Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006868.1 Hibiscus syriacus cultivar Beakdansim tig00017479_pilon, whole genome shotgun sequence
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: 314544
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:3539 original size:6 final size:6
Alignment explanation
Indices: 3530--3554 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3520 GGGATGATAA
3530 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
3555 AAACCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:3634 original size:13 final size:13
Alignment explanation
Indices: 3618--3660 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
3608 GCCCCGATTA
3618 CCCGATTACCCGC
1 CCCGATTACCCGC
*
3631 CCCGATT-TCCGC
1 CCCGATTACCCGC
*
3643 CCCGA-TACCCGA
1 CCCGATTACCCGC
3655 CCCGAT
1 CCCGAT
3661 AAATATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 17 0.68
13 7 0.28
ACGTcount: A:0.16, C:0.51, G:0.16, T:0.16
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:3685 original size:2 final size:2
Alignment explanation
Indices: 3678--3775 Score: 64
Period size: 2 Copynumber: 52.0 Consensus size: 2
3668 AAAAATAATT
3678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * * *
3717 AA TT TA -A TT TA AA TA -A AA AA TA TA TT TA TA TA TT TA -A TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3756 TA AA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
3776 CCCGACCCGA
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
1 6 0.08
2 67 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3805 original size:24 final size:24
Alignment explanation
Indices: 3773--3827 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
3763 ATATATATAT
* * *
3773 ATACCCGACCCGATTCTCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
3797 ATACCCGACCCAATACCCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
3821 ATACCCG
1 ATACCCG
3828 TTTAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (24 bp):
ATACCCGACCCAATACCCGGCCCA
Found at i:3810 original size:12 final size:12
Alignment explanation
Indices: 3773--3827 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
3763 ATATATATAT
*
3773 ATACCCGACCCG
1 ATACCCGACCCA
* * *
3785 ATTCTCGGCCCA
1 ATACCCGACCCA
3797 ATACCCGACCCA
1 ATACCCGACCCA
*
3809 ATACCCGGCCCA
1 ATACCCGACCCA
3821 ATACCCG
1 ATACCCG
3828 TTTAAATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:16900 original size:15 final size:17
Alignment explanation
Indices: 16868--16907 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
16858 ATTAGCTTGG
*
16868 TTTTATTTTTCTATTTT
1 TTTTATTTTTCGATTTT
16885 TTTTATTTTT-GA-TTT
1 TTTTATTTTTCGATTTT
16900 TTTTATTT
1 TTTTATTT
16908 AGTCTTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 10 0.45
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTATTTTTCGATTTT
Found at i:20067 original size:13 final size:13
Alignment explanation
Indices: 20049--20073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20039 CGATAGAAAA
20049 ATATTTAATAAAT
1 ATATTTAATAAAT
20062 ATATTTAATAAA
1 ATATTTAATAAA
20074 GCATAGATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTAATAAAT
Found at i:20109 original size:19 final size:17
Alignment explanation
Indices: 20085--20120 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
20075 CATAGATTAA
20085 ATTTAATAGTAATATATTT
1 ATTTAATA-T-ATATATTT
20104 ATTTAATATATATATTT
1 ATTTAATATATATATTT
20121 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTAATATATATATTT
Found at i:20819 original size:28 final size:28
Alignment explanation
Indices: 20766--20822 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
20756 TCGCCATTGC
* *
20766 TTTCGAGCACTGACTCGACGATATAATG
1 TTTCGAGCACTGACTCAACGACATAATG
*
20794 TTTCTAGCACTGACTCAATC-ACATAATG
1 TTTCGAGCACTGACTCAA-CGACATAATG
20822 T
1 T
20823 AAACGAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (28 bp):
TTTCGAGCACTGACTCAACGACATAATG
Found at i:21045 original size:59 final size:60
Alignment explanation
Indices: 20973--21096 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
20963 GTCAGATGAC
* *
20973 CATTTTATAACTTTTAATAGTTGA-GGACTCAATAAA-TCA-ATGTCCTATAATCAAGAGAT
1 CATTTTATAACTTTTAATAGTTGAGGGACTCAACAAAGTAACAT-T-CTATAATCAAGAGAT
* * *
21032 CATTTTGTAACTTTTAATAGTTGAGGGATTCAACAAAGTAACATTCTATAGTCAAGAGAT
1 CATTTTATAACTTTTAATAGTTGAGGGACTCAACAAAGTAACATTCTATAATCAAGAGAT
21092 CATTT
1 CATTT
21097 GTGTGATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
59 23 0.40
60 29 0.51
61 3 0.05
62 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAGTTGAGGGACTCAACAAAGTAACATTCTATAATCAAGAGAT
Found at i:21881 original size:26 final size:26
Alignment explanation
Indices: 21852--21912 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
21842 GTTGTTCGTT
21852 GGATTGCTTGGTTGCTAAGAAAAATA
1 GGATTGCTTGGTTGCTAAGAAAAATA
*
21878 GGATTGCTTGGTTGCTAATAAAAATA
1 GGATTGCTTGGTTGCTAAGAAAAATA
21904 GGATTGCTT
1 GGATTGCTT
21913 TTAGATTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.34
Consensus pattern (26 bp):
GGATTGCTTGGTTGCTAAGAAAAATA
Found at i:25977 original size:39 final size:41
Alignment explanation
Indices: 25933--26027 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 41
25923 TAGCATTAAG
*
25933 TTTATTTAGTTG-AAATG-ATAATTAAAAAATTAGGGTATA
1 TTTATTTAGATGTAAATGTATAATTAAAAAATTAGGGTATA
* * *
25972 TTTATTTTGATGTAATTGTTTAATTAAAAAATTAGGGTATA
1 TTTATTTAGATGTAAATGTATAATTAAAAAATTAGGGTATA
*
26013 TTTATTTTGATGTAA
1 TTTATTTAGATGTAA
26028 TTGTTTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 10 0.20
40 4 0.08
41 36 0.72
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (41 bp):
TTTATTTAGATGTAAATGTATAATTAAAAAATTAGGGTATA
Found at i:25998 original size:41 final size:41
Alignment explanation
Indices: 25951--26033 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
25941 GTTGAAATGA
25951 TAATTAAAAAATTAGGGTATATTTATTTTGATGTAATTGTT
1 TAATTAAAAAATTAGGGTATATTTATTTTGATGTAATTGTT
25992 TAATTAAAAAATTAGGGTATATTTATTTTGATGTAATTGTT
1 TAATTAAAAAATTAGGGTATATTTATTTTGATGTAATTGTT
26033 T
1 T
26034 TTTTTTAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.49
Consensus pattern (41 bp):
TAATTAAAAAATTAGGGTATATTTATTTTGATGTAATTGTT
Found at i:28204 original size:35 final size:37
Alignment explanation
Indices: 28139--28210 Score: 130
Period size: 35 Copynumber: 2.0 Consensus size: 37
28129 TATGTGAAGG
28139 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
28176 GGGAACAGATT-CCCCCT-GGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
28211 CCTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 18 0.51
36 6 0.17
37 11 0.31
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (37 bp):
GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
Found at i:28654 original size:20 final size:18
Alignment explanation
Indices: 28629--28677 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
28619 ATAAGCTATT
28629 TGAATATATGAAATGACATA
1 TGAATATATGAAATG--ATA
* *
28649 TGAATATGTGATATGATA
1 TGAATATATGAAATGATA
28667 TGAAATATATG
1 TG-AATATATG
28678 GTTACACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 5 0.20
19 7 0.28
20 13 0.52
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (18 bp):
TGAATATATGAAATGATA
Found at i:29979 original size:11 final size:11
Alignment explanation
Indices: 29961--29996 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
29951 AAGAAAAAAC
*
29961 ATAA-AAAATG
1 ATAATAAAATA
29971 ATAATAAAATA
1 ATAATAAAATA
29982 ATAATAAAATA
1 ATAATAAAATA
29993 ATAA
1 ATAA
29997 ATCAAAGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:30032 original size:51 final size:50
Alignment explanation
Indices: 29941--30046 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 50
29931 AAAAAATATT
* * *
29941 AAATAAATTAAAGAAAAAACATAAAAAATGATAATAAAATAA-TAATAAA
1 AAATAAATCAAAGAAAAAACATAAAAAATAATAATAAAATAACAAATAAA
*
29990 ATAATAAATCAAAGGAAAAAA-ATAAGAAATAAATAA-ATAAATAACAAATAAA
1 A-AATAAATCAAA-GAAAAAACATAAAAAAT-AATAATA-AAATAACAAATAAA
30042 AAATA
1 AAATA
30047 CTCAAACTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
49 1 0.02
50 19 0.40
51 21 0.44
52 7 0.15
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.19
Consensus pattern (50 bp):
AAATAAATCAAAGAAAAAACATAAAAAATAATAATAAAATAACAAATAAA
Found at i:30033 original size:19 final size:18
Alignment explanation
Indices: 30005--30046 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
29995 AAATCAAAGG
*
30005 AAAA-AAATAAGAAATAA
1 AAAATAAATAACAAATAA
30022 ATAAATAAATAACAAATAA
1 A-AAATAAATAACAAATAA
30041 AAAATA
1 AAAATA
30047 CTCAAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 8 0.36
19 13 0.59
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAATAAATAACAAATAA
Found at i:36695 original size:36 final size:36
Alignment explanation
Indices: 36601--36981 Score: 288
Period size: 36 Copynumber: 10.9 Consensus size: 36
36591 CAAAGGTTGG
*
36601 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
36638 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
36674 TGTTTCAAAAGAAACTATCTCAAAAAGAGACAAAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTC---AAGAG----AGACAAAATT
*
36717 TGTTTCAAGAGAAACTGACTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
36754 AGTTCCAAAAGAAACTGTCTCAAGGGAGACCAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
36790 TGTTT-AATGTA-AAACATAT-TC-A-A-AG-----ATT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* *
36818 TATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
36854 TGTTTCAAGGGAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
36883 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
36919 TATTTC-----AAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
36950 TATTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
36982 CTTTATTTTG
Statistics
Matches: 278, Mismatches: 30, Indels: 73
0.73 0.08 0.19
Matches are distributed among these distances:
27 2 0.01
28 16 0.06
29 23 0.08
30 2 0.01
31 33 0.12
32 2 0.01
33 4 0.01
34 1 0.00
35 4 0.01
36 85 0.31
37 68 0.24
39 5 0.02
40 5 0.02
43 28 0.10
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:36716 original size:43 final size:42
Alignment explanation
Indices: 36664--36749 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 42
36654 GTCTCAAGAG
36664 AGACAAAATTTGTTTCAAAAGAAACT-ATCTCAAAAAGAGACAA
1 AGACAAAATTTGTTTCAAAAGAAACTGA-CTC-AAAAGAGACAA
* *
36707 AGACAAAATTTGTTTCAAGAGAAACTGACTCAAGAGAGACAA
1 AGACAAAATTTGTTTCAAAAGAAACTGACTCAAAAGAGACAA
36749 A
1 A
36750 ACTTAGTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
42 11 0.28
43 28 0.70
44 1 0.03
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (42 bp):
AGACAAAATTTGTTTCAAAAGAAACTGACTCAAAAGAGACAA
