAATAGT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (16 bp):
TTTAAAACAACTCTTA
Found at i:1525652 original size:80 final size:78
Alignment explanation
Indices: 1525477--1525689 Score: 222
Period size: 80 Copynumber: 2.7 Consensus size: 78
1525467 CTCCAATGCC
* * * * *
1525477 CTCTGACCTGGTTCTGCCCTTGCAGGTCCATTTGGGGCTTCCTCAACTCCCA--CA-AGCATTCC
1 CTCTGACCTTGTTCTGCCCTTACAGGTCCATTTGGGGCTTACTCAACTCCCATGAAGAGCATTCA
* *
1525539 CCTCTTATCCGTG
66 CCTCTCAACCGTG
* *
1525552 CTCTGACCCTATTCTGCCCTTACAGGTCCATTTGGAGGCTTACTCAACTCCCATGAAGGAGCATT
1 CTCTGACCTTGTTCTGCCCTTACAGGTCCATTTGG-GGCTTACTCAACTCCCATGAA-GAGCATT
1525617 CACCTC-CAACCTGTG
64 CACCTCTCAACC-GTG
* * *
1525632 CTCTGACCTTGTTCTACCCTTGA-AGG-CCTATTTGGCGGCTTTCTAAACTCCCATGAAG
1 CTCTGACCTTGTTCTGCCCTT-ACAGGTCC-ATTTGG-GGCTTACTCAACTCCCATGAAG
1525690 CATTCCCAAG
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
75 31 0.27
76 16 0.14
78 1 0.01
79 6 0.05
80 60 0.52
81 1 0.01
ACGTcount: A:0.18, C:0.34, G:0.18, T:0.30
Consensus pattern (78 bp):
CTCTGACCTTGTTCTGCCCTTACAGGTCCATTTGGGGCTTACTCAACTCCCATGAAGAGCATTCA
CCTCTCAACCGTG
Found at i:1529377 original size:27 final size:26
Alignment explanation
Indices: 1529337--1529400 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
1529327 GGATTAGTTT
*
1529337 ATTTAA-ATTAAAAATTAATTTAATTA
1 ATTTAATATT-AAAATTAATTAAATTA
1529363 ATTTTAATATTAAAATTAATTAAATTA
1 A-TTTAATATTAAAATTAATTAAATTA
1529390 ATTT-ATATTAA
1 ATTTAATATTAA
1529401 TTTTAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
25 7 0.20
26 4 0.11
27 21 0.60
28 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTAATATTAAAATTAATTAAATTA
Found at i:1529391 original size:31 final size:31
Alignment explanation
Indices: 1529349--1529412 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
1529339 TTAAATTAAA
* *
1529349 AATTAATTTAATTAATTTTAATATTAAAATT
1 AATTAAATTAATTAATATTAATATTAAAATT
* *
1529380 AATTAAATTAATTTATATTAATTTTAAAATT
1 AATTAAATTAATTAATATTAATATTAAAATT
1529411 AA
1 AA
1529413 AATATTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
AATTAAATTAATTAATATTAATATTAAAATT
Found at i:1529406 original size:37 final size:34
Alignment explanation
Indices: 1529336--1529415 Score: 115
Period size: 37 Copynumber: 2.3 Consensus size: 34
1529326 CGGATTAGTT
*
1529336 TATTTAAATTAAAAATTAATTTAATTAATTTTAA
1 TATTAAAATTAAAAATTAATTTAATTAATTTTAA
1529370 TATTAAAATTAATTAAATTAATTTATATTAATTTTAA
1 TATTAAAATTAA--AAATTAATTTA-ATTAATTTTAA
*
1529407 AATTAAAAT
1 TATTAAAAT
1529416 ATTTGAATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
34 11 0.27
36 11 0.27
37 19 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TATTAAAATTAAAAATTAATTTAATTAATTTTAA
Found at i:1529466 original size:24 final size:25
Alignment explanation
Indices: 1529439--1529518 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
1529429 ATTTGATATA
1529439 TATTTTAATTT-TTTAAAT-TATTTT
1 TATTTTAATTTATTTAAATAT-TTTT
* *
1529463 TATTTTATTTTATTTATATATTTTT
1 TATTTTAATTTATTTAAATATTTTT
* * *
1529488 TATTTTAATTGAGTTTTATTATTTTT
1 TATTTTAATTTA-TTTAAATATTTTT
1529514 TATTT
1 TATTT
1529519 AAAATTTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 10 0.22
25 20 0.43
26 16 0.35
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (25 bp):
TATTTTAATTTATTTAAATATTTTT
Found at i:1529505 original size:41 final size:41
Alignment explanation
Indices: 1529435--1529527 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
1529425 GGTGATTTGA
*
1529435 TATATATTTTAATTTTTTAAATTATTTTTATT-TTATTTTATT
1 TATATATTTT-ATTTTTTAAATTAGTTTTATTATT-TTTTATT
1529477 TATATATTTT-TTATTTT-AATTGAGTTTTATTATTTTTTATT
1 TATATATTTTATT-TTTTAAATT-AGTTTTATTATTTTTTATT
*
1529518 TA-AAATTTTA
1 TATATATTTTA
1529528 ATTTAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
40 12 0.27
41 21 0.47
42 12 0.27
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (41 bp):
TATATATTTTATTTTTTAAATTAGTTTTATTATTTTTTATT
Found at i:1529536 original size:6 final size:6
Alignment explanation
Indices: 1529515--1529588 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
1529505 ATTATTTTTT
* * * * * *
1529515 ATTTAAA ATTTTA ATTTAA ATTTAG A-TGAA TTTTTA GTTTAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
1529563 A-TT-A ATTTAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT
1529589 TATTAAATAT
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
4 2 0.04
5 6 0.11
6 41 0.77
7 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:1529584 original size:22 final size:22
Alignment explanation
Indices: 1529521--1529587 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
1529511 TTTTATTTAA
* *
1529521 AATTTTAATTTAAATTTAGATG
1 AATTTTAATTTAAATTTAAATT
*
1529543 AATTTTTAGTTTAAATTTAAATT
1 AA-TTTTAATTTAAATTTAAATT
*
1529566 AATTTAAATTTAAATTTAAATT
1 AATTTTAATTTAAATTTAAATT
1529588 TTATTAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 20 0.51
23 19 0.49
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
AATTTTAATTTAAATTTAAATT
Found at i:1529666 original size:13 final size:13
Alignment explanation
Indices: 1529648--1529739 Score: 62
Period size: 13 Copynumber: 6.6 Consensus size: 13
1529638 AATAATCAAA
*
1529648 AATTAATTTAATT
1 AATTAATTAAATT
1529661 AATTAATTAAATT
1 AATTAATTAAATT
*
1529674 AA-TACTTTAAACTGAT
1 AATTA-ATTAAA-T--T
*
1529690 CAA-AAATTAAATT
1 -AATTAATTAAATT
*
1529703 AAATTAATCAAATT
1 -AATTAATTAAATT
1529717 AATTATATTAAATT
1 AATTA-ATTAAATT
1529731 AAATTAATT
1 -AATTAATT
1529740 TTTTTATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
12 2 0.03
13 27 0.43
14 19 0.30
15 6 0.10
16 6 0.10
17 3 0.05
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (13 bp):
AATTAATTAAATT
Found at i:1529703 original size:5 final size:5
Alignment explanation
Indices: 1529693--1529737 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
1529683 AACTGATCAA
* *
1529693 AAATT AAATT AAATT -AATC AAATT -AATT ATATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AA
1529738 TTTTTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 7 0.21
5 27 0.79
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:1529739 original size:23 final size:23
Alignment explanation
Indices: 1529647--1529732 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 23
1529637 TAATAATCAA
* *
1529647 AAATTAATTTAATT-AATTAATT
1 AAATTAATTAAATTAAATTAATC
** * *
1529669 AAATTAA-TACTTTAAACTGATC
1 AAATTAATTAAATTAAATTAATC
1529691 AAA--AATTAAATTAAATTAATC
1 AAATTAATTAAATTAAATTAATC
*
1529712 AAATTAATTATATTAAATTAA
1 AAATTAATTAAATTAAATTAA
1529733 ATTAATTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
20 2 0.04
21 17 0.35
22 15 0.31
23 15 0.31
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (23 bp):
AAATTAATTAAATTAAATTAATC
Found at i:1530162 original size:24 final size:25
Alignment explanation
Indices: 1530101--1530162 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
1530091 TTTATTTAAA
* *
1530101 TTTAAATTAAT-TAAAAATTTATAT
1 TTTATATTAATATAAAAAATTATAT
* *
1530125 TGTTATTTTTATATAAAAAATTAT-T
1 T-TTATATTAATATAAAAAATTATAT
1530150 TTTATATTAATAT
1 TTTATATTAATAT
1530163 TTATAATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
24 11 0.37
25 9 0.30
26 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTATATTAATATAAAAAATTATAT
Found at i:1530344 original size:19 final size:21
Alignment explanation
Indices: 1530310--1530352 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
1530300 ATAAATATAT
*
1530310 AATAATATTTTATAAAATTTA
1 AATAATATTTTATAAAAATTA
1530331 AATAAT-TTTT-TAAAAATTA
1 AATAATATTTTATAAAAATTA
1530350 AAT
1 AAT
1530353 TTTTATCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATATTTTATAAAAATTA
Found at i:1530346 original size:20 final size:20
Alignment explanation
Indices: 1530310--1530352 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1530300 ATAAATATAT
1530310 AATAATATTTTATAAAATTTA
1 AATAATATTTTATAAAA-TTA
*
1530331 AATAATTTTTTA-AAAATTA
1 AATAATATTTTATAAAATTA
1530350 AAT
1 AAT
1530353 TTTTATCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 4 0.19
21 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAATATTTTATAAAATTA
Found at i:1536566 original size:16 final size:17
Alignment explanation
Indices: 1536523--1536568 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
1536513 AAATTTGTTA
*
1536523 AATTTAAAATTTAATTT
1 AATTTAAGATTTAATTT
1536540 AA-TT-AGTATTTAA-TT
1 AATTTAAG-ATTTAATTT
1536555 AATTTAAGATTTAA
1 AATTTAAGATTTAA
1536569 ATTTTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 5 0.20
16 16 0.64
17 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
AATTTAAGATTTAATTT
Found at i:1536935 original size:49 final size:48
Alignment explanation
Indices: 1536844--1536940 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 48
1536834 TAAAAAATTT
*
1536844 AAAAATATTTTTATAATAATAATTATATATTTTATTATTAAATTTAAATA
1 AAAAATATTTTTATAATAATAA-TATATAATTTATTATTAAA-TTAAATA
* *
1536894 AAAAATATTTTTTTAATTATTAA-ATATCAATTTA-TATTAAATTAAAT
1 AAAAATATTTTTATAA-TAATAATATAT-AATTTATTATTAAATTAAAT
1536941 CAACTCCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
48 6 0.14
49 11 0.26
50 20 0.48
51 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (48 bp):
AAAAATATTTTTATAATAATAATATATAATTTATTATTAAATTAAATA
Found at i:1537039 original size:2 final size:2
Alignment explanation
