Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 3 of 130
Found at i:606866 original size:66 final size:65
Alignment explanation
Indices: 606753--607129 Score: 339
Period size: 66 Copynumber: 5.9 Consensus size: 65
606743 AAATGAAAGT
* * *
606753 GCAGACCAGGAGTTCAGCAAACAAGGAAGTGCAGACCACGATTTCCGCAGACCAGGAAGGGCTAG
1 GCAGACCATGAGTTCAGCAAACAAGGAAGTGCAGACCACGAGTTCCGCAGACAAGGAA-GGCTAG
606818 C
65 C
* *
606819 GCAGACCATGAGTTCAGCAAACAAGGAAGTGCAGACCACTAGCTCCGCAGACAAGGAA-G-TA--
1 GCAGACCATGAGTTCAGCAAACAAGGAAGTGCAGACCACGAGTTCCGCAGACAAGGAAGGCTAGC
* * * * * * * ** * *
606880 -CAAACCACGAGTACTGCAGACAAGGAAGTACAAACGGCAAGTTCCACAGACAAGGAAGCGC-AG
1 GCAGACCATGAGTTCAGCAAACAAGGAAGTGCAGACCACGAGTTCCGCAGACAAGGAAG-GCTA-
606943 GC
64 GC
* * * *
606945 ACAGACAACT-AGTTCTGCAGACAAGGAAGTGCAGACCACGAGTTCCGCAGA-ACAGGAAGTGCT
1 GCAGACCA-TGAGTTCAGCAAACAAGGAAGTGCAGACCACGAGTTCCGCAGACA-AGGAAG-GCT
607008 AGC
63 AGC
* *
607011 GCAGACCATGAGTTCAACAAACAAGGAAGTGCAGACCACTAGTTCCGCAGACAAGGAA-G-TA--
1 GCAGACCATGAGTTCAGCAAACAAGGAAGTGCAGACCACGAGTTCCGCAGACAAGGAAGGCTAGC
* * * * * * * *
607072 -CAAACCACGAGTTCTGCAGACAAGGAAGTACAAACCGCAAGTTCCGCAGACAAGGAAG
1 GCAGACCATGAGTTCAGCAAACAAGGAAGTGCAGACCACGAGTTCCGCAGACAAGGAAG
607130 CGCAAGCACA
Statistics
Matches: 255, Mismatches: 43, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
60 93 0.36
62 2 0.01
63 4 0.02
64 2 0.01
65 2 0.01
66 150 0.59
67 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.11
Consensus pattern (65 bp):
GCAGACCATGAGTTCAGCAAACAAGGAAGTGCAGACCACGAGTTCCGCAGACAAGGAAGGCTAGC
Found at i:606950 original size:96 final size:96
Alignment explanation
Indices: 606850--607291 Score: 354
Period size: 96 Copynumber: 4.6 Consensus size: 96
606840 CAAGGAAGTG
* * *
606850 CAGACCACTAGCTCCGCAGACAAGGAAGTACAAACCACGAGTACTGCAGACAAGGAAGTACAAAC
1 CAGACAACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAAGGAAGTACAAAC
*
606915 GGCAAGTTCCACAGACAAGGAAGCGCAGGCA
66 GGCAAGTTCCACAGACAAGGAAGCGCAAGCA
* * * * * * *
606946 CAGACAACTAGTTCTGCAGACAAGGAAGTGCAGACCACGAGTTCCGCAGA-ACAGGAAGTGCTAG
1 CAGACAACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACA-AGGAAGTACAAA
* * *
607010 CGCAGACCATGAGTTCAACAAACAAGGAAGTGC-AG-A
65 CG--G--CA--AGTTCCACAGACAAGGAAGCGCAAGCA
607046 C---C-ACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAAGGAAGTACAAAC
1 CAGACAACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAAGGAAGTACAAAC
* *
607107 CGCAAGTTCCGCAGACAAGGAAGCGCAAGCA
66 GGCAAGTTCCACAGACAAGGAAGCGCAAGCA
* * ** * * *
607138 CAAACAACTAG-TCCTGCGGACAAGGAAGTGCAGGCGCAGGCCATGAGTTCAGCAAACAAGGAAG
1 CAGACAACTAGTTCC-GCAGACAAGGAAGT--A----CAAACCACGAGTTCTGCAGACAAGGAAG
* * * * * **
607202 TGCAGACCGCAAGTTCCGCAGACAAGGTAGTACAA--A
59 TACAAACGGCAAGTTCCACAGACAAGGAAGCGCAAGCA
* * * *
607238 CCG-C-A--AGTTCCGCAGACAAAGAAGTACAAACCACAAGTTCCGCAGACAAGGAAG
1 CAGACAACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAAGGAAG
607292 CGCAGGCACA
Statistics
Matches: 277, Mismatches: 47, Indels: 50
0.74 0.13 0.13
Matches are distributed among these distances:
90 40 0.14
91 2 0.01
92 4 0.01
94 2 0.01
95 5 0.02
96 136 0.49
97 5 0.02
98 3 0.01
99 1 0.00
100 6 0.02
101 1 0.00
102 72 0.26
ACGTcount: A:0.38, C:0.26, G:0.26, T:0.11
Consensus pattern (96 bp):
CAGACAACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAAGGAAGTACAAAC
GGCAAGTTCCACAGACAAGGAAGCGCAAGCA
Found at i:607013 original size:192 final size:192
Alignment explanation
Indices: 606763--607170 Score: 690
Period size: 192 Copynumber: 2.1 Consensus size: 192
606753 GCAGACCAGG
* * * *
606763 AGTTCAGCAAACAAGGAAGTGCAGACCACGATTTCCGCAGACCAGGAAGGGCTAGCGCAGACCAT
1 AGTTCTGCAGACAAGGAAGTGCAGACCACGAGTTCCGCAGAACAGGAAGGGCTAGCGCAGACCAT
*
606828 GAGTTCAGCAAACAAGGAAGTGCAGACCACTAGCTCCGCAGACAAGGAAGTACAAACCACGAGTA
66 GAGTTCAACAAACAAGGAAGTGCAGACCACTAGCTCCGCAGACAAGGAAGTACAAACCACGAGTA
* * *
606893 CTGCAGACAAGGAAGTACAAACGGCAAGTTCCACAGACAAGGAAGCGCAGGCACAGACAACT
131 CTGCAGACAAGGAAGTACAAACCGCAAGTTCCACAGACAAGGAAGCGCAAGCACAAACAACT
*
606955 AGTTCTGCAGACAAGGAAGTGCAGACCACGAGTTCCGCAGAACAGGAAGTGCTAGCGCAGACCAT
1 AGTTCTGCAGACAAGGAAGTGCAGACCACGAGTTCCGCAGAACAGGAAGGGCTAGCGCAGACCAT
* *
607020 GAGTTCAACAAACAAGGAAGTGCAGACCACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTT
66 GAGTTCAACAAACAAGGAAGTGCAGACCACTAGCTCCGCAGACAAGGAAGTACAAACCACGAGTA
*
607085 CTGCAGACAAGGAAGTACAAACCGCAAGTTCCGCAGACAAGGAAGCGCAAGCACAAACAACT
131 CTGCAGACAAGGAAGTACAAACCGCAAGTTCCACAGACAAGGAAGCGCAAGCACAAACAACT
* *
607147 AGTCCTGCGGACAAGGAAGTGCAG
1 AGTTCTGCAGACAAGGAAGTGCAG
607171 GCGCAGGCCA
Statistics
Matches: 202, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
192 202 1.00
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.11
Consensus pattern (192 bp):
AGTTCTGCAGACAAGGAAGTGCAGACCACGAGTTCCGCAGAACAGGAAGGGCTAGCGCAGACCAT
GAGTTCAACAAACAAGGAAGTGCAGACCACTAGCTCCGCAGACAAGGAAGTACAAACCACGAGTA
CTGCAGACAAGGAAGTACAAACCGCAAGTTCCACAGACAAGGAAGCGCAAGCACAAACAACT
Found at i:607075 original size:162 final size:161
Alignment explanation
Indices: 606869--607301 Score: 470
Period size: 162 Copynumber: 2.7 Consensus size: 161
606859 AGCTCCGCAG
* * * * * * *
606869 ACAAGGAAGTACAAACCACGAGTACTGCAGACAAGGAAGTACAAACGGCAAGTTCCACAGACAAG
1 ACAAGGAAGTGCAGACCACAAGTTCCGCAGACAAGGAAGTACAAACCGCAAGTTCCGCAGACAAG
* * *
606934 GAAGCGCAGGCACAGACAACTAGTTCTGCAGACAAGGAAGTGC-AG-AC-C-ACGAGTTCC-GCA
66 GAAG-GCA--CA-A-ACAACAAGTTCCGCAGACAAGGAAGCGCAAGCACACAACGAG-TCCTGC-
606994 GAAC-AGGAAGTGCTA-GCGCAGACCATGAGTTCAACAA
124 GAACAAGGAAGTGC-AGGCGCAGACCATGAGTTCAACAA
* * * *
607031 ACAAGGAAGTGCAGACCACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAAG
1 ACAAGGAAGTGCAGACCACAAGTTCCGCAGACAAGGAAGTACAAACCGCAAGTTCCGCAGACAAG
* ** * *
607096 GAA-GTACAAACCGCAAGTTCCGCAGACAAGGAAGCGCAAGCACAAACAACTAGTCCTGCGGACA
66 GAAGGCACAAACAACAAGTTCCGCAGACAAGGAAGCGCAAGCAC--ACAACGAGTCCTGCGAACA
* *
607160 AGGAAGTGCAGGCGCAGGCCATGAGTTCAGCAA
129 AGGAAGTGCAGGCGCAGACCATGAGTTCAACAA
* * *
607193 ACAAGGAAGTGCAGACCGCAAGTTCCGCAGACAAGGTAGTACAAACCGCAAGTTCCGCAGACAAA
1 ACAAGGAAGTGCAGACCACAAGTTCCGCAGACAAGGAAGTACAAACCGCAAGTTCCGCAGACAAG
* * *
607258 GAA-GTACAAACCACAAGTTCCGCAGACAAGGAAGCGCAGGCACA
66 GAAGGCACAAACAACAAGTTCCGCAGACAAGGAAGCGCAAGCACA
607302 GACAAAGAGT
Statistics
Matches: 233, Mismatches: 29, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
156 23 0.10
157 3 0.01
158 4 0.02
160 3 0.01
161 8 0.03
162 192 0.82
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.11
Consensus pattern (161 bp):
ACAAGGAAGTGCAGACCACAAGTTCCGCAGACAAGGAAGTACAAACCGCAAGTTCCGCAGACAAG
GAAGGCACAAACAACAAGTTCCGCAGACAAGGAAGCGCAAGCACACAACGAGTCCTGCGAACAAG
GAAGTGCAGGCGCAGACCATGAGTTCAACAA
Found at i:607209 original size:192 final size:189
Alignment explanation
Indices: 606773--607291 Score: 650
Period size: 192 Copynumber: 2.7 Consensus size: 189
606763 AGTTCAGCAA
* * *
606773 ACAAGGAAGTGCAGACCACGATTTCCGCAGACCAGGAAGGGCTAGCGCAGACCATGAGTTCAGCA
1 ACAAGGAAGTGCAGACCACGAGTTCAGCAGAACAGGAA-GGCTA--GCAGACCATGAGTTCAGCA
* *
606838 AACAAGGAAGTGCAGACCACTAGCTCCGCAGACAAGGAAGTACAAACCACGAGTACTGCAGACAA
63 AACAAGGAAGTGCAGACCACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAA
* * * *
606903 GGAAGTACAAACGGCAAGTTCCACAGACAAGGAAGCGCAGGCACAGACAACTAGTTCTGCAG
128 GGAAGTACAAACCGCAAGTTCCACAGACAAGGAAGCGCAAGCACAAACAACTAGTCCTGCAG
* *
606965 ACAAGGAAGTGCAGACCACGAGTTCCGCAGAACAGGAAGTGCTAGCGCAGACCATGAGTTCAACA
1 ACAAGGAAGTGCAGACCACGAGTTCAGCAGAACAGGAAG-GCTA--GCAGACCATGAGTTCAGCA
607030 AACAAGGAAGTGCAGACCACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAA
63 AACAAGGAAGTGCAGACCACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAA
* *
607095 GGAAGTACAAACCGCAAGTTCCGCAGACAAGGAAGCGCAAGCACAAACAACTAGTCCTGCGG
128 GGAAGTACAAACCGCAAGTTCCACAGACAAGGAAGCGCAAGCACAAACAACTAGTCCTGCAG
* ***
607157 ACAAGGAAGTGCAGGCGCAGGCCATGAGTTCAGCA-AACAAGGAA-G-T-GCAGACCGCAAGTTC
1 ACAAGGAAGTGCA---G-A--CCACGAGTTCAGCAGAAC-AGGAAGGCTAGCAGACCATGAGTTC
* * * * * * * * * *
607218 CGCAGACAAGGTAGTACAAACCGCAAGTTCCGCAGACAAAGAAGTACAAACCACAAGTTCCGCAG
59 AGCAAACAAGGAAGTGCAGACCACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAG
607283 ACAAGGAAG
124 ACAAGGAAG
607292 CGCAGGCACA
Statistics
Matches: 292, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
191 1 0.00
192 267 0.91
195 2 0.01
196 2 0.01
197 3 0.01
198 17 0.06
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.11
Consensus pattern (189 bp):
ACAAGGAAGTGCAGACCACGAGTTCAGCAGAACAGGAAGGCTAGCAGACCATGAGTTCAGCAAAC
AAGGAAGTGCAGACCACTAGTTCCGCAGACAAGGAAGTACAAACCACGAGTTCTGCAGACAAGGA
AGTACAAACCGCAAGTTCCACAGACAAGGAAGCGCAAGCACAAACAACTAGTCCTGCAG
Found at i:607313 original size:36 final size:36
Alignment explanation
Indices: 607273--607434 Score: 121
Period size: 36 Copynumber: 4.5 Consensus size: 36
607263 ACAAACCACA
* *
607273 AGTTCCGCAGACAAGGAAGCGCAGGCACAGACAAAG
