Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 72 of 84
Found at i:15531019 original size:22 final size:20
Alignment explanation
Indices: 15530989--15531031 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
15530979 TCAAATGAAT
*
15530989 AAATTAAATAATAAAAACAATA
1 AAATAAAATAA-AAAAA-AATA
15531011 AAATAAAATAAAAAAAAATA
1 AAATAAAATAAAAAAAAATA
15531031 A
1 A
15531032 GAGTACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 10 0.50
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (20 bp):
AAATAAAATAAAAAAAAATA
Found at i:15531305 original size:19 final size:19
Alignment explanation
Indices: 15531282--15531332 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
15531272 TTAAAATGAC
15531282 AGGAAAATTCAAACTTCAAT
1 AGGAAAATTCAAACTT-AAT
*
15531302 -GGAAAACTT-AAACTTGAT
1 AGGAAAA-TTCAAACTTAAT
15531320 AGGAAAATTCAAA
1 AGGAAAATTCAAA
15531333 AATTTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.15
19 21 0.78
20 2 0.07
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.24
Consensus pattern (19 bp):
AGGAAAATTCAAACTTAAT
Found at i:15533661 original size:19 final size:19
Alignment explanation
Indices: 15533637--15533675 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15533627 TTTCATTCCC
15533637 TTTTTC-AATTCATCTTTTT
1 TTTTTCTAATT-ATCTTTTT
*
15533656 TTTTTCTAATTTTCTTTTT
1 TTTTTCTAATTATCTTTTT
15533675 T
1 T
15533676 ATCTCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCTAATTATCTTTTT
Found at i:15536645 original size:45 final size:45
Alignment explanation
Indices: 15536589--15536757 Score: 178
Period size: 45 Copynumber: 3.7 Consensus size: 45
15536579 GATGCAATAC
* *
15536589 TGTTTGACACATAACAATCTAATGATGCATGAATGCATGTATTAA
1 TGTTTGCCACATAACAATTTAATGATGCATGAATGCATGTATTAA
* * * * *
15536634 TGTTTGCCACATAATAA-TGAAAGATTGAATGAATGCATGCATTAA
1 TGTTTGCCACATAACAATTTAATGA-TGCATGAATGCATGTATTAA
* * ** * *
15536679 TGTTTACTACATAATGATTTAATGATGCATGGATGCATGTGTTAA
1 TGTTTGCCACATAACAATTTAATGATGCATGAATGCATGTATTAA
* *
15536724 TGTTTTGCCACATAGCAATTTAATGATCCATGAA
1 TG-TTTGCCACATAACAATTTAATGATGCATGAA
15536758 ACTAAATAAA
Statistics
Matches: 98, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
44 4 0.04
45 65 0.66
46 29 0.30
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (45 bp):
TGTTTGCCACATAACAATTTAATGATGCATGAATGCATGTATTAA
Found at i:15536691 original size:90 final size:90
Alignment explanation
Indices: 15536569--15536737 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 90
15536559 CATGAGAGCT
*
15536569 TTGAATGAATGATGCAATACTGTTTGACACATAACAATCTAATGATGCATGAATGCATGTATTAA
1 TTGAATGAATGATGCAATAATGTTTGACACATAACAATCTAATGATGCATGAATGCATGTATTAA
15536634 TG-TTTGCCACATAATAATGAAAGA
66 TGTTTTGCCACATAATAATGAAAGA
* ** * * *
15536658 TTGAATGAATGCATGCATTAATGTTT-ACTACATAATGATTTAATGATGCATGGATGCATGTGTT
1 TTGAATGAATG-ATGCAATAATGTTTGAC-ACATAACAATCTAATGATGCATGAATGCATGTATT
15536722 AATGTTTTGCCACATA
64 AATGTTTTGCCACATA
15536738 GCAATTTAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 13 0.19
90 46 0.66
91 11 0.16
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (90 bp):
TTGAATGAATGATGCAATAATGTTTGACACATAACAATCTAATGATGCATGAATGCATGTATTAA
TGTTTTGCCACATAATAATGAAAGA
Found at i:15538115 original size:22 final size:22
Alignment explanation
Indices: 15538053--15538119 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
15538043 TTAAACTAAT
*
15538053 ATAATTTTAAGAAAGAGAAAAA
1 ATAATTTTAAGAAAGATAAAAA
* * *
15538075 A-AA-GTTAGACAAATAATAAAAA
1 ATAATTTTA-AGAAA-GATAAAAA
15538097 ATAATTTTAAGAAAGATAAAAA
1 ATAATTTTAAGAAAGATAAAAA
15538119 A
1 A
15538120 AGAAAAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
20 3 0.09
21 6 0.18
22 16 0.47
23 6 0.18
24 3 0.09
ACGTcount: A:0.66, C:0.01, G:0.10, T:0.22
Consensus pattern (22 bp):
ATAATTTTAAGAAAGATAAAAA
Found at i:15538167 original size:22 final size:21
Alignment explanation
Indices: 15538133--15538174 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
15538123 AAAAAATTAG
15538133 TCAAATAATAAATTAAATAAA
1 TCAAATAATAAATTAAATAAA
15538154 TCAAATGAATAAATTAAATAA
1 TCAAAT-AATAAATTAAATAA
15538175 TAAAAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
TCAAATAATAAATTAAATAAA
Found at i:15538181 original size:22 final size:21
Alignment explanation
Indices: 15538135--15538179 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
15538125 AAAATTAGTC
*
15538135 AAATAATAAATTAAATAAATC
1 AAATAATAAATTAAATAAATA
15538156 AAATGAATAAATTAAAT-AATA
1 AAAT-AATAAATTAAATAAATA
15538177 AAA
1 AAA
15538180 ATCATAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAATAAATTAAATAAATA
Found at i:15538187 original size:34 final size:31
Alignment explanation
Indices: 15538149--15538211 Score: 72
Period size: 34 Copynumber: 1.9 Consensus size: 31
15538139 AATAAATTAA
*
15538149 ATAAATCAAATGAATAAATTAAATAATAAAAATC
1 ATAAAACAAATG-A-AAATTAAA-AATAAAAATC
* *
15538183 ATAAAAGAAATGAAAATTAAAAATGAAAA
1 ATAAAACAAATGAAAATTAAAAATAAAAA
15538212 CTGGTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
31 7 0.27
32 8 0.31
33 1 0.04
34 10 0.38
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.22
Consensus pattern (31 bp):
ATAAAACAAATGAAAATTAAAAATAAAAATC
Found at i:15550332 original size:18 final size:18
Alignment explanation
Indices: 15550309--15550348 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15550299 AAATATAAAA
15550309 TTTATTATTATATTATAT
1 TTTATTATTATATTATAT
* *
15550327 TTTATTATTTTATTTTAT
1 TTTATTATTATATTATAT
15550345 TTTA
1 TTTA
15550349 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTATTATATTATAT
Found at i:15555019 original size:18 final size:19
Alignment explanation
Indices: 15554984--15555019 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15554974 TTTGAGTAAT
*
15554984 TAATCATGTTATTCGTATA
1 TAATCATGTTAATCGTATA
15555003 TAATCAT-TTAATCGTAT
1 TAATCATGTTAATCGTAT
15555020 CGTGTCGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
TAATCATGTTAATCGTATA
Found at i:15555573 original size:3 final size:3
Alignment explanation
Indices: 15555567--15555599 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15555557 AACTTTTTTT
15555567 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15555600 AATCAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15556080 original size:15 final size:16
Alignment explanation
Indices: 15556055--15556096 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
15556045 TAAAATTTTG
15556055 AATATTTAAAAATATT
1 AATATTTAAAAATATT
*
15556071 AATA-TTAAAAGTATTCT
1 AATATTTAAAAATA-T-T
15556088 AATATTTAA
1 AATATTTAA
15556097 TATTTTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 5 0.23
18 4 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
AATATTTAAAAATATT
Found at i:15575345 original size:14 final size:14
Alignment explanation
Indices: 15575322--15575352 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15575312 AACACTTAAA
15575322 TTTCTAACCACACT
1 TTTCTAACCACACT
*
15575336 TTTCTCACCACACT
1 TTTCTAACCACACT
15575350 TTT
1 TTT
15575353 TAAAAGCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTCTAACCACACT
Found at i:15584499 original size:27 final size:27
Alignment explanation
Indices: 15584426--15584503 Score: 113
Period size: 26 Copynumber: 2.9 Consensus size: 27
15584416 CCCAACCAAC
*
15584426 CCCCTTCAAAACCAGATTCCCAACCAG
1 CCCCTTCAAAACCAGATTCTCAACCAG
* * *
15584453 -CCCTTCACAACTAGAATCTCAACCAG
1 CCCCTTCAAAACCAGATTCTCAACCAG
15584479 CCCCTTCAAAACCAGATTCTCAACC
1 CCCCTTCAAAACCAGATTCTCAACC
15584504 TACCCAACCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 22 0.51
27 21 0.49
ACGTcount: A:0.33, C:0.42, G:0.06, T:0.18
Consensus pattern (27 bp):
CCCCTTCAAAACCAGATTCTCAACCAG
Found at i:15584847 original size:8 final size:8
Alignment explanation
Indices: 15584834--15584859 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15584824 CCTATGGCAT
15584834 AGACTATG
1 AGACTATG
15584842 AGACTATG
1 AGACTATG
15584850 AGACTATG
1 AGACTATG
15584858 AG
1 AG
15584860 GAGACATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (8 bp):
AGACTATG
Found at i:15587706 original size:29 final size:29
Alignment explanation
Indices: 15587669--15587728 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
15587659 AAATAAAAAA
*
15587669 ATGCCCATAAGCTCCATCTGAATGAAATC
1 ATGCCCATAAACTCCATCTGAATGAAATC
15587698 ATGCCCATAAACTCCATCTGAATGAAATC
1 ATGCCCATAAACTCCATCTGAATGAAATC
15587727 AT
1 AT
15587729 TATTAGAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.25
Consensus pattern (29 bp):
ATGCCCATAAACTCCATCTGAATGAAATC
Found at i:15589438 original size:29 final size:29
Alignment explanation
Indices: 15589405--15589464 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
15589395 TGTACTTCAA
15589405 AACAATCTAACATAAATTTACAACCTCAT
1 AACAATCTAACATAAATTTACAACCTCAT
15589434 AACAATCTAACATAAATTTACAACCTCAT
1 AACAATCTAACATAAATTTACAACCTCAT
15589463 AA
1 AA
15589465 TTGCAAACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (29 bp):
AACAATCTAACATAAATTTACAACCTCAT
Found at i:15601228 original size:27 final size:26
Alignment explanation
Indices: 15601184--15601238 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
15601174 GGTACACAAG
*
15601184 ATTATTATAGGATAAGA-TAAGATAAT
1 ATTATTATAGAATAAGATTAA-ATAAT
*
15601210 ATTATTAATAGAATTAGATTAAATAAT
1 ATTATT-ATAGAATAAGATTAAATAAT
15601237 AT
1 AT
15601239 CTCCTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 16 0.64
28 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (26 bp):
ATTATTATAGAATAAGATTAAATAAT
Found at i:15602157 original size:67 final size:66
Alignment explanation
Indices: 15602030--15602157 Score: 152
Period size: 67 Copynumber: 1.9 Consensus size: 66
15602020 GAGATGCCAC
* **
15602030 TAATTTAGTGATATTTTTATGAGAAAAACACTGTTGCTTTAGTGTCGTTTGTATCTAAAAACACC
1 TAATTTAGTGACATTTTTATGAGAAAAACACTGTT-CTTTAGTGTCGTTTGTATAAAAAAACACC
15602095 GT
65 GT