Indices: 1537032--1537057 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1537022 TCATTTTAGT
1537032 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1537058 AAGCAAAGCC
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):
TA
Found at i:1538003 original size:19 final size:20
Alignment explanation
Indices: 1537960--1538002 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1537950 AGAATTAGAG
*
1537960 AAAAACTGATTGAACAAGTA
1 AAAAACTGATTGAACAAATA
1537980 AAAAACTGATT-AA-AAATA
1 AAAAACTGATTGAACAAATA
1537998 AAAAA
1 AAAAA
1538003 AATTCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 11 0.50
ACGTcount: A:0.65, C:0.07, G:0.09, T:0.19
Consensus pattern (20 bp):
AAAAACTGATTGAACAAATA
Found at i:1538126 original size:24 final size:24
Alignment explanation
Indices: 1538082--1538154 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
1538072 AAAATTTTGA
1538082 TTTATT-AA-ATTTATCTAATATATT
1 TTTATTAAATATTTA-CT-ATATATT
1538106 TTTATTAAATATTTACTATAT-TT
1 TTTATTAAATATTTACTATATATT
** * *
1538129 AATATTAAATAATTTAATTTATATT
1 TTTATTAAAT-ATTTACTATATATT
1538154 T
1 T
1538155 AAATTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 10 0.25
24 19 0.47
25 6 0.15
26 5 0.12
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTATTAAATATTTACTATATATT
Found at i:1538138 original size:23 final size:23
Alignment explanation
Indices: 1538100--1538144 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1538090 ATTTATCTAA
*
1538100 TATATTTTTATTAAAT-ATTTAC
1 TATATTTATATTAAATAATTTAC
1538122 TATATTTAATATTAAATAATTTA
1 TATATTT-ATATTAAATAATTTA
1538145 ATTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATTTATATTAAATAATTTAC
Found at i:1542159 original size:9 final size:9
Alignment explanation
Indices: 1542145--1542175 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1542135 ACCATGCATT
1542145 TTTTTTTTC
1 TTTTTTTTC
1542154 TTTTTTTTC
1 TTTTTTTTC
*
1542163 TTTCTTTTC
1 TTTTTTTTC
1542172 TTTT
1 TTTT
1542176 CATAAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:1543617 original size:78 final size:74
Alignment explanation
Indices: 1543392--1543753 Score: 301
Period size: 79 Copynumber: 4.6 Consensus size: 74
1543382 TCATTGATAT
* * * * * ** * *
1543392 TTTTATTTTTAAAATATCGATTTTCCACCATCGGGATACTCTAACCCCGTTATTTCCGAAGAGAT
1 TTTTATTTCTAAAACA-CAATTTTTCACCATCGGGATACTCCAACCCTATTATTT-AG-AGGGAT
*
1543457 ACTCCAACCCCAG
63 ACTCCAA-CCCAA
* * * *
1543470 CTTTATTTCTAAAACAATAATTTTTCACCATTGGGGATACTCCAACCCTATTATTTTTGAGGGGA
1 TTTTATTTCTAAAAC-ACAATTTTTCACCA-TCGGGATACTCCAACCCTATTA-TTTAGA-GGGA
* *
1543535 TACTCTAACCTCGA
62 TACTCCAACC-CAA
**
1543549 TTTTATTTCTAAAACACCAATTTTTCATTATCGGGATACTCCAACCCTATTAGTTTAGAGGGAAT
1 TTTTATTTCTAAAACA-CAATTTTTCACCATCGGGATACTCCAACCCTATTA-TTTAGAGGG-AT
1543614 ACTCCAACCCTAA
63 ACTCCAACCC-AA
* * * * * *
1543627 TTTGATTTTTAAAACATCGATTTTTCACCATCGAGGATACTCCAACCCTGTTATTTACAAATGGA
1 TTTTATTTCTAAAACA-CAATTTTTCACCATCG-GGATACTCCAACCCTATTATTT--AGAGGGA
* *
1543692 TATTCCAACCCCAG
62 TACTCCAA-CCCAA
*
1543706 TTTTAATTCTAAAACACAGATTTTTCACCATCGGGGATACTCCAACCC
1 TTTTATTTCTAAAACACA-ATTTTTCACCATC-GGGATACTCCAACCC
1543754 CGATTTTATT
Statistics
Matches: 231, Mismatches: 39, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
77 4 0.02
78 94 0.41
79 122 0.53
80 11 0.05
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (74 bp):
TTTTATTTCTAAAACACAATTTTTCACCATCGGGATACTCCAACCCTATTATTTAGAGGGATACT
CCAACCCAA
Found at i:1543681 original size:157 final size:158
Alignment explanation
Indices: 1543455--1543753 Score: 365
Period size: 157 Copynumber: 1.9 Consensus size: 158
1543445 TTCCGAAGAG
* * *
1543455 ATACTCCAACCCCAGCTTTATTTCTAAAACAATAATTTTTCACCATTGGGGATACTCCAACCCTA
1 ATACTCCAACCCCAGATTTATTTCTAAAACAATAATTTTTCACCATCGAGGATACTCCAACCCTA
*** * * * * **
1543520 TTATTTTTGAGGGGATACTCTAACCTC-GATTTTATTTCTAAAACACCA-ATTTTTCATTATC-G
66 TTATTTACAAAGGGATACTCCAACCCCAG-TTTTAATTCTAAAACA-CAGATTTTTCACCATCGG
1543582 GGATACTCCAACCCTATTAGTTTAGAGGGA
129 GGATACTCCAACCCTATTAGTTTAGAGGGA
* * *
1543612 ATACTCCAACCCTA-ATTTGATTTTTAAAAC-ATCGATTTTTCACCATCGAGGATACTCCAACCC
1 ATACTCCAACCCCAGATTT-ATTTCTAAAACAAT-AATTTTTCACCATCGAGGATACTCCAACCC
* * *
1543675 TGTTATTTACAAATGGATATTCCAACCCCAGTTTTAATTCTAAAACACAGATTTTTCACCATCGG
64 TATTATTTACAAAGGGATACTCCAACCCCAGTTTTAATTCTAAAACACAGATTTTTCACCATCGG
1543740 GGATACTCCAACCC
129 GGATACTCCAACCC
1543754 CGATTTTATT
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
156 7 0.06
157 96 0.81
158 16 0.13
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (158 bp):
ATACTCCAACCCCAGATTTATTTCTAAAACAATAATTTTTCACCATCGAGGATACTCCAACCCTA
TTATTTACAAAGGGATACTCCAACCCCAGTTTTAATTCTAAAACACAGATTTTTCACCATCGGGG
ATACTCCAACCCTATTAGTTTAGAGGGA
Found at i:1543767 original size:51 final size:50
Alignment explanation
Indices: 1543689--1543857 Score: 196
Period size: 51 Copynumber: 3.3 Consensus size: 50
1543679 ATTTACAAAT
* *
1543689 GGATATTCCAACCCCAGTTTTAATTCTAAAACACAGATTTTTCACCATCGG
1 GGATATTCCAACCCCAGTTTTATTTCTAAAATAC-GATTTTTCACCATCGG
* *
1543740 GGATACTCCAACCCC-GATTTTATTTCTAAAATATCGACTTTTCACCATCGG
1 GGATATTCCAACCCCAG-TTTTATTTCTAAAATA-CGATTTTTCACCATCGG
** * * * *
1543791 GGATATTTTTAACCCCATTTTTATTTCCAAAATATTGATTTTTCACCATCGA
1 GGATA-TTCCAACCCCAGTTTTATTTCTAAAATA-CGATTTTTCACCATCGG
1543843 GGATATTCCAACCCC
1 GGATATTCCAACCCC
1543858 GTTGTTTTCG
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 56 0.56
52 43 0.43
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (50 bp):
GGATATTCCAACCCCAGTTTTATTTCTAAAATACGATTTTTCACCATCGG
Found at i:1551976 original size:15 final size:15
Alignment explanation
Indices: 1551956--1551985 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1551946 CTCATTTTTT
1551956 TAAAAAAAATAAAAA
1 TAAAAAAAATAAAAA
1551971 TAAAAAAAATAAAAA
1 TAAAAAAAATAAAAA
1551986 AAAGAGTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:1559253 original size:14 final size:16
Alignment explanation
Indices: 1559222--1559268 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
1559212 AAAAAAAGTC
1559222 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
1559238 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
1559252 AAAATGCAAAAGCAAA
1 AAAATGCAAAAGCAAA
1559268 A
1 A
1559269 TAAAAAGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 13 0.46
17 1 0.04
ACGTcount: A:0.72, C:0.11, G:0.13, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:1560702 original size:27 final size:27
Alignment explanation
Indices: 1560603--1561150 Score: 765
Period size: 27 Copynumber: 19.9 Consensus size: 27
1560593 TGGCATTTCT
* *
1560603 TTTTAAAGTCCTCAACTCCGTGGCACTC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
1560631 TTTTAAGGTCCACAACTCCGTGGCACCT
1 TTTTAA-GTCCACAACTCCGTGGCACCC
1560659 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
1560687 TTTTAAGTCCATAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1560714 TTTTAAGTCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1560741 TTTTAAAGTCCACAACTCCGTGACACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
1560769 TTTTAAGTCCACAACCCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1560796 TTTTAAGTCCACAACGCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1560823 TTTTTAAAGTCCACAACTCCGTGGCACCC
1 -TTTT-AAGTCCACAACTCCGTGGCACCC
1560852 TTTTAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1560878 TTTTCAAAGTCCACAACTCCGTGCCACCC
1 TTTT--AAGTCCACAACTCCGTGGCACCC
* *
1560907 TTTTAAGTCCACAACTCTGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* **
1560934 TTTTAAAGTCCACAACTCTGTGGTGCCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
1560962 TTTTAAGTCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
1560989 TTTTAAAGTCCACAACTCTGTGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
1561017 TTTTAAGTCCACAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1561044 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
1561072 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
1561100 TTTTAAGTCCACCACTCCGTGGCATCA
1 TTTTAAGTCCACAACTCCGTGGCACCC
1561127 TTTTAAGTCCACAACTCCGTGGCA
1 TTTTAAGTCCACAACTCCGTGGCA
1561151 ACACCTATTT
Statistics
Matches: 472, Mismatches: 37, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.01
27 233 0.49
28 203 0.43
29 30 0.06
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:1560750 original size:55 final size:54
Alignment explanation
Indices: 1560603--1561150 Score: 787
Period size: 55 Copynumber: 10.0 Consensus size: 54
1560593 TGGCATTTCT
* *
1560603 TTTTAAAGTCCTCAACTCCGTGGCACTCTTTTAAGGTCCACAACTCCGTGGCACC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAA-GTCCACAACTCCGTGGCACC
*
1560658 TTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCC
1 -TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1560714 TTTT-AAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGACACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA-CC
* * *
1560769 TTTT-AAGTCCACAACCCCGTGGCATCCTTTTAAGTCCACAACGCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
1560823 TTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 -TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1560878 TTTTCAAAGTCCACAACTCCGTGCCACCCTTTTAAGTCCACAACTCTGTGGCACTC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC-C
* **
