Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold449
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: 551709
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 3
Found at i:181394 original size:42 final size:42
Alignment explanation
Indices: 181347--181509 Score: 145
Period size: 42 Copynumber: 3.8 Consensus size: 42
181337 AAAAGAGTAC
181347 GTCCTGCT-TTTCGAGGAC-AAAGAAAAAAGGAAAACAAAATGT
1 GTCCTGCTCTTT-GAGGACAAAAG-AAAAAGGAAAACAAAATGT
* * *
181389 GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAACAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAACAAAATGT
* * **
181431 GCCCTACTCTTTGAGGACAAAAGGGAAAAA--AAAGGAATGAAGTGT
1 GTCCTGCTCTTTGAGGACAAAA--GAAAAAGGAAAACAA--AA-TGT
* *
181476 CTCCTCCTCTTTGAGGACAAAAGAGAAAAGGAAA
1 GTCCTGCTCTTTGAGGACAAAAGA-AAAAGGAAA
181510 GGGCGTCCTA
Statistics
Matches: 98, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
42 55 0.56
43 9 0.09
44 10 0.10
45 21 0.21
46 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (42 bp):
GTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAACAAAATGT
Found at i:181586 original size:61 final size:61
Alignment explanation
Indices: 181515--181688 Score: 181
Period size: 61 Copynumber: 2.9 Consensus size: 61
181505 GGAAAGGGCG
* *
181515 TCCTACTCTTTGAGGATTAAAAAGTGCCACCAACTC-ACATGGGCTTTGAAAAG-AGAAAGCA
1 TCCTGCTCTTTGAGGATTAAAAAGTGCCACCAACTCGA-ATGGGCTTT-AAAAGAAAAAAGCA
** * * * *
181576 TCCTGCTCTTTGAGGATTGGAAGGTGCCCCCAACTCGAGTGGTCTTTAAAAGAAAAAAGCA
1 TCCTGCTCTTTGAGGATTAAAAAGTGCCACCAACTCGAATGGGCTTTAAAAGAAAAAAGCA
* ** * * **
181637 TCATGCTCTTTGAGGACAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1 TCCTGCTCTTTGAGGATTAAAAAGTGCCACCAACTCGAATGGGCTTTAAAAG
181689 GCGTCCTGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
60 5 0.05
61 86 0.93
62 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGATTAAAAAGTGCCACCAACTCGAATGGGCTTTAAAAGAAAAAAGCA
Found at i:181845 original size:62 final size:61
Alignment explanation
Indices: 181728--181845 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 61
181718 AAAGGAGAGA
* ** *
181728 GCGTCCTACTCTTTGAGGACTGGGAAGCACCACCAACTTGCGTGGGCTTTAAAAGGAAAAG
1 GCGTCCAACTCTTTGAGGACTGAAAAGCACCACCAACTTACGTGGGCTTTAAAAGGAAAAG
** *
181789 GCGTCCAACTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGG
1 GCGTCCAACTCTTTGAGGACT-GAAAAGCACCACCAACTTACGTGGGCTTTAAAAGG
181846 CGTCTTGCTC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 20 0.41
62 29 0.59
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (61 bp):
GCGTCCAACTCTTTGAGGACTGAAAAGCACCACCAACTTACGTGGGCTTTAAAAGGAAAAG
Found at i:181868 original size:156 final size:155
Alignment explanation
Indices: 181642--182015 Score: 472
Period size: 156 Copynumber: 2.4 Consensus size: 155
181632 AAGCATCATG
* *
181642 CTCTTTGAGGACAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGG
1 CTCTTTGAGGACAAAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
* * * *
181707 ACTAAAGGGCGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTGGGAAGCACCACCAACTTGCGTG
66 ACTAAAAGGCGAAAAGAAAGAGCGTCCTACTCTTTGAGGACTGGGAAACACCACCAACTTGCGTG
181772 GGCTTTAAAAGGAAAAGGCGTCCAA
131 GGCTTTAAAAGGAAAAGGCGTCCAA
* * *
181797 CTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAG
1 CTCTTTGAGGAC-AAAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
** * ** *
181862 TTCTAAAAGGCGAAAAGAAAGAGCGTCCTACTCTTTGAGGATTGGGAAATGCCACCAACTTGTGT
65 GACTAAAAGGCGAAAAGAAAGAGCGTCCTACTCTTTGAGGACTGGGAAACACCACCAACTTGCGT
* ***
181927 GGGCTTT------AAAAGGCATCTTG
130 GGGCTTTAAAAGGAAAAGGCGTCCAA
* * * * *
181947 TTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGTTTTCAAAGGCATCCTGCTCTTTGAG
1 CTCTTTGAGGAC-AAAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
182012 GACT
65 GACT
182016 GGAAGGTGCC
Statistics
Matches: 189, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
150 68 0.36
155 12 0.06
156 109 0.58
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (155 bp):
CTCTTTGAGGACAAAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
ACTAAAAGGCGAAAAGAAAGAGCGTCCTACTCTTTGAGGACTGGGAAACACCACCAACTTGCGTG
GGCTTTAAAAGGAAAAGGCGTCCAA
Found at i:181932 original size:94 final size:94
Alignment explanation
Indices: 181785--181955 Score: 263
Period size: 94 Copynumber: 1.8 Consensus size: 94
181775 TTTAAAAGGA
*
181785 AAAGGCGTCCAACTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTC
1 AAAGGCGTCCAACTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATC
181850 TTGCTCTTTGAGTTCTAAAAGGCGAAAAG
66 TTGCTCTTTGAGTTCTAAAAGGCGAAAAG
* * * * *
181879 AAAGAGCGTCCTACTCTTTGAGGATTGGGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCAT
1 AAAG-GCGTCCAACTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCAT
*
181943 CTTGTTCTTTGAG
65 CTTGCTCTTTGAG
181956 GACTAAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
94 46 0.67
95 23 0.33
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (94 bp):
AAAGGCGTCCAACTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATC
TTGCTCTTTGAGTTCTAAAAGGCGAAAAG
Found at i:182068 original size:61 final size:60
Alignment explanation
Indices: 181874--183139 Score: 1086
Period size: 62 Copynumber: 21.6 Consensus size: 60
181864 CTAAAAGGCG
* * * *
181874 AAAAGAAAGAGCGTCCTACTCTTTGAGGATTGGGAAA--TGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACT--GAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * ** *
181934 AAAAG-----GCATCTTGTTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGTTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
181990 CAAAG-----GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGTCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
182045 AAAAGGAGAAAGCATCCTTCTCTTTGAGGACTGGAAA-ATGCCACCAACTTATGTGGGCTTT
1 AAAA-GAAAAAGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
182106 ----G-AAAGGCGTCCTACTTTTTGAGGACTGGAAA-ATGCCACCAAC-TGTGTGGGATTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
* * ** * * * *
182160 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTTGAAAAATG-CAGCAACTTCTGAGAGCTTT
1 AAAA-GAAAAAGCATCCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTT
* ** *
182221 AAAAG----A-CATCCTGCTCTTTGAGGACTAAAAAATACCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
182276 ----G-AAAGGCATCCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
182330 ----G-AAGAGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
182385 AAAAG---ACGC--CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
182440 AAGAGGAAAAGGC-TCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTATGGGCTTT
1 AA-AAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
182500 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGAACT-AAAGGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAA-GCATCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTT
* *
182562 AAAA-AAAAAGACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACGAACTTGTGTGGGCTTT
1 AAAAGAAAAAG-CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
182622 AAGAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AA-AAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
182683 AAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAATTGTGTGGGCTTT
1 -AAAAGAAAAAG-CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
182745 AAAAAGAAAAAG-ATGTCCTGCTCTTTGAGGACT-AGAAGGTGCCACAAACTTGTGTGGGCTTC
1 -AAAAGAAAAAGCA--TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * ** * *
182807 AGAAGGAAAA--A----G----TTAAGGACTAAAATGTGCGGCCAACTCGTGTGGGCTTG
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
182857 AAAAGAAAAAGACATCCTGCTCTTTGAGAACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAG-CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
182918 AAAAAGAAAAAGACGTCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTC
1 -AAAAGAAAAAG-CATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT
* * * ** *
182980 AGAAGGAAAAAGCGTCCTGCTCTTTGAGGACTG-AATGTGCCACCAACTCATGTGGGCTTGA
1 A-AAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT-T
* * * *
183041 AAAAAAAAAAGGCATCCTGCTTTTTGAGGACT-AGAAGGTGCCACCAACTTATGTGGGCTTC
1 AAAAGAAAAA-GCATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT
* ** *
183102 AGAAGGAAAAAGTGTCCTGCTCTTTGAGGACTAAAAGG
1 A-AAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGG
183140 CTAAAAGGGG
Statistics
Matches: 1012, Mismatches: 126, Indels: 135
0.79 0.10 0.11
Matches are distributed among these distances:
50 37 0.04
51 2 0.00
53 1 0.00
54 70 0.07
55 201 0.20
56 49 0.05
57 3 0.00
59 6 0.01
60 169 0.17
61 227 0.22
62 247 0.24
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (60 bp):
AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:182557 original size:122 final size:121
Alignment explanation
Indices: 181879--183139 Score: 1050
Period size: 122 Copynumber: 10.8 Consensus size: 121
181869 AGGCGAAAAG
* *
181879 AAAGAGCGTCCTACTCTTTGAGGATTGGGAAA--TGCCACCAACTTGTGTGGGCTTT------AA
1 AAAG-GCGTCCTGCTCTTTGAGGACT--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAA
* * * * ** **
181936 AAGGCATCTTGTTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGG-TTT----TC
63 AAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGA
* * * *
181991 AAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAA
* * * *
182056 -GCATCCTTCTCTTTGAGGACTGGAAA-ATGCCACCAACTTATGTGGGCTTT----G-
65 GGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGA
* * * * *
182107 AAAGGCGTCCTACTTTTTGAGGACTGGAAA-ATGCCACCAAC-TGTGTGGGATTTAAAAGGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA
** * * * *
182170 GGCGTCCTGCTCTTTGAGGACTTGAAAAATG-CAGCAACTTCTGAGAGCTTT-----A
65 GGCGTCCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGA
* * * ** *
182222 AAAGACATCCTGCTCTTTGAGGACTAAAAAATACCACCAACTTGTGTGGGCTTT----G--AAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* *
182281 GCATCCTTCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTT----GA
66 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGA
* * * *
