Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006529.1 Hibiscus syriacus cultivar Beakdansim tig00015910_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: 646883
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 3
Found at i:6526 original size:1 final size:1
Alignment explanation
Indices: 6520--6586 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
6510 ATGCTTGAAG
* * * ** * * * *
6520 AAAAAAAAAAGAAAAAAAGAAAAGAAAAAGGAAAAGAAAAGAAAAAAAAAAGAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6585 AA
1 AA
6587 GGGGTCAAGG
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:6533 original size:11 final size:11
Alignment explanation
Indices: 6517--6586 Score: 77
Period size: 12 Copynumber: 5.9 Consensus size: 11
6507 ATTATGCTTG
6517 AAGAAAAAAAA
1 AAGAAAAAAAA
6528 AAGAAAAAAAGAA
1 AAG-AAAAAA-AA
*
6541 AAGAAAAAGGAA
1 AAGAAAAA-AAA
6553 AAGAAAAGAAAA
1 AAGAAAA-AAAA
*
6565 AAAAAAGAAAAA
1 AAGAAA-AAAAA
6577 AAGAAAAAAA
1 AAGAAAAAAA
6587 GGGGTCAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.14
12 36 0.72
13 7 0.14
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:6536 original size:8 final size:8
Alignment explanation
Indices: 6523--6587 Score: 80
Period size: 8 Copynumber: 8.0 Consensus size: 8
6513 CTTGAAGAAA
6523 AAAAAAAG
1 AAAAAAAG
6531 AAAAAAAG
1 AAAAAAAG
6539 AAAAGAAA-
1 AAAA-AAAG
*
6547 AAGGAAAAG
1 AA-AAAAAG
6556 AAAAGAAA-
1 AAAA-AAAG
6564 AAAAAAAG
1 AAAAAAAG
6572 AAAAAAAG
1 AAAAAAAG
6580 AAAAAAAG
1 AAAAAAAG
6588 GGGTCAAGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
7 3 0.06
8 38 0.76
9 9 0.18
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:7644 original size:52 final size:52
Alignment explanation
Indices: 7520--7969 Score: 777
Period size: 52 Copynumber: 8.8 Consensus size: 52
7510 TATGTGCTCA
* *
7520 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
7571 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
7623 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* * *
7675 ATAGCATCTTCTGGAAGTGTTATTTAAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
7726 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
7778 ATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
7830 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
7882 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC----TGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
* * *
7930 ATAGCATCTTCTTGAAGTTTTCTTTGAGTTATCTAATCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
7970 ATTAGACATA
Statistics
Matches: 382, Mismatches: 13, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
48 45 0.12
51 92 0.24
52 245 0.64
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:7804 original size:155 final size:155
Alignment explanation
Indices: 7520--7969 Score: 784
Period size: 155 Copynumber: 2.9 Consensus size: 155
7510 TATGTGCTCA
7520 ATAGCATCTTCTGGAAGTGTTCTTTGAA-TTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTT-AAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTG
7584 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
7649 AGTTATCTGATCTGGTTGGACAGAAC
130 AGTTATCTGATCTGGTTGGACAGAAC
*
7675 ATAGCATCTTCTGGAAGTGTTATTTAAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
*
7740 AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTATTTGA
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
7805 GTTATCTGATCTGGTTGGACAGAAC
131 GTTATCTGATCTGGTTGGACAGAAC
* *
7830 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
* *
7895 GAAGTGTTCTTTGAGTTATCTGATC----TGGACAGAACATAGCATCTTCTTGAAGTTTTCTTTG
65 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
*
7956 AGTTATCTAATCTG
130 AGTTATCTGATCTG
7970 ATTAGACATA
Statistics
Matches: 284, Mismatches: 9, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
152 46 0.16
154 2 0.01
155 193 0.68
156 43 0.15
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (155 bp):
ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
GTTATCTGATCTGGTTGGACAGAAC
Found at i:7874 original size:207 final size:203
Alignment explanation
Indices: 7520--7975 Score: 786
Period size: 207 Copynumber: 2.2 Consensus size: 203
7510 TATGTGCTCA
*
7520 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
*
7585 AAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
66 AAGTGTTATTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
7650 GTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTATTTAAGTTATCTGATCTG
131 GTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTATTTAAGTTATCTGATCTG
7715 GTTAGAAGAAC
196 G--A-AAGAAC
*
7726 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
7791 GAAGTGTTATTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
65 GAAGTGTTATTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
* *
7856 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
130 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTATTTAAGTTATCTGATCT
*
7921 GGACAGAAC
195 GGAAAGAAC
* * * *
7930 ATAGCATCTTCTTGAAGTTTTCTTTGAGTTATCTAATCTGATTAGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA
7976 CATAATCAAA
Statistics
Matches: 238, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
204 46 0.19
205 1 0.00
206 44 0.18
207 147 0.62
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (203 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGG
AAGTGTTATTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGA
GTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTATTTAAGTTATCTGATCTG
GAAAGAAC
Found at i:8825 original size:119 final size:118
Alignment explanation
Indices: 8603--8934 Score: 539
Period size: 119 Copynumber: 2.8 Consensus size: 118
8593 CAAAGATTCA
* *
8603 AATTCATCACTTGATGGATCATCATTTCCAAAGAAAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AATTCATCAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCT
8668 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
*
8721 AATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 AATTCATC-AATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATC
*
8786 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
65 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * * *
8840 AATTCATCAGTTGATGGATCAACATTACCAG-GTAA-AGTTCATAATGAGAAGAA--C-TCATCT
1 AATTCATCAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCT
*
8900 GAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
8935 CATCAAGAGC
Statistics
Matches: 203, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
113 39 0.19
114 1 0.00
116 18 0.09
117 3 0.01
118 28 0.14
119 114 0.56
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (118 bp):
AATTCATCAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCT
GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:9188 original size:3 final size:3
Alignment explanation
Indices: 9180--9309 Score: 219
Period size: 3 Copynumber: 43.7 Consensus size: 3
9170 TTTTTATCCA
*
9180 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9228 TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TCAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
*
9273 TAT TAT TA- TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9310 ATTTATATTA
Statistics
Matches: 120, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
2 4 0.03
3 113 0.94
4 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:24441 original size:20 final size:20
Alignment explanation
Indices: 24405--24442 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24395 ATCCTATTCT
**
24405 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
24425 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
24443 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:51552 original size:32 final size:30
Alignment explanation
Indices: 51480--51626 Score: 117
Period size: 31 Copynumber: 4.9 Consensus size: 30
51470 TATTTCGCTT
* *
51480 GAAGAAGAAATAAAAA-GAAAAACG-AAAA
1 GAAGAAAAAATAAAAATGAAAAAAGAAAAA
* *
51508 -ACGAAAGAATAAAAATGAGAAAAAGAAAAA
1 GAAGAAAAAATAAAAATGA-AAAAAGAAAAA
*
51538 GAAGAAAAGAAT--AAATGAGAAAGAATAAAAA
1 GAAGAAAA-AATAAAAATGA-AAA-AAGAAAAA
51569 TG-AGAAAAAATAAAAATGAAAAAAGAAAGAA
1 -GAAGAAAAAATAAAAATGAAAAAAGAAA-AA
* * *
51600 AAATAAAAAGAGAAAAATGAAAAAAGA
1 GAAGAAAAA-ATAAAAATGAAAAAAGA
51627 GAAATAAAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
27 12 0.12
28 2 0.02
29 5 0.05
30 22 0.23
31 29 0.30
32 26 0.27
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.07
Consensus pattern (30 bp):
GAAGAAAAAATAAAAATGAAAAAAGAAAAA
Found at i:51601 original size:24 final size:25
Alignment explanation
Indices: 51564--51639 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 25
51554 GAGAAAGAAT
*
51564 AAAAATGAGA-AAAAATAAAAATGA-
1 AAAAATGAAAGAAAAATAAAAA-GAG
51588 AAAAA-GAAAGAAAAATAAAAAGAG
1 AAAAATGAAAGAAAAATAAAAAGAG
*
51612 AAAAATGAAAAAAGAGAAATAAAAAGAG
1 AAAAATG---AAAGAAAAATAAAAAGAG
51640 GGTTCAAGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.11
24 21 0.48
25 1 0.02
28 17 0.39
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (25 bp):
AAAAATGAAAGAAAAATAAAAAGAG
Found at i:51615 original size:14 final size:14
Alignment explanation
Indices: 51482--51639 Score: 98
Period size: 14 Copynumber: 11.1 Consensus size: 14
51472 TTTCGCTTGA
51482 AGAAGAAATAAAAAG
1 AGAA-AAATAAAAAG
**
51497 A-AAAACGAAAAACG
1 AGAAAAATAAAAA-G
*
51511 A-AAGAATAAAAATG
1 AGAAAAATAAAAA-G
*
51525 AGAAAAAGAAAAAG
1 AGAAAAATAAAAAG
*
51539 AAGAAAAGA-ATAAATG
1 -AGAAAA-ATA-AAAAG
51555 AGAAAGAATAAAAATG
1 AGAAA-AATAAAAA-G
51571 AGAAAAAATAAAAA-
1 AG-AAAAATAAAAAG
* *
51585 TG-AAAA-AAGAA-
1 AGAAAAATAAAAAG
51596 AGAAAAATAAAAAG
1 AGAAAAATAAAAAG
51610 AGAAAAATGAAAAA-
1 AGAAAAAT-AAAAAG
*
51624 AGAGAAATAAAAAG
1 AGAAAAATAAAAAG
51638 AG
1 AG
51640 GGTTCAAGAC
Statistics
Matches: 114, Mismatches: 15, Indels: 29
0.72 0.09 0.18
Matches are distributed among these distances:
11 5 0.04
12 8 0.07
13 16 0.14
14 33 0.29
15 31 0.27
16 18 0.16
17 3 0.03
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.08
Consensus pattern (14 bp):
AGAAAAATAAAAAG