1560934 TTTTAAAGTCCACAACTCTGTGGTGCCCTTTTAAGTCCACAACTCCGTGGCACTC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC-C
* * *
1560989 TTTTAAAGTCCACAACTCTGTGGTACCCTTTTAAGTCCACAACTCCGTGGTACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
1561044 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA-CC
* * *
1561100 TTTT-AAGTCCACCACTCCGTGGCATCATTTTAAGTCCACAACTCCGTGGCA
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
1561151 ACACCTATTT
Statistics
Matches: 453, Mismatches: 31, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
54 71 0.16
55 273 0.60
56 109 0.24
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (54 bp):
TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1561196 original size:32 final size:32
Alignment explanation
Indices: 1561145--1562113 Score: 1080
Period size: 32 Copynumber: 30.8 Consensus size: 32
1561135 CCACAACTCC
* *
1561145 GTGGCAACACCTATTTCAAAGCCCAAATAAGTTG
1 GTGGCAAC-CC-ATTTCAAAGCCCACACAAGTTG
*
1561179 GTGGCAACCCATTTCAAAG-CC-CACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* * *
1561209 GTGGTAACTCATTTCAAAGCCTACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
*
1561241 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* *
1561273 GTGGCAACTCATTTCAAAGCCCACACAAATTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
1561305 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
** * ** **
1561337 GTGGCAAGTCATTTGAAAGTACACGTAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
*
1561369 GTGGCAACCCATTTTAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
** * * *
1561401 GTGGCAAGTCATTTGAAAGTCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* * *
1561433 GTGGTGCCACTCATTTGAAAGCCCACACAAGTTG
1 GT-G-GCAACCCATTTCAAAGCCCACACAAGTTG
*
1561467 GTGACAACCCATTTCAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
** *
1561499 GTGGCAACTTATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
*
1561531 GTGGCAACCCATTTGAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* *
1561563 GTGGCAACCTATTTCAAAGCCCACATAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
** *
1561595 GTGGCAACTTATTTCAAAGCCCACACAAGTTA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* * * * *
1561627 GTGGTAAGCCATTTTAAAGCTCACAAAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* *
1561659 GTGGCAAGCCATTTTAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
** * *
1561691 GTGGCAAGTCATTTGAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
*
1561723 GTGGCAACTCATTTCAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* * *
1561755 ATGGCAACTCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* *
1561787 GTGGCAACCTATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
*
1561819 GTGGCAACCCATTTCAAAG-CC-CACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* * **
1561849 GTGGC-A-TCTTTTCAAAG-CC-CACAAGTCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* **
1561877 GTGAC-ACCC-TTTCAAAGCCCACA-AA-TCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* * *
1561905 GTGGC-ATCC-TTTCCAAG-CC-CACAAGTTA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* * * *
1561933 GTAGCAA--CTTTTCAAAGCCCACGC--GTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* *
1561961 GTGGTAACTCATTTCAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
1561993 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* *
1562025 GTGGCAACCTATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
* *
1562057 GTGGCAACCTATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
*
1562089 ATGGCAACCCAATTT-AAAGCCCACA
1 GTGGCAACCC-ATTTCAAAGCCCACA
1562114 AGTCAATGGC
Statistics
Matches: 812, Mismatches: 105, Indels: 38
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.00
27 5 0.01
28 69 0.08
29 9 0.01
30 56 0.07
31 5 0.01
32 623 0.77
33 8 0.01
34 35 0.04
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (32 bp):
GTGGCAACCCATTTCAAAGCCCACACAAGTTG
Found at i:1561899 original size:56 final size:56
Alignment explanation
Indices: 1561766--1562471 Score: 500
Period size: 56 Copynumber: 12.0 Consensus size: 56
1561756 TGGCAACTCA
* * *
1561766 TTTCAAAGCCCACACAAGTCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCT-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC
* *
1561829 ATTTCAAAGCCCACAAGTCGGTGGCATCTTTTCAAAGCCCACAAGTCAGTGACACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * * * *
1561886 TTTCAAAGCCCACAAATCAGTGGCATCCTTTCCAAGCCCACAAGTTAGTAGCAACT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
** * * * **
1561942 TTTCAAAGCCCACGCGTCGGTGGTAACTCATTTCAAAGCCCACACAAGTTGGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGG-CA-TCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC
** * * *
1562003 ATTTCAAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCTA
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-ATCT-TTTCAAAG-CC-CACAAGTCAGTGGC-ACC-C
* * * * *
1562068 TTTCAAAGCCCACACAAGTC-GATGGCAACCCAATTT-AAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAG-CC-CACAAGTCAG-TGGC-A-TC-TTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
1562128 TTTCAAAGCCCGCAAGTCAGTGGCACCCTTTCAAAGCCCACAACTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * ** * *
1562184 TTTCCAAGCCCACAAGTTAGTGGCAACTTTTTAAAGCCCACGCGTCAGTGGCAACT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
1562240 TTTCAAAGCCCACGAGTCAGTGGCATC-CTTCTAAAGCCCACAACTCAGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTCAGTGGCACCC
* * * * * * *
1562296 TTTCAAAGCCCATAAGTCAGTTGCACCCTTTCAAAGCCCACAAGTCAGTAGCGCCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
1562352 TTTCAAAGCCTACAAGTTAGTGGCATTCTTTTCAAAGCCCACAAGCCAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGG-CAC-CC
* *
1562411 TTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAGCCCACA--AGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGCACC
1562472 ATTTTAAAAA
Statistics
Matches: 522, Mismatches: 94, Indels: 54
0.78 0.14 0.08
Matches are distributed among these distances:
55 5 0.01
56 237 0.45
57 31 0.06
58 33 0.06
59 21 0.04
60 28 0.05
61 15 0.03
62 47 0.09
63 12 0.02
64 88 0.17
65 5 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:1562469 original size:32 final size:32
Alignment explanation
Indices: 1561157--1562461 Score: 1056
Period size: 32 Copynumber: 42.6 Consensus size: 32
1561147 GGCAACACCT
* * * *
1561157 ATTTCAAAGCCCAAATAAGTTGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
*
1561189 ATTTCAAAG-CC-CACAAGTCGGTGGTAACTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1561219 ATTTCAAAGCCTACACAAGTTGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
1561251 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1561283 ATTTCAAAGCCCACACAAATTGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1561315 ATTTCAAAGCCCACACAAGTTGGTGGCAAGTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* ** ** * *
1561347 ATTTGAAAGTACACGTAAGTTGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1561379 ATTTTAAAGCCCACACAAGTTGGTGGCAAGTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1561411 ATTTGAAAGTCCACACAAGTCGGTGGTGCCACTC
1 ATTTCAAAGCCCACACAAGTCGGT-G-GCAACTC
* * * *
1561445 ATTTGAAAGCCCACACAAGTTGGTGACAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1561477 ATTTCAAAGCCCACACAAGTTGGTGGCAACTT
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
*
1561509 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1561541 ATTTGAAAGCCCACACAAGTTGGTGGCAAC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1561572 TATTTCAAAGCCCACATAAGTTGGTGGCAACTT
1 -ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
** *
1561605 ATTTCAAAGCCCACACAAGTTAGTGGTAAGC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAA-CTC
* * * *
1561637 ATTTTAAAGCTCACAAAAGTTGGTGGCAAGC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAA-CTC
* * *
1561669 ATTTTAAAGCCCACACAAGTTGGTGGCAAGTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
*
1561701 ATTTGAAAGCCCACACAAGTCGGTGGCAACTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1561733 ATTTCAAAGCCCACACAAGTTGATGGCAACTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
1561765 ATTTCAAAGCCCACACAAGTCGGTGGCAAC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
*
1561796 TATTTCAAAGCCCACACAAGTCGGTGGCAACCC
1 -ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
1561829 ATTTCAAAG-CC-CACAAGTCGGTGGC-A-TC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1561857 TTTTCAAAG-CC-CACAAGTCAGTGAC-AC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1561885 CTTTCAAAGCCCACA-AA-TCAGTGGC-A-TC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * ** *
1561913 CTTTCCAAG-CC-CACAAGTTAGTAGCAACT-
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1561942 -TTTCAAAGCCCACGC--GTCGGTGGTAACTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1561971 ATTTCAAAGCCCACACAAGTTGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
*
1562003 ATTTCAAAGCCCACACAAGTTGGTGGCAAC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
1562034 TATTTCAAAGCCCACACAAGTCGGTGGCAAC-C
1 -ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1562066 TATTTCAAAGCCCACACAAGTCGATGGCAACCC
1 -ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
**
1562099 AATTT-AAAG-CC-CACAAGTCAATGGC-A-TC
1 -ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1562127 TTTTCAAAG-CC-CGCAAGTCAGTGGC-AC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1562155 CTTTCAAAG-CC-CACAACTCAGTGGC-A-TC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * **
1562183 CTTTCCAAG-CC-CACAAGTTAGTGGCAACT-
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * *
1562212 -TTTTAAAGCCCACGC--GTCAGTGGCAACT-
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1562240 -TTTCAAAG-CC-CACGAGTCAGTGGC-A-TC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * * *
1562267 -CTTCTAAAG-CC-CACAACTCAGTGG-TA-TC
1 ATTTC-AAAGCCCACACAAGTCGGTGGCAACTC
* * * *
1562295 CTTTCAAAG-CC-CATAAGTCAGTTGC-AC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * * *
1562323 CTTTCAAAG-CC-CACAAGTCAGTAGC-GC-C
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* ** *
1562351 ATTTCAAAG-CC-TACAAGTTAGTGGC-ATTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * * *
1562380 TTTTCAAAG-CC-CACAAGCCAGTGGTAACTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* *
1562410 TTTTCAAAGCCCACACGAGTCGGTGGCAACTC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
*
1562442 TTTTCAAAGCCCACACAAGT
1 ATTTCAAAGCCCACACAAGT
1562462 TAGTGGCACC
Statistics
Matches: 1088, Mismatches: 140, Indels: 90
0.83 0.11 0.07
Matches are distributed among these distances:
26 5 0.00
27 13 0.01
28 257 0.24
29 36 0.03
30 84 0.08
31 12 0.01
32 645 0.59
33 9 0.01
34 27 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (32 bp):
ATTTCAAAGCCCACACAAGTCGGTGGCAACTC
Found at i:1567954 original size:17 final size:17
Alignment explanation
Indices: 1567932--1567974 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
1567922 AAAAAATAAA
1567932 AATATTAATAATTTTTT
1 AATATTAATAATTTTTT
*
1567949 AATATT-TTAATTTTTT
1 AATATTAATAATTTTTT
1567965 AA-A-TAATAAT
1 AATATTAATAAT
1567975 ATTAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 5 0.22
16 11 0.48
17 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATATTAATAATTTTTT
Found at i:1567992 original size:21 final size:21
Alignment explanation
Indices: 1567947--1567992 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
1567937 TAATAATTTT
* *
1567947 TTAATATTTTAATTTTTTAAA
1 TTAATATATTAATTTTATAAA
1567968 -TAATAATATTAA-TTTATAAA
1 TTAAT-ATATTAATTTTATAAA
1567988 TTAAT
1 TTAAT
1567993 TTAAATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAATATATTAATTTTATAAA
Found at i:1568304 original size:27 final size:27
Alignment explanation
Indices: 1568265--1568327 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
1568255 TAAAATAATT
* * *
1568265 TTATAATTGTTTAACAAATTATTTATA
1 TTATTATTTTTTAACAAACTATTTATA
**
1568292 TTATTATTTTTTATTAAACTATTTATA
1 TTATTATTTTTTAACAAACTATTTATA
*
1568319 TGATTATTT
1 TTATTATTT
1568328 GATAATTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
TTATTATTTTTTAACAAACTATTTATA
Found at i:1568715 original size:17 final size:17
Alignment explanation
Indices: 1568693--1568746 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
1568683 TTTATTAAAT
1568693 ATTTTATATTTATAATA
1 ATTTTATATTTATAATA
**
1568710 ATTTTA-ATACATTAATA
1 ATTTTATATTTA-TAATA
1568727 A-TTTATATTATATAA-A
1 ATTTTATATT-TATAATA
1568743 ATTT
1 ATTT
1568747 AAATTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 9 0.31
17 19 0.66
18 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATATTTATAATA
Found at i:1568747 original size:16 final size:17
Alignment explanation
Indices: 1568690--1568756 Score: 68
Period size: 16 Copynumber: 4.1 Consensus size: 17
1568680 TTATTTATTA
*
1568690 AATATTTTATATT-TAT
1 AATAATTTATATTATAT
* *
1568706 AATAATTT-TAATACATT
1 AATAATTTATATTATA-T
1568723 AATAATTTATATTATAT
1 AATAATTTATATTATAT
*
1568740 AA-AATTTAAATTATAT
1 AATAATTTATATTATAT
1568756 A
1 A
1568757 TTTATATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
15 3 0.07
16 22 0.52
17 12 0.29
18 5 0.12
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAATTTATATTATAT
Found at i:1568810 original size:12 final size:12
Alignment explanation
Indices: 1568776--1568818 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1568766 TCACATTTTA
1568776 ATAATTTTATAT
1 ATAATTTTATAT
*
1568788 ATAA-TAT-TAT
1 ATAATTTTATAT
1568798 ATAATTTTATAT
1 ATAATTTTATAT
*
1568810 AAAATTTTA
1 ATAATTTTA
1568819 AATTTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 7 0.27
11 4 0.15
12 15 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATAATTTTATAT
Found at i:1569296 original size:6 final size:5
Alignment explanation
Indices: 1569265--1569441 Score: 66
Period size: 5 Copynumber: 37.4 Consensus size: 5
1569255 GTAAATTTTT
* *
1569265 TTATA TAATA TGTAT- TTATA TTATA TTCATA -TAT- TT-TT TTATA TTATA
1 TTATA TTATA T-TATA TTATA TTATA TT-ATA TTATA TTATA TTATA TTATA
* *
1569313 TTATA TTTTAA TTAT- TT-T- TTATAA TTATA TT-T- TTAATG TTATA
1 TTATA TTAT-A TTATA TTATA TTAT-A TTATA TTATA TT-ATA TTATA
* * * * *
1569356 -TAT- TTATA -TA-A ATATA TT-TA TGTAAA TTTTT TTATA TAATA -TATA
1 TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA
*
1569401 TTTATA TTATA TT-TA -TATAA TT-TT TTATA TTATA TTATA TT
1 -TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA TTATA TT
1569442 TTAATTATTT
Statistics
Matches: 130, Mismatches: 17, Indels: 50
0.66 0.09 0.25
Matches are distributed among these distances:
3 8 0.06
4 33 0.25
5 67 0.52
6 22 0.17
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:1569309 original size:10 final size:10
Alignment explanation
Indices: 1569277--1569474 Score: 91
Period size: 10 Copynumber: 20.1 Consensus size: 10
1569267 ATATAATATG
1569277 TATTTATATTA
1 TATTT-TATTA
*
1569288 TA-TTCA-TA
1 TATTTTATTA
*
1569296 TATTTTTTTA
1 TATTTTATTA
*
1569306 TATTATATTA
1 TATTTTATTA
1569316 TATTTTAATTA
1 TATTTT-ATTA
* *
1569327 TTTTTTATAA
1 TATTTTATTA
1569337 TTATATTT-TTA
1 -TAT-TTTATTA
*
1569348 -ATGTTA-TA
1 TATTTTATTA
*
1569356 TATTTATATAAA
1 TATTT-TAT-TA
1569368 TATATTTATGTA
1 TAT-TTTAT-TA
* *
1569380 AATTTTTTTA
1 TATTTTATTA
**
1569390 TATAATA-TA
1 TATTTTATTA
1569399 TATTTATATTA
1 TATTT-TATTA
1569410 TA-TTTA-TA
1 TATTTTATTA
1569418 TAATTTT-TTA
1 T-ATTTTATTA
*
1569428 TATTATATTA
1 TATTTTATTA
1569438 TATTTTAATTA
1 TATTTT-ATTA
1569449 T-TTTT-TTA
1 TATTTTATTA
1569457 TA-TTTA-TA
1 TATTTTATTA
1569465 -ATTTTATTA
1 TATTTTATTA
1569474 T
1 T
1569475 GTTTAACATT
Statistics
Matches: 139, Mismatches: 25, Indels: 47
0.66 0.12 0.22
Matches are distributed among these distances:
7 1 0.01
8 24 0.17
9 22 0.16
10 49 0.35
11 28 0.20
12 13 0.09
13 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TATTTTATTA
Found at i:1569375 original size:122 final size:123
Alignment explanation
Indices: 1569249--1569470 Score: 392
Period size: 122 Copynumber: 1.8 Consensus size: 123
1569239 ATAGATATAG
* *
1569249 ATTTATGTAAATTTTTTTATATAATATGTATTTATATTATATTCATATATTTTTTTATATTATAT
1 ATTTATGTAAATTTTTTTATATAATATATATTTATATTATATTCATATAATTTTTTATATTATAT
*
1569314 TATATTTTAATTA-TTTTTTATAATTATATTTTTAATGTTATATATTTATATAAATAT
66 TATATTTTAATTATTTTTTTATAATTATAATTTTAATGTTATATATTTATATAAATAT
*
1569371 ATTTATGTAAATTTTTTTATATAATATATATTTATATTATATTTATATAATTTTTTATATTATAT
1 ATTTATGTAAATTTTTTTATATAATATATATTTATATTATATTCATATAATTTTTTATATTATAT
*
1569436 TATATTTTAATTATTTTTTTATATTTATAATTTTA
66 TATATTTTAATTATTTTTTTATAATTATAATTTTA
1569471 TTATGTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
122 75 0.80
123 19 0.20
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (123 bp):
ATTTATGTAAATTTTTTTATATAATATATATTTATATTATATTCATATAATTTTTTATATTATAT
TATATTTTAATTATTTTTTTATAATTATAATTTTAATGTTATATATTTATATAAATAT
Found at i:1569419 original size:28 final size:26
Alignment explanation
Indices: 1569264--1569479 Score: 83
Period size: 28 Copynumber: 8.2 Consensus size: 26
1569254 TGTAAATTTT
*
1569264 TTTATATA-ATATGTATTTATATTATA
1 TTTATATATAT-TATATTTATATTATA
*
1569290 TTCATATAT-TT-T-TTTATATTATA
1 TTTATATATATTATATTTATATTATA
* *
1569313 -TTATATTTTAATTATTTTTTATAATTATA
1 TTTATA-TAT-ATTA-TATTTAT-ATTATA
* *
1569342 TTTTTA-ATGTTATATATTTATATAAATATA
1 TTTATATAT-AT-TATATTTATAT---TATA
* * * *
1569372 TTTATGTAAATT-TTTTTATATAATA
1 TTTATATATATTATATTTATATTATA
* * * *
1569397 TATATTTATATTATATTTATATAATTT
1 TTTATATATATTATATTTATATTA-TA
*
1569424 TTTATATTATATTATATTT-TAATTATT
1 TTTATA-TATATTATATTTAT-ATTATA
* *
1569451 TTTTTATAT-TTATAATTT-TATTATG
1 TTTATATATATTAT-ATTTATATTATA
1569476 TTTA
1 TTTA
1569480 ACATTACCAA
Statistics
Matches: 146, Mismatches: 25, Indels: 39
0.70 0.12 0.19
Matches are distributed among these distances:
22 4 0.03
23 13 0.09
24 1 0.01
25 27 0.18
26 26 0.18
27 16 0.11
28 36 0.25
29 9 0.06
30 13 0.09
31 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTATATATATTATATTTATATTATA
Found at i:1569429 original size:29 final size:30
Alignment explanation
Indices: 1569397--1569464 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
1569387 TTATATAATA
1569397 TATATTTATATTATA-TTT-ATATAATTTTT
1 TATATTTATATTATATTTTAAT-TAATTTTT
*
1569426 TATA-TTATATTATATTTTAATTATTTTTT
1 TATATTTATATTATATTTTAATTAATTTTT
1569455 TATATTTATA
1 TATATTTATA
1569465 ATTTTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 10 0.29
29 18 0.51
30 7 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
TATATTTATATTATATTTTAATTAATTTTT
Found at i:1570624 original size:21 final size:22
Alignment explanation
Indices: 1570598--1570646 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
1570588 TAAAATGATA
1570598 TTTTTTCAAAAATGAAA-ATTT
