Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 91 of 125
Found at i:17823926 original size:293 final size:289
Alignment explanation
Indices: 17823399--17824184 Score: 1028
Period size: 293 Copynumber: 2.7 Consensus size: 289
17823389 TTTATGATGA
* * * * *
17823399 GATTATTGAAGGCATTTTTTGTCAAAAATACATTCAATAATCCTAGCATTTTTTTTTA-AATATC
1 GATTATTGAAGGCGTTTTTTGTCAAAAATACTTTCAATAATCCCAACA-TTTTTTTTAGAATATT
* * * * *
17823463 CAAGCT-TTTTTGCCTAGAAAACATCTTGAATAATCCTCTTCAATTTTTATGATGGGATTATTAA
65 CAAGGTATTTTTGCC-AGAAAACACCTTGAATAAT-C-CTTCAATTTTTATGATTGGATGATTGA
* *
17823527 AGGTATTTTTAGCCAAAAAATACCTTGAATAATTTGTTACAAAATATTGAATGGGGTTATTGAAG
127 AGGTATTTTTAGCCAAAAAATACCTTTAATAATCTGTTACAAAATATTGAATGGGGTTATTGAAG
17823592 GTATTTTCTAGCTAAAAATGCCTTGAATAATTCATGGATTATTCAAAGTGTTTTGGACCAAAAAT
192 GTA-TTTCT-GCTAAAAATGCCTTGAATAATTCATGGATTATTCAAAGTGTTTTGGACCAAAAAT
* * * * *
17823657 GCCTTTTATAACTCATGAATTATTCATTTAGCGAG
255 GCCTTCTATAACCCATGAAATATTCATTCAGAGAG
* * *
17823692 GATTATTGAAGGCGTTTTTTGTCAAAAATGCTTTCAATAATCCCATCATTTTTTTTGGAATATTC
1 GATTATTGAAGGCGTTTTTTGTCAAAAATACTTTCAATAATCCCAACATTTTTTTTAGAATATTC
* *
17823757 AAGGTATTTTTGCTCATAAAACGCCTTGAATAATCCTATCAATTTTTATGATTGGATGATTGAAG
66 AAGGTATTTTTGC-CAGAAAACACCTTGAATAATCCT-TCAATTTTTATGATTGGATGATTGAAG
* * *
17823822 GTGTTTTTAGCCAAAAAAACACCTTTAATAATCTCTTACAAAATATTGAATGGGGTTATTGAAGG
129 GTATTTTTAGCC-AAAAAATACCTTTAATAATCTGTTACAAAATATTGAATGGGGTTATTGAAGG
** * *
17823887 TATTTCTGTCTAAAAATGCCTTGAATAATTTGTGGATTATTCAAGGTGTTTTTGACCAAAAATGC
193 TATTTCTG-CTAAAAATGCCTTGAATAATTCATGGATTATTCAAAGTGTTTTGGACCAAAAATGC
*
17823952 CTTCTATAACCCATGAAATATTCATTCAGAGGG
257 CTTCTATAACCCATGAAATATTCATTCAGAGAG
* *
17823985 GATTATTGAAGGTGTTTTTTGTCAAAAACACCTTT-AATAATCCCAACA-TTTTTTTAGAATATT
1 GATTATTGAAGGCGTTTTTTGTCAAAAATA-CTTTCAATAATCCCAACATTTTTTTTAGAATATT
17824048 CAAGGTATTTTTGCCCAGAAAACACCTTGAATAATCATCTTCAATTTTTATGA-T-GA-GATATG
65 CAAGGTATTTTTG-CCAGAAAACACCTTGAATAATC--CTTCAATTTTTATGATTGGATGAT-TG
* * * * * *
17824110 AAGGCATTTTTTGCTAGAAAATACCTTTAATAATCAGTAACAAAATATTGAATGGGGTTATTGAA
126 AAGGTATTTTTAGCCAAAAAATACCTTTAATAATCTGTTACAAAATATTGAATGGGGTTATTGAA
* *
17824175 AGTGTTTCTG
191 GGTATTTCTG
17824185 GGAAAAAATG
Statistics
Matches: 435, Mismatches: 47, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
290 56 0.13
291 15 0.03
292 58 0.13
293 226 0.52
294 79 0.18
295 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (289 bp):
GATTATTGAAGGCGTTTTTTGTCAAAAATACTTTCAATAATCCCAACATTTTTTTTAGAATATTC
AAGGTATTTTTGCCAGAAAACACCTTGAATAATCCTTCAATTTTTATGATTGGATGATTGAAGGT
ATTTTTAGCCAAAAAATACCTTTAATAATCTGTTACAAAATATTGAATGGGGTTATTGAAGGTAT
TTCTGCTAAAAATGCCTTGAATAATTCATGGATTATTCAAAGTGTTTTGGACCAAAAATGCCTTC
TATAACCCATGAAATATTCATTCAGAGAG
Found at i:17825869 original size:159 final size:158
Alignment explanation
Indices: 17825562--17825883 Score: 455
Period size: 159 Copynumber: 2.0 Consensus size: 158
17825552 TCGGTATTTT
* **
17825562 AATATGTGATTTATGTAATTTTTTTCTAGAAAATCAAAGAACAACAAAAGAACATTCGAGCCAAA
1 AATATATGATTTACATAATTTTTTTCTAGAAAATCAAAGAACAACAAAAGAACATTCGAGCCAAA
* * *
17825627 CAAGTATATCACCATCAAACATTAAGAAAGGGTTATGCAAATGTTAAGTATAAGCTTGTAAGTAT
66 CAAGTATATCACCATCAAACATTAAGAAAAGGTTATGCAAATGTCAACTATAAGCTTGTAAGTAT
* *
17825692 TCACACATTTGTTTTATACTCACAAATG
131 TCACACACTTGTTTTATACTCACAAATA
* * * * **
17825720 AATATATGATTTACATAATTTTTTTTTTAGAAAATCAAAGAATAACAAAAGAACATTTGGGTTAA
1 AATATATGATTTACATAA-TTTTTTTCTAGAAAATCAAAGAACAACAAAAGAACATTCGAGCCAA
*** * *
17825785 ACAAGTATATCACCATTGGACATTGAGAAAAGGTTATGCAAATGTCAACTATGAGCTTGTAAGTA
65 ACAAGTATATCACCATCAAACATTAAGAAAAGGTTATGCAAATGTCAACTATAAGCTTGTAAGTA
*
17825850 TTCACACACTTGTTTTATACTCATAAATA
130 TTCACACACTTGTTTTATACTCACAAATA
17825879 AATAT
1 AATAT
17825884 TTATAAACAT
Statistics
Matches: 143, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
158 15 0.10
159 128 0.90
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (158 bp):
AATATATGATTTACATAATTTTTTTCTAGAAAATCAAAGAACAACAAAAGAACATTCGAGCCAAA
CAAGTATATCACCATCAAACATTAAGAAAAGGTTATGCAAATGTCAACTATAAGCTTGTAAGTAT
TCACACACTTGTTTTATACTCACAAATA
Found at i:17828260 original size:12 final size:12
Alignment explanation
Indices: 17828243--17828268 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17828233 GAAAAAATTA
17828243 AATATTTATATG
1 AATATTTATATG
17828255 AATATTTATATG
1 AATATTTATATG
17828267 AA
1 AA
17828269 CATAGAAAAA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (12 bp):
AATATTTATATG
Found at i:17828576 original size:62 final size:62
Alignment explanation
Indices: 17828434--17828985 Score: 249
Period size: 64 Copynumber: 8.9 Consensus size: 62
17828424 CTCCTTCAAT
* * * * * * * * **
17828434 TTTTTTGATTGGATTACTGAAGATGTTTTTAGCCAGAAAACACCTTGAATAATCCCCTCAACAAA
1 TTTTTTCATAGGATTATTGAAGGTGTTTTTGGACA-AAAATACCTTCAATAATCCTTTC--C-AA
17828499 A
62 A
* * *
17828500 TTTTTT-ATATGGATTATTAAAGGTGTTTATGGACAAAAATGCCTTCAATAATCCTTTCCAAA
1 TTTTTTCATA-GGATTATTGAAGGTGTTTTTGGACAAAAATACCTTCAATAATCCTTTCCAAA
** *
17828562 TTTTTTCATAGGATTATTGAAGGTGTTTTTTTTTATCAAAAATTACCTTCAATAATCCCTTCCAA
1 TTTTTTCATAGGATTATTGAAGGTG--TTTTTGGA-CAAAAA-TACCTTCAATAATCCTTTCCAA
17828627 A
62 A
* * ** * * *
17828628 TTTTTTCACAAGATTATTGAAGGCATTTTTGGTCAAAAATACCTTCAATAATCCTCTCAATAA
1 TTTTTTCATAGGATTATTGAAGGTGTTTTTGGACAAAAATACCTTCAATAATCCTTTCCA-AA
* * ** * * * * *
17828691 ATTTTT-ATGAAGGATAATTGAAGGCATTTTTTGTCAAAAACACCTTTAATAATTCCTCT-CAAA
1 TTTTTTCAT--AGGATTATTGAAGGTGTTTTTGGACAAAAATACCTTCAATAA-TCCTTTCCAAA
* * ** * *
17828754 ---TTT--T--G----TTG-AGGGGATTATTGGCTAAAAATACCTTCAATAATCCTCTCAATAA
1 TTTTTTCATAGGATTATTGAAGGTG-TTTTTGGACAAAAATACCTTCAATAATCCTTTCCA-AA
* * ** * * * * *
17828806 ATTTTT-ATGAAGAATTATTGAAGGCATTTTTTGTCAAAGATGCCTTCAATAATCCCTTT-AAAA
1 TTTTTTCAT--AGGATTATTGAAGGTGTTTTTGGACAAAAATACCTTCAATAAT-CCTTTCCAAA
* * * ** * * *
17828869 TTTTTTTAGAGGATTATTTAAGGAATTTTTGGTCAAAAATACCTTCAATATTCTCTTTTCAAAA
1 TTTTTTCATAGGATTATTGAAGGTGTTTTTGGACAAAAATACCTTCAATAATC-C-TTTCCAAA
* ** * *
17828933 TTTTTTGAATA-GATTATTGAAGGCATTTTTGGTCAAAAATGCCTTCAATAATC
1 TTTTTT-CATAGGATTATTGAAGGTGTTTTTGGACAAAAATACCTTCAATAATC
17828986 TCATTCAATT
Statistics
Matches: 384, Mismatches: 70, Indels: 66
0.74 0.13 0.13
Matches are distributed among these distances:
50 9 0.02
51 24 0.06
52 2 0.01
55 4 0.01
56 1 0.00
59 1 0.00
60 3 0.01
61 1 0.00
62 79 0.21
63 29 0.08
64 123 0.32
65 41 0.11
66 67 0.17
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (62 bp):
TTTTTTCATAGGATTATTGAAGGTGTTTTTGGACAAAAATACCTTCAATAATCCTTTCCAAA
Found at i:17828657 original size:66 final size:62
Alignment explanation
Indices: 17828533--17828985 Score: 253
Period size: 64 Copynumber: 7.3 Consensus size: 62
17828523 TGTTTATGGA
* * * * ** *
17828533 CAAAAATGCCTTCAATAATCCTTTCCAAATTTTTTCATAGGATTATTGAAGGTGTTTTTTTTTAT
1 CAAAAATACCTTCAATAATCCCTTCCAAATTTTTTCACAAGATTATTGAA-G-G-CATTTTTGAT
*
17828598 CAAAAATTACCTTCAATAATCCCTTCCAAATTTTTTCACAAGATTATTGAAGGCATTTTTGGT
1 CAAAAA-TACCTTCAATAATCCCTTCCAAATTTTTTCACAAGATTATTGAAGGCATTTTTGAT
* * * *
17828661 CAAAAATACCTTCAATAAT-CCTCTCAATAAATTTTTATGA-AGGATAATTGAAGGCATTTTTTG
1 CAAAAATACCTTCAATAATCCCT-TC--CAAATTTTT-TCACAAGATTATTGAAGGCA-TTTTTG
17828724 -T
61 AT
* * * * * * *
17828725 CAAAAACACCTTTAATAATTCC-TCTCAAA--TTTT-----G----TTGAGGGGATTATTGGCT
1 CAAAAATACCTTCAATAATCCCTTC-CAAATTTTTTCACAAGATTATTGAAGGCATT-TTTGAT
* * *
17828777 -AAAAATACCTTCAATAAT-CCTCTCAATAAATTTTT-ATGAAGAATTATTGAAGGCATTTTTTG
1 CAAAAATACCTTCAATAATCCCT-TCCA-AATTTTTTCA-CAAG-ATTATTGAAGGCA-TTTTTG
17828839 -T
61 AT
* * ** * * * * * *
17828840 CAAAGATGCCTTCAATAATCCCTTTAAAATTTTTTTAGAGGATTATTTAAGGAATTTTTGGT
1 CAAAAATACCTTCAATAATCCCTTCCAAATTTTTTCACAAGATTATTGAAGGCATTTTTGAT
* * * * *
17828902 CAAAAATACCTTCAATATTCTCTTTTCAAAATTTTTTGA-ATAGATTATTGAAGGCATTTTTGGT
1 CAAAAATACCTTCAATAATC-C-CTTCCAAATTTTTTCACA-AGATTATTGAAGGCATTTTTGAT
*
17828966 CAAAAATGCCTTCAATAATC
1 CAAAAATACCTTCAATAATC
17828986 TCATTCAATT
Statistics
Matches: 313, Mismatches: 43, Indels: 65
0.74 0.10 0.15
Matches are distributed among these distances:
50 4 0.01
51 27 0.09
52 5 0.02
54 4 0.01
55 1 0.00
59 2 0.01
60 3 0.01
61 9 0.03
62 47 0.15
63 27 0.09
64 122 0.39
65 22 0.07
66 40 0.13
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (62 bp):
CAAAAATACCTTCAATAATCCCTTCCAAATTTTTTCACAAGATTATTGAAGGCATTTTTGAT
Found at i:17828870 original size:115 final size:114
Alignment explanation
Indices: 17828662--17828886 Score: 342
Period size: 115 Copynumber: 2.0 Consensus size: 114
17828652 ATTTTTGGTC
*
17828662 AAAAATACCTTCAATAATCCTCTCAATAAATTTTTATGAAGGATAATTGAAGGCATTTTTTGTCA
1 AAAAATACCTTCAATAATCCTCTCAATAAATTTTTATGAAGAATAATTGAAGGCATTTTTTGTCA
* * * *
17828727 AAAACACCTTTAATAATTCCTCTCAAATTTTGTTGAGGGGATTATTGGCT
66 AAAACACCTTCAATAATCCCTCTAAAATTTT-TTGAGAGGATTATTGGCT
*
17828777 AAAAATACCTTCAATAATCCTCTCAATAAATTTTTATGAAGAATTATTGAAGGCATTTTTTGTCA
1 AAAAATACCTTCAATAATCCTCTCAATAAATTTTTATGAAGAATAATTGAAGGCATTTTTTGTCA
* ** * *
17828842 AAGATGCCTTCAATAATCCCTTTAAAATTTTTTTAGAGGATTATT
66 AAAACACCTTCAATAATCCCTCTAAAATTTTTTGAGAGGATTATT
17828887 TAAGGAATTT
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
114 12 0.12
115 87 0.88
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (114 bp):
AAAAATACCTTCAATAATCCTCTCAATAAATTTTTATGAAGAATAATTGAAGGCATTTTTTGTCA
AAAACACCTTCAATAATCCCTCTAAAATTTTTTGAGAGGATTATTGGCT
Found at i:17829627 original size:13 final size:13
Alignment explanation
Indices: 17829605--17829642 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
17829595 TTAATAAAAT
17829605 TATT-ATTTAATA
1 TATTAATTTAATA
* *
17829617 TTTTAATTTAAAA
1 TATTAATTTAATA
17829630 TATTAATTTAATA
1 TATTAATTTAATA
17829643 AAAATATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:17829666 original size:42 final size:40
Alignment explanation
Indices: 17829595--17829679 Score: 100
Period size: 42 Copynumber: 2.1 Consensus size: 40
17829585 TGTATATTTA
* *
17829595 TTAATAAAATTATTATTTAATATTTTAATTTAAAATATTAAT
1 TTAATAAAAATATTATTTAATATTATAA-TTAAAATA-TAAT
* *
17829637 TTAATAAAAATATTATATTTATA-TATAATTAAGATATAAT
1 TTAATAAAAATATTAT-TTAATATTATAATTAAAATATAAT
17829677 TTA
1 TTA
17829680 GTTTAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 7 0.18
41 7 0.18
42 19 0.50
43 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (40 bp):
TTAATAAAAATATTATTTAATATTATAATTAAAATATAAT
Found at i:17831328 original size:31 final size:31
Alignment explanation
Indices: 17831292--17831353 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
17831282 ATTGGAGTTA
*
17831292 TTTTTTTTTTCATTTTTCTATTTGCATGTAGG
1 TTTTTCTTTT-ATTTTTCTATTTGCATGTAGG
* *
17831324 TTTTTCTTTTTTTTTTCTTTTTGCATGTAG
1 TTTTTCTTTTATTTTTCTATTTGCATGTAG
17831354 AATTCCTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.10, C:0.10, G:0.11, T:0.69
Consensus pattern (31 bp):
TTTTTCTTTTATTTTTCTATTTGCATGTAGG
Found at i:17836134 original size:22 final size:22
Alignment explanation
Indices: 17836091--17836135 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
17836081 TAAAATTAAA
*
17836091 TATTATATTTTGATTTGCTATT
1 TATTATATTTTGATTTGATATT
*
17836113 TATTA-ATTTATGATTTTATATT
1 TATTATATTT-TGATTTGATATT
17836135 T
1 T
17836136 GAAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (22 bp):
TATTATATTTTGATTTGATATT
Found at i:17836403 original size:8 final size:7
Alignment explanation
Indices: 17836370--17836400 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
17836360 CTTAAGATTC
17836370 AAAATT-
1 AAAATTA
17836376 AAAATTA
1 AAAATTA
17836383 AAAATTA
1 AAAATTA
17836390 AAAATTA
1 AAAATTA
17836397 AAAA
1 AAAA
17836401 ATTTAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:17845941 original size:19 final size:19
Alignment explanation
Indices: 17845919--17845960 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17845909 TTGGGGTTTA