Found at i:36742 original size:79 final size:81
Alignment explanation
Indices: 36627--36776 Score: 232
Period size: 79 Copynumber: 1.9 Consensus size: 81
36617 GTCTCAAGAG
* * * * *
36627 AGACAAAACTTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA-TTTGTTTCAAAAGAAACTA
1 AGACAAAACTTTGTTTCAAGAGAAACTGACTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTA
36691 TCTCAAAAAGAGACAA
66 TCTCAAAAAGAGACAA
*
36707 AGACAAAA-TTTGTTTCAAGAGAAACTGACTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTG
1 AGACAAAACTTTGTTTCAAGAGAAACTGACTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTA
36771 TCTCAA
66 TCTCAA
36777 GGGAGACCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 33 0.52
80 30 0.48
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (81 bp):
AGACAAAACTTTGTTTCAAGAGAAACTGACTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTA
TCTCAAAAAGAGACAA
Found at i:36869 original size:64 final size:66
Alignment explanation
Indices: 36764--36926 Score: 251
Period size: 65 Copynumber: 2.5 Consensus size: 66
36754 AGTTCCAAAA
* * *
36764 GAAACTGTCTCAAGGGAGACCAAATTTGTTT-AATGTAAAACATATTCAAAGA-TTTATTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAATGGAAAACATATTCAAAGATTTTATTTCAAG
36827 G
66 G
* *
36828 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGGAAACATATTCAAAGATTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAATGGAAAACATATTCAAAGATTTTATTTCAAG
36892 G
66 G
*
36893 GAAACTGTCTCAAGAGAGACAAAATTTATTTCAA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAA
36927 ACTATCTCAA
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 45 0.49
65 46 0.51
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (66 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAATGGAAAACATATTCAAAGATTTTATTTCAAG
G
Found at i:36929 original size:31 final size:32
Alignment explanation
Indices: 36894--36989 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 32
36884 GTTTCAAGGG
36894 AAACTGTCTCAAGAGAGACAAAATTTATTTC-
1 AAACTGTCTCAAGAGAGACAAAATTTATTTCA
*
36925 AAACTATCTCAAGAGAGACAAAATTTATTTCAAGA
1 AAACTGTCTCAAGAGAGACAAAATTTATTTC---A
*
36960 GAAACTGTCTCAAGAGAGAC-AACTTTATTT
1 -AAACTGTCTCAAGAGAGACAAAATTTATTT
36990 TGAGTAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
31 30 0.53
35 9 0.16
36 18 0.32
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (32 bp):
AAACTGTCTCAAGAGAGACAAAATTTATTTCA
Found at i:38482 original size:95 final size:95
Alignment explanation
Indices: 38285--38527 Score: 274
Period size: 95 Copynumber: 2.5 Consensus size: 95
38275 AGCTGAGGCG
* * * * * *
38285 TTTAACCAATTGCTCTAGAGGGACAGCTCAATATCATTGTATAG-ATATTATACTCACATTTATT
1 TTTAACCAATTGCTCTAGAAGGACAACTC-A-AGC-TT-TATTGTATATTATAATCACATTTATC
* * * * *
38349 AGGCTAGCTGAATATTATCCATAAAGCTGGGGCG
62 AGGATAACTGAATATTATCCATAAAGCCGGAGCA
* * *
38383 TTTAACCAATTGCTCTGGAAGGACAACTCAAGCTTTATTGTATATTATAATCGCCTTTATCAGGA
1 TTTAACCAATTGCTCTAGAAGGACAACTCAAGCTTTATTGTATATTATAATCACATTTATCAGGA
*
38448 TAACTGAATCTTATCCATAAAGCCGGAGCA
66 TAACTGAATATTATCCATAAAGCCGGAGCA
*
38478 TTTAACCAATTGCTCTAG-AGAGATAACTCAAGCTTTATTGTATATATATA
1 TTTAACCAATTGCTCTAGAAG-GACAACTCAAGCTTTATTGTATAT-TATA
38528 TATAATTATA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
94 6 0.05
95 86 0.69
96 6 0.05
97 1 0.01
98 26 0.21
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (95 bp):
TTTAACCAATTGCTCTAGAAGGACAACTCAAGCTTTATTGTATATTATAATCACATTTATCAGGA
TAACTGAATATTATCCATAAAGCCGGAGCA
Found at i:39972 original size:21 final size:23
Alignment explanation
Indices: 39946--39993 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
39936 TTTGAAATTA
39946 CTCCCCCTT-ACT-TTAACACTT
1 CTCCCCCTTAACTCTTAACACTT
*
39967 CTCCCCTTTAACTCCTTAACACTT
1 CTCCCCCTTAACT-CTTAACACTT
39991 CTC
1 CTC
39994 ATCTTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 3 0.13
24 12 0.52
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.38
Consensus pattern (23 bp):
CTCCCCCTTAACTCTTAACACTT
Found at i:43607 original size:14 final size:14
Alignment explanation
Indices: 43588--43622 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
43578 GCTTGAATTC
*
43588 CGGGCTGTTGAGTT
1 CGGGCTGGTGAGTT
43602 CGGGCTTGGTGAGTT
1 CGGGC-TGGTGAGTT
43617 CGGGCT
1 CGGGCT
43623 TGGTTCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.06, C:0.17, G:0.46, T:0.31
Consensus pattern (14 bp):
CGGGCTGGTGAGTT
Found at i:43614 original size:15 final size:15
Alignment explanation
Indices: 43596--43626 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43586 TCCGGGCTGT
43596 TGAGTTCGGGCTTGG
1 TGAGTTCGGGCTTGG
43611 TGAGTTCGGGCTTGG
1 TGAGTTCGGGCTTGG
43626 T
1 T
43627 TCAAGCCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.13, G:0.45, T:0.35
Consensus pattern (15 bp):
TGAGTTCGGGCTTGG
Found at i:44100 original size:53 final size:53
Alignment explanation
Indices: 44059--44669 Score: 849
Period size: 53 Copynumber: 11.5 Consensus size: 53
44049 TCACTTCCTC
* ** * *
44059 TTTCTTCAGGGAGTAGAACTCGAACATTCTTCTTCATACGGG-CTCGCTCTCTCT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCT-A
* * * *
44113 TTTCTTCAGGGAGTAGAACTCGAACAATCATCTTCCTACGGGTCTGTTCTCTC
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* * * *
44166 TTCCTTCAAGGAGTAGAACTCGAACAATTATCTTCCTACGGGTCCGCTCTCTC
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
44219 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* * *
44272 TTTCTTCAGGGAGTAGAACTCAAACAATAATCTTCCTACGGGTCCACTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* * *
44325 TTTCTTCAGGGAGTA-AGTCTCGAACAATAATCTTCCTACGGGTTCGTTCTCTA
1 TTTCTTCAGGGAGTAGA-ACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* * *
44378 TTTCTTCAGGGAGTAGAACTCAAACAATAATCTTCCTATGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
* * * *
44431 TTTCTTCAGGGAGTAAAAACTCGAACAATAATATTCCTATGGGTCCGCTCTCTT
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
44485 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGG-CTCGCTCTCTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTC-CGCTCTCTA
* *
44538 TTTCTTCAGGGAGTAAGAACTCGAACAATAATCTTCCTATGGGTCCAC-C-CTA
1 TTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
*
44590 TTTCTTGAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGC-C-CTA
1 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
44641 TTTTCTTCAGGGAGTAGAACTCGAACAAT
1 -TTTCTTCAGGGAGTAGAACTCGAACAAT
44670 CTTCTGTTAC
Statistics
Matches: 506, Mismatches: 43, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
51 35 0.07
52 45 0.09
53 299 0.59
54 125 0.25
55 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (53 bp):
TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGGGTCCGCTCTCTA
Found at i:46022 original size:10 final size:10
Alignment explanation
Indices: 46010--46095 Score: 110
Period size: 10 Copynumber: 9.1 Consensus size: 10
46000 TTTATTTGTT
*
46010 TTTGTTTT-G
1 TTTGTTTTCA
*
46019 TTTTTTTTCA
1 TTTGTTTTCA
46029 TTTGTTTTCA
1 TTTGTTTTCA
46039 TTTGTTTTCA
1 TTTGTTTTCA
46049 TTTGTTTTCA
1 TTTGTTTTCA
46059 TTTGTTTTCA
1 TTTGTTTTCA
46069 TTT-TTTT-A
1 TTTGTTTTCA
*
46077 TTTTTTTTC-
1 TTTGTTTTCA
46086 TTT-TTTTCA
1 TTTGTTTTCA
46095 T
1 T
46096 CTTCAAGCAA
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
8 9 0.13
9 19 0.27
10 42 0.60
ACGTcount: A:0.08, C:0.08, G:0.07, T:0.77
Consensus pattern (10 bp):
TTTGTTTTCA
Found at i:46059 original size:30 final size:29
Alignment explanation
Indices: 46010--46095 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 29
46000 TTTATTTGTT
*
46010 TTTGTTTTGTTTTTTTTCATTTGTTTTCA
1 TTTGTTTTATTTTTTTTCATTTGTTTTCA
*
46039 TTTGTTTTCATTTGTTTTCATTTGTTTTCA
1 TTTGTTTT-ATTTTTTTTCATTTGTTTTCA
46069 TTT-TTTTATTTTTTTTC-TTT-TTTTCA
1 TTTGTTTTATTTTTTTTCATTTGTTTTCA
46095 T
1 T
46096 CTTCAAGCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 7 0.13
27 3 0.06
28 9 0.17
29 12 0.23
30 22 0.42
ACGTcount: A:0.08, C:0.08, G:0.07, T:0.77
Consensus pattern (29 bp):
TTTGTTTTATTTTTTTTCATTTGTTTTCA
Found at i:56365 original size:15 final size:15
Alignment explanation
Indices: 56347--56377 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56337 TCCGGGCTGT
*
56347 TGAGTTCGGGCTTGG
1 TGAGTTCGGGATTGG
56362 TGAGTTCGGGATTGG
1 TGAGTTCGGGATTGG
56377 T
1 T
56378 TCAAGCCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.10, G:0.45, T:0.35
Consensus pattern (15 bp):
TGAGTTCGGGATTGG
Found at i:58147 original size:21 final size:20
Alignment explanation
Indices: 58120--58178 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
58110 CCGTTAGACA
*
58120 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCTGTACCCCCT
*
58140 GGAGGGGAATCTGT-TCCCCT
1 GG-GGGGAATCTGTACCCCCT
*
58160 GGGGGGAATATGTACCCCC
1 GGGGGGAATCTGTACCCCC
58179 CTAGATAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.30
20 13 0.39
21 10 0.30
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.19
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCCT
Found at i:60430 original size:4 final size:4
Alignment explanation
Indices: 60423--60534 Score: 53
Period size: 4 Copynumber: 28.5 Consensus size: 4
60413 AAAAAAATAT
* *
60423 TAAA TAAA TTAAA TAAA AAACA TAAA -AAA TGAAA -ATAA TAAA -ATAT
1 TAAA TAAA -TAAA TAAA TAA-A TAAA TAAA T-AAA TA-AA TAAA TA-AA
* *
60469 TAAA TCAAA GGAAA -AAA TAAA TAAA T-AA GAAA T-AA -AAA TAAA TAAA
1 TAAA T-AAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
*
60515 TAAA T-AA CAAA TAAA -AAA TA
1 TAAA TAAA TAAA TAAA TAAA TA
60535 CTCAAACTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 32
0.67 0.07 0.26
Matches are distributed among these distances:
3 19 0.23
4 46 0.55
5 18 0.22
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:60511 original size:25 final size:25
Alignment explanation
Indices: 60483--60531 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
60473 TCAAAGGAAA
*
60483 AAATAAATAAATAAGAAATAAAAAT
1 AAATAAATAAATAACAAATAAAAAT
60508 AAATAAATAAATAACAAATAAAAA
1 AAATAAATAAATAACAAATAAAAA
60532 ATACTCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (25 bp):
AAATAAATAAATAACAAATAAAAAT
Found at i:60540 original size:15 final size:15
Alignment explanation
Indices: 60483--60534 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
60473 TCAAAGGAAA
*
60483 AAATAAATAA-ATAAG
1 AAATAAATAACA-AAT
*
60498 AAATAAA-AATAAAT
1 AAATAAATAACAAAT
60512 AAATAAATAACAAAT
1 AAATAAATAACAAAT
60527 AAA-AAATA
1 AAATAAATA
60535 CTCAAACTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 16 0.48
15 17 0.52
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
AAATAAATAACAAAT
Found at i:62461 original size:19 final size:19
Alignment explanation
Indices: 62437--62473 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62427 ATGACCAACA
* *
62437 AAATCGTAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