1 TTTTTTCAAAAATGAAAGATTT
* * *
1570619 TTTTTTGAAAAATTAAAGGTTT
1 TTTTTTCAAAAATGAAAGATTT
1570641 TTTTTT
1 TTTTTT
1570647 AATGTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (22 bp):
TTTTTTCAAAAATGAAAGATTT
Found at i:1570780 original size:6 final size:6
Alignment explanation
Indices: 1570765--1570797 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1570755 TTACTTTTAA
1570765 AATATT -ATATT AATATT AATATT AATATT AATA
1 AATATT AATATT AATATT AATATT AATATT AATA
1570798 GTAAATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:1570973 original size:18 final size:16
Alignment explanation
Indices: 1570950--1570991 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 16
1570940 TTATTAAAAT
1570950 AATAATATTGTTATATTA
1 AATAATATT-TT-TATTA
1570968 AATAATATTTTTATTA
1 AATAATATTTTTATTA
1570984 AGATAATA
1 A-ATAATA
1570992 AATTATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
AATAATATTTTTATTA
Found at i:1572616 original size:22 final size:22
Alignment explanation
Indices: 1572561--1572617 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 22
1572551 TATCAAAATT
* ** *
1572561 AATATAAATATAAAATATTTTG
1 AATATAAATATATAATATAATA
*
1572583 AATAT-GAT-TATAATATAATA
1 AATATAAATATATAATATAATA
1572603 AATATAAATATATAA
1 AATATAAATATATAA
1572618 ATTTTTATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 13 0.48
21 4 0.15
22 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
AATATAAATATATAATATAATA
Found at i:1573191 original size:14 final size:14
Alignment explanation
Indices: 1573172--1573215 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1573162 AAATTATATT
1573172 TATTAAAATTTAAA
1 TATTAAAATTTAAA
1573186 TATT-AAATTATAAA
1 TATTAAAATT-TAAA
*
1573200 TA-AAAAATTTAAA
1 TATTAAAATTTAAA
1573213 TAT
1 TAT
1573216 AGTAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TATTAAAATTTAAA
Found at i:1574034 original size:15 final size:15
Alignment explanation
Indices: 1574016--1574093 Score: 54
Period size: 15 Copynumber: 5.1 Consensus size: 15
1574006 TATTTATTTT
*
1574016 ATTTAATATTTAAAA
1 ATTTAATATTTATAA
1574031 ATTTTAA-ATATTA-AA
1 A-TTTAATAT-TTATAA
1574046 TATTT-ATAATTTATAA
1 -ATTTAAT-ATTTATAA
* *
1574062 TTTTATTATTTATAA
1 ATTTAATATTTATAA
* *
1574077 TTTTATTATTTATAA
1 ATTTAATATTTATAA
1574092 AT
1 AT
1574094 ATATTTGTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
14 1 0.02
15 38 0.72
16 14 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTAATATTTATAA
Found at i:1574057 original size:7 final size:7
Alignment explanation
Indices: 1574047--1574091 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
1574037 AATATTAAAT
1574047 ATTTATA
1 ATTTATA
1574054 ATTTATA
1 ATTTATA
*
1574061 ATTTTATT
1 A-TTTATA
1574069 ATTTATA
1 ATTTATA
*
1574076 ATTTTATT
1 A-TTTATA
1574084 ATTTATA
1 ATTTATA
1574091 A
1 A
1574092 ATATATTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 20 0.62
8 12 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTATA
Found at i:1574066 original size:30 final size:30
Alignment explanation
Indices: 1574030--1574091 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
1574020 AATATTTAAA
1574030 AATTTTAA-ATATTA-AATATTTATAATTTAT
1 AATTTTAATAT-TTATAAT-TTTATAATTTAT
* *
1574060 AATTTTATTATTTATAATTTTATTATTTAT
1 AATTTTAATATTTATAATTTTATAATTTAT
1574090 AA
1 AA
1574092 ATATATTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
AATTTTAATATTTATAATTTTATAATTTAT
Found at i:1574072 original size:8 final size:8
Alignment explanation
Indices: 1574030--1574091 Score: 53
Period size: 7 Copynumber: 8.2 Consensus size: 8
1574020 AATATTTAAA
1574030 AATTTTA-
1 AATTTTAT
*
1574037 AATATTA-
1 AATTTTAT
1574044 AATATTTAT
1 AAT-TTTAT
1574053 AA-TTTAT
1 AATTTTAT
1574060 AATTTTAT
1 AATTTTAT
*
1574068 TA-TTTAT
1 AATTTTAT
1574075 AATTTTAT
1 AATTTTAT
*
1574083 TA-TTTAT
1 AATTTTAT
1574090 AA
1 AA
1574092 ATATATTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
7 28 0.62
8 15 0.33
9 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATTTTAT
Found at i:1574098 original size:15 final size:15
Alignment explanation
Indices: 1574048--1574091 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
1574038 ATATTAAATA
*
1574048 TTTATAATTTATAAT
1 TTTATTATTTATAAT
1574063 TTTATTATTTATAAT
1 TTTATTATTTATAAT
1574078 TTTATTATTTATAA
1 TTTATTATTTATAA
1574092 ATATATTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATTATTTATAAT
Found at i:1574793 original size:33 final size:33
Alignment explanation
Indices: 1574752--1574815 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1574742 TTTATTTAAA
1574752 TTTAATTTTAAAAATTAATATAAAAAATAATTT
1 TTTAATTTTAAAAATTAATATAAAAAATAATTT
* * * *
1574785 TTTAATTTTTAAAATTATTTTAAATAATAAT
1 TTTAATTTTAAAAATTAATATAAAAAATAAT
1574816 ATAAACTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (33 bp):
TTTAATTTTAAAAATTAATATAAAAAATAATTT
Found at i:1576026 original size:30 final size:30
Alignment explanation
Indices: 1575992--1576055 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
1575982 TATTAAGCAT
* * *
1575992 TTAACCTTTAATTTATATTGGAATGAGCCC
1 TTAACCTTTAATTCATATTGCAATAAGCCC
* *
1576022 TTAACTTTTAATTCATATTTCAATAAGCCC
1 TTAACCTTTAATTCATATTGCAATAAGCCC
1576052 TTAA
1 TTAA
1576056 TATAATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (30 bp):
TTAACCTTTAATTCATATTGCAATAAGCCC
Found at i:1576324 original size:14 final size:15
Alignment explanation
Indices: 1576297--1576325 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1576287 CTGTGAGGTG
1576297 TTGTAAAAAGTAATT
1 TTGTAAAAAGTAATT
1576312 TTGTAAAAA-TAATT
1 TTGTAAAAAGTAATT
1576326 AGTAACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (15 bp):
TTGTAAAAAGTAATT
Found at i:1577684 original size:4 final size:4
Alignment explanation
Indices: 1577668--1577699 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
1577658 TTAGCAATAA
1577668 AAAT AATAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAA
1577700 AACAATGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:1583831 original size:19 final size:19
Alignment explanation
Indices: 1583804--1583852 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
1583794 CTTAATTATT
1583804 TATTAAATTAACT-ATTTTA
1 TATTAAATTAA-TGATTTTA
*
1583823 TATTTAATTAATGATTTTA
1 TATTAAATTAATGATTTTA
*
1583842 TTATCAAATTA
1 -TATTAAATTA
1583853 TATTATTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 8 0.32
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (19 bp):
TATTAAATTAATGATTTTA
Found at i:1584628 original size:20 final size:23
Alignment explanation
Indices: 1584587--1584633 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1584577 ACTTGCATGG
1584587 TTAATATTTTAATATATATAAAA
1 TTAATATTTTAATATATATAAAA
* *
1584610 TTAAT-TTTTAATTTATAAAAAA
1 TTAATATTTTAATATATATAAAA
1584632 TT
1 TT
1584634 TGTATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATATTTTAATATATATAAAA
Found at i:1585995 original size:20 final size:21
Alignment explanation
Indices: 1585972--1586019 Score: 73
Period size: 19 Copynumber: 2.3 Consensus size: 21
1585962 TTCAAATTCT
1585972 ATTAAAAAAAGTAA-AATAAA
1 ATTAAAAAAAGTAATAATAAA
1585992 ATT-AAAAAAGTAATTAATAAA
1 ATTAAAAAAAGTAA-TAATAAA
1586013 ATTAAAA
1 ATTAAAA
1586020 TATGATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.40
20 3 0.12
21 9 0.36
22 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (21 bp):
ATTAAAAAAAGTAATAATAAA
Found at i:1586000 original size:19 final size:20
Alignment explanation
Indices: 1585976--1586019 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
1585966 AATTCTATTA
1585976 AAAAAAGTAA-AATAAAATT
1 AAAAAAGTAATAATAAAATT
1585995 AAAAAAGTAATTAATAAAATT
1 AAAAAAGTAA-TAATAAAATT
1586016 AAAA
1 AAAA
1586020 TATGATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.43
21 13 0.57
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAAAGTAATAATAAAATT
Found at i:1586726 original size:26 final size:26
Alignment explanation
Indices: 1586697--1586751 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
1586687 AAAATTTATA
*
1586697 AATAAATCTATA-ATTTTATATCTATT
1 AATAAATCTATATA-TATATATCTATT
*
1586723 AATAAATTTATATATATATATCTATT
1 AATAAATCTATATATATATATCTATT
1586749 AAT
1 AAT
1586752 TAATATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (26 bp):
AATAAATCTATATATATATATCTATT
Found at i:1587801 original size:20 final size:20
Alignment explanation
Indices: 1587765--1587807 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1587755 TTTGTTGTTG
*
1587765 AAATCAAAAATTGATTTGGA
1 AAATCAAAAAATGATTTGGA
*
1587785 AAATCAAAATAAT-ATTTTGA
1 AAATCAAAA-AATGATTTGGA
1587805 AAA
1 AAA
1587808 ATAATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (20 bp):
AAATCAAAAAATGATTTGGA
Found at i:1589830 original size:51 final size:51
Alignment explanation
Indices: 1589692--1589837 Score: 188
Period size: 51 Copynumber: 2.8 Consensus size: 51
1589682 AAAAGTCACA
*
1589692 TTTTTACCGAGATGTATTGATACATGTATGAACTGTATCGATACATTATGTCT
1 TTTTTACC-AGATGTATCGATACATGTATGAA-TGTATCGATACATTATGTCT
* *
1589745 TTTTTAGCCATATGTATCGATACATGTATGAATGTATCGATACATTCTGTC-
1 TTTTTA-CCAGATGTATCGATACATGTATGAATGTATCGATACATTATGTCT
* *
1589796 TTTTTACTCAGATGTATCGATACATTGAAT-AATGTATTGATA
1 TTTTTAC-CAGATGTATCGATACA-TGTATGAATGTATCGATA
1589838 GATCTAGTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