17845919 GTTTAGCATTTGGTTTAGG
1 GTTTAGCATTTGGTTTAGG
* **
17845938 GTTTGGGGTTTGGTTTAGG
1 GTTTAGCATTTGGTTTAGG
17845957 GTTT
1 GTTT
17845961 GGTTAGATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.02, G:0.38, T:0.50
Consensus pattern (19 bp):
GTTTAGCATTTGGTTTAGG
Found at i:17846120 original size:20 final size:20
Alignment explanation
Indices: 17846074--17846572 Score: 254
Period size: 20 Copynumber: 25.5 Consensus size: 20
17846064 GTTCAATCTA
*
17846074 GGTTTGGTTT-GGGTTTTA-
1 GGTTTGGTTTAGGGTTTAAG
17846092 GGTTTGGTTTAGGGTTTAAG
1 GGTTTGGTTTAGGGTTTAAG
* * *
17846112 GGCTTGGTTTAAGGTTTAAA
1 GGTTTGGTTTAGGGTTTAAG
* * *
17846132 GGCTTGGTTTAGGTTTTAAA
1 GGTTTGGTTTAGGGTTTAAG
* *
17846152 GGTTTGGTTTGGGGTTTGAG
1 GGTTTGGTTTAGGGTTTAAG
17846172 GGTTTGGTTTAGGGTTTAAG
1 GGTTTGGTTTAGGGTTTAAG
** * *
17846192 GGTTTCAATTT-GACGTTTGAG
1 GGTTT-GGTTTAG-GGTTTAAG
* *
17846213 TGTTTAGTTT-GGGATTT-AG
1 GGTTTGGTTTAGGG-TTTAAG
*
17846232 GATTT-G---A---TTT-AG
1 GGTTTGGTTTAGGGTTTAAG
* *
17846244 GTTTTGGTTTGGGGTTTAAG
1 GGTTTGGTTTAGGGTTTAAG
* * *
17846264 GTTTTGATTTA-GGTTT--T
1 GGTTTGGTTTAGGGTTTAAG
* *
17846281 GATTTGGGGTTTAAGGGTTTTA-
1 GGTTT--GGTTT-AGGGTTTAAG
* * *
17846303 -GTTTAGTTTGGGGTCTAAG
1 GGTTTGGTTTAGGGTTTAAG
** *
17846322 AGGTTTTATTTAAGGTTTAAG
1 -GGTTTGGTTTAGGGTTTAAG
*
17846343 GGTTTGGCTTAGGGTTTAAG
1 GGTTTGGTTTAGGGTTTAAG
* *
17846363 GGTTTGTTTTGGGGTTTAA-
1 GGTTTGGTTTAGGGTTTAAG
* * * *
17846382 TGTATTGGCTTAGTGTTTAGG
1 GGT-TTGGTTTAGGGTTTAAG
*
17846403 GGTTTTTGTTTAGGGTTTAAG
1 GG-TTTGGTTTAGGGTTTAAG
* * *
17846424 GATTT-GATTAAGGTTTAAG
1 GGTTTGGTTTAGGGTTTAAG
17846443 GGTTT-GTCTTAGGGTTTAAG
1 GGTTTGGT-TTAGGGTTTAAG
** * *
17846463 GGTTTATTTTGGGGTTCAAG
1 GGTTTGGTTTAGGGTTTAAG
*
17846483 GGTTTGG-TTCGAGGTTTAAG
1 GGTTTGGTTTAG-GGTTTAAG
* ** * * *
17846503 GATTAAGTTTAGAGTTTGAT
1 GGTTTGGTTTAGGGTTTAAG
17846523 GGTTTGG-TTAGGGTTTAAG
1 GGTTTGGTTTAGGGTTTAAG
17846542 GGTTTTGGTTT-GGTGTTTAAG
1 GG-TTTGGTTTAGG-GTTTAAG
17846563 GGTTTGGTTT
1 GGTTTGGTTT
17846573 GAGGTTTATG
Statistics
Matches: 365, Mismatches: 83, Indels: 64
0.71 0.16 0.12
Matches are distributed among these distances:
12 9 0.02
13 1 0.00
17 4 0.01
18 17 0.05
19 62 0.17
20 206 0.56
21 65 0.18
22 1 0.00
ACGTcount: A:0.16, C:0.02, G:0.35, T:0.47
Consensus pattern (20 bp):
GGTTTGGTTTAGGGTTTAAG
Found at i:17846272 original size:32 final size:32
Alignment explanation
Indices: 17846219--17846301 Score: 123
Period size: 32 Copynumber: 2.6 Consensus size: 32
17846209 TGAGTGTTTA
* *
17846219 GTTTGGGATTT-AGGATTTGATTTAGGTTTTG
1 GTTTGGGGTTTAAGGTTTTGATTTAGGTTTTG
17846250 GTTTGGGGTTTAAGGTTTTGATTTAGGTTTTG
1 GTTTGGGGTTTAAGGTTTTGATTTAGGTTTTG
*
17846282 ATTTGGGGTTTAAGGGTTTT
1 GTTTGGGGTTTAA-GGTTTT
17846302 AGTTTAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 10 0.21
32 31 0.66
33 6 0.13
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (32 bp):
GTTTGGGGTTTAAGGTTTTGATTTAGGTTTTG
Found at i:17846292 original size:13 final size:12
Alignment explanation
Indices: 17846225--17846285 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
17846215 TTTAGTTTGG
*
17846225 GATTTAGGATTT
1 GATTTAGGTTTT
17846237 GATTTAGGTTTT
1 GATTTAGGTTTT
* * *
17846249 GGTTTGGGGTTT
1 GATTTAGGTTTT
17846261 -A---AGGTTTT
1 GATTTAGGTTTT
17846269 GATTTAGGTTTT
1 GATTTAGGTTTT
17846281 GATTT
1 GATTT
17846286 GGGGTTTAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
8 5 0.13
9 1 0.03
12 32 0.84
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (12 bp):
GATTTAGGTTTT
Found at i:17846313 original size:26 final size:26
Alignment explanation
Indices: 17846283--17846333 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
17846273 TAGGTTTTGA
*
17846283 TTTGGGGTTTAAG-GGTTTTAGTTTAG
1 TTTGGGGTCTAAGAGGTTTTA-TTTAG
17846309 TTTGGGGTCTAAGAGGTTTTATTTA
1 TTTGGGGTCTAAGAGGTTTTATTTA
17846334 AGGTTTAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.18, C:0.02, G:0.31, T:0.49
Consensus pattern (26 bp):
TTTGGGGTCTAAGAGGTTTTATTTAG
Found at i:17846438 original size:19 final size:20
Alignment explanation
Indices: 17846407--17846463 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
17846397 TTTAGGGGTT
*
17846407 TTTGT-TTAGGGTTTAAGGA
1 TTTGTATTAAGGTTTAAGGA
*
17846426 TTTG-ATTAAGGTTTAAGGG
1 TTTGTATTAAGGTTTAAGGA
* *
17846445 TTTGTCTTAGGGTTTAAGG
1 TTTGTATTAAGGTTTAAGG
17846464 GTTTATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.46
Consensus pattern (20 bp):
TTTGTATTAAGGTTTAAGGA
Found at i:17847616 original size:143 final size:145
Alignment explanation
Indices: 17847391--17847759 Score: 405
Period size: 145 Copynumber: 2.6 Consensus size: 145
17847381 AATTGTGATA
* * *
17847391 TGGAGCTTATT-GTAAAAAATTGATATTGAGAAGGTCAAATTACAAAAAT-ACCCTCAAAAGGCA
1 TGGAGCTT-TTCGTAAAAAATTGATCTTGAGAAGG-CAAATTACGAAAATGCCCCT-AAAAGGCA
** * * ** *
17847454 -TTCAATAATTTGAACC-TTTTCGAGGTACGATTAGGGTTTTCAATGCATCAAGATTCATG-AAA
63 TTTTGATAATTTTAACCTTTTTCGAGGTACGATCAAAGTTTTCAATGCATCAAAATTCATGAAAA
* *
17847516 TAATATCAAAACATAATC
128 TAAAATCAAAACACAATC
*
17847534 TGGAGCTTTTCGTAAAAAATTGATCTTGAG-AGGACTAAATTACGAAAATGCCCCTAAAAGGTAT
1 TGGAGCTTTTCGTAAAAAATTGATCTTGAGAAGG-C-AAATTACGAAAATGCCCCTAAAAGGCAT
* *
17847598 TTTGCTAATTTTAA-CTTTTTCGAGGTGCGATCAAAGTTTTCAATGCATCAAAATTCATGAAAAT
64 TTTGATAATTTTAACCTTTTTCGAGGTACGATCAAAGTTTTCAATGCATCAAAATTCATGAAAAT
* *
17847662 AAAATCAAAACACGATT
129 AAAATCAAAACACAATC
* * * * *
17847679 TGGAGCTTATCATGAAAAAA-TGACCTCGAGAAGGCCAAATTACGAAAATGCTCCTAAAAGGCAT
1 TGGAGCTTTTCGT-AAAAAATTGATCTTGAGAAGG-CAAATTACGAAAATGCCCCTAAAAGGCAT
*
17847743 TTTGGTAATTTT-ACCTT
64 TTTGATAATTTTAACCTT
17847760 CATGAGGTGC
Statistics
Matches: 191, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
142 6 0.03
143 46 0.24
144 53 0.28
145 76 0.40
146 10 0.05
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (145 bp):
TGGAGCTTTTCGTAAAAAATTGATCTTGAGAAGGCAAATTACGAAAATGCCCCTAAAAGGCATTT
TGATAATTTTAACCTTTTTCGAGGTACGATCAAAGTTTTCAATGCATCAAAATTCATGAAAATAA
AATCAAAACACAATC
Found at i:17848187 original size:18 final size:18
Alignment explanation
Indices: 17848161--17848212 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
17848151 GTTCTTTTTT
17848161 TTGTTTTTTTGTTTG-TTG
1 TTGTTTTTTT-TTTGTTTG
17848179 -TGTTTTTTTTTTGTTTTG
1 TTGTTTTTTTTTTG-TTTG
17848197 TTG-TTTTTTTTTGTTT
1 TTGTTTTTTTTTTGTTT
17848213 TTCTTGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.13
17 12 0.39
18 13 0.42
19 2 0.06
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (18 bp):
TTGTTTTTTTTTTGTTTG
Found at i:17848195 original size:27 final size:26
Alignment explanation
Indices: 17848155--17848237 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
17848145 TTGAAGGTTC
17848155 TTTTTTTTGTTTTTTTGTTTGTTGTGTT
1 TTTTTTTTG-TTTTTTGTTTGTTGT-TT
17848183 TTTTTTTTG--TTTTG-TTGTT-TTT
1 TTTTTTTTGTTTTTTGTTTGTTGTTT
* * *
17848205 TTTTGTTT-TTCTTGGTTTGTTGTTT
1 TTTTTTTTGTTTTTTGTTTGTTGTTT
17848230 TTTTTTTT
1 TTTTTTTT
17848238 TGTGAAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
22 9 0.19
23 4 0.09
24 10 0.21
25 15 0.32
28 9 0.19
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83
Consensus pattern (26 bp):
TTTTTTTTGTTTTTTGTTTGTTGTTT
Found at i:17848213 original size:18 final size:17
Alignment explanation
Indices: 17848155--17848213 Score: 77
Period size: 16 Copynumber: 3.5 Consensus size: 17
17848145 TTGAAGGTTC
17848155 TTTT-TTTTGTTTTTTT
1 TTTTGTTTTGTTTTTTT
* *
17848171 GTTTGTTGTG-TTTTTT
1 TTTTGTTTTGTTTTTTT
17848187 TTTTGTTTTGTTGTTTTT
1 TTTTGTTTTGTT-TTTTT
17848205 TTTTGTTTT
1 TTTTGTTTT
17848214 TCTTGGTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 17 0.47
17 5 0.14
18 14 0.39
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTGTTTTGTTTTTTT
Found at i:17848213 original size:28 final size:28
Alignment explanation
Indices: 17848155--17848235 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 28
17848145 TTGAAGGTTC
* * *
17848155 TTTTTTTTGTTTTTTTG-TTTGTTGTGTT
1 TTTTTTTTGTTTTGTTGTTTTTTTTTG-T
17848183 TTTTTTTTGTTTTGTTGTTTTTTTTTG-
1 TTTTTTTTGTTTTGTTGTTTTTTTTTGT
* *
17848210 TTTTTCTTGGTTTGTTGTTTTTTTTT
1 TTTTTTTTGTTTTGTTGTTTTTTTTT
17848236 TTTGTGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 24 0.51
28 16 0.34
29 7 0.15
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83
Consensus pattern (28 bp):
TTTTTTTTGTTTTGTTGTTTTTTTTTGT
Found at i:17848214 original size:19 final size:18
Alignment explanation
Indices: 17848164--17848214 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 18
17848154 CTTTTTTTTG
17848164 TTTTTTTGTTTGTTGTGTT
1 TTTTTTTGTTT-TTGTGTT
17848183 TTTTTTT-TGTTTTGTTGTT
1 TTTTTTTGT-TTTTG-TGTT
17848202 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
17848215 CTTGGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.14
19 24 0.83
20 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (18 bp):
TTTTTTTGTTTTTGTGTT
Found at i:17848311 original size:50 final size:49
Alignment explanation
Indices: 17848257--17848432 Score: 169
Period size: 51 Copynumber: 3.5 Consensus size: 49
17848247 TATAAGAAGT
* * *
17848257 TTTTAAAAATCTCAATTTTGAAAAGCTTCTTTTGAACATACACTTTGAAA
1 TTTTAAAAATCTCAACTTTGAAAAGCTTCTTCT-AACATAGACTTTGAAA
* * * **
17848307 TTTTAAAAAATCTCAATTTTGAAAAAAGCTTCTCCTAAACAAAGGTTTTGAAA
1 TTTT-AAAAATCTCAACTTTG--AAAAGCTTCTTCT-AACATAGACTTTGAAA
*
17848360 GTTT-AAAATCTCAACTTTGAAAAGCTT-TTCCTAA-ATGGAGACTTTGAAA
1 TTTTAAAAATCTCAACTTTGAAAAGCTTCTT-CTAACAT--AGACTTTGAAA
*
17848409 CTTTAAAAATCTCAACTTTGAAAA
1 TTTTAAAAATCTCAACTTTGAAAA
17848433 AAAACTCCTC
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 22 0.21
50 23 0.22
51 30 0.29
53 26 0.25
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (49 bp):
TTTTAAAAATCTCAACTTTGAAAAGCTTCTTCTAACATAGACTTTGAAA
Found at i:17848406 original size:49 final size:50
Alignment explanation
Indices: 17848258--17848525 Score: 198
Period size: 53 Copynumber: 5.3 Consensus size: 50
17848248 ATAAGAAGTT
* ** * * * *
17848258 TTTAAAAATCTCAATTTTGAAAAGCTTCTTTTGAACATACACTTTGAAAT
1 TTTAAAAATCTCAACTTTGAAAAGCTTCTCCTAAACAAAGACTTTGAAAC
* ** *
17848308 TTTAAAAAATCTCAATTTTGAAAAAAGCTTCTCCTAAACAAAGGTTTTGAAAG
1 TTT-AAAAATCTCAACTTTG--AAAAGCTTCTCCTAAACAAAGACTTTGAAAC
* ***
17848361 TTT-AAAATCTCAACTTTGAAAAGCTTTTCCTAAATGGAGACTTTGAAAC
1 TTTAAAAATCTCAACTTTGAAAAGCTTCTCCTAAACAAAGACTTTGAAAC
* * *
17848410 TTTAAAAATCTCAACTTTGAAAAAAAACTCCTCTTAAACAAA-AGCTTTGAAAC
1 TTTAAAAATCTCAACTTTG---AAAAGCTTCTCCTAAACAAAGA-CTTTGAAAC
* * * * * * * * **
17848463 TTTAAAAATTTTATCTCTGAAAAGCTTCTCTTATATAGAGGTTTTGAAAC
1 TTTAAAAATCTCAACTTTGAAAAGCTTCTCCTAAACAAAGACTTTGAAAC
*
17848513 TTTAGAAATCTCA
1 TTTAAAAATCTCA
17848526 TTTCTAAAAT
Statistics
Matches: 172, Mismatches: 37, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
49 27 0.16
50 51 0.30
51 30 0.17
52 1 0.01
53 63 0.37
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (50 bp):
TTTAAAAATCTCAACTTTGAAAAGCTTCTCCTAAACAAAGACTTTGAAAC
Found at i:17848448 original size:102 final size:102
Alignment explanation
Indices: 17848258--17848525 Score: 268
Period size: 102 Copynumber: 2.6 Consensus size: 102
17848248 ATAAGAAGTT
* * ** * * * * *
17848258 TTTAAAAATCTCAATTTTGAAAAGCTTCTTTTGAACATACACTTTGAAATTTTAAAAAATCTCAA
1 TTTAAAAATCTCAACTCTGAAAAGCTTCTCCTAAATAGAGACTTTGAAACTTT-AAAAATCTCAA
* * * * * *
17848323 TTTTGAAAAAAGCTTCTCCTAAACAAAGGTTTTGAAAG
65 CTTTGAAAAAAACTCCTCCTAAACAAAAGCTTTGAAAC
* * *
17848361 TTT-AAAATCTCAACTTTGAAAAGCTTTTCCTAAATGGAGACTTTGAAACTTTAAAAATCTCAAC
1 TTTAAAAATCTCAACTCTGAAAAGCTTCTCCTAAATAGAGACTTTGAAACTTTAAAAATCTCAAC
*
17848425 TTTGAAAAAAAACTCCTCTTAAACAAAAGCTTTGAAAC
66 TTTG-AAAAAAACTCCTCCTAAACAAAAGCTTTGAAAC
* * * * * ** *
17848463 TTTAAAAATTTTATCTCTGAAAAGCTTCTCTTATATAGAGGTTTTGAAACTTTAGAAATCTCA