* * *
15602097 TAATTTAGTGGCATTTTTATGAGAAAAAGCTATTGTT-TTTGGTGGT-GTTTGTATAAAAAAA
1 TAATTTAGTGACATTTTTATGAGAAAAA-C-ACTGTTCTTTAGT-GTCGTTTGTATAAAAAAA
15602158 TGTTGCTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
67 44 0.85
68 3 0.06
69 5 0.10
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (66 bp):
TAATTTAGTGACATTTTTATGAGAAAAACACTGTTCTTTAGTGTCGTTTGTATAAAAAAACACCG
T
Found at i:15603756 original size:140 final size:139
Alignment explanation
Indices: 15603583--15603841 Score: 317
Period size: 140 Copynumber: 1.8 Consensus size: 139
15603573 AAATAGTCCC
*
15603583 AAATAAACATAAACAATAACTTTTTCACCCATATCAAT-CGTAG-AAACCAAGTTCAATCAA-TC
1 AAATAAACATAAACAATAACTTTTTCACACATATC-ATCCGT-GTAAACCAAGTTCAA--AACTC
* * *
15603645 GGACAAGTTTAATATCAAGTATTGAAGCTATCCAAACTATTAAAAGATAACAATAACAACAAATT
62 GGACAAGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAACATAACAATAACAACAAATT
15603710 TGTATTTTTACCT
127 TGTATTTTTACCT
* * * * * * **
15603723 AAATAGACGTAAACAATAATTTTTTCATACATATCATCCGTGTCAACTAAGTTCAAAACTTTTGA
1 AAATAAACATAAACAATAACTTTTTCACACATATCATCCGTGTAAACCAAGTTCAAAAC-TCGGA
* * *
15603788 TAAGTTTAATATCATGTATTGAAACTATCAAAACTATTAAAACATAATAATAAC
65 CAAGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAACATAACAATAAC
15603842 TGCTAATTTG
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
138 2 0.02
139 3 0.03
140 95 0.95
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (139 bp):
AAATAAACATAAACAATAACTTTTTCACACATATCATCCGTGTAAACCAAGTTCAAAACTCGGAC
AAGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAACATAACAATAACAACAAATTTGTA
TTTTTACCT
Found at i:15610296 original size:162 final size:162
Alignment explanation
Indices: 15609973--15610298 Score: 393
Period size: 162 Copynumber: 2.0 Consensus size: 162
15609963 AATTTCTTTT
* * * ** *
15609973 AATTTATGTATATAATTATTGTAGGTATTTTTTGATAACAAACGCATTTAATAATTTTTTTATAA
1 AATTTATGTACATAATTATTGAAGGTATTTTTTGATAACAAACGCATTCAATAATTTCCTCATAA
* * ** * * *
15610038 AATTTTTGGTATCATTAAAGGTGTCTTCCAGTGAAAAACGTCTTCAATATTTCACTACTGAGATT
66 AATTTTTGGGATCATTAAAGGCGTCTTCCAGTGAAAAACGTCTTCAATATACCACTACTCAAAAT
* *
15610103 TTAAGATAGTTAGTGAAGGTATTTATTCCAAA
131 TTAAGATAGTCAGTGAAGGCATTTATTCCAAA
* * *
15610135 AATTT-TGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTCAATAATTTCCTCCTAA
1 AATTTATGTACATAATTATTGAAGGTATTTTTTGATAACAAACGCATTCAATAATTTCCTCATAA
* * * * * *
15610199 AACTTTTTGGGATTATTAAATGCGTTTTCTAGTGAAAAACGTCTTCAATATACCAGTATTCAAAA
66 AA-TTTTTGGGATCATTAAAGGCGTCTTCCAGTGAAAAACGTCTTCAATATACCACTACTCAAAA
* * *
15610264 TTTAAGGTGGTCAGTGAAGGCATTTTTTCCAAA
130 TTTAAGATAGTCAGTGAAGGCATTTATTCCAAA
15610297 AA
1 AA
15610299 AATACCTTTG
Statistics
Matches: 136, Mismatches: 27, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
161 52 0.38
162 84 0.62
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (162 bp):
AATTTATGTACATAATTATTGAAGGTATTTTTTGATAACAAACGCATTCAATAATTTCCTCATAA
AATTTTTGGGATCATTAAAGGCGTCTTCCAGTGAAAAACGTCTTCAATATACCACTACTCAAAAT
TTAAGATAGTCAGTGAAGGCATTTATTCCAAA
Found at i:15610871 original size:187 final size:185
Alignment explanation
Indices: 15610137--15611184 Score: 1033
Period size: 186 Copynumber: 5.6 Consensus size: 185
15610127 ATTCCAAAAA
* * ** *
15610137 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTCAATAATTTCCTCCTAAAAC
1 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTAAATAATTT-TTTTTAAAAA
* * * * * * * *
15610202 TTTTTGGGATTATTAAATGCGTTTTCTAGTGAAAAACGTCTTCAATATACCAGTATTCAAAATTT
65 TTTTTGGGATTATTAAAGGCGTCTTCTACTGAAAAAAGCCTTCAATATATCAGTACTCAAATTTT
* * * * * * *
15610267 AAGGTGGTCAGTGAAG-GCATTT-TTTCCAAAAAAATACCTTTGA-TAATTCTTTTTAAA
130 AAGATGGTTAGTGAAGTG--TTTATTT-TAGAAAAATACC-TTCACTAATTCGTTTTAAT
** * ** *
15610324 TTTTGTACATAATTATTGAAGGCGTTTTTTGATAAAAAAACACCTTCAATAAATTTTTTTTAAAA
1 TTTTGTACATAATTATTGAAGGTATTTTTTGAT-AACAAATGCCTTAAAT-AATTTTTTTT-AAA
* * *
15610389 AAATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATA-CCTTTAATATA-CTAGTACTCAAA
63 AATTTTTGGGATTATTAAAGGCGTCTTCTACTGAAAAA-AGCCTTCAATATATC-AGTACTCAAA
* *
15610452 TTTTAAGATGGTTAGTGAATGTGTTTATTATA-AGAAAATACCTTCACTAATTCATTTTAAT
126 TTTTAAGATGGTTAGTGAA-GTGTTTATTTTAGA-AAAATACCTTCACTAATTCGTTTTAAT
* * *
15610513 TTTTGTACATAATTATTGAAGGCATTTTTTGATAACAAATGCCTTATATAA-TTTTTTTACAAAC
1 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTAAATAATTTTTTTTA-AAAA
* * * * * *
15610577 CTTTTGAGATTATTAAAGGCATTTTCTACTGAAAAATA-CTTTTAATATATCAGTACTCAAATTT
65 TTTTTGGGATTATTAAAGGCGTCTTCTACTGAAAAA-AGCCTTCAATATATCAGTACTCAAATTT
15610641 TAAGATGGTTAGTGAAGTCGTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAAT
129 TAAGATGGTTAGTGAAGT-GTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAAT
* *
15610699 TTTTATACATAATTATTGAAGGTATTTTTTGATAACAAACGCCTTAAATAATTTCTTTTTAAAAA
1 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTAAATAATTT-TTTTTAAAAA
* * *
15610764 TTTTTGGGATTATTAAAGGCGTCTTCTATTGAAAAAAGCCTTTAATATATTAGTA-TCCAAATTT
65 TTTTTGGGATTATTAAAGGCGTCTTCTACTGAAAAAAGCCTTCAATATATCAGTACT-CAAATTT
* * * * *
15610828 TGAGATGGTTAGTGAAGATATTTATTTTAGGAAAATGCCTTCACTAATTCTTTTTAAT
129 TAAGATGGTTAGTGAAG-TGTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAAT
** * ****
15610886 TTTTGTACATAATTATTGAAGACGT-TTTTTT-ATAACAAAAACCTTATATAA-TTTAAAAAAAA
1 TTTTGTACATAATTATTGAAG--GTATTTTTTGATAACAAATGCCTTAAATAATTTTTTTTAAAA
** *** * * *
15610948 AAATTTGGGATTATTAAAAATGTCTTCTATTGAAAAACGCCTTCAATATATCAATACTCAAATTT
64 ATTTTTGGGATTATTAAAGGCGTCTTCTACTGAAAAAAGCCTTCAATATATCAGTACTCAAATTT
* * * * * * *
15611013 GAAGACGGTTAGTAAAGACGTTTATTCTAGAAAAATATCTTCACTAATTTGTTTTAAT
129 TAAGATGGTTAGTGAAG-TGTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAAT
* * * * * *
15611071 TTTTGTATATAATTAATAAAGGTATTTTTTTTATAATAAATGCCTT-TATAATTTTCTTTTAAAA
1 TTTTGTACATAATTATTGAAGGTA-TTTTTTGATAACAAATGCCTTAAATAATTTT-TTTT--AA
* * * * *
15611135 AAATTTTTGGGACTATTAAAGGCATATTCTACCGAAAAACGCCTTCAATA
62 AAATTTTTGGGATTATTAAAGGCGTCTTCTACTGAAAAAAGCCTTCAATA
15611185 ATTTGTTATA
Statistics
Matches: 727, Mismatches: 105, Indels: 56
0.82 0.12 0.06
Matches are distributed among these distances:
183 2 0.00
185 137 0.19
186 185 0.25
187 181 0.25
188 44 0.06
189 174 0.24
190 3 0.00
191 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (185 bp):
TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTAAATAATTTTTTTTAAAAAT
TTTTGGGATTATTAAAGGCGTCTTCTACTGAAAAAAGCCTTCAATATATCAGTACTCAAATTTTA
AGATGGTTAGTGAAGTGTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAAT
Found at i:15610873 original size:373 final size:369
Alignment explanation
Indices: 15610137--15611184 Score: 1151
Period size: 373 Copynumber: 2.8 Consensus size: 369
15610127 ATTCCAAAAA
* **
15610137 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTCA-ATAATTTCCTCCTAAAA
1 TTTTGTACATAATTATTGAAGGCATTTTTTGATAACAAATGCCTT-ATATAATTT--TAATAAAA
* * * * * *
15610201 CTTTTTGGGATTATTAAATGCGTTTTCTAGTG-AAAAACGTCTTCAATATACCAGTATTCAAAAT
63 CATTTTGGGATTATTAAA-GCATTTTCTACTGAAAAAAC-T-TTCAATATATCAGTACTCAAATT
* * * * * * * * *
15610265 TTAAGGTGGTCAGTGAAGGCATTT-TTTCCAAAAAAATACCTTTGA-TAATTCTTTTTAAATTTT
125 TTAAGATGGTTAGTGAAGACGTTTATTT-TAGAAAAATACC-TTCACTAATTCGTTTTAATTTTT
** * *
15610328 GTACATAATTATTGAAGGCGTTTTTTGATAAAAAAACACCTTCAATAAATTT-TTTTTAAAAAAA
188 GTACATAATTATTGAAGGTATTTTTTGAT-AAAAAACGCCTT-AAT-AATTTCTTTTT-AAAAAT
*
15610392 TTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATA-CCTTTAATATACTAGTACTCAAATTTT
249 TTTTGGGATTATTAAAGGCGTCTTCTACTGAAAAA-AGCCTTTAATATACTAGTACTCAAATTTT
*
15610456 AAGATGGTTAGTGAATGTGTTTATTATAAGAAAATACCTTCACTAATTCATTTTAAT
313 AAGATGGTTAGTGAATGTATTTATTATAAGAAAATACCTTCACTAATTCATTTTAAT
** *
15610513 TTTTGTACATAATTATTGAAGGCATTTTTTGATAACAAATGCCTTATATAATTTTTTTACAAACC
1 TTTTGTACATAATTATTGAAGGCATTTTTTGATAACAAATGCCTTATATAATTTTAATA-AAACA
* *
15610578 TTTTGAGATTATTAAAGGCATTTTCTACTGAAAAATACTTTTAATATATCAGTACTCAAATTTTA
65 TTTTGGGATTATTAAA-GCATTTTCTACTGAAAAA-ACTTTCAATATATCAGTACTCAAATTTTA
* *
15610643 AGATGGTTAGTGAAGTCGTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAATTTTTATACA
128 AGATGGTTAGTGAAGACGTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAATTTTTGTACA
*
15610708 TAATTATTGAAGGTATTTTTTGATAACAAACGCCTTAAATAATTTCTTTTTAAAAATTTTTGGGA
193 TAATTATTGAAGGTATTTTTTGATAAAAAACGCCTT-AATAATTTCTTTTTAAAAATTTTTGGGA
* * *
15610773 TTATTAAAGGCGTCTTCTATTGAAAAAAGCCTTTAATATATTAGTA-TCCAAATTTTGAGATGGT
257 TTATTAAAGGCGTCTTCTACTGAAAAAAGCCTTTAATATACTAGTACT-CAAATTTTAAGATGGT
* * * *
15610837 TAGTGAA-GATATTTATTTTAGGAAAATGCCTTCACTAATTCTTTTTAAT
321 TAGTGAATG-TATTTATTATAAGAAAATACCTTCACTAATTCATTTTAAT
* * * ** * * * *
15610886 TTTTGTACATAATTATTGAAGACGTTTTTTTATAACAAAAACCTTATATAATTTAAAAAAAAAAA
1 TTTTGTACATAATTATTGAAGGCATTTTTTGATAACAAATGCCTTATATAATTTTAATAAAACAT
* * * * * *
15610951 TTTGGGATTATTAAA-AATGTCTTCTATTGAAAAACGCCTTCAATATATCAATACTCAAATTTGA
66 TTTGGGATTATTAAAGCAT-T-TTCTACTGAAAAA-ACTTTCAATATATCAGTACTCAAATTTTA
* * * * * *
15611015 AGACGGTTAGTAAAGACGTTTATTCTAGAAAAATATCTTCACTAATTTGTTTTAATTTTTGTATA
128 AGATGGTTAGTGAAGACGTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAATTTTTGTACA
* * * * * * *
15611080 TAATTAATAAAGGTATTTTTTTTATAATAAATGCCTTTATAATTTTCTTTTAAAAAAATTTTTGG
193 TAATTATTGAAGGTA-TTTTTTGATAAAAAACGCCTTAATAA-TTTCTTTT-TAAAAATTTTTGG
* * * * * *
15611145 GACTATTAAAGGCATATTCTACCGAAAAACGCCTTCAATA
255 GATTATTAAAGGCGTCTTCTACTGAAAAAAGCCTTTAATA
15611185 ATTTGTTATA
Statistics
Matches: 577, Mismatches: 80, Indels: 32
0.84 0.12 0.05
Matches are distributed among these distances:
370 2 0.00
371 1 0.00
372 130 0.23
373 192 0.33
374 69 0.12
375 122 0.21
376 59 0.10
377 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (369 bp):
TTTTGTACATAATTATTGAAGGCATTTTTTGATAACAAATGCCTTATATAATTTTAATAAAACAT
TTTGGGATTATTAAAGCATTTTCTACTGAAAAAACTTTCAATATATCAGTACTCAAATTTTAAGA
TGGTTAGTGAAGACGTTTATTTTAGAAAAATACCTTCACTAATTCGTTTTAATTTTTGTACATAA
TTATTGAAGGTATTTTTTGATAAAAAACGCCTTAATAATTTCTTTTTAAAAATTTTTGGGATTAT
