Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 88 of 127
Found at i:16684469 original size:43 final size:43
Alignment explanation
Indices: 16684419--16684535 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 43
16684409 TATATTAAAT
*
16684419 CATGCAAATAAATAAATAATCATGTAAATATATATTATCCAAA
1 CATGCAAATAAATAAATAATCATGCAAATATATATTATCCAAA
*
16684462 CATGCAAATAAATAAATAAATAATCATGCAAATATATGTTATCCAAA
1 CATGC----AAATAAATAAATAATCATGCAAATATATATTATCCAAA
*
16684509 CATGCAATTAAATTAAAT--TCATGCAAA
1 CATGCAAATAAA-TAAATAATCATGCAAA
16684536 ATAAAGACCA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
42 9 0.14
43 11 0.17
44 5 0.08
47 41 0.62
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (43 bp):
CATGCAAATAAATAAATAATCATGCAAATATATATTATCCAAA
Found at i:16684470 original size:23 final size:23
Alignment explanation
Indices: 16684439--16684515 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
16684429 AATAAATAAT
*
16684439 CATGTAAATATATATTATCCAAA
1 CATGCAAATATATATTATCCAAA
* * **
16684462 CATGCAAATAAATA-AATAAATAA
1 CATGCAAATATATATTATCCA-AA
*
16684485 TCATGCAAATATATGTTATCCAAA
1 -CATGCAAATATATATTATCCAAA
16684509 CATGCAA
1 CATGCAA
16684516 TTAAATTAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
22 3 0.07
23 21 0.51
24 14 0.34
25 3 0.07
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (23 bp):
CATGCAAATATATATTATCCAAA
Found at i:16684489 original size:47 final size:47
Alignment explanation
Indices: 16684424--16684526 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
16684414 TAAATCATGC
*
16684424 AAATAAATAAATAATCATGTAAATATATATTATCCAAACATGCAAAT
1 AAATAAATAAATAATCATGCAAATATATATTATCCAAACATGCAAAT
* *
16684471 AAATAAATAAATAATCATGCAAATATATGTTATCCAAACATGCAATT
1 AAATAAATAAATAATCATGCAAATATATATTATCCAAACATGCAAAT
16684518 AAATTAAAT
1 AAA-TAAAT
16684527 TCATGCAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 47 0.90
48 5 0.10
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (47 bp):
AAATAAATAAATAATCATGCAAATATATATTATCCAAACATGCAAAT
Found at i:16685785 original size:20 final size:18
Alignment explanation
Indices: 16685755--16685798 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
16685745 TATTTGGGCC
16685755 TAAAATCCAAT-TGCATAAT
1 TAAAATCCAATAT-CA-AAT
16685774 TAAAAGTCCAATATCAAAT
1 TAAAA-TCCAATATCAAAT
16685793 TAAAAT
1 TAAAAT
16685799 TCGAAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 8 0.35
21 1 0.04
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
TAAAATCCAATATCAAAT
Found at i:16688454 original size:14 final size:12
Alignment explanation
Indices: 16688425--16688458 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16688415 TAGCTTGAAC
*
16688425 ATATGTGCTTGA
1 ATATATGCTTGA
16688437 ATATATGCTTGA
1 ATATATGCTTGA
*
16688449 GTATATGCTT
1 ATATATGCTT
16688459 TAAATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (12 bp):
ATATATGCTTGA
Found at i:16691702 original size:17 final size:16
Alignment explanation
Indices: 16691652--16691702 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
16691642 TTAAAAGTTT
16691652 AATTTTTATT-TAAAA
1 AATTTTTATTATAAAA
*
16691667 AA-TTTTATTATACATA
1 AATTTTTATTATA-AAA
16691683 AATTTTTATTATATAAA
1 AATTTTTATTATA-AAA
16691700 AAT
1 AAT
16691703 ATAAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 4 0.13
17 15 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTTTATTATAAAA
Found at i:16693298 original size:16 final size:17
Alignment explanation
Indices: 16693265--16693299 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
16693255 AATATTTTTT
*
16693265 AGTCTAATTATAAAAAA
1 AGTCTAATAATAAAAAA
16693282 AGTCTAATAATAAAAAA
1 AGTCTAATAATAAAAAA
16693299 A
1 A
16693300 TCATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (17 bp):
AGTCTAATAATAAAAAA
Found at i:16693414 original size:376 final size:374
Alignment explanation
Indices: 16692711--16693427 Score: 973
Period size: 376 Copynumber: 1.9 Consensus size: 374
16692701 ATTTTATTTA
* * *
16692711 TATTTTTATTTGATATGAAAAATCATTTTACTTATAAAAAAGAGTCTAATAATAAAAAAAAGTCA
1 TATTTTCATTTGATATGAAAAATCAGTCTACTTATAAAAAAGAGTCTAATAAT-AAAAAAAGTCA
* * * * *
16692776 TTTAAACTAAAATTTATATAAAAAAATGCTAATGGTATTTTAATCAATCACTTTTATCATTTTCT
65 TTTAAACTAAAATCTATATAAAAAAATACTAATGGTATTTTAATCAATCACTTTAATCATTGTCG
* * *
16692841 AAATTAAAATTTTATTAAGGTTATTTTAGCCAATCATTTTTAGTACTTTTTTAGTCTAATTATAA
130 AAATTAAAATTTTATTAAGGGTATTTTAACCAATCATTTTTAATACTTTTTTAGTCTAATTATAA
* * * *
16692906 AAAATCTAATAATAAAAATTAATTTAAATTAAATTTATAAAAATATTTACTAAGAATATTTTAGT
195 AAAATCTAATAATAAAAAATAATTTAAATTAAATTTACAAAAACATTTACTAAGAATATTTTAGC
* *
16692971 CAATCATTTTTAGCACTTTTGAAATTAAAATTTTAAAATCTTAAATAATCTAATTTCACAAAAAC
260 CAATCACTTTTAACACTTTTGAAATTAAAATTTTAAAATCTTAAATAATCTAATTTCACAAAAAC
16693036 TCTATTTTTAATTTTAAATGATTTAAACTAAAATAAATTAATAAAAGTTG
325 TCTATTTTTAATTTTAAATGATTTAAACTAAAATAAATTAATAAAAGTTG
*
16693086 TATTTTCATTTGATATGAAAAATCAGTCTATTTATAAAAAAAGAGTCTAATAAT-AAAAAAGTCA
1 TATTTTCATTTGATATGAAAAATCAGTCTACTTAT-AAAAAAGAGTCTAATAATAAAAAAAGTCA
* *
16693150 TTTAAATTAAAATCTATA-AAAAAACATTACTATTGGTATTTTAATCAATCACTTTCAAT-ATTG
65 TTTAAACTAAAATCTATATAAAAAA-A-TACTAATGGTATTTTAATCAATCACTTT-AATCATTG
** * *
16693213 T-GGGATT-AAATTTTCTTAAGGGTATTTTAATCAATCATTTTTAATA-TTTTTTAGTCTAATTA
127 TCGAAATTAAAATTTTATTAAGGGTATTTTAACCAATCATTTTTAATACTTTTTTAGTCTAATTA
*
16693275 TAAAAAAAGTCTAATAATAAAAAAATCATTTAAATTAAAATTTACAAAAACATTTA-TGACA-AA
192 T-AAAAAA-TCTAATAAT-AAAAAATAATTTAAATT-AAATTTACAAAAACATTTACT-A-AGAA
* * * * * *
16693338 TATTTTAGCCAATTACTTTTAACACTTTTGGAATTAAAATTTTAAAATTTTAAGTAGTTTAATTT
251 TATTTTAGCCAATCACTTTTAACACTTTTGAAATTAAAATTTTAAAATCTTAAATAATCTAATTT
* * *
16693403 CATATAAACTCTATTTTTAGTTTTA
316 CACAAAAACTCTATTTTTAATTTTA
16693428 GTTAATTTAA
Statistics
Matches: 298, Mismatches: 34, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
372 17 0.06
373 46 0.15
374 39 0.13
375 77 0.26
376 118 0.40
377 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (374 bp):
TATTTTCATTTGATATGAAAAATCAGTCTACTTATAAAAAAGAGTCTAATAATAAAAAAAGTCAT
TTAAACTAAAATCTATATAAAAAAATACTAATGGTATTTTAATCAATCACTTTAATCATTGTCGA
AATTAAAATTTTATTAAGGGTATTTTAACCAATCATTTTTAATACTTTTTTAGTCTAATTATAAA
AAATCTAATAATAAAAAATAATTTAAATTAAATTTACAAAAACATTTACTAAGAATATTTTAGCC
AATCACTTTTAACACTTTTGAAATTAAAATTTTAAAATCTTAAATAATCTAATTTCACAAAAACT
CTATTTTTAATTTTAAATGATTTAAACTAAAATAAATTAATAAAAGTTG
Found at i:16694882 original size:21 final size:21
Alignment explanation
Indices: 16694858--16694976 Score: 96
Period size: 21 Copynumber: 5.6 Consensus size: 21
16694848 TAATTTTTTA
16694858 TAACTTTTGATACAATTTTGG
1 TAACTTTTGATACAATTTTGG
* *
16694879 TAACTTATGATATAATTTTGG
1 TAACTTTTGATACAATTTTGG
** * *
16694900 TAACCATTGATACAATATTGA
1 TAACTTTTGATACAATTTTGG
* * *
16694921 TAA-TTTCTAATAAAATTTTAG
1 TAACTTT-TGATACAATTTTGG
* * *
16694942 TAACCTCTTGATATAATTTTAG
1 TAA-CTTTTGATACAATTTTGG
16694964 TAATCTTTTGATA
1 TAA-CTTTTGATA
16694977 ACCTATGAGT
Statistics
Matches: 75, Mismatches: 20, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
20 1 0.01
21 49 0.65
22 23 0.31
23 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.45
Consensus pattern (21 bp):
TAACTTTTGATACAATTTTGG
Found at i:16694913 original size:42 final size:43
Alignment explanation
Indices: 16694864--16694977 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 43
16694854 TTTATAACTT
* *
16694864 TTGATACAATTTTGGTAACTTATGATATAATTTTGGTAACC-A
1 TTGATACAATTTTGGTAACTTATGATAAAATTTTAGTAACCTA
* * * * * *
16694906 TTGATACAATATTGATAATTTCTAATAAAATTTTAGTAACCTC
1 TTGATACAATTTTGGTAACTTATGATAAAATTTTAGTAACCTA
* * *
16694949 TTGATATAATTTTAGTAATCTTTTGATAA
1 TTGATACAATTTTGGTAA-CTTATGATAA
16694978 CCTATGAGTT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 34 0.62
43 14 0.25
44 7 0.13
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (43 bp):
TTGATACAATTTTGGTAACTTATGATAAAATTTTAGTAACCTA
Found at i:16694960 original size:22 final size:22
Alignment explanation
Indices: 16694934--16694976 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16694924 TTTCTAATAA
16694934 AATTTTAGTAACCTCTTGATAT
1 AATTTTAGTAACCTCTTGATAT
* *
16694956 AATTTTAGTAATCTTTTGATA
1 AATTTTAGTAACCTCTTGATA
16694977 ACCTATGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (22 bp):
AATTTTAGTAACCTCTTGATAT
Found at i:16695305 original size:22 final size:22
Alignment explanation
Indices: 16695280--16695465 Score: 54
Period size: 22 Copynumber: 8.5 Consensus size: 22
16695270 ATGATTGACA
16695280 ATTAAATTATCATTAATTTATT
1 ATTAAATTATCATTAATTTATT
* * * * * *
16695302 ATTATACTCTTAGTGATTTATT
1 ATTAAATTATCATTAATTTATT
* * ** * **
16695324 ACTAAACTATCAACAATATACC
1 ATTAAATTATCATTAATTTATT
* * *
16695346 GTTAAATTATCATTGATTTAAT
1 ATTAAATTATCATTAATTTATT
* *
16695368 ATTAAATTAAT-ATTTATTTTTT
1 ATTAAATT-ATCATTAATTTATT
** * * *
16695390 GCTAAGTTATGACTAATTTATT
1 ATTAAATTATCATTAATTTATT
* * * * * *
16695412 ACTAAATTTTTAATGATTTACT
1 ATTAAATTATCATTAATTTATT
16695434 ATTAAATTA-C-TGGTAATTTATT
1 ATTAAATTATCAT--TAATTTATT
*
16695456 ATAAAATTAT
1 ATTAAATTAT
16695466 TGTAAATACC
Statistics
Matches: 110, Mismatches: 49, Indels: 9
0.65 0.29 0.05
Matches are distributed among these distances:
21 2 0.02
22 106 0.96
23 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTAAATTATCATTAATTTATT
Found at i:16695810 original size:15 final size:15
Alignment explanation
Indices: 16695789--16695818 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16695779 ATAAACACAC
16695789 AAAAAAAAACAGAAAG
1 AAAAAAAAA-AGAAAG
16695805 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
16695819 AAGATAGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:16695821 original size:17 final size:17
Alignment explanation
Indices: 16695789--16695822 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16695779 ATAAACACAC
*
16695789 AAAAAAAAACAGAAAGA
1 AAAAAAAAACAAAAAGA
*
16695806 AAAAAAAAAGAAAAAGA
1 AAAAAAAAACAAAAAGA
16695823 TAGCCAACAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAAAAGA
Found at i:16696522 original size:28 final size:27
Alignment explanation
Indices: 16696483--16696549 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 27
16696473 TCACCATAGA
16696483 ACCTGCACGCACCAACAGACCCAACTG
1 ACCTGCACGCACCAACAGACCCAACTG
*
16696510 ACCTTGCACGCACCAACAGACCTAACTG
1 ACC-TGCACGCACCAACAGACCCAACTG
16696538 ACCTGCACGCAC
1 ACCTGCACGCAC
16696550 AAGCCTTAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 12 0.32
28 26 0.68
ACGTcount: A:0.31, C:0.43, G:0.15, T:0.10
Consensus pattern (27 bp):
ACCTGCACGCACCAACAGACCCAACTG
Found at i:16712558 original size:13 final size:13
Alignment explanation
Indices: 16712522--16712552 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
16712512 AAAACATGAA
16712522 GAAACGGTCAATT
1 GAAACGGTCAATT
16712535 GAAACGGTCAATT
1 GAAACGGTCAATT
16712548 GAAAC
1 GAAAC
16712553 TTTCAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (13 bp):
GAAACGGTCAATT
Found at i:16715233 original size:151 final size:151
Alignment explanation
Indices: 16714900--16715229 Score: 330
Period size: 151 Copynumber: 2.2 Consensus size: 151
16714890 TCAGATGTTT
* * * ** *****
16714900 AAAAAAAAAAAAG-ATAAAGAAAAGAAAGTCATGTACCTCAAAAATGAGA-ATTCGGGGAAAAAA
1 AAAAAAAAAAAAGAACAAAG-AAAGAAAGACATGTACCTCGAAAATGAGAGCCTAACACAAAAAA
** * * *
16714963 TGAATAAAGTTTCAATTAGAATCCCAAATATAAAAGAAGATAGAATTCAAGAAAGTAGAATGCTA
65 TGAATAAAGCATCAATTAGAATCCCAAATAAAAAAAAAGATAGAATTCAAGAAAGAAGAATGCTA
16715028 AAGATGAAATAAGATGGCTCCA
130 AAGATGAAATAAGATGGCTCCA
* * *
16715050 AAAAAAAAAAAAGAGCAAAGAAAGAATGACATGTACCTCGAAAATGAGAGCCTAACACAAAAAGT
1 AAAAAAAAAAAAGAACAAAGAAAGAAAGACATGTACCTCGAAAATGAGAGCCTAACACAAAAAAT
* * * *
16715115 GAATAAAGCATCAGTTAGAATTCCAAGTAAAAAAAAAGATAGAATTCAA-AAAGGAATAATGCTA
66 GAATAAAGCATCAATTAGAATCCCAAATAAAAAAAAAGATAGAATTCAAGAAA-GAAGAATGCTA
* * ***
16715179 AAGTTGAAGTCAA-AT-G-TTTG
130 AAGATGAAAT-AAGATGGCTCCA
* *
16715199 AAAAAGAAGAAAGAACAAAGAAAGAAAGACA
1 AAAAAAAAAAAAGAACAAAGAAAGAAAGACA
16715230 CATGACTTTT
Statistics
Matches: 145, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
149 28 0.19
150 43 0.30
151 72 0.50
152 2 0.01
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.17
Consensus pattern (151 bp):
AAAAAAAAAAAAGAACAAAGAAAGAAAGACATGTACCTCGAAAATGAGAGCCTAACACAAAAAAT
GAATAAAGCATCAATTAGAATCCCAAATAAAAAAAAAGATAGAATTCAAGAAAGAAGAATGCTAA
AGATGAAATAAGATGGCTCCA
Found at i:16717147 original size:104 final size:104
Alignment explanation
Indices: 16716974--16717174 Score: 280
Period size: 104 Copynumber: 1.9 Consensus size: 104
16716964 TAAGACCTAT
* * * *
16716974 AGGCAAAACATTTTAAATTTTCAAAGTTTTAATGCCTTTGATACGATGAACATTCAAAGATGTTG
1 AGGCAAAACATGTTAAAATTTCAAAGTTTCAATGCCTTTGATACGATGAACATTCAAAGATGTTA
* *
16717039 AGATTTGTAAAA-CTTTCGGGCATAATCTCTAAGAGCTTC
66 AGATTTATAAAACCTCT-GGGCATAATCTCTAAGAGCTTC
* * *
16717078 AGGCACAACATGTTAAAATTTCAAAGTTTCAATGCCTTTGATATGA-GAAGCATTTAAAGATGTT
1 AGGCAAAACATGTTAAAATTTCAAAGTTTCAATGCCTTTGATACGATGAA-CATTCAAAGATGTT
*
16717142 AAGATTTATAAGACCTCTGGGCATAATCTCTAA
65 AAGATTTATAAAACCTCTGGGCATAATCTCTAA
16717175 AACCTTTGGG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 3 0.04
104 79 0.93
105 3 0.04
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (104 bp):
AGGCAAAACATGTTAAAATTTCAAAGTTTCAATGCCTTTGATACGATGAACATTCAAAGATGTTA
AGATTTATAAAACCTCTGGGCATAATCTCTAAGAGCTTC
Found at i:16717201 original size:22 final size:22
Alignment explanation
Indices: 16717151--16717203 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
16717141 TAAGATTTAT
*
16717151 AAGACCTCTGGGCATAATCTCT
1 AAGACCTCTGGGCATAATCTCC
* * * *
16717173 AAAACCTTTGGGCATTATTTCC
1 AAGACCTCTGGGCATAATCTCC
16717195 AAGACCTCT
1 AAGACCTCT
16717204 AAGCAAAACA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (22 bp):
AAGACCTCTGGGCATAATCTCC
Found at i:16717434 original size:82 final size:81
Alignment explanation
Indices: 16717312--16717468 Score: 260
Period size: 82 Copynumber: 1.9 Consensus size: 81
16717302 ACCTTCAGGT
* * *
16717312 AAAACATTTTAAATTTCAAAGTTTCAATGCCTCTGATACGATGAGTATTCAAAGATGTTGAGATT
1 AAAACATTTTAAATTTCAAAGTTTCAATACCTCTAATACGAGGAGTATTCAAAGATGTTGAGATT
16717377 TGTAAGACCTCTAGAC
66 TGTAAGACCTCTAGAC
* *
16717393 AAAACGTTTTAAAATTTCAAAGTTTCAATACCTCTAATACGAGGAGTATTTAAAGATGTTGAGAT
1 AAAACATTTT-AAATTTCAAAGTTTCAATACCTCTAATACGAGGAGTATTCAAAGATGTTGAGAT
16717458 TTGTAAGACCT
65 TTGTAAGACCT
16717469 TTAGGTATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 9 0.13
82 61 0.87
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (81 bp):
AAAACATTTTAAATTTCAAAGTTTCAATACCTCTAATACGAGGAGTATTCAAAGATGTTGAGATT
TGTAAGACCTCTAGAC
Found at i:16717500 original size:22 final size:22
Alignment explanation
Indices: 16717461--16717512 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
16717451 TTGAGATTTG
*
16717461 TAAGACCTTTAGGTATAATCTC
1 TAAGACCTTTAGGCATAATCTC
* * *
16717483 TAAGACTTTTGGGCATAATCTT
1 TAAGACCTTTAGGCATAATCTC
16717505 TAAGACCT
1 TAAGACCT
16717513 CCAGGTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (22 bp):
TAAGACCTTTAGGCATAATCTC
Found at i:16717818 original size:26 final size:26
Alignment explanation
Indices: 16717789--16717838 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
16717779 CAAGAAAAAC
*
16717789 TAAAAAACAAAAACAAAACAAAACCA
1 TAAAAAACAAAAACAAAAAAAAACCA
* *
16717815 TAAAAACCAAAAAGAAAAAAAAAC
1 TAAAAAACAAAAACAAAAAAAAAC
16717839 TTATGGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.78, C:0.16, G:0.02, T:0.04
Consensus pattern (26 bp):
TAAAAAACAAAAACAAAAAAAAACCA
Found at i:16720720 original size:23 final size:23
Alignment explanation
Indices: 16720689--16720737 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
16720679 GTATTTTTAT
*
16720689 GAAATCCAATGAAGGAACTC-TGA
1 GAAACCCAA-GAAGGAACTCTTGA
* *
16720712 GAAACCCAAGTAGTAACTCTTGA
1 GAAACCCAAGAAGGAACTCTTGA
16720735 GAA
1 GAA
16720738 TTCCTTTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (23 bp):
GAAACCCAAGAAGGAACTCTTGA
Found at i:16722013 original size:26 final size:26
Alignment explanation
Indices: 16721996--16722045 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
16721986 ATTGGTGTTC
*
16721996 AGGCCTAATTAGACCCATTAGTGTAT
1 AGGCCCAATTAGACCCATTAGTGTAT
* * *
16722022 GGGCCCAATTAGGCCCATTTGTGT
1 AGGCCCAATTAGACCCATTAGTGT
16722046 CCAACCTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (26 bp):
AGGCCCAATTAGACCCATTAGTGTAT
Found at i:16722080 original size:3 final size:3
Alignment explanation
Indices: 16722067--16722121 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
16722057 GGACAGCTTG
* * *
16722067 TTA TCA TTA TTA TTT TTA TTA TTA TTA TT- TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16722114 TTA TTA TT
1 TTA TTA TT
16722122 CTTTTCTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16722109 original size:29 final size:29
Alignment explanation
Indices: 16722067--16722126 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
16722057 GGACAGCTTG
*
16722067 TTATCATTATTATTTTTATTATTATTATT
1 TTATCATTATTATTATTATTATTATTATT
*
16722096 TTATCATTATTATTATTATTATTATTCTT
1 TTATCATTATTATTATTATTATTATTATT
16722125 TT
1 TT
16722127 CTTTCCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (29 bp):
TTATCATTATTATTATTATTATTATTATT
Found at i:16722986 original size:5 final size:5
Alignment explanation
Indices: 16722971--16723052 Score: 55
Period size: 5 Copynumber: 15.8 Consensus size: 5
16722961 TTCCTTTTCC
* *
16722971 ATTTT ATTTT -TATTT -TTTG ATTTT ATTTT ATTTT ATTGT ATTTT AAACCTTTT
1 ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT --A--TTTT
16723024 -TTTT ATTTT -TTTT AGTTTT ATTTAT ATTT
1 ATTTT ATTTT ATTTT A-TTTT ATTT-T ATTT
16723053 AAAAAAAGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
4 11 0.17
5 37 0.59
6 10 0.16
7 1 0.02
9 4 0.06
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:16722987 original size:19 final size:18
Alignment explanation
Indices: 16722965--16723004 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
16722955 AGGTTTTTCC
16722965 TTTTCCATTTTATTTTTAT
1 TTTTCCATTTTA-TTTTAT
**
16722984 TTTTTGATTTTATTTTAT
1 TTTTCCATTTTATTTTAT
16723002 TTT
1 TTT
16723005 ATTGTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTCCATTTTATTTTAT
Found at i:16723026 original size:38 final size:38
Alignment explanation
Indices: 16722983--16723055 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
16722973 TTTATTTTTA
16722983 TTTTTTGATTTTATTTTA-TTTTATTGTAT-TTTAAACCT
1 TTTTTTGATTTT-TTTTAGTTTTATT-TATATTTAAACCT
*
16723021 TTTTTTTATTTTTTTTAGTTTTATTTATATTTAAA
1 TTTTTTGATTTTTTTTAGTTTTATTTATATTTAAA
16723056 AAAAGAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 8 0.25
38 24 0.75
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.71
Consensus pattern (38 bp):
TTTTTTGATTTTTTTTAGTTTTATTTATATTTAAACCT
Found at i:16732485 original size:42 final size:42
Alignment explanation
Indices: 16732439--16732522 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
16732429 AATTGAGATC
* * *
16732439 TGAAAAGTTTCATTAAAATTCAAGCTTGAAAATGTCAAATTA
1 TGAAAAGTTTCATGAAAATTCAAGCTTAAAAAGGTCAAATTA
* * *
16732481 TGAAAAGTTTTATGAAAATTCGAGCTTAAAAAGGTTAAATTA
1 TGAAAAGTTTCATGAAAATTCAAGCTTAAAAAGGTCAAATTA
16732523 CAAAATTACC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (42 bp):
TGAAAAGTTTCATGAAAATTCAAGCTTAAAAAGGTCAAATTA
Found at i:16733172 original size:23 final size:21
Alignment explanation
Indices: 16733145--16733191 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
16733135 TATCAATGCA
16733145 TTTTATAGGCTCTTAAAGGGGTC
1 TTTTATAGGCT-TTAAAGGGG-C
* *
16733168 TTTTATGGGCTTTAAATGGGC
1 TTTTATAGGCTTTAAAGGGGC
16733189 TTT
1 TTT
16733192 GTTTTGGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 8 0.36
23 10 0.45
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.45
Consensus pattern (21 bp):
TTTTATAGGCTTTAAAGGGGC
Found at i:16739239 original size:247 final size:247
Alignment explanation