1 TTTAAAAATCTCAACTCTGAAAAGCTTCTCCTAAATAGAGACTTTGAAACTTTAAAAATCTCA
17848526 TTTCTAAAAT
Statistics
Matches: 135, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
101 15 0.11
102 69 0.51
103 51 0.38
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (102 bp):
TTTAAAAATCTCAACTCTGAAAAGCTTCTCCTAAATAGAGACTTTGAAACTTTAAAAATCTCAAC
TTTGAAAAAAACTCCTCCTAAACAAAAGCTTTGAAAC
Found at i:17863292 original size:19 final size:22
Alignment explanation
Indices: 17863256--17863300 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
17863246 AAAGAATACC
17863256 AAAAACAAAAAAAGAGAAAG-G
1 AAAAACAAAAAAAGAGAAAGAG
*
17863277 AAAAA-AAAATAA-AGAAAGAG
1 AAAAACAAAAAAAGAGAAAGAG
17863297 AAAA
1 AAAA
17863301 TGAAAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (22 bp):
AAAAACAAAAAAAGAGAAAGAG
Found at i:17864252 original size:34 final size:35
Alignment explanation
Indices: 17864202--17864338 Score: 140
Period size: 34 Copynumber: 4.0 Consensus size: 35
17864192 TAAACCCAGT
* *
17864202 TTAGCTAGCCTTCAAAGAAAGAT-TTAAGCCTAGA
1 TTAGCTGGCCTTCAAAGAAAAATATTAAGCCTAGA
** * *
17864236 TTAGCTGGCCCCCAAAGAAAAAATGTTAAGCCTAGT
1 TTAGCTGGCCTTCAAAG-AAAAATATTAAGCCTAGA
*
17864272 TTAGTTGGCCTTCAAAGAAAAAT-TTAAG-CTCA-A
1 TTAGCTGGCCTTCAAAGAAAAATATTAAGCCT-AGA
*
17864305 TTTAGCTGACCTTCAAAG-AAAATATTAAGCCTAG
1 -TTAGCTGGCCTTCAAAGAAAAATATTAAGCCTAG
17864339 TTGGCTTTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
33 7 0.08
34 41 0.48
35 13 0.15
36 24 0.28
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (35 bp):
TTAGCTGGCCTTCAAAGAAAAATATTAAGCCTAGA
Found at i:17864312 original size:70 final size:68
Alignment explanation
Indices: 17864199--17864340 Score: 171
Period size: 70 Copynumber: 2.1 Consensus size: 68
17864189 ATGTAAACCC
* * *
17864199 AGTTTAGCTAGCCTTCAAAGAAAGATTTAAGCCTAGATTAGCTGGCCCCCAAAGAAAAAATGTTA
1 AGTTTAGCTAGCCTTCAAAGAAAAATTTAAGCCTAGATTAGCTGACCCCCAAAG--AAAATATTA
17864264 AGCCT
64 AGCCT
* * **
17864269 AGTTTAGTTGGCCTTCAAAGAAAAATTTAAG-CTCA-ATTTAGCTGACCTTCAAAGAAAATATTA
1 AGTTTAGCTAGCCTTCAAAGAAAAATTTAAGCCT-AGA-TTAGCTGACCCCCAAAGAAAATATTA
17864332 AGCCT
64 AGCCT
17864337 AGTT
1 AGTT
17864341 GGCTTTAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
68 17 0.27
69 3 0.05
70 43 0.68
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (68 bp):
AGTTTAGCTAGCCTTCAAAGAAAAATTTAAGCCTAGATTAGCTGACCCCCAAAGAAAATATTAAG
CCT
Found at i:17864638 original size:6 final size:6
Alignment explanation
Indices: 17864629--17864674 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
17864619 TTCGTATAAA
*
17864629 CATTTG CATTTG CA-TTG ACATTTG TATTTG C-TTTG ACATTTG CATT
1 CATTTG CATTTG CATTTG -CATTTG CATTTG CATTTG -CATTTG CATT
17864675 CGTGTAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 7 0.21
6 20 0.59
7 7 0.21
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
CATTTG
Found at i:17864651 original size:18 final size:18
Alignment explanation
Indices: 17864628--17864674 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
17864618 ATTCGTATAA
17864628 ACATTTGCATTTGCATTG
1 ACATTTGCATTTGCATTG
* *
17864646 ACATTTGTATTTGCTTTG
1 ACATTTGCATTTGCATTG
17864664 ACATTTGCATT
1 ACATTTGCATT
17864675 CGTGTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (18 bp):
ACATTTGCATTTGCATTG
Found at i:17865026 original size:67 final size:67
Alignment explanation
Indices: 17864918--17865169 Score: 269
Period size: 67 Copynumber: 3.8 Consensus size: 67
17864908 GATATGATAC
* * * * **
17864918 AAGATTTAAGCCTC-GATTAGTTGGCTATCAATAAAATATTAAGCCCAGTTAAGTTAACCTTAAA
1 AAGATATAAGCC-CAGATTAGCTGGCTATCAATGAAATATTAAGCCCAGTTTAGTTGGCCTTAAA
17864982 AGA
65 AGA
* * *
17864985 AAGATATAAGCCCATATTAGCTGGCTAAT-AATGAAATATTAAGCCTAATTTAGTTGGCCTTAAA
1 AAGATATAAGCCCAGATTAGCTGGCT-ATCAATGAAATATTAAGCCCAGTTTAGTTGGCCTTAAA
17865049 AGA
65 AGA
** * * * * *
17865052 AAGATATAAGCCTGGATTAGCTAGCCATCAATGAAATGTTAAGACCAGTTTAGTTGGCCTTCAAA
1 AAGATATAAGCCCAGATTAGCTGGCTATCAATGAAATATTAAGCCCAGTTTAGTTGGCCTTAAAA
17865117 GA
66 GA
* * * *
17865119 AAGATTTAAGCCCAGATTAGTTGGCCTA--AATGAAATATTAAGTCTAGTTTA
1 AAGATATAAGCCCAGATTAGCTGG-CTATCAATGAAATATTAAGCCCAGTTTA
17865170 TCTAACAAAA
Statistics
Matches: 153, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
66 23 0.15
67 126 0.82
68 4 0.03
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (67 bp):
AAGATATAAGCCCAGATTAGCTGGCTATCAATGAAATATTAAGCCCAGTTTAGTTGGCCTTAAAA
GA
Found at i:17865139 original size:34 final size:34
Alignment explanation
Indices: 17864918--17865145 Score: 127
Period size: 34 Copynumber: 6.8 Consensus size: 34
17864908 GATATGATAC
*
17864918 AAGATTTAAGCCTC-GATTAGTTGG-CTATC-AATA
1 AAGATTTAAGCC-CAGATTAGTTGGCCT-TCAAAGA
** *
17864951 AA-ATATTAAGCCCAG-TTAAGTTAACCTTAAAAGA
1 AAGAT-TTAAGCCCAGATT-AGTTGGCCTTCAAAGA
* * * *
17864985 AAGATATAAGCCCATATTAGCTGG-CTAAT-AATGA
1 AAGATTTAAGCCCAGATTAGTTGGCCT--TCAAAGA
* * *
17865019 AATA-TTAAGCCTA-ATTTAGTTGGCCTTAAAAGA
1 AAGATTTAAGCCCAGA-TTAGTTGGCCTTCAAAGA
* ** * * * *
17865052 AAGATATAAGCCTGGATTAGCTAGCCATCAATG-
1 AAGATTTAAGCCCAGATTAGTTGGCCTTCAAAGA
* *
17865085 AA-ATGTTAAGACCAGTTTAGTTGGCCTTCAAAGA
1 AAGAT-TTAAGCCCAGATTAGTTGGCCTTCAAAGA
17865119 AAGATTTAAGCCCAGATTAGTTGGCCT
1 AAGATTTAAGCCCAGATTAGTTGGCCT
17865146 AAATGAAATA
Statistics
Matches: 144, Mismatches: 34, Indels: 33
0.68 0.16 0.16
Matches are distributed among these distances:
32 9 0.06
33 59 0.41
34 68 0.47
35 8 0.06
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (34 bp):
AAGATTTAAGCCCAGATTAGTTGGCCTTCAAAGA
Found at i:17865802 original size:33 final size:33
Alignment explanation
Indices: 17865761--17865918 Score: 151
Period size: 33 Copynumber: 4.8 Consensus size: 33
17865751 ATACAAAATT
*
17865761 AAAT-TTAAGCCTAGATTAGTTAGCCACTAATG
1 AAATATTAAGCCTAGATTAGTTGGCCACTAATG
* * **
17865793 AAATATTAAG-CTCGATTTAGTTGG-CATTCAAAA
1 AAATATTAAGCCTAGA-TTAGTTGGCCACT-AATG
*
17865826 AAATATTTAAGCCCAGATTAGTTGGCCACTAATG
1 AAATA-TTAAGCCTAGATTAGTTGGCCACTAATG
* * ** *
17865860 AAATATTAAGCCCAAATTAACTGGCCCCTAATG
1 AAATATTAAGCCTAGATTAGTTGGCCACTAATG
* *
17865893 AAATATTAAGCCTAGTTTAGCTGGCC
1 AAATATTAAGCCTAGATTAGTTGGCC
17865919 TTCAAAGAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
32 11 0.11
33 65 0.64
34 20 0.20
35 6 0.06
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (33 bp):
AAATATTAAGCCTAGATTAGTTGGCCACTAATG
Found at i:17865897 original size:67 final size:67
Alignment explanation
Indices: 17865763--17865918 Score: 172
Period size: 67 Copynumber: 2.3 Consensus size: 67
17865753 ACAAAATTAA
* * * * ** *
17865763 ATTTAAGCCTAGATTAGTTAGCCACTAATGAAATATTAAGCTCGATTTAGTTGGCATTCAAAAAA
1 ATTTAAGCCTAGATTAGTTGGCCACTAATGAAATATTAAGCCCAAATTAACTGGCACTCAAAAAA
17865828 AT
66 AT
* * **
17865830 ATTTAAGCCCAGATTAGTTGGCCACTAATGAAATATTAAGCCCAAATTAACTGGC-CCCTAATGA
1 ATTTAAGCCTAGATTAGTTGGCCACTAATGAAATATTAAGCCCAAATTAACTGGCACTC-AAAAA
17865894 AAT
65 AAT
* *
17865897 A-TTAAGCCTAGTTTAGCTGGCC
1 ATTTAAGCCTAGATTAGTTGGCC
17865919 TTCAAAGAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
66 19 0.26
67 55 0.74
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (67 bp):
ATTTAAGCCTAGATTAGTTGGCCACTAATGAAATATTAAGCCCAAATTAACTGGCACTCAAAAAA
AT
Found at i:17866064 original size:35 final size:35
Alignment explanation
Indices: 17866010--17866354 Score: 221
Period size: 35 Copynumber: 9.7 Consensus size: 35
17866000 AGCAGTTATG
* * *
17866010 TTTCTCAACTAGC-AGTGTCGTTCCATCATTATTCA
1 TTTCTCAACTTGCGA-TGTCATTCCATCATTATTTA
* * * *
17866045 TTTCTCAACTTACGATGTCGTTTCGATCATTTTGTTA
1 TTTCTCAACTTGCGATGTC-ATTCCATCATTAT-TTA
* * * * *
17866082 TTTTTTAACTTGC-AGTGTCATTTCGTCATTATTTG
1 TTTCTCAACTTGCGA-TGTCATTCCATCATTATTTA
* * * *
17866117 TTTCTCAACTTACAATGTCATTCCAGTTATTTTGTTA
1 TTTCTCAACTTGCGATGTCATTCCA-TCATTAT-TTA
* *
17866154 TTTCTCAACTTGC-AGTGTCTTTTCATCATTATTTA
1 TTTCTCAACTTGCGA-TGTCATTCCATCATTATTTA
* * *
17866189 TTTCTCAGCTT-CCAGTGTCGTTCCATCATTATTTA
1 TTTCTCAACTTGCGA-TGTCATTCCATCATTATTTA
* * ** *
17866224 TTTCTCAACTTGTGCTGTTGTTCCGATCATTTTGTTA
1 TTTCTCAACTTGCGATGTCATTCC-ATCATTAT-TTA
* * * * * *
17866261 TTTCTTAACTTGTGGTGTCATTCTATCGTTATTCA
1 TTTCTCAACTTGCGATGTCATTCCATCATTATTTA
* ** *
17866296 TTTCTCAACTTGTGATGTCATTCTGTCATTATTCA
1 TTTCTCAACTTGCGATGTCATTCCATCATTATTTA
* * *
17866331 TTTCTTAACTTACGATATCATTCC
1 TTTCTCAACTTGCGATGTCATTCC
17866355 GGTCATTTTG
Statistics
Matches: 244, Mismatches: 54, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
34 1 0.00
35 138 0.57
36 45 0.18
37 60 0.25
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (35 bp):
TTTCTCAACTTGCGATGTCATTCCATCATTATTTA
Found at i:17866149 original size:72 final size:73
Alignment explanation
Indices: 17866010--17866235 Score: 264
Period size: 72 Copynumber: 3.2 Consensus size: 73
17866000 AGCAGTTATG
* * * * * *
17866010 TTTCTCAACTAGCAGTGTCGTTCCATCATTATTCATTTCTCAACTTACGATGTCGTTTC-GATCA
1 TTTCTCAACTTGCAGTGTCATTTCATCATTATTTATTTCTCAACTTACAATGTCGTTCCAGATCA
17866074 TTTTGTTA
66 TTTTGTTA
* * * * * *
17866082 TTTTTTAACTTGCAGTGTCATTTCGTCATTATTTGTTTCTCAACTTACAATGTCATTCCAG-TTA
1 TTTCTCAACTTGCAGTGTCATTTCATCATTATTTATTTCTCAACTTACAATGTCGTTCCAGATCA
17866146 TTTTGTTA
66 TTTTGTTA
* * * *
17866154 TTTCTCAACTTGCAGTGTCTTTTCATCATTATTTATTTCTCAGCTTCCAGTGTCGTTCC--ATCA
1 TTTCTCAACTTGCAGTGTCATTTCATCATTATTTATTTCTCAACTTACAATGTCGTTCCAGATCA
*
17866217 TTAT-TTA
66 TTTTGTTA
17866224 TTTCTCAACTTG
1 TTTCTCAACTTG
17866236 TGCTGTTGTT
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
70 15 0.12
71 5 0.04
72 108 0.84
73 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (73 bp):
TTTCTCAACTTGCAGTGTCATTTCATCATTATTTATTTCTCAACTTACAATGTCGTTCCAGATCA
TTTTGTTA
Found at i:17866427 original size:15 final size:15
Alignment explanation
Indices: 17866407--17866459 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
17866397 TTTTCTTATT
17866407 AAAAAAAATAAAACA
1 AAAAAAAATAAAACA
*
17866422 AAAAAAAAGAAAACA
1 AAAAAAAATAAAACA
* *
17866437 CAAAAAAGTAAAA-A
1 AAAAAAAATAAAACA
17866451 AATAAAAAA
1 AA-AAAAAA
17866460 AGAAGAGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.06
Consensus pattern (15 bp):
AAAAAAAATAAAACA
Found at i:17866429 original size:17 final size:17
Alignment explanation
Indices: 17866407--17866470 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 17
17866397 TTTTCTTATT
*
17866407 AAAAAAA-ATAAAACAA
1 AAAAAAAGAAAAAACAA
*
17866423 AAAAAAAGAAAACACAA
1 AAAAAAAGAAAAAACAA
** *
17866440 AAAAGTA-AAAAAATAA
1 AAAAAAAGAAAAAACAA
17866456 AAAAAGAAGAGAAAA
1 AAAAA-AAGA-AAAA
17866471 GGAAAACCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
16 18 0.50
17 13 0.36
18 1 0.03
19 4 0.11
ACGTcount: A:0.83, C:0.05, G:0.08, T:0.05
Consensus pattern (17 bp):
AAAAAAAGAAAAAACAA
Found at i:17870555 original size:13 final size:13
Alignment explanation
Indices: 17870537--17870565 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17870527 ATGTCATGAT
17870537 AAATCTCAAATGG
1 AAATCTCAAATGG
17870550 AAATCTCAAATGG
1 AAATCTCAAATGG
17870563 AAA
1 AAA
17870566 AACTATCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (13 bp):
AAATCTCAAATGG
Found at i:17878095 original size:103 final size:106
Alignment explanation
Indices: 17877918--17878123 Score: 348
Period size: 103 Copynumber: 2.0 Consensus size: 106
17877908 TTAACTTTTC
17877918 TTGTAATCTTAGATTTTTTTTCTTCATCTTCTTTCTTTCTACCTCAAACTCTACCCTAGCAATTT
1 TTGTAATCTTAGATTTTTTTTCTTCATCTTCTTTCTTTCTACCTCAAACTCTACCCTAGCAATTT
*
17877983 TTGCATTTGATAGTGGTGCTCTGGCCTATGGATTAACTGGT
66 TTGCATTTGATAGTGGTGCTCTGGCCCATGGATTAACTGGT
*
17878024 TTGTAATCTTAGATTTTTTTTCTTTAT-TT-TTT-TTTCTACCTCAAACTCTACCCTAGCAATTT
1 TTGTAATCTTAGATTTTTTTTCTTCATCTTCTTTCTTTCTACCTCAAACTCTACCCTAGCAATTT
*
17878086 TTGTC-TTTGATGGTGGTGCTCTGGCCCATGGATTAACT
66 TTG-CATTTGATAGTGGTGCTCTGGCCCATGGATTAACT