182332 AGA-GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG----A-
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
*
182391 -CGCCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGA
66 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGA
* *
182447 AAAGGC-TCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTATGGGCTTTGAAAAGAAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAA
* **
182511 GGCGTCCTGCTCTTTGAGAACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAA
65 GGCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAGGA
* * * *
182568 AAAGACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACGAACTTGTGTGGGCTTTAAGAGGAAAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * *
182633 GCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
66 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAGGA
* *
182691 AAAGACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAATTGTGTGGGCTTTAAAAAGAAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAA
** * *
182756 GATGTCCTGCTCTTTGAGGACT-AGAAGGTGCCACAAACTTGTGTGGGCTTCAGAAGGA
65 GGCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTA-AAGGA
* * * * ** * *
182814 AAA-------AG----TTAAGGACTAAAATGTGCGGCCAACTCGTGTGGGCTTGAAAAGAAAAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * * *
182868 ACATCCTGCTCTTTGAGAACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
66 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAGGA
* * * *
182926 AAAGACGTCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTCAGAAGGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGAAAA
* ** * **
182990 A-GCGTCCTGCTCTTTGAGGACTG-AATGTGCCACCAACTCATGTGGGCTTGAAAAAAAA
64 AGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT--TAAAGGA
* * * * *
183048 AAAGGCATCCTGCTTTTTGAGGACT-AGAAGGTGCCACCAACTTATGTGGGCTTCAGAAGGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGAAAA
* *
183112 A-GTGTCCTGCTCTTTGAGGACTAAAAGG
64 AGGCGTCCTGCTCTTTGAGGACTGAAAGG
183140 CTAAAAGGGG
Statistics
Matches: 965, Mismatches: 120, Indels: 117
0.80 0.10 0.10
Matches are distributed among these distances:
109 99 0.10
110 41 0.04
111 95 0.10
112 43 0.04
113 2 0.00
114 7 0.01
115 130 0.13
116 74 0.08
117 27 0.03
118 3 0.00
120 1 0.00
121 63 0.07
122 202 0.21
123 118 0.12
124 60 0.06
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (121 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGA
Found at i:182877 original size:173 final size:175
Alignment explanation
Indices: 182331--183139 Score: 774
Period size: 183 Copynumber: 4.5 Consensus size: 175
182321 TGTGGCTTTG
* *
182331 AAGAGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-------AAAA
1 AAGA-CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
* * * *
182389 GACGCCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTA-AGAGGAAAAGG
65 GATGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACAAACTTGTGTGGGCTTCAGA-AGGAAAA--
* * * ** * *
182452 CTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTATGGGCTTTGAAAAGAAA
126 --AC-G--C-TTAAGGACTAAAATGTGCCACCAACTCGTGTGGGC-TTGAAAAGAAA
* * *
182509 AAGGCGTCCTGCTCTTTGAGAACT-AAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAA-AAAAA
1 AAGACATCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
* * *
182571 GACGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACGAACTTGTGTGGGCTTTA-AGAGGAAAAGG
65 GATGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACAAACTTGTGTGGGCTTCAGA-AGGAAAA--
* * * * *
182634 CGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
126 ------ACGC-TTAAGGACTAAAATGTGCCACCAACTCGTGTGGGC-TTGAAAAGAAA
* *
182692 AAGACGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAATTGTGTGGGCTTTAAAAAGAAAAAG
1 AAGACATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
182757 ATGTCCTGCTCTTTGAGGACTAGAAGGTGCCACAAACTTGTGTGGGCTTCAGAAGGAAAAA-G-T
66 ATGTCCTGCTCTTTGAGGACTAGAAGGTGCCACAAACTTGTGTGGGCTTCAGAAGGAAAAACGCT
**
182820 TAAGGACTAAAATGTGCGGCCAACTCGTGTGGGCTTGAAAAGAAA
131 TAAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTGAAAAGAAA
*
182865 AAGACATCCTGCTCTTTGAGAACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
1 AAGACATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * *
182930 ACGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTCAGAAGGAAAAAGCGT
66 ATGTCCTGCTCTTTGAGGACTAGAAGGTGCCACAAACTTGTGTGGGCTTCAGAAGGAAAAA----
* * * *
182995 CCTGCTCTTTGAGGACT-GAATGTGCCACCAACTCATGTGGGCTTGAAAAAAAAA
127 -C-G--C-TTAAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTG-AAAAGAAA
* * * * * *
183049 AAGGCATCCTGCTTTTTGAGGACT-AGAAGGTGCCACCAACTTATGTGGGCTTCAGAAGGAAAAA
1 AAGACATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
*
183113 G-TGTCCTGCTCTTTGAGGACTAAAAGG
65 GATGTCCTGCTCTTTGAGGACTAGAAGG
183140 CTAAAAGGGG
Statistics
Matches: 554, Mismatches: 49, Indels: 51
0.85 0.07 0.08
Matches are distributed among these distances:
173 130 0.23
174 30 0.05
176 3 0.01
177 43 0.08
178 3 0.01
180 1 0.00
182 63 0.11
183 139 0.25
184 78 0.14
185 59 0.11
186 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (175 bp):
AAGACATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
ATGTCCTGCTCTTTGAGGACTAGAAGGTGCCACAAACTTGTGTGGGCTTCAGAAGGAAAAACGCT
TAAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTGAAAAGAAA
Found at i:185089 original size:13 final size:13
Alignment explanation
Indices: 185071--185109 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
185061 ACAATATTCT
185071 TTGTATCGATACA
1 TTGTATCGATACA
185084 TTGTATCGATACA
1 TTGTATCGATACA
*
185097 TTGTATAGATACA
1 TTGTATCGATACA
185110 AGGGTTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:187037 original size:21 final size:22
Alignment explanation
Indices: 186999--187041 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
186989 TTTTAACCGA
*
186999 TTATCAAGGAGGAGAAATTTTTT
1 TTATCAA-GAGGAAAAATTTTTT
187022 TTATCAA-AGGAAAAATTTTT
1 TTATCAAGAGGAAAAATTTTT
187042 AACGAGAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (22 bp):
TTATCAAGAGGAAAAATTTTTT
Found at i:187629 original size:13 final size:13
Alignment explanation
Indices: 187608--187639 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
187598 TTGATACATT
*
187608 ATACTTTGTATCG
1 ATACATTGTATCG
187621 ATACATTGTATCG
1 ATACATTGTATCG
187634 ATACAT
1 ATACAT
187640 GTTCACTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:187671 original size:20 final size:19
Alignment explanation
Indices: 187623--187679 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
187613 TTGTATCGAT
*
187623 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
187642 TCACTGTATCGATACATGC
1 ACATTGTATCGATACATGC
187661 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
187680 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:190068 original size:16 final size:16
Alignment explanation
Indices: 190043--190074 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
190033 AATGAAAAGA
*
190043 ATTTTTTTATTATTTT
1 ATTTTGTTATTATTTT
190059 ATTTTGTTATTATTTT
1 ATTTTGTTATTATTTT
190075 TTTATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
ATTTTGTTATTATTTT
Found at i:191050 original size:31 final size:31
Alignment explanation
Indices: 191012--191097 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 31
191002 GCTGTGTTCA
*
191012 TGGAAGCTAGAAGAGGCTCAAGCTACTACCG
1 TGGAAGCTAGAAGAGGCTCGAGCTACTACCG
* **
191043 TGGAAGCTAAAAGAGGCTCGAGCTACTAGTG
1 TGGAAGCTAGAAGAGGCTCGAGCTACTACCG
* *
191074 TGGAAGCTGGAAGAAGCTCGAGCT
1 TGGAAGCTAGAAGAGGCTCGAGCT
191098 GCTGGTTTCG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.33, T:0.17
Consensus pattern (31 bp):
TGGAAGCTAGAAGAGGCTCGAGCTACTACCG
Found at i:191692 original size:31 final size:31
Alignment explanation
Indices: 191652--191741 Score: 144
Period size: 31 Copynumber: 2.9 Consensus size: 31
191642 CATTTGCTTA
* * *
191652 TGTCCCCCATGATTACATGCTACGTTGCATG
1 TGTCTCCCATGATTGCATGCTACATTGCATG
191683 TGTCTCCCATGATTGCATGCTACATTGCATG
1 TGTCTCCCATGATTGCATGCTACATTGCATG
*
191714 TGTCTCCCATGATTGCATACTACATTGC
1 TGTCTCCCATGATTGCATGCTACATTGC
191742 CTTGCATGCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (31 bp):
TGTCTCCCATGATTGCATGCTACATTGCATG
Found at i:191700 original size:19 final size:19
Alignment explanation
Indices: 191676--191731 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
191666 ACATGCTACG
191676 TTGCATGTGTCTCCCATGA
1 TTGCATGTGTCTCCCATGA
*
191695 TTGCA--TG-CT---A-CA
1 TTGCATGTGTCTCCCATGA
191707 TTGCATGTGTCTCCCATGA
1 TTGCATGTGTCTCCCATGA
191726 TTGCAT
1 TTGCAT
191732 ACTACATTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 6 0.21
13 1 0.04
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 1 0.04
19 12 0.43
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (19 bp):
TTGCATGTGTCTCCCATGA
Found at i:195168 original size:79 final size:78
Alignment explanation
Indices: 195060--195289 Score: 205
Period size: 79 Copynumber: 2.9 Consensus size: 78
195050 AAAAACGGGG
* * * *
195060 TTAGAGTATTCCC-TCAGAAATGATAGGGTTGGAGTATCCTCAATGGTGGATAATCGATGTTTTG
1 TTAGAGTA-TCCCTTCAGAAATAATGGGGTTGGAGTATCCTCAATTGTGGA-AATCGATGTTTTA
* *
195124 GAAATAAAATTGGGA
64 GAAATAAAACTAGGA
* * ** * * * * *
195139 TTGGAG-ATCCCCTTCGGAAATAATGGGGTTAAAGTATCCTCGATTATGAAAAATTGATATTTTT
1 TTAGAGTAT-CCCTTCAGAAATAATGGGGTTGGAGTATCCTCAATTGTG-GAAATCGAT-GTTTT
*
195203 A-AAATAAAGCTAGGA
63 AGAAATAAAACTAGGA
* * * *
195218 TTAGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCCCAATTGTGGAAGATCGATGTTTTAG
1 TTAGAGTATCCCTTCAGAAATAATGGGGTTGGAGTATCCTCAATTGTGGAA-ATCGATGTTTTAG
195283 AAATAAA
65 AAATAAA
195290 GTCGGGGTTG
Statistics
Matches: 115, Mismatches: 29, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
77 1 0.01
78 11 0.10
79 96 0.83
80 7 0.06
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (78 bp):
TTAGAGTATCCCTTCAGAAATAATGGGGTTGGAGTATCCTCAATTGTGGAAATCGATGTTTTAGA
AATAAAACTAGGA
Found at i:195304 original size:79 final size:79
Alignment explanation
Indices: 195092--195387 Score: 240
Period size: 79 Copynumber: 3.7 Consensus size: 79