1 AGTTCTGCAGACAAGGAAGTGCAGGCACAGACAAAG
* * * * *
607309 AGTTCTTCAGACAACGAAGTGCAGGCACGGACCACG
1 AGTTCTGCAGACAAGGAAGTGCAGGCACAGACAAAG
* * * *
607345 AGTTCTGCAGAGAAGGAAGTGAAGGCACA-AGCCATG
1 AGTTCTGCAGACAAGGAAGTGCAGGCACAGA-CAAAG
* * * * * * *
607381 AGTTCAGCGGACAAGGAAATGGAGGCGCAAACCACA-
1 AGTTCTGCAGACAAGGAAGTGCAGGCACAGA-CAAAG
*
607417 AGTTCAGCAGACAAGGAA
1 AGTTCTGCAGACAAGGAA
607435 CAGCCCATGA
Statistics
Matches: 100, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
35 1 0.01
36 97 0.97
37 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.30, T:0.10
Consensus pattern (36 bp):
AGTTCTGCAGACAAGGAAGTGCAGGCACAGACAAAG
Found at i:607330 original size:162 final size:162
Alignment explanation
Indices: 607000--607365 Score: 493
Period size: 162 Copynumber: 2.3 Consensus size: 162
606990 CGCAGAACAG
* * *
607000 GAAGTGCTA-GCGCAGACCATGAGTTCAACAAACAAGGAAGTGCAGACCACTAGTTCCGCAGACA
1 GAAGTGC-AGGCGCAGGCCATGAGTTCAGCAAACAAGGAAGTGCAGACCACAAGTTCCGCAGACA
* * * *
607064 AGGAAGTACAAACCACGAGTTCTGCAGACAAGGAAGTACAAACCGCAAGTTCCGCAGACAAGGAA
65 AGGAAGTACAAACCACAAGTTCCGCAGACAAAGAAGTACAAACCACAAGTTCCGCAGACAAGGAA
** * *
607129 GCGCAAGCACAAACAACTAGTCCTGCGGACAAG
130 GCGCAAGCACAAACAAAGAGTCCTGCAGACAAC
*
607162 GAAGTGCAGGCGCAGGCCATGAGTTCAGCAAACAAGGAAGTGCAGACCGCAAGTTCCGCAGACAA
1 GAAGTGCAGGCGCAGGCCATGAGTTCAGCAAACAAGGAAGTGCAGACCACAAGTTCCGCAGACAA
* *
607227 GGTAGTACAAACCGCAAGTTCCGCAGACAAAGAAGTACAAACCACAAGTTCCGCAGACAAGGAAG
66 GGAAGTACAAACCACAAGTTCCGCAGACAAAGAAGTACAAACCACAAGTTCCGCAGACAAGGAAG
* * * *
607292 CGCAGGCACAGACAAAGAGTTCTTCAGACAAC
131 CGCAAGCACAAACAAAGAGTCCTGCAGACAAC
* * * * *
607324 GAAGTGCAGGCAC-GGACCACGAGTTCTGCAGAGAAGGAAGTG
1 GAAGTGCAGGCGCAGG-CCATGAGTTCAGCAAACAAGGAAGTG
607366 AAGGCACAAG
Statistics
Matches: 179, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
161 3 0.02
162 176 0.98
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.11
Consensus pattern (162 bp):
GAAGTGCAGGCGCAGGCCATGAGTTCAGCAAACAAGGAAGTGCAGACCACAAGTTCCGCAGACAA
GGAAGTACAAACCACAAGTTCCGCAGACAAAGAAGTACAAACCACAAGTTCCGCAGACAAGGAAG
CGCAAGCACAAACAAAGAGTCCTGCAGACAAC
Found at i:610138 original size:13 final size:14
Alignment explanation
Indices: 610122--610151 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
610112 TTCTGTTCCT
610122 TTTTTTTTTA-ATG
1 TTTTTTTTTAGATG
610135 TTTTTTTTTAGATG
1 TTTTTTTTTAGATG
610149 TTT
1 TTT
610152 AATTGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTAGATG
Found at i:623572 original size:12 final size:12
Alignment explanation
Indices: 623555--623580 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
623545 AAACTGAACC
623555 AGGAGAAGCTGA
1 AGGAGAAGCTGA
623567 AGGAGAAGCTGA
1 AGGAGAAGCTGA
623579 AG
1 AG
623581 AAAAATCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.42, T:0.08
Consensus pattern (12 bp):
AGGAGAAGCTGA
Found at i:625453 original size:18 final size:18
Alignment explanation
Indices: 625430--625465 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
625420 ATATGATACT
* *
625430 AATATAATACTAATATAA
1 AATATAAAAATAATATAA
625448 AATATAAAAATAATATAA
1 AATATAAAAATAATATAA
625466 TTTAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AATATAAAAATAATATAA
Found at i:625544 original size:37 final size:37
Alignment explanation
Indices: 625490--625560 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
625480 AATTATTATA
625490 TTTAAATTTAATAAAATTAAAAA-ATATATTTTATGTT
1 TTTAAATTTAATAAAATTAAAAATATA-ATTTTATGTT
* *
625527 TTTATATTT-ATATAAATTATAAATATAATTTTAT
1 TTTAAATTTAATA-AAATTAAAAATATAATTTTAT
625561 ACAAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 3 0.10
37 24 0.80
38 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (37 bp):
TTTAAATTTAATAAAATTAAAAATATAATTTTATGTT
Found at i:627581 original size:2 final size:2
Alignment explanation
Indices: 627574--627598 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
627564 TTTACATGTT
627574 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 T
627599 TTTATACGAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:634252 original size:2 final size:2
Alignment explanation
Indices: 634245--634302 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
634235 CTCCCAACCT
634245 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
634287 GA GA GA AA GA GA GA GA
1 GA GA GA GA GA GA GA GA
634303 CCTGGGCAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:637195 original size:17 final size:17
Alignment explanation
Indices: 637173--637210 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
637163 AGGATCTCGT
*
637173 AAGTTTCTATATATTGA
1 AAGTTTCTATATATCGA
*
637190 AAGTTTCTATCTATCGA
1 AAGTTTCTATATATCGA
637207 AAGT
1 AAGT
637211 AATCTCTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (17 bp):
AAGTTTCTATATATCGA
Found at i:638864 original size:21 final size:21
Alignment explanation
Indices: 638840--638885 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
638830 ACTCAATTGC
*
638840 TTGATGCAACCACTGCTCCAA
1 TTGATGCAACCACGGCTCCAA
* **
638861 TTGATTCTTCCACGGCTCCAA
1 TTGATGCAACCACGGCTCCAA
638882 TTGA
1 TTGA
638886 CTCTTCAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (21 bp):
TTGATGCAACCACGGCTCCAA
Found at i:638890 original size:21 final size:21
Alignment explanation
Indices: 638849--638964 Score: 99
Period size: 21 Copynumber: 5.5 Consensus size: 21
638839 CTTGATGCAA
*
638849 CCACTGCTCCAATTGATTCTT
1 CCACTGCTCCAATTGACTCTT
*
638870 CCACGGCTCCAATTGACTCTT
1 CCACTGCTCCAATTGACTCTT
* * *
638891 CAACTGCTCTAATTG-GTCCTT
1 CCACTGCTCCAATTGACT-CTT
* * *
638912 CCACGGCTCCAGTTGTCTCTT
1 CCACTGCTCCAATTGACTCTT
* * * *
638933 CAATTGCTCTAATTGACCCTT
1 CCACTGCTCCAATTGACTCTT
*
638954 CCACTGTTCCA
1 CCACTGCTCCA
638965 TCCCGGCCAT
Statistics
Matches: 71, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 1 0.01
21 69 0.97
22 1 0.01
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.34
Consensus pattern (21 bp):
CCACTGCTCCAATTGACTCTT
Found at i:638897 original size:42 final size:42
Alignment explanation
Indices: 638851--638957 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
638841 TGATGCAACC
* *
638851 ACTGCTCCAATTGATTCTTCCACGGCTCCAATTGACTCTTCA
1 ACTGCTCTAATTGATCCTTCCACGGCTCCAATTGACTCTTCA
* * *
638893 ACTGCTCTAATTGGTCCTTCCACGGCTCCAGTTGTCTCTTCA
1 ACTGCTCTAATTGATCCTTCCACGGCTCCAATTGACTCTTCA
* *
638935 ATTGCTCTAATTGACCCTTCCAC
1 ACTGCTCTAATTGATCCTTCCAC
638958 TGTTCCATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.35
Consensus pattern (42 bp):
ACTGCTCTAATTGATCCTTCCACGGCTCCAATTGACTCTTCA
Found at i:640814 original size:2 final size:2
Alignment explanation
Indices: 640809--640859 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
640799 TGTATGTGTG
* *
640809 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
640851 TA TA TA TA T
1 TA TA TA TA T
640860 GGTATTTGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:663690 original size:24 final size:24
Alignment explanation
Indices: 663663--663711 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
663653 AGCAAAACCC
663663 AGATTGATAAACATGAAAAGTAGT
1 AGATTGATAAACATGAAAAGTAGT
* *
663687 AGATTGATAAACATGGAAATTAGT
1 AGATTGATAAACATGAAAAGTAGT
663711 A
1 A
663712 AAGTTGGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (24 bp):
AGATTGATAAACATGAAAAGTAGT
Found at i:682504 original size:18 final size:19
Alignment explanation
Indices: 682468--682509 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
682458 ATAAATTGAA
*
682468 TTATATATTTTTATTAATT
1 TTATATATTTTTATGAATT
682487 TTATATATTTTT-TGAATT
1 TTATATATTTTTATGAATT
682505 TTATA
1 TTATA
682510 AAATAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATATATTTTTATGAATT
Found at i:682570 original size:22 final size:23
Alignment explanation
Indices: 682528--682581 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
682518 ATAATTATTT
*
682528 TATATATAAA-TTTATTTAAAT-A
1 TATATA-AAATTTTATTAAAATAA
*
682550 TATTTAAAATTTTATTAAAATAA
1 TATATAAAATTTTATTAAAATAA
682573 TATATAAAA
1 TATATAAAA
682582 AATTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 15 0.56
23 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATATAAAATTTTATTAAAATAA
Found at i:683975 original size:3 final size:3
Alignment explanation
Indices: 683967--684004 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
683957 CAAAGGAAAC
683967 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
684005 TGATGATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:689811 original size:13 final size:13
Alignment explanation
Indices: 689793--689817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
689783 AATAATTTAA
689793 AATATGATATAAT
1 AATATGATATAAT
689806 AATATGATATAA
1 AATATGATATAA
689818 ATATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AATATGATATAAT
Found at i:689823 original size:6 final size:6