TAAAGGCGTCTTCTACTGAAAAAAGCCTTTAATATACTAGTACTCAAATTTTAAGATGGTTAGTG
AATGTATTTATTATAAGAAAATACCTTCACTAATTCATTTTAAT
Found at i:15611945 original size:25 final size:25
Alignment explanation
Indices: 15611916--15611995 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
15611906 TATTGGTATG
15611916 CTGAATCATATGCTGAATGGTGTTT
1 CTGAATCATATGCTGAATGGTGTTT
** * * *
15611941 CTGAATGGTTTGCTGAAGGGTGTGT
1 CTGAATCATATGCTGAATGGTGTTT
* * *
15611966 CTG-AGCATATTGCTGATTGGT-TTG
1 CTGAATCATA-TGCTGAATGGTGTTT
15611990 CTGAAT
1 CTGAAT
15611996 GGTGTTTCTA
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
24 6 0.15
25 33 0.85
ACGTcount: A:0.20, C:0.11, G:0.30, T:0.39
Consensus pattern (25 bp):
CTGAATCATATGCTGAATGGTGTTT
Found at i:15611946 original size:13 final size:13
Alignment explanation
Indices: 15611928--15611969 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
15611918 GAATCATATG
15611928 CTGAATGGTGTTT
1 CTGAATGGTGTTT
*
15611941 CTGAATGGT-TTG
1 CTGAATGGTGTTT
* *
15611953 CTGAAGGGTGTGT
1 CTGAATGGTGTTT
15611966 CTGA
1 CTGA
15611970 GCATATTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.17, C:0.10, G:0.36, T:0.38
Consensus pattern (13 bp):
CTGAATGGTGTTT
Found at i:15612925 original size:10 final size:10
Alignment explanation
Indices: 15612910--15612938 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
15612900 TTACTCATTA
15612910 ATGAATATTT
1 ATGAATATTT
15612920 ATGAATATTT
1 ATGAATATTT
15612930 ATGAATATT
1 ATGAATATT
15612939 CATTTCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (10 bp):
ATGAATATTT
Found at i:15614221 original size:3 final size:3
Alignment explanation
Indices: 15614213--15614267 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
15614203 AATCTGAGTA
15614213 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15614261 TAT TAT T
1 TAT TAT T
15614268 TTACAGTCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15627959 original size:18 final size:17
Alignment explanation
Indices: 15627926--15627959 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15627916 TATTTCTTTC
*
15627926 AAAATCATTTTCTAAAA
1 AAAATCATTTTATAAAA
15627943 AAAATCATTTTTATAAA
1 AAAATCA-TTTTATAAA
15627960 TAAATAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATCATTTTATAAAA
Found at i:15628497 original size:181 final size:180
Alignment explanation
Indices: 15628207--15628557 Score: 569
Period size: 181 Copynumber: 1.9 Consensus size: 180
15628197 AACATTGTTC
* *
15628207 CAATTATGTATAAACGCTAAAATAAATTTTTTTTAGGTTTTTCTTTTCCTTCTCTCTCTTCCTTT
1 CAATTATGTATAAACGCTAAAATAAATTTTTTTTAGGTTTTTCTTCTCCTTCTCTCTCTTCCTCT
* * *
15628272 TGCCTTTCCTTCTAGGCGATTTCCAGTGCTGGGTTTTAGAAAATCTCATAGAGAAATCAAAGGTT
66 TGCCTTTCCCTCTAGGCAATTTCCAATGCTGGGTTTTAGAAAATCTCATAGAGAAATCAAAGGTT
15628337 ACTAGAATCTTGATCGAAAACTTCAATAGTTGGCCAGAATAACACCATTT
131 ACTAGAATCTTGATCGAAAACTTCAATAGTTGGCCAGAATAACACCATTT
* *
15628387 CAATTGTGTATAAATGCTAAAATAAATTTTTTTTTAGGTTTTTCTTCTCCTTCTCTCTCATT-CT
1 CAATTATGTATAAACGCTAAAATAAA-TTTTTTTTAGGTTTTTCTTCTCCTTCTCTCTC-TTCCT
* * *
15628451 CTTGTCTTTCCCTCTAGGCAATTTCCAATGCTGGGTTTTAGAAAATCTCATAGAGAAATTAAGGG
64 CTTGCCTTTCCCTCTAGGCAATTTCCAATGCTGGGTTTTAGAAAATCTCATAGAGAAATCAAAGG
* *
15628516 TTGCTAGAATCTTGATTGAAAACTTCAATAGTTGGCCAGAAT
129 TTACTAGAATCTTGATCGAAAACTTCAATAGTTGGCCAGAAT
15628558 TTGGATTAGG
Statistics
Matches: 157, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
180 24 0.15
181 131 0.83
182 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (180 bp):
CAATTATGTATAAACGCTAAAATAAATTTTTTTTAGGTTTTTCTTCTCCTTCTCTCTCTTCCTCT
TGCCTTTCCCTCTAGGCAATTTCCAATGCTGGGTTTTAGAAAATCTCATAGAGAAATCAAAGGTT
ACTAGAATCTTGATCGAAAACTTCAATAGTTGGCCAGAATAACACCATTT
Found at i:15628657 original size:12 final size:12
Alignment explanation
Indices: 15628642--15628672 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15628632 CCAAAAAATT
15628642 CAAAATTTCCAA
1 CAAAATTTCCAA
15628654 CAAAATTTCCAA
1 CAAAATTTCCAA
15628666 -AAAATTT
1 CAAAATTT
15628673 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (12 bp):
CAAAATTTCCAA
Found at i:15628671 original size:11 final size:11
Alignment explanation
Indices: 15628643--15628677 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
15628633 CAAAAAATTC
15628643 AAAATTTCCAA
1 AAAATTTCCAA
15628654 CAAAATTTCCAA
1 -AAAATTTCCAA
*
15628666 AAAATTTACAA
1 AAAATTTCCAA
15628677 A
1 A
15628678 CCCTTGTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATTTCCAA
Found at i:15629630 original size:16 final size:16
Alignment explanation
Indices: 15629597--15629627 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15629587 AAAATCCTAT
15629597 TTTTATTTTTATTTAA
1 TTTTATTTTTATTTAA
15629613 TTTTATTTTT-TTTAA
1 TTTTATTTTTATTTAA
15629628 ATTAAGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTATTTAA
Found at i:15629920 original size:13 final size:13
Alignment explanation
Indices: 15629898--15629969 Score: 81
Period size: 13 Copynumber: 5.5 Consensus size: 13
15629888 TTTCATTTCA
*
15629898 GGTTTCATTTTAG
1 GGTTTTATTTTAG
*
15629911 GGTTTTATTTTAA
1 GGTTTTATTTTAG
* *
15629924 GGTTTCATCTTAG
1 GGTTTTATTTTAG
* *
15629937 GGTTTTATCTTGG
1 GGTTTTATTTTAG
*
15629950 GGTTTTGTTTTAG
1 GGTTTTATTTTAG
15629963 GGTTTTA
1 GGTTTTA
15629970 AAAATTTACA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.14, C:0.06, G:0.25, T:0.56
Consensus pattern (13 bp):
GGTTTTATTTTAG
Found at i:15629930 original size:26 final size:26
Alignment explanation
Indices: 15629897--15629969 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
15629887 ATTTCATTTC
*
15629897 AGGTTTCATTTTAGGGTTTTATTTTA
1 AGGTTTCATTTTAGGGTTTTATCTTA
* *
15629923 AGGTTTCATCTTAGGGTTTTATCTTG
1 AGGTTTCATTTTAGGGTTTTATCTTA
* **
15629949 GGGTTTTGTTTTAGGGTTTTA
1 AGGTTTCATTTTAGGGTTTTA
15629970 AAAATTTACA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.15, C:0.05, G:0.25, T:0.55
Consensus pattern (26 bp):
AGGTTTCATTTTAGGGTTTTATCTTA
Found at i:15630130 original size:24 final size:25
Alignment explanation
Indices: 15630079--15630135 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
15630069 TATATTTTCT
*
15630079 TTTTATTAAAATATTATTATTATTA
1 TTTTATTAAAATATTATTATTATAA
* *
15630104 -TTTATTAATATTTTATTATCT-TAA
1 TTTTATTAAAATATTATTAT-TATAA
15630128 TTTTATTA
1 TTTTATTA
15630136 TTTAATAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTATTAAAATATTATTATTATAA
Found at i:15630245 original size:9 final size:9
Alignment explanation
Indices: 15630231--15630265 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
15630221 GATTTAAAAT
15630231 TTTTTATTA
1 TTTTTATTA
15630240 TTTTTATTA
1 TTTTTATTA
15630249 TTTTATATTA
1 TTTT-TATTA
15630259 TTATTTA
1 TT-TTTA
15630266 CTTTTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.54
10 9 0.38
11 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTATTA
Found at i:15630262 original size:16 final size:17
Alignment explanation
Indices: 15630232--15630286 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
15630222 ATTTAAAATT
*
15630232 TTTTATTATTTTTA-TTA
1 TTTTA-TATTATTATTTA
15630249 TTTTATATTATTATTTA
1 TTTTATATTATTATTTA
*
15630266 CTTT-TATTATTAGTTTA
1 TTTTATATTATTA-TTTA
15630283 TTTT
1 TTTT
15630287 TTGTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 15 0.45
17 18 0.55
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTATATTATTATTTA
Found at i:15631197 original size:20 final size:20
Alignment explanation
Indices: 15631161--15631204 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15631151 GACAAAAATG
* *
15631161 AAAAAATATATAAAAAATAT
1 AAAAAATAAATAAAAAAGAT
*
15631181 AAAAAATAAATATAAAAGAT
1 AAAAAATAAATAAAAAAGAT
15631201 AAAA
1 AAAA
15631205 TAAAATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAAATAAATAAAAAAGAT
Found at i:15631207 original size:12 final size:13
Alignment explanation
Indices: 15631175--15631209 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
15631165 AATATATAAA
15631175 AAATATAAAAAAT
1 AAATATAAAAAAT
*
15631188 AAATATAAAAGAT
1 AAATATAAAAAAT
15631201 AAA-ATAAAA
1 AAATATAAAA
15631210 TGAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (13 bp):
AAATATAAAAAAT
Found at i:15631535 original size:39 final size:40
Alignment explanation
Indices: 15631469--15631561 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 40
15631459 AGAATCAAAA
* * *
15631469 TTTTTAAATTTAAAGCTCCTTTAAAATGAAGGTACATAAC
1 TTTTAAAATTTAAAGCTCATTTAAAATGAAGGTACAGAAC
* * *
15631509 TTTTAAAATTTAAGGCT-ATTTTAAATGAAGGTATAGAAC
1 TTTTAAAATTTAAAGCTCATTTAAAATGAAGGTACAGAAC
*
15631548 TTTAAAAATTTAAA
1 TTTTAAAATTTAAA
15631562 AACTTCTTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 30 0.67
40 15 0.33
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.39
Consensus pattern (40 bp):
TTTTAAAATTTAAAGCTCATTTAAAATGAAGGTACAGAAC
Found at i:15631589 original size:40 final size:39
Alignment explanation
Indices: 15631474--15631596 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 39
15631464 CAAAATTTTT
* * * * *
15631474 AAATTTAAAGCTCCTTTAAAATGAAGGTACATAACTTTTA
1 AAATTTAAAACT-ATTTCAAATGAAGGTATATAACTTTAA
** * *
15631514 AAATTTAAGGCTATTTTAAATGAAGGTATAGAACTTTAA
1 AAATTTAAAACTATTTCAAATGAAGGTATATAACTTTAA
*
15631553 AAATTTAAAAACT-TCTTCAAATGAAGGCATATAACTTTAA
1 AAATTT-AAAACTAT-TTCAAATGAAGGTATATAACTTTAA
15631593 AAAT
1 AAAT
15631597 AAAGGCTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 29 0.41
40 41 0.59
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.34
Consensus pattern (39 bp):
AAATTTAAAACTATTTCAAATGAAGGTATATAACTTTAA
Found at i:15631619 original size:38 final size:38
Alignment explanation
Indices: 15631536--15631746 Score: 165
Period size: 38 Copynumber: 5.5 Consensus size: 38
15631526 ATTTTAAATG
* * * **
15631536 AAGGTATAGAACTTTAAAAATTTAAAAACTTCTTCAAATG
1 AAGGCATACAACTTTAAAAA--TAAAAGCTTCTTCAAACA
* * *