195082 ATAGGGTTGG
** * * * *
195092 AGTATCCTCAATGGTGGATAATCGATGTTTTGGAAATAAAATTGGGATTGGAG-ATCCCCTTCGG
1 AGTATCCTCAATTATGGAAAATCGATGTTTTAGAAATAAAATCGGGATTGGAGTAT-CCCTTCGA
*
195156 AAATAATGGGGTTAA
65 AAATAACGGGGTTAA
* * * * * * * *
195171 AGTATCCTCGATTATGAAAAATTGATATTTTTA-AAAT-AAAGCTAGGATTAGAGTATCCCTTCA
1 AGTATCCTCAATTATGGAAAATCGAT-GTTTTAGAAATAAAATC-GGGATTGGAGTATCCCTTCG
* **
195234 AAAATAACGAGGTTGG
64 AAAATAACGGGGTTAA
* * * * * *
195250 AGTATCCCCAATTGTGGAAGATCGATGTTTTAGAAATAAAGTCGGGGTTGGAGTATCTTCTT-GA
1 AGTATCCTCAATTATGGAAAATCGATGTTTTAGAAATAAAATCGGGATTGGAGTATC-CCTTCGA
195314 AAATAACGGGGTTAA
65 AAATAACGGGGTTAA
* * ** * * * *
195329 AATATCTTTGATTATGGAAAATCGATATTTTAGAAATAAAATTGGGGTTGGGGTATCCC
1 AGTATCCTCAATTATGGAAAATCGATGTTTTAGAAATAAAATCGGGATTGGAGTATCCC
195388 CGATTGTAAA
Statistics
Matches: 164, Mismatches: 47, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
78 9 0.05
79 143 0.87
80 12 0.07
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (79 bp):
AGTATCCTCAATTATGGAAAATCGATGTTTTAGAAATAAAATCGGGATTGGAGTATCCCTTCGAA
AATAACGGGGTTAA
Found at i:195378 original size:130 final size:130
Alignment explanation
Indices: 195244--195499 Score: 307
Period size: 130 Copynumber: 2.0 Consensus size: 130
195234 AAAATAACGA
** * * ** *
195244 GGTTGGAGTATCCCCAATTGTGGAAGATCGATGTTTTAGAAATAAAGTCGGGGTTGGAGTATCTT
1 GGTTGGAGTATCCCCAATTGTAAAAAATCGATGATTTAGAAATAAAACCGAGGTTGGAGTATCTT
* *** *
195309 CT-TGAAAATAACGGGGTTAAAATATCTTTGATTATGGAAAATCGATATTTTAGAAATAAAATTG
66 CTCAG-AAATAACGGGGTTAAAATATCCCCGATGATGGAAAATCGATATTTTAGAAATAAAATTG
195373 G
130 G
* * * *
195374 GGTTGGGGTATCCCCGATTGTAAAAAATCGATGATTTGGAAATAAAACCGAGGTTGGAGTATTTT
1 GGTTGGAGTATCCCCAATTGTAAAAAATCGATGATTTAGAAATAAAACCGAGGTTGGAGTATCTT
** * * *
195439 CTCAGAAATAACGGGGTTTGAGTATCCCCGATGGTGGAAAATCGGTATTTTAGAAATAAAA
66 CTCAGAAATAACGGGGTTAAAATATCCCCGATGATGGAAAATCGATATTTTAGAAATAAAA
195500 ACATGAATGA
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
130 103 0.99
131 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (130 bp):
GGTTGGAGTATCCCCAATTGTAAAAAATCGATGATTTAGAAATAAAACCGAGGTTGGAGTATCTT
CTCAGAAATAACGGGGTTAAAATATCCCCGATGATGGAAAATCGATATTTTAGAAATAAAATTGG
Found at i:197841 original size:30 final size:30
Alignment explanation
Indices: 197805--197896 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 30
197795 TACATTGAGA
197805 AATGTATCGATACATCTGGGTAAAACCCAG
1 AATGTATCGATACATCTGGGTAAAACCCAG
*
197835 AATGTATCGATACA-AT--G---AA---A-
1 AATGTATCGATACATCTGGGTAAAACCCAG
*
197855 AATGTATCGATATATCTGGGTAAAACCCAG
1 AATGTATCGATACATCTGGGTAAAACCCAG
197885 AATGTATCGATA
1 AATGTATCGATA
197897 TAATTAAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 20
0.68 0.04 0.28
Matches are distributed among these distances:
20 13 0.27
21 2 0.04
23 1 0.02
24 2 0.04
26 2 0.04
27 1 0.02
29 2 0.04
30 26 0.53
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (30 bp):
AATGTATCGATACATCTGGGTAAAACCCAG
Found at i:197859 original size:50 final size:50
Alignment explanation
Indices: 197784--197918 Score: 198
Period size: 50 Copynumber: 2.7 Consensus size: 50
197774 AAAAATGCCT
* * *
197784 GAATGTATCAATACATTGAGAAATGTATCGATACATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAAAACCCA
*
197834 GAATGTATCGATACAATGAAAAATGTATCGATATATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAAAACCCA
* * * *
197884 GAATGTATCGATATAATTAAGAATGTATTGATACA
1 GAATGTATCGATACAATGAAAAATGTATCGATACA
197919 AATTATGAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAAAACCCA
Found at i:205337 original size:21 final size:19
Alignment explanation
Indices: 205294--205344 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
205284 TTTTTTTCTC
*
205294 TTTTTTTCTTTTTTAACAA
1 TTTTTTTCTCTTTTAACAA
*
205313 TTTTTTTCTCTTTTAACCAC
1 TTTTTTTCTCTTTTAA-CAA
205333 TTTTTGTTCTCT
1 TTTTT-TTCTCT
205345 CCCAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 15 0.54
20 7 0.25
21 6 0.21
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTCTCTTTTAACAA
Found at i:207486 original size:18 final size:18
Alignment explanation
Indices: 207440--207496 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
207430 AGAAATAGTA
*
207440 TATTAATATTTTTAACTCCAT
1 TATTAATATTTTTTA-T--AT
*
207461 TTTTAATATTTTTTATAT
1 TATTAATATTTTTTATAT
* *
207479 TATTAATAATTGTTATAT
1 TATTAATATTTTTTATAT
207497 ATTCTTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 17 0.55
20 1 0.03
21 13 0.42
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTAATATTTTTTATAT
Found at i:208786 original size:13 final size:15
Alignment explanation
Indices: 208768--208800 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
208758 TTTTTAATCA
208768 TTTTAAATA-T-AAT
1 TTTTAAATATTAAAT
208781 TTTTAAATATTAAAT
1 TTTTAAATATTAAAT
208796 TTTTA
1 TTTTA
208801 TGAGAGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 1 0.06
15 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAAATATTAAAT
Found at i:208797 original size:50 final size:50
Alignment explanation
Indices: 208743--208908 Score: 127
Period size: 50 Copynumber: 3.1 Consensus size: 50
208733 AATTATATCT
208743 AATTTTGTTCTTATCTTTTTAATCATTTTAAATATAATTTTTAAATATTA
1 AATTTTGTTCTTATCTTTTTAATCATTTTAAATATAATTTTTAAATATTA
*** * * ** ** *
208793 AATTTT-TATGAGAGTATTTATAAAGATTTTAAATTTACTCATAATAATTAAATTATATCT
1 AATTTTGT-TCTTA-TCTTTTTAATCATTTT-AA---A-T-ATAATTTTTAAA-TAT-T-A
*
208853 AATTTTGTTCTTATCTTTTTAATTATTTTAAATATAATTTTTAAATATTA
1 AATTTTGTTCTTATCTTTTTAATCATTTTAAATATAATTTTTAAATATTA
208903 AATTTT
1 AATTTT
208909 TATTATTTAA
Statistics
Matches: 84, Mismatches: 20, Indels: 24
0.66 0.16 0.19
Matches are distributed among these distances:
49 1 0.01
50 14 0.17
51 13 0.15
52 5 0.06
53 10 0.12
54 1 0.01
55 2 0.02
56 1 0.01
57 10 0.12
58 5 0.06
59 13 0.15
60 8 0.10
61 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.55
Consensus pattern (50 bp):
AATTTTGTTCTTATCTTTTTAATCATTTTAAATATAATTTTTAAATATTA
Found at i:208822 original size:110 final size:110
Alignment explanation
Indices: 208691--208911 Score: 415
Period size: 110 Copynumber: 2.0 Consensus size: 110
208681 CAGTAATAGT
*
208691 TGAGTGTATCTATAAAGATTTTAAATTTACTCATAATAATTAAATTATATCTAATTTTGTTCTTA
1 TGAGAGTATCTATAAAGATTTTAAATTTACTCATAATAATTAAATTATATCTAATTTTGTTCTTA
208756 TCTTTTTAATCATTTTAAATATAATTTTTAAATATTAAATTTTTA
66 TCTTTTTAATCATTTTAAATATAATTTTTAAATATTAAATTTTTA
*
208801 TGAGAGTATTTATAAAGATTTTAAATTTACTCATAATAATTAAATTATATCTAATTTTGTTCTTA
1 TGAGAGTATCTATAAAGATTTTAAATTTACTCATAATAATTAAATTATATCTAATTTTGTTCTTA
*
208866 TCTTTTTAATTATTTTAAATATAATTTTTAAATATTAAATTTTTA
66 TCTTTTTAATCATTTTAAATATAATTTTTAAATATTAAATTTTTA
208911 T
1 T
208912 TATTTAAATT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (110 bp):
TGAGAGTATCTATAAAGATTTTAAATTTACTCATAATAATTAAATTATATCTAATTTTGTTCTTA
TCTTTTTAATCATTTTAAATATAATTTTTAAATATTAAATTTTTA
Found at i:208896 original size:13 final size:15
Alignment explanation
Indices: 208878--208910 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
208868 TTTTTAATTA
208878 TTTTAAATA-T-AAT
1 TTTTAAATATTAAAT
208891 TTTTAAATATTAAAT
1 TTTTAAATATTAAAT
208906 TTTTA
1 TTTTA
208911 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 1 0.06
15 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAAATATTAAAT
Found at i:208917 original size:22 final size:22
Alignment explanation
Indices: 208889--208947 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
208879 TTTAAATATA
208889 ATTTTTAAATATTAAATTT-TT
1 ATTTTTAAATATTAAATTTATT
*
208910 ATTATTTAAATTATATATATTTATT
1 ATT-TTTAAA-TAT-TAAATTTATT
*
208935 ATTTTTAATTATT
1 ATTTTTAAATATT
208948 TATCATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 3 0.09
22 7 0.22
23 6 0.19
24 11 0.34
25 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTTAAATATTAAATTTATT
Found at i:213733 original size:18 final size:17
Alignment explanation
Indices: 213706--213745 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
213696 AGAATATTTT
*
213706 ATTAATATTTTTAACAAA
1 ATTAAAATTTTTAA-AAA
213724 ATTAAAATTTTTAAAAA
1 ATTAAAATTTTTAAAAA
213741 ATTAA
1 ATTAA
213746 GATAATGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAAATTTTTAAAAA
Found at i:219277 original size:18 final size:17
Alignment explanation
Indices: 219250--219289 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
219240 AGAATATTTT
*
219250 ATTAATATTTTTAACAAA
1 ATTAAAATTTTTAA-AAA
219268 ATTAAAATTTTTAAAAA
1 ATTAAAATTTTTAAAAA
219285 ATTAA
1 ATTAA
219290 GATAATGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAAATTTTTAAAAA
Found at i:224164 original size:18 final size:20
Alignment explanation
Indices: 224141--224181 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
224131 AAATAAGCAG
224141 AAAACCT-CTT-AATATCTC
1 AAAACCTGCTTCAATATCTC
*
224159 AAAACCTGCTTCAATATGTC
1 AAAACCTGCTTCAATATCTC
224179 AAA
1 AAA
224182 TTCTAGTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 3 0.15
20 10 0.50
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAACCTGCTTCAATATCTC
Found at i:227023 original size:5 final size:5
Alignment explanation
Indices: 227013--227043 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
227003 ACGGTAGAGC
227013 AGCCA AGCCA AGCCA AGCCA AGCCA AGCCA A
1 AGCCA AGCCA AGCCA AGCCA AGCCA AGCCA A
227044 ACCAGTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.39, G:0.19, T:0.00
Consensus pattern (5 bp):
AGCCA
Found at i:231423 original size:18 final size:18
Alignment explanation
Indices: 231391--231425 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
231381 TTTTTATTGA
*
231391 ATTTTTTATTTAATTTTG
1 ATTTTTTATTAAATTTTG
231409 ATTTTTTATTAAATTTT
1 ATTTTTTATTAAATTTT
231426 ACCATTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTTTATTAAATTTTG
Found at i:235005 original size:40 final size:40
Alignment explanation
Indices: 234945--235024 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
234935 CTTTAAAAGA
*
234945 ATGATTTTATGACCTGTATATATCAAAAATCAATAAAGTT