Alignment explanation
Indices: 689812--689840 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
689802 TAATAATATG
689812 ATATAA ATAT-A ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA
689841 TATGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:689843 original size:11 final size:11
Alignment explanation
Indices: 689792--689840 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
689782 TAATAATTTA
*
689792 AAATATGATAT
1 AAATATAATAT
*
689803 AATAATATGATAT
1 -A-AATATAATAT
689816 AAATATAATAT
1 AAATATAATAT
689827 AAATATAAATAT
1 AAATAT-AATAT
689839 AA
1 AA
689841 TATGTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
11 15 0.44
12 9 0.26
13 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
AAATATAATAT
Found at i:690467 original size:16 final size:16
Alignment explanation
Indices: 690446--690476 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
690436 GATAATTAAA
*
690446 TAATAAATATTTATTG
1 TAATAAATAATTATTG
690462 TAATAAATAATTATT
1 TAATAAATAATTATT
690477 TTTTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TAATAAATAATTATTG
Found at i:690492 original size:19 final size:21
Alignment explanation
Indices: 690444--690494 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
690434 GTGATAATTA
690444 AATAATA-AA-TATTTATTGT
1 AATAATATAATTATTTATTGT
690463 AATAA-ATAATTATTT-TT-T
1 AATAATATAATTATTTATTGT
690481 AATAATATAATTAT
1 AATAATATAATTAT
690495 ATGATATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 7 0.24
19 17 0.59
20 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATAATATAATTATTTATTGT
Found at i:691064 original size:13 final size:12
Alignment explanation
Indices: 691046--691083 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
691036 GATAATTTAA
691046 AATATAATATGAT
1 AATATAATAT-AT
691059 AATATAATATA-
1 AATATAATATAT
*
691070 AATATAAAATAT
1 AATATAATATAT
691082 AA
1 AA
691084 AAATAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 3 0.13
13 10 0.43
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AATATAATATAT
Found at i:691069 original size:18 final size:19
Alignment explanation
Indices: 691035--691095 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
691025 TTGATACATT
*
691035 TGATAATTTAAAATATAATA
1 TGATAATAT-AAATATAATA
691055 TGATAATAT-AATATAAATA
1 TGATAATATAAATAT-AATA
* *
691074 T-AAAATATAAAAATAATA
1 TGATAATATAAATATAATA
691092 TGAT
1 TGAT
691096 TTTATAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 16 0.47
19 10 0.29
20 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TGATAATATAAATATAATA
Found at i:691089 original size:24 final size:24
Alignment explanation
Indices: 691045--691092 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
691035 TGATAATTTA
* *
691045 AAATATAATATGATAATATAATAT
1 AAATATAAAATGATAAAATAATAT
691069 AAATATAAAAT-ATAAAAATAATAT
1 AAATATAAAATGAT-AAAATAATAT
691093 GATTTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATAAAATGATAAAATAATAT
Found at i:691212 original size:18 final size:18
Alignment explanation
Indices: 691165--691218 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
691155 TTTATATGTC
*
691165 AATATAAATTATAACATAT
1 AATATAAA-TATAAAATAT
* **
691184 AATTTTTATATAAAATAT
1 AATATAAATATAAAATAT
691202 AATATAAATATATAAAT
1 AATATAAATATA-AAAT
691219 TTTAATATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATAAATATAAAATAT
Found at i:691239 original size:37 final size:36
Alignment explanation
Indices: 691132--691245 Score: 94
Period size: 39 Copynumber: 3.1 Consensus size: 36
691122 AAATTTACTA
*
691132 AAATT-TAAAATAT-ATATTTTATATTTATATGTCAATAT
1 AAATTATAACATATAATATTTTATA-TTATA--T-AATAT
*
691170 AAATTATAACATATAAT-TTTTATATAAAATATAATAT
1 AAATTATAACATATAATATTTTATAT--TATATAATAT
*
691207 AAATATATAA-ATTTTAATATTTTATATTATATAA-AT
1 AAAT-TATAACA-TATAATATTTTATATTATATAATAT
691243 AAA
1 AAA
691246 CGTACCGTCA
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
36 5 0.08
37 16 0.25
38 17 0.26
39 22 0.34
40 5 0.08
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (36 bp):
AAATTATAACATATAATATTTTATATTATATAATAT
Found at i:691429 original size:17 final size:16
Alignment explanation
Indices: 691402--691454 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
691392 TATTTAATAA
691402 ATTAATAAATAAATTTT
1 ATTAAT-AATAAATTTT
*
691419 ATTATATAATAAA-TTA
1 ATTA-ATAATAAATTTT
691435 ATTAATAATTAAATTTT
1 ATTAATAA-TAAATTTT
691452 ATT
1 ATT
691455 TGAATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 4 0.13
16 10 0.32
17 15 0.48
18 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAATAATAAATTTT
Found at i:691582 original size:12 final size:13
Alignment explanation
Indices: 691567--691596 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
691557 GTAATTTTTA
691567 TTTTAATAA-TAT
1 TTTTAATAATTAT
691579 TTTTAATAATTAT
1 TTTTAATAATTAT
691592 TTTTA
1 TTTTA
691597 TTCTCATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTAATAATTAT
Found at i:692364 original size:17 final size:17
Alignment explanation
Indices: 692342--692379 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
692332 GATAAATTAA
692342 TTTTTAAAAATTAATTT
1 TTTTTAAAAATTAATTT
* *
692359 TTTTTAAAACTTTATTT
1 TTTTTAAAAATTAATTT
692376 TTTT
1 TTTT
692380 CTATTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAAAATTAATTT
Found at i:692624 original size:24 final size:26
Alignment explanation
Indices: 692597--692644 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
692587 TTTAAAAATA
692597 TAATA-TATTTATT-TG-ATAAATTAT
1 TAATAGTA-TTATTATGTATAAATTAT
692621 TAATAGTATTATTATGTATAAATT
1 TAATAGTATTATTATGTATAAATT
692645 CATGTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.48
25 4 0.19
26 7 0.33
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (26 bp):
TAATAGTATTATTATGTATAAATTAT
Found at i:694056 original size:31 final size:31
Alignment explanation
Indices: 694010--694068 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
694000 GAGGTGCACT
*
694010 TAATAACTTATATAAAATAACACTACTATTG
1 TAATAACTTACATAAAATAACACTACTATTG
* *
694041 TAATGACTTACATAAAATAATACTACTA
1 TAATAACTTACATAAAATAACACTACTA
694069 CTGTTCTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (31 bp):
TAATAACTTACATAAAATAACACTACTATTG
Found at i:700358 original size:12 final size:11
Alignment explanation
Indices: 700338--700372 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
700328 AAACGGAACC
700338 AAAGAAGAAGA
1 AAAGAAGAAGA
700349 AAACGAAGAAGGA
1 AAA-GAAGAA-GA
700362 AAAGAAGAAGA
1 AAAGAAGAAGA
700373 TTTGATCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.23
12 12 0.55
13 5 0.23
ACGTcount: A:0.69, C:0.03, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAGA
Found at i:703483 original size:49 final size:49
Alignment explanation
Indices: 703411--703508 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
703401 ATCTCCATCG
* *
703411 TTCATTCTAATTTTAAATACTATTAATTTCTAAAAAGTAATAAATAAAA
1 TTCATTCTAAGTTTAAATACTATTAATTTCTAAAAAGTAAAAAATAAAA
*
703460 TTCATTCTAAGTTTAAATACTATTAATTTGTAAAAAGTAAAAAATAAAA
1 TTCATTCTAAGTTTAAATACTATTAATTTCTAAAAAGTAAAAAATAAAA
703509 ATAAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (49 bp):
TTCATTCTAAGTTTAAATACTATTAATTTCTAAAAAGTAAAAAATAAAA
Found at i:703497 original size:26 final size:26
Alignment explanation
Indices: 703422--703497 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 26
703412 TCATTCTAAT
703422 TTTAAATACTATTAATTTCTAAAAAG
1 TTTAAATACTATTAATTTCTAAAAAG
* ** *
703448 TAATAAATAAAATTCA-TTCT---AAG
1 T-TTAAATACTATTAATTTCTAAAAAG
*
703471 TTTAAATACTATTAATTTGTAAAAAG
1 TTTAAATACTATTAATTTCTAAAAAG
703497 T
1 T
703498 AAAAAATAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
22 10 0.28
23 7 0.19
26 9 0.25
27 10 0.28
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (26 bp):
TTTAAATACTATTAATTTCTAAAAAG
Found at i:708609 original size:18 final size:18
Alignment explanation
Indices: 708588--708624 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
708578 TTTGAAAATT
708588 TTCCTCCTTTGGTATGGA
1 TTCCTCCTTTGGTATGGA
708606 TTCCTCCTTTGGTATGGA
1 TTCCTCCTTTGGTATGGA
708624 T
1 T
708625 AGCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (18 bp):
TTCCTCCTTTGGTATGGA
Found at i:710880 original size:29 final size:29
Alignment explanation
Indices: 710848--710934 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
710838 CCACGATTAG
710848 AGAGTTCAATATAACTTCATTATTTGATA
1 AGAGTTCAATATAACTTCATTATTTGATA
** * * *
710877 AGAGTT---T-TACAGAT-GTTA-TTCA-C
1 AGAGTTCAATATA-ACTTCATTATTTGATA
710900 AGAGTTCAATATAACTTCATTATTTGATA
1 AGAGTTCAATATAACTTCATTATTTGATA
710929 AGAGTT
1 AGAGTT
710935 TTACAGATGT
Statistics
Matches: 40, Mismatches: 10, Indels: 16
0.61 0.15 0.24
Matches are distributed among these distances:
23 6 0.15
24 3 0.08
25 5 0.12
26 6 0.15
27 5 0.12
28 3 0.08