15631576 AAGGCATATAACTTTAAAAATAAAGGCTTTTTCAAACA
1 AAGGCATACAACTTTAAAAATAAAAGCTTCTTCAAACA
* * * * * *
15631614 AAGGCACACAACTTTGACACTGAAAGCTACTTCAAACA
1 AAGGCATACAACTTTAAAAATAAAAGCTTCTTCAAACA
* * * **
15631652 AAAGTACACAACTTTAAAAATAAAAGCTTCTTCAAATG
1 AAGGCATACAACTTTAAAAATAAAAGCTTCTTCAAACA
* * **
15631690 ATGGTATACATA-TTTAAAAATAAATTC-TCTTTCAAACA
1 AAGGCATACA-ACTTTAAAAATAAAAGCTTC-TTCAAACA
15631728 AAGGCATACAACTTTAAAA
1 AAGGCATACAACTTTAAAA
15631747 TTTAAAACTT
Statistics
Matches: 134, Mismatches: 34, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
37 3 0.02
38 112 0.84
39 1 0.01
40 18 0.13
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (38 bp):
AAGGCATACAACTTTAAAAATAAAAGCTTCTTCAAACA
Found at i:15637064 original size:9 final size:8
Alignment explanation
Indices: 15637045--15637109 Score: 53
Period size: 9 Copynumber: 7.6 Consensus size: 8
15637035 AATATGACAG
15637045 TAAATAAA
1 TAAATAAA
15637053 TAAATCAAA
1 TAAAT-AAA
15637062 TAAATAAAA
1 TAAAT-AAA
*
15637071 CAAATAAA
1 TAAATAAA
15637079 TCAAATTAAA
1 T-AAA-TAAA
15637089 -AAATAAAA
1 TAAAT-AAA
15637097 TAAAATAAA
1 T-AAATAAA
15637106 -AAAT
1 TAAAT
15637110 CACAACTTGC
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
7 5 0.10
8 14 0.29
9 21 0.44
10 8 0.17
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.22
Consensus pattern (8 bp):
TAAATAAA
Found at i:15637064 original size:13 final size:13
Alignment explanation
Indices: 15637046--15637111 Score: 73
Period size: 13 Copynumber: 5.1 Consensus size: 13
15637036 ATATGACAGT
15637046 AAATAAATAAATC
1 AAATAAATAAATC
*
15637059 AAATAAATAAAAC
1 AAATAAATAAATC
*
15637072 AAATAAATCAAATT
1 AAATAAAT-AAATC
*
15637086 AAA-AAATAAAATA
1 AAATAAAT-AAATC
15637099 AAATAAA-AAATC
1 AAATAAATAAATC
15637111 A
1 A
15637112 CAACTTGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
12 5 0.11
13 31 0.69
14 9 0.20
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAATAAATC
Found at i:15637065 original size:17 final size:17
Alignment explanation
Indices: 15637046--15637111 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
15637036 ATATGACAGT
15637046 AAATAAATAAATCAAAT-
1 AAATAAA-AAATCAAATA
15637063 AAATAAAACAAAT-AAATCA
1 AAAT-AAA-AAATCAAAT-A
* *
15637082 AATTAAAAAATAAAATA
1 AAATAAAAAATCAAATA
15637099 AAATAAAAAATCA
1 AAATAAAAAATCA
15637112 CAACTTGCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 24 0.59
18 14 0.34
19 3 0.07
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAAAAATCAAATA
Found at i:15640769 original size:13 final size:15
Alignment explanation
Indices: 15640751--15640782 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15640741 AGGTTGTTTA
15640751 GCAAGT-AA-GAAAT
1 GCAAGTAAATGAAAT
15640764 GCAAGTAAATGAAAT
1 GCAAGTAAATGAAAT
15640779 GCAA
1 GCAA
15640783 AAAAGTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.53, C:0.09, G:0.22, T:0.16
Consensus pattern (15 bp):
GCAAGTAAATGAAAT
Found at i:15646626 original size:113 final size:113
Alignment explanation
Indices: 15646491--15646716 Score: 452
Period size: 113 Copynumber: 2.0 Consensus size: 113
15646481 TCATTATCAC
15646491 CTCTATAGTTATATTTCGATCGAAGTACTTATTCTTCAAATTATACTTATAATCTTTTCATTTCT
1 CTCTATAGTTATATTTCGATCGAAGTACTTATTCTTCAAATTATACTTATAATCTTTTCATTTCT
15646556 TTCTCAATGACTTAAGCATAAATGAAGTTGGTATTTCAAGTACAAATA
66 TTCTCAATGACTTAAGCATAAATGAAGTTGGTATTTCAAGTACAAATA
15646604 CTCTATAGTTATATTTCGATCGAAGTACTTATTCTTCAAATTATACTTATAATCTTTTCATTTCT
1 CTCTATAGTTATATTTCGATCGAAGTACTTATTCTTCAAATTATACTTATAATCTTTTCATTTCT
15646669 TTCTCAATGACTTAAGCATAAATGAAGTTGGTATTTCAAGTACAAATA
66 TTCTCAATGACTTAAGCATAAATGAAGTTGGTATTTCAAGTACAAATA
15646717 TTGACTGCAA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (113 bp):
CTCTATAGTTATATTTCGATCGAAGTACTTATTCTTCAAATTATACTTATAATCTTTTCATTTCT
TTCTCAATGACTTAAGCATAAATGAAGTTGGTATTTCAAGTACAAATA
Found at i:15652563 original size:162 final size:163
Alignment explanation
Indices: 15652389--15652708 Score: 466
Period size: 162 Copynumber: 2.0 Consensus size: 163
15652379 TTAATTTATA
* * * *
15652389 TACATAATTATTGTAGGTATTTTTTTATAACAAACGCATTTAATAATTTTTCTT-TTAAAATTTT
1 TACATAATTATTGAAGGTATTTTTTGATAACAAACGCATTCAATAA-TTTTCTTCTAAAAATTTT
* * * * *
15652453 T-AGTATTATTAAAGGTGTCTTCCAGTGAAAAACGCCTTCAATATTCCACTACTAAAATTTTAAG
65 TGAG-ATTATTAAAGGCGTCTTCCAATGAAAAACACCTTCAATATACCAATACTAAAATTTTAAG
**
15652517 ATGGTTAGTGAAGGTGTTTATTCCA-AAAATTTTG
129 ATGGTTAGTGAAGGCATTTATTCCAGAAAATTTTG
* *
15652551 TACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTCAATAATTTTCTTCTAAAAATTTTT
1 TACATAATTATTGAAGGTATTTTTTGATAACAAACGCATTCAATAATTTTCTTCTAAAAATTTTT
* *
15652616 GAGATTATTAAAGGCGTCTTCTAATGAAAAACACCTTCAATATACCAATACTCAAATTTTAAGAT
66 GAGATTATTAAAGGCGTCTTCCAATGAAAAACACCTTCAATATACCAATACTAAAATTTTAAGAT
15652681 GGTTAGTGAAGGCATTTATTCCAGAAAA
131 GGTTAGTGAAGGCATTTATTCCAGAAAA
15652709 ATACCTTCAA
Statistics
Matches: 140, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
161 7 0.05
162 127 0.91
163 6 0.04
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (163 bp):
TACATAATTATTGAAGGTATTTTTTGATAACAAACGCATTCAATAATTTTCTTCTAAAAATTTTT
GAGATTATTAAAGGCGTCTTCCAATGAAAAACACCTTCAATATACCAATACTAAAATTTTAAGAT
GGTTAGTGAAGGCATTTATTCCAGAAAATTTTG
Found at i:15653075 original size:187 final size:187
Alignment explanation
Indices: 15652546--15653575 Score: 1215
Period size: 186 Copynumber: 5.5 Consensus size: 187
15652536 ATTCCAAAAA
* **
15652546 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTCA-ATAATTTTCTTCTAAAA
1 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTT-ATATAATTTTTTTAAAAAA
* * ** * *
15652610 ATTTTTGAGATTATTAAAGGCGTCTTCTAATGAAAAACACCTTCAATATACCAATACTCAAATTT
65 AATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTTAATATACCAGTACTCAAATTT
* * * * *
15652675 TAAGATGGTTAGTGAAGGCATTTATTCCAGAAAAATACCTTCAATAATTCTTTTTAAA
130 TAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCATTTTAAT
* * ** *
15652733 TTTTGTACATAATTATTGAAGATATTTTTTGATAAAAAAACACCTTAAATAATTTTTTTAAAAAA
1 TTTTGTACATAATTATTGAAGGTATTTTTTGAT-AACAAATGCCTTATATAATTTTTTT-AAAAA
* * * ** *
15652798 AAATTTTGAGATTATTAAAGGCATCTTCTACTGAAAAATACTTTTAATATAATAGTACTTAAATT
64 AAATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTTAATATACCAGTACTCAAATT
* *
15652863 TTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAAATCATTTTAAT
129 TTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCATTTTAAT
* * * *
15652922 TTTTGTACATAACTATTGAAAGG-ATTTTTTAATAATAAATGCCTTATATAATTTTGTTAAAAAA
1 TTTTGTACATAATTATTG-AAGGTATTTTTTGATAACAAATGCCTTATATAATTTTTTTAAAAAA
* * * *
15652986 ACTTTTGAAATTATTAAAGGCGTATTCTACTGAAAAATGCCTTTAATATACCAATACTCAAATTT
65 AATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTTAATATACCAGTACTCAAATTT
* * * *
15653051 TAAGATGGTTAGTGAAGTCGTTTATTCTAAAAAAATACCTTAACTAATTCGTTTTAAT
130 TAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCATTTTAAT
* * * * *
15653109 TTTTATACATAATTATTGAAGGTGTTTTTTGATAACAAACGCCTTAAATAATTTTTTT-AAAAGA
1 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTATATAATTTTTTTAAAAAAA
* * * *
15653173 CTTTTGAGATTATTAAAGGCGTCTTCTATTGAAAAATGCCTTTAATATACTAGTACCCAAATTTT
66 ATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTTAATATACCAGTACTCAAATTTT
* * * *
15653238 GAGATGGTTAGTGAAGACGTTTATTCTAGGAAAATGCCTTCACTAATTCATTTTAAT
131 AAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCATTTTAAT
* * * *** **
15653295 TTTTGTATATAATTGTTAAAGACGTTTTTT-ATAACAAAAACCTTATATAATTTTTTTAAAAAAA
1 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTATATAATTTTTTTAAAAAAA
* * * * * * * *
15653359 ATTTTGGGATTATGAAAAGTGTCTTCTACTGAAAAACGCCATCAATATATCAGTACTCAAATTTT
66 ATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTTAATATACCAGTACTCAAATTTT
* * ** * * **
15653424 AAGATAGTTAGTAAAGATGTTTATTTTAGAAAAATATCTTCACTAATTTGTTTTAAT
131 AAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCATTTTAAT
* * * * *
15653481 TGTTGTATATAATTAATGAAGGCATTTTTTTATAACAAATGCCTT-TATAATTTCCTTTTAAAAA
1 TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTATATAATTT--TTTTAAAAA
* *
15653545 AAATTTTTGGGATTATTAAAGGCATCTTCTA
64 AAA-TTTTGAGATTATTAAAGGCGTCTTCTA
15653576 TCGAAACACA
Statistics
Matches: 719, Mismatches: 114, Indels: 18
0.84 0.13 0.02
Matches are distributed among these distances:
185 24 0.03
186 279 0.39
187 203 0.28
188 51 0.07
189 159 0.22
190 3 0.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (187 bp):
TTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGCCTTATATAATTTTTTTAAAAAAA
ATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTTAATATACCAGTACTCAAATTTT
AAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCATTTTAAT
Found at i:15654353 original size:12 final size:12
Alignment explanation
Indices: 15654338--15654422 Score: 53
Period size: 12 Copynumber: 6.9 Consensus size: 12
15654328 CTGAATCATA
15654338 TGCTGAATGGTT
1 TGCTGAATGGTT
* *
15654350 TGCTAAATGATAT
1 TGCTGAATGGT-T
*
15654363 TTCTGAATGGTT
1 TGCTGAATGGTT
* *
15654375 TGCTGAAGGGTG
1 TGCTGAATGGTT
*****
15654387 TGTCTGAGCACAT
1 TG-CTGAATGGTT
*
15654400 TGCTGATTGGTT
1 TGCTGAATGGTT
15654412 TGCTGAATGGT
1 TGCTGAATGGT
15654423 GTTTCTATAC
Statistics
Matches: 51, Mismatches: 20, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
12 36 0.71
13 15 0.29
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.39
Consensus pattern (12 bp):
TGCTGAATGGTT
Found at i:15654392 original size:25 final size:25
Alignment explanation
Indices: 15654335--15654393 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
15654325 ATGCTGAATC
*
15654335 ATATG-CTGAATGGTTTGCTAAATG
1 ATATGTCTGAATGGTTTGCTAAAGG
* *
15654359 ATATTTCTGAATGGTTTGCTGAAGG
1 ATATGTCTGAATGGTTTGCTAAAGG
* *
15654384 GTGTGTCTGA
1 ATATGTCTGA
15654394 GCACATTGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (25 bp):
ATATGTCTGAATGGTTTGCTAAAGG
Found at i:15661766 original size:13 final size:13
Alignment explanation