Indices: 16738784--16739281 Score: 807
Period size: 247 Copynumber: 2.0 Consensus size: 247
16738774 CTTATGCCCA
* * *
16738784 AAAGCATTGGGATAGTATTTCATGTATAGGCCACTTGTCATTTATTATTTTAATAAAAAAGTAAG
1 AAAGCATTGGAATAGTATTTCATGTATAGGCCACTTATCATTTATTATTTCAATAAAAAAGTAAG
*
16738849 AGTATGCATTTTCATTTAATTCTTTCATTATTTTCAATTTTCAATTTCCTTTCAGCTAAAGCATG
66 AGTATGCATTTTCATTTAATTCTTTCATTATTTTCAATTTTCAATTTCCTTTCAGCCAAAGCATG
* * *
16738914 TTGCCAATACTTCCTATTTCATTCAATTTCAAGTCCTCAAATGAATATGAAAATAATCATGATAA
131 TTGCCAATACTTCCCATTTCATTCAATTTCAAGTCCCCAAATGAATATGAAAATAAGCATGATAA
* * *
16738979 CAATTAAGGATTTAATTTTGAAAACTTAATTAATGTTTATGAACTTGACACT
196 CAATCAAGGATTTAATTTTGAAAACTTAATTAATGTTGATGAACTTAACACT
* * * *
16739031 AAAGCTTTGGAATAGTCTTTCATGTATAGGCCATTTATCATTTATTATTTCAATAAAAGAGTAAG
1 AAAGCATTGGAATAGTATTTCATGTATAGGCCACTTATCATTTATTATTTCAATAAAAAAGTAAG
* *
16739096 AGTATGCATTTTCATTTATTTCTTTTATTATTTTCAATTTTCAATTTCCTTTCAGCCAAAGCATG
66 AGTATGCATTTTCATTTAATTCTTTCATTATTTTCAATTTTCAATTTCCTTTCAGCCAAAGCATG
* * *
16739161 TTGCCAATACTTCCCATTTCATTCGATTTTAGGTCCCCAAATGAATATGAAAATAAGCATGATAA
131 TTGCCAATACTTCCCATTTCATTCAATTTCAAGTCCCCAAATGAATATGAAAATAAGCATGATAA
* *
16739226 CAATCAGGGATTTAATTTTGAAAACTTCATTAATGTTGATGAACTTAACACT
196 CAATCAAGGATTTAATTTTGAAAACTTAATTAATGTTGATGAACTTAACACT
16739278 AAAG
1 AAAG
16739282 ATGACTTTCA
Statistics
Matches: 230, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
247 230 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (247 bp):
AAAGCATTGGAATAGTATTTCATGTATAGGCCACTTATCATTTATTATTTCAATAAAAAAGTAAG
AGTATGCATTTTCATTTAATTCTTTCATTATTTTCAATTTTCAATTTCCTTTCAGCCAAAGCATG
TTGCCAATACTTCCCATTTCATTCAATTTCAAGTCCCCAAATGAATATGAAAATAAGCATGATAA
CAATCAAGGATTTAATTTTGAAAACTTAATTAATGTTGATGAACTTAACACT
Found at i:16743733 original size:42 final size:42
Alignment explanation
Indices: 16743617--16743809 Score: 178
Period size: 42 Copynumber: 4.6 Consensus size: 42
16743607 TAGAGGATTC
* **
16743617 TATTTAAAATTGTTTAGCCTCTGTATAAAGAAGCTTATTTCT
1 TATTTAAAATTGTTTAACCTCTGTATAAAGAAGCCCATTTCT
* * *
16743659 TA---AAATTTTTTTAACCTCTGTATAGAGAAGCCCATTTCT
1 TATTTAAAATTGTTTAACCTCTGTATAAAGAAGCCCATTTCT
* * *
16743698 TATTTAAAATTGTTTAGCCTCTATATAAAGGAGCCCATTTCT
1 TATTTAAAATTGTTTAACCTCTGTATAAAGAAGCCCATTTCT
* * * **
16743740 TAATTAAAGTTGTTTAACCTTTGTATAAA-AGAGCTTATTTCCT
1 TATTTAAAATTGTTTAACCTCTGTATAAAGA-AGCCCATTT-CT
* * * *
16743783 AATTTAAAGTTGTTTTACCTTTGTATA
1 TATTTAAAATTGTTTAACCTCTGTATA
16743810 GAATAGTCCA
Statistics
Matches: 123, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 33 0.27
42 64 0.52
43 26 0.21
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (42 bp):
TATTTAAAATTGTTTAACCTCTGTATAAAGAAGCCCATTTCT
Found at i:16747722 original size:21 final size:20
Alignment explanation
Indices: 16747698--16747737 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16747688 AATCATGTAC
16747698 TAAATAAATCTTTTCAAAATT
1 TAAA-AAATCTTTTCAAAATT
* *
16747719 TAAAACATTTTTTCAAAAT
1 TAAAAAATCTTTTCAAAAT
16747738 ATTTTTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAAATCTTTTCAAAATT
Found at i:16749638 original size:22 final size:22
Alignment explanation
Indices: 16749514--16749863 Score: 123
Period size: 22 Copynumber: 16.3 Consensus size: 22
16749504 AATATAGTAC
* * *
16749514 TAAATCAAGGATAACTTAGTA-
1 TAAATCAATGATAATTTAATAG
* * * *
16749535 AAAATAAATGATAACTTAGTAG
1 TAAATCAATGATAATTTAATAG
* * * * * *
16749557 TTAATTATTGATAACTTGATAA
1 TAAATCAATGATAATTTAATAG
* *
16749579 TAAATCAATGATAACTAAATAG
1 TAAATCAATGATAATTTAATAG
16749601 TAAATCAATGATAATTTAATAG
1 TAAATCAATGATAATTTAATAG
* *
16749623 TAAATCAGT-TTCAATTTAATAG
1 TAAATCAATGAT-AATTTAATAG
* * *
16749645 T-AATTAAT--T--TATAGTAG
1 TAAATCAATGATAATTTAATAG
* * * * *
16749662 TAAATC-ATAAAAAATTATTAA
1 TAAATCAATGATAATTTAATAG
* *
16749683 TAAATCAATGATAAATTAATAT
1 TAAATCAATGATAATTTAATAG
* * * *
16749705 TTAAT-AATTAATAATTTAGTAC
1 TAAATCAA-TGATAATTTAATAG
* * * * *
16749727 TTAAT-AATTAAAAACTTAAAAG
1 TAAATCAA-TGATAATTTAATAG
*
16749749 TCAATCAAT-ATAATTTAATAG
1 TAAATCAATGATAATTTAATAG
* ** *
16749770 TAAATCATTGATAACATAATAT
1 TAAATCAATGATAATTTAATAG
* * *
16749792 TTAATTAATGATAACTTAATAG
1 TAAATCAATGATAATTTAATAG
** *
16749814 TAAATC-AT-ACTAACATAATAT
1 TAAATCAATGA-TAATTTAATAG
* * *
16749835 TTAATTAATGATAACTTAATAG
1 TAAATCAATGATAATTTAATAG
16749857 TAAATCA
1 TAAATCA
16749864 TACTAAATTT
Statistics
Matches: 247, Mismatches: 68, Indels: 27
0.72 0.20 0.08
Matches are distributed among these distances:
17 9 0.04
18 3 0.01
20 2 0.01
21 67 0.27
22 163 0.66
23 3 0.01
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAATCAATGATAATTTAATAG
Found at i:16749721 original size:15 final size:15
Alignment explanation
Indices: 16749696--16749735 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
16749686 ATCAATGATA
16749696 AATTAAT-ATTTAAT
1 AATTAATAATTTAAT
*
16749710 AATTAATAATTTAGT
1 AATTAATAATTTAAT
*
16749725 ACTTAATAATT
1 AATTAATAATT
16749736 AAAAACTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
AATTAATAATTTAAT
Found at i:16749838 original size:43 final size:43
Alignment explanation
Indices: 16749758--16749869 Score: 190
Period size: 43 Copynumber: 2.6 Consensus size: 43
16749748 GTCAATCAAT
*
16749758 ATAATTTAATAGTAAATCATTGA-TAACATAATATTTAATTAATG
1 ATAACTTAATAGTAAATCA-T-ACTAACATAATATTTAATTAATG
16749802 ATAACTTAATAGTAAATCATACTAACATAATATTTAATTAATG
1 ATAACTTAATAGTAAATCATACTAACATAATATTTAATTAATG
16749845 ATAACTTAATAGTAAATCATACTAA
1 ATAACTTAATAGTAAATCATACTAA
16749870 ATTTAATATA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.71
44 18 0.27
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (43 bp):
ATAACTTAATAGTAAATCATACTAACATAATATTTAATTAATG
Found at i:16749884 original size:43 final size:44
Alignment explanation
Indices: 16749794--16749992 Score: 149
Period size: 43 Copynumber: 4.6 Consensus size: 44
16749784 CATAATATTT
* *
16749794 AATTAATGATAACTTAATAGTAAATCATACTAACA--TAATATTT
1 AATTAATGATAACTTAATAGTAAATCATACTAA-ATTTAATAGTA
16749837 AATTAATGATAACTTAATAGTAAATCATACTAAATTTAATA-TA
1 AATTAATGATAACTTAATAGTAAATCATACTAAATTTAATAGTA
* * ** * * * *
16749880 AATTAGTAATAACTTGGTACTGAATCATA-GATAATTTAGT-GATA
1 AATTAATGATAACTTAATAGTAAATCATACTA-AATTTAATAG-TA
* * ** * * *
16749924 AATTAGTGATAATTTTGTAGTAAATAAT-CAAAAATTAAGTAGTA
1 AATTAATGATAACTTAATAGTAAATCATACTAAATTTAA-TAGTA
* *
16749968 AATTAAGGATAACATAATAGTAAAT
1 AATTAATGATAACTTAATAGTAAAT
16749993 AATAGCAAAT
Statistics
Matches: 124, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.02
43 69 0.56
44 52 0.42
45 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (44 bp):
AATTAATGATAACTTAATAGTAAATCATACTAAATTTAATAGTA
Found at i:16750053 original size:19 final size:19
Alignment explanation
Indices: 16750031--16750071 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
16750021 ATAGTAAATT
16750031 ATTGATAA-TTAAGTAATAA
1 ATTGATAACTT-AGTAATAA
16750050 ATTGATAACTTAGTAATAA
1 ATTGATAACTTAGTAATAA
16750069 ATT
1 ATT
16750072 ACTAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (19 bp):
ATTGATAACTTAGTAATAA
Found at i:16750112 original size:22 final size:22
Alignment explanation
Indices: 16750066--16750114 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16750056 AACTTAGTAA
*
16750066 TAAATTACTAATAATATAATAG
1 TAAATTACTAATAATACAATAG
* *
16750088 TAAATTACTAATAATGCAATTG
1 TAAATTACTAATAATACAATAG
16750110 TAAAT
1 TAAAT
16750115 CAATGATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (22 bp):
TAAATTACTAATAATACAATAG
Found at i:16750175 original size:22 final size:21
Alignment explanation
Indices: 16750136--16750219 Score: 53
Period size: 22 Copynumber: 3.9 Consensus size: 21
16750126 TAGTAGTATG
* * *
16750136 TTAGTTAATTATTGATAAGTTT
1 TTAGTAAATCATTAATAA-TTT
*
16750158 TTAGTAAATCATTAATAAATTA
1 TTAGTAAATCATTAAT-AATTT
*
16750180 ATAGTAAATCTATT-ATAATTT
1 TTAGTAAATC-ATTAATAATTT
* * *
16750201 TATAATAAATTATCAATAA
1 T-TAGTAAATCATTAATAA
16750220 CTTAGTGATA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
21 6 0.12
22 37 0.77
23 5 0.10
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (21 bp):
TTAGTAAATCATTAATAATTT
Found at i:16750339 original size:22 final size:22
Alignment explanation
Indices: 16750162--16750356 Score: 99
Period size: 22 Copynumber: 8.9 Consensus size: 22
16750152 AAGTTTTTAG
* * *
16750162 TAAATCATTAATAAATTAATAG
1 TAAATCATTGATAACTTAATAA
* *
16750184 TAAATCTATT-ATAATTTTATAA
1 TAAATC-ATTGATAACTTAATAA
* ** * *
16750206 TAAATTATCAATAACTTAGTGA
1 TAAATCATTGATAACTTAATAA
* * *
16750228 TAAATCACCT-ACAATTTAAT-A
1 TAAATCA-TTGATAACTTAATAA
* * * * **
16750249 GAAATAATTCATAACGTAATGG
1 TAAATCATTGATAACTTAATAA
* * * *
16750271 TAAACCATTCATAAATTAATAG
1 TAAATCATTGATAACTTAATAA
* * *
16750293 TAAATCATTGATAATTTAGTCA
1 TAAATCATTGATAACTTAATAA
16750315 TAAATCATTGATAACTTAATAA
1 TAAATCATTGATAACTTAATAA
* *
16750337 TAAATAACTGATAACTTAAT
1 TAAATCATTGATAACTTAAT
16750357 TGTTAATAAT
Statistics
Matches: 129, Mismatches: 39, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.01
21 15 0.12
22 110 0.85
23 3 0.02
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATCATTGATAACTTAATAA
Found at i:16750370 original size:22 final size:22
Alignment explanation
Indices: 16750281--16750373 Score: 87
Period size: 22 Copynumber: 4.2 Consensus size: 22
16750271 TAAACCATTC
* * *
16750281 ATAAATTAATAGTAAATCATTG
1 ATAACTTAATAATAAATAATTG
* * * *
16750303 ATAATTTAGTCATAAATCATTG
1 ATAACTTAATAATAAATAATTG
*
16750325 ATAACTTAATAATAAATAACTG
1 ATAACTTAATAATAAATAATTG
** *
16750347 ATAACTTAATTGTTAATAATTG
1 ATAACTTAATAATAAATAATTG
16750369 ATAAC
1 ATAAC
16750374 ATTTTTTATG
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
ATAACTTAATAATAAATAATTG
Found at i:16750669 original size:44 final size:44
Alignment explanation
Indices: 16750611--16750713 Score: 102
Period size: 44 Copynumber: 2.3 Consensus size: 44
16750601 ACAATGCATT
* *
16750611 AGTAATTTAATGATAGA-TTAATAA-AAAACAACTAATAACTTAAC