29 12 0.30
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (29 bp):
AGAGTTCAATATAACTTCATTATTTGATA
Found at i:710926 original size:52 final size:52
Alignment explanation
Indices: 710848--710951 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
710838 CCACGATTAG
710848 AGAGTTCAATATAACTTCATTATTTGATAAGAGTTTTACAGATGTTATTCAC
1 AGAGTTCAATATAACTTCATTATTTGATAAGAGTTTTACAGATGTTATTCAC
710900 AGAGTTCAATATAACTTCATTATTTGATAAGAGTTTTACAGATGTTATTCAC
1 AGAGTTCAATATAACTTCATTATTTGATAAGAGTTTTACAGATGTTATTCAC
710952 CATAATCATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (52 bp):
AGAGTTCAATATAACTTCATTATTTGATAAGAGTTTTACAGATGTTATTCAC
Found at i:713887 original size:37 final size:39
Alignment explanation
Indices: 713846--713933 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
713836 ATTTTTATGT
*
713846 TAATATAAAT-TAT-GATATATAAT-TTTTATATAAAATA
1 TAATATAAATATATAAAT-TATAATATTTTATATAAAATA
* *
713883 TAATATAAATATATAAATTTTAATATTTTATATAATATA
1 TAATATAAATATATAAATTATAATATTTTATATAAAATA
*
713922 AATATATAAATA
1 TA-ATATAAATA
713934 ATTAAATCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
37 10 0.23
38 8 0.19
39 16 0.37
40 9 0.21
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (39 bp):
TAATATAAATATATAAATTATAATATTTTATATAAAATA
Found at i:713902 original size:32 final size:32
Alignment explanation
Indices: 713860--713966 Score: 103
Period size: 32 Copynumber: 3.4 Consensus size: 32
713850 ATAAATTATG
*
713860 ATATAT-AATTTTTATATAAAATATAATATAA
1 ATATATAAATTTTAATATAAAATATAATATAA
***
713891 ATATATAAATTTTAATATTTTATATAATATAA
1 ATATATAAATTTTAATATAAAATATAATATAA
* * * *
713923 ATATATAAATAATTAAATCTAAATTATAAAATAA
1 ATATATAAAT--TTTAATATAAAATATAATATAA
713957 AT-T-TAAATTT
1 ATATATAAATTT
713967 AATTATACTT
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
30 2 0.03
31 6 0.10
32 36 0.58
33 1 0.02
34 17 0.27
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (32 bp):
ATATATAAATTTTAATATAAAATATAATATAA
Found at i:713959 original size:23 final size:23
Alignment explanation
Indices: 713920--713973 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
713910 TTATATAATA
713920 TAAA-TATATAAATAA-TTAAAT
1 TAAATTATATAAATAATTTAAAT
713941 CTAAATTATA-AAATAAATTTAAAT
1 -TAAATTATATAAAT-AATTTAAAT
*
713965 TTAATTATA
1 TAAATTATA
713974 CTTTTGATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 8 0.29
23 14 0.50
24 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATTATATAAATAATTTAAAT
Found at i:716032 original size:59 final size:58
Alignment explanation
Indices: 715969--716491 Score: 525
Period size: 59 Copynumber: 9.0 Consensus size: 58
715959 TGTTCTTGTG
*
715969 TAGGAAAAATTGATACTTTCAAATTTTTCCCAAAAATATTTTTTTGAAATTTATTTTTT
1 TAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTA-TTTTT
*
716028 TAGG-AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGAAAATTTA-TTTT
1 TAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTG-AAATTTATTTTT
* *
716085 TAAGAAAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTTTTGAAACTTTGATTTTC
1 TAGGAAAAATTGATACTTTCAACTTTTTC-CCAAAAATA--TTTTTTTGAAA-TTT-ATTTTT
* * **
716147 AAGG-AAAATTGATACTTTCAAC-TCTTCCTC-AAAAT-TTTTTTTTTAATTTATTTTT
1 TAGGAAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAATTTATTTTT
* * *
716202 AAGG-AAAATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTCGAAAATTT-TGATTTT
1 TAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTG-AAATTTAT--TTTT
* ** * **
716260 CAAAAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAAAAATTTATTTTT
1 TAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTATTTTT
* *
716318 AAGG-AAAATTGATACTTTCAAC-TTTTCCTCAAAAATCCTTTTTTTTGAAAATTTA-TTTT
1 TAGGAAAAATTGATACTTTCAACTTTTTCC-CAAAAAT--ATTTTTTTG-AAATTTATTTTT
* * *** *
716377 TAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTCAAAAATTTTGATTTTC
1 TAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAA-TTT-ATTTTT
* * * **
716437 AAAG-AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGATTTTTATTT
1 TAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTATTT
716492 AAAGAAAATA
Statistics
Matches: 391, Mismatches: 46, Indels: 56
0.79 0.09 0.11
Matches are distributed among these distances:
55 27 0.07
56 24 0.06
57 58 0.15
58 86 0.22
59 101 0.26
60 60 0.15
61 30 0.08
62 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.47
Consensus pattern (58 bp):
TAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTATTTTT
Found at i:716121 original size:116 final size:115
Alignment explanation
Indices: 715972--716491 Score: 610
Period size: 116 Copynumber: 4.5 Consensus size: 115
715962 TCTTGTGTAG
* ** *
715972 GAAAAATTGATACTTTCAAATTTT-TCCCAAAAATATTTTTTTGAAATTTATTTTTTTAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCT-CCAAAAATATTTTTTTGAAATTTATTTTTCAAGAAAAA
*
716036 TTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGAAAATTTATTTTTAA
65 TTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTTAAAAATTTATTTTTAA
*
716088 GAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTTGAAACTTTGA-TTTTCAAGGA
1 GAAAAATTGATACTTTCAACTTTTCTCCAAAAATA--TTTTTTTGAAA-TTT-ATTTTTCAAGAA
* * ***
716152 AAATTGATACTTTCAAC-TCTTCCTCAAAAT-TTTTTTTTTAATTTATTTTTAA
62 AAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAAAAATTTATTTTTAA
* * *
716204 GGAAAATTGATACTTTCAACTTTT-TCCTAAAAATA-TTTTTCGAAAATTT-TGATTTTCAAAAA
1 GAAAAATTGATACTTTCAACTTTTCTCC-AAAAATATTTTTTTG-AAATTTAT--TTTTCAAGAA
* *
716266 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAAAAATTTATTTTTAA
62 AAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAAAAATTTATTTTTAA
* *
716320 GGAAAATTGATACTTTCAACTTTTC-CTCAAAAATCCTTTTTTTTGAAAATTTATTTTT-AAGAA
1 GAAAAATTGATACTTTCAACTTTTCTC-CAAAAAT--ATTTTTTTG-AAATTTATTTTTCAAGAA
* *
716383 AAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTCAAAAATTTTGATTTTCAA
62 AAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAAAAA-TTT-ATTTTTAA
* **
716439 -AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGATTTTTATTT
1 GA-AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAATTTATTT
716492 AAAGAAAATA
Statistics
Matches: 352, Mismatches: 30, Indels: 44
0.83 0.07 0.10
Matches are distributed among these distances:
113 9 0.03
114 28 0.08
115 12 0.03
116 139 0.39
117 54 0.15
118 29 0.08
119 78 0.22
120 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.47
Consensus pattern (115 bp):
GAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAATTTATTTTTCAAGAAAAAT
TGATACTTTCAACTTTTTCCTAAAAATATTTTTTAAAAATTTATTTTTAA
Found at i:716409 original size:176 final size:174
Alignment explanation
Indices: 715974--716479 Score: 754
Period size: 176 Copynumber: 2.9 Consensus size: 174
715964 TTGTGTAGGA
* * *
715974 AAAATTGATACTTTCAAATTTTTCC-CAAAAATATTTTTTTGAAATTTATTTTTTTAGGAAAATT
1 AAAATTGATACTTTC-AACTTTTCCTCAAAAATTTTTTTTTGAAATTTA-TTTTTAAGGAAAATT
* * *
716038 GATACTTTCAACTTTTTCCTAAAAATATTTTTTTGAAAA-TTT-ATTTTTAAGAAAAATTGATAC
64 GATACTTTCAACTTTTTCCTAAAAATA-TTTTTCGAAAATTTTGATTTTCAAAAAAAATTGATAC
* * *
716101 TTTCAACTTTTCTCCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAGG
128 TTTCAACTTTTCCCCAAAAATA---TTTTTTAAAAATTTGATTTTCAAGG
* *
716151 AAAATTGATACTTTCAACTCTTCCTC-AAAATTTTTTTTT-TAATTTATTTTTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAATTTATTTTTAAGGAAAATTGA
716214 TACTTTCAACTTTTTCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAAAAAAATTGATACTTT
66 TACTTTCAACTTTTTCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAAAAAAATTGATACTTT
*
716279 CAACTTTTCCCCAAAAATATTTTTTAAAAATTT-ATTTTTAAGG
131 CAACTTTTCCCCAAAAATATTTTTTAAAAATTTGATTTTCAAGG
*
716322 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTTGAAAATTTATTTTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT--TTTTTTTTG-AAATTTATTTTTAAGGAAAAT
* *
716387 TGATACTTTCAACTTTTTCCTAAAAATATTTTTCAAAAATTTTGATTTTCAAAGAAAATTGATAC
63 TGATACTTTCAACTTTTTCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAAAAAAATTGATAC
716452 TTTCAACTTTTCCCCAAAAATATTTTTT
128 TTTCAACTTTTCCCCAAAAATATTTTTT
716480 TGATTTTTAT
Statistics
Matches: 304, Mismatches: 17, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
171 34 0.11
172 17 0.06
173 10 0.03
174 52 0.17
175 46 0.15
176 129 0.42
177 16 0.05
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (174 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTTCCTAAAAATATTTTTCGAAAATTTTGATTTTCAAAAAAAATTGATACTTT
CAACTTTTCCCCAAAAATATTTTTTAAAAATTTGATTTTCAAGG
Found at i:716520 original size:22 final size:22
Alignment explanation
Indices: 716495--716536 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
716485 TTTATTTAAA
716495 GAAAATAGAACAAA-ATAAAAGT
1 GAAAATA-AACAAAGATAAAAGT
*
716517 GAAAATAAATAAAGATAAAA
1 GAAAATAAACAAAGATAAAA
716537 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAATAAACAAAGATAAAAGT
Found at i:716541 original size:40 final size:43