17878124 AGTTGGATTG
Statistics
Matches: 96, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
103 64 0.67
104 4 0.04
105 2 0.02
106 26 0.27
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (106 bp):
TTGTAATCTTAGATTTTTTTTCTTCATCTTCTTTCTTTCTACCTCAAACTCTACCCTAGCAATTT
TTGCATTTGATAGTGGTGCTCTGGCCCATGGATTAACTGGT
Found at i:17880967 original size:144 final size:142
Alignment explanation
Indices: 17880696--17881022 Score: 368
Period size: 144 Copynumber: 2.3 Consensus size: 142
17880686 TTTAAGAAGA
* * * * *
17880696 TCAAATTATAAAAATCCTCTAAA-AGGTATTTTAGTAATTTCAACCTTTTTGAGTTGTGATTAGG
1 TCAAATTACAAAAATCCCCTAAAGA-GTATTTTGGTAATTTCAACCTTTTCGAGGTGTGATTAGG
** * * * **
17880760 GTTTTTGATGCATCAAAATTCATAAAATAATATCAAAACATGATCTAAAGATTTTTATGAAAAAT
65 GTTTTCAATGCATCAAAATTCATAAAATAAAATAAAAACATGATCTAAAGATTTTCACAAAAAAT
* * *
17880825 TGACCTTGGGAGGG
130 CGACCTT-GAAAGG
*
17880839 TTAAATTACAAAAATACCCCTAAAGAGTATTTTGGTAATTTCAACCTTTTCGAGGTGTGATTAGG
1 TCAAATTACAAAAAT-CCCCTAAAGAGTATTTTGGTAATTTCAACCTTTTCGAGGTGTGATTAGG
* * * * * *
17880904 GTTTTCAATGCATCAAAATTTATGAAATAAAATAAAAACATTATCTGAGGCTTTTCACAAAAAAT
65 GTTTTCAATGCATCAAAATTCATAAAATAAAATAAAAACATGATCTAAAGATTTTCACAAAAAAT
*
17880969 CGACCTTGAAATG
130 CGACCTTGAAAGG
* * * *
17880982 TCAAATTACCAAAATGCCCTTAAAGGGCATTTTGGTAATTT
1 TCAAATTACAAAAAT-CCCCTAAAGAGTATTTTGGTAATTT
17881023 TACCTTCACA
Statistics
Matches: 153, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
143 51 0.33
144 101 0.66
145 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (142 bp):
TCAAATTACAAAAATCCCCTAAAGAGTATTTTGGTAATTTCAACCTTTTCGAGGTGTGATTAGGG
TTTTCAATGCATCAAAATTCATAAAATAAAATAAAAACATGATCTAAAGATTTTCACAAAAAATC
GACCTTGAAAGG
Found at i:17885192 original size:10 final size:10
Alignment explanation
Indices: 17885166--17885205 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
17885156 AAAGAGTAAA
*
17885166 TCTTGAAGAT
1 TCTTGATGAT
17885176 TCTTGATGAT
1 TCTTGATGAT
* *
17885186 TCTTGATCAA
1 TCTTGATGAT
17885196 TCTTGATGAT
1 TCTTGATGAT
17885206 ATTTTATCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (10 bp):
TCTTGATGAT
Found at i:17885530 original size:13 final size:13
Alignment explanation
Indices: 17885512--17885536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17885502 AGTTAAGAAA
17885512 GATGATGTGGCAT
1 GATGATGTGGCAT
17885525 GATGATGTGGCA
1 GATGATGTGGCA
17885537 ATTCTAATTA
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:0.24, C:0.08, G:0.40, T:0.28
Consensus pattern (13 bp):
GATGATGTGGCAT
Found at i:17886982 original size:29 final size:28
Alignment explanation
Indices: 17886943--17886998 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
17886933 TGTTATTTCA
17886943 TGTTTAATTAGTTTTGGTTTTAGTTATAG
1 TGTTTAATTAGTTTTGGTTTTA-TTATAG
*
17886972 TGTTTAGTTAGTTTTGGTTTTATTATA
1 TGTTTAATTAGTTTTGGTTTTATTATA
17886999 TTTGACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.61
Consensus pattern (28 bp):
TGTTTAATTAGTTTTGGTTTTATTATAG
Found at i:17887040 original size:30 final size:31
Alignment explanation
Indices: 17886945--17887040 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
17886935 TTATTTCATG
*
17886945 TTTAATTAGTTTTGGTTTTAGTTATAG--TG-
1 TTTATTTAGTTTTGGTTTT-GTTATAGTTTGA
* *
17886974 TTTAGTTAGTTTTGGTTTTATTATA-TTTGA
1 TTTATTTAGTTTTGGTTTTGTTATAGTTTGA
** *
17887004 CATATTTAGTTTTAGTTTTGTT-TAGTTTGA
1 TTTATTTAGTTTTGGTTTTGTTATAGTTTGA
17887034 TTTATTT
1 TTTATTT
17887041 GAAGTTTGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
28 5 0.09
29 22 0.41
30 27 0.50
ACGTcount: A:0.20, C:0.01, G:0.17, T:0.62
Consensus pattern (31 bp):
TTTATTTAGTTTTGGTTTTGTTATAGTTTGA
Found at i:17887072 original size:25 final size:25
Alignment explanation
Indices: 17887007--17887072 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
17886997 TATTTGACAT
*
17887007 ATTTAGTTTTAGTTTTGTTTAGTTTG
1 ATTTAGTTTT-GGTTTGTTTAGTTTG
17887033 ATTTA--TTTGAAGTTTGTTTAGTTT-
1 ATTTAGTTTTG--GTTTGTTTAGTTTG
17887057 ATTTTAGTTTTGGTTT
1 A-TTTAGTTTTGGTTT
17887073 ATGATAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
23 1 0.03
24 4 0.12
25 20 0.59
26 5 0.15
27 4 0.12
ACGTcount: A:0.17, C:0.00, G:0.18, T:0.65
Consensus pattern (25 bp):
ATTTAGTTTTGGTTTGTTTAGTTTG
Found at i:17887082 original size:35 final size:34
Alignment explanation
Indices: 17887014--17887083 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 34
17887004 CATATTTAGT
17887014 TTTAGTTTTGTTTAGTTTGATTTATTTGAAGTTTG
1 TTTAGTTTTGTTTAGTTTGATTTA-TTGAAGTTTG
*
17887049 TTTAGTTTAT-TTTAGTTTTGGTTTA-TGATAGTTTG
1 TTTAGTTT-TGTTTAG-TTTGATTTATTGA-AGTTTG
17887084 CATGTTTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
34 3 0.10
35 19 0.61
36 9 0.29
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (34 bp):
TTTAGTTTTGTTTAGTTTGATTTATTGAAGTTTG
Found at i:17889328 original size:3 final size:3
Alignment explanation
Indices: 17889320--17889356 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
17889310 GATAAAATGA
*
17889320 AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17889357 TACACTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17889437 original size:189 final size:188
Alignment explanation
Indices: 17888983--17889547 Score: 849
Period size: 189 Copynumber: 3.0 Consensus size: 188
17888973 TCACCAAGAA
*
17888983 ATACACTTCTTATTCCAAAATTCATCACCAAGCCTTTTTTTTTAAGTTTTTTAAAAATTTTTGTA
1 ATACACTTCTTATTCCAAAATTCATCACCAAGCCTTTTTTTTTAA-TTTTTTAAAAATTTTTAT-
* * * *
17889048 AAGACAACCAAATTATTAAAGATAAAGAATATGATAAATAAAGTAAAAAAATAAAGATAAATAGG
64 AAGATAATCAAATTATTAAAGATAAAGAATAGGATAAATAAATTAAAAAAATAAAGATAAATAGG
* *
17889113 GAAATAAATACTAAAGAGAAGATG--A-AATAA-GATAATAAT-A-ATAATAATAATAAT
129 GAAATAAATACTAAAGATAAAATGAAATAATAATGATAATAATAATATAATAATAATAAT
* *
17889167 ATACACTTCTTATTCCAAAATTCATCACCAAGCCTTTTTTTTTAA-TTTTTAAAATTTTTTTTTA
1 ATACACTTCTTATTCCAAAATTCATCACCAAGCCTTTTTTTTTAATTTTTTAAAA-ATTTTTATA
17889231 AGATAATCAAATTATTAAAGATAAAGAATAGGATAAATAAATTAAAAAAATAAAGATAAATAGGG
65 AGATAATCAAATTATTAAAGATAAAGAATAGGATAAATAAATTAAAAAAATAAAGATAAATAGGG
* *
17889296 AACTAAATACTAAAGATAAAATGAAATAATAATAATAATAATAATCATAATAATAATAAT
130 AAATAAATACTAAAGATAAAATGAAATAATAATGATAATAATAAT-ATAATAATAATAAT
* * *
17889356 ATACACTGCTTATTCCAAAATTCATTACCAAGCC-TTTTTTTTAATTTTTTTAAAAATTTTTATG
1 ATACACTTCTTATTCCAAAATTCATCACCAAGCCTTTTTTTTTAA-TTTTTTAAAAATTTTTATA
*
17889420 AGATAATCAAATTATTAAAGATAAAGAATAGGATAAATAAATTAAAAAAATAAGGATAAATAGGG
65 AGATAATCAAATTATTAAAGATAAAGAATAGGATAAATAAATTAAAAAAATAAAGATAAATAGGG
* *
17889485 AAATCAATACTACAGATAAAATGAAATAAGATAATGATAATAATAATAATAATAATAATAAT
130 AAATAAATACTAAAGATAAAATGAAAT-A-ATAATGATAATAATAAT-ATAATAATAATAAT
17889547 A
1 A
17889548 ATAATAATAA
Statistics
Matches: 348, Mismatches: 21, Indels: 17
0.90 0.05 0.04
Matches are distributed among these distances:
182 91 0.26
183 6 0.02
184 46 0.13
185 5 0.01
186 8 0.02
187 1 0.00
188 10 0.03
189 140 0.40
190 10 0.03
191 31 0.09
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (188 bp):
ATACACTTCTTATTCCAAAATTCATCACCAAGCCTTTTTTTTTAATTTTTTAAAAATTTTTATAA
GATAATCAAATTATTAAAGATAAAGAATAGGATAAATAAATTAAAAAAATAAAGATAAATAGGGA
AATAAATACTAAAGATAAAATGAAATAATAATGATAATAATAATATAATAATAATAAT
Found at i:17889525 original size:6 final size:6
Alignment explanation
Indices: 17889515--17889622 Score: 118
Period size: 6 Copynumber: 18.2 Consensus size: 6
17889505 ATGAAATAAG
*
17889515 ATAATG ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* *
17889563 ATAATA ATAATA AT-ATA GATAAATA CA-AATG ATAA-A ATAA-A ATAAAA
1 ATAATA ATAATA ATAATA -AT-AATA -ATAATA ATAATA ATAATA ATAATA
17889610 ATAA-A ATAGATA A
1 ATAATA ATA-ATA A
17889623 AGTTAAAATA
Statistics
Matches: 91, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
5 17 0.19
6 68 0.75
7 2 0.02
8 4 0.04
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (6 bp):
ATAATA
Found at i:17889533 original size:9 final size:9
Alignment explanation
Indices: 17889515--17889622 Score: 118
Period size: 9 Copynumber: 12.1 Consensus size: 9
17889505 ATGAAATAAG
*
17889515 ATAATGATA
1 ATAATAATA
17889524 ATAATAATA
1 ATAATAATA
17889533 ATAATAATA
1 ATAATAATA
17889542 ATAATAATA
1 ATAATAATA
17889551 ATAATAATA
1 ATAATAATA
17889560 ATAATAATA
1 ATAATAATA
17889569 ATAATAAT-
1 ATAATAATA
17889577 ATAGATAAATA
1 ATA-AT-AATA
*
17889588 CA-AATGATA
1 -ATAATAATA
17889597 A-AATAA-A
1 ATAATAATA
*
17889604 ATAAAAATA
1 ATAATAATA
17889613 A-AATAGATA
1 ATAATA-ATA
17889622 A
1 A
17889623 AGTTAAAATA
Statistics
Matches: 87, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
7 2 0.02
8 15 0.17
9 63 0.72
10 5 0.06
11 1 0.01
12 1 0.01
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (9 bp):
ATAATAATA
Found at i:17890030 original size:40 final size:40
Alignment explanation
Indices: 17889871--17890036 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
17889861 GAATTATCAT
** *
17889871 TTTAAAATTTAA-GGCTCTTTCAAAACGAATGCACACAAC
1 TTTAAAATTTAAGGGCTCTTTCAAAATAAAGGCACACAAC
** * *
17889910 TTTAAAAATTTAAGGGCAATTTC-AAATAAAGGTACACCAC
1 TTT-AAAATTTAAGGGCTCTTTCAAAATAAAGGCACACAAC
* * * * * *
17889950 TTTAAAA-ATAAAGGCTCATCCAAAATAAAGGCATAGAAC
1 TTTAAAATTTAAGGGCTCTTTCAAAATAAAGGCACACAAC
* * *
17889989 TTTGAAAATTTAAGGGCTTTTTC-AAATGAAGGCACATAAC
1 TTT-AAAATTTAAGGGCTCTTTCAAAATAAAGGCACACAAC
17890029 TTTAAAAT
1 TTTAAAAT
17890037 AAAGAAAAAT
Statistics
Matches: 97, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
38 8 0.08
39 28 0.29
40 45 0.46
41 16 0.16
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (40 bp):
TTTAAAATTTAAGGGCTCTTTCAAAATAAAGGCACACAAC
Found at i:17891692 original size:17 final size:17
Alignment explanation
Indices: 17891672--17891717 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
17891662 CCAATACCTT
17891672 AACTAAAAGAAA-TAAAG
1 AACTAAAAGAAACT-AAG
* *
17891689 AACTTAAAGAAACTTAG
1 AACTAAAAGAAACTAAG
17891706 AACTAAAAGAAA
1 AACTAAAAGAAA
17891718 AAGGAGAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 24 0.96
18 1 0.04
ACGTcount: A:0.65, C:0.09, G:0.11, T:0.15
Consensus pattern (17 bp):
AACTAAAAGAAACTAAG
Found at i:17905824 original size:58 final size:60
Alignment explanation
Indices: 17905703--17905842 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 60
17905693 TATAAGTTGT
* * *
17905703 TAAGGTTTATTTCCTTTTAAAAAATTTATTTTTCCTAAATTTTATAACTTTCCAATATGTTGG
1 TAAGTTTTATTT-C-TTTAAAAAATTTATTTTT-CTAAATTTTAAAACTTTCCAATATCTTGG
*
17905766 TAAGTTTTATTTCTTTAAAAATTTTA-TTTT-TAAATTTTAAAACCTTT-CAATATCTTGG
1 TAAGTTTTATTTCTTTAAAAAATTTATTTTTCTAAATTTTAAAA-CTTTCCAATATCTTGG
17905824 TAAGGTTTATATTT-TTTAA
1 TAA-GTTT-TATTTCTTTAA
17905843 TCTTTTTTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
58 24 0.34
59 13 0.19
60 9 0.13
61 12 0.17
62 1 0.01
63 11 0.16
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (60 bp):
TAAGTTTTATTTCTTTAAAAAATTTATTTTTCTAAATTTTAAAACTTTCCAATATCTTGG
Found at i:17906914 original size:3 final size:3
Alignment explanation
Indices: 17906906--17906942 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
17906896 ATGAAATAAG
17906906 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17906943 AGATATAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17907867 original size:15 final size:17
Alignment explanation
Indices: 17907847--17907887 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
17907837 GGTTTACCTA
17907847 TTTTTAATTTT-TA-AT
1 TTTTTAATTTTATATAT
17907862 TTTTTAATTTTATATAT
1 TTTTTAATTTTATATAT
17907879 TATTTTAAT
1 T-TTTTAAT
17907888 ATAAGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.48
16 2 0.09
17 3 0.13
18 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTAATTTTATATAT
Found at i:17916562 original size:9 final size:10
Alignment explanation