1 AGTAAATTAGTGATA-ATTTAATAATAAAACAA-TAATAACTTAAC
* * ** * *
16750655 AGTTAATTATTGATAATTTAATAATAAATTAATAATAATTTAAT
1 AGTAAATTAGTGATAATTTAATAATAAAACAATAATAACTTAAC
16750699 AGTAAATTAGTGATA
1 AGTAAATTAGTGATA
16750714 CTTAATAGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
43 1 0.02
44 42 0.88
45 5 0.10
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (44 bp):
AGTAAATTAGTGATAATTTAATAATAAAACAATAATAACTTAAC
Found at i:16750684 original size:22 final size:22
Alignment explanation
Indices: 16750659--16750947 Score: 113
Period size: 22 Copynumber: 13.1 Consensus size: 22
16750649 CTTAACAGTT
16750659 AATTATTGATAATTTAATAATA
1 AATTATTGATAATTTAATAATA
* * *
16750681 AATTAATAATAATTTAATAGTA
1 AATTATTGATAATTTAATAATA
* * *
16750703 AATTAGTGAT-ACTTAATAGTA
1 AATTATTGATAATTTAATAATA
* * * * *
16750724 AATCAGTT-TTAGTTTAGTAGT-
1 AATTA-TTGATAATTTAATAATA
* *
16750745 AATTAATTGGTAAATTTAATAGTA
1 AATT-ATTGAT-AATTTAATAATA
** * * *
16750769 AATTATAAATAACTTAACAGTA
1 AATTATTGATAATTTAATAATA
* * *
16750791 AATCAATGATAATTTAATAATT
1 AATTATTGATAATTTAATAATA
* *
16750813 AATTATTGAAAACTTAA-AAGTA
1 AATTATTGATAATTTAATAA-TA
* * * *
16750835 AATTAAT-ATAACTTAGTATAGTT
1 AATTATTGATAATTTA--ATAATA
**
16750858 AATTATCAATAATTTAATAATA
1 AATTATTGATAATTTAATAATA
* **
16750880 AATCATAAATAATTTAAT-ATA
1 AATTATTGATAATTTAATAATA
* * * * * *
16750901 AATCAGTAATAACTTGATAATG
1 AATTATTGATAATTTAATAATA
* * *
16750923 AATTATGGTTAATTTAGTAATA
1 AATTATTGATAATTTAATAATA
16750945 AAT
1 AAT
16750948 ATGTGATGAT
Statistics
Matches: 196, Mismatches: 59, Indels: 24
0.70 0.21 0.09
Matches are distributed among these distances:
21 46 0.23
22 119 0.61
23 19 0.10
24 12 0.06
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (22 bp):
AATTATTGATAATTTAATAATA
Found at i:16750686 original size:11 final size:11
Alignment explanation
Indices: 16750667--16750707 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
16750657 TTAATTATTG
*
16750667 ATAATTTAATA
1 ATAAATTAATA
16750678 ATAAATTAATA
1 ATAAATTAATA
*
16750689 ATAATTTAATA
1 ATAAATTAATA
*
16750700 GTAAATTA
1 ATAAATTA
16750708 GTGATACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:16750817 original size:44 final size:43
Alignment explanation
Indices: 16750757--16750898 Score: 135
Period size: 44 Copynumber: 3.2 Consensus size: 43
16750747 TTAATTGGTA
* *
16750757 AATTTAATAGTAAATTATAAATAACTTAACAGTAAATCAATGAT
1 AATTTAATAGTTAATTATAAATAACTTAAAAGTAAATCAAT-AT
* * *
16750801 AATTTAATAATTAATTATTGAA-AACTTAAAAGTAAATTAATAT
1 AATTTAATAGTTAATTA-TAAATAACTTAAAAGTAAATCAATAT
* * * *
16750844 AACTTAGTATAGTTAATTATCAATAATTTAATAA-TAAATCATAAAT
1 AATTTA--ATAGTTAATTATAAATAACTTAA-AAGTAAATCA-ATAT
16750890 AATTTAATA
1 AATTTAATA
16750899 TAAATCAGTA
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
43 7 0.09
44 38 0.47
45 25 0.31
46 10 0.12
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (43 bp):
AATTTAATAGTTAATTATAAATAACTTAAAAGTAAATCAATAT
Found at i:16751033 original size:22 final size:22
Alignment explanation
Indices: 16750993--16751034 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16750983 GTAGTAATCC
*
16750993 ATAATAACATAGTAATAAATGT
1 ATAATAACATAATAATAAATGT
* *
16751015 ATAATAACGTAATAGTAAAT
1 ATAATAACATAATAATAAAT
16751035 CATTAATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATAATAACATAATAATAAATGT
Found at i:16751056 original size:44 final size:44
Alignment explanation
Indices: 16751008--16751102 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
16750998 AACATAGTAA
*
16751008 TAAATGTAT-AATAACGTAAT-AGTAAATCATTAATAATTTAGATG
1 TAAAT-TATCAATAACGTAATCA-TAAATCACTAATAATTTAGATG
* * * *
16751052 TAAATTATCGATAACTTATTCATAAATCACTAATAATTTAGTTG
1 TAAATTATCAATAACGTAATCATAAATCACTAATAATTTAGATG
*
16751096 CAAATTA
1 TAAATTA
16751103 GTGATAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 3 0.07
44 39 0.91
45 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (44 bp):
TAAATTATCAATAACGTAATCATAAATCACTAATAATTTAGATG
Found at i:16751122 original size:44 final size:44
Alignment explanation
Indices: 16751018--16751122 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
16751008 TAAATGTATA
* * * *
16751018 ATAACGTAATAGTAAATCATTAATAATTTAGATGTAAATTATCG
1 ATAACTTAGTAGTAAATCACTAATAATTTAGATGCAAATTATCG
* *
16751062 ATAACTTATTCA-TAAATCACTAATAATTTAGTTGCAAATTAGT-G
1 ATAACTTAGT-AGTAAATCACTAATAATTTAGATGCAAATTA-TCG
*
16751106 ATAATTTAGTAGTAAAT
1 ATAACTTAGTAGTAAAT
16751123 TAATTACTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.02
44 48 0.94
45 2 0.04
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATCACTAATAATTTAGATGCAAATTATCG
Found at i:16751209 original size:22 final size:22
Alignment explanation
Indices: 16751184--16751234 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
16751174 TCGATTAAAC
* * *
16751184 AAATCATCAATAATTTAGTATT
1 AAATCATCAATAATTCAATAAT
*
16751206 AAATCATCAATGATTCAATAAT
1 AAATCATCAATAATTCAATAAT
16751228 AAATCAT
1 AAATCAT
16751235 TCATTCAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATCATCAATAATTCAATAAT
Found at i:16751303 original size:22 final size:22
Alignment explanation
Indices: 16751241--16751306 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
16751231 TCATTCATTC
*
16751241 AGTAGTAAATTATTTGTAA-TT
1 AGTAGTAAATTATTTATAATTT
* * *
16751262 AATAGTAAATCA-ATATTAATTT
1 AGTAGTAAATTATTTA-TAATTT
16751284 AGTAGTAAATTATTTATAATTT
1 AGTAGTAAATTATTTATAATTT
16751306 A
1 A
16751307 ATAATATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 1 0.03
21 13 0.37
22 19 0.54
23 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (22 bp):
AGTAGTAAATTATTTATAATTT
Found at i:16751340 original size:37 final size:36
Alignment explanation
Indices: 16751273--16751347 Score: 87
Period size: 37 Copynumber: 2.1 Consensus size: 36
16751263 ATAGTAAATC
* * * * *
16751273 AATATTAATTTAGTAGTAAATTATTTATAATTTAAT
1 AATATTAATTTAATAGTAAATCACTGATAATATAAT
*
16751309 AATATATAGTTTAATAGTAAATCACTGATAATATAAT
1 AATAT-TAATTTAATAGTAAATCACTGATAATATAAT
16751346 AA
1 AA
16751348 GAAATTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (36 bp):
AATATTAATTTAATAGTAAATCACTGATAATATAAT
Found at i:16756698 original size:1 final size:1
Alignment explanation
Indices: 16756694--16756731 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
16756684 GTTTTTTCTC
16756694 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16756732 CTTGAAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16767702 original size:13 final size:14
Alignment explanation
Indices: 16767684--16767715 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
16767674 TGTTTTGTGG
16767684 TTTTTGGATTTT-A
1 TTTTTGGATTTTGA
16767697 TTTTTGGATTTTGA
1 TTTTTGGATTTTGA
16767711 TTTTT
1 TTTTT
16767716 TTAGTGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (14 bp):
TTTTTGGATTTTGA
Found at i:16771241 original size:19 final size:19
Alignment explanation
Indices: 16771180--16771241 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
16771170 TGTATGTTTT
* * *
16771180 AATAGTATTAAGCATTTAC
1 AATAGTATTGATCACTTAC
* *
16771199 AATAGTTTTGATCACATAC
1 AATAGTATTGATCACTTAC
16771218 AATAGTATTGATCACTTAC
1 AATAGTATTGATCACTTAC
*
16771237 TATAG
1 AATAG
16771242 CTATATGAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
AATAGTATTGATCACTTAC
Found at i:16777226 original size:13 final size:13
Alignment explanation
Indices: 16777208--16777248 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
16777198 TCTATTTAAA
16777208 TATATTAAAATTT
1 TATATTAAAATTT
**
16777221 TATATTAAAATAA
1 TATATTAAAATTT
*
16777234 TATATAAAAATTT
1 TATATTAAAATTT
16777247 TA
1 TA
16777249 AACTTTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTAAAATTT
Found at i:16777256 original size:28 final size:26
Alignment explanation
Indices: 16777206--16777259 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16777196 AATCTATTTA
* *
16777206 AATATATTAAAATTTTATATTAAAAT
1 AATATATAAAAATTTTAAATTAAAAT
16777232 AATATATAAAAATTTTAAACTTTAAAAT
1 AATATATAAAAATTTTAAA--TTAAAAT
16777260 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
28 7 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATATAAAAATTTTAAATTAAAAT
Found at i:16777317 original size:16 final size:16
Alignment explanation
Indices: 16777295--16777340 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
16777285 CCTAATAAAT
* *
16777295 AAAATTTAATTCAATT
1 AAAATTTGATTCAATA
* *
16777311 CAAATTTGATTGAATA
1 AAAATTTGATTCAATA
16777327 AAAATTTGATTCAA
1 AAAATTTGATTCAA
16777341 ATTTAAATCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (16 bp):
AAAATTTGATTCAATA
Found at i:16783762 original size:19 final size:18
Alignment explanation
Indices: 16783735--16783787 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
16783725 TTTAATTGTC
*
16783735 TTAAGCTCTTTTGGCTGAG
1 TTAATCTCTTTTGGC-GAG
*
16783754 TTATTCTCTTTTGGACGAG
1 TTAATCTCTTTTGG-CGAG
16783773 TTAATCTCTTTTGGC
1 TTAATCTCTTTTGGC
16783788 CAAGCCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 28 0.93
20 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.21, T:0.47
Consensus pattern (18 bp):
TTAATCTCTTTTGGCGAG
Found at i:16784111 original size:56 final size:56
Alignment explanation
Indices: 16783913--16784147 Score: 231
Period size: 56 Copynumber: 4.2 Consensus size: 56
16783903 GGTAACCCAA
* * * * * *
16783913 CTAAGCTTTTATAAAAGCAATTTATCGAGATGAGTTTTTTGGTCGATGTGGTCGAG
1 CTAAGCCTTTATAAAAGTAATTTATCGAGATGAGATCTTTGGCCGAGGTGGTCGAG
* * * *
16783969 TTAAGCCTTTATGAAAG-AATTTATCGAGATGAGATCTTTAGCCGAGGTGGTCAAG
1 CTAAGCCTTTATAAAAGTAATTTATCGAGATGAGATCTTTGGCCGAGGTGGTCGAG
* * * * * * * *
16784024 CTAAGCCTTTATGAATGTATTTTA-CTAAGATGAGCTCTTGGGCCGAGGTGGCCGAC
1 CTAAGCCTTTATAAAAGTAATTTATC-GAGATGAGATCTTTGGCCGAGGTGGTCGAG
* * * * * *
16784080 CTAAACCTTTACAAAAGTAATTTATCGAGATGAGGTCTTTGTCTGAGGTGGTTGAG
1 CTAAGCCTTTATAAAAGTAATTTATCGAGATGAGATCTTTGGCCGAGGTGGTCGAG
16784136 CTAAGCCTTTAT
1 CTAAGCCTTTAT
16784148 GGAAGTACTT
Statistics
