Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 11 of 113
Found at i:3514592 original size:22 final size:21
Alignment explanation
Indices: 3514555--3514595 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
3514545 TAATGCAACT
*
3514555 ATTTTATATTTTTATTTGAAA
1 ATTTTATAATTTTATTTGAAA
3514576 ATTTTATTAATTTTATTTGA
1 ATTTTA-TAATTTTATTTGA
3514596 TTTCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
ATTTTATAATTTTATTTGAAA
Found at i:3515010 original size:15 final size:14
Alignment explanation
Indices: 3514993--3515020 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3514983 TTTCTCTTTT
3514993 TTTTAAAAAAATTA
1 TTTTAAAAAAATTA
3515007 TTTTAAAAAAATTA
1 TTTTAAAAAAATTA
3515021 ACAAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTTAAAAAAATTA
Found at i:3515662 original size:20 final size:18
Alignment explanation
Indices: 3515617--3515668 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 18
3515607 CCAAACCTTA
*
3515617 TCTTTTTTTATTTTGACTT
1 TCTTTTTTT-TTCTGACTT
3515636 TCATTTTTTTTTACTGACTTT
1 TC-TTTTTTTTT-CTGAC-TT
3515657 TCTTTTCTTTTT
1 TCTTTT-TTTTT
3515669 GTTTGCAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 15 0.54
21 9 0.32
ACGTcount: A:0.10, C:0.13, G:0.04, T:0.73
Consensus pattern (18 bp):
TCTTTTTTTTTCTGACTT
Found at i:3516053 original size:3 final size:3
Alignment explanation
Indices: 3516047--3516076 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
3516037 AAAACAAATA
3516047 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3516077 CAAATTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3519042 original size:21 final size:18
Alignment explanation
Indices: 3519004--3519054 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
3518994 TCTTGATTCG
* *
3519004 TACAGATTAGGCTT-AGC
1 TACATATTAGGTTTAAGC
3519021 TAGCTATATATAGGTTTAAGC
1 TA-C-ATAT-TAGGTTTAAGC
3519042 TACATATTAGGTT
1 TACATATTAGGTT
3519055 CATCTGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 2 0.07
18 7 0.25
19 7 0.25
20 7 0.25
21 5 0.18
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (18 bp):
TACATATTAGGTTTAAGC
Found at i:3521848 original size:109 final size:109
Alignment explanation
Indices: 3521657--3521856 Score: 276
Period size: 109 Copynumber: 1.8 Consensus size: 109
3521647 TTCTATTACC
* * *
3521657 ACACAAATTTTACCAAACTTCATATATTAAAATATGAAAGCATATTATTTATAATTATTATATTA
1 ACACAAATTTTACCAAACTCCATATATTAAAATAAGAAAGCATATTATTTATAATTATTACATTA
* *
3521722 CATTAATGATGTACAATTCAAAATTATCCTAAGTATAAATTGAA
66 CATCAATGACGTACAATTCAAAATTATCCTAAGTATAAATTGAA
* * * * *
3521766 ACACAATTTTTGCCTAACTCCATATATTAAAGTAAGATAA-TATATTATTTATAATTATTACATT
1 ACACAAATTTTACCAAACTCCATATATTAAAATAAGA-AAGCATATTATTTATAATTATTACATT
* *
3521830 ACATCAATTACGTCCAATTCAAAATTA
65 ACATCAATGACGTACAATTCAAAATTA
3521857 AGTATACTCT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 76 0.97
110 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (109 bp):
ACACAAATTTTACCAAACTCCATATATTAAAATAAGAAAGCATATTATTTATAATTATTACATTA
CATCAATGACGTACAATTCAAAATTATCCTAAGTATAAATTGAA
Found at i:3526279 original size:42 final size:42
Alignment explanation
Indices: 3526216--3526295 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
3526206 TTGGGGGAGG
* *
3526216 GGGGACTGATAAGGCCGTACTACTGGGCAATCGTTGAGAAGT
1 GGGGACCGATAAGGCCGTACTACTGGGCAATAGTTGAGAAGT
3526258 GGGGACCGATAAGG-CGATACTACTGGGCAATAGTTGAG
1 GGGGACCGATAAGGCCG-TACTACTGGGCAATAGTTGAG
3526296 GACAAGTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.28, C:0.16, G:0.36, T:0.20
Consensus pattern (42 bp):
GGGGACCGATAAGGCCGTACTACTGGGCAATAGTTGAGAAGT
Found at i:3537603 original size:2 final size:2
Alignment explanation
Indices: 3537596--3537633 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3537586 TGAAAATGAA