62456 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
62474 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:62570 original size:21 final size:19
Alignment explanation
Indices: 62501--62593 Score: 60
Period size: 21 Copynumber: 4.6 Consensus size: 19
62491 TTCCAGATTT
* *
62501 GCAACGCGATTTTGACCATC
1 GCAATGCGATTTTGA-AATC
*
62521 GCATTGCGATTTTCGAAATCC
1 GCAATGCGATTTT-GAAAT-C
**
62542 GCGTTGCGATTTTAGATAATC
1 GCAATGCGATTTT-GA-AATC
* *
62563 GCAATGCGAATATGTAAATC
1 GCAATGCGATTTTG-AAATC
*
62583 GCAACGCGATT
1 GCAATGCGATT
62594 ACACGTGATC
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
20 27 0.47
21 28 0.48
22 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (19 bp):
GCAATGCGATTTTGAAATC
Found at i:62626 original size:20 final size:20
Alignment explanation
Indices: 62580--62768 Score: 206
Period size: 20 Copynumber: 9.3 Consensus size: 20
62570 GAATATGTAA
62580 ATCGCAACGCGATTAC--ACGT
1 ATCGCAACGCGATT-CTGAC-T
62600 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
62621 ATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATTCTGACT
* **
62641 ATCGTAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
*
62661 GATCGCAATGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
62682 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
62702 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
62722 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
62743 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
62763 AACGCA
1 ATCGCA
62769 TCACTGAATT
Statistics
Matches: 143, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.03
20 90 0.63
21 43 0.30
22 6 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:62650 original size:61 final size:61
Alignment explanation
Indices: 62580--62768 Score: 315
Period size: 61 Copynumber: 3.1 Consensus size: 61
62570 GAATATGTAA
* * *
62580 ATCGCAACGCGATTACACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACT
* * *
62641 ATCGTAACGCGATAATACGTGATCGCAATGCGATTCTGACTATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACT
62702 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACT
*
62763 AACGCA
1 ATCGCA
62769 TCACTGAATT
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 118 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (61 bp):
ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACT
Found at i:62737 original size:41 final size:39
Alignment explanation
Indices: 62580--62756 Score: 185
Period size: 41 Copynumber: 4.4 Consensus size: 39
62570 GAATATGTAA
*
62580 ATCGCAACGCGATTACACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTATAC-T-ATCGCAACGCGATTCTGACT
** * **
62621 ATCGCAACGCGATTCGGACTATCGTAACGCGATAAT-ACGT
1 ATCGCAACGCGATT-ATACTATCGCAACGCGATTCTGAC-T
* * *
62661 GATCGCAATGCGATTCTGACTATCGCAACGAGATTCTGACT
1 -ATCGCAACGCGATTAT-ACTATCGCAACGCGATTCTGACT
*
62702 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTATAC-T-ATCGCAACGCGATTCTGACT
62743 ATCGCAACGCGATT
1 ATCGCAACGCGATT
62757 CTGACTAACG
Statistics
Matches: 112, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 28 0.25
41 76 0.68
42 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (39 bp):
ATCGCAACGCGATTATACTATCGCAACGCGATTCTGACT
Found at i:62747 original size:81 final size:81
Alignment explanation
Indices: 62580--62768 Score: 208
Period size: 81 Copynumber: 2.3 Consensus size: 81
62570 GAATATGTAA
* **
62580 ATCGCAACGCGATTAC--ACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACTAT
1 ATCGCAACGCGATT-CTGAC-T-ATCGCAACGAGATTCTGACTATCGCAACGCGATTAAGACTAT
*
62643 CGTAACGCGATAATACGTG
63 CGCAACGCGATAATACGTG
* *
62662 ATCGCAATGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCGA-TAATACGTGATC
1 ATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCGATTAAGAC-T-ATC
**
62726 GCAACGCGATTCTGAC-T-
64 GCAACGCGATAAT-ACGTG
*
62743 ATCGCAACGCGATTCTGACTAACGCA
1 ATCGCAACGCGATTCTGACTATCGCA
62769 TCACTGAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
80 3 0.03
81 57 0.62
82 28 0.30
83 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (81 bp):
ATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCGATTAAGACTATCGC
AACGCGATAATACGTG
Found at i:63621 original size:24 final size:24
Alignment explanation
Indices: 63589--63642 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
63579 GTATTCAAAA
63589 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
63613 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
63637 TTTGAT
1 TTTGAT
63643 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:65924 original size:18 final size:18
Alignment explanation
Indices: 65901--65935 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65891 AGCAAAAGGC
*
65901 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
65919 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
65936 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:66138 original size:20 final size:20
Alignment explanation
Indices: 66113--66393 Score: 255
Period size: 20 Copynumber: 14.7 Consensus size: 20
66103 CACATTCATT
66113 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
66133 TGACTATCGCAACGAGAATA
1 TGACTATCGCAACGCGAATA
* *
66153 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
66173 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
66190 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
66207 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
66227 TGACTATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* * *
66247 TGACTATTGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
66267 TGACTATCGCAAAGCGAATT
1 TGACTATCGCAACGCGAATA
* *
66287 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
66307 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
66324 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
* * *
66340 TGATTATCGCAACGCGACTT
1 TGACTATCGCAACGCGAATA
* * *
66360 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
66380 TGACTATCGCAACG
1 TGACTATCGCAACG
66394 AGAAAATCAC
Statistics
Matches: 219, Mismatches: 29, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
14 15 0.07
15 1 0.00
16 6 0.03
17 7 0.03
18 3 0.01
19 13 0.06
20 174 0.79
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:66383 original size:73 final size:74
Alignment explanation
Indices: 66113--66401 Score: 235
Period size: 73 Copynumber: 3.8 Consensus size: 74
66103 CACATTCATT
* * * * * * * * *
66113 TGACTATCGCAACGCGAATATGACTATCGCAACGAGAATATGACTATCGCAACGTGA-ATTTGAA
1 TGACTATCGCAAAGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCA
**
66177 TATCGC-AACG
66 -A-CGCGAAAA
* * ** * *
66187 GGA-TAATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAATGCGAAAATGAC
1 TGACT-ATCGCAAAGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAA--CG-AGAT-A-
* *
66251 TATTGCAATGCGAAAA
60 -ATCGCAACGCGAAAA
66267 TGACTATCGCAAAGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCA
1 TGACTATCGCAAAGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCA
66332 ACGCG-AAA
66 ACGCGAAAA
* * * * * * *
66340 TGATTATCGCAACGCGACTTTGATTATCGCAACGGGAATTTGACTATCGCAACGAGAAAATC
1 TGACTATCGCAAAGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATC
66402 ACAAAGTGTA
Statistics
Matches: 178, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
73 59 0.33
74 54 0.30
76 3 0.02
77 4 0.02
78 2 0.01
79 3 0.02
80 48 0.27
81 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (74 bp):
TGACTATCGCAAAGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCA
ACGCGAAAA
Found at i:66568 original size:36 final size:34
Alignment explanation
Indices: 66528--66607 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
66518 TCAACTTTTA
*
66528 ATCAATTAAACAAGCACAAATAATAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
66564 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
66594 ATCAATTAAACAAA
1 ATCAATTAAACAAA
66608 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:66578 original size:30 final size:30
Alignment explanation
Indices: 66543--66608 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
66533 TTAAACAAGC
*
66543 ACAAATAATAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
66573 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
66603 ACAAAT
1 ACAAAT
66609 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:68004 original size:21 final size:21
Alignment explanation
Indices: 67980--68066 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
67970 GAATGTTGGG
*
67980 AGGGACCTCTTCAACGATGAC
1 AGGGACCTCTTGAACGATGAC
* * **
68001 AGGGGCCTCTTGAACGGTGGG
1 AGGGACCTCTTGAACGATGAC
** *
68022 AGGGGA-CTCTTGAGGGATGAT
1 A-GGGACCTCTTGAACGATGAC
*
68043 AGGGGCCTCTTGAACGATGAC
1 AGGGACCTCTTGAACGATGAC
68064 AGG
1 AGG
68067 TGAGTCGAGC
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.06
21 43 0.88
22 3 0.06
ACGTcount: A:0.23, C:0.20, G:0.38, T:0.20
Consensus pattern (21 bp):
AGGGACCTCTTGAACGATGAC
Found at i:68565 original size:20 final size:20
Alignment explanation
Indices: 68540--68583 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
68530 AATAGTTTCT
68540 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
68560 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
68580 GAAA
1 GAAA
68584 ATGATTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:68675 original size:20 final size:20
Alignment explanation
Indices: 68643--68819 Score: 108
Period size: 20 Copynumber: 9.4 Consensus size: 20
68633 CGAAACTAAA
*
68643 TTCGCGTTACGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
68663 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* **
68678 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
*
68697 TTCGCGTTGCGATAATCATT
1 TTCGCGTTGCGATAGTCATT
* * *
68717 TCCTCGTTGCGATAGTCGTT
1 TTCGCGTTGCGATAGTCATT
*
68737 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* **
68752 -TCTCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
* **
68771 TCCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
*
68791 TTCGCGTTGCGATAATCATT
1 TTCGCGTTGCGATAGTCATT
*
68811 TTCGTGTTG
1 TTCGCGTTG
68820 TGACTATTCT
Statistics
Matches: 120, Mismatches: 25, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
14 20 0.17
16 2 0.02
17 3 0.03
18 2 0.02
20 93 0.77
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:68701 original size:34 final size:34
Alignment explanation
Indices: 68647--68783 Score: 130
Period size: 34 Copynumber: 3.9 Consensus size: 34
68637 ACTAAATTCG
* **
68647 CGTTACGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
*
68681 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCATTTCC
1 CGTTGCGATAGTCAAATTCGCATTGCGAT--T-A--TCC
*** *
68720 TCGTTGCGATAGTCGTTTTCGCATTGCGATTATCT