Found at i:51627 original size:16 final size:16
Alignment explanation
Indices: 51518--51630 Score: 87
Period size: 16 Copynumber: 7.2 Consensus size: 16
51508 ACGAAAGAAT
*
51518 AAAAATGAGAAAA-AG
1 AAAAATGAAAAAAGAG
51533 AAAAA-GAAGAAAAGA-
1 AAAAATGAA-AAAAGAG
* * *
51548 ATAAATG-AGAAAGAAT
1 AAAAATGAAAAAAG-AG
*
51564 AAAAATGAGAAAAA-AT
1 AAAAATGA-AAAAAGAG
51580 AAAAATGAAAAAAGAAAG
1 AAAAATGAAAAAAG--AG
51598 AAAAAT--AAAAAGAG
1 AAAAATGAAAAAAGAG
51612 AAAAATGAAAAAAGAG
1 AAAAATGAAAAAAGAG
51628 AAA
1 AAA
51631 TAAAAAGAGG
Statistics
Matches: 80, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
14 14 0.17
15 20 0.25
16 35 0.44
18 11 0.14
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (16 bp):
AAAAATGAAAAAAGAG
Found at i:52824 original size:51 final size:51
Alignment explanation
Indices: 52763--53336 Score: 799
Period size: 51 Copynumber: 11.0 Consensus size: 51
52753 TGAAGCAAAT
52763 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
52814 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
52865 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
52916 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
52967 AAGTTCGTTGAGGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
53018 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
53069 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* * *
53120 AAGTTCGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 AAGTTCGTTGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** * * * *
53175 CCGTT-TTATGAAGATTGCTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGAAC
1 AAGTTCGT-TGAAGA-T--T-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* * * * * * *
53230 ACGTTTGTTAAAAATTGAGTCCTATACTCTCTGAAAGAATAGAGAGCGGGC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** ** * * *
53281 CTGTTTATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGAC
1 AAGTTCGTTGAAGATTG----AGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
53336 A
1 A
53337 CATTTTATGA
Statistics
Matches: 481, Mismatches: 30, Indels: 20
0.91 0.06 0.04
Matches are distributed among these distances:
51 359 0.75
52 1 0.00
53 1 0.00
54 4 0.01
55 115 0.24
56 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (51 bp):
AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
Found at i:53390 original size:55 final size:56
Alignment explanation
Indices: 53086--53416 Score: 199
Period size: 55 Copynumber: 6.1 Consensus size: 56
53076 TTGAAGATTG
* * * * * ** *
53086 AGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA-AGTTCGTTGAAGATTGTTCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAACAGACACATTTTATTGAAGATTGTTCA
* * * * * *
53141 AGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA-TGAAGATTGCTCG
1 AGTCT-TATACTCTCTGAAGGAATAGAGAACAGACACATTTTATTGAAGATTGTTCA
* * * * * *
53196 AGT-TCTATACTCTCTGAAGGAATAGGGAGC-GA-ACACGTTTGTTAAAAATTG----
1 AGTCT-TATACTCTCTGAAGGAATAGAGAACAGACACA-TTTTATTGAAGATTGTTCA
* * * * *
53247 AGTCCTATACTCTCTGAAAGAATAGAGAGCGGGC-C-TGTTTATTGAAGATTGTTCA
1 AGTCTTATACTCTCTGAAGGAATAGAGAACAGACACAT-TTTATTGAAGATTGTTCA
* * *
53302 AGTCTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTA-TGAAGATTGTTCG
1 AGTCTTATACTCTCTGAAGGAATAGAGAACAGACACATTTTATTGAAGATTGTTCA
* * ** *
53357 AGTCTTATACT-TCCTGAAGGAATAG-GAAACAGACTCGTCAT-TTGAAGATTTTTCA
1 AGTCTTATACTCT-CTGAAGGAATAGAG-AACAGACACATTTTATTGAAGATTGTTCA
53412 AGTCT
1 AGTCT
53417 CACTTATCCC
Statistics
Matches: 223, Mismatches: 36, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
51 37 0.17
52 2 0.01
53 1 0.00
54 7 0.03
55 168 0.75
56 7 0.03
57 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (56 bp):
AGTCTTATACTCTCTGAAGGAATAGAGAACAGACACATTTTATTGAAGATTGTTCA
Found at i:62617 original size:31 final size:34
Alignment explanation
Indices: 62582--62662 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 34
62572 AAAATTTAGT
*
62582 TAAAATATTAATTTAA-ATTTTA-A-ATTTTACA
1 TAAAATATTAATTTAATATTTGAGACATTTTACA
* * *
62613 TAAAATA-TCATTTCAATATTTGAGACTTTTTAGA
1 TAAAATATTAATTT-AATATTTGAGACATTTTACA
62647 TAAAATATTAATTTAA
1 TAAAATATTAATTTAA
62663 CTCTTGAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
30 5 0.12
31 9 0.22
32 5 0.12
33 1 0.03
34 15 0.38
35 5 0.12
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (34 bp):
TAAAATATTAATTTAATATTTGAGACATTTTACA
Found at i:68583 original size:8 final size:8
Alignment explanation
Indices: 68562--68605 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
68552 AAGTACGGTT
*
68562 TATACATG
1 TATACATA
*
68570 TGTACATA
1 TATACATA
68578 TATACATA
1 TATACATA
*
68586 TATATATA
1 TATACATA
*
68594 TATATATA
1 TATACATA
68602 TATA
1 TATA
68606 TGCATACGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (8 bp):
TATACATA
Found at i:68588 original size:2 final size:2
Alignment explanation
Indices: 68575--68630 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
68565 ACATGTGTAC
* ** * *
68575 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT GC AT AC GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68617 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
68631 CACCTACCCT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:70639 original size:69 final size:69
Alignment explanation
Indices: 70550--70686 Score: 197
Period size: 69 Copynumber: 2.0 Consensus size: 69
70540 AATTTTCTTA
* * *
70550 TTTTATTCCTATTACCATTAGTAAATTAAACTAAATTTAACAATT-TTATCAAAATAATGGGTGT
1 TTTTATTCCTATTACCATTAGTAAACTAAACTAAATTTAACAATTCTCA-CAAAATAATGAGTGT
70614 GCAAT
65 GCAAT
* *
70619 TTTTTTTCCTATT-CTCATTAGTAAACTAAACTAAATTTAACAGTTCTCACAAAATAATGAGTGT
1 TTTTATTCCTATTAC-CATTAGTAAACTAAACTAAATTTAACAATTCTCACAAAATAATGAGTGT
70683 GCAA
65 GCAA
70687 CGACTCCCCT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 1 0.02
69 58 0.95
70 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (69 bp):
TTTTATTCCTATTACCATTAGTAAACTAAACTAAATTTAACAATTCTCACAAAATAATGAGTGTG
CAAT
Found at i:73355 original size:2 final size:2
Alignment explanation
Indices: 73348--73372 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
73338 TGACTGGTTC
73348 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
73373 GAGCGAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75850 original size:3 final size:3
Alignment explanation
Indices: 75844--75909 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
75834 ATTGAACATA
75844 AAT AAT AAT AAT AAT AAT AAT -AT AAT -AT CAAT AA- ATAT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AA-T AAT
* * *
75889 -AT TAC AAT AAT AAG AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
75910 TAAATTAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.14
3 38 0.75
4 6 0.12
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:77129 original size:17 final size:17
Alignment explanation
Indices: 77107--77140 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
77097 ACTAAGATTA
77107 CTTGCTTATTCTCACTT
1 CTTGCTTATTCTCACTT
77124 CTTGCTTATTCTCACTT
1 CTTGCTTATTCTCACTT
77141 ATATCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.29, G:0.06, T:0.53
Consensus pattern (17 bp):
CTTGCTTATTCTCACTT
Found at i:77224 original size:11 final size:11
Alignment explanation
Indices: 77208--77232 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77198 TTAATTTTTA
77208 TTATTTTATAT
1 TTATTTTATAT
77219 TTATTTTATAT
1 TTATTTTATAT
77230 TTA
1 TTA
77233 ATTCGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTTATAT
Found at i:89712 original size:216 final size:218
Alignment explanation
Indices: 89338--89772 Score: 840
Period size: 216 Copynumber: 2.0 Consensus size: 218
89328 ATCGGATACC
89338 TCGACTCCCGTGTATTTAGTAAACCAAATAGCTGTTGAGGTAATAATTATATGTTATTGCGAGTC
1 TCGACTCCCGTGTATTTAGTAAACCAAATAGCTGTTGAGGTAATAATTATATGTTATTGCGAGTC
89403 TTTCTTATTTTTTAAATAATGTCAAACATTTAAACCTTTTCTAAGTTTGATGCTAAGTTAAAGTG
66 TTTCTTATTTTTTAAATAATGTCAAACATTTAAACCTTTTCTAAGTTTGATGCTAAGTTAAAGTG
89468 AACATTGTATCCCCTTGCATTTCGAAGAATCAGAGT-GTGATGA-ATTATAAAATTGAATATTTA
131 AACATTGTATCCCCTTGCATTTCGAAGAATCAGAGTGGTGATGATATTATAAAATTGAATATTTA
89531 CCTCAAATCTTCTACGACTGTTA
196 CCTCAAATCTTCTACGACTGTTA
89554 TCGACTCCCGTGTATTTAGTAAACCAAATAGCTGTTGAGGTAATAATTATATGTTATTGCGAGTC
1 TCGACTCCCGTGTATTTAGTAAACCAAATAGCTGTTGAGGTAATAATTATATGTTATTGCGAGTC
89619 TTTCTTATTTTTTAAATAATGTCAAACATTTAAACCTTTTCTAAG-TTGATGCATAAGTTAAAGT
66 TTTCTTATTTTTTAAATAATGTCAAACATTTAAACCTTTTCTAAGTTTGATGC-TAAGTTAAAGT
89683 GAACATTGTATCCCCTTGCATTTCGAAGAATCAGAGTGGTGATGATATTATAAAATTGAATATTT
130 GAACATTGTATCCCCTTGCATTTCGAAGAATCAGAGTGGTGATGATATTATAAAATTGAATATTT
89748 ACCTCAAATCTTCTACGACTGTTA
195 ACCTCAAATCTTCTACGACTGTTA
89772 T
1 T
89773 GGCTCTGGAC
Statistics
Matches: 216, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
215 7 0.03
216 158 0.73
217 7 0.03
218 44 0.20
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (218 bp):
TCGACTCCCGTGTATTTAGTAAACCAAATAGCTGTTGAGGTAATAATTATATGTTATTGCGAGTC
TTTCTTATTTTTTAAATAATGTCAAACATTTAAACCTTTTCTAAGTTTGATGCTAAGTTAAAGTG
AACATTGTATCCCCTTGCATTTCGAAGAATCAGAGTGGTGATGATATTATAAAATTGAATATTTA
CCTCAAATCTTCTACGACTGTTA
Found at i:92252 original size:22 final size:23
Alignment explanation
Indices: 92227--92272 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
92217 TTCACGATTG
92227 TAAAGTGATATTTTGTTGA-CTT
1 TAAAGTGATATTTTGTTGATCTT
92249 TAAAGTGATATTTTGTTGATCTT
1 TAAAGTGATATTTTGTTGATCTT
92272 T
1 T
92273 TAGATTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (23 bp):
TAAAGTGATATTTTGTTGATCTT
Found at i:95817 original size:23 final size:23
Alignment explanation
Indices: 95791--95836 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
95781 TAAGTTCGTG
*
95791 AATGGTCAACATTTGATTGTGTT
1 AATGGCCAACATTTGATTGTGTT
95814 AATGGCCAACATTTGATTGTGTT
1 AATGGCCAACATTTGATTGTGTT
95837 GTTCAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (23 bp):
AATGGCCAACATTTGATTGTGTT
Found at i:107067 original size:25 final size:25
Alignment explanation
Indices: 107039--107093 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