Alignment explanation
Indices: 716491--716587 Score: 101
Period size: 45 Copynumber: 2.2 Consensus size: 43
716481 GATTTTTATT
* * *
716491 TAAAGAAAATAG-AA-CAAAATAAAAGTGAAAATAA-ATAAAGA
1 TAAA-AAAATAGAAAGCAAAACAAAAATAAAAATAAGATAAAGA
*
716532 TAAAAAAATAAAGAAAAGTAAAACAAAAATAAAAATAAGATAAAGA
1 TAAAAAAAT--AG-AAAGCAAAACAAAAATAAAAATAAGATAAAGA
716578 TAAAAAAATA
1 TAAAAAAATA
716588 TTAAATAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
40 5 0.11
41 4 0.09
42 2 0.04
44 3 0.07
45 16 0.35
46 16 0.35
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.14
Consensus pattern (43 bp):
TAAAAAAATAGAAAGCAAAACAAAAATAAAAATAAGATAAAGA
Found at i:716547 original size:27 final size:25
Alignment explanation
Indices: 716491--716649 Score: 104
Period size: 27 Copynumber: 5.7 Consensus size: 25
716481 GATTTTTATT
716491 TAAAGAAAATAGAACAAAATAAAAGTGAAAA
1 TAAA-AAAATA-AA-AAAAT-AAA-T-AAAA
*
716522 TAAATAAAGATAAAAAAATAAAGAAAA
1 TAAA-AAA-ATAAAAAAATAAATAAAA
716549 GTAAAACAAA-AATAAAAATAAGATAAAGA
1 -TAAAA-AAATAA-AAAAATAA-ATAAA-A
* *
716578 TAAAAAAATATTAAATAAATTTAATATAA
1 TAAAAAAATA--AAA-AAA-TAAATAAAA
*
716607 TAAAAAATATAAATAAATAAATAAAA
1 TAAAAAA-ATAAAAAAATAAATAAAA
*
716633 TAAATAAATAAAAAAAT
1 TAAAAAAATAAAAAAAT
716650 TCCAAAAAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 30
0.73 0.07 0.21
Matches are distributed among these distances:
25 9 0.08
26 15 0.14
27 20 0.19
28 18 0.17
29 14 0.13
30 16 0.15
31 11 0.10
32 3 0.03
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAAAAAATAAAAAAATAAATAAAA
Found at i:716580 original size:17 final size:16
Alignment explanation
Indices: 716518--716583 Score: 59
Period size: 17 Copynumber: 4.2 Consensus size: 16
716508 AATAAAAGTG
716518 AAAATAAATAAAGAT-
1 AAAATAAATAAAGATA
716533 AAAA-AAATAAAG--A
1 AAAATAAATAAAGATA
* * *
716546 AAAGTAAAACAAAAATA
1 AAAAT-AAATAAAGATA
716563 AAAATAAGATAAAGATA
1 AAAATAA-ATAAAGATA
716580 AAAA
1 AAAA
716584 AATATTAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 3 0.08
14 8 0.21
15 10 0.26
16 2 0.05
17 16 0.41
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.14
Consensus pattern (16 bp):
AAAATAAATAAAGATA
Found at i:716582 original size:22 final size:21
Alignment explanation
Indices: 716496--716640 Score: 57
Period size: 22 Copynumber: 6.6 Consensus size: 21
716486 TTATTTAAAG
* *
716496 AAAATAGAACAAA-ATAAAAGTG
1 AAAATA-AATAAAGATAAAA-TA
*
716518 AAAATAAATAAAGATAAAAAA
1 AAAATAAATAAAGATAAAATA
* *
716539 ATAAAGAAAAGTAAA-ACAAAAATA
1 A-AAA-TAAA-TAAAGA-TAAAATA
716563 AAAATAAGATAAAGATAAAA-A
1 AAAATAA-ATAAAGATAAAATA
* ** *
716584 AATATTAAATAAATTTAATATA
1 AA-AATAAATAAAGATAAAATA
*
716606 ATAAA-AAATATAA-ATAAATAAA
1 A-AAATAAATA-AAGATAAA-ATA
716628 TAAAATAAATAAA
1 -AAAATAAATAAA
716641 TAAAAAAATT
Statistics
Matches: 93, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
21 26 0.28
22 41 0.44
23 16 0.17
24 10 0.11
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (21 bp):
AAAATAAATAAAGATAAAATA
Found at i:716614 original size:21 final size:22
Alignment explanation
Indices: 716589--716649 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
716579 AAAAAAATAT
*
716589 TAAATAAATTTAATATAATAAAA
1 TAAATAAATTAAATA-AATAAAA
716612 -AATATAAA-TAAATAAATAAAA
1 TAA-ATAAATTAAATAAATAAAA
*
716633 TAAATAAA-TAAAAAAAT
1 TAAATAAATTAAATAAAT
716650 TCCAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 20 0.59
22 9 0.26
23 5 0.15
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAATAAATTAAATAAATAAAA
Found at i:716624 original size:4 final size:4
Alignment explanation
Indices: 716589--716649 Score: 59
Period size: 4 Copynumber: 14.2 Consensus size: 4
716579 AAAAAAATAT
* *
716589 TAAA TAAA TTTAA TATAA TAAA AAATA TAAA TAAA TAAA TAAAA TAAA
1 TAAA TAAA -TAAA TA-AA TAAA TAA-A TAAA TAAA TAAA T-AAA TAAA
*
716637 TAAA TAAA AAAA T
1 TAAA TAAA TAAA T
716650 TCCAAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 33 0.70
5 14 0.30
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:716625 original size:17 final size:16
Alignment explanation
Indices: 716518--716649 Score: 77
Period size: 18 Copynumber: 7.3 Consensus size: 16
716508 AATAAAAGTG
716518 AAAATAAATAAAGATAAA
1 AAAATAAAT-AA-ATAAA
*
716536 AAAATAAAGAAAAGTAAA
1 AAAATAAA-TAAA-TAAA
*
716554 ACAAA-AATAAAAATAAGA
1 A-AAATAA-ATAAATAA-A
*
716572 TAAAGATAAAAAAATATTAA
1 -AAA-ATAAATAAATA--AA
*
716592 ATAAATTTAATATAATAAA
1 A-AAA-TAAATA-AATAAA
716611 AAATATAAATAAATAAA
1 AAA-ATAAATAAATAAA
716628 TAAAATAAATAAATAAA
1 -AAAATAAATAAATAAA
716645 AAAAT
1 AAAAT
716650 TCCAAAAAAA
Statistics
Matches: 95, Mismatches: 4, Indels: 32
0.73 0.03 0.24
Matches are distributed among these distances:
16 5 0.05
17 23 0.24
18 34 0.36
19 19 0.20
20 9 0.09
21 5 0.05
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (16 bp):
AAAATAAATAAATAAA
Found at i:717009 original size:20 final size:20
Alignment explanation
Indices: 716984--717032 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
716974 GATAAAATTT
*
716984 TCATCGAATTCTAGAAAATG
1 TCATCGAAATCTAGAAAATG
* *
717004 TCATCGAAATCTGGAAAATT
1 TCATCGAAATCTAGAAAATG
*
717024 TCACCGAAA
1 TCATCGAAA
717033 GTAGGTCGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (20 bp):
TCATCGAAATCTAGAAAATG
Found at i:717619 original size:11 final size:11
Alignment explanation
Indices: 717600--717732 Score: 64
Period size: 12 Copynumber: 11.9 Consensus size: 11
717590 CAAGAAAAAA
717600 AAATAATAAAT
1 AAATAATAAAT
*
717611 AAATTAT-AAT
1 AAATAATAAAT
717621 ATAATAATAAAT
1 A-AATAATAAAT
* *
717633 ATATAACTATAT
1 AAATAA-TAAAT
717645 AAATAAAATACATAT
1 AAAT--AATA-A-AT
* *
717660 AAAT-ATTAAC
1 AAATAATAAAT
717670 AAA-AATAAAT
1 AAATAATAAAT
717680 AAATAA-AGATAT
1 AAATAATA-A-AT
* *
717692 ACATATATTAAT
1 AAATA-ATAAAT
*
717704 ACATAAT-AAT
1 AAATAATAAAT
717714 -AATAAT-AAT
1 AAATAATAAAT
717723 AAATAATAAA
1 AAATAATAAA
717733 ATACATAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
9 8 0.09
10 25 0.27
11 23 0.24
12 26 0.28
13 4 0.04
14 2 0.02
15 6 0.06
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.31
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:717626 original size:19 final size:21
Alignment explanation
Indices: 717602--717651 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
717592 AGAAAAAAAA
717602 ATAATAAATAAAT-TATAA-T
1 ATAATAAATAAATATATAACT
717621 ATAAT-AATAAATATATAACT
1 ATAATAAATAAATATATAACT
717641 AT-ATAAATAAA
1 ATAATAAATAAA
717652 ATACATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.25
19 12 0.43
20 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATAAATAAATATATAACT
Found at i:717644 original size:22 final size:22
Alignment explanation
Indices: 717601--717735 Score: 84
Period size: 22 Copynumber: 6.0 Consensus size: 22
717591 AAGAAAAAAA
*
717601 AATAATAAATAAATTATAATAT
1 AATAATAAATAAATAATAATAT
*
717623 AATAATAAATATATAACT-ATAT
1 AATAATAAATAAATAA-TAATAT
* *
717645 AAATAAAATACATATAAATATTAACA-
1 -AAT--AATA-A-ATAAATAATAATAT
717671 AA-AATAAATAAATAA-AGATAT
1 AATAATAAATAAATAATA-ATAT
* *
717692 ACATATATTAATACATAATAATAAT
1 A-ATA-ATAAATAAATAATAAT-AT
717717 AATAATAAAT-AATAA-AATA
1 AATAATAAATAAATAATAATA
717736 CATAAAATAC
Statistics
Matches: 88, Mismatches: 11, Indels: 30
0.68 0.09 0.23
Matches are distributed among these distances:
19 1 0.01
20 10 0.11
21 5 0.06
22 27 0.31
23 10 0.11
24 15 0.17
25 10 0.11
26 2 0.02
27 8 0.09
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (22 bp):
AATAATAAATAAATAATAATAT
Found at i:717724 original size:47 final size:47
Alignment explanation
Indices: 717616--717732 Score: 114
Period size: 47 Copynumber: 2.5 Consensus size: 47
717606 TAAATAAATT
* ** *
717616 ATAAT-ATAATAATAAATATATAACTATATAAATAAAATACATATAA
1 ATAATAATAATAATAAATAAATAAAGATATAAATAAAATACATACAA
* * * * * *
717662 ATATTAACAAAAATAAATAAATAAAGATATACATATATTA-ATACATA
1 ATAATAATAATAATAAATAAATAAAGATATAAATAAAATACATACA-A
717709 ATAATAATAATAATAAAT-AATAAA
1 ATAATAATAATAATAAATAAATAAA
717733 ATACATAAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
46 14 0.25
47 42 0.75
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (47 bp):
ATAATAATAATAATAAATAAATAAAGATATAAATAAAATACATACAA
Found at i:717727 original size:16 final size:16
Alignment explanation
Indices: 717601--717741 Score: 75
Period size: 16 Copynumber: 8.8 Consensus size: 16
717591 AAGAAAAAAA
*
717601 AATAATAAATAAATTAT
1 AATAAT-AATAAATAAT
717618 AAT-ATAAT-AATAAAT
1 AATAATAATAAAT-AAT
717633 ATATAACTATATAAATAA-
1 A-ATAA-TA-ATAAATAAT
*
717651 AATACAT-ATAAATATT
1 AATA-ATAATAAATAAT
* *
717667 AACAAAAATAAATAAAT
1 AATAATAATAAAT-AAT
*
717684 AA-AGAT-ATACAT-AT
1 AATA-ATAATAAATAAT
*
717698 ATTAATACAT-AATAAT
1 AATAATA-ATAAATAAT
717714 AATAATAATAAATAAT
1 AATAATAATAAATAAT
717730 AA-AATACATAAA
1 AATAATA-ATAAA