3537596 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3537634 GTTTCGACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3539297 original size:18 final size:19
Alignment explanation
Indices: 3539257--3539297 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
3539247 TATGATATAT
**
3539257 TATTTATTTTAATTTAAAA
1 TATTTATTTTAATAAAAAA
3539276 -ATTTATTTT-ATAAAAAA
1 TATTTATTTTAATAAAAAA
3539293 TATTT
1 TATTT
3539298 TATAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTTATTTTAATAAAAAA
Found at i:3551878 original size:22 final size:22
Alignment explanation
Indices: 3551846--3551892 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
3551836 TCATGCAAAA
3551846 TTTTACATTTTA-TTTTAATTAT
1 TTTTACATTTTATTTTTAATT-T
*
3551868 TTTTACCTTTTATTTTTAATTT
1 TTTTACATTTTATTTTTAATTT
3551890 TTT
1 TTT
3551893 GCCAATTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTACATTTTATTTTTAATTT
Found at i:3555940 original size:3 final size:3
Alignment explanation
Indices: 3555932--3555965 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3555922 TAGAAACAAT
3555932 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3555966 TAAGAAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3574596 original size:21 final size:22
Alignment explanation
Indices: 3574570--3574626 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
3574560 GTCGACTAAC
* *
3574570 ATAATTTATATTTTTATATTTA
1 ATAATTTATATTTTTAAAATTA
* *
3574592 A-AATTTAAATTATTAAAATTA
1 ATAATTTATATTTTTAAAATTA
*
3574613 ATAATTAATATTTT
1 ATAATTTATATTTT
3574627 ATTAATGAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTATATTTTTAAAATTA
Found at i:3575705 original size:16 final size:16
Alignment explanation
Indices: 3575668--3575710 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
3575658 TTGTGTGCCA
*
3575668 ATTTTAGGATTTTTAG
1 ATTTTAGAATTTTTAG
*
3575684 AATTTAGAATTTTTAG
1 ATTTTAGAATTTTTAG
*
3575700 GTTTTA-AATTT
1 ATTTTAGAATTT
3575711 AAGGTTTGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (16 bp):
ATTTTAGAATTTTTAG
Found at i:3575787 original size:21 final size:21
Alignment explanation
Indices: 3575763--3575809 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
3575753 TGAAGTTTGA
3575763 GGTTTGGGTTTTTAGTTTCAG
1 GGTTTGGGTTTTTAGTTTCAG
3575784 GGTTTGGGTTTTTAGTTTCAG
1 GGTTTGGGTTTTTAGTTTCAG
3575805 GGTTT
1 GGTTT
3575810 TGATTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.09, C:0.04, G:0.34, T:0.53
Consensus pattern (21 bp):
GGTTTGGGTTTTTAGTTTCAG
Found at i:3575816 original size:21 final size:21
Alignment explanation
Indices: 3575763--3575816 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
3575753 TGAAGTTTGA
*
3575763 GGTTTGGGTTTTTAGTTTCAG
1 GGTTTGGATTTTTAGTTTCAG
*
3575784 GGTTTGGGTTTTTAGTTTCAG
1 GGTTTGGATTTTTAGTTTCAG
*
3575805 GGTTTTGATTTT
1 GGTTTGGATTTT
3575817 AGGTTTGGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.09, C:0.04, G:0.31, T:0.56
Consensus pattern (21 bp):
GGTTTGGATTTTTAGTTTCAG
Found at i:3576077 original size:17 final size:19
Alignment explanation
Indices: 3576040--3576078 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
3576030 CGAAAAATTA
3576040 TTATTATTTTTATTATCAAT
1 TTATTATTTTTATTA-CAAT
3576060 TTATTATTTTT-TTA-AAT
1 TTATTATTTTTATTACAAT
3576077 TT
1 TT
3576079 TTTTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTATTTTTATTACAAT
Found at i:3576174 original size:3 final size:3
Alignment explanation
Indices: 3576168--3576236 Score: 61
Period size: 3 Copynumber: 22.7 Consensus size: 3
3576158 AATAAAAAAA
* *
3576168 TAT TAT T-T TAT TCT TAT TAT CAT TATT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT
* *
3576214 TGT T-T TCAT TTT TAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TA