Indices: 15661748--15661779 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
15661738 TTCATCATGT
15661748 CAAGATCAAGGGC
1 CAAGATCAAGGGC
15661761 CAAGATCAAGGGC
1 CAAGATCAAGGGC
15661774 CAAGAT
1 CAAGAT
15661780 AATCATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.28, T:0.09
Consensus pattern (13 bp):
CAAGATCAAGGGC
Found at i:15670245 original size:17 final size:17
Alignment explanation
Indices: 15670223--15670261 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15670213 TATTTCTTTC
*
15670223 AAAATCATTTTTTTAAA
1 AAAATCATTTTTATAAA
15670240 AAAATCATTTTTATAAA
1 AAAATCATTTTTATAAA
*
15670257 TAAAT
1 AAAAT
15670262 AAAACTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATCATTTTTATAAA
Found at i:15670795 original size:181 final size:180
Alignment explanation
Indices: 15670492--15670822 Score: 594
Period size: 181 Copynumber: 1.8 Consensus size: 180
15670482 AACATTCCAA
15670492 AATAACATTGTTTCAATTATGTATAAACGCTAAAATAATTTTTTTTTAGGTTTTTCTCTTCCTTC
1 AATAACATTGTTTCAATTATGTATAAACGCTAAAATAATTTTTTTTTAGGTTTTTCTCTTCCTTC
*
15670557 TTTCTCTTCCTCTTGCCTTTCCCTCTAGGCAATTTCCAGTGCTGGGTTTCAGAAAATCTCGTAGA
66 TCTCTCTTCCTCTTGCCTTTCCCTCTAGGCAATTTCCAGTGCTGGGTTTCAGAAAATCTCGTAGA
15670622 GAAATCAAGGGTTGCTAGAATCTTGATCGAAAACTTCAATAGTTGGCCAG
131 GAAATCAAGGGTTGCTAGAATCTTGATCGAAAACTTCAATAGTTGGCCAG
15670672 AATAACATTGTTTCAATTATGTATAAACGCTAAAATAATTTTTTTTTTAGGTTTTTCT-TCTCCT
1 AATAACATTGTTTCAATTATGTATAAACGCTAAAATAA-TTTTTTTTTAGGTTTTTCTCT-TCCT
* *
15670736 TCTCTCTCCTT-CTCTTGCCTTTCCCTTTAGGCAATTTCCAGTGCTGGGTTTTAGAAAATCTCGT
64 TCTCTCT-CTTCCTCTTGCCTTTCCCTCTAGGCAATTTCCAGTGCTGGGTTTCAGAAAATCTCGT
15670800 AGAGAAATCAAGGGTTGCTAGAA
128 AGAGAAATCAAGGGTTGCTAGAA
15670823 AACTTCAATA
Statistics
Matches: 145, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
180 39 0.27
181 103 0.71
182 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (180 bp):
AATAACATTGTTTCAATTATGTATAAACGCTAAAATAATTTTTTTTTAGGTTTTTCTCTTCCTTC
TCTCTCTTCCTCTTGCCTTTCCCTCTAGGCAATTTCCAGTGCTGGGTTTCAGAAAATCTCGTAGA
GAAATCAAGGGTTGCTAGAATCTTGATCGAAAACTTCAATAGTTGGCCAG
Found at i:15671900 original size:16 final size:17
Alignment explanation
Indices: 15671879--15671911 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15671869 AAAATCCCAT
15671879 TTTTATT-TTTATTTAA
1 TTTTATTATTTATTTAA
*
15671895 TTTTATTATTTTTTTAA
1 TTTTATTATTTATTTAA
15671912 ATTAAGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTATTTATTTAA
Found at i:15672252 original size:13 final size:13
Alignment explanation
Indices: 15672167--15672251 Score: 84
Period size: 13 Copynumber: 6.6 Consensus size: 13
15672157 GGATATTACA
*
15672167 TAGGATTTCA-TT
1 TAGGGTTTCATTT
15672179 TAGGGTTTCATTT
1 TAGGGTTTCATTT
*
15672192 TAGGGTTTTATTT
1 TAGGGTTTCATTT
* * *
15672205 CAGGATTTCATCT
1 TAGGGTTTCATTT
15672218 TAGGGTTTCATCTT
1 TAGGGTTTCAT-TT
**
15672232 T-GGGTTTTGTTT
1 TAGGGTTTCATTT
15672244 TAGGGTTT
1 TAGGGTTT
15672252 TAAAAATTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
12 12 0.20
13 45 0.76
14 2 0.03
ACGTcount: A:0.15, C:0.08, G:0.24, T:0.53
Consensus pattern (13 bp):
TAGGGTTTCATTT
Found at i:15672424 original size:3 final size:3
Alignment explanation
Indices: 15672374--15672412 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
15672364 TTTATTAAAA
15672374 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
15672413 ATCTTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15672544 original size:10 final size:10
Alignment explanation
Indices: 15672531--15672568 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15672521 AAGATTTAAA
15672531 ATTTTTTATT
1 ATTTTTTATT
15672541 A-TTTTTATT
1 ATTTTTTATT
*
15672550 ATTTTATATT
1 ATTTTTTATT
15672560 ATTTATTTA
1 ATTT-TTTA
15672569 CTTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 9 0.38
10 12 0.50
11 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTATT
Found at i:15672547 original size:9 final size:9
Alignment explanation
Indices: 15672533--15672594 Score: 65
Period size: 9 Copynumber: 6.8 Consensus size: 9
15672523 GATTTAAAAT
15672533 TTTTTATTA
1 TTTTTATTA
15672542 TTTTTATTA
1 TTTTTATTA
15672551 TTTTATATTA
1 TTTT-TATTA
*
15672561 TTTAT-TTA
1 TTTTTATTA
*
15672569 CTTTTATTA
1 TTTTTATTA
15672578 TTAGTTTATT-
1 TT--TTTATTA
15672588 TTTTTAT
1 TTTTTAT
15672595 AAATTTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
8 11 0.24
9 18 0.40
10 10 0.22
11 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTATTA
Found at i:15672554 original size:17 final size:18
Alignment explanation
Indices: 15672534--15672594 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
15672524 ATTTAAAATT
15672534 TTTTATTATT-TTTATTA
1 TTTTATTATTATTTATTA
15672551 TTTTA-TATTATTTATTTA
1 TTTTATTATTATTTA-TTA
*
15672569 CTTTTATTATTAGTTTATTT
1 -TTTTATTATTA-TTTATTA
15672589 TTTTAT
1 TTTTAT
15672595 AAATTTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 4 0.11
17 9 0.24
18 3 0.08
19 11 0.29
20 7 0.18
21 4 0.11
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTATTATTATTTATTA
Found at i:15672593 original size:19 final size:18
Alignment explanation
Indices: 15672532--15672594 Score: 76
Period size: 17 Copynumber: 3.4 Consensus size: 18
15672522 AGATTTAAAA
15672532 TTTTTTATTATT-TTTAT
1 TTTTTTATTATTATTTAT
*
15672549 TATTTTA-TATTATTTAT
1 TTTTTTATTATTATTTAT
15672566 TTACTTTTATTATTAGTTTAT
1 TT--TTTTATTATTA-TTTAT
15672587 TTTTTTAT
1 TTTTTTAT
15672595 AAATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.10
17 12 0.31
19 11 0.28
20 5 0.13
21 7 0.18
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTTTATTATTATTTAT
Found at i:15673555 original size:19 final size:18
Alignment explanation
Indices: 15673531--15673599 Score: 50
Period size: 21 Copynumber: 3.6 Consensus size: 18
15673521 TAATAAAGAC
15673531 AAAAATGAAAAAATATATAA
1 AAAAATGAAAAAATA-AT-A
*
15673551 AAAATATAAAAAAATAAATA
1 AAAA-ATGAAAAAAT-AATA
* * *
15673571 TAAAA-GATAAAATAAAA
1 AAAAATGAAAAAATAATA
15673588 TAAAAATGAAAA
1 -AAAAATGAAAA
15673600 TAAAAAAGGA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.08
18 10 0.26
19 5 0.13
20 8 0.21
21 11 0.29
22 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (18 bp):
AAAAATGAAAAAATAATA
Found at i:15673564 original size:21 final size:21
Alignment explanation
Indices: 15673511--15673591 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 21
15673501 ATAAATAGGG
* *
15673511 AGATAAATAATAATAAAGACAAA
1 AGATAAA-AA-AATAAATAAAAA
* *
15673534 A-ATGAAAAAATATATAAAAA
1 AGATAAAAAAATAAATAAAAA
* *
15673554 ATATAAAAAAATAAATATAAA
1 AGATAAAAAAATAAATAAAAA
15673575 AGATAAAATAAAATAAA
1 AGAT-AAA-AAAATAAA
15673592 AATGAAAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 10 0.21
21 21 0.45
22 7 0.15
23 9 0.19
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (21 bp):
AGATAAAAAAATAAATAAAAA
Found at i:15673587 original size:23 final size:22
Alignment explanation
Indices: 15673515--15673604 Score: 71
Period size: 23 Copynumber: 4.1 Consensus size: 22
15673505 ATAGGGAGAT
* *
15673515 AAATAATAATAAAGACAAAAAT-
1 AAATAA-AATAAATATAAAAATA
* *
15673537 GAA-AAAATATATA-AAAAATA
1 AAATAAAATAAATATAAAAATA
15673557 TAAA-AAAATAAATATAAAAGATA
1 -AAATAAAATAAATATAAAA-ATA
* *
15673580 AAATAAAATAAAAATGAAAATA
1 AAATAAAATAAATATAAAAATA
15673602 AAA
1 AAA
15673605 AAGGATGAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
19 6 0.11
20 6 0.11
21 13 0.23
22 15 0.27
23 16 0.29
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (22 bp):
AAATAAAATAAATATAAAAATA
Found at i:15673592 original size:17 final size:17
Alignment explanation
Indices: 15673561--15673604 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
15673551 AAAATATAAA
15673561 AAAATAAATATAAAAGAT-
1 AAAATAAA-ATAAAA-ATG
15673579 AAAATAAAATAAAAATG
1 AAAATAAAATAAAAATG
15673596 AAAATAAAA
1 AAAATAAAA
15673605 AAGGATGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.08
17 15 0.60
18 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAAAAATG
Found at i:15673599 original size:7 final size:6
Alignment explanation
Indices: 15673560--15673605 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
15673550 AAAAATATAA
* *
15673560 AAAAAT AAATAT AAAAGAT -AAAAT -AAAAT AAAAAT GAAAAT AAAAA
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
15673606 AGGATGAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 7 0.21
6 25 0.74
7 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:15673599 original size:12 final size:11
Alignment explanation
Indices: 15673551--15673605 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
15673541 AAATATATAA
*
15673551 AAAATATAAA-
1 AAAATAAAAAT
*
15673561 AAAATAAATAT
1 AAAATAAAAAT
*
15673572 AAAAGATAAAAT
1 AAAATA-AAAAT
15673584 AAAATAAAAAT
1 AAAATAAAAAT
15673595 GAAAATAAAAA
1 -AAAATAAAAA
15673606 AGGATGAAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 8 0.22
11 10 0.27
12 19 0.51
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:15673894 original size:39 final size:39
Alignment explanation
Indices: 15673851--15673945 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 39
15673841 AAAGAATCAA
*
15673851 AACTTTT-AAATTTAAAGCTCCTTTAAAATGAAGGTACAT
1 AACTTTTAAAATTTAAAGCT-ATTTAAAATGAAGGTACAT
* * * *
15673890 AACTTTTAAAATTTAAGGCTATTTCAAATGAAGGTATAG
1 AACTTTTAAAATTTAAAGCTATTTAAAATGAAGGTACAT
15673929 AA-TTTTAAAAATTTAAA
1 AACTTTT-AAAATTTAAA
15673946 AACTCCTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.08
39 33 0.69
40 11 0.23
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (39 bp):
AACTTTTAAAATTTAAAGCTATTTAAAATGAAGGTACAT
Found at i:15679475 original size:13 final size:13
Alignment explanation
Indices: 15679457--15679522 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
15679447 ATATGATAGT
15679457 AAATAAATAAATC
1 AAATAAATAAATC
*
15679470 AAATAAATAAAAC
1 AAATAAATAAATC
* *
15679483 TAATAAATCAAATT
1 AAATAAAT-AAATC
* *