1 -CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
* *
68755 CGTTGCGATAGTCAAATCCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCATTGCGAT
68784 AGTCAAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
34 49 0.59
35 2 0.02
36 1 0.01
37 2 0.02
38 1 0.01
39 3 0.04
40 25 0.30
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
Found at i:68795 original size:54 final size:54
Alignment explanation
Indices: 68701--68803 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
68691 GTCAAATTCG
** * ***
68701 CGTTGCGATAATCATTTCCTCGTTGCGATAGTCGTTTTCGCATTGCGATTATCT
1 CGTTGCGATAATCAAATCCGCGTTGCGATAGTCAAATTCGCATTGCGATTATCT
* *
68755 CGTTGCGATAGTCAAATCCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAATCAAATCCGCGTTGCGATAGTCAAATTCGCATTGCGAT
68804 AATCATTTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (54 bp):
CGTTGCGATAATCAAATCCGCGTTGCGATAGTCAAATTCGCATTGCGATTATCT
Found at i:68799 original size:74 final size:74
Alignment explanation
Indices: 68640--68814 Score: 262
Period size: 74 Copynumber: 2.4 Consensus size: 74
68630 ACGCGAAACT
* *
68640 AAATTCGCGTTACGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTT
1 AAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATCCGCGTT
68705 GCGATAATC
66 GCGATAATC
* * * *
68714 -ATTTCCTCGTTGCGATAGTCGTTTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATCCGCGT
1 AAATT-CGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATCCGCGT
*
68778 TGCGATAGTC
65 TGCGATAATC
*
68788 AAATTCGCGTTGCGATAATCATTTTCG
1 AAATTCGCGTTGCGATAGTCATTTTCG
68815 TGTTGTGACT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
73 3 0.03
74 82 0.93
75 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (74 bp):
AAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATCCGCGTT
GCGATAATC
Found at i:70843 original size:20 final size:20
Alignment explanation
Indices: 70820--70870 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
70810 TATGAAACTT
70820 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
70840 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
70860 ATTATCGCAAC
1 AAAATCGCAAC
70871 GCAAATTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:71340 original size:22 final size:22
Alignment explanation
Indices: 71271--71343 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
71261 GATGGAGATA
71271 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
* * *
71293 GACAGATTTCGTTGGAAATGGG
1 GACGGATTTCGTCGGAGATGGG
71315 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
71337 GACGGAT
1 GACGGAT
71344 GTCGCTGTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.22, C:0.12, G:0.42, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:71538 original size:20 final size:20
Alignment explanation
Indices: 71513--71557 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
71503 TTATCGCAAC
*
71513 GCGATAGTTAGAATCTCGTT
1 GCGATAGTTAGAATCACGTT
71533 GCGATAGTTAGAATCACGTT
1 GCGATAGTTAGAATCACGTT
71553 GCGAT
1 GCGAT
71558 CACGTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (20 bp):
GCGATAGTTAGAATCACGTT
Found at i:71574 original size:41 final size:41
Alignment explanation
Indices: 71529--71619 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
71519 GTTAGAATCT
*
71529 CGTTGCGATAGTTAGAATCACGTTGCGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCACGTTGCGATCACGTATTATCG
* * * *
71570 CGTTGTGATAGTCCGAATCGCGTTGCGATCACGTGTTATCG
1 CGTTGCGATAGTCAGAATCACGTTGCGATCACGTATTATCG
71611 CGTTGCGAT
1 CGTTGCGAT
71620 TTACATATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCACGTTGCGATCACGTATTATCG
Found at i:71612 original size:21 final size:21
Alignment explanation
Indices: 71549--71619 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
71539 GTTAGAATCA
*
71549 CGTTGCGATCACGTATTATCG
1 CGTTGCGATCACGTGTTATCG
* *
71570 CGTTGTGAT-A-GTCCG-AATCG
1 CGTTGCGATCACGT--GTTATCG
71590 CGTTGCGATCACGTGTTATCG
1 CGTTGCGATCACGTGTTATCG
71611 CGTTGCGAT
1 CGTTGCGAT
71620 TTACATATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 2 0.05
20 14 0.35
21 22 0.55
22 2 0.05
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.32
Consensus pattern (21 bp):
CGTTGCGATCACGTGTTATCG
Found at i:71636 original size:20 final size:20
Alignment explanation
Indices: 71608--71660 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
71598 TCACGTGTTA
*
71608 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
71628 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
71648 TCGCATTGCGATT
1 TCGCATTGCGATT
71661 ATCTAAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:71678 original size:21 final size:20
Alignment explanation
Indices: 71648--71701 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
71638 ATTTACATAT
* *
71648 TCGCATTGCGATTATCTAAAA
1 TCGCAATGCGATT-TCAAAAA
71669 TCGCAATGCGGATTTCAAAAA
1 TCGCAATGC-GATTTCAAAAA
71690 TCGCAATGCGAT
1 TCGCAATGCGAT
71702 GGTCAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 3 0.10
21 23 0.77
22 4 0.13
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (20 bp):
TCGCAATGCGATTTCAAAAA
Found at i:71711 original size:20 final size:21
Alignment explanation
Indices: 71665--71713 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
71655 GCGATTATCT
*
71665 AAAATCGCAATGCGGATTTCA
1 AAAATCGCAATGCGGATGTCA
71686 AAAATCGCAATGC-GATGGTC-
1 AAAATCGCAATGCGGAT-GTCA
71706 AAAATCGC
1 AAAATCGC
71714 GTTGCGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
AAAATCGCAATGCGGATGTCA
Found at i:71770 original size:19 final size:19
Alignment explanation
Indices: 71746--71782 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
71736 TACGATAATG
71746 GAGATCGCATTGCGATTTA
1 GAGATCGCATTGCGATTTA
71765 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
71783 TGTTGGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:75226 original size:31 final size:32
Alignment explanation
Indices: 75152--75236 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 32
75142 TACCCTTAAC
* * *
75152 CTTTAAACAAAATACTAA-TTAAACCTATATA
1 CTTTACACAAAATACTAATTTAAACATATAAA
75183 CTTTACACAAAATACTAATTTAAACAT-TAAA
1 CTTTACACAAAATACTAATTTAAACATATAAA
* * *
75214 TTTTAGATAAAATA-TCAATTTAA
1 CTTTACACAAAATACT-AATTTAA
75237 CTCTTGAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 1 0.02
31 38 0.83
32 7 0.15
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (32 bp):
CTTTACACAAAATACTAATTTAAACATATAAA
Found at i:77537 original size:21 final size:21
Alignment explanation
Indices: 77447--77543 Score: 83
Period size: 21 Copynumber: 4.5 Consensus size: 21
77437 AGGGTTAAAA
77447 CTTTTCGATGAAATGACTTAAT
1 CTTTTC-ATGAAATGACTTAAT
*
77469 C-TTTCAATTAAATGACTT-AT
1 CTTTTC-ATGAAATGACTTAAT
* * *
77489 CCTTTTGATGAAAAGTG-TTTAAC
1 -CTTTTCATG-AAA-TGACTTAAT
*
77512 CTTTTCATGAAATGATTTAAT
1 CTTTTCATGAAATGACTTAAT
77533 CTTTTCATGAA
1 CTTTTCATGAA
77544 GAGAATTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
20 4 0.07
21 37 0.61
22 17 0.28
23 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.43
Consensus pattern (21 bp):
CTTTTCATGAAATGACTTAAT
Found at i:79086 original size:41 final size:41
Alignment explanation
Indices: 79016--79098 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
79006 CTAGCCGTTG
* * *
79016 CAGCCTTCATGCATGGATACACAACAGGATGCTTGGATGCA
1 CAGCCTTCATGCATCGATACACAACAGGATGCATCGATGCA
* *
79057 CAGCCTTCATGCATCGATGCATAGA-AGGATGCATCGATGCA
1 CAGCCTTCATGCATCGATACACA-ACAGGATGCATCGATGCA
79098 C
1 C
79099 TAATTGCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 35 0.97
42 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (41 bp):
CAGCCTTCATGCATCGATACACAACAGGATGCATCGATGCA
Found at i:79151 original size:21 final size:21
Alignment explanation
Indices: 79126--79181 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
79116 TTAGTACAGG
79126 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
*
79147 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTGCAGGGA
*
79168 TGCATGTATGCACT
1 TGCATGGATGCACT
79182 TTGACACCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.23
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:79308 original size:30 final size:29
Alignment explanation
Indices: 79262--79320 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
79252 AAACTTTGAA
79262 TAAATTCATTAAGTCCAAAAA-CATTTTG
1 TAAATTCATTAAGTCCAAAAACCATTTTG
79290 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTC-ATT-AAGTCCAAAAACCATTTTG
79321 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 7 0.25
29 3 0.11
30 11 0.39
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (29 bp):
TAAATTCATTAAGTCCAAAAACCATTTTG
Found at i:81114 original size:14 final size:15
Alignment explanation
Indices: 81097--81127 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
81087 TTCTTCTTGT
81097 TTTTCTTC-TCTTCC
1 TTTTCTTCATCTTCC
81111 TTTTCTTCATCTTCC
1 TTTTCTTCATCTTCC
81126 TT
1 TT
81128 CACCATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTCTTCATCTTCC
Found at i:82570 original size:21 final size:20
Alignment explanation
Indices: 82526--82596 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
82516 GCAGCCTTCG
*
82526 TGCATGGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
**
82546 TGCATCGATGCACAACCTTGA
1 TGCATCGATGCACAA-CAGGA
82567 TGCATCGATGCACAGA-AGGA
1 TGCATCGATGCACA-ACAGGA
82587 TGCATCGATG
1 TGCATCGATG
82597 TACTAATTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
20 26 0.59
21 17 0.39
22 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.20
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:82672 original size:22 final size:21
Alignment explanation
Indices: 82620--82698 Score: 83
Period size: 22 Copynumber: 3.8 Consensus size: 21
82610 CGGTGTTTGA
82620 GTGCATAGATGCAC-TGCATG
1 GTGCATAGATGCACTTGCATG
*
82640 GTGCATCGATGCACTAGTGCAT-
1 GTGCATAGATGCACT--TGCATG
*
82662 GTGCATAGATGCAC-TGCAGGG
1 GTGCATAGATGCACTTGCA-TG
*
82683 GTGCATGGATGCACTT
1 GTGCATAGATGCACTT
82699 TGACACCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.08
20 13 0.27
21 13 0.27
22 14 0.29
23 5 0.10
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (21 bp):
GTGCATAGATGCACTTGCATG
Found at i:82824 original size:30 final size:30
Alignment explanation
Indices: 82777--82836 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
82767 AAACTTTGAA
*
82777 TAAATTGAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
82806 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
82837 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 11 0.39
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:86308 original size:26 final size:26
Alignment explanation
Indices: 86272--86329 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
86262 CCCCGTCCAT
* *
86272 TTCTGTCCCCTTTCCTTTATCTCTTA