Matches: 142, Mismatches: 34, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
55 48 0.34
56 93 0.65
57 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (56 bp):
CTAAGCCTTTATAAAAGTAATTTATCGAGATGAGATCTTTGGCCGAGGTGGTCGAG
Found at i:16801887 original size:24 final size:25
Alignment explanation
Indices: 16801856--16801904 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
16801846 ATTTTTTTAG
*
16801856 TTGTGCTTTTA-CTTGTTCATTTGC
1 TTGTGCTTTTATCATGTTCATTTGC
*
16801880 TTGTGCTTTTATCATGTTTATTTGC
1 TTGTGCTTTTATCATGTTCATTTGC
16801905 ATTATTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.10, C:0.14, G:0.16, T:0.59
Consensus pattern (25 bp):
TTGTGCTTTTATCATGTTCATTTGC
Found at i:16804894 original size:14 final size:15
Alignment explanation
Indices: 16804859--16804907 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
16804849 TTAGTTCCCC
* *
16804859 CTTTAGTATATATAG
1 CTTTAGTGTAGATAG
16804874 CTTTAGTGTAGATAG
1 CTTTAGTGTAGATAG
*
16804889 -TTTAGTGTAGATAA
1 CTTTAGTGTAGATAG
16804903 CTTTA
1 CTTTA
16804908 ATAGACCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (15 bp):
CTTTAGTGTAGATAG
Found at i:16806242 original size:16 final size:17
Alignment explanation
Indices: 16806218--16806252 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16806208 CTTAAAGCTT
*
16806218 GAAGAACTTAAAGAGAA
1 GAAGAACTTAAAAAGAA
16806235 GAAG-ACTTAAAAAGAA
1 GAAGAACTTAAAAAGAA
16806251 GA
1 GA
16806253 GAAGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.60, C:0.06, G:0.23, T:0.11
Consensus pattern (17 bp):
GAAGAACTTAAAAAGAA
Found at i:16807580 original size:28 final size:29
Alignment explanation
Indices: 16807549--16807603 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
16807539 GCCCTTGTTC
*
16807549 TTTTTACTTTCT-TTTTG-TTACTCTTTAT
1 TTTTTACTTT-TAATTTGTTTACTCTTTAT
*
16807577 TTTTTTCTTTTAATTTGTTTACTCTTT
1 TTTTTACTTTTAATTTGTTTACTCTTT
16807604 TCTCCTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.04
28 13 0.57
29 9 0.39
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.73
Consensus pattern (29 bp):
TTTTTACTTTTAATTTGTTTACTCTTTAT
Found at i:16811689 original size:15 final size:15
Alignment explanation
Indices: 16811668--16811703 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
16811658 AACATTAAAT
16811668 AAATTTAATATT-TA
1 AAATTTAATATTATA
16811682 ATAATTTAATATTATA
1 A-AATTTAATATTATA
16811698 AAATTT
1 AAATTT
16811704 TTTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 16 0.80
16 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTTAATATTATA
Found at i:16812841 original size:75 final size:77
Alignment explanation
Indices: 16812743--16812967 Score: 223
Period size: 75 Copynumber: 3.0 Consensus size: 77
16812733 TTGTAAATAT
* * *
16812743 AAAAGAATATTTTTTAAAA-TTCAATAAAAATGATATTTTTAAGATAAAAAAT-TAGTTTTTGTT
1 AAAAGTATAGTTTTTAAAATTTCAATAAAAATAATATTTTTAAGATAAAAAATATAGTTTTTGTT
16812806 GAAAACATGAGTT-
66 GAAAACAT--GTTA
* * * * * * * *
16812819 AAAA-TATA-TTTTTCAGATTTCAATAAAAACAATATTTCTAATATAGAAAATGTAGTTTTTATA
1 AAAAGTATAGTTTTTAAAATTTCAATAAAAATAATATTTTTAAGATAAAAAATATAGTTTTTGT-
*
16812882 T-AAAATATGTTA
65 TGAAAACATGTTA
** *
16812894 AAAAGTATAGTTTTTAAAATTT-AATAAAAATAACGTTTTTAAGATAAAAAATATA-ATTTTGTT
1 AAAAGTATAGTTTTTAAAATTTCAATAAAAATAATATTTTTAAGATAAAAAATATAGTTTTTGTT
*
16812957 GAAAAGATGTT
66 GAAAACATGTT
16812968 TTGAAGATAA
Statistics
Matches: 120, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
74 11 0.09
75 49 0.41
76 49 0.41
77 11 0.09
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (77 bp):
AAAAGTATAGTTTTTAAAATTTCAATAAAAATAATATTTTTAAGATAAAAAATATAGTTTTTGTT
GAAAACATGTTA
Found at i:16812922 original size:76 final size:74
Alignment explanation
Indices: 16812742--16812945 Score: 189
Period size: 76 Copynumber: 2.7 Consensus size: 74
16812732 ATTGTAAATA
* * ** * *
16812742 TAAAAGAATATTTTTTAAAATTCAATAAAAATGATATTTTTAAGATAAAAAATTAGTTTTTGTTG
1 TAAAAGTATA-TTTTTAAAATTTAATAAAAACAATATTTCTAAGATAAAAAATTAGTTTTTATTG
16812807 AAAACATGAGT
65 AAAACAT-AGT
* * * *
16812818 TAAAA-TATATTTTTCAGATTTCAATAAAAACAATATTTCTAATATAGAAAATGTAGTTTTTATA
1 TAAAAGTATATTTTTAAAATTT-AATAAAAACAATATTTCTAAGATAAAAAAT-TAGTTTTTAT-
*
16812882 T-AAAATAT-GT
63 TGAAAACATAGT
* ** *
16812892 TAAAAAGTATAGTTTTTAAAATTTAATAAAAATAACGTTTTTAAGATAAAAAAT
1 T-AAAAGTATA-TTTTTAAAATTTAATAAAAACAATATTTCTAAGATAAAAAAT
16812946 ATAATTTTGT
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
74 12 0.12
75 32 0.31
76 48 0.47
77 11 0.11
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (74 bp):
TAAAAGTATATTTTTAAAATTTAATAAAAACAATATTTCTAAGATAAAAAATTAGTTTTTATTGA
AAACATAGT
Found at i:16812969 original size:37 final size:37
Alignment explanation
Indices: 16812928--16812998 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
16812918 TAAAAATAAC
*
16812928 GTTTTTAAGATAAAAA-ATATAATTTTGTTGAAAAGAT
1 GTTTTGAAGATAAAAATATAT-ATTTTGTTGAAAAGAT
*
16812965 GTTTTGAAGATAAAAATATATTTTTTGTTGAAAA
1 GTTTTGAAGATAAAAATATATATTTTGTTGAAAA
16812999 CATGAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 27 0.87
38 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (37 bp):
GTTTTGAAGATAAAAATATATATTTTGTTGAAAAGAT
Found at i:16813457 original size:27 final size:25
Alignment explanation
Indices: 16813426--16813482 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 25
16813416 TTATTACATG
*
16813426 TTATTAAGAACAATATAGTAAATGATT
1 TTATTAAG-A-AATATAGTAAAAGATT
*
16813453 TTATT-AGATATATAGTAAAAGATT
1 TTATTAAGAAATATAGTAAAAGATT
16813477 TTATTA
1 TTATTA
16813483 GGTAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 19 0.70
25 1 0.04
26 2 0.07
27 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.42
Consensus pattern (25 bp):
TTATTAAGAAATATAGTAAAAGATT
Found at i:16813467 original size:24 final size:24
Alignment explanation
Indices: 16813438--16813483 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
16813428 ATTAAGAACA
*
16813438 ATATAGTAAATGATTTTATTAGAT
1 ATATAGTAAAAGATTTTATTAGAT
16813462 ATATAGTAAAAGATTTTATTAG
1 ATATAGTAAAAGATTTTATTAG
16813484 GTAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (24 bp):
ATATAGTAAAAGATTTTATTAGAT
Found at i:16815793 original size:746 final size:741
Alignment explanation
Indices: 16814294--16816173 Score: 2003
Period size: 746 Copynumber: 2.5 Consensus size: 741
16814284 CACTCATAAA
* * * * *
16814294 TATACAAACATACATACCTATAAGATGTAAATCTCGAGTAATCTTATGGGATGTTTATCCTATAA
1 TATACAAACATACACACCCATAAGATGTAAATCTCTAGTAGTCTTATAGG-TGTTTATCCTATAA
* * * * * * *
16814359 AACCTTACAACTCTCTTACATCTTTTTTTCTTAT--TTAACTTTGTAGAGA-CCACCCATTTATA
65 AATCTTATAACTTTCTTACA---TTTTTTCTTATACCTAA-TTTATAGAGATTCACCTATTTATA
* * *
16814421 AGCATATAAACTT-ACTTATCAA-GAGTCTCTTTCTTCTTAGAATTATTT-TTCTATAAGTTTTT
126 AGCATACAAACTTGAC-TATCAAGGA-TCTCTTTCATCTTAGAATT-TTTCTTCTGTAAG-TTTT
* * * * *
16814483 TTGTTCATCAAGTAACATCTAGCAAATCTCAAACAAATATATT-TGAGATTTGAGTCACTATTTC
187 TTGTTTATCAAGTAATATCTAGCAAATCTCAAA-AAAAATTTTATGAGATTTAAGTCACTA-TTC
* * * *
16814547 TAACAATCTCCACCTTGACTCAAA-TTCTATCAAATCATTTGT-TTTCATGCTAGACATGCTTGA
250 TAACAATCTCTACCTTGACTCAAATTTC-ATCAAATCATTTGTCTTT-ATGCTAGATATGTTTGG
* * * * * *
16814610 C-TCTACCTGCAATAGAAGTCTCATAATAATTTTCTCTCGTGT-GCTTTCAAACTTCATGCAAAT
313 CTTC-ACCTACAATGGAAGTCTCATAATAATTTTCTTTTGTGTATC-TTCAAACTTCACGCAAAT
* * * * * * * *
16814673 CGATTTTTAATCTTTAAAACATGAACTTGAACATTTCCTTTGAATTGAGCTCTTTTGGGCTTGCT
376 TGATTCTCAATATTCAAAACATGAACTTAAACATTTCCATTGAATCGAGCTCTTTTGGGCTTGCT
* * *
16814738 TCTTTTCATGTCTCAACCTTCAACTCTAGTACCATTATTAGACTAAAAAGCCTTCAATCAATCAA
441 TCTTTTAATGTCTCAACCTTCAACTCTAGTACCACTATTAGACTAAAAAACCTTCAATCAATCAA
** * *
16814803 GCTAATGGAAGCAAAATCAAACAATTGATCAAGCACAAAAGAGATAGTAATTTAACATGATTAAC
506 GCTAACCGAAGAAAAATCAAACAATCGATCAAGCACAAAAGAGATAGTAATTTAACATGATTAAC
* * * * * *
16814868 TCCAATCGACCTATTTTCACGAATGAGAAAAAAATTCACTAGTTGTAGAGAATTACATCAAAACA
571 TCCAACCAACCTAATCTCACGAATGAAAAAAAAATTCACTAGTTATAGAGAATTACATCAAAACA
*** * ** *
16814933 AATCAATCGGTACTCAACAATCAATACTCATAGACTTTTTTAATCTCTTTTAGTTTTATAGAGTA
636 AATCAATCAACACTCAACAATCAATACCCATAGACCCTTTCAATCTCTTTTAGTTTTATAGAGTA
* * *
16814998 TTCTCAATCCAAACAAATACATACCCATGTGCATCCGTACG
701 GTCCCAATCCAAACAAATACATACCCATGTGCATCCGCACG
*
16815039 TCATACAAACATA-ACACCCATAAGATGTAAATCTCTAGTAGTTTTATAAGGTGTTTATCCTATA
1 T-ATACAAACATACACACCCATAAGATGTAAATCTCTAGTAGTCTTAT-AGGTGTTTATCCTATA
*
16815103 AAATCTTATAACTTTCTTACATTTTTTCTTATACCTAATTTTATAGAGATTTTACCTATTTATAA
64 AAATCTTATAACTTTCTTACATTTTTTCTTATACCTAA-TTTATAGAGA-TTCACCTATTTATAA
* * *
16815168 GCATGCAAATTTGTCTATCAAGGATC-CATTTCATCTTAGAATTTTTCTTCTGTAAGTTTTTTCG
127 GCATACAAACTTGACTATCAAGGATCTC-TTTCATCTTAGAATTTTTCTTCTGTAAGTTTTTT-G
* *
16815232 TTTATCAAGTAATATCTAGCCAATCTCAAAAAAAATTTTATAAGATTTAAGTCACTATTCGTAAC
190 TTTATCAAGTAATATCTAGCAAATCTCAAAAAAAATTTTATGAGATTTAAGTCACTATTC-TAAC
* * * *
16815297 AATCTTTATCTTCACTCAAATTTCATCAAATTATTTGTCTTTATGCTAGATATGTTTGGCTTCAC
254 AATCTCTACCTTGACTCAAATTTCATCAAATCATTTGTCTTTATGCTAGATATGTTTGGCTTCAC
* *
16815362 CTACAATGGAAGTCTCATAATAATTTTCTTTTATGTATCTTCAAACTTCACGTAAATTGATTCTC
319 CTACAATGGAAGTCTCATAATAATTTTCTTTTGTGTATCTTCAAACTTCACGCAAATTGATTCTC
*
16815427 AATATTCAAAACATGAA-TTCAAAC-TCTTTCATTGAATCGAGCT-TCTTTGGGCTTG-TTACTT
384 AATATTCAAAACATGAACTT-AAACAT-TTCCATTGAATCGAGCTCT-TTTGGGCTTGCTT-CTT
* * * *
16815488 TTAATGTCTCAACCTTTAACTCT-GATATCACTGTTAGGCTAAAAAACC-TCTAATCAATCAAGC
445 TTAATGTCTCAACCTTCAACTCTAG-TACCACTATTAGACTAAAAAACCTTC-AATCAATCAAGC
* * * * * *
16815551 TAGCCGAAGAAAAATTAAATAATCGATTAAGCACAAGAGAGATAGTAATTTAATATGATTCAAC-
508 TAACCGAAGAAAAATCAAACAATCGATCAAGCACAAAAGAGATAGTAATTTAACATGATT-AACT
* * *
16815615 CTAACCAACCTACATCT-ACGGATGAAAAAAAAGA-TCTATTAGTTATAGAGAATTACATCAAAA
572 CCAACCAACCTA-ATCTCACGAATGAAAAAAAA-ATTC-ACTAGTTATAGAGAATTACATCAAAA
* *
16815678 CAAATCAATCAACATTCAATAATCAATACCCATAGACCCTTTCAATCTCTTTTAGTTTTAT-GAA
634 CAAATCAATCAACACTCAACAATCAATACCCATAGACCCTTTCAATCTCTTTTAGTTTTATAG-A
* * *