107029 GAAGGTAAAA
*
107039 TTATTTTT-ATTATATTATAT-TTATT
1 TTATTTTTAATTAT-TTA-ATCATATT
107064 TTATTTTTAATTATTTAATCATATT
1 TTATTTTTAATTATTTAATCATATT
107089 TTATT
1 TTATT
107094 GTACTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 2 0.07
25 20 0.74
26 5 0.19
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
TTATTTTTAATTATTTAATCATATT
Found at i:110830 original size:85 final size:85
Alignment explanation
Indices: 110708--110886 Score: 313
Period size: 85 Copynumber: 2.1 Consensus size: 85
110698 TTATTCTCAA
* * *
110708 ATGATTGAGAGTATTTAGAACATATATTACTTTATAATCATCTTAACATGATTATTTTTTTGCAT
1 ATGATTGAGAGTATTTAGAACATATACTACTTTATAATCATCTTAACATAATTATTTTTTTACAT
*
110773 AATTCGATTAATGTCTCTGC
66 AATTCGATTAATGTCTCCGC
*
110793 ATGATTGAGAGTATTTAGAACATATACTACTTTATAATCATCTTAGCATAATTATTTTTTTACAT
1 ATGATTGAGAGTATTTAGAACATATACTACTTTATAATCATCTTAACATAATTATTTTTTTACAT
110858 AATTCGATTAATGTCTCCGC
66 AATTCGATTAATGTCTCCGC
110878 ATGATTGAG
1 ATGATTGAG
110887 TAAAATTCGA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (85 bp):
ATGATTGAGAGTATTTAGAACATATACTACTTTATAATCATCTTAACATAATTATTTTTTTACAT
AATTCGATTAATGTCTCCGC
Found at i:111135 original size:11 final size:12
Alignment explanation
Indices: 111117--111145 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
111107 TATGTATATC
111117 ACATATGAAAAA
1 ACATATGAAAAA
111129 A-ATATGAAAAA
1 ACATATGAAAAA
111140 ACATAT
1 ACATAT
111146 TTGTATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (12 bp):
ACATATGAAAAA
Found at i:118055 original size:6 final size:6
Alignment explanation
Indices: 118044--118098 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
118034 TAGAAAACAC
118044 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
118092 GGAGAG G
1 GGAGAG G
118099 TGATGGAAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:122243 original size:13 final size:13
Alignment explanation
Indices: 122227--122260 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
122217 TAAAACCTTC
122227 ATATAATTTTATT
1 ATATAATTTTATT
**
122240 ATATTTTTTTATT
1 ATATAATTTTATT
122253 ATATAATT
1 ATATAATT
122261 ACTGTATCCG
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATATAATTTTATT
Found at i:131410 original size:20 final size:21
Alignment explanation
Indices: 131382--131421 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
131372 ATAAAAATGC
*
131382 TGACGTAATATT-TTTTATAA
1 TGACATAATATTATTTTATAA
131402 TGACATAATATTATTTTATA
1 TGACATAATATTATTTTATA
131422 TTGATAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (21 bp):
TGACATAATATTATTTTATAA
Found at i:131759 original size:31 final size:31
Alignment explanation
Indices: 131721--131788 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
131711 TTAAAAAACA
**
131721 TAAGATATGTTCAATTTCGTTTTCATTTAAT
1 TAAGATATGACCAATTTCGTTTTCATTTAAT
* *
131752 TAAGATATGACCACTTTCGTTTTTATTTAAT
1 TAAGATATGACCAATTTCGTTTTCATTTAAT
131783 TAAGAT
1 TAAGAT
131789 GTGGTCGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (31 bp):
TAAGATATGACCAATTTCGTTTTCATTTAAT
Found at i:132779 original size:31 final size:31
Alignment explanation
Indices: 132744--132807 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
132734 TTAACTCGGG
* * *
132744 GTGATTACATCTTAATTAAGTAAAAATGAAA
1 GTGATTACATATTAATTAAATAAAAACGAAA
* *
132775 GTGATTATATATTAATTAAATAGAAACGAAA
1 GTGATTACATATTAATTAAATAAAAACGAAA
132806 GT
1 GT
132808 AACAATATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (31 bp):
GTGATTACATATTAATTAAATAAAAACGAAA
Found at i:133760 original size:23 final size:22
Alignment explanation
Indices: 133734--133779 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
133724 AGATTGCTTG
133734 AGGGGAACCGATTCCTCTGCTAC
1 AGGGGAACCGATTCC-CTGCTAC
*
133757 A-GGGTACCGATTCCCTGCTAC
1 AGGGGAACCGATTCCCTGCTAC
133778 AG
1 AG
133780 TACTGCTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 12 0.57
23 1 0.05
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (22 bp):
AGGGGAACCGATTCCCTGCTAC
Found at i:136536 original size:26 final size:25
Alignment explanation
Indices: 136475--136557 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 25
136465 ATATAACATC
*
136475 ATTTATTACTCGCACTCGAAGTGTT
1 ATTTATTACTCGCACTCGAAGTGCT
* *
136500 ATTTATCACTCACACTCGAACGTGCT
1 ATTTATTACTCGCACTCGAA-GTGCT
*
136526 ATTTATTACTCGCATTCGAAAGTGCT
1 ATTTATTACTCGCACTCG-AAGTGCT
136552 ATTTAT
1 ATTTAT
136558 ACCAAGACTC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 18 0.36
26 30 0.60
27 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.39
Consensus pattern (25 bp):
ATTTATTACTCGCACTCGAAGTGCT
Found at i:137798 original size:20 final size:20
Alignment explanation
Indices: 137773--137810 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
137763 ACCCAAATTC
137773 ACATTCTAACATCAATTTTA
1 ACATTCTAACATCAATTTTA
*
137793 ACATTCTAACATTAATTT
1 ACATTCTAACATCAATTT
137811 CCAGCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (20 bp):
ACATTCTAACATCAATTTTA
Found at i:148272 original size:16 final size:15
Alignment explanation
Indices: 148231--148291 Score: 86
Period size: 15 Copynumber: 4.0 Consensus size: 15
148221 TAATAAGGTT
148231 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
148246 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
148261 ATTTTGTTTTAAAATA
1 A-TTTATTTTAAAATA
* *
148277 AATTATTATAAAATA
1 ATTTATTTTAAAATA
148292 TGGATTGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
15 27 0.66
16 14 0.34
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:148326 original size:32 final size:32
Alignment explanation
Indices: 148290--148404 Score: 198
Period size: 32 Copynumber: 3.7 Consensus size: 32
148280 TATTATAAAA
148290 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
148322 TATGGA--GATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
148352 TATAGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
148384 TATGAATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
148405 ATATGGATTG
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
30 29 0.37
32 49 0.63
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:148366 original size:18 final size:18
Alignment explanation
Indices: 148343--148399 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
148333 ATTTTAAATA
148343 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
* *
148361 ATTTATT--T-TA-AATA
1 ATTTATTAGTATAGATTG
148375 ATTTATTAGTAT-GAATTG
1 ATTTATTAGTATAG-ATTG
148393 ATTTATT
1 ATTTATT
148400 TTAAAATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
14 9 0.30
15 2 0.07
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATAGATTG
Found at i:148440 original size:80 final size:79
Alignment explanation
Indices: 148350--148901 Score: 356
Period size: 80 Copynumber: 6.9 Consensus size: 79
148340 ATAATTTATT
* *
148350 AGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
148415 ATTTATTATTGTAGT
66 ATTTATTATTTTA-A
* * *
148430 TGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTG
1 AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
148495 ATTTATTTTAAATAATTTATT
66 ATTTA--TT--AT--TTTA-A
** ** * ** * * *
148516 AGTATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTAGTAGTATGGA
1 AGTATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGA
148578 TTGA--T-TTATTTTAA
63 TTGATTTATTATTTTAA
* * * * *
148592 AATAT--ATTGGTTTA--TT--AT--TGTAGTT-GTATGAATTGATTTGTTTTAATTAATTTATT
1 AGTATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAA--AA--TA-T
* * *
148648 AGTATGGATTGATTTATTTTAA
60 -GGATTGATTTA-TTATTTTAA
* *
148670 AATATGGATTGATTTA--CT--AT--TTTAGTT-GTATGGATTGATTTATTTTAAATAATTTATT
1 AGTATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T
* * *
148728 AGTATGGATTAATTTATTTTAA
60 -GGATTGATTTA-TTATTTTAA
* *
148750 AATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
148815 ATTTATTATTGTAGT
66 ATTTATTATTTTA-A
* * *
148830 TGTATGGATTGATTTATTTTAAATAATTTTTTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
148895 ATTTATT
66 ATTTATT
148902 TTAAATAATT
Statistics
Matches: 386, Mismatches: 53, Indels: 66
0.76 0.10 0.13
Matches are distributed among these distances:
68 3 0.01
69 11 0.03
70 5 0.01
72 4 0.01
73 1 0.00
74 13 0.03
76 4 0.01
77 4 0.01
78 14 0.04
79 9 0.02
80 219 0.57
81 5 0.01
82 5 0.01
84 10 0.03
85 15 0.04
86 64 0.17
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (79 bp):
AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
ATTTATTATTTTAA
Found at i:148465 original size:112 final size:105
Alignment explanation
Indices: 148320--148804 Score: 354
Period size: 108 Copynumber: 4.5 Consensus size: 105
148310 ATAATTTATT
* *
148320 AGTATGGA--GATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAT-AATTTA-T
1 AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATGAATTGATT
* * *
148381 TAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGT
66 TA-TATGAAATAATTTA--TT--AATATGGATTGATTTA-T-TT-TA-A
* *
148430 TGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTG
1 AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-ATGAATTG
* * *
148495 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
63 ATTTATATGAAATAATTTATTAATATGGATTGATTTATTTTAA
* * *
148538 AATATGGATTGATTTATTTTAAATAATTTAGTAGTATGGATTGATTTATTTTAAAAT-ATATTGG
1 AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATGA-ATTGA
* * * *
148602 TTTATTATTG---TAGTTGTATGAAT-T-GATTTGTTTTAATTAATTTATT
64 TTTA-TA-TGAAATAATT-TATTAATATGGA-TTGATTT-A-T--TTTA-A
** ** * * *
148648 AGTATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTACT-ATTTTAGTTGT--ATGGATTG
1 AGTATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGATTGA-TTTA-TTTTAAATGAATTG
* * * *
148707 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAA
63 ATTTATATGAAATAATTTATTAATATGGATTGATTTATTTTAA
* *
148750 AATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
148805 ATATGGATTG
Statistics
Matches: 295, Mismatches: 48, Indels: 69
0.72 0.12 0.17
Matches are distributed among these distances:
102 26 0.09
103 9 0.03
104 11 0.04