Indices: 17916546--17916571 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17916536 AATGACAGAA
17916546 GAAAAAAAAT
1 GAAAAAAAAT
17916556 GAAAAAAAAT
1 GAAAAAAAAT
17916566 GAAAAA
1 GAAAAA
17916572 CAAAACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (10 bp):
GAAAAAAAAT
Found at i:17917256 original size:8 final size:9
Alignment explanation
Indices: 17917243--17917305 Score: 57
Period size: 8 Copynumber: 7.3 Consensus size: 9
17917233 GATAAGTGAA
17917243 AATG-AATG
1 AATGAAATG
17917251 AATG-AATG
1 AATGAAATG
17917259 AATGAAATGG
1 AATGAAAT-G
17917269 AATGAAATG
1 AATGAAATG
17917278 AATGGGAAA--
1 AAT--GAAATG
17917287 AATGAAATG
1 AATGAAATG
17917296 -ATGAAA-G
1 AATGAAATG
17917303 AAT
1 AAT
17917306 AATGGTTGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
7 5 0.10
8 20 0.42
9 10 0.21
10 9 0.19
11 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (9 bp):
AATGAAATG
Found at i:17917296 original size:5 final size:4
Alignment explanation
Indices: 17917243--17917281 Score: 51
Period size: 4 Copynumber: 9.0 Consensus size: 4
17917233 GATAAGTGAA
17917243 AATG AATG AATG AATG AATG AAATGG AATG AAATG AATG
1 AATG AATG AATG AATG AATG -AAT-G AATG -AATG AATG
17917282 GGAAAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 21 0.66
5 10 0.31
6 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (4 bp):
AATG
Found at i:17917573 original size:103 final size:103
Alignment explanation
Indices: 17917380--17917570 Score: 249
Period size: 104 Copynumber: 1.8 Consensus size: 103
17917370 GTCACTTGCC
* * * *
17917380 TATGTTTATATGAGCCTTTTTTAAAAAGAAATTTTAAAGTTTGTTACCTATCTTCATAGGAGCCT
1 TATGTTTATAAGAGCCTTTTTCAAAAAGAAATTTTAAAGCTTGTTACCTATCTTCATAGGAACCT
* *
17917445 ATTTTCAAAATGAGATTCTAAAAGTTACAGGCCAATGT
66 ATTTCCAAAATGAAATTCTAAAAGTTACAGGCCAATGT
* * ** *
17917483 TATGTTTATAAGAGCCTTTTTCGAAAAGAGATTTTTAAAGCTTGTTGTCTATCTTTATAGGAACC
1 TATGTTTATAAGAGCCTTTTTCAAAAAGA-AATTTTAAAGCTTGTTACCTATCTTCATAGGAACC
*
17917548 T-TTTCCAAAATGGAAATTTTAAA
65 TATTTCCAAAAT-GAAATTCTAAA
17917571 GTTTGTTACT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
103 35 0.47
104 39 0.53
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (103 bp):
TATGTTTATAAGAGCCTTTTTCAAAAAGAAATTTTAAAGCTTGTTACCTATCTTCATAGGAACCT
ATTTCCAAAATGAAATTCTAAAAGTTACAGGCCAATGT
Found at i:17917863 original size:50 final size:49
Alignment explanation
Indices: 17917362--17918240 Score: 596
Period size: 49 Copynumber: 17.6 Consensus size: 49
17917352 GCCCTTTTTT
* *
17917362 TTTTTAAAGTCACTTGCCTATGTTTATATGAGC-CTTTTTTAAAAAGA-A
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCAC-TTTTCAAAAAGAGA
* *** * * * * *
17917410 ATTTTAAAGTTTGTTACCTATCTTCATAGGAGC-CTATTTTCAAAATGAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCAC--TTTTCAAAAAGAGA
* * * ** *
17917460 TTCTAAAAGTTACAGGCCAATGTTATGTTTATAAGAGC-CTTTTTCGAAAAGAGA
1 TTTTTAAAGTCACTTGCC-----TATGTTTATAAGAGCAC-TTTTCAAAAAGAGA
** * * * * *
17917514 TTTTTAAAG-CTTGTTGTCTATCTTTATAGGAAC-CTTTTCCAAAATG-GAA
1 TTTTTAAAGTC-ACTTGCCTATGTTTATAAGAGCACTTTT-CAAAAAGAG-A
* *** * * * * * * *
17917563 ATTTTAAAGTTTGTTACTTATCTTCATAGGAGCCCTTTTTCAAAAAGCGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCAC-TTTTCAAAAAGAGA
* * *
17917613 GTTTTAAAGTTACTTGCCTATGTTTATAAGAGCACATTTTTCAAAAAAAAAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCAC--TTTTC--AAAAAGAGA
** * *
17917666 TTTCAAAAGTCACTTGCCTATGTTTATAAGAGCATTTTTCAAAAAAAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCACTTTTCAAAAAGAGA
* * * *
17917715 GTTTTAAAATTACTTGCCTATATTTATAAGAGCACATTTTTTTCAAAAAGAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCAC----TTTTCAAAAAGAGA
* *
17917768 TTTTAAAAGTCACTTACCTATGTTTAT-AGTAGCACTTATTCAAAAA-AGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAG-AGCACTT-TTCAAAAAGAGA
* * * * *
17917817 TTTTTAAAGTCACTTACCCATATTTATAGGAGCACTTTTCAAAAAAAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCACTTTTCAAAAAGAGA
* * ** * *
17917866 TTTTTAAAGTTAGTTGGTTATGTTTATAAGAGTACCTTTTCAAAAGGAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCA-CTTTTCAAAAAGAGA
* * ** * *
17917916 TTTTAAAAGTTACTTAACTATATTTATAAGAGCA-TTTTTAAAGAAGAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCACTTTTCAAA-AAGAGA
* * *
17917965 -GTTTAAAGTCACTTACCTATGTTTATAAAAGCACTTTTCAAAAAAGAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCACTTTTC-AAAAAGAGA
* * * *
17918014 TTTTTTAAGTTACTTGCCTACGTTTATAGGAGCACCTTTTCAAAAAGAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCA-CTTTTCAAAAAGAGA
* * * *
17918064 TTTTTAAAGTCATTTGTCTATGTTTATAGGAGCATTTTTCAAAAA-AGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCACTTTTCAAAAAGAGA
* * *
17918112 TTTTTAAAATCACTTGCCTATGTTTATAAGACCACTTTTTAAAAAAGAGA
1 TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCAC-TTTTCAAAAAGAGA
* * * * * *
17918162 TTTTTTAAAGTTATTTGCCTATATTTATATA-AGCATATTTTCCAAAAGAGC
1 -TTTTTAAAGTCACTTGCCTATGTTTATA-AGAGCA-CTTTTCAAAAAGAGA
* * *
17918213 TTTTTAAAGTAACTTACCTATGATTATA
1 TTTTTAAAGTCACTTGCCTATGTTTATA
17918241 GAAGCAATTT
Statistics
Matches: 654, Mismatches: 141, Indels: 70
0.76 0.16 0.08
Matches are distributed among these distances:
48 105 0.16
49 189 0.29
50 187 0.29
51 60 0.09
52 3 0.00
53 76 0.12
54 21 0.03
55 13 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (49 bp):
TTTTTAAAGTCACTTGCCTATGTTTATAAGAGCACTTTTCAAAAAGAGA
Found at i:17918015 original size:148 final size:147
Alignment explanation
Indices: 17917599--17918240 Score: 673
Period size: 148 Copynumber: 4.3 Consensus size: 147
17917589 TAGGAGCCCT
* * * *
17917599 TTTTCAAAAAGCGAGTTTT-AAAGTTACTTGCCTATGTTTATAAGAGCACATTTTTCAAAAAAAA
1 TTTTCAAAAAGAGA-TTTTAAAAGTCACTTACCTATGTTTATAAGAG--CATTTTTCAAAAAAGA
* * * * *
17917663 AGATTTCAAAAGTCACTTGCCTATGTTTATAAGAGCATTTTTCAAAAAAAGAGTTTTAAAATTAC
63 TG-TTT--AAAGTCACTTACCTATGTTTATAAGAGCACTTTTCAAAAAAAGATTTTTAAAGTTAC
* *
17917728 TTGCCTATATTTATAAGAGCACATTT
125 TTGCCTATGTTTATAAGAGCAC---C
*
17917754 TTTTCAAAAAGAGATTTTAAAAGTCACTTACCTATGTTTAT-AGTAGCACTTATTCAAAAAAGAT
1 TTTTCAAAAAGAGATTTTAAAAGTCACTTACCTATGTTTATAAG-AGCA-TTTTTCAAAAAAGAT
* * * * * *
17917818 TTTTAAAGTCACTTACCCATATTTATAGGAGCACTTTTCAAAAAAAGATTTTTAAAGTTAGTTGG
64 GTTTAAAGTCACTTACCTATGTTTATAAGAGCACTTTTCAAAAAAAGATTTTTAAAGTTACTTGC
* *
17917883 TTATGTTTATAAGAGTACC
129 CTATGTTTATAAGAGCACC
* * * *
17917902 TTTTCAAAAGGAGATTTTAAAAGTTACTTAACTATATTTATAAGAGCATTTTT-AAAGAAGAGA-
1 TTTTCAAAAAGAGATTTTAAAAGTCACTTACCTATGTTTATAAGAGCATTTTTCAAA-AA-AGAT
* *
17917965 GTTTAAAGTCACTTACCTATGTTTATAAAAGCACTTTTCAAAAAAGAGATTTTTTAAGTTACTTG
64 GTTTAAAGTCACTTACCTATGTTTATAAGAGCACTTTTCAAAAAA-AGATTTTTAAAGTTACTTG
* *
17918030 CCTACGTTTATAGGAGCACC
128 CCTATGTTTATAAGAGCACC
* * ** * *
17918050 TTTTCAAAAAGAGATTTTTAAAGTCATTTGTCTATGTTTATAGGAGCATTTTTCAAAAAAGATTT
1 TTTTCAAAAAGAGATTTTAAAAGTCACTTACCTATGTTTATAAGAGCATTTTTCAAAAAAGATGT
* * * * *
17918115 TTAAAATCACTTGCCTATGTTTATAAGACCACTTTTTAAAAAAGAGATTTTTTAAAGTTATTTGC
66 TTAAAGTCACTTACCTATGTTTATAAGAGCACTTTTCAAAAAA-AGA-TTTTTAAAGTTACTTGC
* **
17918180 CTATATTTATATA-AGCATA
129 CTATGTTTATA-AGAGCACC
* * * * *
17918199 TTTTCCAAAAGAGCTTTTTAAAGTAACTTACCTATGATTATA
1 TTTTCAAAAAGAGATTTTAAAAGTCACTTACCTATGTTTATA
17918241 GAAGCAATTT
Statistics
Matches: 411, Mismatches: 65, Indels: 28
0.82 0.13 0.06
Matches are distributed among these distances:
146 3 0.01
147 49 0.12
148 166 0.40
149 68 0.17
151 67 0.16
153 5 0.01
154 18 0.04
155 35 0.09
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (147 bp):
TTTTCAAAAAGAGATTTTAAAAGTCACTTACCTATGTTTATAAGAGCATTTTTCAAAAAAGATGT
TTAAAGTCACTTACCTATGTTTATAAGAGCACTTTTCAAAAAAAGATTTTTAAAGTTACTTGCCT
ATGTTTATAAGAGCACC
Found at i:17918246 original size:50 final size:49
Alignment explanation
Indices: 17917598--17918246 Score: 517
Period size: 50 Copynumber: 13.0 Consensus size: 49
17917588 ATAGGAGCCC
* * *
17917598 TTTTTCAAAAAGCGAGTTTTAAAGTTACTTGCCTATGTTTATA-AGAGCACA
1 TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGA-AG--CA
* **
17917649 TTTTTCAAAAAAAAAGATTTCAAAAGTCACTTGCCTATGTTTATA-AGAGCA
1 TTTTTC--AAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGA-AGCA
* * * * *
17917700 TTTTTCAAAAAAAGAGTTTTAAAATTACTTGCCTATATTTATA-AGAGCACA
1 TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGA-AG--CA
* * *
17917751 TTTTTTTCAAAAAGAGATTTTAAAAGTCACTTACCTATGTTTATAGTAGCA
1 --TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGAAGCA
* * * * *
17917802 CTTATTCAAAAA-AGATTTTTAAAGTCACTTACCCATATTTATAGGAGCA
1 -TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGAAGCA
* * * * ** *
17917851 CTTTTCAAAAAAAGATTTTTAAAGTTAGTTGGTTATGTTTATA-AGAGTA
1 TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGA-AGCA
* * * * ** *
17917900 CCTTTTCAAAAGGAGATTTTAAAAGTTACTTAACTATATTTATA-AGAGCA
1 -TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGA-AGCA
* * *
17917950 TTTTT-AAAGAAGAGA-GTTTAAAGTCACTTACCTATGTTTATAAAAGCA
1 TTTTTCAAA-AAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGAAGCA
* * * * *
17917998 CTTTTCAAAAAAGAGATTTTTTAAGTTACTTGCCTACGTTTATAGGAGCA
1 TTTTTC-AAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGAAGCA
* * * *
17918048 CCTTTTCAAAAAGAGATTTTTAAAGTCATTTGTCTATGTTTATAGGAGCA
1 -TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGAAGCA
* *
17918098 TTTTTCAAAAA-AGATTTTTAAAATCACTTGCCTATGTTTATA-AGACCA
1 TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGA-AGCA
* * * * *
17918146 CTTTTTAAAAAAGAGATTTTTTAAAGTTATTTGCCTATATTTATATAAGCA
1 -TTTTTCAAAAAGAGA-TTTTTAAAGTCACTTGCCTATGTTTATAGAAGCA
* * * * *
17918197 TATTTTCCAAAAGAGCTTTTTAAAGTAACTTACCTATGATTATAGAAGCA
1 T-TTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGAAGCA
17918247 ATTTAAAAAA
Statistics
Matches: 489, Mismatches: 87, Indels: 45
0.79 0.14 0.07
Matches are distributed among these distances:
48 73 0.15
49 131 0.27
50 149 0.30
51 62 0.13
52 1 0.00
53 73 0.15
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (49 bp):
TTTTTCAAAAAGAGATTTTTAAAGTCACTTGCCTATGTTTATAGAAGCA
Found at i:17927252 original size:61 final size:60
Alignment explanation
Indices: 17927127--17927265 Score: 165
Period size: 61 Copynumber: 2.3 Consensus size: 60
17927117 TTGGCATAAG
* * *
17927127 AAACACCTTAAGTAATCATGTTCAATTTTTTTTAGGATTATTTAAGGCTTTTTCTTACCAA
1 AAACACCTTAAATAATCATGTTCAATTTTTTTTAGGATTATTTAAGACTTTTTCGTA-CAA
* * * *
17927188 AAACACTTTAAATAATCTTGTTCAA-TTTTTTTAGGGATTATTTAATACGTTTTTGGT-CAGA
1 AAACACCTTAAATAATCATGTTCAATTTTTTTTA-GGATTATTTAAGAC-TTTTTCGTACA-A
17927249 AAACACCTTAAATAATC
1 AAACACCTTAAATAATC
17927266 CTTTACAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
60 10 0.15
61 51 0.76
62 6 0.09
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (60 bp):
AAACACCTTAAATAATCATGTTCAATTTTTTTTAGGATTATTTAAGACTTTTTCGTACAA
Found at i:17927321 original size:63 final size:61
Alignment explanation
Indices: 17927245--17927391 Score: 165
Period size: 61 Copynumber: 2.4 Consensus size: 61
17927235 CGTTTTTGGT
*
17927245 CAGAAAACACCTTAAATAATCCTTTAC-AAAAAATTGAATAAG-ATTATTTAAAGCATTTTCTGG
1 CAGAAAA-ACCTTAAATAAT-C--TACTAAAAAATTG-ATAAGTATTATTTAAAGCATTTTCTAG
17927308 C
61 C
* * *
17927309 CA-AAAAAGCCTTAAATAATCTCCTAAAAAATTGATCAGTATTATTTAAGGCATTTTCTAGC
1 CAGAAAAA-CCTTAAATAATCTACTAAAAAATTGATAAGTATTATTTAAAGCATTTTCTAGC
* *
17927370 CAGAAACACCTTAAATGATCTA
1 CAGAAAAACCTTAAATAATCTA
17927392 AAAAAAAGTA
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
60 6 0.08
61 43 0.60
62 6 0.08
63 15 0.21
64 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (61 bp):
CAGAAAAACCTTAAATAATCTACTAAAAAATTGATAAGTATTATTTAAAGCATTTTCTAGC
Found at i:17927652 original size:255 final size:256
Alignment explanation
Indices: 17927195--17927671 Score: 617
Period size: 255 Copynumber: 1.9 Consensus size: 256
17927185 CAAAAACACT
** * *
17927195 TTAAATAATCTTGTTCAATTTTTTTAGGGATTATTTAATACGTTTTTGGTCAGAAAACACCTTAA