16815742 GTAGTCCCAATCTAAACAAATACATA-CCATTTGCATTCATGCAC-
698 GTAGTCCCAATCCAAACAAATACATACCCATGTGCA-TC-CGCACG
* *
16815786 TATACAAATATACACACCCATAAGATGTCAATCTCTAGTAGTCTTATGAGGTGTTTAT-CTCATA
1 TATACAAACATACACACCCATAAGATGTAAATCTCTAGTAGTCTTAT-AGGTGTTTATCCT-ATA
*
16815850 AAATCTTATAA-TTCTTTTACATTTTTTCTTATACC----TTATAGAGACTTCACCTATTTATAA
64 AAATCTTATAACTT-TCTTACATTTTTTCTTATACCTAATTTATAGAGA-TTCACCTATTTATAA
** * * * * *
16815910 ATATACAAACTTGCCTATC-AGTAATCTCTTTCCTCTTAAAATTTTTCTTTTGTAAGGTTTTTTG
127 GCATACAAACTTGACTATCAAG-GATCTCTTTCATCTTAGAATTTTTCTTCTGTAA-GTTTTTTG
* * * * * *
16815974 TCTATCAAGTAATATCTAACTAATTTCAAACAAAATCTCTTATGGGATTTAAGTCACTATTCTCA
190 TTTATCAAGTAATATCTAGCAAATCTCAAAAAAAAT-T-TTATGAGATTTAAGTCACTATTCT-A
* * * * * * *
16816039 ATAATCTCTACCTTGACTCAAATTTAATCAAATCATCTATCTTTATACTAGATATACTTT-GCTC
252 ACAATCTCTACCTTGACTCAAATTTCATCAAATCATTTGTCTTTATGCTAGATAT-GTTTGGCTT
* * * * *
16816103 CA-CTAACAATGAAAGTTTCATAACAATCTTT-TTTTGTGTATCTTCAAACTTTACACAAATTGA
316 CACCT-ACAATGGAAGTCTCATAATAAT-TTTCTTTTGTGTATCTTCAAACTTCACGCAAATTGA
16816166 TTCTCAAT
379 TTCTCAAT
16816174 TGAACTTTTC
Statistics
Matches: 958, Mismatches: 135, Indels: 85
0.81 0.11 0.07
Matches are distributed among these distances:
741 2 0.00
742 107 0.11
743 12 0.01
744 140 0.15
745 96 0.10
746 401 0.42
747 197 0.21
748 3 0.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (741 bp):
TATACAAACATACACACCCATAAGATGTAAATCTCTAGTAGTCTTATAGGTGTTTATCCTATAAA
ATCTTATAACTTTCTTACATTTTTTCTTATACCTAATTTATAGAGATTCACCTATTTATAAGCAT
ACAAACTTGACTATCAAGGATCTCTTTCATCTTAGAATTTTTCTTCTGTAAGTTTTTTGTTTATC
AAGTAATATCTAGCAAATCTCAAAAAAAATTTTATGAGATTTAAGTCACTATTCTAACAATCTCT
ACCTTGACTCAAATTTCATCAAATCATTTGTCTTTATGCTAGATATGTTTGGCTTCACCTACAAT
GGAAGTCTCATAATAATTTTCTTTTGTGTATCTTCAAACTTCACGCAAATTGATTCTCAATATTC
AAAACATGAACTTAAACATTTCCATTGAATCGAGCTCTTTTGGGCTTGCTTCTTTTAATGTCTCA
ACCTTCAACTCTAGTACCACTATTAGACTAAAAAACCTTCAATCAATCAAGCTAACCGAAGAAAA
ATCAAACAATCGATCAAGCACAAAAGAGATAGTAATTTAACATGATTAACTCCAACCAACCTAAT
CTCACGAATGAAAAAAAAATTCACTAGTTATAGAGAATTACATCAAAACAAATCAATCAACACTC
AACAATCAATACCCATAGACCCTTTCAATCTCTTTTAGTTTTATAGAGTAGTCCCAATCCAAACA
AATACATACCCATGTGCATCCGCACG
Found at i:16818307 original size:19 final size:20
Alignment explanation
Indices: 16818280--16818319 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16818270 TTTAAAATTT
16818280 AAATATTAAA-TATATAAAA
1 AAATATTAAACTATATAAAA
* *
16818299 AAATTTTAAACTTTATAAAA
1 AAATATTAAACTATATAAAA
16818319 A
1 A
16818320 TTAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATTAAACTATATAAAA
Found at i:16827364 original size:73 final size:71
Alignment explanation
Indices: 16827274--16827494 Score: 223
Period size: 73 Copynumber: 3.0 Consensus size: 71
16827264 TAATATATAT
* * *
16827274 AATTATTTTTCAGAATTCAACAAAAACAACGTTTTAAGATAAAAAAATACAGTTTTTATTAAAAA
1 AATTATTTTTCAAAATTCAATAAAGACAACGTTTTAAGATAAAAAAA-ACAGTTTTTATT-AAAA
16827339 TATAAAAA
64 TATAAAAA
* * *
16827347 AATTATTTTTCAAAATTCAATAATGATAACGCTTTTAAGATTAAAAAAAACACGGTGTTTATTAA
1 AATTATTTTTCAAAATTCAATAAAGACAACG-TTTTAAGA-TAAAAAAAACA--GTTTTTATTAA
16827412 AATAT-AAAA
62 AATATAAAAA
* ** * **
16827421 AA-TAATTTTCATATTTTGAATAAAGACAACGTTTTAAAGATAAAATGCAA-AGTTTTTATTGAA
1 AATTATTTTTCA-AAATTCAATAAAGACAACGTTTT-AAGATAAAA-AAAACAGTTTTTATT-AA
16827484 AATATAAAAA
62 AATATAAAAA
16827494 A
1 A
16827495 TTTCAAAATT
Statistics
Matches: 124, Mismatches: 15, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
71 8 0.06
72 7 0.06
73 49 0.40
74 37 0.30
75 15 0.12
76 8 0.06
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (71 bp):
AATTATTTTTCAAAATTCAATAAAGACAACGTTTTAAGATAAAAAAAACAGTTTTTATTAAAATA
TAAAAA
Found at i:16827652 original size:18 final size:18
Alignment explanation
Indices: 16827603--16827653 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
16827593 GTAGACAATG
* *
16827603 TGTTATTCACTTGTCACG
1 TGTTATTCACATGTCACA
* *
16827621 TATTA-TGA-ATGTCACA
1 TGTTATTCACATGTCACA
16827637 TGTTATTCACATGTCAC
1 TGTTATTCACATGTCAC
16827654 TTCTTACGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTATTCACATGTCACA
Found at i:16827674 original size:34 final size:34
Alignment explanation
Indices: 16827603--16827676 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
16827593 GTAGACAATG
* * *
16827603 TGTTATTCACTTGTCACGTATTATGAATGTCACA
1 TGTTATTCACATGTCACGTATTACGAATATCACA
* * * *
16827637 TGTTATTCACATGTCACTTCTTACGAATATTATA
1 TGTTATTCACATGTCACGTATTACGAATATCACA
16827671 TGTTAT
1 TGTTAT
16827677 GAATGTGTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (34 bp):
TGTTATTCACATGTCACGTATTACGAATATCACA
Found at i:16829980 original size:10 final size:10
Alignment explanation
Indices: 16829948--16829980 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
16829938 CGACGAGGAG
16829948 AAAA-GAAAA
1 AAAAGGAAAA
*
16829957 AAAAGGAAAG
1 AAAAGGAAAA
16829967 AAAAGGAAAA
1 AAAAGGAAAA
16829977 AAAA
1 AAAA
16829981 AGAGAAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGGAAAA
Found at i:16830646 original size:9 final size:9
Alignment explanation
Indices: 16830632--16830666 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
16830622 CACAATAATA
16830632 ATAATGATG
1 ATAATGATG
16830641 ATAATGATG
1 ATAATGATG
16830650 ATAATGATG
1 ATAATGATG
*
16830659 ATGATGAT
1 ATAATGAT
16830667 AACAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (9 bp):
ATAATGATG
Found at i:16831035 original size:4 final size:4
Alignment explanation
Indices: 16831026--16831054 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
16831016 TAATAATAAT
16831026 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
16831055 TGGAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:16832319 original size:11 final size:10
Alignment explanation
Indices: 16832303--16832343 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
16832293 ATTGTGCCAT
16832303 TTATTTTATG
1 TTATTTTATG
16832313 CTTATTTTATG
1 -TTATTTTATG
16832324 TTTATTTTATG
1 -TTATTTTATG
*
16832335 TTTTTTTAT
1 TTATTTTAT
16832344 ATGCATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (10 bp):
TTATTTTATG
Found at i:16832327 original size:22 final size:21
Alignment explanation
Indices: 16832302--16832343 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
16832292 AATTGTGCCA
16832302 TTTATTTTATGCTTATTTTATG
1 TTTATTTTATG-TTATTTTATG
*
16832324 TTTATTTTATGTTTTTTTAT
1 TTTATTTTATGTTATTTTAT
16832344 ATGCATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTATTTTATGTTATTTTATG
Found at i:16833724 original size:10 final size:9
Alignment explanation
Indices: 16833710--16833774 Score: 67
Period size: 10 Copynumber: 6.7 Consensus size: 9
16833700 TTGTTTTAAG
16833710 GAAAAAAGAA
1 GAAAAAA-AA
*
16833720 CAAAAAAAA
1 GAAAAAAAA
16833729 GATAAAAAAA
1 GA-AAAAAAA
*
16833739 CAAAAAAAAA
1 -GAAAAAAAA
16833749 GATAAAAAAA
1 GA-AAAAAAA
16833759 GAAAAAAAA
1 GAAAAAAAA
16833768 GACAAAA
1 GA-AAAA
16833775 GAGAGAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
9 13 0.28
10 33 0.70
11 1 0.02
ACGTcount: A:0.83, C:0.05, G:0.09, T:0.03
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:16833740 original size:19 final size:19
Alignment explanation
Indices: 16833712--16833774 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
16833702 GTTTTAAGGA
16833712 AAAAAGAACAAAAAAAAGAT
1 AAAAA-AACAAAAAAAAGAT
16833732 AAAAAAACAAAAAAAAAGAT
1 AAAAAAAC-AAAAAAAAGAT
* *
16833752 AAAAAAAGAAAAAAAAGAC
1 AAAAAAACAAAAAAAAGAT
16833771 AAAA
1 AAAA
16833775 GAGAGAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.43
20 23 0.57
ACGTcount: A:0.84, C:0.05, G:0.08, T:0.03
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAGAT
Found at i:16835012 original size:25 final size:23
Alignment explanation
Indices: 16834979--16835027 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 23
16834969 TGACACCTAA
16834979 TTTTGTTTGAGA-TTTTTTTTATTG
1 TTTTGTTTG-GACTTTTTTTT-TTG
16835003 TTTTAGTTTGGACTTTTTTTTTTG
1 TTTT-GTTTGGACTTTTTTTTTTG
16835027 T
1 T
16835028 AATCGGGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.10, C:0.02, G:0.16, T:0.71
Consensus pattern (23 bp):
TTTTGTTTGGACTTTTTTTTTTG
Found at i:16835019 original size:24 final size:24
Alignment explanation
Indices: 16834979--16835027 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
16834969 TGACACCTAA
*
16834979 TTTTGTTTGAGATTTTTTTTATTG
1 TTTTGTTTGAGACTTTTTTTATTG
*
16835003 TTTTAGTTTG-GACTTTTTTTTTTG
1 TTTT-GTTTGAGACTTTTTTTATTG
16835027 T
1 T
16835028 AATCGGGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.10, C:0.02, G:0.16, T:0.71
Consensus pattern (24 bp):
TTTTGTTTGAGACTTTTTTTATTG
Found at i:16835231 original size:7 final size:7
Alignment explanation
Indices: 16835216--16835276 Score: 54
Period size: 7 Copynumber: 8.4 Consensus size: 7
16835206 TATAAAAATG
*
16835216 AAATCAA
1 AAATAAA
16835223 AAAT-AA
1 AAATAAA
16835229 AAATAAA
1 AAATAAA
16835236 AAAT-AA
1 AAATAAA
16835242 AAATAAA
1 AAATAAA
16835249 AGTAATATAA
1 A--AATA-AA
*
16835259 AAATAAT
1 AAATAAA
16835266 AAATAATA
1 AAATAA-A
16835274 AAA
1 AAA
16835277 AGTATAAGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
6 12 0.26
7 20 0.43
8 7 0.15
9 4 0.09
10 3 0.07
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (7 bp):
AAATAAA
Found at i:16835232 original size:6 final size:6
Alignment explanation
Indices: 16835194--16835271 Score: 63
Period size: 6 Copynumber: 13.0 Consensus size: 6
16835184 ACAAAAAACT
* * *
16835194 AAATAA AAA-AC ATATAA AAAT-G AAATCAA AAATAA AAATAAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAAT-AA AAATAA
* *
16835242 AAATAA AAGT-A ATATAA AAATAA TAAATAA
1 AAATAA AAATAA AAATAA AAATAA -AAATAA
16835272 TAAAAAGTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
5 10 0.18
6 30 0.54
7 16 0.29
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:16835232 original size:13 final size:12
Alignment explanation
Indices: 16835194--16835271 Score: 63
Period size: 13 Copynumber: 6.5 Consensus size: 12