717742 ATACAAAAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 35
0.68 0.07 0.25
Matches are distributed among these distances:
14 8 0.08
15 23 0.24
16 42 0.43
17 13 0.13
18 4 0.04
19 4 0.04
20 3 0.03
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:718069 original size:41 final size:41
Alignment explanation
Indices: 717975--718353 Score: 557
Period size: 41 Copynumber: 9.1 Consensus size: 41
717965 TTTTACTAAA
* * * * *
717975 GCTCCTCTAAACATATGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
718018 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
718059 GCTCATCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
718100 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* * *
718141 ACTCCTCTAAACAAAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
718182 ACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
718223 GCTCCTTTAAACAGAGGCACCACGACTTT-AGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
718264 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
718306 GCTCCTCTAAACAGAGGCACCACGACTTTTAGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-G-AAAAGTAAATT
718350 GCTC
1 GCTC
718354 TCTGATAATC
Statistics
Matches: 315, Mismatches: 14, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
40 6 0.02
41 217 0.69
42 44 0.14
43 31 0.10
44 17 0.05
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:719379 original size:10 final size:10
Alignment explanation
Indices: 719366--719404 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
719356 TTCTTTTTCA
719366 TTCATTTTTT
1 TTCATTTTTT
719376 TTCA--TTTT
1 TTCATTTTTT
719384 TTCATTTTTT
1 TTCATTTTTT
*
719394 TTAATTTTTT
1 TTCATTTTTT
719404 T
1 T
719405 CAAGCATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (10 bp):
TTCATTTTTT
Found at i:719389 original size:18 final size:18
Alignment explanation
Indices: 719366--719403 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
719356 TTCTTTTTCA
*
719366 TTCATTTTTTTTCATTTT
1 TTCATTTTTTTTAATTTT
719384 TTCATTTTTTTTAATTTT
1 TTCATTTTTTTTAATTTT
719402 TT
1 TT
719404 TCAAGCATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (18 bp):
TTCATTTTTTTTAATTTT
Found at i:724297 original size:14 final size:15
Alignment explanation
Indices: 724278--724307 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
724268 CATCTTTCTT
724278 TTTC-TTTAGCCTTC
1 TTTCTTTTAGCCTTC
724292 TTTCTTTTAGCCTTC
1 TTTCTTTTAGCCTTC
724307 T
1 T
724308 CTAGCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.60
Consensus pattern (15 bp):
TTTCTTTTAGCCTTC
Found at i:724920 original size:4 final size:4
Alignment explanation
Indices: 724911--725006 Score: 61
Period size: 4 Copynumber: 22.5 Consensus size: 4
724901 AAAAAAGAAT
* * *
724911 AATA AATA AATTA TAATA TAAT- AATA AATA TATA ACTA TATA AATAA
1 AATA AATA AA-TA -AATA -AATA AATA AATA AATA AATA AATA AAT-A
* *
724958 AATA CATATA AATA TTAACA AAAA AATA AA-A AATA AATA AATA AATA
1 AATA -A-ATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA
725005 AA
1 AA
725007 ATATACATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
3 6 0.08
4 46 0.62
5 14 0.19
6 8 0.11
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:724951 original size:22 final size:22
Alignment explanation
Indices: 724908--725033 Score: 72
Period size: 22 Copynumber: 6.0 Consensus size: 22
724898 AGAAAAAAAG
*
724908 AATAATAAATAAATTATAATAT
1 AATAATAAATAAATAATAATAT
*
724930 AATAATAAATATATAACT-ATAT
1 AATAATAAATAAATAA-TAATAT
*
724952 -A-AATAAAATACAT-ATAA-AT
1 AATAAT-AAATAAATAATAATAT
* * * *
724971 ATTAACAAAAAAATAA-AAAAT
1 AATAATAAATAAATAATAATAT
724992 -A-AATAAATAAATAA-AATAT
1 AATAATAAATAAATAATAATAT
* *
725011 ACATATATTAATACATAATAATA
1 A-ATA-ATAAATAAATAATAATA
725034 ATAAAAAATA
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
19 18 0.23
20 13 0.16
21 14 0.18
22 19 0.24
23 11 0.14
24 4 0.05
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAATAAATAAATAATAATAT
Found at i:724997 original size:29 final size:31
Alignment explanation
Indices: 724933--725005 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
724923 ATAATATAAT
* * *
724933 AATAAATATATAACTATATAAATAAAATACA
1 AATAAATATATAACTAAAAAAATAAAAAACA
* *
724964 TATAAATAT-TAAC-AAAAAAATAAAAAATA
1 AATAAATATATAACTAAAAAAATAAAAAACA
*
724993 AATAAATAAATAA
1 AATAAATATATAA
725006 AATATACATA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 19 0.56
30 7 0.21
31 8 0.24
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (31 bp):
AATAAATATATAACTAAAAAAATAAAAAACA
Found at i:725005 original size:19 final size:20
Alignment explanation
Indices: 724911--725057 Score: 76
Period size: 19 Copynumber: 7.5 Consensus size: 20
724901 AAAAAAGAAT
* *
724911 AATAAATAAAT-TATAATAT
1 AATAAATAAATAAATAATAA
*
724930 AAT-AATAAATATATAACT-A
1 AATAAATAAATAAATAA-TAA
* *
724949 TATAAATAAAATACAT-ATAA
1 AATAAAT-AAATAAATAATAA
* * *
724969 ATATTAACAAAAAAATAA-AA
1 A-ATAAATAAATAAATAATAA
724989 AATAAATAAATAAATAA-AA
1 AATAAATAAATAAATAATAA
* * * *
725008 TATACATATATTAATACATAA
1 AATAAATAAATAAATA-ATAA
725029 TAAT-AATAAA-AAATAATAA
1 -AATAAATAAATAAATAATAA
*
725048 AATACATAAA
1 AATAAATAAA
725058 ATACAAAAGA
Statistics
Matches: 97, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
18 10 0.10
19 47 0.48
20 20 0.21
21 18 0.19
22 2 0.02
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAATAAATAAATAATAA
Found at i:725079 original size:28 final size:29
Alignment explanation
Indices: 725019--725081 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
725009 ATACATATAT
*
725019 TAATACATAATAATAATAAAAAATAATAA
1 TAATACATAATAATAATAAAAAATAAAAA
725048 -AATACATAA-AATACA-AAAGAAA-AAAAA
1 TAATACATAATAATA-ATAAA-AAATAAAAA
725075 TAATACA
1 TAATACA
725082 AGATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (29 bp):
TAATACATAATAATAATAAAAAATAAAAA
Found at i:725188 original size:24 final size:25
Alignment explanation
Indices: 725155--725201 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
725145 AGAATAATTT
725155 AAATAAAATTTT-TTAAATTGATCG
1 AAATAAAATTTTATTAAATTGATCG
* *
725179 AAATAGAATTTTATTAATTTGAT
1 AAATAAAATTTTATTAAATTGAT
725202 TTATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (25 bp):
AAATAAAATTTTATTAAATTGATCG
Found at i:725279 original size:22 final size:23
Alignment explanation
Indices: 725225--725280 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
725215 AATTATTTTG
725225 TTTTATATAT-TATTTTAATAAAA
1 TTTTATATATATATTTTAAT-AAA
*
725248 ATTT-TA-ATATATTTTAAT-AA
1 TTTTATATATATATTTTAATAAA
725268 TTTTATATATATA
1 TTTTATATATATA
725281 ATAATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 5 0.18
21 4 0.14
22 16 0.57
23 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTATATATATATTTTAATAAA
Found at i:725285 original size:20 final size:19
Alignment explanation
Indices: 725240--725291 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
725230 TATATTATTT
*
725240 TAATAAAAATTTTAATATA
1 TAATAATAATTTTAATATA
**
725259 TTTTAATAATTTTATATATA
1 TAATAATAATTTTA-ATATA
725279 TAATAATTAATTT
1 TAATAA-TAATTT
725292 ATTTATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.42
20 9 0.35
21 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAATAATTTTAATATA
Found at i:727419 original size:13 final size:13
Alignment explanation
Indices: 727401--727431 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
727391 CAATTCAAAA
*
727401 TTAATATATAGAT
1 TTAATATATAAAT
727414 TTAATATATAAAT
1 TTAATATATAAAT
727427 TTAAT
1 TTAAT
727432 TCAATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (13 bp):
TTAATATATAAAT
Found at i:729844 original size:20 final size:21
Alignment explanation
Indices: 729811--729850 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
729801 GTTTTTCACT
*
729811 TTTCTTTGTTAATTCTTGCAA
1 TTTCTTTGTTAATTCCTGCAA
729832 TTTCTTT-TTAATTCCTGCA
1 TTTCTTTGTTAATTCCTGCA
729851 CTTTAATTCA
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:0.17, C:0.17, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTCTTTGTTAATTCCTGCAA
Found at i:730157 original size:60 final size:61
Alignment explanation
Indices: 730089--730219 Score: 246
Period size: 61 Copynumber: 2.2 Consensus size: 61
730079 CTGAAGGCTA
730089 ATTTAAATAA-TTTTTTTATCTTTTTATTGTATTCAAATAAATCTGTGTCTTTTCATTTGT
1 ATTTAAATAATTTTTTTTATCTTTTTATTGTATTCAAATAAATCTGTGTCTTTTCATTTGT
730149 ATTTAAATAATTTTTTTTATCTTTTTATTGTATTCAAATAAATCTGTGTCTTTTCATTTGT
1 ATTTAAATAATTTTTTTTATCTTTTTATTGTATTCAAATAAATCTGTGTCTTTTCATTTGT
*
730210 ATTTATATAA
1 ATTTAAATAA
730220 GATCTTACTT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
60 10 0.14
61 59 0.86
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (61 bp):
ATTTAAATAATTTTTTTTATCTTTTTATTGTATTCAAATAAATCTGTGTCTTTTCATTTGT
Found at i:730212 original size:30 final size:29
Alignment explanation