3576237 AAAACAATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.07
3 42 0.78
4 8 0.15
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3576198 original size:19 final size:20
Alignment explanation
Indices: 3576169--3576206 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3576159 ATAAAAAAAT
*
3576169 ATTATTTTATTCTTATTATC
1 ATTATTTTATTATTATTATC
3576189 ATTA-TTTATTATTATTAT
1 ATTATTTTATTATTATTAT
3576207 TATTTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTATTTTATTATTATTATC
Found at i:3576209 original size:25 final size:24
Alignment explanation
Indices: 3576170--3576236 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 24
3576160 TAAAAAAATA
*
3576170 TTATTTTATTCTTATTATCATT-AT
1 TTATTTTATTATTATTAT-ATTGAT
*
3576194 TTATTATTATTATTATT-TATTGTT
1 TTATT-TTATTATTATTATATTGAT
3576218 TTCATTTTTATTATTATTA
1 TT-A-TTTTATTATTATTA
3576237 AAAACAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 3 0.08
24 9 0.25
25 22 0.61
26 2 0.06
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.69
Consensus pattern (24 bp):
TTATTTTATTATTATTATATTGAT
Found at i:3578370 original size:19 final size:20
Alignment explanation
Indices: 3578343--3578384 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
3578333 TTCTCTTATT
3578343 AATAATTAAT-T-TTAAATTA
1 AATAATTAATATCTTAAA-TA
*
3578362 AATACTTAATATCTTAAATA
1 AATAATTAATATCTTAAATA
3578382 AAT
1 AAT
3578385 CATTTTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 6 0.30
21 5 0.25
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAATTAATATCTTAAATA
Found at i:3579030 original size:19 final size:20
Alignment explanation
Indices: 3578991--3579039 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
3578981 TTTAAAATTA
3578991 ATAAAATATTACTTTTAAAT
1 ATAAAATATTACTTTTAAAT
*
3579011 ATAAAATATTA-TTTTTAAT
1 ATAAAATATTACTTTTAAAT
3579030 ATAAATATAT
1 ATAAA-ATAT
3579040 AATATATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTACTTTTAAAT
Found at i:3585105 original size:52 final size:52
Alignment explanation
Indices: 3585049--3585162 Score: 138
Period size: 52 Copynumber: 2.2 Consensus size: 52
3585039 AGAGAAAGAA
* * * * *
3585049 GATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAAAATTCTAAAAGGAAAAT
1 GATTCTTAATAAGTAAGTTTAACTTACAAGAGAAAAATTATAAAAGGAAAAG
* * * * *
3585101 GATTCTTAATAAGTAAGTTTAACTTACAGGAGAAGAATTATAAGAGGAGAGG
1 GATTCTTAATAAGTAAGTTTAACTTACAAGAGAAAAATTATAAAAGGAAAAG
3585153 GATTCTTAAT
1 GATTCTTAAT
3585163 GGACAAATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (52 bp):
GATTCTTAATAAGTAAGTTTAACTTACAAGAGAAAAATTATAAAAGGAAAAG
Found at i:3588630 original size:25 final size:25
Alignment explanation
Indices: 3588595--3588643 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3588585 AGAGATTTTT
*
3588595 TAAGAATTTATCATTTGA-AATTTC
1 TAAGAATTTATCATTGGATAATTTC
3588619 TAAGAATCTTATCATTGGATAATTT
1 TAAGAAT-TTATCATTGGATAATTT
3588644 GTATTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 10 0.45
26 5 0.23
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (25 bp):
TAAGAATTTATCATTGGATAATTTC
Found at i:3588911 original size:21 final size:21
Alignment explanation
Indices: 3588885--3588924 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3588875 TTATTGAATA
3588885 AAAT-AAGCAAATAAATAAAAT
1 AAATAAAG-AAATAAATAAAAT
*
3588906 AAATAAAGAATTAAATAAA
1 AAATAAAGAAATAAATAAA
3588925 TGAATACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (21 bp):
AAATAAAGAAATAAATAAAAT
Found at i:3595341 original size:2 final size:2
Alignment explanation
Indices: 3595334--3595364 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3595324 AAATGACGGC
*
3595334 AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3595365 GCTGCAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3596044 original size:27 final size:26