1 ATGATTTTATGACCTATATATATCAAAAATCAATAAAGTT
234985 ATGATTTTATGACCTATATATATCAAAAATCAATAAAGTT
1 ATGATTTTATGACCTATATATATCAAAAATCAATAAAGTT
235025 GGGCTTGGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (40 bp):
ATGATTTTATGACCTATATATATCAAAAATCAATAAAGTT
Found at i:235977 original size:20 final size:21
Alignment explanation
Indices: 235936--235988 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
235926 ACAATAGGGT
*
235936 AATGTATCGATACATAAGTG-
1 AATGTATCGATACATAACTGA
**
235956 AATGTATCGATACATGTCTGA
1 AATGTATCGATACATAACTGA
235977 AATGTATCGATA
1 AATGTATCGATA
235989 TAAGACTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATAACTGA
Found at i:237251 original size:20 final size:20
Alignment explanation
Indices: 237226--237370 Score: 110
Period size: 20 Copynumber: 6.7 Consensus size: 20
237216 TTTTACCCAG
237226 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
237246 ATGTATCGATACATGTATAA
1 ATGTATCGATACATTTTTCA
* *
237266 ATGTATCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
237286 ATATATCAATACATTCTATCTTTTTACCTA
1 ATGTATCGAT--A--C-A--TTTTT--C-A
*
237316 GATGTATCGATATATTTTTCA
1 -ATGTATCGATACATTTTTCA
*
237337 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
237357 ATGTATCGATACAT
1 ATGTATCGATACAT
237371 CTAGTTAAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
20 74 0.74
21 1 0.01
22 2 0.02
24 6 0.06
25 1 0.01
26 1 0.01
27 4 0.04
29 2 0.02
30 1 0.01
31 8 0.08
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:238269 original size:20 final size:22
Alignment explanation
Indices: 238229--238269 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
238219 TAGCCTTTGA
*
238229 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
238251 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
238270 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:245559 original size:40 final size:42
Alignment explanation
Indices: 245514--245626 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 42
245504 AAATTTAAAT
* *
245514 TAGAAACTCTTGTTTGATAAGGCATGGGCATGTTAA-AAAA-
1 TAGAAACTCTTGTTTGATAAGGCATGGGCACGTGAAGAAAAC
* * *
245554 TAGAAACTCTTGTTTAATAAGACGTGGGCACGTGAAGAAAAC
1 TAGAAACTCTTGTTTGATAAGGCATGGGCACGTGAAGAAAAC
* *
245596 T-GAAACTCTTATTTGATAAGGCATGTGCACG
1 TAGAAACTCTTGTTTGATAAGGCATGGGCACG
245627 CTCTATAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 31 0.51
41 29 0.48
42 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (42 bp):
TAGAAACTCTTGTTTGATAAGGCATGGGCACGTGAAGAAAAC
Found at i:252331 original size:21 final size:23
Alignment explanation
Indices: 252306--252358 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
252296 CACCCCACTT
252306 AAAATATTATTA-TATTAA-TAA
1 AAAATATTATTATTATTAATTAA
* * *
252327 AAAATATTTTTATTTTTAATTTA
1 AAAATATTATTATTATTAATTAA
252350 AAAATATTA
1 AAAATATTA
252359 AAATATTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 11 0.42
22 5 0.19
23 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATATTATTATTATTAATTAA
Found at i:252955 original size:21 final size:21
Alignment explanation
Indices: 252931--252985 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
252921 AGTTGTATTT
* *
252931 TTTCATCTAAAAAATGCATTC
1 TTTCATCCAAAAAATGCATTA
**
252952 TTTCATCCAACCAATGCATTA
1 TTTCATCCAAAAAATGCATTA
252973 TTTCATCCAAAAA
1 TTTCATCCAAAAA
252986 TACCTTTTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (21 bp):
TTTCATCCAAAAAATGCATTA
Found at i:256031 original size:21 final size:20
Alignment explanation
Indices: 256007--256062 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
255997 AGTTGTATTT
*
256007 TTTCATCTAAAAAATGCATTC
1 TTTCATC-AAAAAATGCATTA
*
256028 TTTCATCAAACCAATGCATTA
1 TTTCATCAAA-AAATGCATTA
256049 TTTCATCAAAAAAT
1 TTTCATCAAAAAAT
256063 ACCTTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.36
Consensus pattern (20 bp):
TTTCATCAAAAAATGCATTA
Found at i:256572 original size:29 final size:27
Alignment explanation
Indices: 256510--256589 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 27
256500 TTATTTTAAC
* * *
256510 AATAATTTTTTAATGATGTGAAATTTTTT
1 AATAA-TTTTTAATG-TTTTAAATTTATT
256539 AATAATTTCTTAATGTTTTAAATTTATT
1 AATAATTT-TTAATGTTTTAAATTTATT
*
256567 ATATAAAATTTTTAATATTTTAA
1 A-AT--AATTTTTAATGTTTTAA
256590 TAAATTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 14 0.33
29 13 0.30
30 11 0.26
31 5 0.12
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (27 bp):
AATAATTTTTAATGTTTTAAATTTATT
Found at i:256626 original size:33 final size:33
Alignment explanation
Indices: 256557--256627 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
256547 CTTAATGTTT
* **
256557 TAAATTTATTATATAAAATTTTTAATATTTTAA
1 TAAATTTATTATATAAAATTTTTAATAATAAAA
256590 TAAATTT-TTATATTAAAA-TTTTAATAATAAATA
1 TAAATTTATTATA-TAAAATTTTTAATAATAAA-A
256623 TAAAT
1 TAAAT
256628 AAATATTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 15 0.45
33 18 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TAAATTTATTATATAAAATTTTTAATAATAAAA
Found at i:256804 original size:26 final size:26
Alignment explanation
Indices: 256747--256805 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
256737 TAGTAGAAAA
* * *
256747 TAATAATAA-ATAATATTTTTATTTT
1 TAATATTAATATAATATTTTTAATAT
256772 TAATATTAATATAATA-TTTTAATAT
1 TAATATTAATATAATATTTTTAATAT
256797 TAATTATTA
1 TAA-TATTA
256806 TTATTATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TAATATTAATATAATATTTTTAATAT
Found at i:256885 original size:21 final size:21
Alignment explanation
Indices: 256849--256893 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
256839 TATTTTGAAC
256849 ATATTAATAATGAATACTT-TA
1 ATATTAATAATGAATA-TTATA
256870 ATATTAATAA-GTAATATTATA
1 ATATTAATAATG-AATATTATA
256891 ATA
1 ATA
256894 ATGATGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
ATATTAATAATGAATATTATA
Found at i:257364 original size:30 final size:30
Alignment explanation
Indices: 257328--257398 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
257318 TTTTTCCATT
257328 TGTAAACTCCTTTTCTTGATAAGCCCTATC
1 TGTAAACTCCTTTTCTTGATAAGCCCTATC
* *
257358 TGTAAACTCCTTTTTTTTATAAGCCCTATC
1 TGTAAACTCCTTTTCTTGATAAGCCCTATC
257388 TGTAAACTCCT
1 TGTAAACTCCT
257399 ATTTGCAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.25, G:0.08, T:0.42
Consensus pattern (30 bp):
TGTAAACTCCTTTTCTTGATAAGCCCTATC
Found at i:259445 original size:20 final size:21
Alignment explanation
Indices: 259417--259457 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
259407 GTAAAGCACT
* *
259417 GCTATAGTC-AATCTTTTCCC
1 GCTACAGTCAAATCTTCTCCC
259437 GCTACAGTCAAATCTTCTCCC
1 GCTACAGTCAAATCTTCTCCC
259458 TCTATAGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.22, C:0.34, G:0.10, T:0.34
Consensus pattern (21 bp):
GCTACAGTCAAATCTTCTCCC
Found at i:271333 original size:20 final size:20
Alignment explanation
Indices: 271302--271348 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
271292 ATATTTTTTT
*
271302 AATTCAATA-AAAATA-ATA
1 AATTAAATATAAAATATATA
*
271320 CATTAAATATAAAATATATA
1 AATTAAATATAAAATATATA
271340 AATTAAATA
1 AATTAAATA
271349 ATTTCTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 11 0.46
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTAAATATAAAATATATA
Found at i:278226 original size:16 final size:17
Alignment explanation
Indices: 278184--278216 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
278174 ATTTATTAGA
278184 TAATTATTTTTTAATTC
1 TAATTATTTTTTAATTC
278201 TAATTATTTTTTAATT
1 TAATTATTTTTTAATT
278217 TTGTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTATTTTTTAATTC
Found at i:281197 original size:18 final size:19
Alignment explanation
Indices: 281176--281215 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
281166 ATTTTCCTTC
*
281176 TTTCTCTCTT-TTTCTTTT
1 TTTCTCTCTTCTTGCTTTT
*
281194 TTTCTTTCTTCTTGCTTTT
1 TTTCTCTCTTCTTGCTTTT
281213 TTT
1 TTT
281216 TAATGCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTCTCTCTTCTTGCTTTT
Found at i:281602 original size:90 final size:90
Alignment explanation
Indices: 281440--281695 Score: 381
Period size: 90 Copynumber: 2.8 Consensus size: 90
281430 CTATTGGCTT
* *
281440 AAAAATACCATCTTGTGTACTAAACTAG-AACATAATGTACTAAAAC-ACCACCTGATGTGTTTA
1 AAAAATACCATCTTGTGTACTAAACT-GCAACATAATGTACT-AAACTGCCACCTGATGTGTTCA
*
281503 CTTTATCTATCCTCTTCCAAGCTTCTC
64 CTTTATCTATCCTCTTCCAAGCTACTC
* * * * *
281530 AAAAATACCATTTTGTATACTAAACTGCAACATAATGTACTAAGCTGCCACTTGATGTGTTCATT
1 AAAAATACCATCTTGTGTACTAAACTGCAACATAATGTACTAAACTGCCACCTGATGTGTTCACT
*
281595 TTTTCTATCCTCTTCCAAGCTACTC
66 TTATCTATCCTCTTCCAAGCTACTC
* *
281620 AAAAATACCATCTTGTGTGCTAAACTGCAACATAATGTACTAAAATGCCACCTGATGTGTTCACT
1 AAAAATACCATCTTGTGTACTAAACTGCAACATAATGTACTAAACTGCCACCTGATGTGTTCACT
281685 TTATCTATCCT
66 TTATCTATCCT
281696 TTTTCGAGCT
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
89 4 0.03
90 143 0.97
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (90 bp):
AAAAATACCATCTTGTGTACTAAACTGCAACATAATGTACTAAACTGCCACCTGATGTGTTCACT
TTATCTATCCTCTTCCAAGCTACTC
Found at i:286798 original size:21 final size:21
Alignment explanation
Indices: 286773--286821 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
286763 AAAATAGAAG
*
286773 AGAACACCGAATTTGGGCTTA
1 AGAACACCGAATTTAGGCTTA
*
286794 AGAACACTGAATTTAGGCTTA
1 AGAACACCGAATTTAGGCTTA
286815 AGAACAC
1 AGAACAC
286822 ATAAATGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (21 bp):
AGAACACCGAATTTAGGCTTA
Found at i:287555 original size:24 final size:24
Alignment explanation
Indices: 287528--287574 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
287518 ATATTTATAT
287528 TTTTAAAAATTTAAATAAAAATAA
1 TTTTAAAAATTTAAATAAAAATAA
** *
287552 TTTTAATTATTTAAATAATAATA
1 TTTTAAAAATTTAAATAAAAATA
287575 TAGGTCGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTTAAAAATTTAAATAAAAATAA
Found at i:288111 original size:11 final size:11
Alignment explanation
Indices: 288095--288137 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
288085 TCAATTATTA