105 16 0.05
106 32 0.11
107 16 0.05
108 59 0.20
109 11 0.04
110 35 0.12
111 1 0.00
112 55 0.19
114 4 0.01
115 2 0.01
116 15 0.05
117 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (105 bp):
AGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATGAATTGATT
TATATGAAATAATTTATTAATATGGATTGATTTATTTTAA
Found at i:148477 original size:32 final size:31
Alignment explanation
Indices: 148431--148592 Score: 162
Period size: 32 Copynumber: 5.7 Consensus size: 31
148421 TATTGTAGTT
148431 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTA-TA
*
148463 GTATGGATTAATTTATTTT-AA-AA--TAT-
1 GTATGGATTGATTTATTTTAAATAATTTATA
148489 G-A---ATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTA-TA
148517 GTATGGATTGATTTA-TTT---TAA---A-A
1 GTATGGATTGATTTATTTTAAATAATTTATA
148540 -TATGGATTGATTTATTTTAAATAATTTAGTA
1 GTATGGATTGATTTATTTTAAATAATTTA-TA
148571 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
148593 ATATATTGGT
Statistics
Matches: 108, Mismatches: 2, Indels: 40
0.72 0.01 0.27
Matches are distributed among these distances:
22 26 0.24
23 6 0.06
24 2 0.02
25 2 0.02
26 6 0.06
27 2 0.02
28 6 0.06
29 2 0.02
30 2 0.02
31 6 0.06
32 48 0.44
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (31 bp):
GTATGGATTGATTTATTTTAAATAATTTATA
Found at i:148489 original size:22 final size:22
Alignment explanation
Indices: 148464--148506 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
148454 AATTTATTAG
*
148464 TATGGATTAATTTATTTTAAAA
1 TATGAATTAATTTATTTTAAAA
*
148486 TATGAATTGATTTATTTTAAA
1 TATGAATTAATTTATTTTAAA
148507 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTAATTTATTTTAAAA
Found at i:148505 original size:54 final size:54
Alignment explanation
Indices: 148432--148821 Score: 417
Period size: 54 Copynumber: 7.3 Consensus size: 54
148422 ATTGTAGTTG
148432 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
* *
148486 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
* *
148540 TATGGATTGATTTATTTTAAATAATTTAGTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
* * * * * ** * * *
148594 TAT--ATTGGTTTATTATT--GTAGTTGTATGAATTGATTTGTTTTAA-TTAATTTATTAG
1 TATGGATTGATTTATT-TTAAATAATT-TAT---TAG-TATGGATTAATTTATTTTA-AAA
* * * * ***
148650 TATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-CTATTTTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTA-AAA
148698 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
* *
148752 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
148806 TATGGATTGATTTATT
1 TATGGATTGATTTATT
148822 ATTGTAGTTG
Statistics
Matches: 280, Mismatches: 39, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
48 30 0.11
49 3 0.01
50 3 0.01
51 4 0.01
52 14 0.05
53 3 0.01
54 184 0.66
55 16 0.06
56 10 0.04
57 3 0.01
58 10 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAA
Found at i:148538 original size:134 final size:134
Alignment explanation
Indices: 148290--148916 Score: 889
Period size: 134 Copynumber: 4.6 Consensus size: 134
148280 TATTATAAAA
*
148290 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGA--GATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTT-AA-AA--TA-T-G-
*
148353 ATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATT
59 --A-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
148418 TATTATTGTAGTTG
121 TATTATTGTAGTTG
148432 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTGAT
148497 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT
* *
148562 AATTTAGTAG
127 --TGTAGTTG
* * ***
148572 TATGGATTGATTTATTTT-AA-AA--TA-TA-T-TGG-TTTA-TTATTGTAGTTGTATGAATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTA-AAATATGAATTGA
* * * *
148628 TTTGTTTTAATTAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTACTATTTT
65 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
148693 AGTTG
130 AGTTG
148698 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTGAT
148763 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
148828 GTTG
131 GTTG
* *
148832 TATGGATTGATTTATTTTAAATAATTTTTTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTGAT
148897 TTATTTTAAATAATTTATTA
66 TTATTTTAAATAATTTATTA
148917 TTATAGTTGT
Statistics
Matches: 443, Mismatches: 24, Indels: 44
0.87 0.05 0.09
Matches are distributed among these distances:
126 25 0.06
127 2 0.00
128 4 0.01
130 3 0.01
131 9 0.02
132 70 0.16
133 6 0.01
134 225 0.51
135 10 0.02
136 4 0.01
138 5 0.01
139 3 0.01
140 26 0.06
142 40 0.09
143 2 0.00
144 9 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (134 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGAATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
GTTG
Found at i:148543 original size:22 final size:22
Alignment explanation
Indices: 148518--148560 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
148508 AATTTATTAG
148518 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
148540 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
148561 TAATTTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:148675 original size:22 final size:22
Alignment explanation
Indices: 148650--148718 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
148640 AATTTATTAG
148650 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
***
148672 TATGGATTGATTTACTATTTTAGTTG
1 TATGGATTGA-TT--TATTTTA-AAA
148698 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
148719 TAATTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
22 10 0.26
23 9 0.24
25 9 0.24
26 10 0.26
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:148735 original size:32 final size:32
Alignment explanation
Indices: 148697--148804 Score: 137
Period size: 32 Copynumber: 3.7 Consensus size: 32
148687 TATTTTAGTT
148697 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
148729 GTATGGATTAATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
148755 G-A---ATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
148783 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
148805 ATATGGATTG
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
22 12 0.19
23 2 0.03
24 2 0.03
25 1 0.02
26 3 0.05
27 2 0.03
28 3 0.05
29 1 0.02
30 2 0.03
31 2 0.03
32 34 0.53
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:148755 original size:22 final size:22
Alignment explanation
Indices: 148730--148772 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
148720 AATTTATTAG
*
148730 TATGGATTAATTTATTTTAAAA
1 TATGAATTAATTTATTTTAAAA
*
148752 TATGAATTGATTTATTTTAAA
1 TATGAATTAATTTATTTTAAA
148773 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTAATTTATTTTAAAA
Found at i:148796 original size:18 final size:18
Alignment explanation
Indices: 148775--148822 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
148765 ATTTTAAATA
*
148775 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
148793 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
148815 ATTTATTA
1 ATTTATTA
148823 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:148889 original size:22 final size:22
Alignment explanation
Indices: 148864--148906 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
148854 AATTTTTTAG
*
148864 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
148886 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
148907 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:148954 original size:12 final size:12
Alignment explanation
Indices: 148937--148961 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
148927 ATGGATTATT
148937 TAAATTTCAGTA
1 TAAATTTCAGTA
148949 TAAATTTCAGTA
1 TAAATTTCAGTA
148961 T
1 T
148962 TGTAAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TAAATTTCAGTA
Found at i:150602 original size:21 final size:21
Alignment explanation
Indices: 150576--150615 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
150566 TACCGAGTTT
150576 GTATATAAAT-AATATTTTTGA
1 GTATAT-AATGAATATTTTTGA
150597 GTATATAATGAATATTTTT
1 GTATATAATGAATATTTTT
150616 TTACACTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
GTATATAATGAATATTTTTGA
Found at i:153331 original size:7 final size:7
Alignment explanation
Indices: 153319--153365 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
153309 CTAGATCATT
153319 GCAACAG
1 GCAACAG
153326 GCAACAG
1 GCAACAG
153333 GCAACAG
1 GCAACAG
153340 GCAACAG
1 GCAACAG
153347 GCAACAG
1 GCAACAG
153354 GCAACAG
1 GCAACAG
153361 GCAAC
1 GCAAC
153366 GCCCCCATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.43, C:0.30, G:0.28, T:0.00
Consensus pattern (7 bp):
GCAACAG
Found at i:154115 original size:223 final size:224
Alignment explanation
Indices: 153723--154159 Score: 740
Period size: 223 Copynumber: 1.9 Consensus size: 224
153713 TTATCTATCC
153723 TTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGTTAATAT
1 TTTTATAAAAGTGTCCATACTTATTT-ACTGTGAAAATATATTTATTATTA-CTTTAGTTAATAT
**
153788 TGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTA
64 TGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGTA
153853 AATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
129 AATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
153918 AAATTACATAACTTTCAAAAAAGATATATCAT
194 AAATTACATAACTTT-AAAAAAGATATATCAT
*
153950 TTTTATAAAAGTGTCCATACTTATTT-CTGTTGAAAA-ATATTTATTAAATTA-TTTGGTTAATA
1 TTTTATAAAAGTGTCCATACTTATTTACTG-TGAAAATATATTTATT--ATTACTTTAGTTAATA
*
154012 TTGTTAAATTTAAATTCTAAATAATA-TTT-TAAAATATCAAAACAATCAAATAAAATTTTGTGT
63 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGT
*
154075 AAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGAAACA
128 AAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
154140 TAAATTACATAACTTTAAAA
193 TAAATTACATAACTTTAAAA
154160 GCAGTTTTAA
Statistics
Matches: 202, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
222 4 0.02
223 112 0.55
224 3 0.01
225 47 0.23
226 6 0.03
227 30 0.15
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (224 bp):
TTTTATAAAAGTGTCCATACTTATTTACTGTGAAAATATATTTATTATTACTTTAGTTAATATTG
TTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTGTAAA
TTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAAAGATATATCAT
Found at i:154247 original size:20 final size:19
Alignment explanation
Indices: 154224--154269 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
154214 CGATATACCA
154224 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
154244 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
154264 GGTAAA
1 GGTAAA
154270 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:154414 original size:20 final size:19
Alignment explanation
Indices: 154391--154437 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
154381 CGATATAACA
154391 GGTAAAAATATGATAAAAAC
1 GGTAAAAA-ATGATAAAAAC
*
154411 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAAAC
154431 GGTAAAA
1 GGTAAAA
154438 TGATACGGAT
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:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:155918 original size:393 final size:396
Alignment explanation
Indices: 155192--156420 Score: 2298
Period size: 393 Copynumber: 3.1 Consensus size: 396
155182 ATGTAACAAA
155192 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAA
155257 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAA-CG
65 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAA-TTTTCAATCTAACCG
155321 GTACAATTATACCGGTTTTATGAGAGAATA--TCT-AATAATGTGTCGACACTAATATAGTTTGT
129 GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGT
155383 GTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT
194 GTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT
155448 AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTA
259 AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTA
155513 ACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGT
324 ACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGT
155578 TTGTGTCG
389 TTGTGTCG
155586 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCC-ATAT-AAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAA
*
155649 GTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGT
66 GTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTCAATCTAACCGGT
155714 ACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGT
131 ACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGT
155777 CGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTTGCACCCATAAAGTGTCGATCCATATATA
196 CGATATTTTTTTTCCAGAATGAATTAAAAACAAGG-TGCACCCATAAAGTGTCGATCCATATATA
155842 AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
260 AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
155907 CCGGTACAATTATACCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTT
325 CCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTT
155972 TGTGTCG
390 TGTGTCG
*
155979 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGCCGATCCATATATAAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAA
156044 AGTGTCGATCCCAAAATCATCGAA-CCAAAAGTATAATGTAATAAGTAATTTTCAATCTAACCGG
65 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTCAATCTAACCGG
156108 TACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTG
130 TACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTG
*
156173 TCGATATTTTTTTTCCAGAATGAATTAAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATA
195 TCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATA
156238 AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAA
260 AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
156302 CCGGTACAATTATACCGGTTTTATGAGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAG
325 CCGGTACAATTATACCGGTTTTAT--GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAG
156367 TTTGTGTCG
388 TTTGTGTCG
156376 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAA
156421 TTTTGTTGTG
Statistics
Matches: 817, Mismatches: 6, Indels: 21
0.97 0.01 0.02
Matches are distributed among these distances:
390 12 0.01
391 83 0.10
392 50 0.06
393 223 0.27
394 72 0.09
395 130 0.16
396 109 0.13
397 138 0.17
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (396 bp):
ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAA
GTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTCAATCTAACCGGT
ACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGT
CGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAA
AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
GTGTCG
Found at i:156162 original size:197 final size:199
Alignment explanation
Indices: 155192--156420 Score: 2295
Period size: 197 Copynumber: 6.2 Consensus size: 199
155182 ATGTAACAAA
155192 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
*
155257 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAA-CG
66 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
155321 GTACAATTATACCGGTTTTATGAGAGAATA--TCT-AATAATGTGTCGACACTAATATAGTTTGT
131 GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGT
155383 GTCG
196 GTCG
155387 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
155452 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
66 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
155517 GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGT
131 GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGT
155582 GTCG
196 GTCG
155586 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCC--ATAT-AAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
155648 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCG
66 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
155712 GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGT
131 GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGT
155775 GTCG
196 GTCG
155779 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTTGCACCCATAAAGTGTCGATCCATATATAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGG-TGCACCCATAAAGTGTCGATCCATATATAAA
155844 AAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC
65 AAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC
*
155909 GGTACAATTATACCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTG
130 GGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTG
155974 TGTCG
195 TGTCG
*
155979 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGCCGATCCATATATAAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
*
156044 AGTGTCGATCCCAAAATCATCGAA-CCAAAAGTATAATGTAATAAGTAA-TTTTCAATCTAACCG
66 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
156107 GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGT
131 GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGT
156172 GTCG
196 GTCG
*
156176 ATATTTTTTTTCCAGAATGAATTAAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
156241 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCG
66 AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
156305 GTACAATTATACCGGTTTTATGAGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
131 GTACAATTATACCGGTTTTAT--GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
156370 GTGTCG
194 GTGTCG
156376 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAA
1 ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAA
156421 TTTTGTTGTG
Statistics
Matches: 1011, Mismatches: 9, Indels: 23
0.97 0.01 0.02
Matches are distributed among these distances:
193 46 0.05
194 23 0.02
195 194 0.19
196 88 0.09
197 226 0.22
198 152 0.15
199 144 0.14
200 138 0.14
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (199 bp):
ATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAA
AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCG
GTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGT
GTCG
Found at i:156984 original size:23 final size:23
Alignment explanation
Indices: 156953--157016 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
156943 ATAGGTAAAC
*
156953 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
156976 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
156999 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
157017 GGTTAGATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:157100 original size:22 final size:23
Alignment explanation
Indices: 157072--157122 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
157062 TTTTTAGCCC
157072 TTATATAATGTAATAGGTA-TCG
1 TTATATAATGTAATAGGTAGTCG
*
157094 TTATATAATGTAATAGGTAGTGG
1 TTATATAATGTAATAGGTAGTCG
157117 TTATAT
1 TTATAT
157123 TGTAAAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (23 bp):
TTATATAATGTAATAGGTAGTCG
Found at i:157143 original size:98 final size:98
Alignment explanation
Indices: 156968--157163 Score: 342
Period size: 98 Copynumber: 2.0 Consensus size: 98
156958 ATGTAATAGG
156968 TAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGGGTTAGATTGTAAAGT
1 TAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGGGTTAGATTGTAAAGT
157033 GTCTGCCTTTTTATAAAAGTGTCCATACTTTTT
66 GTCTGCCTTTTTATAAAAGTGTCCATACTTTTT
*
157066 TAGCCCTTATATAATGTAATAGGTATCG-TTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
1 TAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAG-GGTTAGATTGTAAAG
*
157130 TGTCTATCC-TTTTATAAAAGTGTCCATACTTTTT
65 TGTCT-GCCTTTTTATAAAAGTGTCCATACTTTTT
157164 CACTGTGGAA
Statistics
Matches: 94, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
97 20 0.21
98 72 0.77
99 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (98 bp):
TAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGGGTTAGATTGTAAAGT
GTCTGCCTTTTTATAAAAGTGTCCATACTTTTT
Found at i:157510 original size:23 final size:23
Alignment explanation
Indices: 157479--157542 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
157469 ATAGGTAAAC
*
157479 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * **
157502 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
157525 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
157543 TGGTTATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:157549 original size:23 final size:23
Alignment explanation
Indices: 157479--157551 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
157469 ATAGGTAAAC
* **
157479 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