1 TTAAATAATAATGTTCAATTTTTTTAGGGATTATTTAATAC-TTTTTGATCAAAAAACACCTTAA
** * *
17927260 ATAATCCTTTACAAAAAATTGAATAAGATTATTTAAAGCATTTTCTGGCCAAAAAAGCCTTAAAT
65 ATAATCCTCAACAAAAAATTAAATAAGATTATTTAAAGCATTTTCTAGCCAAAAAAGCCTTAAAT
* * * *
17927325 AATCTCCTAAAAAATTGATCAGTATTATTTAAGGCATTTTCTAGCCAGAAACACCTTAAATGATC
130 AATCCCCTAAAAAATTGATCAGCATTATTTAAGACATTTTCTAGCCAGAAACACCTTAAATAATC
* *
17927390 -TAAAAAAAAGTAATTCCAAAAAATAAGGATTATTTAAGGCATTGTTTGGCAAAAAAAATCC
195 AAAAAAAAAAGTAATCCCAAAAAATAAGGATTATTTAAGGCATTGTTTGGCAAAAAAAATCC
*
17927451 TTAAATAATAATGTTCAATTTTTTT-TGGATTATTTAAGGTA-TTTTTGATCAAAAAACACCTTA
1 TTAAATAATAATGTTCAATTTTTTTAGGGATTATTTAA--TACTTTTTGATCAAAAAACACCTTA
** * *
17927514 AATAATCCTCAACAAAAAATTAAATGGGATTATTT-AAGACATTTTCTAGCCAAAAATGCTTTAA
64 AATAATCCTCAACAAAAAATTAAATAAGATTATTTAAAG-CATTTTCTAGCCAAAAAAGCCTTAA
* * * * *
17927578 ATAATCCCCT-AAAAATTTATTAGCATTATTTAAGACGTTTT-TTGACCA-AAATACCTTAAATA
128 ATAATCCCCTAAAAAATTGATCAGCATTATTTAAGACATTTTCTAG-CCAGAAACACCTTAAATA
*
17927640 ATTCAAAAAAAAAAAGTAATCCCCAAAAATAA
192 A-TC-AAAAAAAAAAGTAATCCCAAAAAATAA
17927672 ATGTTGAAAG
Statistics
Matches: 189, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
253 15 0.08
254 34 0.18
255 92 0.49
256 46 0.24
257 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (256 bp):
TTAAATAATAATGTTCAATTTTTTTAGGGATTATTTAATACTTTTTGATCAAAAAACACCTTAAA
TAATCCTCAACAAAAAATTAAATAAGATTATTTAAAGCATTTTCTAGCCAAAAAAGCCTTAAATA
ATCCCCTAAAAAATTGATCAGCATTATTTAAGACATTTTCTAGCCAGAAACACCTTAAATAATCA
AAAAAAAAAGTAATCCCAAAAAATAAGGATTATTTAAGGCATTGTTTGGCAAAAAAAATCC
Found at i:17928136 original size:63 final size:62
Alignment explanation
Indices: 17927994--17928137 Score: 155
Period size: 62 Copynumber: 2.3 Consensus size: 62
17927984 TTAGTATAAA
* * *
17927994 AAAAATAGCCTTAAATAATACGATCCAAAAAATTGAAGGATATTATTTAAGGCGTTTTTCACC
1 AAAAATA-CCTTAAATAATACCATCCAAAAAATTGAAGGAGATTATTTAAGGCGTTTTGCACC
** * * * * * *
17928057 AAAAAGGCCTTAAATAATGCCCTTCAAAAAATTTTAA-GAGATTATTTAAGGCGTTTCTGGATC
1 AAAAATACCTTAAATAATACCATCCAAAAAA-TTGAAGGAGATTATTTAAGGCGTTT-TGCACC
17928120 AAAAATACCTTAAATAAT
1 AAAAATACCTTAAATAAT
17928138 CTTCTGATAC
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
62 38 0.58
63 28 0.42
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (62 bp):
AAAAATACCTTAAATAATACCATCCAAAAAATTGAAGGAGATTATTTAAGGCGTTTTGCACC
Found at i:17928166 original size:63 final size:63
Alignment explanation
Indices: 17928099--17928261 Score: 202
Period size: 63 Copynumber: 2.6 Consensus size: 63
17928089 TTTAAGAGAT
* * * *
17928099 TATTTAAGGCGTTTCTGGATCAAAAATACCTTAAATAAT-CTTCTGATACATTTTAAAAGGGAC
1 TATTTAAGGCATTTTTGGATAAAAAATACCTTAAATAATCCTT-TGATACATTTTAAAAGGCAC
* * * ** *
17928162 TATTTAAGGTATTTTTGGATAAAAAATACCTCAAATAATCCTTTTATATTTTTTAAAAGGCAT
1 TATTTAAGGCATTTTTGGATAAAAAATACCTTAAATAATCCTTTGATACATTTTAAAAGGCAC
* *
17928225 TATTTATGGCATTTTTGGATAAAAAACACCTTAAATA
1 TATTTAAGGCATTTTTGGATAAAAAATACCTTAAATA
17928262 CTCTCCTTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 82 0.96
64 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (63 bp):
TATTTAAGGCATTTTTGGATAAAAAATACCTTAAATAATCCTTTGATACATTTTAAAAGGCAC
Found at i:17928950 original size:17 final size:17
Alignment explanation
Indices: 17928902--17928953 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
17928892 TCTTCACTTC
17928902 TTTTTT-TTTATTTTAG
1 TTTTTTATTTATTTTAG
* * *
17928918 TTTCTAAGTTT-CTTTAG
1 TTTTTTA-TTTATTTTAG
17928935 TTTTTTATTTATTTTAG
1 TTTTTTATTTATTTTAG
17928952 TT
1 TT
17928954 AAGGCACTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
16 7 0.26
17 17 0.63
18 3 0.11
ACGTcount: A:0.15, C:0.04, G:0.08, T:0.73
Consensus pattern (17 bp):
TTTTTTATTTATTTTAG
Found at i:17929625 original size:19 final size:19
Alignment explanation
Indices: 17929597--17929682 Score: 77
Period size: 19 Copynumber: 4.5 Consensus size: 19
17929587 TCAAATATAT
17929597 ACCCTAAACCACT-TGCCAA
1 ACCCTAAACCACTCT-CCAA
*
17929616 ACCTTAAACCACTCTCCAA
1 ACCCTAAACCACTCTCCAA
* * *
17929635 ACCCTAAACCATTAT-TAA
1 ACCCTAAACCACTCTCCAA
** *
17929653 ACCCCTAAACCAAACTCTAA
1 A-CCCTAAACCACTCTCCAA
17929673 ACCCTAAACC
1 ACCCTAAACC
17929683 TAAAATCATA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
18 3 0.05
19 48 0.86
20 5 0.09
ACGTcount: A:0.41, C:0.40, G:0.01, T:0.19
Consensus pattern (19 bp):
ACCCTAAACCACTCTCCAA
Found at i:17929679 original size:7 final size:7
Alignment explanation
Indices: 17929650--17929737 Score: 65
Period size: 7 Copynumber: 12.7 Consensus size: 7
17929640 AAACCATTAT
17929650 TAAACCCC
1 TAAA-CCC
17929658 TAAA-CC
1 TAAACCC
*
17929664 -AAACTC
1 TAAACCC
17929670 TAAACCC
1 TAAACCC
17929677 TAAA-CC
1 TAAACCC
* *
17929683 TAAAATCA
1 T-AAACCC
* *
17929691 TAAATCA
1 TAAACCC
17929698 TAAACCC
1 TAAACCC
17929705 TAAACCC
1 TAAACCC
*
17929712 TAAACCT
1 TAAACCC
*
17929719 TAAACCT
1 TAAACCC
*
17929726 TAAACTC
1 TAAACCC
17929733 TAAAC
1 TAAAC
17929738 TTACCCCAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
5 3 0.04
6 6 0.09
7 53 0.78
8 6 0.09
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:17929870 original size:14 final size:13
Alignment explanation
Indices: 17929844--17929882 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
17929834 TTCTTGAATC
17929844 ATCATGCATTCAT
1 ATCATGCATTCAT
17929857 ATCATGCTATTCAT
1 ATCATGC-ATTCAT
*
17929871 A-CATTCATTCAT
1 ATCATGCATTCAT
17929883 TTTTATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 6 0.25
13 11 0.46
14 7 0.29
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (13 bp):
ATCATGCATTCAT
Found at i:17936091 original size:10 final size:11
Alignment explanation
Indices: 17936067--17936095 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
17936057 AACAAAAAAG
17936067 AAAAATTCTTA
1 AAAAATTCTTA
17936078 AAAAATTCTTA
1 AAAAATTCTTA
17936089 AAAAATT
1 AAAAATT
17936096 AAAAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATTCTTA
Found at i:17936174 original size:10 final size:10
Alignment explanation
Indices: 17936155--17936210 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
17936145 CAAGAACTTA
17936155 AAAAAATTCT
1 AAAAAATTCT
*
17936165 AAACAATTCT
1 AAAAAATTCT
*
17936175 AAAAAATTAT
1 AAAAAATTCT
* *
17936185 AACAAATTTT
1 AAAAAATTCT
17936195 GAAAAGAATTCT
1 -AAAA-AATTCT
17936207 AAAA
1 AAAA
17936211 GATTTTTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 25 0.68
11 7 0.19
12 5 0.14
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.29
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:17936304 original size:9 final size:9
Alignment explanation
Indices: 17936292--17936477 Score: 61
Period size: 10 Copynumber: 19.0 Consensus size: 9
17936282 AAAATTTTTA
17936292 AAAAAATTT
1 AAAAAATTT
17936301 AAAACAA-TT
1 AAAA-AATTT
17936310 AAACAAA-TT
1 AAA-AAATTT
17936319 AAAAAATTCTT
1 AAAAAA-T-TT
17936330 AAAAAATATT
1 AAAAAAT-TT
* *
17936340 TAAAATTTT
1 AAAAAATTT
17936349 ATAAAAATTT
1 A-AAAAATTT
**
17936359 TTAAAATTT
1 AAAAAATTT
* *
17936368 TAAACATTT
1 AAAAAATTT
*
17936377 CCAAAAATTTT
1 --AAAAAATTT
* **
17936388 AAAAACTACA
1 AAAAAAT-TT
17936398 AAAAAATTT
1 AAAAAATTT
* * *
17936407 CATAAACTTA
1 -AAAAAATTT
*
17936417 AAAAAATTCA
1 AAAAAATT-T
*
17936427 AAACAAATCT
1 AAA-AAATTT
17936437 AAAAAATTT
1 AAAAAATTT
*
17936446 GATAAAATTAT
1 -AAAAAATT-T
17936457 GAAAAAAATTCT
1 --AAAAAATT-T
17936469 AAAAAATTT
1 AAAAAATTT
17936478 TTTAAAATAT
Statistics
Matches: 132, Mismatches: 30, Indels: 30
0.69 0.16 0.16
Matches are distributed among these distances:
8 3 0.02
9 50 0.38
10 52 0.39
11 19 0.14
12 8 0.06
ACGTcount: A:0.59, C:0.08, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAAATTT
Found at i:17936333 original size:11 final size:10
Alignment explanation
Indices: 17936261--17936392 Score: 73
Period size: 10 Copynumber: 13.4 Consensus size: 10
17936251 TATAAAAATG
*
17936261 AAAAATTCTA
1 AAAAATTTTA
* *
17936271 TAAAATTCTA
1 AAAAATTTTA
*
17936281 TAAAATTTTTA
1 -AAAAATTTTA
*
17936292 AAAAAATTTA
1 AAAAATTTTA
17936302 AAACAA--TTA
1 AAA-AATTTTA
17936311 AACAAA--TTA
1 AA-AAATTTTA
17936320 AAAAATTCTTA
1 AAAAATT-TTA
17936331 AAAAATATTT-
1 AAAAAT-TTTA
17936341 -AAAATTTTA
1 AAAAATTTTA
17936350 TAAAAATTTT-
1 -AAAAATTTTA
*
17936360 TAAAATTTT-
1 AAAAATTTTA
* **
17936369 AAACATTTCC
1 AAAAATTTTA
17936379 AAAAATTTTA
1 AAAAATTTTA
17936389 AAAA
1 AAAA
17936393 CTACAAAAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 22
0.74 0.10 0.17
Matches are distributed among these distances:
8 6 0.06
9 31 0.32
10 32 0.33
11 28 0.29
12 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:17936586 original size:28 final size:27
Alignment explanation
Indices: 17936545--17936605 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
17936535 TTCCTTAACT
*
17936545 ATTTTTGAATTTCTTAAAATTTTCTTGA
1 ATTTTTGAATTTCTTAAAATTTT-TTAA
*
17936573 ATTTTTAGAA-TTCTTAGAATTTTTTAA
1 ATTTTT-GAATTTCTTAAAATTTTTTAA
17936600 ATTTTT
1 ATTTTT
17936606 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 9 0.30
28 18 0.60
29 3 0.10
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (27 bp):
ATTTTTGAATTTCTTAAAATTTTTTAA
Found at i:17936602 original size:9 final size:9
Alignment explanation
Indices: 17936546--17936936 Score: 87
Period size: 9 Copynumber: 40.6 Consensus size: 9
17936536 TCCTTAACTA
*
17936546 TTTTTGAAT
1 TTTTTAAAT
*
17936555 TTCTTAAAAT
1 TT-TTTAAAT
*
17936565 TTTCTTGAA-
1 TTT-TTAAAT
17936574 TTTTTAGAA-
1 TTTTTA-AAT
*
17936583 TTCTTAGAAT
1 TTTTTA-AAT
17936593 TTTTTAAATT
1 TTTTTAAA-T
*
17936603 TTTTTAAAA
1 TTTTTAAAT
* *
17936612 TTTTGAAGT
1 TTTTTAAAT
17936621 TTTTTAAAAAGT
1 TTTTT--AAA-T
** *
17936633 TTTAAAAAG
1 TTTTTAAAT
17936642 TTTTTAGAA-
1 TTTTTA-AAT
17936651 TTTTTAAAT
1 TTTTTAAAT
17936660 TTTTT--AT
1 TTTTTAAAT
*
17936667 TTTTGTCAACT
1 TTTT-T-AAAT
* *
17936678 TTCTAAATATT
1 TTTTTAA-A-T
17936689 TTTTTGAAAT
1 TTTTT-AAAT
17936699 TATTTTAGAAT
1 T-TTTTA-AAT
* *
17936710 TTTTGAAAAG
1 TTTT-TAAAT
*
17936720 TTATTATAAT
1 TTTTTA-AAT
* *
17936730 TTTTAAAAAAA
1 TTTT--TAAAT
**
17936741 TTTCAAAAT
1 TTTTTAAAT
*
17936750 TTTTTAGA-
1 TTTTTAAAT
* *
17936758 TTTTCAATT
1 TTTTTAAAT
*
17936767 TTTTTTAAT
1 TTTTTAAAT
17936776 TTTTTAAAAT
1 TTTTT-AAAT
**
17936786 TTTAAAAAT
1 TTTTTAAAT
*
17936795 TATTTTAGATT
1 T-TTTTA-AAT
17936806 TTTTTGAAA-
1 TTTTT-AAAT
*
17936815 -TTTTAATT
1 TTTTTAAAT
17936823 TTTTTAGAAT
1 TTTTTA-AAT
*
17936833 TTCTTAAAAT
1 TT-TTTAAAT
17936843 TATTTTAAAT
1 T-TTTTAAAT
* **
17936853 TATTTAGTT
1 TTTTTAAAT
*
17936862 TTTTTTAAT
1 TTTTTAAAT
17936871 GTTTTTAAATT
1 -TTTTTAAA-T
*
17936882 CTTTTTAATT
1 -TTTTTAAAT
*
17936892 TTTTTGAAT
1 TTTTTAAAT
17936901 TATTTTATAAT
1 T-TTTTA-AAT
**
17936912 TTTAAAAAT
1 TTTTTAAAT
17936921 TTTTCTAATAT
1 TTTT-TAA-AT
17936932 TTTTT
1 TTTTT
17936937 TCTGAATTTT
Statistics
Matches: 272, Mismatches: 71, Indels: 77
0.65 0.17 0.18
Matches are distributed among these distances:
7 8 0.03
8 14 0.05
9 100 0.37
10 92 0.34
11 51 0.19
12 7 0.03
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:17936655 original size:10 final size:10
Alignment explanation
Indices: 17936546--17936914 Score: 54
Period size: 10 Copynumber: 38.3 Consensus size: 10
17936536 TCCTTAACTA
17936546 TTTTT-GAAT
1 TTTTTAGAAT
* *
17936555 TTCTTAAAAT
1 TTTTTAGAAT
17936565 TTTCTT-GAA-
1 TTT-TTAGAAT
17936574 TTTTTAGAA-
1 TTTTTAGAAT
*
17936583 TTCTTAGAAT
1 TTTTTAGAAT
17936593 TTTTTA-AATT
1 TTTTTAGAA-T
17936603 TTTTTA-AA-
1 TTTTTAGAAT
*
17936611 ATTTT-GAAGT
1 TTTTTAGAA-T
* *
17936621 TTTTTAAAAAG
1 TTTTT-AGAAT
* * *
17936632 TTTTAAAAAG
1 TTTTTAGAAT
17936642 TTTTTAGAA-
1 TTTTTAGAAT
17936651 TTTTTA-AAT
1 TTTTTAGAAT
17936660 TTTTT---AT
1 TTTTTAGAAT
* *
17936667 TTTTGT-CAAC
1 TTTT-TAGAAT
* *
17936677 TTTCTAAATAT