1 TTCTCTCCCCTTCCCTTTATCTCTTA
86298 TTCTCTCCCCTTCCCTTTATCTCTTA
1 TTCTCTCCCCTTCCCTTTATCTCTTA
86324 TTCTCT
1 TTCTCT
86330 TATAAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.07, C:0.38, G:0.02, T:0.53
Consensus pattern (26 bp):
TTCTCTCCCCTTCCCTTTATCTCTTA
Found at i:91625 original size:23 final size:24
Alignment explanation
Indices: 91593--91638 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
91583 TGTCAGGCAT
91593 ATAAA-ATTTTAAATTTTTATAAA
1 ATAAATATTTTAAATTTTTATAAA
*
91616 ATAAATTTTTTAAATTTTTATAA
1 ATAAATATTTTAAATTTTTATAA
91639 GCCTAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATAAATATTTTAAATTTTTATAAA
Found at i:99713 original size:14 final size:14
Alignment explanation
Indices: 99694--99723 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99684 CATTTTTGAA
99694 AGGAGATCTAGATG
1 AGGAGATCTAGATG
*
99708 AGGAGATCTATATG
1 AGGAGATCTAGATG
99722 AG
1 AG
99724 AACAATGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (14 bp):
AGGAGATCTAGATG
Found at i:118070 original size:23 final size:23
Alignment explanation
Indices: 118044--118091 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
118034 ATAAAATACA
*
118044 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
118067 ATAATGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
118090 AT
1 AT
118092 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:118595 original size:23 final size:23
Alignment explanation
Indices: 118569--118641 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
118559 ATATTTTACA
118569 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
*
118592 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * * *
118615 ATATAAGCGCTACTTATTACATC
1 ATATAACCACTACCTATTACATT
118638 ATAT
1 ATAT
118642 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 36 0.86
24 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:119081 original size:21 final size:21
Alignment explanation
Indices: 119051--119121 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
119041 GATAGATACT
*
119051 TTACAATATAACCACTACCTA
1 TTACATTATAACCACTACCTA
* *
119072 TTACATTATAAACGA-TATCTA
1 TTACATTAT-AACCACTACCTA
* *
119093 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAACCACTACCTA
119116 TTACAT
1 TTACAT
119122 CATATTTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
21 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.35
Consensus pattern (21 bp):
TTACATTATAACCACTACCTA
Found at i:119116 original size:23 final size:22
Alignment explanation
Indices: 119056--119126 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
119046 ATACTTTACA
*
119056 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
* *
119079 ATA-AACGATATCTATTACATT
1 ATATAACGCTACCTATTACATT
*
119100 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
119123 ATAT
1 ATAT
119127 TTTACCTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 16 0.40
22 4 0.10
23 20 0.50
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:119490 original size:483 final size:489
Alignment explanation
Indices: 118165--119960 Score: 3349
Period size: 491 Copynumber: 3.7 Consensus size: 489
118155 TTATAATATG
* *
118165 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCAATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
*
118230 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
118295 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
118360 TAACCAAAGATAATAATAAATATTTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-ATATAT
118425 ATCGTAACGTAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 ATCGTAACGT-AAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
118490 TCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATAGACACTTTTATAAAAATG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAATG
*
118555 ATAGATATTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
389 ATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
*
118620 AGCGCTACTTATTACATCATATTTTTACCTATTATA
454 AGCGCTACCTATTACATCATATTTTTACCTATTATA
118656 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTT-TTATAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTT-TAAAGTTATGTAATTTATGT
118720 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
118785 ACAAAATATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
118850 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATA-ATAT
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATATATAT
118914 ATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
118978 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAATGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAATGA
*
119043 TAGATACTTTACAATATAACCACTACCTATTACA-T-TATAAACGATATCTATTACATTATATAA
390 TAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAA
119106 GCGCTACCTATTACATCATA-TTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
119140 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
*
119205 TCAA-TTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
119269 C-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
119333 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATA-ATATA
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATATATATA
119397 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
119462 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAATGAT
119527 AGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG
391 AGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG
119592 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
119626 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
119691 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
119756 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
119821 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAA-TT--TAATAATATAT
*
119886 ATATCGTAACGTAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAATATCTTAAAACTCA
258 ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
119951 CTCAAAAGAT
323 CTCAAAAGAT
119961 GTATATACCT
Statistics
Matches: 1275, Mismatches: 18, Indels: 23
0.97 0.01 0.02
Matches are distributed among these distances:
482 134 0.11
483 211 0.17
484 81 0.06
485 95 0.07
486 84 0.07
487 210 0.16
488 112 0.09
489 16 0.01
490 3 0.00
491 253 0.20
492 76 0.06
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATATATATA
TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAATGAT
AGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:119575 original size:23 final size:23
Alignment explanation
Indices: 119549--119611 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
119539 ATATAACCAC
119549 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
119572 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
119595 TACCTATTACATCATAT
1 TACCTATTACATTATAT
119612 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:119585 original size:970 final size:979
Alignment explanation
Indices: 118165--119960 Score: 3396
Period size: 970 Copynumber: 1.8 Consensus size: 979
118155 TTATAATATG
*
118165 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCAATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCAATACTTTGTTTAAAGTTATGTAATTTATGTT
*
118230 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
118295 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
118360 TAACCAAAGATAATAATAAATATTTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
118425 ATCGTAACGTAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
261 ATCGTAACGTAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* *
118490 TCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATAGACACTTTTATAAAAATG
326 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGG
*
118555 ATAGATATTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
391 ATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
*
118620 AGCGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAG
456 AGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAG
118685 GATCGATACTTT-TTATAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTT
521 GATCGATACTTTGTT-TAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTT
*
118749 TTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAATATTATTTGATTGTTTTGATATT
585 TTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATT
118814 TTATAAAATAATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAAT
650 TTATAAAATAATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAAT
118879 ATATATGTTTATTGTTTTTAA-TT-TAATAATA-ATATATCGTAACGT-AAAAATAAATCATTAG
715 ATATATGTTTATTGTTTTTAATTTATAATAATATATATATCGTAACGTAAAAAATAAATCATTAG
118940 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTT
780 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTT
119005 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACC
845 CCACAGTGAAAAAAGTATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACC
119070 TATTACATTATAAACGATATCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTA
910 TATTACATTATAAACGATATCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTA
119135 TTATA
975 TTATA
*
119140 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCAATACTTTGTTTAAAGTTATGTAATTTATGTT
*
119205 TCAA-TTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
119269 C-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
119333 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
119396 ATCGTAACGT-AAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
261 ATCGTAACGTAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
119460 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGG
326 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGG
119525 ATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
391 ATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
119590 AGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAG
456 AGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAG
119655 GATCGATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTT
521 GATCGATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTT
119720 TCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTT
586 TCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTT
*
119785 TATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATA
651 TATAAAATAATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATA
119850 TATATGTTTATTGTTTTTAATTTAATAATAATATATATATCGTAACGTAAAAAATAAATCATTAG
716 TATATGTTTATTGTTTTTAATTT-ATAATAATATATATATCGTAACGTAAAAAATAAATCATTAG
*
119915 ATGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
780 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
119961 GTATATACCT
Statistics
Matches: 803, Mismatches: 12, Indels: 12
0.97 0.01 0.01