16835184 ACAAAAAACT
*
16835194 AAATAAAAA-AC
1 AAATAAAAATAA
* *
16835205 ATATAAAAAT-G
1 AAATAAAAATAA
16835216 AAATCAAAAATAA
1 AAAT-AAAAATAA
16835229 AAATAAAAAATAA
1 AAAT-AAAAATAA
*
16835242 AAATAAAAGT-A
1 AAATAAAAATAA
*
16835253 ATATAAAAATAA
1 AAATAAAAATAA
16835265 TAAATAA
1 -AAATAA
16835272 TAAAAAGTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
11 20 0.38
12 12 0.23
13 21 0.40
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:16835260 original size:17 final size:18
Alignment explanation
Indices: 16835230--16835277 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
16835220 CAAAAATAAA
16835230 AATAAA-AA-ATAAAAAT
1 AATAAATAATATAAAAAT
*
16835246 AA-AAGTAATATAAAAAT
1 AATAAATAATATAAAAAT
16835263 AATAAATAATA-AAAA
1 AATAAATAATATAAAA
16835278 GTATAAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.07
16 4 0.15
17 14 0.52
18 7 0.26
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AATAAATAATATAAAAAT
Found at i:16836824 original size:25 final size:26
Alignment explanation
Indices: 16836794--16836856 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
16836784 ACATATAGGT
*
16836794 TTTTAGGGTTTCA-CCTAGGGTCTCG
1 TTTTAGGGTTTCATCCTAGGGTCTCA
* ** *
16836819 TTTTAGGGTTTTATGTTAGGGTTTCA
1 TTTTAGGGTTTCATCCTAGGGTCTCA
16836845 TTTTAGGGTTTC
1 TTTTAGGGTTTC
16836857 GGCTTTTCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.13, C:0.11, G:0.27, T:0.49
Consensus pattern (26 bp):
TTTTAGGGTTTCATCCTAGGGTCTCA
Found at i:16836837 original size:13 final size:13
Alignment explanation
Indices: 16836821--16836856 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
16836811 GGGTCTCGTT
*
16836821 TTAGGGTTTTATG
1 TTAGGGTTTCATG
*
16836834 TTAGGGTTTCATT
1 TTAGGGTTTCATG
16836847 TTAGGGTTTC
1 TTAGGGTTTC
16836857 GGCTTTTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.06, G:0.28, T:0.53
Consensus pattern (13 bp):
TTAGGGTTTCATG
Found at i:16838392 original size:109 final size:109
Alignment explanation
Indices: 16838201--16838405 Score: 358
Period size: 109 Copynumber: 1.9 Consensus size: 109
16838191 CCACTTTTCT
* *
16838201 TCTTGGTTTTGCCTAGTTTTAGCTGTCACTAGTGTGTCCCACCTTGCATGAAGACCTTTCATTTT
1 TCTTGGTTTTGCCTAGTTTTAGCTATCACTAGTGTGTCCCACCTTGCATGAAGACCTTTCACTTT
*
16838266 TTTTTTGTTTTTTGTTTTTTTCCCCCCTTTTTCTACTACCGTGC
66 TCTTTTGTTTTTTGTTTTTTTCCCCCCTTTTTCTACTACCGTGC
16838310 TCTTGGTTTTGCCTAGTTTTAGCTATCACTAGTGTGTCCCACCTTGCATGAAGATCC-TTCACTT
1 TCTTGGTTTTGCCTAGTTTTAGCTATCACTAGTGTGTCCCACCTTGCATGAAGA-CCTTTCACTT
*
16838374 TTCTTTTGTTTTTTGTTTTTTTCCCCTCTTTT
65 TTCTTTTGTTTTTTGTTTTTTTCCCCCCTTTT
16838406 CTATTATCGT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 89 0.98
110 2 0.02
ACGTcount: A:0.11, C:0.23, G:0.14, T:0.51
Consensus pattern (109 bp):
TCTTGGTTTTGCCTAGTTTTAGCTATCACTAGTGTGTCCCACCTTGCATGAAGACCTTTCACTTT
TCTTTTGTTTTTTGTTTTTTTCCCCCCTTTTTCTACTACCGTGC
Found at i:16839703 original size:9 final size:9
Alignment explanation
Indices: 16839689--16839722 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
16839679 AAGGCCAAGT
16839689 TATTTTTTA
1 TATTTTTTA
16839698 TATTTTTTA
1 TATTTTTTA
*
16839707 TATTTATTA
1 TATTTTTTA
16839716 TATTTTT
1 TATTTTT
16839723 ACATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTTTTTA
Found at i:16839728 original size:26 final size:25
Alignment explanation
Indices: 16839688--16839744 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
16839678 TAAGGCCAAG
*
16839688 TTATTTTTTATATTTT-TTATATTTA
1 TTATTTTTTACATTTTATTATA-TTA
*
16839713 TTATATTTTTACATTTTATTTTATTA
1 TTAT-TTTTTACATTTTATTATATTA
16839739 TTATTT
1 TTATTT
16839745 ATTATTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.21
26 18 0.64
27 4 0.14
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (25 bp):
TTATTTTTTACATTTTATTATATTA
Found at i:16839730 original size:18 final size:17
Alignment explanation
Indices: 16839690--16839749 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
16839680 AGGCCAAGTT
*
16839690 ATTTT-TTATATTTTTT
1 ATTTTATTATATTTTTC
16839706 ATATTTATTATATTTTTAC
1 AT-TTTATTATATTTTT-C
* *
16839725 ATTTTATTTTATTATT-
1 ATTTTATTATATTTTTC
16839741 A-TTTATTAT
1 ATTTTATTAT
16839750 TAGTTTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.19
16 3 0.08
17 3 0.08
18 22 0.59
19 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATTATATTTTTC
Found at i:16839750 original size:18 final size:16
Alignment explanation
Indices: 16839694--16839750 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 16
16839684 CAAGTTATTT
16839694 TTTA-TATTTTTTATA
1 TTTATTATTTTTTATA
*
16839709 TTTATTATATTTTTACA
1 TTTATTAT-TTTTTATA
16839726 -TT-TTATTTTATTATTA
1 TTTATTATTTT-TTA-TA
16839742 TTTATTATT
1 TTTATTATT
16839751 AGTTTTTACT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 3 0.09
15 11 0.32
16 6 0.18
17 9 0.26
18 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTATTTTTTATA
Found at i:16840125 original size:12 final size:13
Alignment explanation
Indices: 16840102--16840131 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16840092 ATTTTTATTG
16840102 TTTAGTTTTTTTT
1 TTTAGTTTTTTTT
16840115 TTTAGTTTTTTTT
1 TTTAGTTTTTTTT
16840128 TTTA
1 TTTA
16840132 CGATCGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTAGTTTTTTTT
Found at i:16840209 original size:31 final size:31
Alignment explanation
Indices: 16840171--16840231 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
16840161 AGAATGATCA
* *
16840171 GATTAAACTACAAGTCGAATGAAGTGACTGG
1 GATTAAACCACAAGTCGAATAAAGTGACTGG
*
16840202 GATTAAACCACAAGTTGAATAAAGTGACTG
1 GATTAAACCACAAGTCGAATAAAGTGACTG
16840232 CTAATATAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (31 bp):
GATTAAACCACAAGTCGAATAAAGTGACTGG
Found at i:16840513 original size:28 final size:29
Alignment explanation
Indices: 16840472--16840552 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
16840462 CATTAGTGCT
16840472 AGCTAAACTAGGCTTAAAT-TTGGGTGAC
1 AGCTAAACTAGGCTTAAATCTTGGGTGAC
* * *
16840500 AGCTAATCTGGGCTTAAATCTTGGGTGCC
1 AGCTAAACTAGGCTTAAATCTTGGGTGAC
* *
16840529 AGCTAAA-TGAGGCTCAAATTTTGG
1 AGCTAAACT-AGGCTTAAATCTTGG
16840553 CTGTTAGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 18 0.41
29 26 0.59
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (29 bp):
AGCTAAACTAGGCTTAAATCTTGGGTGAC
Found at i:16840533 original size:29 final size:28
Alignment explanation
Indices: 16840351--16840549 Score: 112
Period size: 28 Copynumber: 6.8 Consensus size: 28
16840341 TTTGCATGCT
* * *
16840351 AGCTAAATTGGGCTTGAATTTGGGTGCC
1 AGCTAAACTAGGCTTAAATTTGGGTGCC
* * *
16840379 AGCTAAACTATGCTTAAAACTTCTTGATGCC
1 AGCTAAACTAGGCTT-AAA-TT-TGGGTGCC
* *** *
16840410 AGTTAATACTAGGCTTAAAACCGAGGTGCT
1 AGCTAA-ACTAGGCTTAAATTTG-GGTGCC
* * ** *
16840440 AGCTAAACTGGGCCTAAATTTTCATTAGTGCT
1 AGCTAAACTAGGCTTAAA--TT--TGGGTGCC
*
16840472 AGCTAAACTAGGCTTAAATTTGGGTGAC
1 AGCTAAACTAGGCTTAAATTTGGGTGCC
* *
16840500 AGCTAATCTGGGCTTAAATCTTGGGTGCC
1 AGCTAAACTAGGCTTAAAT-TTGGGTGCC
*
16840529 AGCTAAA-TGAGGCTCAAATTT
1 AGCTAAACT-AGGCTTAAATTT
16840550 TGGCTGTTAG
Statistics
Matches: 126, Mismatches: 34, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
28 36 0.29
29 34 0.27
30 13 0.10
31 14 0.11
32 29 0.23
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (28 bp):
AGCTAAACTAGGCTTAAATTTGGGTGCC
Found at i:16840660 original size:32 final size:33
Alignment explanation
Indices: 16840595--16840736 Score: 150
Period size: 32 Copynumber: 4.4 Consensus size: 33
16840585 AGATAATTTG
* *
16840595 GGCTTAAATTTTCATTGGGTGCTAGCTAGACTA
1 GGCTTAAATTTTCATTTGGTGCTAGCTAAACTA
*
16840628 GGCTTAAATTTT-ATTTGGTACTAGCTAAACTA
1 GGCTTAAATTTTCATTTGGTGCTAGCTAAACTA
* * *
16840660 GGCTTAAATTTTCA-TTGGTGCTAGATAATCTG
1 GGCTTAAATTTTCATTTGGTGCTAGCTAAACTA
* *
16840692 GGCTTAAATTTTTC-TTAT--TGCCAACTAAACTA
1 GGCTTAAA-TTTTCATT-TGGTGCTAGCTAAACTA
*
16840724 GACTTAAATTTTC
1 GGCTTAAATTTTC
16840737 TTAAGTGCCA
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
31 5 0.05
32 67 0.73
33 19 0.21
34 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (33 bp):
GGCTTAAATTTTCATTTGGTGCTAGCTAAACTA
Found at i:16840720 original size:64 final size:65
Alignment explanation
Indices: 16840595--16840736 Score: 173
Period size: 64 Copynumber: 2.2 Consensus size: 65
16840585 AGATAATTTG
* * * *
16840595 GGCTTAAATTTTCATTGGGTGCTAGCTAGACTAGGCTTAAATTTTATTTGGTACTAGCTAAACTA
1 GGCTTAAATTTTCATTGGGTGCTAGATAGACTAGGCTTAAATTTTATTTAGTACCAACTAAACTA
* * *
16840660 GGCTTAAATTTTCATT-GGTGCTAGATA-ATCTGGGCTTAAATTTT-TCTTATTGCCAACTAAAC
1 GGCTTAAATTTTCATTGGGTGCTAGATAGA-CTAGGCTTAAATTTTAT-TTAGTACCAACTAAAC
16840722 TA
64 TA
*
16840724 GACTTAAATTTTC
1 GGCTTAAATTTTC
16840737 TTAAGTGCCA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.03
64 49 0.73
65 16 0.24
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (65 bp):
GGCTTAAATTTTCATTGGGTGCTAGATAGACTAGGCTTAAATTTTATTTAGTACCAACTAAACTA
Found at i:16840762 original size:32 final size:31
Alignment explanation
Indices: 16840561--16840764 Score: 117
Period size: 32 Copynumber: 6.4 Consensus size: 31
16840551 GGCTGTTAGT
* **
16840561 TGGGTTTAAATTTTCATTAGTGCCAGA-TAATT
1 TGGGCTTAAATTTTC-TTAGTGCCA-ACTAAAC
* * * *
16840593 TGGGCTTAAATTTTCATTGGGTGCTAGCTAGAC
1 TGGGCTTAAATTTTC-TT-AGTGCCAACTAAAC
* * * * * *
16840626 TAGGCTTAAATTTTATTTGGTACTAGCTAAAC
1 TGGGCTTAAATTTT-CTTAGTGCCAACTAAAC
* * * *
16840658 TAGGCTTAAATTTTCATTGGTGCTAGA-TAATC
1 TGGGCTTAAATTTTC-TTAGTGCCA-ACTAAAC
*
16840690 TGGGCTTAAATTTTTCTTATTGCCAACTAAAC
1 TGGGCTTAAA-TTTTCTTAGTGCCAACTAAAC
* *
16840722 TAGACTTAAATTTTCTTAAGTGCCAACT-AAC
1 TGGGCTTAAATTTTCTT-AGTGCCAACTAAAC
16840753 TTGGGCTTAAAT
1 -TGGGCTTAAAT
16840765 CTTAAGTAGA
Statistics
Matches: 138, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
31 11 0.08
32 100 0.72
33 27 0.20
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (31 bp):
TGGGCTTAAATTTTCTTAGTGCCAACTAAAC
Found at i:16841041 original size:29 final size:29
Alignment explanation