157502 ATATAATGTAATATGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
157525 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
157548 ATAT
1 ATAT
157552 TGTAAAATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 40 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:157591 original size:21 final size:20
Alignment explanation
Indices: 157554--157593 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
157544 GGTTATATTG
* *
157554 TAAAATGTCTATCCTTTTTA
1 TAAAATGTCCATACTTTTTA
157574 TAAAAGTGTCCATACTTTTT
1 TAAAA-TGTCCATACTTTTT
157594 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (20 bp):
TAAAATGTCCATACTTTTTA
Found at i:161943 original size:13 final size:13
Alignment explanation
Indices: 161925--161949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
161915 AATTGTTATA
161925 TTTAACTTAAAAT
1 TTTAACTTAAAAT
161938 TTTAACTTAAAA
1 TTTAACTTAAAA
161950 ACTTAAATTA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAACTTAAAAT
Found at i:162383 original size:85 final size:85
Alignment explanation
Indices: 162256--162427 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
162246 AATATCTAAA
162256 TTTGATCCCAAAAAAATCCATCACATATCATCGGATGTTCCAACCTTCAACAACAACCGTAATTT
1 TTTGATCCCAAAAAAATCCATCACATATCATCGGATGTTCCAACCTTCAACAACAACCGTAATTT
162321 CTAACAAAAAATAATTGATT
66 CTAACAAAAAATAATTGATT
162341 TTTGATCCCAAAAAAATCCATCACATATCATCGGATGTTCCAACCTTCAACAACAACCGTAATTT
1 TTTGATCCCAAAAAAATCCATCACATATCATCGGATGTTCCAACCTTCAACAACAACCGTAATTT
162406 CTAACAAAAAATAATTGATT
66 CTAACAAAAAATAATTGATT
162426 TT
1 TT
162428 ACTCCCATGC
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (85 bp):
TTTGATCCCAAAAAAATCCATCACATATCATCGGATGTTCCAACCTTCAACAACAACCGTAATTT
CTAACAAAAAATAATTGATT
Found at i:175966 original size:25 final size:25
Alignment explanation
Indices: 175938--175993 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
175928 AAAGGCGGGA
175938 GCGGCGTAAGAATTGGAAGGACGTT
1 GCGGCGTAAGAATTGGAAGGACGTT
175963 GCGGCGTAAGAATTGGAAGGACGTT
1 GCGGCGTAAGAATTGGAAGGACGTT
175988 GCGGCG
1 GCGGCG
175994 CGTGACAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.43, T:0.18
Consensus pattern (25 bp):
GCGGCGTAAGAATTGGAAGGACGTT
Found at i:176391 original size:14 final size:14
Alignment explanation
Indices: 176361--176408 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
176351 ATCTGTTTTT
176361 AAAAT-TTTGTAATA
1 AAAATATTT-TAATA
*
176375 AAAATATTTTAACA
1 AAAATATTTTAATA
*
176389 AAAATA-TATAATA
1 AAAATATTTTAATA
176402 AAAATAT
1 AAAATAT
176409 ATATGTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 11 0.38
14 15 0.52
15 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
AAAATATTTTAATA
Found at i:176404 original size:13 final size:13
Alignment explanation
Indices: 176370--176411 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
176360 TAAAATTTTG
*
176370 TAATAAAAATATTT
1 TAATAAAAATA-TA
*
176384 TAACAAAAATATA
1 TAATAAAAATATA
176397 TAATAAAAATATA
1 TAATAAAAATATA
176410 TA
1 TA
176412 TGTTATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
TAATAAAAATATA
Found at i:180851 original size:14 final size:14
Alignment explanation
Indices: 180810--180851 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
180800 TGTTTTATCA
*
180810 TTTAAATTTTATTT
1 TTTAAATTTAATTT
*
180824 TTTATAATTAAATTT
1 TTTA-AATTTAATTT
180839 TTTAAATTTAATT
1 TTTAAATTTAATT
180852 ATAATTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAAATTTAATTT
Found at i:193300 original size:19 final size:19
Alignment explanation
Indices: 193251--193304 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
193241 CGAAATCGAT
*
193251 TTTTTCGGTTCGGTTC-GA
1 TTTTTCGATTCGGTTCGGA
** *
193269 TTTTTTTA-ACGGTTCGGA
1 TTTTTCGATTCGGTTCGGA
193287 TTTTTCGATTCGGTTCGG
1 TTTTTCGATTCGGTTCGG
193305 TTTATCGGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
17 6 0.22
18 13 0.48
19 8 0.30
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.50
Consensus pattern (19 bp):
TTTTTCGATTCGGTTCGGA
Found at i:199130 original size:22 final size:23
Alignment explanation
Indices: 199093--199139 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
199083 AACCCTAAAC
199093 AAGCCCAAAAATCGTATCTGCTA
1 AAGCCCAAAAATCGTATCTGCTA
* *
199116 AAGCCC-AGAATCGTATCTTCTA
1 AAGCCCAAAAATCGTATCTGCTA
199138 AA
1 AA
199140 CTCGCGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (23 bp):
AAGCCCAAAAATCGTATCTGCTA
Found at i:206103 original size:16 final size:18
Alignment explanation
Indices: 206082--206122 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
206072 GCATGTCAAC
206082 ACATATAA-TCATG-CAT
1 ACATATAATTCATGTCAT
206098 ACATATAATTCATGTCAT
1 ACATATAATTCATGTCAT
*
206116 TCATATA
1 ACATATA
206123 CGTATAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 5 0.23
18 9 0.41
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (18 bp):
ACATATAATTCATGTCAT
Found at i:206546 original size:19 final size:19
Alignment explanation
Indices: 206522--206592 Score: 142
Period size: 19 Copynumber: 3.7 Consensus size: 19
206512 CTTAAGGGGG
206522 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
206541 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
206560 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
206579 TGCATCGATGCACT
1 TGCATCGATGCACT
206593 GATTGCATTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:211710 original size:42 final size:42
Alignment explanation
Indices: 211642--211723 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
211632 CTTCTTTTCT
* * *
211642 AGAAAACCATCTCTCAGTGAGCCCCAGATACAGAAAGAGTTC
1 AGAAAACCAGCTCTCAATGAGCCCCAGACACAGAAAGAGTTC
* *
211684 AGAAAACCAGCTCTTAATGAGTCCCAGACACAGAAAGAGT
1 AGAAAACCAGCTCTCAATGAGCCCCAGACACAGAAAGAGT
211724 CCGGGAAGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (42 bp):
AGAAAACCAGCTCTCAATGAGCCCCAGACACAGAAAGAGTTC
Found at i:211736 original size:42 final size:42
Alignment explanation
Indices: 211659--211753 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 42
211649 CATCTCTCAG
* * * *
211659 TGAGCCCCAGATACAGAAAGAGTTCAGAAAACCAGCTCTTAA
1 TGAGACCCAGACACAGAAAGAGTCCAGAAAACCAGCACTTAA
* * * *
211701 TGAGTCCCAGACACAGAAAGAGTCCGGGAAGCCAGCACTTAA
1 TGAGACCCAGACACAGAAAGAGTCCAGAAAACCAGCACTTAA
*
211743 CGAGACCCAGA
1 TGAGACCCAGA
211754 ACACGAAGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (42 bp):
TGAGACCCAGACACAGAAAGAGTCCAGAAAACCAGCACTTAA
Found at i:224422 original size:13 final size:13
Alignment explanation
Indices: 224404--224432 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
224394 TATCGGTTAG
224404 ATTATATTTTTTA
1 ATTATATTTTTTA
224417 ATTATATTTTTTA
1 ATTATATTTTTTA
224430 ATT
1 ATT
224433 TAACACTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTATATTTTTTA
Found at i:225923 original size:21 final size:21
Alignment explanation
Indices: 225897--225943 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
225887 GCACATGGAG
*
225897 GAACCATCATCTCCACTAGAA
1 GAACCATCATCTCCACCAGAA
225918 GAACCATCATCTCCACCAGAA
1 GAACCATCATCTCCACCAGAA
225939 GAACC
1 GAACC
225944 GCTTCGTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.36, G:0.11, T:0.15
Consensus pattern (21 bp):
GAACCATCATCTCCACCAGAA
Found at i:229647 original size:20 final size:19
Alignment explanation
Indices: 229589--229656 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
229579 GAATGGTACT
229589 GATACCCCCCATA-GGTATC
1 GATA-CCCCCATATGGTATC
229608 GATACCCCCATGCAATGGTATC
1 GATACCCCCAT---ATGGTATC
*
229630 GATACCCCTCATATGGTACC
1 GATACCCC-CATATGGTATC
229650 GATACCC
1 GATACCC
229657 TAAGGCATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
18 7 0.16
19 4 0.09
20 14 0.33
21 1 0.02
22 14 0.33
23 3 0.07
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.22
Consensus pattern (19 bp):
GATACCCCCATATGGTATC
Found at i:232456 original size:18 final size:18
Alignment explanation
Indices: 232433--232472 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
232423 ATATATGTCA
232433 TTGTATATGTGATATAAT
1 TTGTATATGTGATATAAT
232451 TTG--TATGTGATATAAT
1 TTGTATATGTGATATAAT
232467 TTGTAT
1 TTGTAT
232473 GTATTCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 16 0.80
18 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (18 bp):
TTGTATATGTGATATAAT
Found at i:232459 original size:16 final size:16
Alignment explanation
Indices: 232438--232474 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
232428 TGTCATTGTA
232438 TATGTGATATAATTTG
1 TATGTGATATAATTTG
232454 TATGTGATATAATTTG
1 TATGTGATATAATTTG
232470 TATGT
1 TATGT
232475 ATTCACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (16 bp):
TATGTGATATAATTTG
Found at i:232679 original size:44 final size:45
Alignment explanation
Indices: 232579--232680 Score: 106
Period size: 44 Copynumber: 2.3 Consensus size: 45
232569 CTACGTGACA
232579 ATGAGCTATGTGAAAATAAGTGATATGATTACATGAGTACAAGAT
1 ATGAGCTATGTGAAAATAAGTGATATGATTACATGAGTACAAGAT
* * *
232624 ATAAGGC-ATGTGAAAAT-AGAT-ATGTGATTACATGAAAGTA-TA-AT
1 ATGA-GCTATGTGAAAATAAG-TGATATGATTACATG--AGTACAAGAT
232668 ATGAGCTATGTGA
1 ATGAGCTATGTGA
232681 TATGAATAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
43 2 0.04
44 25 0.52
45 15 0.31
46 6 0.12
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (45 bp):
ATGAGCTATGTGAAAATAAGTGATATGATTACATGAGTACAAGAT
Found at i:236514 original size:44 final size:44
Alignment explanation
Indices: 236273--236574 Score: 233
Period size: 44 Copynumber: 7.1 Consensus size: 44
236263 TAATTAATAA
* ** *
236273 AAAAAGTGAGATT-AAAAAAATTAGAAGCCTCGGTTATAAAGGT
1 AAAAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGAT
* * * * *
236316 AAAAAGTTATATTTTAAAAAAA-TAGCG-GCCTAAATTATATAA-TT
1 AAAAAGTGAGA-TTGAAAAAAATTAG-GAGCCTCAATTATA-AAGAT
*
236360 AAAAAGTGAGATTGAAAAAAATTA-GAGGTCTCAATTATAAAGAT
1 AAAAAGTGAGATTGAAAAAAATTAGGA-GCCTCAATTATAAAGAT
* * * *
236404 AAAAATTGAGATT----AAAATTAGGGGCCTTAATTATAAAGGT
1 AAAAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGAT
* *