15679497 GAA-AAATAAAATA
1 AAATAAAT-AAATC
15679510 AAATAAA-AAATC
1 AAATAAATAAATC
15679522 A
1 A
15679523 CAACTTGCCA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
12 5 0.12
13 29 0.69
14 8 0.19
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATAAATAAATC
Found at i:15679509 original size:22 final size:22
Alignment explanation
Indices: 15679430--15679511 Score: 57
Period size: 22 Copynumber: 3.6 Consensus size: 22
15679420 TTAAATAAAC
*
15679430 AAAACTAAAA-AAATCAAATATG
1 AAAAATAAAATAAATCAAAT-TG
15679452 ATAGTAAAT-AAATAAATCAAA-T-
1 A-A--AAATAAAATAAATCAAATTG
15679474 AAATAA-AACTAATAAATCAAATTG
1 AAA-AATAA--AATAAATCAAATTG
15679498 AAAAATAAAATAAA
1 AAAAATAAAATAAA
15679512 ATAAAAAATC
Statistics
Matches: 48, Mismatches: 1, Indels: 22
0.68 0.01 0.31
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 1 0.02
22 19 0.40
23 5 0.10
24 8 0.17
25 11 0.23
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAAATAAAATAAATCAAATTG
Found at i:15679509 original size:48 final size:49
Alignment explanation
Indices: 15679417--15679516 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 49
15679407 TAACCTTTAC
* * *
15679417 AAATTAAATAAACAAAACTAAAAAAATCAAATATGATAGTAAAT-AAAT
1 AAATCAAATAAACAAAACTAAAAAAATCAAATATGAAAATAAATAAAAT
* *
15679465 AAATCAAATAAATAAAACT-AATAAATCAAAT-TGAAAAATAAAATAAAAT
1 AAATCAAATAAACAAAACTAAAAAAATCAAATATG-AAAAT-AAATAAAAT
15679514 AAA
1 AAA
15679517 AAATCACAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
46 2 0.05
47 14 0.32
48 21 0.48
49 7 0.16
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (49 bp):
AAATCAAATAAACAAAACTAAAAAAATCAAATATGAAAATAAATAAAAT
Found at i:15686421 original size:19 final size:19
Alignment explanation
Indices: 15686397--15686447 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
15686387 TTAGGGCTTT
15686397 AGTTTCACCTAAGATTTCG
1 AGTTTCACCTAAGATTTCG
* *
15686416 AGTTTCACTTAGGATTTCG
1 AGTTTCACCTAAGATTTCG
*
15686435 AGTCTCACCTAAG
1 AGTTTCACCTAAG
15686448 GTTTAGGGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (19 bp):
AGTTTCACCTAAGATTTCG
Found at i:15686523 original size:25 final size:26
Alignment explanation
Indices: 15686448--15686524 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 26
15686438 CTCACCTAAG
* **
15686448 GTTTAGGGTTTCGTTTAA-ACATTTCA
1 GTTTAGGGTTTCATTTAAGGGATTT-A
*
15686474 -TTTAGGGTTTCATTTAAGGGCTTTA
1 GTTTAGGGTTTCATTTAAGGGATTTA
* *
15686499 GTTTAGGTTTTCATTTTA-GGATTTA
1 GTTTAGGGTTTCATTTAAGGGATTTA
15686524 G
1 G
15686525 GGTTTTGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 24 0.57
26 18 0.43
ACGTcount: A:0.21, C:0.08, G:0.22, T:0.49
Consensus pattern (26 bp):
GTTTAGGGTTTCATTTAAGGGATTTA
Found at i:15686807 original size:18 final size:17
Alignment explanation
Indices: 15686784--15686837 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
15686774 AAAATTTTAC
15686784 TTTTATCATATTTTTATT
1 TTTTAT-ATATTTTTATT
15686802 TTTTATATATTTATTATT
1 TTTTATATATTT-TTATT
*
15686820 TATTAT-T-TTTTTATT
1 TTTTATATATTTTTATT
15686835 TTT
1 TTT
15686838 GAGAAACATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 7 0.21
16 3 0.09
17 7 0.21
18 16 0.48
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATATATTTTTATT
Found at i:15686812 original size:11 final size:11
Alignment explanation
Indices: 15686796--15686837 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
15686786 TTATCATATT
15686796 TTTATTTTTTA
1 TTTATTTTTTA
* *
15686807 TATATTTATTA
1 TTTATTTTTTA
15686818 TTTATTATTTT-
1 TTTATT-TTTTA
15686829 TTTATTTTT
1 TTTATTTTT
15686838 GAGAAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 3 0.12
11 20 0.77
12 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:15686814 original size:15 final size:15
Alignment explanation
Indices: 15686791--15686831 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
15686781 TACTTTTATC
*
15686791 ATATTTTTATTTTTT
1 ATATATTTATTTTTT
*
15686806 ATATATTTATTATTT
1 ATATATTTATTTTTT
15686821 AT-TATTT-TTTT
1 ATATATTTATTTT
15686832 ATTTTTGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 3 0.13
14 5 0.22
15 15 0.65
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATATATTTATTTTTT
Found at i:15688277 original size:125 final size:122
Alignment explanation
Indices: 15688076--15688316 Score: 281
Period size: 125 Copynumber: 1.9 Consensus size: 122
15688066 TGGCATGAAA
* * ** *
15688076 AATGCCTTGAATAATTGTTTAAAAAATTGAATGAGATTATTCACGGTGTTTTTCGCTAAAATTGC
1 AATGCCTTGAATAATTGTTTAAAAAATTAAATGAGATTATTCAAGACGTTTTTCGCTAAAATTAC
* * *
15688141 CTTGAATAATCCCATTCTATTTTT-TATTGGGGATTATGCAAGGTGTTTTTGCCTACAG
66 ATTCAATAATCCCATTCAATTTTTATA-TGGGG-TTATGCAAGGTGTTTTTGCCTACAG
* * *
15688199 AATGCCTTGAATAATCT-TTTGCAAAAAATTAAATGGGATTATTTAAGACGTTTTCTGGCTAAAA
1 AATGCCTTGAATAAT-TGTTT--AAAAAATTAAATGAGATTATTCAAGACGTTTT-TCGCTAAAA
* *
15688263 -TACATTCAATAATCCCCTTCAATTTTTATGATGGGGTTATTCAAGGTGTTTTTG
62 TTACATTCAATAATCCCATTCAATTTTTAT-ATGGGGTTATGCAAGGTGTTTTTG
15688317 GCTTGCCATT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
123 18 0.18
124 1 0.01
125 65 0.66
126 14 0.14
127 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (122 bp):
AATGCCTTGAATAATTGTTTAAAAAATTAAATGAGATTATTCAAGACGTTTTTCGCTAAAATTAC
ATTCAATAATCCCATTCAATTTTTATATGGGGTTATGCAAGGTGTTTTTGCCTACAG
Found at i:15688465 original size:62 final size:60
Alignment explanation
Indices: 15688334--15688530 Score: 159
Period size: 61 Copynumber: 3.2 Consensus size: 60
15688324 ATTATTTTTT
* * * * * **
15688334 GGATTATTCAAGGTGTTTTTGGCTAGAACCGCCTTGAATAATCCCTTACAAAAATTTGA-ACCG
1 GGATTATTCAA-GTGTTTTTGGC-AAAAACGCCTTGAATAATCCCTTTC--AATTTTTATAAAG
*
15688397 GG-TTATTCAAGTTGTTTTTGGGCAAAAACGTCTTGAATAATCCCTTTCAATTTTTATAAAG
1 GGATTATTCAAG-TGTTTTT-GGCAAAAACGCCTTGAATAATCCCTTTCAATTTTTATAAAG
* * ** * *
15688458 GGATTATTCAAAGAT-TTTTAGCCAAAAATACCTTAAATAATCCCTTTCAATTTTT-TATTAG
1 GGATTATTC-AAG-TGTTTTTGGCAAAAACGCCTTGAATAATCCCTTTCAATTTTTATA-AAG
15688519 GGATTATTCAAG
1 GGATTATTCAAG
15688531 GCATTTTTAC
Statistics
Matches: 112, Mismatches: 16, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
60 11 0.10
61 46 0.41
62 46 0.41
63 9 0.08
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (60 bp):
GGATTATTCAAGTGTTTTTGGCAAAAACGCCTTGAATAATCCCTTTCAATTTTTATAAAG
Found at i:15691073 original size:15 final size:17
Alignment explanation
Indices: 15691049--15691080 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15691039 TATCAATATT
15691049 AAAATAAAATTT-TTAA
1 AAAATAAAATTTCTTAA
15691065 AAAAT-AAATTTCTTAA
1 AAAATAAAATTTCTTAA
15691081 TTTAGCGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATAAAATTTCTTAA
Found at i:15692933 original size:31 final size:31
Alignment explanation
Indices: 15692890--15692955 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
15692880 GAATGACTAG
* *
15692890 GATTGAACTACAAGTTGAATAAAGTGACCAA
1 GATTAAACTACAAGTCGAATAAAGTGACCAA
* *
15692921 GATTAAACTACAAGTCGAGTAAAGTGACCAG
1 GATTAAACTACAAGTCGAATAAAGTGACCAA
15692952 GATT
1 GATT
15692956 GAACCGTGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (31 bp):
GATTAAACTACAAGTCGAATAAAGTGACCAA
Found at i:15693215 original size:32 final size:32
Alignment explanation
Indices: 15693179--15693420 Score: 163
Period size: 32 Copynumber: 7.5 Consensus size: 32
15693169 TGATATCAAA
*
15693179 TAATCTGAGCTTAAATTTCATTGGGTGTCAAC
1 TAATCTGAGCTTAAATTTCATTGGGTGCCAAC
* *
15693211 TAATCTGGGCTTAAATTTTCATTGAGTGCCAAC
1 TAATCTGAGCTTAAA-TTTCATTGGGTGCCAAC
* * ** * **
15693244 TAAACT-AACTTAAATTTTCATTAAGTACCAGT
1 TAATCTGAGCTTAAA-TTTCATTGGGTGCCAAC
*
15693276 TAAAT-TGACCTTAAAACTTT-ATTGGGTGCCAAC
1 T-AATCTGAGCTT-AAA-TTTCATTGGGTGCCAAC
* * *
15693309 TGAA-CT-AGGTTTAAATTTCATTGGATGCCAGC
1 T-AATCTGA-GCTTAAATTTCATTGGGTGCCAAC
* * *
15693341 TAAAT-TGGGTTTAAATTCTCATTGGGTGCTAAC
1 T-AATCTGAGCTTAAATT-TCATTGGGTGCCAAC
* * *
15693374 TAAACTAAGCTTAAATTTCATTGGGTGCTAAC
1 TAATCTGAGCTTAAATTTCATTGGGTGCCAAC
* *
15693406 TAAGCTGGGCTTAAA
1 TAATCTGAGCTTAAA
15693421 ACTTGGGCGC
Statistics
Matches: 164, Mismatches: 35, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
31 3 0.02
32 93 0.57
33 62 0.38
34 6 0.04
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (32 bp):
TAATCTGAGCTTAAATTTCATTGGGTGCCAAC
Found at i:15693420 original size:65 final size:64
Alignment explanation
Indices: 15693186--15693513 Score: 234
Period size: 65 Copynumber: 5.1 Consensus size: 64
15693176 AAATAATCTG
* * *
15693186 AGCTTAAATTTCATTGGGTGTCAACTAATCTGGGCTTAAATTTTCATTGAGTGCCAACTAAACTA
1 AGCTTAAATTTCATTGGGTGCCAACTAAACTGGGCTTAAA-TTTCATTGGGTGCCAACTAAACTA
** * ** * ** *
15693251 A-CTTAAATTTTCATTAAGTACCAGTTAAATTGACCTTAAAACTTT-ATTGGGTGCCAACTGAAC
1 AGCTTAAA-TTTCATTGGGTGCCAACTAAACTGGGCTT-AAA-TTTCATTGGGTGCCAACTAAAC
15693314 TA
63 TA
* * * * * * *
15693316 GGTTTAAATTTCATTGGATGCCAGCTAAATTGGGTTTAAATTCTCATTGGGTGCTAACTAAACTA
1 AGCTTAAATTTCATTGGGTGCCAACTAAACTGGGCTTAAATT-TCATTGGGTGCCAACTAAACTA
* * * * * *
15693381 AGCTTAAATTTCATTGGGTGCTAACTAAGCTGGGCTTAAA--AC-TTGGGCGCCAGCTAAATTA
1 AGCTTAAATTTCATTGGGTGCCAACTAAACTGGGCTTAAATTTCATTGGGTGCCAACTAAACTA
* * * ** * * * * * * *
15693442 GGCTTATATTTCATTAGGTGATAGCTAAAATAGGCTTAAATTTCATCGAGTGCCAGCTAAGCTA
1 AGCTTAAATTTCATTGGGTGCCAACTAAACTGGGCTTAAATTTCATTGGGTGCCAACTAAACTA
*
15693506 GGCTTAAA
1 AGCTTAAA
15693514 ACCTGGGTAC
Statistics
Matches: 202, Mismatches: 53, Indels: 17
0.74 0.19 0.06
Matches are distributed among these distances:
61 47 0.23
62 1 0.00
63 3 0.01
64 31 0.15
65 109 0.54
66 11 0.05
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (64 bp):
AGCTTAAATTTCATTGGGTGCCAACTAAACTGGGCTTAAATTTCATTGGGTGCCAACTAAACTA
Found at i:15693483 original size:93 final size:93
Alignment explanation
Indices: 15693335--15693554 Score: 260
Period size: 93 Copynumber: 2.4 Consensus size: 93
15693325 TTCATTGGAT
* * * * * * *
15693335 GCCAGCTAAATTGGGTTTAAATTCTCATTGGGTGCTAACTAAACTAAGCTTAAATTTCATTGGGT