288095 TTTAATATAAT
1 TTTAATATAAT
*
288106 TTTAATTATTAT
1 TTTAA-TATAAT
288118 TTATAAATATAAT
1 TT-T-AATATAAT
288131 TTTAATA
1 TTTAATA
288138 ATTTGTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.33
12 8 0.30
13 8 0.30
14 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTAATATAAT
Found at i:288116 original size:25 final size:25
Alignment explanation
Indices: 288087--288136 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
288077 TTTTTTTATC
288087 AATTATTA-TT-T-AATATAATTTT
1 AATTATTATTTATAAATATAATTTT
288109 AATTATTATTTATAAATATAATTTT
1 AATTATTATTTATAAATATAATTTT
288134 AAT
1 AAT
288137 AATTTGTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.32
23 2 0.08
24 1 0.04
25 14 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
AATTATTATTTATAAATATAATTTT
Found at i:288130 original size:19 final size:22
Alignment explanation
Indices: 288082--288131 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
288072 TATTATTTTT
288082 TTATCAATTATTATTTAATATAA
1 TTAT-AATTATTATTTAATATAA
*
288105 TTTTAATTATTATTT-ATA-AA
1 TTATAATTATTATTTAATATAA
288125 -TATAATT
1 TTATAATT
288132 TTAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 2 0.08
21 3 0.12
22 11 0.44
23 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATAATTATTATTTAATATAA
Found at i:289675 original size:46 final size:46
Alignment explanation
Indices: 289624--289712 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 46
289614 TATAAATAAA
289624 TTTAAAT-AAAAAATTTAT-TT-ATTAATTAAATAATAATTTAAATCAC
1 TTTAAATAAAAAAATTTATGTTCA--AATTAAAT-ATAATTTAAATCAC
*
289670 TTTAAATAAAAAAATTTATGTTCAAATTAAATTTAATTTAAAT
1 TTTAAATAAAAAAATTTATGTTCAAATTAAATATAATTTAAAT
289713 TACATAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
46 17 0.44
47 19 0.49
48 2 0.05
49 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (46 bp):
TTTAAATAAAAAAATTTATGTTCAAATTAAATATAATTTAAATCAC
Found at i:290143 original size:20 final size:21
Alignment explanation
Indices: 290107--290148 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
290097 TAGTAATAAG
290107 ATTTTATAAATAAAAATTTTA
1 ATTTTATAAATAAAAATTTTA
*
290128 ATTTTATTAA-AAAAATTTTA
1 ATTTTATAAATAAAAATTTTA
290148 A
1 A
290149 ATAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTATAAATAAAAATTTTA
Found at i:290967 original size:14 final size:14
Alignment explanation
Indices: 290948--290977 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
290938 ATATTAAATT
290948 TTTTTATTTTCATA
1 TTTTTATTTTCATA
*
290962 TTTTTATTTTTATA
1 TTTTTATTTTCATA
290976 TT
1 TT
290978 AATATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATTTTCATA
Found at i:291413 original size:29 final size:29
Alignment explanation
Indices: 291381--291459 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
291371 ATCCACTAGG
* *
291381 AGTCTTTGTACTATTAAATTTAATATTTT
1 AGTCTTTATACTATTAAATTCAATATTTT
*
291410 AGTCTCTATACTATTAAATTCAATATTTT
1 AGTCTTTATACTATTAAATTCAATATTTT
* *
291439 AATCTTTATACTTTTGAAATT
1 AGTCTTTATACTATT-AAATT
291460 ATAGTAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 38 0.88
30 5 0.12
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (29 bp):
AGTCTTTATACTATTAAATTCAATATTTT
Found at i:294467 original size:17 final size:17
Alignment explanation
Indices: 294447--294481 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
294437 ACCGTTTTAC
294447 TTCTTTCTTCT-TTTTTT
1 TTCTTTC-TCTATTTTTT
294464 TTCTTTCTCTATTTTTT
1 TTCTTTCTCTATTTTTT
294481 T
1 T
294482 ATGTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (17 bp):
TTCTTTCTCTATTTTTT
Found at i:294478 original size:16 final size:17
Alignment explanation
Indices: 294447--294481 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
294437 ACCGTTTTAC
*
294447 TTCTTTCTTCTTTTTTT
1 TTCTTTCTTCTATTTTT
294464 TTCTTTC-TCTATTTTT
1 TTCTTTCTTCTATTTTT
294480 TT
1 TT
294482 ATGTTAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (17 bp):
TTCTTTCTTCTATTTTT
Found at i:295059 original size:2 final size:2
Alignment explanation
Indices: 295052--295084 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
295042 TGGCCTTTGA
295052 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
295085 TTTTTCCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:298630 original size:20 final size:20
Alignment explanation
Indices: 298580--298632 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
298570 AGAAAGAATT
*
298580 GAAGAGGGATACAAGAGAGG
1 GAAGAGGGATGCAAGAGAGG
* **
298600 GATGAGGGATGCTTGAGAGG
1 GAAGAGGGATGCAAGAGAGG
298620 GAAGAGGGATGCA
1 GAAGAGGGATGCA
298633 TGACTCTTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.06, G:0.47, T:0.11
Consensus pattern (20 bp):
GAAGAGGGATGCAAGAGAGG
Found at i:305098 original size:14 final size:14
Alignment explanation
Indices: 305069--305106 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
305059 ATCATTTTTT
305069 TTTGTGTTTTGATAG
1 TTTGT-TTTTGATAG
*
305084 TTTGTTTTTGTTAG
1 TTTGTTTTTGATAG
305098 TTT-TTTTTG
1 TTTGTTTTTG
305107 GTTTTTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 11 0.50
15 5 0.23
ACGTcount: A:0.08, C:0.00, G:0.21, T:0.71
Consensus pattern (14 bp):
TTTGTTTTTGATAG
Found at i:305478 original size:118 final size:118
Alignment explanation
Indices: 305270--305511 Score: 421
Period size: 118 Copynumber: 2.1 Consensus size: 118
305260 TTTTAAATTT
* * *
305270 ATATTTAAATAAATATTATAGAATTTAAAATTTTGATATGATGATCATGACTTATGCTGATAGTT
1 ATATTTAAATAAATATTATAGAATTCAAAATTTTGATATGACGATAATGACTTATGCTGATAGTT
*
305335 TAGTTTATTATAGTTTTAGGGTATATTGTATGAGTATATCAAATTCACTATGG
66 TAGTTTATTATAGTTTTAGAGTATATTGTATGAGTATATCAAATTCACTATGG
305388 ATATTTAAATAAATATTATAGAATTCAAAATTTTGATATGACGATAATGACTTATGCTGATAGTT
1 ATATTTAAATAAATATTATAGAATTCAAAATTTTGATATGACGATAATGACTTATGCTGATAGTT
* * *
305453 TAGTTTATTATAGTTTTAGAGTATATTGTGTGAGTGTATCGAATTCACTATGG
66 TAGTTTATTATAGTTTTAGAGTATATTGTATGAGTATATCAAATTCACTATGG
305506 ATATTT
1 ATATTT
305512 GTAAATTGAA
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 117 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (118 bp):
ATATTTAAATAAATATTATAGAATTCAAAATTTTGATATGACGATAATGACTTATGCTGATAGTT
TAGTTTATTATAGTTTTAGAGTATATTGTATGAGTATATCAAATTCACTATGG
Found at i:307877 original size:20 final size:19
Alignment explanation
Indices: 307823--307877 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
307813 AAAACCCTTA
*
307823 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
307843 AAAGTATCGATACATATTGC
1 AAAGTATCGATACATATT-C
*
307863 AATGTATCGATACAT
1 AAAGTATCGATACAT
307878 GAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:307948 original size:13 final size:13
Alignment explanation
Indices: 307930--307954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
307920 TAGCCAAACT
307930 TGTATCGATACAA
1 TGTATCGATACAA
307943 TGTATCGATACA
1 TGTATCGATACA
307955 CCAAAAAATT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:309718 original size:16 final size:17
Alignment explanation
Indices: 309686--309718 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
309676 AGTTTTGCTC
*
309686 AAAGGAGAAACGAGCAA
1 AAAGGACAAACGAGCAA
309703 AAAGGACAAA-GAGCAA
1 AAAGGACAAACGAGCAA
309719 GTTATATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.12, G:0.27, T:0.00
Consensus pattern (17 bp):
AAAGGACAAACGAGCAA
Found at i:312041 original size:15 final size:15
Alignment explanation
Indices: 312021--312051 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
312011 TAAAAATGTC
*
312021 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
312036 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
312051 C
1 C
312052 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:314149 original size:13 final size:13
Alignment explanation
Indices: 314131--314169 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
314121 ACATTTTTCT
314131 TTGTATCGATACA
1 TTGTATCGATACA
314144 TTGTATCGATACA
1 TTGTATCGATACA
*
314157 CTGTATCGATACA
1 TTGTATCGATACA
314170 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:314333 original size:20 final size:20
Alignment explanation
Indices: 314290--314335 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
314280 AAATATTTTG
314290 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
314311 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
314331 CAAAA
1 CAAAA
314336 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:315971 original size:13 final size:13
Alignment explanation
Indices: 315953--315977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
315943 CAAAAAATGT
315953 TGTATCGATACAA
1 TGTATCGATACAA
315966 TGTATCGATACA
1 TGTATCGATACA
315978 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:316060 original size:13 final size:13
Alignment explanation
Indices: 316042--316066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
316032 ATTACTCACA
316042 TGTATCGATACAT
1 TGTATCGATACAT
316055 TGTATCGATACA
1 TGTATCGATACA
316067 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:316203 original size:52 final size:52
Alignment explanation
Indices: 316075--316195 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
316065 CACTGATCTT
* * *
316075 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
*
316127 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
316179 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
316196 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:320264 original size:20 final size:19
Alignment explanation
Indices: 320210--320264 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
320200 AAAACCCTTA
*
320210 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
320230 AAAGTATCGATACATATTGC
1 AAAGTATCGATACATATT-C
*
320250 AATGTATCGATACAT
1 AAAGTATCGATACAT
320265 GAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:320353 original size:13 final size:13
Alignment explanation
Indices: 320335--320360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
320325 TACACCAAGT
320335 ATGTATCGATACA
1 ATGTATCGATACA