236444 AGAAAA-TGAGACTGAAAAAAAGTAGGAGCCTCAATTATAAAGAT
1 A-AAAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGAT
* * *
236488 AAAATGTGGGATTGAAAAAAATTAGGATCCTCAATTATAAATG-T
1 AAAAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAA-GAT
* * *
236532 AAAAA---A-A-TG-AGAAAATTAGGGGCCTCAATTATAAATAT
1 AAAAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGAT
236570 AAAAA
1 AAAAA
236575 AAATTAAGAA
Statistics
Matches: 208, Mismatches: 34, Indels: 39
0.74 0.12 0.14
Matches are distributed among these distances:
38 29 0.14
39 2 0.01
40 29 0.14
41 5 0.02
42 1 0.00
43 23 0.11
44 109 0.52
45 10 0.05
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (44 bp):
AAAAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGAT
Found at i:236602 original size:40 final size:39
Alignment explanation
Indices: 236520--236613 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 39
236510 TAGGATCCTC
* * * * * *
236520 AATTATAAATGT-AAAAAAATGAGAAAATTAGGGGCCTC
1 AATTATAAATATAAAAAAAATAAGAAAACTAAGGGACTA
236558 AATTATAAATATAAAAAAAATTAAGAAAACTAAGGGACTA
1 AATTATAAATATAAAAAAAA-TAAGAAAACTAAGGGACTA
236598 AATTAT--ATATAAAAAA
1 AATTATAAATATAAAAAA
236614 TAAGATTGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 21 0.44
39 7 0.15
40 20 0.42
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (39 bp):
AATTATAAATATAAAAAAAATAAGAAAACTAAGGGACTA
Found at i:246912 original size:59 final size:61
Alignment explanation
Indices: 246846--246962 Score: 211
Period size: 61 Copynumber: 2.0 Consensus size: 61
246836 TTCGATTGAC
*
246846 ACATATTTAA-TTTGATAAGTTAGGTGGATA-GGACATTTGAAATATTTTTTCTGCGGACA
1 ACATATTTAATTTTGATAAGTTAGGTGGATATAGACATTTGAAATATTTTTTCTGCGGACA
246905 ACATATTTAATTTTGATAAGTTAGGTGGATATAGACATTTGAAATATTTTTTCTGCGG
1 ACATATTTAATTTTGATAAGTTAGGTGGATATAGACATTTGAAATATTTTTTCTGCGG
246963 TTATTCTCTC
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 10 0.18
60 20 0.36
61 25 0.45
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (61 bp):
ACATATTTAATTTTGATAAGTTAGGTGGATATAGACATTTGAAATATTTTTTCTGCGGACA
Found at i:247621 original size:13 final size:13
Alignment explanation
Indices: 247605--247702 Score: 66
Period size: 13 Copynumber: 7.8 Consensus size: 13
247595 ATGTAGAAAT
*
247605 TAAATGAATATAA
1 TAAATAAATATAA
247618 TAAATAAATATAA
1 TAAATAAATATAA
*
247631 T-AATAATTATTAA
1 TAAATAAATA-TAA
*
247644 T-ATTAAATATGAA
1 TAAATAAATAT-AA
247657 T--AT-AATA-AA
1 TAAATAAATATAA
*
247666 TAATTAAAATATAA
1 TAAAT-AAATATAA
*
247680 TAATATAAATATAG
1 TAA-ATAAATATAA
247694 TAAA-AAATA
1 TAAATAAATA
247703 GGTATTTTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
9 3 0.04
11 5 0.07
12 14 0.20
13 31 0.45
14 15 0.22
15 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
TAAATAAATATAA
Found at i:247632 original size:18 final size:18
Alignment explanation
Indices: 247605--247730 Score: 73
Period size: 19 Copynumber: 6.9 Consensus size: 18
247595 ATGTAGAAAT
*
247605 TAAATGAATATAATA-AA
1 TAAATAAATATAATATAA
247622 TAAATATAATAATAATTATTAA
1 TAAATA-AAT-ATAA-TA-TAA
*
247644 T-ATTAAATATGAATATAA
1 TAAATAAATAT-AATATAA
* *
247662 TAAATAATTAAAATATAA
1 TAAATAAATATAATATAA
*
247680 TAATATAAATATAGTA-AA
1 TAA-ATAAATATAATATAA
** **
247698 -AAATAGGTATTTTATAA
1 TAAATAAATATAATATAA
*
247715 -AAATAATTATAATATA
1 TAAATAAATATAATATA
247731 TTTTGTAAAT
Statistics
Matches: 84, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
16 8 0.10
17 21 0.25
18 19 0.23
19 23 0.27
20 7 0.08
21 3 0.04
22 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (18 bp):
TAAATAAATATAATATAA
Found at i:247635 original size:16 final size:16
Alignment explanation
Indices: 247614--247702 Score: 62
Period size: 16 Copynumber: 5.6 Consensus size: 16
247604 TTAAATGAAT
247614 ATAATAAATAAATATA
1 ATAATAAATAAATATA
*
247630 ATAAT-AAT-TAT-TA
1 ATAATAAATAAATATA
*
247643 ATATTAAATATGAATATA
1 ATAATAAATA--AATATA
*
247661 ATAAATAATTAAA-AT-
1 AT-AATAAATAAATATA
247676 ATAATAATATAAATATA
1 ATAATAA-ATAAATATA
* *
247693 GTAAAAAATA
1 ATAATAAATA
247703 GGTATTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
13 6 0.11
14 10 0.18
15 9 0.16
16 12 0.21
17 9 0.16
18 4 0.07
19 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
ATAATAAATAAATATA
Found at i:247697 original size:24 final size:24
Alignment explanation
Indices: 247608--247698 Score: 61
Period size: 24 Copynumber: 4.0 Consensus size: 24
247598 TAGAAATTAA
* *
247608 ATGAATATAATAAATAAATATAAT
1 ATGAATATAATAAATAAGTAAAAT
* *
247632 AAT-AAT-T-ATTAAT-A-TTAAAT
1 -ATGAATATAATAAATAAGTAAAAT
*
247652 ATGAATATAATAAATAATTAAAAT
1 ATGAATATAATAAATAAGTAAAAT
247676 AT-AATA-ATATAAATATAGTAAAA
1 ATGAATATA-ATAAATA-AGTAAAA
247699 AATAGGTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
19 2 0.04
20 7 0.13
21 2 0.04
22 11 0.21
23 13 0.25
24 16 0.30
25 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (24 bp):
ATGAATATAATAAATAAGTAAAAT
Found at i:251461 original size:158 final size:164
Alignment explanation
Indices: 251163--251486 Score: 606
Period size: 158 Copynumber: 2.0 Consensus size: 164
251153 GATGTGGACA
251163 TTTTGAAGGCTATTCTTCCAAATAATTTATAGAGGACTTTTTTTTAAATAATTATTTATTTGAGA
1 TTTTGAAGGCTATTCTTCCAAATAATTTATAGAGGACTTTTTTTTAAATAATTATTTATTTGAGA
251228 TTTTTATATAAAATTATTCTTTATTTATTTAAGCCACCTGATTCTTCCTAATTTTATGGGGAAGC
66 TTTTTATATAAAATTATTCTTTATTTATTTAAGCCACCTGATTCTTCCTAATTTTATGGGGAAGC
251293 TCGCCTTCATTTTAATATCTATTGCATGACCCAC
131 TCGCCTTCATTTTAATATCTATTGCATGACCCAC
251327 TTTTGAAGGCTATTCTT-CAAA-AATTTATAGAGGAC-TTTTTTTAAATAATTATTTATTTGAGA
1 TTTTGAAGGCTATTCTTCCAAATAATTTATAGAGGACTTTTTTTTAAATAATTATTTATTTGAGA
251389 TTTTTATAT-AAATTA-TCTTTATTTATTTAAGCCA-CTGATTCTTCCTAATTTTATGGGGAAGC
66 TTTTTATATAAAATTATTCTTTATTTATTTAAGCCACCTGATTCTTCCTAATTTTATGGGGAAGC
251451 TCGCCTTCATTTTAATATCTATTGCATGACCCAC
131 TCGCCTTCATTTTAATATCTATTGCATGACCCAC
251485 TT
1 TT
251487 ATTTTATACT
Statistics
Matches: 160, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
158 64 0.40
159 19 0.12
160 6 0.04
161 36 0.22
162 14 0.09
163 4 0.03
164 17 0.11
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (164 bp):
TTTTGAAGGCTATTCTTCCAAATAATTTATAGAGGACTTTTTTTTAAATAATTATTTATTTGAGA
TTTTTATATAAAATTATTCTTTATTTATTTAAGCCACCTGATTCTTCCTAATTTTATGGGGAAGC
TCGCCTTCATTTTAATATCTATTGCATGACCCAC
Found at i:258638 original size:31 final size:31
Alignment explanation
Indices: 258540--258630 Score: 119
Period size: 31 Copynumber: 2.9 Consensus size: 31
258530 TATCGAATTT
*
258540 TTACAAAATGATCATTAAATTTGATCAAACAA
1 TTACAAAATGATCATTAAATTT-ATCAAACTA
* **
258572 TTATAAAACAATCATTAAATTTATCAAACTA
1 TTACAAAATGATCATTAAATTTATCAAACTA
* *
258603 TTACAAAATGGTCATTAAATATATCAAA
1 TTACAAAATGATCATTAAATTTATCAAA
258631 TTTTTACAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 31 0.62
32 19 0.38
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (31 bp):
TTACAAAATGATCATTAAATTTATCAAACTA
Found at i:259047 original size:35 final size:35
Alignment explanation
Indices: 258985--259093 Score: 159
Period size: 37 Copynumber: 3.1 Consensus size: 35
258975 CAACTTTGAA
258985 AAAATGGTTTTCAAAG-TTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
259019 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
259054 AAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 -AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
259090 AAAA
1 AAAA
259094 ATGATAATGG
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
34 16 0.23
35 22 0.32
36 8 0.12
37 23 0.33
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:263635 original size:37 final size:38
Alignment explanation
Indices: 263580--263663 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 38
263570 TGGTAACCAA
263580 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
* *
263617 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
*
263654 -GTTGAAAAAT
1 CTTTGAAAAAT
263664 GATAATGGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 9 0.21
37 33 0.77
38 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (38 bp):
CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:265608 original size:30 final size:31
Alignment explanation
Indices: 265572--265638 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
265562 CCCTAATAGG
*
265572 CTAAAT-AAAAAACTCGTTATCTTTATTGGA
1 CTAAATAAAAAAACTCGCTATCTTTATTGGA
*
265602 CTAAATAAAAAAACTCGCTATCTTTATTGGG
1 CTAAATAAAAAAACTCGCTATCTTTATTGGA
265633 CTAAAT
1 CTAAAT
265639 CAGCCGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 6 0.18
31 28 0.82
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (31 bp):
CTAAATAAAAAAACTCGCTATCTTTATTGGA
Found at i:265957 original size:2 final size:2
Alignment explanation
Indices: 265950--265977 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
265940 AATATACTTA
265950 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
265978 TATTTTTCAT
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):
AT
Found at i:266082 original size:60 final size:60
Alignment explanation
Indices: 266013--266137 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 60
266003 AAATACTGAA
* * *
266013 ACATATTTACACAAATATAATTATATGTCTATTTTTAGGTACTAAGATATTGGGAGATAT
1 ACATATTTACACAAATATAAGTATATGTCTATTTTTAGGTACCAAGATATTGAGAGATAT
** * * * *
266073 ACATATTTACACAGGTATAAGTATGTGTTTATTTTTAGGTACCAATATATTGAGAGATGT
1 ACATATTTACACAAATATAAGTATATGTCTATTTTTAGGTACCAAGATATTGAGAGATAT
266133 ACATA
1 ACATA
266138 CTTATACTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (60 bp):
ACATATTTACACAAATATAAGTATATGTCTATTTTTAGGTACCAAGATATTGAGAGATAT
Found at i:266154 original size:60 final size:60
Alignment explanation
Indices: 266013--266161 Score: 163
Period size: 60 Copynumber: 2.5 Consensus size: 60
266003 AAATACTGAA
* ** * * * * *
266013 ACATATTTACACAAATATAATTATATGTCTATTTTTAGGTACTAAGATATTGGGAGATAT
1 ACATACTTACACAGGTATAAGTATGTGTTTATTTTTAGGTACCAAGATATTGAGAGATAT
* * *
266073 ACATATTTACACAGGTATAAGTATGTGTTTATTTTTAGGTACCAATATATTGAGAGATGT
1 ACATACTTACACAGGTATAAGTATGTGTTTATTTTTAGGTACCAAGATATTGAGAGATAT
* ** *
266133 ACATACTTATACTTGTGTAAGTATGTGTT