50 1 0.01
51 32 0.38
52 22 0.26
53 27 0.32
54 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (51 bp):
TTTTTACCAGATGTATCGATACATGTATGAATGTATCGATACATTATGTCT
Found at i:1601789 original size:8 final size:8
Alignment explanation
Indices: 1601776--1601859 Score: 64
Period size: 8 Copynumber: 9.9 Consensus size: 8
1601766 TTCGTACAAA
1601776 AAAAAAAC
1 AAAAAAAC
1601784 AAAAAAACC
1 AAAAAAA-C
1601793 AAGAAAAAAAC
1 ---AAAAAAAC
*
1601804 AAAAAAAT
1 AAAAAAAC
1601812 AGAAAAAAC
1 A-AAAAAAC
* *
1601821 -CAAAAGC
1 AAAAAAAC
1601828 AAAAAAAC
1 AAAAAAAC
1601836 AAAAAAA-
1 AAAAAAAC
1601843 AAAACAAAC
1 AAAA-AAAC
1601852 AAACAAAA
1 AAA-AAAA
1601860 AAGGGGTCCA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
7 9 0.15
8 30 0.49
9 13 0.21
10 1 0.02
11 1 0.02
12 7 0.11
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1601815 original size:18 final size:19
Alignment explanation
Indices: 1601771--1601861 Score: 68
Period size: 18 Copynumber: 5.0 Consensus size: 19
1601761 CATCCTTCGT
*
1601771 ACAAAAAAAAAACAAAAAA
1 ACAAGAAAAAAACAAAAAA
1601790 ACCAAGAAAAAAACAAAAAA
1 A-CAAGAAAAAAACAAAAAA
* *
1601810 A-TAG-AAAAAAC-CAAAA
1 ACAAGAAAAAAACAAAAAA
*
1601826 GCAA-AAAAACAA-AAAAAA
1 ACAAGAAAAA-AACAAAAAA
* *
1601844 A-AACAAACAAACAAAAAA
1 ACAAGAAAAAAACAAAAAA
1601862 GGGGTCCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
16 4 0.07
17 16 0.28
18 18 0.32
19 1 0.02
20 18 0.32
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.01
Consensus pattern (19 bp):
ACAAGAAAAAAACAAAAAA
Found at i:1603139 original size:28 final size:28
Alignment explanation
Indices: 1603099--1603718 Score: 638
Period size: 28 Copynumber: 21.7 Consensus size: 28
1603089 CTAGAACATT
* * *
1603099 CATCTCTTT-AAAGCCTACAGGTCAATGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
*
1603127 CATCCTTTCAAAGCCTACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
1603155 CATCCTTTCAAAGTCACACAAGTCAGTGA
1 CATCCTTTCAAAG-CCCACAAGTCAGTGG
* *
1603184 CA-CTCTTTCAAAGCTCATAAGTCAGTGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
* * *
1603212 CATCCTTTCAAAGCCTACAAGTTAGTAG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
1603240 CAT-CTCTTCAAAAGACCATAAGTCAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
* *
1603269 CATGCTTTCAAAGCCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
1603297 CACCCTTTTAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
1603325 CATCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
1603353 CATCCTTTCAAAGACCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
1603381 CAT-CTCTTCAAAAGACCACAAGTCAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
* * * *
1603410 CAACCTTTCAAAGTCCACAAGTGAGTGA
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
1603438 CACCCTTTCAAAGCTCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
1603466 CATACCCTTTCAAAGCCCACACAAATCAGTGG
1 CAT--CCTTTCAAAG-CC-CACAAGTCAGTGG
* *
1603498 CACCCTTCCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
1603526 CACCCTTTCAAAGCCCACAAGTCAGTGA
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
1603554 CACCCTTTCAAAGCTCACAAGTCAGTGA
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
1603582 TACCCCCTT-AAAACCTACAAGTCAGTGG
1 CA-TCCTTTCAAAGCCCACAAGTCAGTGG
*
1603610 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
1603638 CATACCCTTTCAAAGCCCACAAATCGGTGG
1 CAT--CCTTTCAAAGCCCACAAGTCAGTGG
* *
1603668 CACCCTTTCAAAGCCCACACAAGTCGGTGG
1 CATCCTTTCAAAG-CC-CACAAGTCAGTGG
* *
1603698 TAACTCTTTTCAAAGCCCACA
1 -CA-TCCTTTCAAAGCCCACA
1603719 CAAGTTAGTG
Statistics
Matches: 508, Mismatches: 62, Indels: 42
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.03
28 327 0.64
29 77 0.15
30 64 0.13
31 4 0.01
32 23 0.05
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (28 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:1603251 original size:85 final size:83
Alignment explanation
Indices: 1603104--1603718 Score: 626
Period size: 85 Copynumber: 7.2 Consensus size: 83
1603094 ACATTCATCT
* * * *
1603104 CTTT-AAAGCCTACAGGTCAATGGCATCCTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* *
1603168 TCACACAAGTCAGTGACACT
66 -C-CACAAGTCAGTGGCACC
* * * * *
1603188 CTTTCAAAGCTCATAAGTCAGTGGCATCCTTTCAAAGCCTACAAGTTAGTAGCAT-CTCTTCAAA
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AA
* **
1603252 AGACCATAAGTCAGTGGCATG
64 AG-CCACAAGTCAGTGGCACC
* * *
1603273 CTTTCAAAGCCCATAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
*
1603338 CCCACAAGTCAGTGGCATC
66 -CCACAAGTCAGTGGCACC
* * *
1603357 CTTTCAAAGACCACAAGTCAGTGGCAT-CTCTTCAAAAGACCACAAGTCAGTGGCAACCTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAA
* *
1603421 AGTCCACAAGTGAGTGACACC
64 AG-CCACAAGTCAGTGGCACC
* * * *
1603442 CTTTCAAAGCTCACAAGTCAGTGGCATACCCTTTCAAAGCCCACACAAATCAGTGGCACCCTTCC
1 CTTTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAG-CC-CACAAGTCAGTGGCATCCTTTC
1603507 AAAGCCCACAAGTCAGTGGCACC
62 AAAG-CCACAAGTCAGTGGCACC
* * * ** * *
1603530 CTTTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGCTCACAAGTCAGTGATACCCCCTT-AAA
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAA
*
1603594 ACCTACAAGTCAGTGGCACC
65 GCC-ACAAGTCAGTGGCACC
* * *
1603614 CTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAAATCGGTGGCACCCTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* *
1603679 AGCCCACACAAGTCGGTGGTAACTC
64 AG--C-CACAAGTCAGTGG-CAC-C
*
1603704 TTTTCAAAGCCCACA
1 CTTTCAAAGCCCACA
1603719 CAAGTTAGTG
Statistics
Matches: 448, Mismatches: 62, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
83 4 0.01
84 108 0.24
85 191 0.43
86 46 0.10
87 4 0.01
88 77 0.17
89 3 0.01
90 15 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (83 bp):
CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
CCACAAGTCAGTGGCACC
Found at i:1604526 original size:20 final size:20
Alignment explanation
Indices: 1604501--1604555 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1604491 TTTTAGCCAG
*
1604501 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* *
1604521 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
1604541 ATGTATCGATACATT
1 ATGTATCGATACATT
1604556 CTGTCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:1604566 original size:71 final size:70
Alignment explanation
Indices: 1604450--1604672 Score: 306
Period size: 71 Copynumber: 3.1 Consensus size: 70
1604440 TTTACCCTAG
*
1604450 ATGTAACGATACATGTATGAATGTATCGATACATTCTGTCTTTTTAGCCAGATGTATCGATACAT
1 ATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTA-CCAGATGTATCGATACAT
*
1604515 TTTTCA
65 TTATCA
1604521 ATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACTCAGATGTATCGATACAT
1 ATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTAC-CAGATGTATCGATACAT
* *
1604586 GTATGA
65 TTATCA
* * **
1604592 ATGTATCGATACAT-TCTTTAATGTATTAATACATTCTGTCTTTTTACCCAGATGTATCGATACA
1 ATGTATCGATACATGT-ATGAATGTATCGATACATTCTGTCTTTTTA-CCAGATGTATCGATACA
*
1604656 TTGAAT-A
64 TT-TATCA
1604663 ATGTATCGAT
1 ATGTATCGAT
1604673 GGATCTAGTT
Statistics
Matches: 138, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
70 2 0.01
71 133 0.96
72 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (70 bp):
ATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCAGATGTATCGATACATT
TATCA
Found at i:1604614 original size:20 final size:20
Alignment explanation
Indices: 1604572--1604628 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
1604562 TTTTACTCAG
*
1604572 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTGA
*
1604592 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATTCTTGA
**
1604612 ATGTATTAATACATTCT
1 ATGTATCGATACATTCT
1604629 GTCTTTTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTGA
Found at i:1606392 original size:52 final size:51
Alignment explanation
Indices: 1606303--1606538 Score: 208
Period size: 52 Copynumber: 4.6 Consensus size: 51
1606293 AAGTAACGGG
* * *
1606303 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCAGA
1 GTTGAAGTATCCCCGATTATGGAAAATTGGTG-TTTTGAAAATAAAATCAGA
* * * *
1606355 GTTGAAGTATCCCCGATTAAAGGAAAATTGTTGTTTTGAAAATAAAACCAGG
1 GTTGAAGTATCCCCGATT-ATGGAAAATTGGTGTTTTGAAAATAAAATCAGA
* * * * *
1606407 GTTGGAGTATCCCTGATTGTGGAAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGAAGTATCCCCGATTATGG-AAAATTGGTGTTTTGAAAATAAAATCAGA
* * * * * * * *
1606459 GTT-AGAGTATCCTCGATTGTTGAAAATTAGTATTTT-AGAAATAAAACCGGG
1 GTTGA-AGTATCCCCGATTATGGAAAATTGGTGTTTTGA-AAATAAAATCAGA
*
1606510 GTT-AGAGTATCCCCGATTATGAAAAATTG
1 GTTGA-AGTATCCCCGATTATGGAAAATTG
1606539 AGAGACTTAA
Statistics
Matches: 150, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
50 1 0.01
51 48 0.32
52 90 0.60
53 11 0.07
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GTTGAAGTATCCCCGATTATGGAAAATTGGTGTTTTGAAAATAAAATCAGA
Found at i:1608994 original size:19 final size:21
Alignment explanation
Indices: 1608970--1609022 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
1608960 AGCGATGCAC
*
1608970 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
1608989 TGTATCGATACATTTTACTGAA
1 TGTATCGATACA-TTTACTGAA
1609011 TGTATCGATACA
1 TGTATCGATACA
1609023 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.40
21 5 0.17
22 13 0.43
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:1609032 original size:22 final size:22
Alignment explanation