320348 ATGTATCGATACA
1 ATGTATCGATACA
320361 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:322223 original size:17 final size:17
Alignment explanation
Indices: 322191--322225 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
322181 GAAACATTAC
*
322191 TTTAATTTTCTAAAAAT
1 TTTAATTTTATAAAAAT
322208 TTTAATTTTATTAAAAAT
1 TTTAATTTTA-TAAAAAT
322226 AATTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAATTTTATAAAAAT
Found at i:322784 original size:155 final size:152
Alignment explanation
Indices: 322594--323073 Score: 453
Period size: 155 Copynumber: 3.1 Consensus size: 152
322584 ATGCGCATCA
* * * * * * * *
322594 TTGGCATAAAAGCGACCCAATGACTACGTAGGACTCCGTTCTAAGAAAATCATCAAAATGCCCTT
1 TTGGCATAAAAGCGACTCGATGACCACCTAAGACTCGGTTCTAA-AAAATTACCAAAATGCCCTT
* *
322659 GAGATATACCTTCGACGTGAAAGTATTTCAATAACCCTAAAGAACATTAAAATGAAGCTAGGAGA
65 GAGATATACCTTCGACGTGAAAATATTTCGATAACCCTAAAGAACA--AAAATGAAGCTAGGAGA
* *
322724 GTGAACTTATCCTAAACACATACCT
128 GTGAACCTATCCTAAACACACACCT
* * * * *
322749 TTGGCATAAAGGTGACTCGATGACCACCTAAGACTCGGTTCCAAAGAAATTACCAAAATACCTTT
1 TTGGCATAAAAGCGACTCGATGACCACCTAAGACTCGGTTCTAAA-AAATTACCAAAATGCCCTT
* * * * * * **
322814 GCGATATACCTTCGGCATGAAACTGTGTT-GGTAACCCTAAAAGATACAAAAAAAAAGCTAGGAG
65 GAGATATACCTTCGACGTGAAAATAT-TTCGATAACCCT-AAAGA-ACAAAAATGAAGCTAGGAG
*
322878 AGTGAACCTATCCTAAACACACGCCT
127 AGTGAACCTATCCTAAACACACACCT
* * * *
322904 TT-GCTATAAAAGCGACTCGATGACTACCTAGGACTTGGTTCTAAAAAATTACCAAAATG-TCTC
1 TTGGC-ATAAAAGCGACTCGATGACCACCTAAGACTCGGTTCTAAAAAATTACCAAAATGCCCT-
* * ** * * * * * *
322967 TAAGGTATATTTTCGATGTAAAAATATCTCGATAACCCTAAAGGACACGAAAATGAAGCTAGAAA
64 TGAGATATACCTTCGACGTGAAAATATTTCGATAACCCTAAA-GA-ACAAAAATGAAGCTAGGAG
*
323032 AGTGAACCTATCCTAAACACACATCT
127 AGTGAACCTATCCTAAACACACACCT
* *
323058 TTGCCATAAAAACGAC
1 TTGGCATAAAAGCGAC
323074 CTAGTGATTG
Statistics
Matches: 259, Mismatches: 57, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
153 5 0.02
154 92 0.36
155 152 0.59
156 7 0.03
157 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (152 bp):
TTGGCATAAAAGCGACTCGATGACCACCTAAGACTCGGTTCTAAAAAATTACCAAAATGCCCTTG
AGATATACCTTCGACGTGAAAATATTTCGATAACCCTAAAGAACAAAAATGAAGCTAGGAGAGTG
AACCTATCCTAAACACACACCT
Found at i:323161 original size:153 final size:154
Alignment explanation
Indices: 322713--323174 Score: 378
Period size: 154 Copynumber: 3.0 Consensus size: 154
322703 CATTAAAATG
* * * * * *** * *
322713 AAGCTAGGAGAGTGAACTTATCCTAAACACATACCTTTGGCATAAAGGTGACTCGATGACCACCT
1 AAGCTAGAAAAGTGAACCTATCCTAAACACACACCTTTGCCATAAAAACGACTAGATGACTACCT
* * * * * ** * * * * *
322778 AAGACTCGGTTCCAAAGAAATTACCAAAATACCTTTGCGATATACCTTCGGCATG--AAACTGTG
66 AGGACTTGGTTCTAAA-AAATTACCAAAATGCCTCTAAGGTATACATTC-G-ATGTAAAAATATC
* *
322841 TTGGTAACCCTAAAAGATACAAAAAAA
128 TCGGTAACCCTAAAAGACACAAAAAAA
* * * * * *
322868 AAGCTAGGAGAGTGAACCTATCCTAAACACACGCCTTTGCTATAAAAGCGACTCGATGACTACCT
1 AAGCTAGAAAAGTGAACCTATCCTAAACACACACCTTTGCCATAAAAACGACTAGATGACTACCT
* **
322933 AGGACTTGGTTCTAAAAAATTACCAAAATGTCTCTAAGGTATATTTTCGATGTAAAAATATCTCG
66 AGGACTTGGTTCTAAAAAATTACCAAAATGCCTCTAAGGTATACATTCGATGTAAAAATATCTCG
* * * **
322998 ATAACCCTAAAGGACACGAAAATG
131 GTAACCCTAAAAGACACAAAAAAA
* **
323022 AAGCTAGAAAAGTGAACCTATCCTAAACACACATCTTTGCCATAAAAACGACCTAG-TGA-TTGC
1 AAGCTAGAAAAGTGAACCTATCCTAAACACACACCTTTGCCATAAAAACGA-CTAGATGACTACC
** * * * * *
323085 TAGGAC-TGAGTTCTAGGAAATTGCCAAAATGCCTTTAGGGTATACATTCGATGTGAAAGTAT-T
65 TAGGACTTG-GTTCTAAAAAATTACCAAAATGCCTCTAAGGTATACATTCGATGTAAAAATATCT
* *
323148 ACGGTAACCCTAAAAGATATAAAAAAA
129 -CGGTAACCCTAAAAGACACAAAAAAA
323175 TCATAAAAAG
Statistics
Matches: 247, Mismatches: 55, Indels: 12
0.79 0.18 0.04
Matches are distributed among these distances:
152 6 0.02
153 71 0.29
154 97 0.39
155 73 0.30
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (154 bp):
AAGCTAGAAAAGTGAACCTATCCTAAACACACACCTTTGCCATAAAAACGACTAGATGACTACCT
AGGACTTGGTTCTAAAAAATTACCAAAATGCCTCTAAGGTATACATTCGATGTAAAAATATCTCG
GTAACCCTAAAAGACACAAAAAAA
Found at i:325607 original size:129 final size:129
Alignment explanation
Indices: 325466--325711 Score: 388
Period size: 129 Copynumber: 1.9 Consensus size: 129
325456 TCTTTACTAA
* *
325466 AAAATTGATATATA-TAAAAAATTCAAAACTCATTAAATAAATT-AAATTTTCAAAAATTAATTT
1 AAAATTGATATATACAAAAAAATT-AAAACTCATTAAATAAATTAAAATTTT-AAAAACTAATTT
*
325529 AATATGAATTTAATGAAAATATTTGATGAATTTTAAAAATTTTAAACAAAGAAATCCTTATAAAA
64 AATATGAATTTAATGAAAATATTTGATAAATTTTAAAAATTTTAAACAAAGAAATCCTTATAAAA
325594 G
129 G
* * *
325595 AAAATTGATATATACAAAAAAATTAAAATTTATTAAATAAATTAAAATTTTAAAAACTGATTTAA
1 AAAATTGATATATACAAAAAAATTAAAACTCATTAAATAAATTAAAATTTTAAAAACTAATTTAA
* *
325660 TATGAATTTAATGAAAATATTTGATAAATTTTAACAATTTTAAACTAAGAAA
66 TATGAATTTAATGAAAATATTTGATAAATTTTAAAAATTTTAAACAAAGAAA
325712 AATCCAACCA
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
129 92 0.86
130 15 0.14
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.36
Consensus pattern (129 bp):
AAAATTGATATATACAAAAAAATTAAAACTCATTAAATAAATTAAAATTTTAAAAACTAATTTAA
TATGAATTTAATGAAAATATTTGATAAATTTTAAAAATTTTAAACAAAGAAATCCTTATAAAAG
Found at i:326316 original size:15 final size:14
Alignment explanation
Indices: 326283--326321 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
326273 AAATATTTTT
*
326283 TAAAATTTTAACAA
1 TAAAATTTTAAAAA
*
326297 GAAAATATTTAAAAA
1 TAAAAT-TTTAAAAA
326312 TAAAATTTTA
1 TAAAATTTTA
326322 TTTTCAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAAAATTTTAAAAA
Found at i:327161 original size:6 final size:6
Alignment explanation
Indices: 327152--327180 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
327142 TGCCTTTTCT
327152 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
327181 TTCAGGTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:327908 original size:2 final size:2
Alignment explanation
Indices: 327901--327950 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
327891 AAGAACCCAA
* * *
327901 AT AT AT AT AC AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
327942 AT AT AT AT A
1 AT AT AT AT A
327951 GTTTAAACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:327955 original size:19 final size:19
Alignment explanation
Indices: 327901--327947 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
327891 AAGAACCCAA
* *
327901 ATATATATA-CATATATAT
1 ATATATATATTATATTTAT
327919 ATATATATATTATATTTAT
1 ATATATATATTATATTTAT
*
327938 ATTTATATAT
1 ATATATATAT
327948 ATAGTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATATATTATATTTAT
Found at i:328811 original size:13 final size:13
Alignment explanation
Indices: 328795--328819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
328785 TTTTGAAGTA
328795 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
328808 TTTTTGTTTTTT
1 TTTTTGTTTTTT
328820 TAAGAGAAGT
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:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:328879 original size:16 final size:16
Alignment explanation
Indices: 328842--328872 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
328832 CTAACATACA
328842 ATTTTTTTT-ATTTTT
1 ATTTTTTTTCATTTTT
328857 ATTTTTTTTCATTTTT
1 ATTTTTTTTCATTTTT
328873 TTGTTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
ATTTTTTTTCATTTTT
Found at i:331214 original size:20 final size:19
Alignment explanation
Indices: 331186--331225 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
331176 CCAAAAAACC
331186 AAAA-AAAAAAAACTAACA
1 AAAAGAAAAAAAACTAACA
*
331204 AAAAGAAAAAAAACTATCA
1 AAAAGAAAAAAAACTAACA
331223 AAA
1 AAA
331226 CACCCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.80, C:0.10, G:0.03, T:0.07
Consensus pattern (19 bp):
AAAAGAAAAAAAACTAACA
Found at i:331818 original size:13 final size:13
Alignment explanation
Indices: 331800--331852 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
331790 CGATACATGG
331800 TACATTGTATCGA
1 TACATTGTATCGA
331813 TACATTGTATCGA
1 TACATTGTATCGA
331826 TACA-TG-AT-G-
1 TACATTGTATCGA
331835 -A-ATTGTATCGA
1 TACATTGTATCGA
331846 TACATTG
1 TACATTG
331853 CTTGTAACGA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:331826 original size:33 final size:33
Alignment explanation
Indices: 331784--331852 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
331774 CTACCACTGT
*
331784 TTGTATCGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
331817 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
331850 TTG
1 TTG
331853 CTTGTAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:340702 original size:13 final size:13
Alignment explanation
Indices: 340684--340736 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
340674 CGATACATGG
340684 TACATTGTATCGA
1 TACATTGTATCGA
*
340697 TACATTGCATCGA
1 TACATTGTATCGA
340710 TACA-TG-AT-G-
1 TACATTGTATCGA
340719 -A-ATTGTATCGA
1 TACATTGTATCGA
340730 TACATTG
1 TACATTG
340737 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:340714 original size:33 final size:33
Alignment explanation
Indices: 340672--340737 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
340662 CACTGTTTGT
*
340672 ATCGATACATGGT-ACATTGTATCGATACATTGC
1 ATCGATACATGATGA-ATTGTATCGATACATTGC
340705 ATCGATACATGATGAATTGTATCGATACATTGC
1 ATCGATACATGATGAATTGTATCGATACATTGC
340738 TTGTAACGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (33 bp):
ATCGATACATGATGAATTGTATCGATACATTGC
Found at i:342023 original size:17 final size:16
Alignment explanation
Indices: 341988--342026 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
341978 TTTAAAGTAA
*
341988 AATATAGATAAAAAAG
1 AATATAAATAAAAAAG
*
342004 AATATAAATATAATAAG
1 AATATAAATA-AAAAAG
342021 AATATA
1 AATATA
342027 TGAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (16 bp):
AATATAAATAAAAAAG
Found at i:342876 original size:21 final size:21
Alignment explanation
Indices: 342839--342880 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
342829 ATTAATAATC
342839 ATTTAATTATATTATAACTTTA
1 ATTTAATTATATTATAA-TTTA
*
342861 ATTTAA-TATTTTATAATTTA