Matches are distributed among these distances:
970 455 0.57
971 18 0.02
972 1 0.00
973 128 0.16
974 73 0.09
975 128 0.16
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (979 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCAATACTTTGTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGG
ATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
AGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAG
GATCGATACTTTGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTT
TCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTT
TATAAAATAATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATA
TATATGTTTATTGTTTTTAATTTATAATAATATATATATCGTAACGTAAAAAATAAATCATTAGA
CGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTC
CACAGTGAAAAAAGTATAGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCT
ATTACATTATAAACGATATCTATTACATTATATAAGCGCTACCTATTACATCATATTTTACCTAT
TATA
Found at i:119988 original size:25 final size:25
Alignment explanation
Indices: 119960--120024 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
119950 ACTCAAAAGA
*
119960 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
119985 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
120010 TGTACATACCTAAAT
1 TGTACATACCTAAAT
120025 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:122831 original size:183 final size:183
Alignment explanation
Indices: 122490--122831 Score: 569
Period size: 183 Copynumber: 1.9 Consensus size: 183
122480 TTAAAATTAC
122490 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTAGACATAAAGTACCAACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTAGACATAAAGTACCAACACAAT
* *
122555 ATTAGAAAGTGTCGATATAGGTTGTAAACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAAACCTATTCGCTCATAAAACCAGTATATTTATACCGGAT
* *
122620 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ACATTACAAAATTACCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
* *
122673 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTAGACATAAAGTACCAACACAAT
*
122738 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATACC-GAT
66 ATTAGAAAGTGTCGATATAGGTTGTAAACCTATTCGCTCATAAAACCAGTATATTTATACCGGAT
* * **
122802 AGCATTGCAAATTTACCTATTTTATTATAA
131 A-CATTACAAAATTACCTATTACATTATAA
122832 TATGTTGAAA
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 3 0.02
183 144 0.98
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTAGACATAAAGTACCAACACAAT
ATTAGAAAGTGTCGATATAGGTTGTAAACCTATTCGCTCATAAAACCAGTATATTTATACCGGAT
ACATTACAAAATTACCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
Found at i:123274 original size:23 final size:23
Alignment explanation
Indices: 123248--123310 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
123238 ATATAACCAC
123248 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
123271 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
123294 TACCTATTACATCATAT
1 TACCTATTACATTATAT
123311 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:124797 original size:200 final size:200
Alignment explanation
Indices: 124454--125222 Score: 1475
Period size: 200 Copynumber: 3.8 Consensus size: 200
124444 TTTAAATTAG
*
124454 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTATCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
124519 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
*
124584 TCGACACTTTTTATATACGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
124649 AAAAA
196 AAAAA
*
124654 TATCGACACAAACTAAAAAATTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
124719 CTTGTACCGGTTAGATTGACAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
124784 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
124849 AAAAA
196 AAAAA
*
124854 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
124919 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
124984 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
125049 AAAAA
196 AAAAA
*
125054 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAAAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
125119 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
125184 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGC
125223 TGTAACACCC
Statistics
Matches: 559, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 559 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:125822 original size:22 final size:22
Alignment explanation
Indices: 125805--125871 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
125795 CTCGTATAAA
125805 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
125827 TGCACCAAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
125849 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
125871 T
1 T
125872 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:126234 original size:34 final size:29
Alignment explanation
Indices: 126165--126265 Score: 166
Period size: 29 Copynumber: 3.5 Consensus size: 29
126155 TTTTCTGCAT
126165 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATGA
*
126194 ATTCATGTCATGTAATGCATATAATATGA
1 ATTCATGTCATGTAATACATATAATATGA
* **
126223 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATATGA
126252 ATTCATGTCATGTA
1 ATTCATGTCATGTA
126266 TCATAATATG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATGA
Found at i:126709 original size:65 final size:66
Alignment explanation
Indices: 126584--126739 Score: 208
Period size: 66 Copynumber: 2.4 Consensus size: 66
126574 ATCGGTTTCC
* *
126584 CCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGATGAGGGGGTATCGGT
1 CCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGGT
126648 T
66 T
* * * *
126649 CCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTTGAGGGGGTATCGGT
1 CCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGGT
126713 T
66 T
* *
126714 CCCCTTGAATGGGTACCGATTCCCCT
1 CCCCCTG--GGGGTACCGATTCCCCT
126740 AACCCAGAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 31 0.39
66 33 0.41
67 16 0.20
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.29
Consensus pattern (66 bp):
CCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGGT
T
Found at i:132779 original size:22 final size:22
Alignment explanation
Indices: 132762--132828 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
132752 CTCGTATAAA
132762 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
132784 TGCACCAAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
132806 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
132828 T
1 T
132829 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:133191 original size:34 final size:29
Alignment explanation
Indices: 133122--133222 Score: 175
Period size: 29 Copynumber: 3.5 Consensus size: 29
133112 TTTACTGCAT
133122 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATGA
133151 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATGA
* **
133180 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATATGA
133209 ATTCATGTCATGTA
1 ATTCATGTCATGTA
133223 TCATAATATG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATGA
Found at i:133668 original size:66 final size:67
Alignment explanation
Indices: 133542--133699 Score: 205
Period size: 67 Copynumber: 2.4 Consensus size: 67
133532 TCGGTTCCCC
* *
133542 CCCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGATGAGGGGGTATCGG
1 CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGG
133606 TT
66 TT
* * * *
133608 CCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTTGAGGGGGTATCGG
1 CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGG
133672 TT
66 TT
* *
133674 -CCCCTTGAATGGGTACCGATTCCCCT
1 CCCCCCTG--GGGGTACCGATTCCCCT
133700 AACCCAGAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 6 0.07
66 26 0.32
67 49 0.60
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.28
Consensus pattern (67 bp):
CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATGAGGGGGTATCGG
TT
Found at i:134749 original size:200 final size:200
Alignment explanation
Indices: 134406--135024 Score: 1175
Period size: 200 Copynumber: 3.1 Consensus size: 200
134396 GGATGTTACA
134406 GTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACA
1 GTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACA
134471 CATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACAT
66 CATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACAT
*
134536 ATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTATATATGGATCGACACT
131 ATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACT
134601 TTATG
196 TTATG
134606 GTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACA
1 GTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACA
* *
134671 CATTATTTAGACATATTCTCTTATAAAACCGGTATACTTGTACCAGTTAGATTGAAAAATTACAT
66 CATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACAT
134736 ATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACT
131 ATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACT
134801 TTATG
196 TTATG
*
134806 GTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTTTCGACA
1 GTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACA
134871 CATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACAT
66 CATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACAT
*
134936 ATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGTTCGACACT
131 ATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACT
*
135001 TTATT
196 TTATG
*
135006 GTTGCACCCTGTTGTCCAT
1 GTTGCACCCTGTTTTCCAT
135025 ATTGTAAATT
Statistics
Matches: 410, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 410 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
GTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACA
CATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACAT
ATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACT
TTATG
Found at i:135183 original size:19 final size:19
Alignment explanation
Indices: 135137--135185 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
135127 TTATATTCAC
*
135137 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
135156 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
135175 ATACAAAATTA
1 ATACAAAATTA
135186 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:137013 original size:33 final size:33
Alignment explanation
Indices: 136976--137039 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
136966 CATCTTAATA
*
136976 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
137009 TCACCCCTCAACACCTCTACTTCTTTCACCA
1 TCACCCCTCAACACCCCAACTTCTTTCACCA
137040 TTCCATCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.28
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:137100 original size:21 final size:21
Alignment explanation
Indices: 137075--137139 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