Indices: 730107--730212 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 29
730097 AATTTTTTTA
*
730107 TCTTTTTATTGTATTCAAATAAATCTGTG
1 TCTTTTCATTGTATTCAAATAAATCTGTG
* * * * *
730136 TCTTTTCATTTGTATTTAAATAATTTTTTTTA
1 TCTTTTCA-TTGTATTCAAATAA--ATCTGTG
*
730168 TCTTTTTATTGTATTCAAATAAATCTGTG
1 TCTTTTCATTGTATTCAAATAAATCTGTG
730197 TCTTTTCATTTGTATT
1 TCTTTTCA-TTGTATT
730213 TATATAAGAT
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
29 17 0.28
30 20 0.33
31 13 0.22
32 10 0.17
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.58
Consensus pattern (29 bp):
TCTTTTCATTGTATTCAAATAAATCTGTG
Found at i:730308 original size:34 final size:36
Alignment explanation
Indices: 730260--730329 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 36
730250 TAATTAAAGA
* *
730260 TTAAGGTTTATTTTG-TTATAAATTAAA-TTTTAGT
1 TTAAGATTTATTTTGAATATAAATTAAAGTTTTAGT
* *
730294 TTAAGATTTTTTTTGAATGTAAATTAAAGTTTTAGT
1 TTAAGATTTATTTTGAATATAAATTAAAGTTTTAGT
730330 GCTTATTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 13 0.43
35 10 0.33
36 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (36 bp):
TTAAGATTTATTTTGAATATAAATTAAAGTTTTAGT
Found at i:731018 original size:15 final size:15
Alignment explanation
Indices: 730998--731031 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
730988 GAAGGAGAAT
*
730998 ATGTGCAAGATGAAC
1 ATGTGCAACATGAAC
*
731013 ATGTGCAACATGAAT
1 ATGTGCAACATGAAC
731028 ATGT
1 ATGT
731032 ACAGGACCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (15 bp):
ATGTGCAACATGAAC
Found at i:736818 original size:2 final size:2
Alignment explanation
Indices: 736811--736865 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
736801 GCAGTACTAC
736811 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
736853 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
736866 CCCATGTACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:746759 original size:50 final size:50
Alignment explanation
Indices: 746688--746789 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
746678 GTCGATGTAG
* * * *
746688 GGTTCCTGACTCCACTTTAAGACTGTGACATCCTTTCCCACTCCAACGAT
1 GGTTCCCGACTCCACTCTAAGACCGTGACATCCTCTCCCACTCCAACGAT
* *
746738 GGTTCCCGACTCTACTCTAAGACCGTGACATTCTCTCCCACTCCAACGAT
1 GGTTCCCGACTCCACTCTAAGACCGTGACATCCTCTCCCACTCCAACGAT
746788 GG
1 GG
746790 CCCACCATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.27
Consensus pattern (50 bp):
GGTTCCCGACTCCACTCTAAGACCGTGACATCCTCTCCCACTCCAACGAT
Found at i:747161 original size:18 final size:19
Alignment explanation
Indices: 747119--747168 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
747109 TGATATTTTT
747119 AAATATTTATATTTAAAAA
1 AAATATTTATATTTAAAAA
747138 ATAATATTTATATTT-AAAA
1 A-AATATTTATATTTAAAAA
747157 AAATATTT-TATT
1 AAATATTTATATT
747169 AATTTCGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 6 0.20
20 13 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATATTTATATTTAAAAA
Found at i:747173 original size:21 final size:20
Alignment explanation
Indices: 747120--747158 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
747110 GATATTTTTA
747120 AATATTTATATTTAAAAAAT
1 AATATTTATATTTAAAAAAT
747140 AATATTTATATTTAAAAAA
1 AATATTTATATTTAAAAAA
747159 ATATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTTATATTTAAAAAAT
Found at i:751108 original size:17 final size:17
Alignment explanation
Indices: 751086--751134 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
751076 CTTTAGCTCT
751086 CTTTTTCTTTTCTTTTC
1 CTTTTTCTTTTCTTTTC
*
751103 CTTTTTTTTTTCTTTT-
1 CTTTTTCTTTTCTTTTC
*
751119 TTTTTTCTTTT-TTTTC
1 CTTTTTCTTTTCTTTTC
751135 TTCTGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.14
16 9 0.32
17 15 0.54
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
CTTTTTCTTTTCTTTTC
Found at i:751113 original size:12 final size:11
Alignment explanation
Indices: 751087--751138 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
751077 TTTAGCTCTC
*
751087 TTTTTCTTTTC
1 TTTTTCTTTTT
*
751098 TTTTCCTTTTT
1 TTTTTCTTTTT
751109 TTTTTCTTTTT
1 TTTTTCTTTTT
751120 TTTTTCTTTTT
1 TTTTTCTTTTT
751131 TTTCTTCT
1 TTT-TTCT
751139 GATTTTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
11 33 0.89
12 4 0.11
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:751144 original size:20 final size:20
Alignment explanation
Indices: 751106--751144 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
751096 TCTTTTCCTT
* **
751106 TTTTTTTTCTTTTTTTTTTC
1 TTTTTTTTCTTCTGATTTTC
751126 TTTTTTTTCTTCTGATTTT
1 TTTTTTTTCTTCTGATTTT
751145 TTCTGAGCGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTTTTTCTTCTGATTTTC
Found at i:751144 original size:23 final size:22
Alignment explanation
Indices: 751098--751147 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
751088 TTTTCTTTTC
**
751098 TTTTCCTTTTTTTTTTCTTTTT
1 TTTTCCTTTTTTTTTTCTGATT
*
751120 TTTTTCTTTTTTTTCTTCTGATT
1 TTTTCCTTTTTTTT-TTCTGATT
751143 TTTTC
1 TTTTC
751148 TGAGCGGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (22 bp):
TTTTCCTTTTTTTTTTCTGATT
Found at i:756049 original size:2 final size:2
Alignment explanation
Indices: 755996--756030 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
755986 ATTGAAGATT
*
755996 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
756031 GAAGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:757882 original size:23 final size:24
Alignment explanation
Indices: 757846--757898 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
757836 TGTTTATATG
*
757846 CAAATA-TAAATTTTCAAAATTAT
1 CAAATATTTAATTTTCAAAATTAT
*
757869 -AAATATTTAATTTTCAAAATTTT
1 CAAATATTTAATTTTCAAAATTAT
757892 CAAATAT
1 CAAATAT
757899 CAAATAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 15 0.58
24 6 0.23
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (24 bp):
CAAATATTTAATTTTCAAAATTAT
Found at i:765894 original size:12 final size:13
Alignment explanation
Indices: 765865--765893 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
765855 GCAACGAAAT
765865 AAAAA-TAAACAA
1 AAAAATTAAACAA
765877 AAAAATTAAACAA
1 AAAAATTAAACAA
765890 AAAA
1 AAAA
765894 TGGAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAATTAAACAA
Found at i:769747 original size:2 final size:2
Alignment explanation
Indices: 769740--769766 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
769730 GGAAAGTATT
769740 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 T
769767 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:769771 original size:2 final size:2
Alignment explanation
Indices: 769766--769795 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
769756 TCTCTCTCTC
769766 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
769796 AAACAAAGAT
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):
TA
Found at i:772351 original size:3 final size:3
Alignment explanation
Indices: 772343--772382 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
772333 AATATTGACA
772343 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
772383 TAACTGAGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:775364 original size:13 final size:14
Alignment explanation
Indices: 775338--775370 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
775328 AAAGATCATT
775338 AAAAATCAGAGTAA
1 AAAAATCAGAGTAA
775352 AAAAATCAG-GTAA
1 AAAAATCAGAGTAA
*
775365 GAAAAT
1 AAAAAT
775371 TAAGATGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.64, C:0.06, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAAATCAGAGTAA
Found at i:780448 original size:12 final size:13
Alignment explanation
Indices: 780431--780459 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
780421 ATTCCTTACC
780431 AAAAAAAAA-GAA
1 AAAAAAAAAGGAA
780443 AAAAAAAAAGGAA
1 AAAAAAAAAGGAA
780456 AAAA
1 AAAA
780460 CTTTGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGGAA
Found at i:781338 original size:23 final size:21
Alignment explanation
Indices: 781300--781341 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
781290 CAAAGTATTT
*
781300 TTTTAAAATAACATTTAATAA
1 TTTTAAAATAAAATTTAATAA
781321 TTTTAAAATTTAAAATTTAAT
1 TTTTAAAA--TAAAATTTAAT
781342 CAGTTGCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTAAAATAAAATTTAATAA
Found at i:791020 original size:2 final size:2
Alignment explanation
Indices: 791013--791039 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
791003 AGCAACCGTC
791013 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 T
791040 GTATGTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:791803 original size:17 final size:17
Alignment explanation
Indices: 791783--791825 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
791773 ATCATTTCTC
*
791783 TTTTTATTTTGTTCGAT
1 TTTTTATTTTCTTCGAT
* *
791800 TTTTTGTTTTCTTTGAT
1 TTTTTATTTTCTTCGAT
791817 TTTTTATTT
1 TTTTTATTT