1 ATTTAATTATATTATAATTTA
342881 TTGATGGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTAATTATATTATAATTTA
Found at i:342983 original size:45 final size:44
Alignment explanation
Indices: 342934--343019 Score: 122
Period size: 47 Copynumber: 1.9 Consensus size: 44
342924 ATTTATATAT
342934 TTTAATT-AT-TTTTTTACATTTTATGTTATATATTAATGTAAAGTA
1 TTTAATTGATATTTTTTACATTTTATGTT-T-TATTAAT-TAAAGTA
*
342979 TTTAATTGATATTTTTTATATTTTATGTTTTATTAATTAAA
1 TTTAATTGATATTTTTTACATTTTATGTTTTATTAATTAAA
343020 AATTATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
44 4 0.11
45 14 0.37
46 3 0.08
47 17 0.45
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (44 bp):
TTTAATTGATATTTTTTACATTTTATGTTTTATTAATTAAAGTA
Found at i:344801 original size:20 final size:21
Alignment explanation
Indices: 344758--344803 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
344748 TGTTATTCAT
***
344758 TAAAAAATAACTTGATATCTA
1 TAAAAAATAACTTGATAAAAA
344779 TAAAAAATAACTT-ATAAAAA
1 TAAAAAATAACTTGATAAAAA
344799 TAAAA
1 TAAAA
344804 TTGTTAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAAAAATAACTTGATAAAAA
Found at i:347450 original size:31 final size:33
Alignment explanation
Indices: 347372--347453 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 33
347362 AATTATAAAT
* *
347372 ATATATATAAATATTTTAAAAAATTAATAAATTTA
1 ATATATATTAATA-TTAAAAAAATTAAT-AATTTA
*
347407 AAAT-TATT--TATTAAAAAAATTAAT-A-TTA
1 ATATATATTAATATTAAAAAAATTAATAATTTA
347435 ATATATATTAATATTAAAA
1 ATATATATTAATATTAAAA
347454 TAAAAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
28 6 0.15
29 5 0.12
31 21 0.52
32 2 0.05
34 3 0.08
35 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
ATATATATTAATATTAAAAAAATTAATAATTTA
Found at i:352504 original size:2 final size:2
Alignment explanation
Indices: 352497--352526 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
352487 TTGATTTGGC
352497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
352527 CATTTTTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:353433 original size:50 final size:50
Alignment explanation
Indices: 353363--353457 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
353353 GCATTTTCTG
*
353363 AATATGCAATTTAAAATCATGCTAATGAGCAATACAACAATTTAGGCCTA
1 AATATGCAATATAAAATCATGCTAATGAGCAATACAACAATTTAGGCCTA
* * * *
353413 AATATGCAATATAAACTCATGCTTATGAGCTATACAATAATTTAG
1 AATATGCAATATAAAATCATGCTAATGAGCAATACAACAATTTAG
353458 CCTCTTACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (50 bp):
AATATGCAATATAAAATCATGCTAATGAGCAATACAACAATTTAGGCCTA
Found at i:358947 original size:3 final size:3
Alignment explanation
Indices: 358939--359000 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
358929 TTTCATGCAT
358939 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
358987 ATA ATG ATA ATA AT
1 ATA ATA ATA ATA AT
359001 TTTATCAAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:365129 original size:85 final size:85
Alignment explanation
Indices: 364986--365151 Score: 296
Period size: 85 Copynumber: 2.0 Consensus size: 85
364976 TGTGTACATA
* * *
364986 ATAGTCTTTAATGCATGTATGTATAGTCTACTGGCCCATAACTGCACATATAACAAGTGCATGAA
1 ATAGTCTTTAATGCATGTATATATACTCTACAGGCCCATAACTGCACATATAACAAGTGCATGAA
365051 ATGAGAATGTGCATTTATAT
66 ATGAGAATGTGCATTTATAT
*
365071 ATAGTCTTTAATGCATGTATATATACTCTACAGGCCCATAACTGCACGTATAACAAGTGCATGAA
1 ATAGTCTTTAATGCATGTATATATACTCTACAGGCCCATAACTGCACATATAACAAGTGCATGAA
365136 ATGAGAATGTGCATTT
66 ATGAGAATGTGCATTT
365152 TCCAACCATC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (85 bp):
ATAGTCTTTAATGCATGTATATATACTCTACAGGCCCATAACTGCACATATAACAAGTGCATGAA
ATGAGAATGTGCATTTATAT
Found at i:367425 original size:2 final size:2
Alignment explanation
Indices: 367418--367448 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
367408 ATTTGTGTAG
367418 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
367449 TTATTTAAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:367715 original size:60 final size:60
Alignment explanation
Indices: 367636--367759 Score: 212
Period size: 60 Copynumber: 2.1 Consensus size: 60
367626 TACGAAAAGA
* * *
367636 TTTCACTAGTTATATCATCAATAGATGTAGGGAGGGATTGAATTATTTTTCACTCTCTGC
1 TTTCACTAGCTATAACATCAATAGATGTAGGCAGGGATTGAATTATTTTTCACTCTCTGC
*
367696 TTTCACTAGCTATAACATCAATAGATGTAGGCAGGGATTGAGTTATTTTTCACTCTCTGC
1 TTTCACTAGCTATAACATCAATAGATGTAGGCAGGGATTGAATTATTTTTCACTCTCTGC
367756 TTTC
1 TTTC
367760 CTTTTTTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (60 bp):
TTTCACTAGCTATAACATCAATAGATGTAGGCAGGGATTGAATTATTTTTCACTCTCTGC
Found at i:377293 original size:4 final size:4
Alignment explanation
Indices: 377284--377311 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
377274 CCTTCCTCTT
377284 CCTC CCTC CCTC CCTC CCTC CCTC CCTC
1 CCTC CCTC CCTC CCTC CCTC CCTC CCTC
377312 ACTCACTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.75, G:0.00, T:0.25
Consensus pattern (4 bp):
CCTC
Found at i:378602 original size:2 final size:2
Alignment explanation
Indices: 378595--378627 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
378585 GAGTAAACTT
378595 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
378628 CAAGATAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:383622 original size:2 final size:2
Alignment explanation
Indices: 383615--383649 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
383605 GAGATTTTCA
383615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
383650 ACAAGCAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:384016 original size:20 final size:20
Alignment explanation
Indices: 383987--384032 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
383977 ATTTTTTTTT
* *
383987 CTTT-TTCTTCTTCTTCTTC
1 CTTTCTTCTTCATCGTCTTC
384006 CTTTCTTCTTCATCGTCTTC
1 CTTTCTTCTTCATCGTCTTC
384026 C-TTCTTC
1 CTTTCTTC
384033 CCACCCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.61
Consensus pattern (20 bp):
CTTTCTTCTTCATCGTCTTC
Found at i:384745 original size:17 final size:17
Alignment explanation
Indices: 384725--384758 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
384715 CTTTTTTTTC
*
384725 TTTTTTTT-CTTTTTAA
1 TTTTTTTTGCTATTTAA
384741 TTTTTTTTGCTATTTAA
1 TTTTTTTTGCTATTTAA
384758 T
1 T
384759 GATCAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTTTTGCTATTTAA
Found at i:385335 original size:28 final size:28
Alignment explanation
Indices: 385288--386468 Score: 1113
Period size: 28 Copynumber: 41.5 Consensus size: 28
385278 AACTTGAGTA
*
385288 GGCTTTG-AAAGGATACCACTGACTTGTG
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
* * * *
385316 GACTTTTAAAAGATGCCACTTACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* *
385344 GGCTTT-AAAAGGGTGTCACTAACTTGTG
1 GGCTTTGAAAA-GGTGCCACTGACTTGTG
* * * * *
385372 AGCTTTAAAAAGATACCACT-AGCTTGCG
1 GGCTTTGAAAAGGTGCCACTGA-CTTGTG
* *
385400 GGCTTTGAAGAGGTGCCACTGACTTGTA
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
385428 GGCTTTGAAAAGGGTTGCCACTTACTTGTG
1 GGCTTTGAAAA-GG-TGCCACTGACTTGTG
385458 GGCTTTGAAAAGAGTTGCCACTGACTTGTG
1 GGCTTTGAAAAG-G-TGCCACTGACTTGTG
* *
385488 GGCTTTGAGAAA-GTGCAACTGACTTATG
1 GGCTTTGA-AAAGGTGCCACTGACTTGTG
*
385516 GGCTTTGAGAAGGTGCCACTGACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
385544 GGTTTTGAAAAGGGTTGCCACTGACTTGTG
1 GGCTTTGAAAA-GG-TGCCACTGACTTGTG
* * *
385574 GGCTTTG-AAAGGATACAACTGACTTGTA
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
* *
385602 GACTTTGAAATA-ATGCCACTGACTTGTG
1 GGCTTTGAAA-AGGTGCCACTGACTTGTG
* * * *
385630 AGCTTTGAAAGGGTGCCAATAACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* * *
385658 GGCTTTAAAAAGATGCCACTGACTTGCG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* * *
385686 GG-TTTTAAAAGGATGCCACAGACTTATG
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
* *
385714 GGCTTTGAAAAAGATTGCCACTAACTTGTG
1 GGCTTTG-AAAAG-GTGCCACTGACTTGTG
* * *
385744 GGCTTTAAAAAGATGCCACTGACTTGTA
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
385772 GGCTTTGAGAAGGTGCCACTGACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
385800 GGCTTTGAAAAGGGTTGCCACTGACTTGTG
1 GGCTTTGAAAA-GG-TGCCACTGACTTGTG
* *
385830 GGCTTTGAAAAGTGTTGCCATTGACTTGCG
1 GGCTTTGAAAAG-G-TGCCACTGACTTGTG
*
385860 AGCTTTG-AAAGGATGCCACTGACTTGTG
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
* *
385888 GGCTTTGAAAGGGTGCCACTAACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* * * *
385916 GGTTTTGAGAAGGTGCCACTTACTTATG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
385944 GGCTTTGAAAAGTGTGCCACTGACTTATG
1 GGCTTTGAAAAG-GTGCCACTGACTTGTG
385973 GGCTTTG-AAAGGTGCCACTGACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* *
386000 AGCTTTGAAAAGGTTGCCA-TCAACTTGTGTG
1 GGCTTTGAAAAGG-TGCCACT-GAC-T-TGTG
* *
386031 GGCTTTGAAAAGGGTGCCATTGACTTGCG
1 GGCTTTGAAAA-GGTGCCACTGACTTGTG
* * * *
386060 AGCTTTGAAAGGGTGCCA-TAAACTTTTG
1 GGCTTTGAAAAGGTGCCACT-GACTTGTG
* *
386088 AGCTTTG-AAAGGATGCCA-TAGACTTGTA
1 GGCTTTGAAAAGG-TGCCACT-GACTTGTG
386116 GGCTTTGAAAAGGTGCCACTGACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
386144 GGCTTTGAAAAGGGTTACCACTGACTTGTG
1 GGCTTTGAAAA-GG-TGCCACTGACTTGTG
386174 GGCTTTG-AAAGGATGCCACTGACTTGTG
1 GGCTTTGAAAAGG-TGCCACTGACTTGTG
* * *
386202 GGCTTCGAAAGGGTGCCACTAACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* * * *
386230 GGCTTTTAGAAGGTG-CACTTACTTGTA
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* *
386257 GGTTTTGAATAGTGTGCCACTGACTTGTG
1 GGCTTTGAAAAG-GTGCCACTGACTTGTG
* *
386286 GGCTTTG-AAAGGTGCTACTGACTTATG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
386313 GGCTTTG-AAAGGTGCTACTGACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
*
386340 GGCTTTG-AAAGATGCCACTGACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTTGTG
* *
386367 GGCTTTGAAAAGGGTGTCACTAACTTGTG
1 GGCTTTGAAAA-GGTGCCACTGACTTGTG
* * *
386396 GGGTTTGAAAAAGTTACCA-TCGACTTGTGTG
1 GGCTTTG-AAAAGGTGCCACT-GAC-T-TGTG
* * * *
386427 GGCTTTCAAAAGGGAGCCATTGACTTCTG
1 GGCTTTGAAAA-GGTGCCACTGACTTGTG
* *
386456 AGCTTTAAAAAGG