137065 CCCCTTATGC
* * *
137075 CTCTCAAGTGTATCTTTGACT
1 CTCTCAAGTTTCTCTTCGACT
137096 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
137117 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
137138 CT
1 CT
137140 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:139190 original size:24 final size:24
Alignment explanation
Indices: 139153--139205 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
139143 CCATTCTATC
139153 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
139177 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
139201 TATTT
1 TATTT
139206 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:139365 original size:17 final size:18
Alignment explanation
Indices: 139343--139385 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
139333 ATATATCTGG
139343 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
139360 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
139380 TATCAT
1 TATCAT
139386 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:139403 original size:20 final size:19
Alignment explanation
Indices: 139348--139394 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
139338 TCTGGTATCA
139348 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
139367 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
139388 TTTTACC
1 TTTTACC
139395 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:139555 original size:20 final size:20
Alignment explanation
Indices: 139528--139574 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
139518 TCCGGTAACG
*
139528 TTTTACCGGTTTTATCAT-T
1 TTTTACCGATTTTATCATAT
139547 TTGTTACCGATTTTATCATAT
1 TT-TTACCGATTTTATCATAT
139568 TTTTACC
1 TTTTACC
139575 TGGTATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGATTTTATCATAT
Found at i:140305 original size:228 final size:227
Alignment explanation
Indices: 139853--140345 Score: 907
Period size: 228 Copynumber: 2.2 Consensus size: 227
139843 ACCTACTTTT
139853 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
139918 ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAAA
66 ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAAA
139983 AATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
131 AATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
* *
140048 AATATAATAATAAATATGTTTTCCACAGTGAA
196 AAGATAATAATAAATATATTTTCCACAGTGAA
*
140080 ATAAGTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
140145 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 A-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
140210 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
130 AAATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
140275 CAAAGATAATAATAAATATATTTT-CACAGTGAA
194 CAAAGATAATAATAAATATATTTTCCACAGTGAA
* *
140308 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
140346 ACAATATAAC
Statistics
Matches: 257, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
227 65 0.25
228 119 0.46
229 73 0.28
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (227 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAAA
AATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
AAGATAATAATAAATATATTTTCCACAGTGAA
Found at i:143230 original size:21 final size:21
Alignment explanation
Indices: 143206--143247 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
143196 AGTTTATTTT
143206 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
143227 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
143248 AACTTGGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:143284 original size:33 final size:33
Alignment explanation
Indices: 143242--143345 Score: 183
Period size: 33 Copynumber: 3.2 Consensus size: 33
143232 TTTGTTTCAA
143242 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
143275 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* *
143308 TTATCGAACTTGGAAGTATTTAAGTATTTTAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
143340 TTATCG
1 TTATCG
143346 TAAACTTTGT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 6 0.09
33 63 0.91
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:143956 original size:29 final size:29
Alignment explanation
Indices: 143922--143980 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
143912 CTTAAATTAA
*
143922 TTTGATGTTATTGTTTATATCAATTTAGT
1 TTTGATGTCATTGTTTATATCAATTTAGT
143951 TTTGATGTCATTGTTTATATCAATTTAGT
1 TTTGATGTCATTGTTTATATCAATTTAGT
143980 T
1 T
143981 AAGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.58
Consensus pattern (29 bp):
TTTGATGTCATTGTTTATATCAATTTAGT
Found at i:147994 original size:29 final size:29
Alignment explanation
Indices: 147960--148018 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
147950 CCTAAATTAA
* *
147960 TTTGATTTCATTGCTTATATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
147989 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
148018 T
1 T
148019 AGGTGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:150628 original size:904 final size:905
Alignment explanation
Indices: 148881--150690 Score: 3570
Period size: 904 Copynumber: 2.0 Consensus size: 905
148871 GGCCGAATAA
148881 TGCTTAAACCCCTTCAAGTTGGCACCAAAGTGAATAGATAGGTGCCTTGGCCAAATGGTGAAGTC
1 TGCTTAAACCCCTTCAAGTTGGCACCAAAGTGAATAGATAGGTGCCTTGGCCAAATGGTGAAGTC
148946 CCTTAGTGTTTGGCGCGCATAGGAGGGTTACACACTTGCTTATCACATGGGCGTGCACATGGGAG
66 CCTTAGTGTTTGGCGCGCATAGGAGGGTTACACACTTGCTTATCACATGGGCGTGCACATGGGAG
*
149011 TCTTAGGGATGCTTGTGGTGGAGCATTGTGCATGGGATGAAGGCTGGTTATGTGCATCTCCTTGG
131 TCTTAGGGATGCTTGTGGTGCAGCATTGTGCATGGGATGAAGGCTGGTTATGTGCATCTCCTTGG
149076 GCGTGTGTTAGTTCTCCCCCAAACTAGCATAGGTGTGCATGTAGTTAGCAAGCAAGTGAGTTGTT
196 GCGTGTGTTAGTTCTCCCCCAAACTAGCATAGGTGTGCATGTAGTTAGCAAGCAAGTGAGTTGTT
149141 ATGAATTGTTGTTCCAACCGAGTTCTCCATGGTTCCTTAGCATCTCTTATAGCTACCTTCAGCTG
261 ATGAATTGTTGTTCCAACCGAGTTCTCCATGGTTCCTTAGCATCTCTTATAGCTACCTTCAGCTG
149206 GTCACTTGGTCAAGTTTATCAACTTAGCTTCAAATAGTCCACCTAGCTGAGTTTAGCTAGCCTTG
326 GTCACTTGGTCAAGTTTATCAACTTAGCTTCAAATAGTCCACCTAGCTGAGTTTAGCTAGCCTTG
149271 AGCTCCTCTAGCTGACTTAAGCTTCCCATTGTGTTCCATGAGCTACCATGAAGCTTATGAGCTAA
391 AGCTCCTCTAGCTGACTTAAGCTTCCCATTGTGTTCCATGAGCTACCATGAAGCTTATGAGCTAA
149336 TTGTGAGATGCATATGAATTCCAAATACTCCCACAAGCTGCCCCAATGTGTATCATGCTTCCATG
456 TTGTGAGATGCATATGAATTCCAAATACTCCCACAAGCTGCCCCAATGTGTATCATGCTTCCATG
149401 TACCTACATGTGTAAAGAAAACAAGGTAAATCAAAGGTATTGAGCTTGTATGAACCAATTACCTT
521 TACCTACATGTGTAAAGAAAACAAGGTAAATCAAAGGTATTGAGCTTGTATGAACCAATTACCTT
149466 GTTGTCGCGCATATATATGAACTTGTGAGCTATGAATGCATGTTATGAGCTAAGAACATTATGAT
586 GTTGTCGCGCATATATATGAACTTGTGAGCTATGAATGCATGTTATGAGCTAAGAACATTATGAT
149531 ATAACATATGTAAGCTAATGTACAAAATTAGGAGCTGAATTGAATGCATATGAGCCAAGAAATAA
651 ATAACATATGTAAGCTAATGTACAAAATTAGGAGCTGAATTGAATGCATATGAGCCAAGAAATAA
149596 ATGATTAAGCATGATGCCATTTCATGAATGAATTGAAACATACTTAAATGAATGCAAGACTAATA
716 ATGATTAAGCATGATGCCATTTCATGAATGAATTGAAACATACTTAAATGAATGCAAGACTAATA
149661 AACATAATAATATGCTTTGAAATAACATTGTGCATCAATTAACATAAAGATGTGGATATGTATTA
781 AACATAATAATATGCTTTGAAATAACATTGTGCATCAATTAACATAAAGATGTGGATATGTATTA
149726 AGTTACTTTACTTATGAAATCATATAACT-AACAATCTTAGCATGATATGCATTATTAGT
846 AGTTACTTTACTTATGAAATCATATAACTAAACAATCTTAGCATGATATGCATTATTAGT
149785 TGCTTAAACCCCTTCAAGTTGGCACCAAAGTGAATAGATAGGTGCCTTGGCCAAATGGTGAAGTC
1 TGCTTAAACCCCTTCAAGTTGGCACCAAAGTGAATAGATAGGTGCCTTGGCCAAATGGTGAAGTC
149850 CCTTAGTGTTTGGCGCGCATAGGAGGGTTACACACTTGCTTATCACATGGGCGTGCACATGGGAG
66 CCTTAGTGTTTGGCGCGCATAGGAGGGTTACACACTTGCTTATCACATGGGCGTGCACATGGGAG
149915 TCTTAGGGATGCTTGTGGTGCAGCATTGTGCATGGGATGAAGGCTGGTTATGTGCATCTCCTTGG
131 TCTTAGGGATGCTTGTGGTGCAGCATTGTGCATGGGATGAAGGCTGGTTATGTGCATCTCCTTGG
149980 GCGTGTGTTAGTTCTCCCCCAAACTAGCATAGGTGTGCATGTAGTTAGCAAGCAAGTGAGTTGTT
196 GCGTGTGTTAGTTCTCCCCCAAACTAGCATAGGTGTGCATGTAGTTAGCAAGCAAGTGAGTTGTT
150045 ATGAATTGTTGTTCCAACCGAGTTCTCCATGGTTCCTTAGCATCTCTTATAGCTACCTTCAGCTG
261 ATGAATTGTTGTTCCAACCGAGTTCTCCATGGTTCCTTAGCATCTCTTATAGCTACCTTCAGCTG
150110 GTCACTTGGTCAAGTTTATCAACTTAGCTTCAAATAGTCCACCTAGCTGAGTTTAGCTAGCCTTG
326 GTCACTTGGTCAAGTTTATCAACTTAGCTTCAAATAGTCCACCTAGCTGAGTTTAGCTAGCCTTG
150175 AGCTCCTCTAGCTGACTTAAGCTTCCCATTGTGTTCCATGAGCTACCATGAAGCTTATGAGCTAA
391 AGCTCCTCTAGCTGACTTAAGCTTCCCATTGTGTTCCATGAGCTACCATGAAGCTTATGAGCTAA
*
150240 TTGTGAGATGCATATGAATTCCAAATACTCCCACAAGCTGCCCCAATGTGTCTCATGCTTCCATG
456 TTGTGAGATGCATATGAATTCCAAATACTCCCACAAGCTGCCCCAATGTGTATCATGCTTCCATG
*
150305 TACCTACATGTGTAAAGAAGACAAGGTAAATCAAAGGTATTGAGCTTGTATGAACCAATTACCTT
521 TACCTACATGTGTAAAGAAAACAAGGTAAATCAAAGGTATTGAGCTTGTATGAACCAATTACCTT
150370 GTTGTCGCGCATATATATGAACTTGTGAGCTATG-ATGCATGTTATGAGCTAAGAACATTATGAT
586 GTTGTCGCGCATATATATGAACTTGTGAGCTATGAATGCATGTTATGAGCTAAGAACATTATGAT
150434 ATAACATATGTAAGCTAATGTACAAAAATTAGGAGCTGAATTGAATGCATATGAGCCAAGAAATA
651 ATAACATATGTAAGCTAATGTAC-AAAATTAGGAGCTGAATTGAATGCATATGAGCCAAGAAATA
150499 AATGATTAAGCATGATGCCATTTCATGAATGAATTGAAACATACTTAAATGAATGCAAGACTAAT
715 AATGATTAAGCATGATGCCATTTCATGAATGAATTGAAACATACTTAAATGAATGCAAGACTAAT
150564 AAACATAATAATATGCTTTGAAATAACATTGTGCATCAATTAACATAAAGATGTGGATATGTATT
780 AAACATAATAATATGCTTTGAAATAACATTGTGCATCAATTAACATAAAGATGTGGATATGTATT
150629 AAGTTACTTTACTTATGAAATCATATAACTAAACAATCTTAGCATGATATGCATTATTAGT
845 AAGTTACTTTACTTATGAAATCATATAACTAAACAATCTTAGCATGATATGCATTATTAGT
150690 T
1 T
150691 CATACATGAT
Statistics
Matches: 901, Mismatches: 3, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
903 53 0.06
904 817 0.91
905 31 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (905 bp):
TGCTTAAACCCCTTCAAGTTGGCACCAAAGTGAATAGATAGGTGCCTTGGCCAAATGGTGAAGTC
CCTTAGTGTTTGGCGCGCATAGGAGGGTTACACACTTGCTTATCACATGGGCGTGCACATGGGAG
TCTTAGGGATGCTTGTGGTGCAGCATTGTGCATGGGATGAAGGCTGGTTATGTGCATCTCCTTGG
GCGTGTGTTAGTTCTCCCCCAAACTAGCATAGGTGTGCATGTAGTTAGCAAGCAAGTGAGTTGTT
ATGAATTGTTGTTCCAACCGAGTTCTCCATGGTTCCTTAGCATCTCTTATAGCTACCTTCAGCTG
GTCACTTGGTCAAGTTTATCAACTTAGCTTCAAATAGTCCACCTAGCTGAGTTTAGCTAGCCTTG
AGCTCCTCTAGCTGACTTAAGCTTCCCATTGTGTTCCATGAGCTACCATGAAGCTTATGAGCTAA
TTGTGAGATGCATATGAATTCCAAATACTCCCACAAGCTGCCCCAATGTGTATCATGCTTCCATG
TACCTACATGTGTAAAGAAAACAAGGTAAATCAAAGGTATTGAGCTTGTATGAACCAATTACCTT
GTTGTCGCGCATATATATGAACTTGTGAGCTATGAATGCATGTTATGAGCTAAGAACATTATGAT
ATAACATATGTAAGCTAATGTACAAAATTAGGAGCTGAATTGAATGCATATGAGCCAAGAAATAA
ATGATTAAGCATGATGCCATTTCATGAATGAATTGAAACATACTTAAATGAATGCAAGACTAATA
AACATAATAATATGCTTTGAAATAACATTGTGCATCAATTAACATAAAGATGTGGATATGTATTA
AGTTACTTTACTTATGAAATCATATAACTAAACAATCTTAGCATGATATGCATTATTAGT
Found at i:153243 original size:13 final size:13
Alignment explanation
Indices: 153225--153250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
153215 AGAAAAGAAG
153225 AAAGGGTTACTTA
1 AAAGGGTTACTTA
153238 AAAGGGTTACTTA