1 ACATACTTACACAGGTATAAGTATGTGTT
266162 AATTGATACA
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 75 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (60 bp):
ACATACTTACACAGGTATAAGTATGTGTTTATTTTTAGGTACCAAGATATTGAGAGATAT
Found at i:266368 original size:11 final size:11
Alignment explanation
Indices: 266352--266376 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
266342 AATATTGATA
266352 TATTTTTATTT
1 TATTTTTATTT
266363 TATTTTTATTT
1 TATTTTTATTT
266374 TAT
1 TAT
266377 ATGCATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:269784 original size:14 final size:14
Alignment explanation
Indices: 269765--269792 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
269755 TTTTTGGTCT
269765 AATAACAATTTAGA
1 AATAACAATTTAGA
269779 AATAACAATTTAGA
1 AATAACAATTTAGA
269793 TAGTTCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
AATAACAATTTAGA
Found at i:271443 original size:29 final size:32
Alignment explanation
Indices: 271374--271446 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 32
271364 AAAGTAATAT
* **
271374 ATATTTTAAATATTTTTAATTATTTTATAATG
1 ATATTTTAATTATTTTTAATTATAGTATAATG
271406 A-ATGTTTAATTA-TTTT-ATTATAGT-TAATG
1 ATAT-TTTAATTATTTTTAATTATAGTATAATG
271435 ATATTTTAATTA
1 ATATTTTAATTA
271447 CTGAATTCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
29 14 0.39
30 8 0.22
31 6 0.17
32 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (32 bp):
ATATTTTAATTATTTTTAATTATAGTATAATG
Found at i:273139 original size:19 final size:19
Alignment explanation
Indices: 273115--273152 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
273105 TATTTTATAA
*
273115 TAATATATCTATAATTATT
1 TAATATATCTAAAATTATT
*
273134 TAATATATTTAAAATTATT
1 TAATATATCTAAAATTATT
273153 GAATTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATATATCTAAAATTATT
Found at i:273212 original size:21 final size:23
Alignment explanation
Indices: 273177--273220 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
273167 AATAGTATTT
*
273177 TATAGTTTTATTAAT-TAAATAA
1 TATAGTTTTAATAATATAAATAA
273199 TATA-TTTTAATAATATAAATAA
1 TATAGTTTTAATAATATAAATAA
273221 AATTTCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATAGTTTTAATAATATAAATAA
Found at i:273230 original size:22 final size:21
Alignment explanation
Indices: 273182--273247 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
273172 TATTTTATAG
* *
273182 TTTTATTAATTAAATAATATA
1 TTTTAATAATTAAATAAAATA
273203 TTTTAATAATATAAATAAAAT-
1 TTTTAATAAT-TAAATAAAATA
* *
273224 TTCTTAAAAAATTAAATATAATA
1 TT-TT-AATAATTAAATAAAATA
273247 T
1 T
273248 ATATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 11 0.30
22 20 0.54
23 6 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTAATAATTAAATAAAATA
Found at i:273249 original size:2 final size:2
Alignment explanation
Indices: 273239--273270 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
273229 AAAAAATTAA
273239 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
273271 ATTAATCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:274302 original size:21 final size:23
Alignment explanation
Indices: 274262--274315 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
274252 TTTTCCAGAA
* *
274262 TGCTACAGTATTATCGATACCC-
1 TGCTACAGTAGTACCGATACCCT
274284 TGCTACAGT-GTACCGATACCCT
1 TGCTACAGTAGTACCGATACCCT
*
274306 TGTTACAGTA
1 TGCTACAGTA
274316 ATTTCGGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (23 bp):
TGCTACAGTAGTACCGATACCCT
Found at i:289731 original size:14 final size:15
Alignment explanation
Indices: 289711--289749 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
289701 TTGCTTCACT
289711 TTTCTTTTGCTTTTC
1 TTTCTTTTGCTTTTC
*
289726 -TTCTTTTTCTTTTC
1 TTTCTTTTGCTTTTC
289740 TTTCTTTTGC
1 TTTCTTTTGC
289750 ACTCCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTCTTTTGCTTTTC
Found at i:305042 original size:111 final size:111
Alignment explanation
Indices: 304848--305069 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
304838 AATTACAAAA
304848 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAATTATTACTAATAATTTAAATTA
* * *
304913 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
*
304959 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAATTATTACTAATAATTTAAATTA
305024 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
305070 GATTTCCATC
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATAAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTATAGAGATAT
Found at i:305145 original size:17 final size:18
Alignment explanation
Indices: 305125--305165 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
305115 GAATTATATT
*
305125 AGTAAAATA-TTAAATAA
1 AGTAAAAAACTTAAATAA
305142 AGTAAAAAACTTAAATAA
1 AGTAAAAAACTTAAATAA
*
305160 ATTAAA
1 AGTAAA
305166 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
AGTAAAAAACTTAAATAA
Found at i:305224 original size:10 final size:10
Alignment explanation
Indices: 305205--305235 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
305195 ACCTTAAAAA
*
305205 GAGAGTATTT
1 GAGAGAATTT
305215 GAGAGAATTT
1 GAGAGAATTT
305225 GAGAGAATTT
1 GAGAGAATTT
305235 G
1 G
305236 GTGTGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:306635 original size:2 final size:2
Alignment explanation
Indices: 306628--306653 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
306618 GAGTAAATAC
306628 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
306654 TAACAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:306838 original size:18 final size:19
Alignment explanation
Indices: 306802--306839 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
306792 TCACGGAGTG
306802 TAAGATTACCAGTGGGAATA
1 TAAGATTACCAG-GGGAATA
306822 TAAGATTACCA-GGGAATA
1 TAAGATTACCAGGGGAATA
306840 CGATTACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
TAAGATTACCAGGGGAATA
Found at i:307062 original size:36 final size:37
Alignment explanation
Indices: 306984--307062 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 37
306974 AACAAATTGA
* *
306984 AAAATATTTATATATTTTCTTTAAAAATTTAAATTCAT
1 AAAA-ATTTATATATTTTCTTTAAAAATTGAAAATCAT
307022 -AAAATTTATATATTTT-TTTACAAAATTGAAAAT-AT
1 AAAAATTTATATATTTTCTTTA-AAAATTGAAAATCAT
307057 AAAAAT
1 AAAAAT
307063 GTTTAATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
35 6 0.16
36 28 0.76
37 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (37 bp):
AAAAATTTATATATTTTCTTTAAAAATTGAAAATCAT
Found at i:309040 original size:17 final size:17
Alignment explanation
Indices: 309018--309051 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
309008 ACAAATGGGA
309018 CTTGTAGAGATTGGGTT
1 CTTGTAGAGATTGGGTT
309035 CTTGTAGAGATTGGGTT
1 CTTGTAGAGATTGGGTT
309052 TAAGTCGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.35, T:0.41
Consensus pattern (17 bp):
CTTGTAGAGATTGGGTT
Found at i:312531 original size:18 final size:18
Alignment explanation
Indices: 312508--312542 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
312498 GTTCAGTATT
312508 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
312526 TGTCCCGAATGACCACT
1 TGTCCCGAATGACCACT
312543 GGATATCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:319411 original size:18 final size:18
Alignment explanation
Indices: 319388--319422 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
319378 GTTCAATATT
319388 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
319406 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
319423 GGATATGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:319432 original size:22 final size:22
Alignment explanation
Indices: 319388--319480 Score: 122
Period size: 22 Copynumber: 4.4 Consensus size: 22
319378 GTTCAATATT
319388 TGTCCCGAAGGACCAC----TA
1 TGTCCCGAAGGACCACTGGATA
319406 TGTCCCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTGGATA
*
319428 TGTCCCGAATGACCACTGGATA
1 TGTCCCGAAGGACCACTGGATA
* *
319450 CGTCCTGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTGGATA
*
319472 CGTCCCGAA
1 TGTCCCGAA
319481 TGACTAATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
18 16 0.24
22 50 0.76
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGGATA
Found at i:333000 original size:2 final size:2
Alignment explanation
Indices: 332993--333023 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
332983 TTCCTATTAT
332993 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
333024 TAATTATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:337480 original size:3 final size:3
Alignment explanation
Indices: 337474--337837 Score: 161
Period size: 3 Copynumber: 111.0 Consensus size: 3
337464 ATATGACGTT
* * * * *
337474 GAA GAA GAA GAA GAG GAA GAG GAA GAA GAA GAA GAA GAC TAT GAAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA
* *
337520 GAA GAA GAAA GAA GAA GAA GAA GACTA TAT GAAA GAA GAA GAAA GAA
1 GAA GAA G-AA GAA GAA GAA GAA GA--A GAA G-AA GAA GAA G-AA GAA
* * * *
337567 GAA GACTA TAT GAAA GAA GAA GAAA GAA GAA GACTA TAT GAAA GAA GAA
1 GAA GA--A GAA G-AA GAA GAA G-AA GAA GAA GA--A GAA G-AA GAA GAA
* * * *
337616 GAA GAA GAC GACT GTAT GAAA GAA GAA GAA GAA GAA GAA GAA GAC GACTA
1 GAA GAA GAA GA-A G-AA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GA--A
* * * * * * *
337666 TAT GAAA GAA GAA GAA GAA GAA GAA GAA TAC TAT GAAA GAA GAA GAC
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
* * * *
337713 TAT GAAA GAA GAA GAAA GAA GAA GAA GAA GACTA TAT GAAA GAA GAA
1 GAA G-AA GAA GAA G-AA GAA GAA GAA GAA GA--A GAA G-AA GAA GAA
* * * *
337760 GAA GAA GAA AAA GAA AAA GACTA TAT GAAA GAA GAA GAA GAA GAA GACTA
1 GAA GAA GAA GAA GAA GAA GA--A GAA G-AA GAA GAA GAA GAA GAA GA--A
* *
337810 TAT GAAA GAA GAA GAA GAA GAA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA
337838 ATAACTAAAG
Statistics
Matches: 274, Mismatches: 57, Indels: 60
0.70 0.15 0.15
Matches are distributed among these distances:
3 223 0.81
4 37 0.14
5 14 0.05
ACGTcount: A:0.60, C:0.04, G:0.27, T:0.09
Consensus pattern (3 bp):
GAA
Done.