791826 ACAATTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (17 bp):
TTTTTATTTTCTTCGAT
Found at i:794029 original size:2 final size:2
Alignment explanation
Indices: 794022--794049 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
794012 CTGTGAGCAA
794022 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
794050 TATTTGTTTT
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:794470 original size:20 final size:20
Alignment explanation
Indices: 794428--794471 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
794418 AAATAAAGTT
* *
794428 TATTTATTTTTTTTTGACGA
1 TATTAATTTTTTTTTGACAA
794448 TATTAATTTTTTATTTGA-AA
1 TATTAATTTTTT-TTTGACAA
794468 TATT
1 TATT
794472 GCTTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (20 bp):
TATTAATTTTTTTTTGACAA
Found at i:795302 original size:2 final size:2
Alignment explanation
Indices: 795295--795320 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
795285 TAGAATAACA
795295 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
795321 TCAATATAGT
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:798543 original size:9 final size:9
Alignment explanation
Indices: 798531--798570 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
798521 GCGGCGGAGA
798531 AGGAGAAGG
1 AGGAGAAGG
*
798540 AGGAGGAGG
1 AGGAGAAGG
*
798549 AGGAAAAGG
1 AGGAGAAGG
*
798558 AAGAGAAGG
1 AGGAGAAGG
798567 AGGA
1 AGGA
798571 TTTTGATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (9 bp):
AGGAGAAGG
Found at i:798552 original size:18 final size:18
Alignment explanation
Indices: 798526--798570 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
798516 CGGCAGCGGC
* * *
798526 GGAGAAGGAGAAGGAGGA
1 GGAGGAGGAAAAGGAAGA
798544 GGAGGAGGAAAAGGAAGA
1 GGAGGAGGAAAAGGAAGA
*
798562 GAAGGAGGA
1 GGAGGAGGA
798571 TTTTGATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (18 bp):
GGAGGAGGAAAAGGAAGA
Found at i:800066 original size:2 final size:2
Alignment explanation
Indices: 800059--800090 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
800049 TATGAAGATG
800059 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
800091 CAGGTGCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:800146 original size:36 final size:36
Alignment explanation
Indices: 800105--800173 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
800095 TGCCTTATGC
800105 ATATGGTATCTGTGAGAGGGATATATATATATATAT
1 ATATGGTATCTGTGAGAGGGATATATATATATATAT
800141 ATATGGTATCTGTGAGAGGGATATATATATATA
1 ATATGGTATCTGTGAGAGGGATATATATATATA
800174 CATTGTCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (36 bp):
ATATGGTATCTGTGAGAGGGATATATATATATATAT
Found at i:818802 original size:103 final size:103
Alignment explanation
Indices: 818623--818832 Score: 411
Period size: 103 Copynumber: 2.0 Consensus size: 103
818613 TTATGTTTAA
818623 GCATAAACCATTTATTTGGAGTTTATGAAACTACCAATTTATACAGCCAAAAGAAAACCTTGCGT
1 GCATAAACCATTTATTTGGAGTTTATGAAACTACCAATTTATACAGCCAAAAGAAAACCTTGCGT
818688 TTCTCTTATGCTTCTGTCATATTGATCTATAGCTATAG
66 TTCTCTTATGCTTCTGTCATATTGATCTATAGCTATAG
*
818726 GCATAAACCATTTATTTGGAGTTTATGAAACTACCAATTTATACAGCTAAAAGAAAACCTTGCGT
1 GCATAAACCATTTATTTGGAGTTTATGAAACTACCAATTTATACAGCCAAAAGAAAACCTTGCGT
818791 TTCTCTTATGCTTCTGTCATATTGATCTATAGCTATAG
66 TTCTCTTATGCTTCTGTCATATTGATCTATAGCTATAG
818829 GCAT
1 GCAT
818833 GCATTCCTAA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (103 bp):
GCATAAACCATTTATTTGGAGTTTATGAAACTACCAATTTATACAGCCAAAAGAAAACCTTGCGT
TTCTCTTATGCTTCTGTCATATTGATCTATAGCTATAG
Found at i:843310 original size:17 final size:19
Alignment explanation
Indices: 843281--843319 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
843271 AAAACACTTT
843281 AAATAACTTTTTTATA-AA
1 AAATAACTTTTTTATACAA
843299 AAATAA-TTTTTTATACAA
1 AAATAACTTTTTTATACAA
843317 AAA
1 AAA
843320 CTTATAACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATAACTTTTTTATACAA
Found at i:852661 original size:20 final size:21
Alignment explanation
Indices: 852627--852666 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
852617 TTTGACAGAA
* *
852627 AAAGTGGAAAGAAAATAAAAT
1 AAAGTGGAAAAAAAAGAAAAT
852648 AAAGT-GAAAAAAAAGAAAA
1 AAAGTGGAAAAAAAAGAAAA
852667 CAAATTGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (21 bp):
AAAGTGGAAAAAAAAGAAAAT
Found at i:872605 original size:54 final size:54
Alignment explanation
Indices: 872523--872626 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
872513 TTGCCATACT
872523 TGATATTCAACAACCACATTAATATACCGATAATCCACAAAACCTAAAAGTACC
1 TGATATTCAACAACCACATTAATATACCGATAATCCACAAAACCTAAAAGTACC
*
872577 TGATATTCAACAACCACGTTAATATACCGATAATCCACAAAACCTAAAAG
1 TGATATTCAACAACCACATTAATATACCGATAATCCACAAAACCTAAAAG
872627 AGAATATGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (54 bp):
TGATATTCAACAACCACATTAATATACCGATAATCCACAAAACCTAAAAGTACC
Found at i:872616 original size:27 final size:26
Alignment explanation
Indices: 872532--872616 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
872522 TTGATATTCA
872532 ACAACCACATTAATATACCGATAATCC
1 ACAACCAC-TTAATATACCGATAATCC
* * * * *
872559 ACAA-AACCTAAAAGTACCTGATATTCA
1 ACAACCACTTAATA-TACC-GATAATCC
872586 ACAACCACGTTAATATACCGATAATCC
1 ACAACCAC-TTAATATACCGATAATCC
872613 ACAA
1 ACAA
872617 AACCTAAAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
25 4 0.09
26 6 0.14
27 24 0.55
28 6 0.14
29 4 0.09
ACGTcount: A:0.46, C:0.27, G:0.06, T:0.21
Consensus pattern (26 bp):
ACAACCACTTAATATACCGATAATCC
Found at i:879751 original size:6 final size:6
Alignment explanation
Indices: 879740--879801 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
879730 GGATATAATA
* * * * *
879740 TTAAAT TTAAAT TTGATT TTAAAT TTATAT TAAAAT TTTAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
879787 TTAAAT TAAAAT TTA
1 TTAAAT TTAAAT TTA
879802 TTTTTTTAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
5 5 0.12
6 38 0.88
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:880049 original size:38 final size:36
Alignment explanation
Indices: 880005--880108 Score: 92
Period size: 38 Copynumber: 2.9 Consensus size: 36
879995 TTATAACTTA
* *
880005 AATCAAA-TATAAAATATTTAAATTTGATTTAATCAAT
1 AATCAAATTATAAAA-ATTTAAATTTAATTAAAT-AAT
**
880042 AACTCAAATTATTTAAATTTAAATTTAATTAAATAAT
1 AA-TCAAATTATAAAAATTTAAATTTAATTAAATAAT
*
880079 AATC-AATT-T--AAATTTAAATTTTATTTAAAT
1 AATCAAATTATAAAAATTTAAA-TTTAATTAAAT
880109 TAAATATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
32 9 0.15
33 10 0.17
34 1 0.02
35 4 0.07
36 2 0.03
37 7 0.12
38 21 0.36
39 5 0.08
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (36 bp):
AATCAAATTATAAAAATTTAAATTTAATTAAATAAT
Found at i:889367 original size:2 final size:2
Alignment explanation
Indices: 889360--889384 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
889350 ATGAATATGC
889360 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 T
889385 CACTTTAAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:907585 original size:24 final size:23
Alignment explanation
Indices: 907558--907606 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
907548 TAATAATTAT
907558 TATTATAA-TACTAATTGAAAAAAA
1 TATTATAATTA-TAATT-AAAAAAA
*
907582 TATTATAATTATAATTATAAAAA
1 TATTATAATTATAATTAAAAAAA
907605 TA
1 TA
907607 ATTTTTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 13 0.57
25 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
TATTATAATTATAATTAAAAAAA
Found at i:916250 original size:2 final size:2
Alignment explanation
Indices: 916245--916286 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
916235 CTCTTTAGCT
916245 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
916287 AAGATTTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:920020 original size:2 final size:2
Alignment explanation
Indices: 920013--920045 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
920003 GACAGCAATA
920013 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 A
920046 CATTCGCTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:923265 original size:23 final size:24
Alignment explanation
Indices: 923217--923266 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
923207 TTTTTCTTCT
*
923217 TTTTCTTTCCCTTCTTTTCCTTTC
1 TTTTCTTTCCCTTCTTTTCCTATC
*
923241 TTTT-TTTCTCTTCTTTTGCC-ATC
1 TTTTCTTTCCCTTCTTTT-CCTATC
923264 TTT
1 TTT
923267 ATGAATGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTCTTTCCCTTCTTTTCCTATC
Found at i:926230 original size:15 final size:16
Alignment explanation
Indices: 926210--926249 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
926200 ATCATACACA
926210 ATAATAATTCCCATC-
1 ATAATAATTCCCATCG
*
926225 ATAATAATTTCCATCG
1 ATAATAATTCCCATCG
*
926241 ATATTAATT
1 ATAATAATT
926250 GAATACAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (16 bp):
ATAATAATTCCCATCG
Done.