1 GGCTTTGAAAAGG
386469 GTGTTATGAA
Statistics
Matches: 956, Mismatches: 149, Indels: 96
0.80 0.12 0.08
Matches are distributed among these distances:
27 131 0.14
28 459 0.48
29 149 0.16
30 173 0.18
31 40 0.04
32 4 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
GGCTTTGAAAAGGTGCCACTGACTTGTG
Found at i:385821 original size:286 final size:282
Alignment explanation
Indices: 385288--386406 Score: 1260
Period size: 286 Copynumber: 3.9 Consensus size: 282
385278 AACTTGAGTA
* * *
385288 GGCTTTGAAAGGATACCACTGACTTGTGGACTTTTAAA-AGATGCCACTTACTTGTGGGCTTTAA
1 GGCTTTGAAAGGATACCACTGACTTGTGGACTTTGAAAGA-ATGCCACTGACTTGTGGGCTTTGA
* * * * *
385352 AAGGGTGTCACTAACTTGTGAGCTTTAAAAAGATACCACT-AGCTTGCGGGCTTTGAAGAGGTGC
65 AAGGGTGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTGA-CTTGCGGG-TTTTAAAAGGTGC
* * *
385416 CACTGACTTGTAGGCTTTGAAAAGGGTTGCCACTTACTTGTGGGCTTTGAAAAGAGTTGCCACTG
128 CACTGACTTGTGGGCTTTGAAAA-GGTTGCCACTAACTTGTGGGCTTTGAAAA-AGGTGCCACTG
* * * *
385481 ACTTGTGGGCTTTGAGAAAGTGCAACTGACTTATGGGCTTTGAGAAGGTGCCACTGACTTGTGGG
191 ACTTGTGGGCTTTGA-AAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGG
*
385546 TTTTGAAAAGGGTTGCCACTGACTTGTG
255 CTTTGAAAAGGGTTGCCACTGACTTGTG
* * * *
385574 GGCTTTGAAAGGATACAACTGACTTGTAGACTTTGAAATAATGCCACTGACTTGTGAGCTTTGAA
1 GGCTTTGAAAGGATACCACTGACTTGTGGACTTTGAAAGAATGCCACTGACTTGTGGGCTTTGAA
*
385639 AGGGTGCCAATAACTTGTGGGCTTTAAAAAGATGCCACTGACTTGCGGGTTTTAAAAGGATGCCA
66 AGGGTGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTGACTTGCGGGTTTTAAAAGG-TGCCA
* * * *
385704 CAGACTTATGGGCTTTGAAAAAGATTGCCACTAACTTGTGGGCTTT-AAAAAGATGCCACTGACT
130 CTGACTTGTGGGCTTTG-AAAAGGTTGCCACTAACTTGTGGGCTTTGAAAAAGGTGCCACTGACT
*
385768 TGTAGGCTTTGAGAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACTGACTTGTGGGC
194 TGTGGGCTTTGA-AAGGTGCCACTGACTTGTGGGCTTTGAAAA-GG-TGCCACTGACTTGTGGGC
* * *
385833 TTTGAAAAGTGTTGCCATTGACTTGCG
256 TTTGAAAAGGGTTGCCACTGACTTGTG
* * * ** * *
385860 AGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGTTTTGAG
1 GGCTTTGAAAGGATACCACTGACTTGTGGACTTTGAAAGAATGCCACTGACTTGTGGGCTTTGA-
* * * * ** * *
385925 AA-GGTGCCACTTACTTATGGGCTTTGAAAAGTGTGCCACTGACTTATGGGCTTTGAAAGGTGCC
65 AAGGGTGCCACTAACTTGTGGGCTTTAAAAAG-ATGCCACTGACTTGCGGGTTTTAAAAGGTGCC
* * *
385989 ACTGACTTGTGAGCTTTGAAAAGGTTGCCA-TCAACTTGTGTGGGCTTTGAAAAGGGTGCCATTG
129 ACTGACTTGTGGGCTTTGAAAAGGTTGCCACT-AAC-T-TGTGGGCTTTGAAAAAGGTGCCACTG
* * * * *
386053 ACTTGCGAGCTTTGAAAGGGTGCCA-TAAACTTTTGAGCTTTG-AAAGGATGCCA-TAGACTTGT
191 ACTTGTGGGCTTTGAAA-GGTGCCACT-GACTTGTGGGCTTTGAAAAGG-TGCCACT-GACTTGT
*
386115 AGGCTTTGAAAA-GG-TGCCACTGACTTGTG
252 GGGCTTTGAAAAGGGTTGCCACTGACTTGTG
* * * *
386144 GGCTTTGAAAAGGGTTACCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTCG
1 GGCTTTG-AAA-GGATACCACTGACTTGTGGACTTTGAAAGAATGCCACTGACTTGTGGGCTTTG
* * * * ** *
386209 AAAGGGTGCCACTAACTTGTGGGCTTTTAGAAGGTG-CACTTACTTGTAGGTTTTGAATAGTGTG
64 AAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTGACTTGCGGGTTTT-AAAAG-GTG
* * * *
386273 CCACTGACTTGTGGGCTTTG-AAAGG-TGCTACTGACTTATGGGCTTTG--AAAGGTGCTACTGA
127 CCACTGACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTTTGAAAAAGGTGCCACTGA
* * * *
386334 CTTGTGGGCTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGTCACTAACTTGTGGGG
192 CTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGC
386399 TTTGAAAA
256 TTTGAAAA
386407 AGTTACCATC
Statistics
Matches: 709, Mismatches: 99, Indels: 56
0.82 0.11 0.06
Matches are distributed among these distances:
279 18 0.03
280 49 0.07
281 3 0.00
282 10 0.01
283 1 0.00
284 91 0.13
285 47 0.07
286 400 0.56
287 47 0.07
288 43 0.06
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (282 bp):
GGCTTTGAAAGGATACCACTGACTTGTGGACTTTGAAAGAATGCCACTGACTTGTGGGCTTTGAA
AGGGTGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTGACTTGCGGGTTTTAAAAGGTGCCAC
TGACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTTTGAAAAAGGTGCCACTGACTTG
TGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGA
AAAGGGTTGCCACTGACTTGTG
Found at i:386491 original size:28 final size:28
Alignment explanation
Indices: 386460--386677 Score: 167
Period size: 28 Copynumber: 7.7 Consensus size: 28
386450 CTTCTGAGCT
** *
386460 TTAAAAAGGGTGTTATGAAGTTGTGGAC
1 TTAAAAAGGGTGCCATGAAGTTATGGAC
386488 TTAAAAAGGGTGCCATGAAGTTATGGAC
1 TTAAAAAGGGTGCCATGAAGTTATGGAC
* *
386516 TTAAAAAGGGTGCCACGGAGTTGA-GGAC
1 TTAAAAAGGGTGCCATGAAGTT-ATGGAC
* * * *
386544 TTTAAAAATGGTGCCATGGCA-TTGTAGAC
1 -TTAAAAAGGGTGCCAT-GAAGTTATGGAC
* * * *
386573 TTAAAAAAGGTGCCACGGAGTTGTGGAC
1 TTAAAAAGGGTGCCATGAAGTTATGGAC
*
386601 TTTAAAAA-GGTGCCACTG-AGTTATAGAC
1 -TTAAAAAGGGTGCCA-TGAAGTTATGGAC
* * *
386629 TT-AAAAGGATGCCATGGAGTTGTGGAC
1 TTAAAAAGGGTGCCATGAAGTTATGGAC
*
386656 TTTAAAAGAGAGTGCCACTGAA
1 -TTAAAA-AGGGTGCCA-TGAA
386678 TCGTGGACTT
Statistics
Matches: 154, Mismatches: 23, Indels: 23
0.77 0.12 0.12
Matches are distributed among these distances:
26 6 0.04
27 18 0.12
28 87 0.56
29 31 0.20
30 9 0.06
31 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (28 bp):
TTAAAAAGGGTGCCATGAAGTTATGGAC
Found at i:386550 original size:57 final size:58
Alignment explanation
Indices: 386460--386677 Score: 252
Period size: 57 Copynumber: 3.8 Consensus size: 58
386450 CTTCTGAGCT
** * * *
386460 TTAAAAAGGGTGTTATGAAGTTGTGGAC-TTAAAAAGGGTGCCA-TGAAGTTATGGAC
1 TTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGGTGCCACTGAAGTTATAGAC
* * * *
386516 TTAAAAAGGGTGCCACGGAGTTGAGGACTTTAAAAATGGTGCCA-TGGCA-TTGTAGAC
1 TTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGGTGCCACT-GAAGTTATAGAC
*
386573 TTAAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA-GGTGCCACTG-AGTTATAGAC
1 TTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGGTGCCACTGAAGTTATAGAC
* * *
386629 TT-AAAAGGATGCCATGGAGTTGTGGACTTTAAAAGAGAGTGCCACTGAA
1 TTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA-AGGGTGCCACTGAA
386678 TCGTGGACTT
Statistics
Matches: 139, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
55 30 0.22
56 41 0.29
57 65 0.47
58 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (58 bp):
TTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGGTGCCACTGAAGTTATAGAC
Found at i:386551 original size:85 final size:85
Alignment explanation
Indices: 386458--386695 Score: 218
Period size: 85 Copynumber: 2.8 Consensus size: 85
386448 GACTTCTGAG
** * * *
386458 CTTTAAAAAGGGTGTTAT-GAAGTTGTGGACTTAAAAAGGGTGCCATGAAGTTATGGAC-TTAAA
1 CTTTAAAAAGGGTGCCATGGAA-TTGTAGACTTAAAAAAGGTGCCACGAAGTTATGGACTTTAAA
386521 AAGGGTGCCACGGAGTTGAGGA
65 AA-GGTGCCACGGAGTTGAGGA
* * * *
386543 CTTTAAAAATGGTGCCATGGCATTGTAGACTTAAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA
1 CTTTAAAAAGGGTGCCATGGAATTGTAGACTTAAAAAAGGTGCCACGAAGTTATGGACTTTAAAA
* *
386608 AGGTGCCACTGAGTT-ATAGA
66 AGGTGCCACGGAGTTGA-GGA
* * * * **
386628 C-TT-AAAAGGATGCCATGGAGTTGTGGACTTTAAAAGAGAGTGCCACTGAA-TCGTGGACTTTG
1 CTTTAAAAAGGGTGCCATGGAATTGTAGAC-TTAAAAAAG-GTGCCAC-GAAGTTATGGACTTT-
386690 AAAAAG
62 AAAAAG
386696 TTACATTATT
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
83 20 0.16
84 11 0.09
85 79 0.62
86 17 0.13
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (85 bp):
CTTTAAAAAGGGTGCCATGGAATTGTAGACTTAAAAAAGGTGCCACGAAGTTATGGACTTTAAAA
AGGTGCCACGGAGTTGAGGA
Found at i:394515 original size:3 final size:3
Alignment explanation
Indices: 394503--394549 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
394493 TTCATTTTTT
* *
394503 TTC TTT TTC TTC TTC TTC TTC CT- TTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC
394548 TT
1 TT
394550 TCCTACCCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 34 0.89
4 3 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:394534 original size:20 final size:19
Alignment explanation
Indices: 394505--394551 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
394495 CATTTTTTTT
394505 CTTTTTCTTCTTCTTCTTC
1 CTTTTTCTTCTTCTTCTTC
394524 CTTTCTTCTTCTTCTTCTTC
1 CTTT-TTCTTCTTCTTCTTC
394544 CTTCTTTC
1 CTT-TTTC
394552 CTACCCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.15
20 21 0.81
21 1 0.04
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
CTTTTTCTTCTTCTTCTTC
Found at i:394535 original size:23 final size:23
Alignment explanation
Indices: 394502--394551 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
394492 TTTCATTTTT
*
394502 TTTCTTTTTCTTCTTCTT-CTTCC
1 TTTCTTCTTCTTCTTCTTCCTT-C
394525 TTTCTTCTTCTTCTTCTTCCTTC
1 TTTCTTCTTCTTCTTCTTCCTTC
394548 TTTC
1 TTTC
394552 CTACCCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTCTTCTTCTTCTTCTTCCTTC
Found at i:395923 original size:2 final size:2
Alignment explanation
Indices: 395916--395953 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
395906 AAATATACTA
395916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
395954 GAAATGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:397192 original size:24 final size:24
Alignment explanation
Indices: 397148--397194 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
397138 CACTATTATT
*
397148 ATATTAAATAATAAATTTTTTTAC
1 ATATTAAATAATAAATATTTTTAC
*
397172 ATATTAATTTAAT-AATATTTTTA
1 ATATTAA-ATAATAAATATTTTTA
397195 AATTTTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTAAATAATAAATATTTTTAC
Found at i:402673 original size:22 final size:22
Alignment explanation
Indices: 402638--402680 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
402628 ATTTAATTTT
*
402638 TTATTAATAAATAATATTTATA
1 TTATTAATAAATAAAATTTATA
402660 TTATT-ATAACATAAAATTTAT
1 TTATTAATAA-ATAAAATTTAT
402681 TTTTATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATTAATAAATAAAATTTATA
Found at i:403226 original size:22 final size:23
Alignment explanation
Indices: 403189--403231 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
403179 TATTAATGAG
*
403189 ATAAAAAATTTAAAATTTATATA
1 ATAAAAAAATTAAAATTTATATA
403212 ATAAAAAAATT-AAATTTATA
1 ATAAAAAAATTAAAATTTATA
403232 AAATTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAAAAATTAAAATTTATATA
Done.