Indices: 1608970--1609032 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
1608960 AGCGATGCAC
*
1608970 TGTATCGATAC--ATTACT-TA
1 TGTATCGATACAAATTACTGAA
**
1608989 TGTATCGATACATTTTACTGAA
1 TGTATCGATACAAATTACTGAA
*
1609011 TGTATCGATACAAATTATTGAA
1 TGTATCGATACAAATTACTGAA
1609033 ATTCAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 11 0.31
21 5 0.14
22 20 0.56
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (22 bp):
TGTATCGATACAAATTACTGAA
Found at i:1614765 original size:55 final size:55
Alignment explanation
Indices: 1614565--1615034 Score: 588
Period size: 55 Copynumber: 8.3 Consensus size: 55
1614555 ATAAAGTGCA
**
1614565 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT------GAAAGGCG
* ** *
1614626 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAACA
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-G----CG
* *
1614687 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGACG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1614742 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1614797 TCCTGCTCTTTAAGGACTAGAAAATGCCACTAACTCGTGTGGGC-TTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
1614851 TCCTGCTCTTTAAGGACTGGAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1614906 TCCTGCTCTTTGACGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1614961 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1615016 TCCTGCTCTTTAAGGACTA
1 TCCTGCTCTTTGAGGACTA
1615035 AAGGGCAAAA
Statistics
Matches: 372, Mismatches: 27, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
54 55 0.15
55 222 0.60
56 4 0.01
57 1 0.00
60 4 0.01
61 84 0.23
62 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1614984 original size:26 final size:26
Alignment explanation
Indices: 1614899--1614984 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
1614889 GTGGGCTTTA
*
1614899 AAAGGCGTCCTGCTCTTTGACGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
* ** * * *
1614925 AAAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--TG
1614954 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
1614980 AAAGG
1 AAAGG
1614985 TGCCACCAAC
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.38
27 4 0.10
28 5 0.12
29 11 0.26
30 3 0.07
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (26 bp):
AAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:1615119 original size:55 final size:55
Alignment explanation
Indices: 1615052--1615292 Score: 403
Period size: 55 Copynumber: 4.4 Consensus size: 55
1615042 AAAGGAGAGA
* *
1615052 GCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
1615107 GCGTCCTGCTCTTTGAAGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1615162 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
1615217 GCGTCCTGCTCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
1615272 GGGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
1615293 AAAGGGCGAA
Statistics
Matches: 174, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
54 4 0.02
55 167 0.96
56 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:1615173 original size:149 final size:150
Alignment explanation
Indices: 1614903--1615188 Score: 479
Period size: 149 Copynumber: 1.9 Consensus size: 150
1614893 GCTTTAAAAG
*
1614903 GCGTCCTGCTCTTTGACGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTACTCTTTGACGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
* *
1614968 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGAC
66 CTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGAC
1615033 T-AAAGGGCAAAAGGAGAGA
131 TGAAAGGGCAAAAGGAGAGA
* *
1615052 GCGTCCTACTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
1 GCGTCCTACTCTTTGACGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
*
1615116 TCTTTGAAGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
65 TCTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGG
1615180 ACTGAAAGG
129 ACTGAAAGG
1615189 TGCCACCAAC
Statistics
Matches: 128, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
149 116 0.91
150 12 0.09
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (150 bp):
GCGTCCTACTCTTTGACGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGAC
TGAAAGGGCAAAAGGAGAGA
Found at i:1615187 original size:26 final size:26
Alignment explanation
Indices: 1615158--1615241 Score: 62
Period size: 26 Copynumber: 3.1 Consensus size: 26
1615148 GTGGGCTTTA
1615158 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
* ** * * *
1615184 AAAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--TG
*
1615213 AAAGGCGTCCTGCTCCTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
1615239 AAA
1 AAA
1615242 AGTGCCACCA
Statistics
Matches: 40, Mismatches: 13, Indels: 10
0.63 0.21 0.16
Matches are distributed among these distances:
25 3 0.08
26 14 0.35
27 5 0.12
28 5 0.12
29 10 0.25
30 3 0.08
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (26 bp):
AAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:1615198 original size:204 final size:204
Alignment explanation
Indices: 1614848--1615237 Score: 683
Period size: 204 Copynumber: 1.9 Consensus size: 204
1614838 GGCTTGAAAG
* *
1614848 GCGTCCTGCTCTTTAAGGACTGGAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTACTCTTTAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* *
1614913 CTTTGACGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
66 CTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
*
1614978 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGCAA
131 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCCTTAAGGACTAAAGGGCAA
1615043 AAGGAGAGA
196 AAGGAGAGA
* * *
1615052 GCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTACTCTTTAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1615117 CTTTGAAGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
66 CTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
*
1615181 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCCTTGAGGACT
130 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCCTTAAGGACT
1615238 GAAAAGTGCC
Statistics
Matches: 176, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
204 172 0.98
205 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (204 bp):
GCGTCCTACTCTTTAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCCTTAAGGACTAAAGGGCAA
AAGGAGAGA
Found at i:1615307 original size:259 final size:259
Alignment explanation
Indices: 1614794--1615366 Score: 988
Period size: 259 Copynumber: 2.2 Consensus size: 259
1614784 GCTTTGAAAG
* * * * * *
1614794 GCGTCCTGCTCTTTAAGGACTAGAAAATGCCACTAACTCGTGTGGGC-TTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
1614858 CTTTAAGGACTGGAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGACGAC
66 CTTTAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGACGAC
* *
1614923 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGC
131 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGC
1614988 CACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGCAAAAGGAGAGA
196 CACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGCAAAAGGAGAGA
*
1615052 GCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
1615117 CTTTGAA-GACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
66 CTTT-AAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGACGA
1615181 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTG
130 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTG
* * *
1615246 CCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
195 CCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGCAAAAGGAGAGA
*
1615311 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1615367 AAAAGGCATC
Statistics
Matches: 297, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
258 40 0.13
259 255 0.86
260 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (259 bp):
GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGACGAC
TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGC
CACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGCAAAAGGAGAGA
Found at i:1616375 original size:1 final size:1
Alignment explanation
Indices: 1616369--1616440 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
1616359 TAGATTCTTC
* * * * * * * *
1616369 TTTTTTTTTTCTTTTTTTCTTTGTTTTTTCTTTGTTTTTTTTTTTTTTTGTTTTTTTTTGTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1616434 TTTTTTT
1 TTTTTTT
1616441 GAAAAAGAAT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:1616390 original size:19 final size:19
Alignment explanation
Indices: 1616366--1616425 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
1616356 AAGTAGATTC
1616366 TTCTTTTTTTTTTCTTTTT
1 TTCTTTTTTTTTTCTTTTT
*
1616385 TTCTTTGTTTTTTCTTTGTT
1 TTCTTTTTTTTTTCTTT-TT
* *
1616405 TTTTTTTTTTTTTGTTTTT
1 TTCTTTTTTTTTTCTTTTT
1616424 TT
1 TT
1616426 TTGTGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (19 bp):
TTCTTTTTTTTTTCTTTTT
Found at i:1616418 original size:27 final size:27
Alignment explanation
Indices: 1616369--1616440 Score: 103
Period size: 26 Copynumber: 2.7 Consensus size: 27
1616359 TAGATTCTTC
*
1616369 TTTTTT-TTTTCTTTTTTTCTTTGTTT
1 TTTTTTGTTTTTTTTTTTTCTTTGTTT
1616395 TTTCTTTGTTTTTTTTTTTT-TTTGTTT
1 TTT-TTTGTTTTTTTTTTTTCTTTGTTT
*
1616422 TTTTTTGTGTTTTTTTTTT
1 TTTTTTGTTTTTTTTTTTT
1616441 GAAAAAGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.43