1 AAAGGGTTACTTA
153251 CAACAAAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
AAAGGGTTACTTA
Found at i:155058 original size:62 final size:62
Alignment explanation
Indices: 154876--155115 Score: 311
Period size: 62 Copynumber: 4.0 Consensus size: 62
154866 AGGGTCGAGG
* * * * * *
154876 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTTTTCGGGATATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACT
* * *
154938 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGA-CATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATC-TATGGACT
*
155000 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTTGGAATCTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACT
155062 G---------GTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACT
155115 G
1 G
155116 GTCCTTCGGG
Statistics
Matches: 168, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
53 52 0.31
62 115 0.68
63 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACT
Found at i:155058 original size:93 final size:93
Alignment explanation
Indices: 154876--155115 Score: 295
Period size: 93 Copynumber: 2.7 Consensus size: 93
154866 AGGGTCGAGG
* * * *
154876 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTTTTCGGGATATATGGATTGTT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGAT
* *
154941 TACCTATGTTCTTCGGGACATATGGACT
66 TACCTAGGTTCTTCGGAACATATGGACT
154969 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGAT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGAT
*
155034 TACCTAGGTTCTTTGGAATC-TATGGACT
66 TACCTAGGTTCTTCGGAA-CATATGGACT
* * *
155062 G---------GTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATC-TATGGACTG
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGA-CATATGGACTG
155116 GTCCTTCGGG
Statistics
Matches: 135, Mismatches: 10, Indels: 13
0.85 0.06 0.08
Matches are distributed among these distances:
84 48 0.36
85 1 0.01
93 85 0.63
94 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (93 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGAT
TACCTAGGTTCTTCGGAACATATGGACT
Found at i:155062 original size:31 final size:31
Alignment explanation
Indices: 154876--155046 Score: 297
Period size: 31 Copynumber: 5.5 Consensus size: 31
154866 AGGGTCGAGG
154876 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
154907 GTTTACCTATGTTTTTCGGGATATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
154938 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
154969 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
155000 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
155031 GATTACCTAGGTTCTT
1 GTTTACCTATGTTCTT
155047 TGGAATCTAT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 132 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:155090 original size:53 final size:53
Alignment explanation
Indices: 155010--155129 Score: 222
Period size: 53 Copynumber: 2.3 Consensus size: 53
155000 GTTTACCTAT
*
155010 GTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTTGGAATCTATGGACTG
1 GTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACTG
155063 GTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACTG
1 GTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACTG
*
155116 GTCCTTCGGGACAT
1 GTTCTTCGGGACAT
155130 TTATATGAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 65 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (53 bp):
GTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACTG
Found at i:155671 original size:2 final size:2
Alignment explanation
Indices: 155664--155715 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
155654 GTTTTGAAAC
155664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
155706 AT AT AT AT AT
1 AT AT AT AT AT
155716 GTAAATGGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:157204 original size:27 final size:27
Alignment explanation
Indices: 157174--157262 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
157164 GATCTAATAA
*
157174 ATGAATGATTAAG-AATGTTACCATTTC
1 ATGAATGATTAAGCAA-GTTATCATTTC
157201 ATGAATGATTAAGCAAGTTATCATTTC
1 ATGAATGATTAAGCAAGTTATCATTTC
157228 ATGAATGATTAAGCAAGTTATCATTTC
1 ATGAATGATTAAGCAAGTTATCATTTC
*
157255 ATTAATGA
1 ATGAATGA
157263 ATTCAAACAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (27 bp):
ATGAATGATTAAGCAAGTTATCATTTC
Found at i:158170 original size:2 final size:2
Alignment explanation
Indices: 158163--158190 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
158153 TTAAATTATT
158163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
158191 ATTTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:158417 original size:22 final size:22
Alignment explanation
Indices: 158392--158436 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
158382 GTTTTATTTA
* *
158392 TATTATAGACTATTAGATTTTG
1 TATTATAAACTATTAAATTTTG
* *
158414 TATTTTAAACTTTTAAATTTTG
1 TATTATAAACTATTAAATTTTG
158436 T
1 T
158437 GTTTGGATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (22 bp):
TATTATAAACTATTAAATTTTG
Found at i:169464 original size:243 final size:244
Alignment explanation
Indices: 169052--169704 Score: 962
Period size: 244 Copynumber: 2.7 Consensus size: 244
169042 TAAAAATATT
* * * *
169052 GATACTTACGAAAAATATCGATACTTCGATTTCTCCTACTTCCTTATAAGTAATTGTTATTGTTT
1 GATACTTACGCAAAATATCGATACTTCAATTTCTCCTACTTCCTTATAAATAATCGTTATTGTTT
* ** * *
169117 TACTAAGGTAACTGATAAAAAATAAAACGAGGTAAAACCGGTAAAAAAGTATAGAAATTTTTTAT
66 TACTAAGGTAACCGATAAAAAA-AAAACGAGGCGAAACCGGTAAAAAAATATAGAAACTTTTTAT
* * * *
169182 ATAAAACGTATGCAAATAAGTATCGATACTTTTCCACAAATATCAATACTTTCGAATTTAAAAA-
130 ATAAAATGTATGCGAATAAGTATCGATATTTTTCCACAAATATCAATACTTTCAAATTTAAAAAT
*
169246 AAATGAAAAATAAGAAGGCTGCAAAGTATCAATATTTTTTCACAAGTATC
195 AAATGAAAAATAAGAAGGCTGCAAAGTATCAATATTTTTCCACAAGTATC
*
169296 GATACTTACGCAAAATATCGATACTTCAATTTCTCCAACTTCCTTATAAATAATCGTTATT-TTT
1 GATACTTACGCAAAATATCGATACTTCAATTTCTCCTACTTCCTTATAAATAATCGTTATTGTTT
* * *
169360 TTCTAAGGTAACCGATAAAAAACAAAAGGAGGCGAAACCGGTAAAAAAATATTGAAACTTTTTAT
66 TACTAAGGTAACCGATAAAAAA-AAAACGAGGCGAAACCGGTAAAAAAATATAGAAACTTTTTAT
* * *
169425 ATAAAATGTATGTGAATAAGTATCGATATTTTTCCACAAATATCGATATTTTCAAATTTAAAAAT
130 ATAAAATGTATGCGAATAAGTATCGATATTTTTCCACAAATATCAATACTTTCAAATTTAAAAAT
* * *
169490 ACATGAAAAATGAGAAGGCTGCAAAGTATCGATATTTTTCCACAAGTATC
195 AAATGAAAAATAAGAAGGCTGCAAAGTATCAATATTTTTCCACAAGTATC
*
169540 GATACTTACGCAAAATATCGATACTTCAATTTCTCCTACTTTCTTATAAATAA-CTGTTATTGTT
1 GATACTTACGCAAAATATCGATACTTCAATTTCTCCTACTTCCTTATAAATAATC-GTTATTGTT
* *
169604 TTACTAAGGTAACCGAT---AAAAAAACGAGGCGAAACCGGTTAAAAAATATCGAAAC-TTTT-T
65 TTACTAAGGTAACCGATAAAAAAAAAACGAGGCGAAACCGGTAAAAAAATATAGAAACTTTTTAT
* *
169664 ATAAAATGTATGCGAGTAAGTATCGGTATTTTTCCACAAAT
130 ATAAAATGTATGCGAATAAGTATCGATATTTTTCCACAAAT
169705 TTAGAAAATA
Statistics
Matches: 372, Mismatches: 34, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
239 39 0.10
240 4 0.01
241 32 0.09
242 3 0.01
243 117 0.31
244 159 0.43
245 18 0.05
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (244 bp):
GATACTTACGCAAAATATCGATACTTCAATTTCTCCTACTTCCTTATAAATAATCGTTATTGTTT
TACTAAGGTAACCGATAAAAAAAAAACGAGGCGAAACCGGTAAAAAAATATAGAAACTTTTTATA
TAAAATGTATGCGAATAAGTATCGATATTTTTCCACAAATATCAATACTTTCAAATTTAAAAATA
AATGAAAAATAAGAAGGCTGCAAAGTATCAATATTTTTCCACAAGTATC
Found at i:169766 original size:29 final size:28
Alignment explanation
Indices: 169716--169774 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
169706 TAGAAAATAT
169716 AAAATTACATAATTAAAAG-AAATTATAA
1 AAAATTACATAATTAAAAGAAAATT-TAA
* * *
169744 AAAATTACTTATATTATATGAAAATTTAA
1 AAAATTACATA-ATTAAAAGAAAATTTAA
169773 AA
1 AA
169775 TTTTTAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 10 0.38
29 11 0.42
30 5 0.19
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATTACATAATTAAAAGAAAATTTAA
Found at i:170329 original size:35 final size:36
Alignment explanation
Indices: 170257--170330 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
170247 TTCAGAAAAC
170257 TAATTACAGTGATCACTTGAGTAATAAAATTATTGT
1 TAATTACAGTGATCACTTGAGTAATAAAATTATTGT
170293 TAATTACAGTGATCACTTGAGTAAT-AAATTATTGT
1 TAATTACAGTGATCACTTGAGTAATAAAATTATTGT
170328 TAA
1 TAA
170331 ACGGGTCGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 13 0.34
36 25 0.66
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (36 bp):
TAATTACAGTGATCACTTGAGTAATAAAATTATTGT
Found at i:177496 original size:22 final size:21
Alignment explanation
Indices: 177448--177496 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
177438 TTTACCTCAG
*
177448 ATTAATAAAAAAAACTAACAA
1 ATTAATAAAAAAAACAAACAA
* *
177469 ATTTAATTAAAAAACCAAACTAA
1 A-TTAATAAAAAAAACAAAC-AA
177492 ATTAA
1 ATTAA
177497 CAAATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.24
Consensus pattern (21 bp):
ATTAATAAAAAAAACAAACAA
Found at i:178648 original size:202 final size:201
Alignment explanation
Indices: 178275--178667 Score: 619
Period size: 202 Copynumber: 2.0 Consensus size: 201
178265 GAACTCTTGC
* * *
178275 ATTGCTGGACTTTTATGATTTAGTATTATTATTAGGTTGAATTGTATGATTGACTCTTATATGAC
1 ATTGCTGGACTTTTATGATTTAGTATTAGTATTAGGTCGAATTGTATGATCGACTCTTATATGAC
* * *
178340 CTAGTGGTCGTTAGATACATCGGTTCATAGAATTGGTTTCAGGTTCTTATATTTTGCTTTCATCA
66 CTAGTGGTCGTTAGATACACCGGTTCATAGAATTGGTTTCAGATTCTTATATTTTGCTTTCACCA
* *
178405 TATATAAAGAATCGAAACTTATGTTTTGAGCCTTGAGTGATGTTATTATTTGTTTCCTGAAGTAC
131 TATATAAAGAATCGAAACTTATGTTTTGAGCCTTCAGTGATGTTATTACTTGTTTCCTGAAGTAC
178470 ATTTGT
196 ATTTGT
* * *
178476 ATTGCTGGACTTGTT-TGTTATTAGTATTAGTGTTTGGTCGAATTGTATGATCGACTCTTAT-TA
1 ATTGCTGGACTT-TTATGAT-TTAGTATTAGTATTAGGTCGAATTGTATGATCGACTCTTATAT-
*
178539 GACCTAGTGGTCGTTAGATACACCGGTTCATAGAATTGGTTTCAGATTCTTATATTTTTCTTTCA
63 GACCTAGTGGTCGTTAGATACACCGGTTCATAGAATTGGTTTCAGATTCTTATATTTTGCTTTCA
* *
178604 CCATATATAACGAATCGAAACTTATGTTTTGATCCTTCAGTGATGTTATTACTTGTTTCCTGAA
128 CCATATATAAAGAATCGAAACTTATGTTTTGAGCCTTCAGTGATGTTATTACTTGTTTCCTGAA
178668 ATTTATTCGA
Statistics
Matches: 175, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
201 16 0.09
202 159 0.91
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (201 bp):
ATTGCTGGACTTTTATGATTTAGTATTAGTATTAGGTCGAATTGTATGATCGACTCTTATATGAC
CTAGTGGTCGTTAGATACACCGGTTCATAGAATTGGTTTCAGATTCTTATATTTTGCTTTCACCA
TATATAAAGAATCGAAACTTATGTTTTGAGCCTTCAGTGATGTTATTACTTGTTTCCTGAAGTAC
ATTTGT
Found at i:179660 original size:9 final size:9
Alignment explanation
Indices: 179646--179673 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
179636 TTTAAAGCTT
179646 GAAGGTAGG
1 GAAGGTAGG
179655 GAAGGTAGG
1 GAAGGTAGG
179664 GAAGGTAGG
1 GAAGGTAGG
179673 G
1 G
179674 CTGAGCAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.57, T:0.11
Consensus pattern (9 bp):
GAAGGTAGG
Done.