1 TTTTTAGA-AT
*
17936688 TTTTTTGAAAT
1 TTTTTAG-AAT
17936699 TATTTTAGAAT
1 T-TTTTAGAAT
* * *
17936710 TTTTGAAAAG
1 TTTTTAGAAT
* *
17936720 TTATTATAAT
1 TTTTTAGAAT
* * *
17936730 TTTTAAAAAA
1 TTTTTAGAAT
* * *
17936740 ATTTCAAAAT
1 TTTTTAGAAT
17936750 TTTTTAG-A-
1 TTTTTAGAAT
*
17936758 -TTTT-CAAT
1 TTTTTAGAAT
**
17936766 TTTTTTTAAT
1 TTTTTAGAAT
*
17936776 TTTTTA-AAA
1 TTTTTAGAAT
* *
17936785 TTTTAAAAAT
1 TTTTTAGAAT
17936795 TATTTTAG-AT
1 T-TTTTAGAAT
*
17936805 TTTTTTGAA-
1 TTTTTAGAAT
* *
17936814 ATTTTA-ATT
1 TTTTTAGAAT
17936823 TTTTTAGAAT
1 TTTTTAGAAT
* *
17936833 TTCTTAAAAT
1 TTTTTAGAAT
17936843 TATTTTA-AAT
1 T-TTTTAGAAT
*
17936853 TATTTAG--T
1 TTTTTAGAAT
**
17936861 TTTTTTTAAT
1 TTTTTAGAAT
17936871 GTTTTTA-AAT
1 -TTTTTAGAAT
*
17936881 TCTTTT-TAAT
1 T-TTTTAGAAT
*
17936891 TTTTTTGAAT
1 TTTTTAGAAT
*
17936901 TATTTTATAAT
1 T-TTTTAGAAT
17936912 TTT
1 TTT
17936915 AAAAATTTTT
Statistics
Matches: 261, Mismatches: 63, Indels: 71
0.66 0.16 0.18
Matches are distributed among these distances:
7 11 0.04
8 17 0.07
9 67 0.26
10 119 0.46
11 39 0.15
12 8 0.03
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.59
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:17936896 original size:21 final size:20
Alignment explanation
Indices: 17936863--17936914 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
17936853 TATTTAGTTT
* *
17936863 TTTTTAATGTTTTTAAATTC
1 TTTTTAATTTTTTTAAATTA
*
17936883 TTTTTAATTTTTTTGAATTA
1 TTTTTAATTTTTTTAAATTA
17936903 TTTTATAATTTT
1 TTTT-TAATTTT
17936915 AAAAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTAATTTTTTTAAATTA
Found at i:17936914 original size:28 final size:27
Alignment explanation
Indices: 17936797--17936914 Score: 71
Period size: 30 Copynumber: 4.1 Consensus size: 27
17936787 TTAAAAATTA
*
17936797 TTTTAGATTTTTTTGAA--ATTTTAATTT
1 TTTTA-ATTTTTTTGAATTATTTTAA-AT
* **
17936824 TTTTAGAATTTCTTAAAATTATTTTAAAT
1 TTTT--AATTTTTTTGAATTATTTTAAAT
* *
17936853 TATTTAGTTTTTTTTAATGT-TTTTAAATTCT
1 T-TTTAATTTTTTTGAAT-TATTTTAAA---T
17936884 TTTTAATTTTTTTGAATTATTTTATAAT
1 TTTTAATTTTTTTGAATTATTTTA-AAT
17936912 TTT
1 TTT
17936915 AAAAATTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
27 4 0.06
28 28 0.40
29 5 0.07
30 29 0.41
31 4 0.06
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (27 bp):
TTTTAATTTTTTTGAATTATTTTAAAT
Found at i:17939460 original size:34 final size:35
Alignment explanation
Indices: 17939417--17939488 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 35
17939407 GAGTCAAGGT
17939417 ATGGTAAAAGTCATTTAGG-TCAAGTA-CCTTAACA
1 ATGGTAAAAGTCATTTAGGCTCAAGTATCC-TAACA
17939451 ATGGTAAAAGTCATTTAGGCTCAAGTATCCTAACA
1 ATGGTAAAAGTCATTTAGGCTCAAGTATCCTAACA
17939486 ATG
1 ATG
17939489 CATTACTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 19 0.53
35 15 0.42
36 2 0.06
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (35 bp):
ATGGTAAAAGTCATTTAGGCTCAAGTATCCTAACA
Found at i:17950138 original size:13 final size:13
Alignment explanation
Indices: 17950120--17950145 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17950110 ATGTTGAGCT
17950120 ATTATGCTTCAAC
1 ATTATGCTTCAAC
17950133 ATTATGCTTCAAC
1 ATTATGCTTCAAC
17950146 TTGAATGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
ATTATGCTTCAAC
Found at i:17951022 original size:15 final size:15
Alignment explanation
Indices: 17951001--17951044 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
17950991 GGCAAGTAAG
17951001 AAAATGCAAGAAAAT
1 AAAATGCAAGAAAAT
*
17951016 GAAATGC-AGAAAAGT
1 AAAATGCAAGAAAA-T
17951031 AAAATGCAA-AAAAT
1 AAAATGCAAGAAAAT
17951045 TAAAGAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 7 0.28
15 17 0.68
16 1 0.04
ACGTcount: A:0.64, C:0.07, G:0.16, T:0.14
Consensus pattern (15 bp):
AAAATGCAAGAAAAT
Found at i:17953503 original size:16 final size:16
Alignment explanation
Indices: 17953482--17953520 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
17953472 GAGATAATAT
*
17953482 ATAAATAATAAATTAA
1 ATAAATAATAAAGTAA
*
17953498 ATAAATAATTAAGTAA
1 ATAAATAATAAAGTAA
17953514 ATAAATA
1 ATAAATA
17953521 TAATTATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
ATAAATAATAAAGTAA
Found at i:17957395 original size:16 final size:17
Alignment explanation
Indices: 17957374--17957405 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17957364 AGTTTTTAGT
17957374 ATTAAAAT-TAAAAAAA
1 ATTAAAATATAAAAAAA
17957390 ATTAAAATATAAAAAA
1 ATTAAAATATAAAAAA
17957406 GCAAGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
ATTAAAATATAAAAAAA
Found at i:17957465 original size:26 final size:27
Alignment explanation
Indices: 17957411--17957465 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
17957401 AAAAAGCAAG
*
17957411 AATTTAAATGTTAAAAAAAGATGAGAT
1 AATTTAAATGTTAAAAAAAGATGAAAT
17957438 AATTTAAATGTTAAAAAAAGAT-AAAT
1 AATTTAAATGTTAAAAAAAGATGAAAT
17957464 AA
1 AA
17957466 AGAAAATGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (27 bp):
AATTTAAATGTTAAAAAAAGATGAAAT
Found at i:17957472 original size:26 final size:27
Alignment explanation
Indices: 17957416--17957473 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
17957406 GCAAGAATTT
* ***
17957416 AAATGTTAAAAAAAGATGAGATAATTT
1 AAATGTTAAAAAAAGATGAAATAAAGA
17957443 AAATGTTAAAAAAAGAT-AAATAAAGA
1 AAATGTTAAAAAAAGATGAAATAAAGA
17957469 AAATG
1 AAATG
17957474 AGATGGACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (27 bp):
AAATGTTAAAAAAAGATGAAATAAAGA
Found at i:17962301 original size:17 final size:17
Alignment explanation
Indices: 17962281--17962313 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17962271 TTATGTTAAC
17962281 AATTATTTTGTATTTAG
1 AATTATTTTGTATTTAG
17962298 AATTATTTTGTATTTA
1 AATTATTTTGTATTTA
17962314 TAATACTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
AATTATTTTGTATTTAG
Found at i:17963052 original size:27 final size:27
Alignment explanation
Indices: 17962995--17963046 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
17962985 TAAGTTAACA
* * *
17962995 AATTAACAAAAAATTAATTATTTTTAC
1 AATTAACAAAAAATCAATGATTTATAC
17963022 AATTAA-AAAAAATCAATGATTTATA
1 AATTAACAAAAAATCAATGATTTATA
17963047 TTAATTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (27 bp):
AATTAACAAAAAATCAATGATTTATAC
Found at i:17963449 original size:33 final size:33
Alignment explanation
Indices: 17963407--17963472 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
17963397 ATTTTGAAAC
* *
17963407 CATCCTCAAATAAAACCATAAAACCAAAAGTTT
1 CATCCTCAAACAAAACCACAAAACCAAAAGTTT
*
17963440 CATCCTCAAACAAAACCACAAAACTAAAAGTTT
1 CATCCTCAAACAAAACCACAAAACCAAAAGTTT
17963473 AGATGAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.20
Consensus pattern (33 bp):
CATCCTCAAACAAAACCACAAAACCAAAAGTTT
Found at i:17963827 original size:47 final size:47
Alignment explanation
Indices: 17963768--17963862 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
17963758 CAAGGGCATC
* * * *
17963768 CCATGGTGCAATTAGTACTAAAAAATAAACTGGATTTCAATGCACCA
1 CCATGGTACAATTAGCACTAAAAAAGAAACTAGATTTCAATGCACCA
* * *
17963815 CCATGGTACAATTAGCACTCAAAAGGAAACTAGATTTCACTGCACCA
1 CCATGGTACAATTAGCACTAAAAAAGAAACTAGATTTCAATGCACCA
17963862 C
1 C
17963863 GCCAGATATG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (47 bp):
CCATGGTACAATTAGCACTAAAAAAGAAACTAGATTTCAATGCACCA
Found at i:17964912 original size:2 final size:2
Alignment explanation
Indices: 17964905--17964939 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17964895 CATACAATAC
17964905 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
17964940 CACAGCCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:17965383 original size:4 final size:4
Alignment explanation
Indices: 17965369--17965399 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
17965359 ACTATTCTTT
*
17965369 TCCC ACCC TCCC TCCC TCCC TCCC TCCC TCC
1 TCCC TCCC TCCC TCCC TCCC TCCC TCCC TCC
17965400 ACCAGCCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.03, C:0.74, G:0.00, T:0.23
Consensus pattern (4 bp):
TCCC
Found at i:17966891 original size:27 final size:27
Alignment explanation
Indices: 17966847--17966899 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
17966837 GTTAGATGGT
*
17966847 CCAGGTTGTCGATGACCATGGCTTGGC
1 CCAGGTTGTCGATCACCATGGCTTGGC
17966874 CCAGGTTGTTC-ATCACCATGGCTTGG
1 CCAGGTTG-TCGATCACCATGGCTTGG
17966900 TTTTAAACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.28
Consensus pattern (27 bp):
CCAGGTTGTCGATCACCATGGCTTGGC
Found at i:17968829 original size:41 final size:41
Alignment explanation
Indices: 17968776--17968858 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
17968766 AAATGATTGG
17968776 GAATTTTATTTGACTTTATCTGAAGGAGAGAATAGGAGATT
1 GAATTTTATTTGACTTTATCTGAAGGAGAGAATAGGAGATT
17968817 GAATTTTATTTGACTTTATCTGAAGGAGAGAATAGGAGATT
1 GAATTTTATTTGACTTTATCTGAAGGAGAGAATAGGAGATT
17968858 G
1 G
17968859 TATGAAAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (41 bp):
GAATTTTATTTGACTTTATCTGAAGGAGAGAATAGGAGATT
Found at i:17970495 original size:18 final size:18
Alignment explanation
Indices: 17970472--17970515 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
17970462 AATTTTATTA
17970472 ATTAAAAATAAGA-AAAAT
1 ATTAAAAATAA-ATAAAAT
17970490 ATTAAAAATAAATAAAAT
1 ATTAAAAATAAATAAAAT
17970508 ATTAAAAA
1 ATTAAAAA
17970516 AATTTATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
ATTAAAAATAAATAAAAT
Found at i:17971215 original size:29 final size:25
Alignment explanation
Indices: 17971174--17971244 Score: 65
Period size: 29 Copynumber: 2.7 Consensus size: 25
17971164 ATATTTTTAC
*
17971174 TAAATTAAA-ATATTAAATAATAACAT
1 TAAA-TAAATATATTAAAT-ATAAAAT
17971200 TATTAATATAATATATTTAAATATAAAAT
1 TA--AATA-AATATA-TTAAATATAAAAT
17971229 TAAATAAATA-ATTAAA
1 TAAATAAATATATTAAA
17971245 AGATAATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
24 5 0.13
25 1 0.03
26 6 0.15
27 6 0.15
28 4 0.10
29 11 0.28
30 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAATAAATATATTAAATATAAAAT
Found at i:17972007 original size:21 final size:20
Alignment explanation
Indices: 17971968--17972026 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 20
17971958 GTTGAGTTTT
17971968 TATTTAAAATAAAATTAAAA
1 TATTTAAAATAAAATTAAAA
17971988 TATTTATAAATATAAA-TAAAA
1 TATTTA-AAATA-AAATTAAAA
*
17972009 -A-ATAAAATAAAATTAAAA
1 TATTTAAAATAAAATTAAAA
17972027 AGGTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 3 0.09
18 10 0.29
19 2 0.06
20 7 0.20
21 10 0.29
22 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATTTAAAATAAAATTAAAA
Found at i:17972991 original size:11 final size:11
Alignment explanation
Indices: 17972963--17973019 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
17972953 AGAAAGGAAT
*
17972963 AAATAAAACATT
1 AAATAAAA-ATA
17972975 AAATAAAAATA
1 AAATAAAAATA
*
17972986 AAAT-AAGA-A
1 AAATAAAAATA
17972995 AAATAAAAATA
1 AAATAAAAATA
* *
17973006 AAATCAAAACA
1 AAATAAAAATA
17973017 AAA
1 AAA
17973020 AATGGAGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
9 5 0.13
10 6 0.16
11 19 0.50
12 8 0.21
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:17974405 original size:86 final size:86
Alignment explanation
Indices: 17974279--17974486 Score: 213
Period size: 86 Copynumber: 2.4 Consensus size: 86
17974269 TCAACTTAAG
* * * * * * * * *
17974279 GATCTTTTAAACAGAGGC-AAACAAATTTAAATTAAAAAATGGGCTTCTTTAAATAGAGGCTAAA
1 GATCTTTTAAACAGAGGCTAAACAACTTTAAAATGAGAAATGGACTTCTCTAAACAAAGCCTAAA
* *
17974343 TACCTTTAAACA-GAAAAATGC
66 CAACTTTAAA-ATGAAAAATGC
* * * * *
17974364 GCTCTTTTAAACAAAGACTAAACAACTTTAAACTGAGAAATGGATTTCTCTAAACAAAGCCTAAA
1 GATCTTTTAAACAGAGGCTAAACAACTTTAAAATGAGAAATGGACTTCTCTAAACAAAGCCTAAA
* *
17974429 CAACTTTAAAATGAGAAATGT
66 CAACTTTAAAATGAAAAATGC
* *