27 13 0.31
28 11 0.26
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (27 bp):
TTTTTTGTTTTTTTTTTTTCTTTGTTT
Found at i:1629162 original size:79 final size:79
Alignment explanation
Indices: 1629079--1629225 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 79
1629069 GATGTTACAA
* * *
1629079 AAATAAAGTCGGGATTGGAGTATCCCCAT-GAAAATAATAGGGTTGGAGTATCCCCAATTATGAG
1 AAATAAAGCCGGGATTGGAGTATCCCC-TCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAA
1629143 AAATCAATATTTTGG
65 AAATCAATATTTTGG
* * * * *
1629158 AAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAAA
1 AAATAAAGCCGGGATTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAA
1629223 AAT
66 AAT
1629226 TGGTGTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 1 0.02
79 58 0.98
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (79 bp):
AAATAAAGCCGGGATTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAAA
AATCAATATTTTGG
Found at i:1629263 original size:80 final size:79
Alignment explanation
Indices: 1629118--1629264 Score: 195
Period size: 80 Copynumber: 1.8 Consensus size: 79
1629108 GAAAATAATA
* * * *
1629118 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAACCAGAGTTGGAGTATCC
1629183 CCTCGGAAGTAACG
66 CCTCGGAAGTAACG
* *** * *
1629197 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATC
1 GGGTTGGAGTATCCCCAATTATGAAAAATCAAT-ATTTTGGAAATAAAACCAGAGTTGGAGTATC
1629262 CCC
65 CCC
1629265 GATTAAAGGA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 28 0.49
80 29 0.51
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAACCAGAGTTGGAGTATCC
CCTCGGAAGTAACG
Found at i:1629346 original size:51 final size:50
Alignment explanation
Indices: 1629197--1629433 Score: 260
Period size: 51 Copynumber: 4.6 Consensus size: 50
1629187 GGAAGTAACG
*
1629197 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCA
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTG--TTTGAAAATAAAATCA
* * * *
1629249 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGGCTTGAAAATAAAA-CTA
1 GGGTTGGAGTATCCCCGATT-ATGAAAAATTGGT-GTTTGAAAATAAAATC-A
* * * *
1629301 GGGTTGGAATATCCCTGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCA
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTT-GAAAATAAAATCA
** * * * * *
1629352 AAGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTGA-AAATAAAATCA
1629403 GGGTTGGAGTATCCCCGATTATGAAAAATTG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTG
1629434 AGAGACTTAA
Statistics
Matches: 155, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.03
51 90 0.58
52 49 0.32
53 11 0.07
54 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTGAAAATAAAATCA
Found at i:1629431 original size:102 final size:104
Alignment explanation
Indices: 1629197--1629433 Score: 309
Period size: 102 Copynumber: 2.3 Consensus size: 104
1629187 GGAAGTAACG
* * *
1629197 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTCGAAAATAAAATCAAAGTTGGAGTATC
* * *
1629262 CCCGATTAAAGGAAAATTGGTGGCTTGAAAATAAAACTA
66 CCCGATTAAAGAAAAATTAGTGGCTTGAAAATAAAACCA
* * * *
1629301 GGGTTGGAATATCCCTGATTGTGGAAAATTGGTG-TTTCGAAAATAAAATCAAAGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTCGAAAATAAAATCAAAGTTGGAGTATC
** * * *
1629365 CCCGATT-GTGAAAAATTAGT-GTTTTAGAAATAAAACCC
66 CCCGATTAAAGAAAAATTAGTGGCTTGA-AAATAAAACCA
1629403 GGGTTGGAGTATCCCCGATTATGAAAAATTG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTG
1629434 AGAGACTTAA
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
101 4 0.04
102 45 0.40
103 34 0.30
104 30 0.27
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (104 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTCGAAAATAAAATCAAAGTTGGAGTATC
CCCGATTAAAGAAAAATTAGTGGCTTGAAAATAAAACCA
Found at i:1634573 original size:16 final size:16
Alignment explanation
Indices: 1634489--1634574 Score: 55
Period size: 17 Copynumber: 5.8 Consensus size: 16
1634479 TTTTATCACG
*
1634489 TAATAATTTTAT-TTA
1 TAATAATTTTATATTT
*
1634504 AAAT-ATTTTATATTT
1 TAATAATTTTATATTT
* *
1634519 ATATTAATTTTAATATAT
1 -TAATAATTTT-ATATTT
1634537 TAATAATTTT-TA--T
1 TAATAATTTTATATTT
1634550 T-AT-A--TTATATTT
1 TAATAATTTTATATTT
1634562 TAATAATTTTATA
1 TAATAATTTTATA
1634575 AATAATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 21
0.67 0.07 0.26
Matches are distributed among these distances:
9 2 0.04
10 2 0.04
11 1 0.02
12 4 0.07
13 4 0.07
14 8 0.15
15 7 0.13
16 7 0.13
17 14 0.26
18 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATAATTTTATATTT
Found at i:1634582 original size:23 final size:24
Alignment explanation
Indices: 1634489--1634599 Score: 86
Period size: 25 Copynumber: 4.5 Consensus size: 24
1634479 TTTTATCACG
*
1634489 TAATAATTTTATTTAA-AATATTT
1 TAATAATTTTATTAAATAATATTT
* *
1634512 T-AT-ATTTATATTAATTTTAATATAT
1 TAATAATTT-TATTAA--ATAATATTT
* *
1634537 TAATAATTTTTATTATATTATATTT
1 TAATAA-TTTTATTAAATAATATTT
1634562 TAATAATTTTA-TAAATAATATATT
1 TAATAATTTTATTAAATAATAT-TT
*
1634586 TATATAATTATATT
1 TA-ATAATTTTATT
1634600 TTAAATTATC
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
21 4 0.06
22 7 0.10
23 9 0.13
24 9 0.13
25 27 0.40
26 3 0.04
27 6 0.09
28 3 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TAATAATTTTATTAAATAATATTT
Found at i:1634588 original size:39 final size:42
Alignment explanation
Indices: 1634511--1634603 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 42
1634501 TTAAAATATT
* * *
1634511 TTATATTTATATTAATTTTAATATATTAATAATTTTTAT-TATA
1 TTATATTT-TAATAATTTTAATATAATAATAATATTTATATA-A
1634554 TTATATTTTAATAATTTT-ATA-AATAAT-ATATTTATATAA
1 TTATATTTTAATAATTTTAATATAATAATAATATTTATATAA
1634593 TTATATTTTAA
1 TTATATTTTAA
1634604 ATTATCGGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
39 19 0.41
40 7 0.15
41 3 0.07
42 9 0.20
43 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (42 bp):
TTATATTTTAATAATTTTAATATAATAATAATATTTATATAA
Found at i:1639859 original size:12 final size:12
Alignment explanation
Indices: 1639842--1639867 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1639832 TATCACTGTT
1639842 TCATAATTAATA
1 TCATAATTAATA
1639854 TCATAATTAATA
1 TCATAATTAATA
1639866 TC
1 TC
1639868 GCGAACCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (12 bp):
TCATAATTAATA
Found at i:1640691 original size:24 final size:23
Alignment explanation
Indices: 1640664--1640710 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1640654 GTTTGTGAGC
*
1640664 TTAATTAATTAATTTTTTTATTTT
1 TTAA-TAAATAATTTTTTTATTTT
*
1640688 TTAATAAATATTTTTTTTATTTT
1 TTAATAAATAATTTTTTTATTTT
1640711 ATCGTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTAATAAATAATTTTTTTATTTT
Found at i:1641289 original size:20 final size:20
Alignment explanation
Indices: 1641248--1641291 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1641238 TTTTCTAAAT
* *
1641248 AATTATTTTTATTATTATTA
1 AATTATTTTTAATATTAATA
1641268 AATTATTTTTTAATA-TAATA
1 AATTA-TTTTTAATATTAATA
1641288 AATT
1 AATT
1641292 TTTATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTATTTTTAATATTAATA
Found at i:1641644 original size:16 final size:16
Alignment explanation
Indices: 1641623--1641656 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1641613 TGACTCGAAC
*
1641623 TTAAAATTACTTAAAT
1 TTAAAATAACTTAAAT
*
1641639 TTAAAATAATTTAAAT
1 TTAAAATAACTTAAAT
1641655 TT
1 TT
1641657 TATTAACTTG
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATAACTTAAAT
Found at i:1642029 original size:3 final size:3
Alignment explanation
Indices: 1642021--1642087 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
1642011 TGTTTAATTG
* *
1642021 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
1642069 TTA ATA ATA ATA A-A ATA AT
1 ATA ATA ATA ATA ATA ATA AT
1642088 TTGTCAAACT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:1642378 original size:3 final size:3
Alignment explanation
Indices: 1642330--1642359 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1642320 CTCCAAGCCT
1642330 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1642360 AATCTGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1645745 original size:22 final size:22
Alignment explanation
Indices: 1645720--1645762 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1645710 TATTTTTATT
1645720 TAAATA-TAATTATAAAAATAAA
1 TAAATATTAA-TATAAAAATAAA
1645742 TAAATATTAATATAAAAATAA
1 TAAATATTAATATAAAAATAA
1645763 TTTTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATATTAATATAAAAATAAA
Found at i:1645933 original size:6 final size:6
Alignment explanation
Indices: 1645915--1646056 Score: 51
Period size: 5 Copynumber: 25.2 Consensus size: 6
1645905 TGTATTTATG
* * *
1645915 TTATAT TTAT-T TTATTT TTATAT TTA-AA TTAT-T ATATAT TT-TAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
* * * * ** *
1645959 ATAAAT TT-TA- ATAAAT TTATAT ATT-TAT ATCGTAT TTATA- TTATTT
1 TTATAT TTATAT TTATAT TTATAT -TTATAT -TTATAT TTATAT TTATAT
1646005 TTATA- TTATAT TT-TA- TTATA- TTATATT TTAACTAT TTAT-T TTATA-
1 TTATAT TTATAT TTATAT TTATAT TTATA-T TT-A-TAT TTATAT TTATAT
1646050 TTATAT T
1 TTATAT T
1646057 GATAATATAT
Statistics
Matches: 101, Mismatches: 18, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
4 3 0.03
5 46 0.46
6 38 0.38
7 8 0.08
8 4 0.04
9 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (6 bp):
TTATAT
Done.