1 GCCAGCTAAATTAGGCTTAAATT-TCATTAGGTGATAACTAAAATAAGCTTAAATTTCATCGAGT
* * *
15693400 GCTAACTAAGCTGGGCTTAAAACTTGGGC
65 GCCAACTAAGCTAGGCTTAAAACCTGGGC
* * *
15693429 GCCAGCTAAATTAGGCTTATATTTCATTAGGTGATAGCTAAAATAGGCTTAAATTTCATCGAGTG
1 GCCAGCTAAATTAGGCTTAAATTTCATTAGGTGATAACTAAAATAAGCTTAAATTTCATCGAGTG
* *
15693494 CCAGCTAAGCTAGGCTTAAAACCTGGGT
66 CCAACTAAGCTAGGCTTAAAACCTGGGC
* * * *
15693522 ACCAGCTAAACTATGCTTAAATTTCAATAGGTG
1 GCCAGCTAAATTAGGCTTAAATTTCATTAGGTG
15693555 CTAAATAATT
Statistics
Matches: 106, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
93 86 0.81
94 20 0.19
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (93 bp):
GCCAGCTAAATTAGGCTTAAATTTCATTAGGTGATAACTAAAATAAGCTTAAATTTCATCGAGTG
CCAACTAAGCTAGGCTTAAAACCTGGGC
Found at i:15693500 original size:32 final size:32
Alignment explanation
Indices: 15693300--15693555 Score: 93
Period size: 32 Copynumber: 8.2 Consensus size: 32
15693290 AACTTTATTG
* * * *
15693300 GGTGCCAACTGAACTAGGTTTAAATTTCATTG-
1 GGTGCCAGCTAAAATAGGCTTAAATTTCA-TGA
* * * *
15693332 GATGCCAGCTAAATTGGGTTTAAATTCTCATTG-
1 GGTGCCAGCTAAAATAGGCTTAAATT-TCA-TGA
* * * *
15693365 GGTGCTAACTAAACTAAGCTTAAATTTCATTG-
1 GGTGCCAGCTAAAATAGGCTTAAATTTCA-TGA
* * ** * * *
15693397 GGTGCTAACTAAGCTGGGCTTAAA--ACTTG-
1 GGTGCCAGCTAAAATAGGCTTAAATTTCATGA
* * * *
15693426 GGCGCCAGCTAAATTAGGCTTATATTTCATTA
1 GGTGCCAGCTAAAATAGGCTTAAATTTCATGA
**
15693458 GGTGATAGCTAAAATAGGCTTAAATTTCATCGA
1 GGTGCCAGCTAAAATAGGCTTAAATTTCAT-GA
** * *
15693491 -GTGCCAGCTAAGCTAGGCTTAAA--ACCTG-
1 GGTGCCAGCTAAAATAGGCTTAAATTTCATGA
* * *
15693519 GGTACCAGCTAAACTATGCTTAAATTTCAAT-A
1 GGTGCCAGCTAAAATAGGCTTAAATTTC-ATGA
15693551 GGTGC
1 GGTGC
15693556 TAAATAATTT
Statistics
Matches: 169, Mismatches: 45, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
29 40 0.24
30 3 0.02
31 3 0.02
32 97 0.57
33 26 0.15
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (32 bp):
GGTGCCAGCTAAAATAGGCTTAAATTTCATGA
Found at i:15694956 original size:18 final size:19
Alignment explanation
Indices: 15694922--15694958 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15694912 TCTTTCATTC
*
15694922 TTTCATTCTTTCTTTTCTT
1 TTTCATTCTTTCATTTCTT
15694941 TTTCATT-TTTCATTTCTT
1 TTTCATTCTTTCATTTCTT
15694959 CTTTTCTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCATTCTTTCATTTCTT
Found at i:15694960 original size:26 final size:27
Alignment explanation
Indices: 15694914--15694965 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
15694904 TTCAGTCCTC
15694914 TTTCATTCTTTCATTCTTTCTTTTCTT
1 TTTCATTCTTTCATTCTTTCTTTTCTT
15694941 TTTCATT-TTTCATT-TCTTCTTTTCT
1 TTTCATTCTTTCATTCT-TTCTTTTCT
15694966 CTAAATGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTCATTCTTTCATTCTTTCTTTTCTT
Found at i:15695989 original size:41 final size:41
Alignment explanation
Indices: 15695918--15696037 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
15695908 ATCAAATTTG
* * * *
15695918 AATTCTTAAAAATGTTATTTTTGCTTGATCTTCTAAGATTA
1 AATTCTTAAAAATGTCATGTATGCCTGATCTTCTAAGATTA
* * *
15695959 AATTCTTAAAAATGTCATGTATGCCAGATCTTATAGGATTA
1 AATTCTTAAAAATGTCATGTATGCCTGATCTTCTAAGATTA
* *
15696000 ATTTCTTAAAAATGTCATGTATGTCTGATCTTCTAAGA
1 AATTCTTAAAAATGTCATGTATGCCTGATCTTCTAAGA
15696038 ATCCCAATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (41 bp):
AATTCTTAAAAATGTCATGTATGCCTGATCTTCTAAGATTA
Found at i:15701113 original size:13 final size:12
Alignment explanation
Indices: 15701087--15701133 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
15701077 TCGTTTTAAT
15701087 GTTTCATTTAGG
1 GTTTCATTTAGG
15701099 GTTTCATTCTAGG
1 GTTTCATT-TAGG
*
15701112 GTTTTAATTTAGG
1 G-TTTCATTTAGG
*
15701125 GTTTTATTT
1 GTTTCATTT
15701134 TAGGATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 15 0.48
13 10 0.32
14 6 0.19
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.55
Consensus pattern (12 bp):
GTTTCATTTAGG
Found at i:15701135 original size:13 final size:13
Alignment explanation
Indices: 15701093--15701137 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
15701083 TAATGTTTCA
*
15701093 TTTAGGGTTTCAT
1 TTTAGGGTTTTAT
* *
15701106 TCTAGGGTTTTAA
1 TTTAGGGTTTTAT
15701119 TTTAGGGTTTTAT
1 TTTAGGGTTTTAT
15701132 TTTAGG
1 TTTAGG
15701138 ATTTAAAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.53
Consensus pattern (13 bp):
TTTAGGGTTTTAT
Found at i:15701331 original size:24 final size:24
Alignment explanation
Indices: 15701291--15701336 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15701281 TTTATTAAAA
*
15701291 TTTATTATTATTATTTATTTATCT
1 TTTATTATTATTATTTAATTATCT
15701315 TTTATTATT-TTATTTTAATTAT
1 TTTATTATTATTA-TTTAATTAT
15701337 TTAATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATTATTATTATTTAATTATCT
Found at i:15701453 original size:19 final size:21
Alignment explanation
Indices: 15701426--15701474 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 21
15701416 TTTCAAAATT
15701426 TTATTTTTATCATATTT-TTA
1 TTATTTTTATCATATTTATTA
15701446 TT-TTTTTA-CATATTTATTA
1 TTATTTTTATCATATTTATTA
15701465 TTATTTTTAT
1 TTATTTTTAT
15701475 TTTTAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.27
19 11 0.42
20 8 0.31
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTTTTATCATATTTATTA
Found at i:15701457 original size:18 final size:18
Alignment explanation
Indices: 15701424--15701473 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 18
15701414 GTTTTCAAAA
*
15701424 TTTTATTTTTAT-CATAT
1 TTTTATTTTTTTACATAT
15701441 TTTTATTTTTTTACATAT
1 TTTTATTTTTTTACATAT
15701459 TTATTATTATTTTTA
1 TT-TTATT-TTTTTA
15701474 TTTTTAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.38
18 7 0.24
19 5 0.17
20 6 0.21
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATTTTTTTACATAT
Found at i:15701479 original size:18 final size:17
Alignment explanation
Indices: 15701424--15701479 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
15701414 GTTTTCAAAA
*
15701424 TTTTATTTTTATCATAT
1 TTTTATTTTTATTATAT
*
15701441 TTTTATTTTT-TTACAT
1 TTTTATTTTTATTATAT
* * *
15701457 ATTTATTATTATTTTTAT
1 TTTTATTTTTA-TTATAT
15701475 TTTTA
1 TTTTA
15701480 AGAAACATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 12 0.40
17 10 0.33
18 8 0.27
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTATTATAT
Found at i:15706171 original size:21 final size:21
Alignment explanation
Indices: 15706146--15706201 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
15706136 CTGTCGCTAA
*
15706146 ACCACTCATTGACTGGCGTTG
1 ACCACTCATTGACTAGCGTTG
*
15706167 ACCAC-CATTGACTAGTGTTG
1 ACCACTCATTGACTAGCGTTG
15706187 ACTCA-TCATTGACTA
1 AC-CACTCATTGACTA
15706202 ACGAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (21 bp):
ACCACTCATTGACTAGCGTTG
Found at i:15706372 original size:24 final size:25
Alignment explanation
Indices: 15706329--15706375 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
15706319 AAAACAAAAT
**
15706329 AATAAATATAAAATTTATAATAACG
1 AATAAATATAAAATAAATAATAACG
15706354 AATAAATA-AAAATAAATAATAA
1 AATAAATATAAAATAAATAATAA
15706376 AAAATAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
AATAAATATAAAATAAATAATAACG
Found at i:15713098 original size:26 final size:26
Alignment explanation
Indices: 15713042--15713096 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
15713032 GTTCACATTG
*
15713042 AAAATTTTTAATCCTTTTTTCGTTTT
1 AAAATTTTAAATCCTTTTTTCGTTTT
*
15713068 AAAATTTTAAAT-TTTTTTTC-TTTCT
1 AAAATTTTAAATCCTTTTTTCGTTT-T
15713093 AAAA
1 AAAA
15713097 ATAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 12 0.46
26 11 0.42
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (26 bp):
AAAATTTTAAATCCTTTTTTCGTTTT
Found at i:15714388 original size:13 final size:13
Alignment explanation
Indices: 15714370--15714416 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
15714360 AATGTTTCAC
15714370 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
*
15714383 AAAAAAATAA-AA
1 AAAAAAAAAAGAA
* *
15714395 GAAAAAAATAGTAA
1 AAAAAAAAAAG-AA
15714409 AAAAAAAA
1 AAAAAAAA
15714417 GACATGCATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 9 0.33
ACGTcount: A:0.87, C:0.00, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:15714394 original size:15 final size:15
Alignment explanation
Indices: 15714370--15714416 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
15714360 AATGTTTCAC
15714370 AAAAAA-AAAAGAAA
1 AAAAAATAAAAGAAA
15714384 AAAAAATAAAAGAAA
1 AAAAAATAAAAGAAA
*
15714399 AAAATAGTAAAA-AAA
1 AAAA-AATAAAAGAAA
15714414 AAA
1 AAA
15714417 GACATGCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 6 0.20
15 18 0.60
16 6 0.20
ACGTcount: A:0.87, C:0.00, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAAAATAAAAGAAA
Found at i:15716487 original size:22 final size:23
Alignment explanation
Indices: 15716417--15716482 Score: 89
Period size: 22 Copynumber: 2.9 Consensus size: 23
15716407 ACCTAAGCTC
*
15716417 AATTAGTTGACACTTTAAGCCTA
1 AATTAGTTGGCACTTTAAGCCTA
* **
15716440 AATTAGTTGGTA-TCCAAGCCTA
1 AATTAGTTGGCACTTTAAGCCTA
15716462 AATTAGTTGGCACTTTAAGCC
1 AATTAGTTGGCACTTTAAGCC
15716483 CAATTTAGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (23 bp):
AATTAGTTGGCACTTTAAGCCTA
Found at i:15716490 original size:23 final size:23
Alignment explanation
Indices: 15716417--15716490 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
15716407 ACCTAAGCTC
* *
15716417 AATTAGTTGACACTTTAAGCCTA
1 AATTAGTTGGCACTTTAAGCCCA
* ** *
15716440 AATTAGTTGGTA-TCCAAGCCTA
1 AATTAGTTGGCACTTTAAGCCCA
15716462 AATTAGTTGGCACTTTAAGCCCA
1 AATTAGTTGGCACTTTAAGCCCA
*
15716485 ATTTAG
1 AATTAG
15716491 CTAGCATTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 19 0.46
23 22 0.54
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (23 bp):
AATTAGTTGGCACTTTAAGCCCA
Found at i:15716642 original size:23 final size:23
Alignment explanation
Indices: 15716615--15716718 Score: 82