17974450 GATCTTTTGAATAGAGGCTAAACAACTTTAAAATGAG
1 GATCTTTTAAACAGAGGCTAAACAACTTTAAAATGAG
17974487 TTATTGAGAT
Statistics
Matches: 98, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
85 16 0.16
86 82 0.84
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (86 bp):
GATCTTTTAAACAGAGGCTAAACAACTTTAAAATGAGAAATGGACTTCTCTAAACAAAGCCTAAA
CAACTTTAAAATGAAAAATGC
Found at i:17974482 original size:43 final size:42
Alignment explanation
Indices: 17974278--17974486 Score: 165
Period size: 43 Copynumber: 4.9 Consensus size: 42
17974268 TTCAACTTAA
* * * * *
17974278 GGATCTTTTAAACAGAGGC-AAACAAATTTAAATTAAAAAAT
1 GGATCTTTTAAACAAAGGCTAAACAACTTTAAAATGAGAAAT
* * * * * *
17974319 GG-GCTTCTTTAAATAGAGGCTAAATACCTTTAAACA-GAAAAAT
1 GGATC-T-TTTAAACAAAGGCTAAACAACTTTAAA-ATGAGAAAT
* * *
17974362 GCGCTCTTTTAAACAAAGACTAAACAACTTTAAACTGAGAAAT
1 G-GATCTTTTAAACAAAGGCTAAACAACTTTAAAATGAGAAAT
*
17974405 GGAT-TTCTCTAAACAAAGCCTAAACAACTTTAAAATGAGAAAT
1 GGATCTT-T-TAAACAAAGGCTAAACAACTTTAAAATGAGAAAT
* * *
17974448 GTGATCTTTTGAATAGAGGCTAAACAACTTTAAAATGAG
1 G-GATCTTTTAAACAAAGGCTAAACAACTTTAAAATGAG
17974487 TTATTGAGAT
Statistics
Matches: 135, Mismatches: 22, Indels: 20
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 5 0.04
42 15 0.11
43 105 0.78
44 6 0.04
45 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (42 bp):
GGATCTTTTAAACAAAGGCTAAACAACTTTAAAATGAGAAAT
Found at i:17974989 original size:18 final size:18
Alignment explanation
Indices: 17974938--17975001 Score: 71
Period size: 17 Copynumber: 3.7 Consensus size: 18
17974928 GTAAGAATTC
*
17974938 CAAGTTTCGTAGAGATTT
1 CAAGATTCGTAGAGATTT
* *
17974956 -TAGATTCGCA-AGATTT
1 CAAGATTCGTAGAGATTT
*
17974972 CAAGTTTCGTAGAGATTT
1 CAAGATTCGTAGAGATTT
17974990 CAA-ATTCGTAGA
1 CAAGATTCGTAGA
17975002 AGGTTCCAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 6 0.16
17 22 0.59
18 9 0.24
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (18 bp):
CAAGATTCGTAGAGATTT
Found at i:17975141 original size:35 final size:35
Alignment explanation
Indices: 17975094--17975161 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
17975084 AAAAAGTGGA
*
17975094 AGATTCGAAAGAAATTCAGTTTCACAAGAATTTTT
1 AGATTCGAAAGAAATTCAATTTCACAAGAATTTTT
* *
17975129 AGATTCGTAAGAAATTCAATTTCTCAAGAATTT
1 AGATTCGAAAGAAATTCAATTTCACAAGAATTT
17975162 CAAATTCGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (35 bp):
AGATTCGAAAGAAATTCAATTTCACAAGAATTTTT
Found at i:17975163 original size:17 final size:17
Alignment explanation
Indices: 17975114--17975213 Score: 67
Period size: 17 Copynumber: 5.8 Consensus size: 17
17975104 GAAATTCAGT
* *
17975114 TTCACAAGAATTTTTAGA
1 TTCACAAGAA-TTTCAAA
** * *
17975132 TTCGTAAGAAATTCAAT
1 TTCACAAGAATTTCAAA
*
17975149 TTCTCAAGAATTTCAAA
1 TTCACAAGAATTTCAAA
* *
17975166 TTCGCAAG-ATTGTAAAGA
1 TTCACAAGAATT-TCAA-A
* *
17975184 TTCACAAGAAATTCAAT
1 TTCACAAGAATTTCAAA
17975201 TTCACAAGAATTT
1 TTCACAAGAATTT
17975214 TAAGTTTGCA
Statistics
Matches: 62, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
16 3 0.05
17 38 0.61
18 19 0.31
19 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (17 bp):
TTCACAAGAATTTCAAA
Found at i:17975245 original size:52 final size:52
Alignment explanation
Indices: 17975137--17975237 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
17975127 TTAGATTCGT
* * * *
17975137 AAGAAATTCAATTTCTCAAGAATTTCAAATTCGCAAGATTGTAAAGATTCAC
1 AAGAAATTCAATTTCACAAGAATTTCAAATTCGCAAAACTGCAAAGATTCAC
* * *
17975189 AAGAAATTCAATTTCACAAGAATTTTAAGTTTGCAAAAACT-CAAAGATT
1 AAGAAATTCAATTTCACAAGAATTTCAAATTCGC-AAAACTGCAAAGATT
17975238 TGCAAGAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 37 0.90
53 4 0.10
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.31
Consensus pattern (52 bp):
AAGAAATTCAATTTCACAAGAATTTCAAATTCGCAAAACTGCAAAGATTCAC
Found at i:17975486 original size:22 final size:22
Alignment explanation
Indices: 17975461--17975525 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 22
17975451 ATTCTTACTA
17975461 GAAAAATTTGAGATTCACATCC
1 GAAAAATTTGAGATTCACATCC
* * *
17975483 G--AAATTTCAAAATTCACATTC
1 GAAAAATTT-GAGATTCACATCC
* * *
17975504 GAAAAACTAGAGATTTACATCC
1 GAAAAATTTGAGATTCACATCC
17975526 AAAGTTTCAA
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
20 6 0.19
21 11 0.35
22 10 0.32
23 4 0.13
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (22 bp):
GAAAAATTTGAGATTCACATCC
Found at i:17975493 original size:44 final size:44
Alignment explanation
Indices: 17975430--17975585 Score: 199
Period size: 44 Copynumber: 3.6 Consensus size: 44
17975420 ATTTTAAGGT
* * * *
17975430 TTCACATCCAAAGTTTCAAAGATTCTTACTAGAAAAATTTGAGA
1 TTCACATCCAAAGTTTCAAAGATTCATATTCGAAAAATTAGAGA
* *
17975474 TTCACATCCGAAA-TTTCAAA-ATTCACATTCGAAAAACTAGAGA
1 TTCACATCC-AAAGTTTCAAAGATTCATATTCGAAAAATTAGAGA
* * * *
17975517 TTTACATCCAAAGTTTCAAAAATTCATATTCGAAAAATTAAAAA
1 TTCACATCCAAAGTTTCAAAGATTCATATTCGAAAAATTAGAGA
17975561 TTCACATCCAAAGTTTCAAAGATTC
1 TTCACATCCAAAGTTTCAAAGATTC
17975586 TCATTTAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
42 3 0.03
43 32 0.33
44 58 0.60
45 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (44 bp):
TTCACATCCAAAGTTTCAAAGATTCATATTCGAAAAATTAGAGA
Found at i:17975585 original size:22 final size:22
Alignment explanation
Indices: 17975317--17975585 Score: 90
Period size: 22 Copynumber: 12.2 Consensus size: 22
17975307 TTTTGTTAGT
17975317 GATTCACATCCAAAATTT-AAA
1 GATTCACATCCAAAATTTCAAA
* * ** *
17975338 GATTTATATTTGAAAAAATTCAAA
1 GATTCACA--TCCAAAATTTCAAA
17975362 GATTCACAT-CAAAGATTTC-AA
1 GATTCACATCCAAA-ATTTCAAA
* *** *
17975383 GGTTCATGGCTAAAA-TTCAAA
1 GATTCACATCCAAAATTTCAAA
* * * *
17975404 GATTCTCATTCAAAAAATTTTAAG
1 GATTCACA-TC-CAAAATTTCAAA
* *
17975428 GTTTCACATCCAAAGTTTCAAA
1 GATTCACATCCAAAATTTCAAA
** *
17975450 GATTCTTAC-TAGAAAAATTT--GA
1 GATTC--ACAT-CCAAAATTTCAAA
*
17975472 GATTCACATCCGAAATTTCAAA
1 GATTCACATCCAAAATTTCAAA
* ** *
17975494 -ATTCACATTCGAAAAACT-AGA
1 GATTCACA-TCCAAAATTTCAAA
* *
17975515 GATTTACATCCAAAGTTTCAAA
1 GATTCACATCCAAAATTTCAAA
* * * *
17975537 AATTCATATTCGAAAAATT-AAA
1 GATTCACA-TCCAAAATTTCAAA
* *
17975559 AATTCACATCCAAAGTTTCAAA
1 GATTCACATCCAAAATTTCAAA
17975581 GATTC
1 GATTC
17975586 TCATTTAAAA
Statistics
Matches: 169, Mismatches: 59, Indels: 39
0.63 0.22 0.15
Matches are distributed among these distances:
20 11 0.07
21 46 0.27
22 64 0.38
23 21 0.12
24 27 0.16
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.31
Consensus pattern (22 bp):
GATTCACATCCAAAATTTCAAA
Found at i:17975597 original size:44 final size:44
Alignment explanation
Indices: 17975398--17975599 Score: 196
Period size: 44 Copynumber: 4.6 Consensus size: 44
17975388 ATGGCTAAAA
* *
17975398 TTCAAAGATTCTCATTCAAAAAATTTTAAGGTTTCACATCCAAAGT
1 TTCAAAGATTCTCATTCAAAAAA--TTAAAGATTCACATCCAAAGT
* * **
17975444 TTCAAAGATTCTTACT-AGAAAAATTTGAGATTCACATCCGAAA-T
1 TTCAAAGATTCTCATTCA-AAAAATTAAAGATTCACATCC-AAAGT
* * * * *
17975488 TTCAAA-ATTCACATTCGAAAAACTAGAGATTTACATCCAAAGT
1 TTCAAAGATTCTCATTCAAAAAATTAAAGATTCACATCCAAAGT
* * *
17975531 TTCAAAAATTCAT-ATTCGAAAAATTAAAAATTCACATCCAAAGT
1 TTCAAAGATTC-TCATTCAAAAAATTAAAGATTCACATCCAAAGT
*
17975575 TTCAAAGATTCTCATTTAAAAAATT
1 TTCAAAGATTCTCATTCAAAAAATT
17975600 TTAGGGTTTC
Statistics
Matches: 128, Mismatches: 21, Indels: 16
0.78 0.13 0.10
Matches are distributed among these distances:
42 3 0.02
43 32 0.25
44 70 0.55
45 4 0.03
46 19 0.15
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (44 bp):
TTCAAAGATTCTCATTCAAAAAATTAAAGATTCACATCCAAAGT
Found at i:17975898 original size:19 final size:20
Alignment explanation
Indices: 17975876--17975926 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
17975866 GTCATAAACA
17975876 ATGATGCAAATG-TC-ATAC
1 ATGATGCAAATGTTCTATAC
* *
17975894 TATGATTCAAATGTTCTTTAC
1 -ATGATGCAAATGTTCTATAC
17975915 ATGATGCAAATG
1 ATGATGCAAATG
17975927 CATGCCCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.41
20 13 0.48
21 3 0.11
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGATGCAAATGTTCTATAC
Found at i:17977024 original size:13 final size:13
Alignment explanation
Indices: 17977005--17977035 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
17976995 ACCTTTTTTT
17977005 ATTTTTTTTC-TC
1 ATTTTTTTTCATC
17977017 ATTTTTTTTCATC
1 ATTTTTTTTCATC
17977030 ATTTTT
1 ATTTTT
17977036 CAAGAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTTTTCATC
Found at i:17982024 original size:17 final size:17
Alignment explanation
Indices: 17982002--17982040 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17981992 AAAAGTAAAA
17982002 TTAAA-CAAACAAATAAG
1 TTAAACCAAA-AAATAAG
*
17982019 TTAAACCAAAAATTAAG
1 TTAAACCAAAAAATAAG
17982036 TTAAA
1 TTAAA
17982041 AATAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (17 bp):
TTAAACCAAAAAATAAG
Found at i:17984869 original size:11 final size:11
Alignment explanation
Indices: 17984830--17984872 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
17984820 AAATCTATTT
*
17984830 AAATATATTAA
1 AAATATATAAA
*
17984841 AATTATATTAAA
1 AAATATA-TAAA
17984853 ATAATATATAAA
1 A-AATATATAAA
17984865 AAATATAT
1 AAATATAT
17984873 TTCAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 13 0.48
12 9 0.33
13 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATATATAAA
Found at i:17985096 original size:21 final size:22
Alignment explanation
Indices: 17985057--17985098 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
17985047 GTGTAAACAC
*
17985057 TTATTAAGTTTAAAATATTAAT
1 TTATTAAGATTAAAATATTAAT
*
17985079 TTATTAA-ATTAAAGTATTAA
1 TTATTAAGATTAAAATATTAA
17985099 GTAATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
TTATTAAGATTAAAATATTAAT
Found at i:17985687 original size:16 final size:18
Alignment explanation
Indices: 17985658--17985696 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
17985648 ATTAAAAAAA
17985658 AAAAGAAAGAGAAAAATG
1 AAAAGAAAGAGAAAAATG
*
17985676 AAAA-AAAG-GAAAGATG
1 AAAAGAAAGAGAAAAATG
17985692 AAAAG
1 AAAAG
17985697 CCAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 11 0.58
17 4 0.21
18 4 0.21
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (18 bp):
AAAAGAAAGAGAAAAATG
Found at i:17985971 original size:19 final size:19
Alignment explanation
Indices: 17985947--17986001 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
17985937 TCAAATGGCC
17985947 AATATTAAAGAAAATTTA-A
1 AATATTAAA-AAAATTTATA
* *
17985966 ACTATTTAAAAATATTTATTA
1 AATA-TTAAAAAAATTTA-TA
17985987 AATATTAAAAAAATT
1 AATATTAAAAAAATT
17986002 AAAAAGAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 10 0.34
20 15 0.52
21 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AATATTAAAAAAATTTATA
Found at i:17986098 original size:18 final size:17
Alignment explanation
Indices: 17986068--17986111 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
17986058 CAAGTGGTTC
17986068 TTTAAAAAAATTAAA-A
1 TTTAAAAAAATTAAATA
17986084 TTTAAAAAATTATTAAATA
1 TTTAAAAAA--ATTAAATA
*
17986103 TATAAAAAA
1 TTTAAAAAA
17986112 GGGAAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
18 6 0.25
19 9 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTTAAAAAAATTAAATA
Found at i:17986337 original size:22 final size:21
Alignment explanation
Indices: 17986312--17986375 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
17986302 TTATTAAATG
17986312 TAAAAAAAAGTACA-ACAAAAAA
1 TAAAAAAAAGT-CATA-AAAAAA
*
17986334 TAAAAAACAAATCATAAAAAAA
1 TAAAAAA-AAGTCATAAAAAAA
* *
17986356 TTAAAAAAAG-CAAAAAAAAA
1 TAAAAAAAAGTCATAAAAAAA
17986376 AGAGTGTGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 9 0.25
21 2 0.06
22 21 0.58
23 4 0.11
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.11
Consensus pattern (21 bp):
TAAAAAAAAGTCATAAAAAAA
Done.