Indices: 16841008--16841134 Score: 128
Period size: 29 Copynumber: 4.4 Consensus size: 29
16840998 TTTTCACAAA
* * *
16841008 TGCTATCTAAACTAGCCTTAAAACCTCGG
1 TGCTAGCTAAACTAGGCTTAAAACCTAGG
** *
16841037 TGCTAGCTAAACTAGGCTTAAAATTTGGG
1 TGCTAGCTAAACTAGGCTTAAAACCTAGG
* * * **
16841066 TGCCAGCTAATCTAGGCTTAGAATTTAGG
1 TGCTAGCTAAACTAGGCTTAAAACCTAGG
* *
16841095 TGCTAGCTAAACTGGGCTTAAAACCTTGG
1 TGCTAGCTAAACTAGGCTTAAAACCTAGG
*
16841124 TGCTAGTTAAA
1 TGCTAGCTAAA
16841135 TTGGACTTAA
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 81 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (29 bp):
TGCTAGCTAAACTAGGCTTAAAACCTAGG
Found at i:16841303 original size:29 final size:29
Alignment explanation
Indices: 16841257--16841324 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
16841247 TAATTAAACC
*
16841257 AGACTTAAAACCTGGGTGCCCA-AAAAAAT
1 AGACTTAAAACCTGGGTG-CAAGAAAAAAT
* *
16841286 AGACTTAAAA-CTATGGTGTAAGAAAAAAT
1 AGACTTAAAACCT-GGGTGCAAGAAAAAAT
16841315 AGACTTAAAA
1 AGACTTAAAA
16841325 ATTTTTCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (29 bp):
AGACTTAAAACCTGGGTGCAAGAAAAAAT
Found at i:16842189 original size:24 final size:24
Alignment explanation
Indices: 16842162--16842242 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 24
16842152 TTTTTCCTAT
16842162 TTTTTCTTCTTTCTTTCTTGTCTC
1 TTTTTCTTCTTTCTTTCTTGTCTC
* *
16842186 TTTTTATT-TTTTTTTACTTTGT-TC
1 TTTTTCTTCTTTCTTT-C-TTGTCTC
*
16842210 TTTTTTGTTCTTTCTTT-TT-TCCTC
1 -TTTTTCTTCTTTCTTTCTTGT-CTC
*
16842234 ATTTTCTTC
1 TTTTTCTTC
16842243 ACTTTTCCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
22 1 0.02
23 15 0.33
24 12 0.27
25 11 0.24
26 6 0.13
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTTCTTCTTTCTTTCTTGTCTC
Found at i:16842222 original size:17 final size:16
Alignment explanation
Indices: 16842161--16842222 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 16
16842151 ATTTTTCCTA
16842161 TTTT-TTCTTCTTTCTT
1 TTTTGTTCTT-TTTCTT
* *
16842177 TCTTGTCTCTTTTTATT
1 TTTTGT-TCTTTTTCTT
*
16842194 TTTTTTTACTTTGTTCTT
1 TTTTGTT-CTTT-TTCTT
16842212 TTTTGTTCTTT
1 TTTTGTTCTTT
16842223 CTTTTTTCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
16 4 0.11
17 18 0.50
18 14 0.39
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (16 bp):
TTTTGTTCTTTTTCTT
Found at i:16844240 original size:21 final size:21
Alignment explanation
Indices: 16844214--16844264 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
16844204 AAATGTCGAA
* *
16844214 TGGGAATAGTATGGTGACCAT
1 TGGGAATAGTACGATGACCAT
16844235 TGGGAATAGTACGATGACCAT
1 TGGGAATAGTACGATGACCAT
*
16844256 TGAGAATAG
1 TGGGAATAG
16844265 CCATTCACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.25
Consensus pattern (21 bp):
TGGGAATAGTACGATGACCAT
Found at i:16846946 original size:31 final size:31
Alignment explanation
Indices: 16846911--16846980 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
16846901 TATATAATAT
* *
16846911 ATGAAACAA-AATTAAAGAATATACAAATAAA
1 ATGAAACAATAATTAAA-AACAAACAAATAAA
* * *
16846942 ATGAATCAATAATTCAAAACAAACAAATAAT
1 ATGAAACAATAATTAAAAACAAACAAATAAA
16846973 A-GAAACAA
1 ATGAAACAA
16846981 CATAGCAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 6 0.19
31 20 0.62
32 6 0.19
ACGTcount: A:0.66, C:0.10, G:0.06, T:0.19
Consensus pattern (31 bp):
ATGAAACAATAATTAAAAACAAACAAATAAA
Found at i:16848905 original size:14 final size:14
Alignment explanation
Indices: 16848865--16848912 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
16848855 TTAATTAAAA
*
16848865 TTTATTATTATTATT
1 TTTATTTTTATTA-T
16848880 TATTCATATTTTATTAT
1 T-TT-AT-TTTTATTAT
16848897 TTTATTTTTATTAT
1 TTTATTTTTATTAT
16848911 TT
1 TT
16848913 AATGATTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 11 0.38
15 3 0.10
16 4 0.14
17 4 0.14
18 7 0.24
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTTTTATTAT
Found at i:16849566 original size:3 final size:3
Alignment explanation
Indices: 16849558--16849582 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16849548 TTTTAAGTTA
16849558 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
16849583 TTGTTCAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:16849621 original size:20 final size:21
Alignment explanation
Indices: 16849598--16849646 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
16849588 CAAGGCCAAG
*
16849598 TTATTTTTAT-TTTTTTATAT
1 TTATATTTATATTTTTTATAT
*
16849618 TTATATTTATATTTTTTATTTT
1 TTATATTTATATTTTTTA-TAT
16849640 TTATATT
1 TTATATT
16849647 CTTACATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.36
21 7 0.28
22 9 0.36
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTATATTTATATTTTTTATAT
Found at i:16854508 original size:22 final size:22
Alignment explanation
Indices: 16854483--16854566 Score: 61
Period size: 22 Copynumber: 3.8 Consensus size: 22
16854473 TAAGGTAAAG
* *
16854483 TTATTTTTAATTTTATTTCTCT
1 TTATTTTTAATTTTATTTATAT
*
16854505 TTATATTT-ATATTTA-TTATAT
1 TTATTTTTAAT-TTTATTTATAT
16854526 TTATATTTTACATTTTATTT-TA-
1 TTAT-TTTTA-ATTTTATTTATAT
16854548 TTATTATTT-ATTGTTATTT
1 TTATT-TTTAATT-TTATTT
16854567 TTTACTTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.06
21 17 0.33
22 21 0.41
23 6 0.12
24 4 0.08
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (22 bp):
TTATTTTTAATTTTATTTATAT
Found at i:16854559 original size:15 final size:14
Alignment explanation
Indices: 16854505--16854565 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
16854495 TTATTTCTCT
16854505 TTATATTTATATTTA
1 TTATATTTAT-TTTA
*
16854520 TTATATTTATATT-
1 TTATATTTATTTTA
*
16854533 TTACATTTTATTTTA
1 TTATA-TTTATTTTA
16854548 TTATTATTTATTGTTA
1 TTA-TATTTATT-TTA
16854564 TT
1 TT
16854566 TTTTACTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.11
14 9 0.24
15 19 0.50
16 6 0.16
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
TTATATTTATTTTA
Found at i:16856523 original size:13 final size:13
Alignment explanation
Indices: 16856507--16856554 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
16856497 TAAAACCTTA
16856507 AAACCCTAAAATG
1 AAACCCTAAAATG
**
16856520 AAACCCTAATGTG
1 AAACCCTAAAATG
16856533 AAACCCT-AAATG
1 AAACCCTAAAATG
*
16856545 AAACCTTAAA
1 AAACCCTAAA
16856555 CCGCAATCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (13 bp):
AAACCCTAAAATG
Found at i:16856523 original size:21 final size:21
Alignment explanation
Indices: 16856483--16856524 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16856473 TCATAATTTT
* *
16856483 TTAAAATCCTAAATTAAAACC
1 TTAAAACCCTAAAATAAAACC
*
16856504 TTAAAACCCTAAAATGAAACC
1 TTAAAACCCTAAAATAAAACC
16856525 CTAATGTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.24
Consensus pattern (21 bp):
TTAAAACCCTAAAATAAAACC
Found at i:16857632 original size:21 final size:20
Alignment explanation
Indices: 16857603--16857641 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16857593 AGCACATGAA
* *
16857603 AAGAGGAAAGGAAGAAAAATT
1 AAGAAGAAAAGAA-AAAAATT
16857624 AAGAAGAAAAGAAAAAAA
1 AAGAAGAAAAGAAAAAAA
16857642 GTTATGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (20 bp):
AAGAAGAAAAGAAAAAAATT
Found at i:16859766 original size:26 final size:26
Alignment explanation
Indices: 16859737--16859788 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16859727 TATTAACAAT
*
16859737 TATTGAATTTAATTGGTTTTATTTTA
1 TATTGAATTTAATTCGTTTTATTTTA
* * *
16859763 TATTTAGTTTAATTCTTTTTATTTTA
1 TATTGAATTTAATTCGTTTTATTTTA
16859789 ATTTTTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (26 bp):
TATTGAATTTAATTCGTTTTATTTTA
Found at i:16864798 original size:250 final size:249
Alignment explanation
Indices: 16864342--16864799 Score: 584
Period size: 250 Copynumber: 1.8 Consensus size: 249
16864332 AAAAGGGTAG
* * * *
16864342 TTTGAGTCGAAGGAAGGATCAAAGTTGAAAACCTAAAAATGTAGCTTAGATGCAAAAGAATACCA
1 TTTGAGTCGAAGAAAGGATCAAAGTTAAAAACCTAAAAAGGGAGCTTAGATGCAAAAGAATACCA
* * * *
16864407 ATTTATAGGGCAATGTCTAATATAACGAACTTGAAAGGATCAAGGACATTAATGGAATAAGTTTT
66 ATTTATAGGGCAATGCCTAATACAACGAACTAGAAAGGATCAAGGACATTAATGGAATAAGTTAT
* * *
16864472 TAAGAGAAAAAATTTTGAAAGGTTGTTCACGATTGTCTGAATATTCACTATCTAAATACGATTCA
131 TAAAAGAAAAAATTTTGAAAGGTTGTTCACGATTGTCTAAATATTCACTATCTAAATACAATTCA
16864537 TTCACTAAAAAAAAAGAGAGAAAAATAATGAAAGAGGACTCGTGATTGAAACAA
196 TTCACTAAAAAAAAAGAGAGAAAAATAATGAAAGAGGACTCGTGATTGAAACAA
* * * *
16864591 TTTGAGTCGAAGAAAGGATCTAAGTTAAAAACCTGAAAAGGCGA-CTTCGATG-TAAAGAAATAC
1 TTTGAGTCGAAGAAAGGATCAAAGTTAAAAACCTAAAAAGG-GAGCTTAGATGCAAAAG-AATAC
* * **
16864654 CAATTTATAAGAGGTAATGCCT-ATACAATGAACTCAGAAA-GATCAAGGGTATTAATGGAATAA
64 CAATTTAT-AG-GGCAATGCCTAATACAACGAACT-AGAAAGGATCAAGGACATTAATGGAATAA
* * * * *
16864717 GTTATTAAAAGAAAGAATTTTGGAATGTTGTTCATGATTGTTTAAATATTCA-TAATCTAAATAC
126 GTTATTAAAAGAAAAAATTTTGAAAGGTTGTTCACGATTGTCTAAATATTCACT-ATCTAAATAC
** *
16864781 AATTTGTTCATTAAAAAAA
190 AATTCATTCACTAAAAAAA
16864800 TTTTAAAAAA
Statistics
Matches: 176, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
248 4 0.02
249 57 0.32
250 103 0.59
251 12 0.07
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (249 bp):
TTTGAGTCGAAGAAAGGATCAAAGTTAAAAACCTAAAAAGGGAGCTTAGATGCAAAAGAATACCA
ATTTATAGGGCAATGCCTAATACAACGAACTAGAAAGGATCAAGGACATTAATGGAATAAGTTAT
TAAAAGAAAAAATTTTGAAAGGTTGTTCACGATTGTCTAAATATTCACTATCTAAATACAATTCA
TTCACTAAAAAAAAAGAGAGAAAAATAATGAAAGAGGACTCGTGATTGAAACAA
Found at i:16866139 original size:28 final size:28
Alignment explanation
Indices: 16866063--16866139 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
16866053 AAGATATTTC
*
16866063 CATTCACATCTACATCA-TG-AGAAAGA
1 CATTCACATTTACATCACTGCAGAAAGA
* * *
16866089 CATTCGCAGTTGCATCACTTGCA-AAAGA
1 CATTCACATTTACATCAC-TGCAGAAAGA
16866117 CATTCACATTTACATCATCTGCA
1 CATTCACATTTACATCA-CTGCA
16866140 TCATAACCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 13 0.32
28 25 0.62
29 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (28 bp):
CATTCACATTTACATCACTGCAGAAAGA
Done.