Period size: 23 Copynumber: 4.5 Consensus size: 23
15716605 GATATAAGCT
15716615 CAGATTAGCTGGCACTTTAAACC
1 CAGATTAGCTGGCACTTTAAACC
* * * **
15716638 CAGATTAGTTGACACTCTAAGTC
1 CAGATTAGCTGGCACTTTAAACC
* * * *
15716661 TAAATTAGCTAGTACTTTAAACC
1 CAGATTAGCTGGCACTTTAAACC
* * * **
15716684 TAGATTAACTAGCACTTTAAGTC
1 CAGATTAGCTGGCACTTTAAACC
15716707 CAGATTAGCTGG
1 CAGATTAGCTGG
15716719 TACTGATAGG
Statistics
Matches: 59, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (23 bp):
CAGATTAGCTGGCACTTTAAACC
Found at i:15716705 original size:46 final size:46
Alignment explanation
Indices: 15716618--15716722 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 46
15716608 ATAAGCTCAG
* * * *
15716618 ATTAGCTGGCACTTTAAACCCAGATTAGTTGACACTCTAAGTCTAA
1 ATTAGCTGGTACTTTAAACCCAGATTACTAGACACTCTAAGTCCAA
* * * *
15716664 ATTAGCTAGTACTTTAAACCTAGATTAACTAG-CACTTTAAGTCCAG
1 ATTAGCTGGTACTTTAAACCCAGATT-ACTAGACACTCTAAGTCCAA
15716710 ATTAGCTGGTACT
1 ATTAGCTGGTACT
15716723 GATAGGATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 46 0.94
47 3 0.06
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (46 bp):
ATTAGCTGGTACTTTAAACCCAGATTACTAGACACTCTAAGTCCAA
Found at i:15717219 original size:42 final size:43
Alignment explanation
Indices: 15717100--15717246 Score: 172
Period size: 42 Copynumber: 3.4 Consensus size: 43
15717090 ATATGAAAAA
* * * *
15717100 TTTAAAA-TTGTTAAACCTCTGCTTAGATAAGCCATTTAAATT
1 TTTAAAAGTTGTTAAGCCTCTACTTAGATGAGCTATTTAAATT
** * * * *
15717142 TTTAAAAAGTTGTCCAGCTTCTACTTATAGGAGCTAATTAAATT
1 TTT-AAAAGTTGTTAAGCCTCTACTTAGATGAGCTATTTAAATT
*
15717186 TTTAAAA-TTGTTGAGCCTCTACTTAGATGAGCTATTTAAATT
1 TTTAAAAGTTGTTAAGCCTCTACTTAGATGAGCTATTTAAATT
15717228 TTTAAAAGTTGTTAAGCCT
1 TTTAAAAGTTGTTAAGCCT
15717247 TTGGTAAGAT
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 39 0.46
43 18 0.21
44 28 0.33
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (43 bp):
TTTAAAAGTTGTTAAGCCTCTACTTAGATGAGCTATTTAAATT
Found at i:15717257 original size:43 final size:42
Alignment explanation
Indices: 15717100--15717264 Score: 143
Period size: 42 Copynumber: 3.9 Consensus size: 42
15717090 ATATGAAAAA
* * * * *
15717100 TTTAAAATTGTTAAACCTCTGCTTAGATAAGCCATTTAAATT
1 TTTAAAATTGTTAAGCCTCTACTAAGATGAGCTATTTAAATT
** * * * * *
15717142 TTTAAAAAGTTGTCCAGCTTCTACTTATAGGAGCTAATTAAATT
1 TTT-AAAA-TTGTTAAGCCTCTACTAAGATGAGCTATTTAAATT
* *
15717186 TTTAAAATTGTTGAGCCTCTACTTAGATGAGCTATTTAAATT
1 TTTAAAATTGTTAAGCCTCTACTAAGATGAGCTATTTAAATT
* **
15717228 TTTAAAAGTTGTTAAGCCTTTGGTAAGATGAGC-ATTT
1 TTTAAAA-TTGTTAAGCCTCTACTAAGATGAGCTATTT
15717265 TGATTTGATC
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
42 43 0.43
43 28 0.28
44 28 0.28
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (42 bp):
TTTAAAATTGTTAAGCCTCTACTAAGATGAGCTATTTAAATT
Found at i:15718514 original size:21 final size:20
Alignment explanation
Indices: 15718488--15718533 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
15718478 AGGGCATGTT
**
15718488 AAAATAAATGTAATAATGATA
1 AAAATAAAAATAATAAT-ATA
*
15718509 AAAATAAAAATAATAATATT
1 AAAATAAAAATAATAATATA
15718529 AAAAT
1 AAAAT
15718534 TCATAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAATAAAAATAATAATATA
Found at i:15718661 original size:13 final size:13
Alignment explanation
Indices: 15718618--15718661 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
15718608 AATGAACTTT
15718618 ATAAAATAATAAT-
1 ATAAAA-AATAATA
*
15718631 ATAAAAAAAAGATA
1 ATAAAAAATA-ATA
15718645 ATAAAAAATAATA
1 ATAAAAAATAATA
15718658 ATAA
1 ATAA
15718662 TGGTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.11
13 15 0.56
14 9 0.33
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
ATAAAAAATAATA
Found at i:15718661 original size:16 final size:16
Alignment explanation
Indices: 15718620--15718662 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
15718610 TGAACTTTAT
15718620 AAAATAATAAT-ATAA
1 AAAATAATAATAATAA
*
15718635 AAAA-AA-GATAATAA
1 AAAATAATAATAATAA
15718649 AAAATAATAATAAT
1 AAAATAATAATAAT
15718663 GGTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 10 0.43
15 6 0.26
16 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (16 bp):
AAAATAATAATAATAA
Found at i:15719805 original size:21 final size:20
Alignment explanation
Indices: 15719779--15719824 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
15719769 AGGGCATGTT
**
15719779 AAAATAAATGTAATAATGATA
1 AAAATAAAAATAATAAT-ATA
*
15719800 AAAATAAAAATAATAATATT
1 AAAATAAAAATAATAATATA
15719820 AAAAT
1 AAAAT
15719825 TTATAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAATAAAAATAATAATATA
Found at i:15719951 original size:13 final size:13
Alignment explanation
Indices: 15719911--15719951 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
15719901 TGAACTTTAT
15719911 AAAATAATAATATA
1 AAAATAATAATA-A
*
15719925 AAAAAAGATAATAA
1 AAAATA-ATAATAA
15719939 AAAATAATAATAA
1 AAAATAATAATAA
15719952 TGGTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.29
14 11 0.46
15 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAATAATAATAA
Found at i:15721242 original size:13 final size:13
Alignment explanation
Indices: 15721202--15721242 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
15721192 TGAACTTTAT
15721202 AAAATAATAATATA
1 AAAATAATAATA-A
*
15721216 AAAAAAGATAATAA
1 AAAATA-ATAATAA
15721230 AAAATAATAATAA
1 AAAATAATAATAA
15721243 TGGTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.29
14 11 0.46
15 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAATAATAATAA
Found at i:15721633 original size:26 final size:25
Alignment explanation
Indices: 15721576--15721634 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
15721566 TAAAACCAAT
** *
15721576 AAAAAAAATAAAAAACTTTACCAAAC
1 AAAAAAAATAAAAAAAATTA-CAAAA
* *
15721602 AGAAAAAGTAAAAAAAATTACAAAA
1 AAAAAAAATAAAAAAAATTACAAAA
15721627 AAAAAAAA
1 AAAAAAAA
15721635 CTATATGCCT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.12
Consensus pattern (25 bp):
AAAAAAAATAAAAAAAATTACAAAA
Found at i:15729052 original size:9 final size:9
Alignment explanation
Indices: 15729052--15729076 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15729042 AAAGTAAAAA
15729052 AAAAAAAGC
1 AAAAAAAGC
15729061 AAAAAAAGC
1 AAAAAAAGC
15729070 AAAAAAA
1 AAAAAAA
15729077 AAAAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:15729066 original size:23 final size:23
Alignment explanation
Indices: 15729022--15729082 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
15729012 ATTAAATATG
* *
15729022 AAAAAGAAATAAAAACACAAAAAGT
1 AAAAA-AAA-AAAAACAAAAAAAGC
*
15729047 AAAAAAAAAAAAGCAAAAAAAGC
1 AAAAAAAAAAAAACAAAAAAAGC
15729070 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
15729083 AACTTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 24 0.75
24 3 0.09
25 5 0.16
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAAAAACAAAAAAAGC
Found at i:15730088 original size:24 final size:23
Alignment explanation
Indices: 15730021--15730088 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
15730011 TTAATATAAC
*
15730021 TATTAAAATATTAAAAATGATTTAT
1 TATT-AAATATT-AAAATTATTTAT
* *
15730046 TATTACAACATTGAAATTATTTAT
1 TATTA-AATATTAAAATTATTTAT
*
15730070 TATTAAATTATTAATATTA
1 TATTAAA-TATTAAAATTA
15730089 AAAATAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.06
24 24 0.69
25 9 0.26
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (23 bp):
TATTAAATATTAAAATTATTTAT
Found at i:15730496 original size:15 final size:16
Alignment explanation
Indices: 15730458--15730498 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15730448 AAATGATAAA
15730458 AATATTATTTACTATAT
1 AATATTATTTAC-ATAT
15730475 AA-A-TATTTA-ATAT
1 AATATTATTTACATAT
15730488 AATATTATTTA
1 AATATTATTTA
15730499 TTATTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.27
14 1 0.05
15 12 0.55
16 1 0.05
17 2 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTATTTACATAT
Found at i:15730930 original size:22 final size:21
Alignment explanation
Indices: 15730905--15730955 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
15730895 CAAAAAAAAT
15730905 TTATTTTTCATTGATTAAGAA
1 TTATTTTTCATTGATTAAGAA
* *
15730926 GTTATTTTTTATTTATTAAGAA
1 -TTATTTTTCATTGATTAAGAA
*
15730948 ATATTTTT
1 TTATTTTT
15730956 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (21 bp):
TTATTTTTCATTGATTAAGAA
Found at i:15739959 original size:15 final size:14
Alignment explanation
Indices: 15739940--15739993 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 14
15739930 AAGGATATCA
15739940 TATATAATATATAT
1 TATATAATATATAT
15739954 TAATATAATATATACT
1 T-ATATAATATATA-T
15739970 TATATAATAATATAAT
1 TATATAAT-ATAT-AT
15739986 TAT-TAATA
1 TATATAATA
15739994 AATCAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.06
15 23 0.64
16 10 0.28
17 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
TATATAATATATAT
Found at i:15740286 original size:23 final size:21
Alignment explanation
Indices: 15740242--15740293 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
15740232 AAGATGATTA
*
15740242 ATTTAAAAATTATGATAATTT
1 ATTTAATAATTATGATAATTT
*
15740263 ACATTTAATAATTAT-ATCACTTT
1 --ATTTAATAATTATGAT-AATTT
15740286 ATTTAATA
1 ATTTAATA
15740294 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 8 0.31
22 2 0.08
23 16 0.62
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTAATAATTATGATAATTT
Found at i:15759723 original size:22 final size:22
Alignment explanation
Indices: 15759695--15759759 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
15759685 TTTTTTGTCT
*
15759695 TTAATTCTAGGGATATAAATAC
1 TTAATTCTAGAGATATAAATAC
15759717 TTAATTCTAGAGATATAAATAC
1 TTAATTCTAGAGATATAAATAC
*
15759739 TTAATTCTAAAGATATAAATA
1 TTAATTCTAGAGATATAAATA
15759760 TAAATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (22 bp):
TTAATTCTAGAGATATAAATAC
Done.