Alignment explanation
Indices: 3596006--3596074 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
3595996 AATGAATAAA
* *
3596006 ATTT-TTTTAAAATTAATTTTTATAT
1 ATTTATTTTAAAATTAATATTTATAC
3596031 ATTTATTTTAAAAATTAATATTTATAC
1 ATTTATTTT-AAAATTAATATTTATAC
*
3596058 A-TTATTTATTAAATTAA
1 ATTTATTT-TAAAATTAA
3596075 CAATATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 4 0.11
26 17 0.45
27 17 0.45
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTATTTTAAAATTAATATTTATAC
Found at i:3600296 original size:18 final size:18
Alignment explanation
Indices: 3600273--3600307 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3600263 ACCAGACTAG
*
3600273 TACAATTTATAAAAATAC
1 TACAATCTATAAAAATAC
*
3600291 TACAATCTATTAAAATA
1 TACAATCTATAAAAATA
3600308 ATATGTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
TACAATCTATAAAAATAC
Found at i:3601376 original size:12 final size:12
Alignment explanation
Indices: 3601359--3601404 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
3601349 TACATTTTAT
3601359 TTTTTATTAAAA
1 TTTTTATTAAAA
*
3601371 TTTTTATT--AT
1 TTTTTATTAAAA
*
3601381 TTTTTATTAATA
1 TTTTTATTAAAA
*
3601393 TTTTCATTAAAA
1 TTTTTATTAAAA
3601405 AAAGGAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTTATTAAAA
Found at i:3601383 original size:22 final size:22
Alignment explanation
Indices: 3601355--3601401 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
3601345 TGCATACATT
*
3601355 TTATTTTTTATTAAAATTTTTA
1 TTATTTTTTATTAAAATTTTCA
*
3601377 TTATTTTTTATTAATATTTTCA
1 TTATTTTTTATTAAAATTTTCA
3601399 TTA
1 TTA
3601402 AAAAAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATTTTTTATTAAAATTTTCA
Found at i:3602793 original size:10 final size:10
Alignment explanation
Indices: 3602774--3602806 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3602764 TATCAACCTC
3602774 TTTTTT-TAT
1 TTTTTTATAT
3602783 TTTTTTATAT
1 TTTTTTATAT
3602793 TTTTTTGATAT
1 TTTTTT-ATAT
3602804 TTT
1 TTT
3602807 GTATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.27
10 9 0.41
11 7 0.32
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:3602813 original size:15 final size:15
Alignment explanation
Indices: 3602795--3602836 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3602785 TTTTATATTT
3602795 TTTTGATATTTTGTA
1 TTTTGATATTTTGTA
3602810 TTTT-ATATTTTGGTA
1 TTTTGATATTTT-GTA
*
3602825 TTCTG-TATTTTG
1 TTTTGATATTTTG
3602837 GTTTAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.17, C:0.02, G:0.14, T:0.67
Consensus pattern (15 bp):
TTTTGATATTTTGTA
Found at i:3602837 original size:15 final size:15
Alignment explanation
Indices: 3602800--3602838 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3602790 TATTTTTTTG
*
3602800 ATATTTT-GTATTTT
1 ATATTTTGGTATTCT
3602814 ATATTTTGGTATTCT
1 ATATTTTGGTATTCT
*
3602829 GTATTTTGGT
1 ATATTTTGGT
3602839 TTAATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.64
Consensus pattern (15 bp):
ATATTTTGGTATTCT
Found at i:3603294 original size:48 final size:49
Alignment explanation
Indices: 3603214--3603740 Score: 359
Period size: 48 Copynumber: 10.9 Consensus size: 49
3603204 ATTTAAAATC
* *
3603214 TGAAAGAAGCTCCTCTCAGCAAAGGTTCAACAACTTT-AGAATTTTATCT
1 TGAAA-AAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTTATCT
* * * * *
3603263 TGAAAAAGATCCTCTAAGCAGAGGCTTAACAACTTTAAAAA-TTCATCT
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTTATCT
* * * * ** *
3603311 T-CAAAAGTTTCTTTCAATAGAGGCTCAACAACTTTAAAAATTCTTATCT
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATT-TTATCT
* * * *
3603360 TGAAAAAGCTCATCTCAGCAAAGGCTCGATAACTTTAAAAATTTTATAT
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTTATCT
* * * * * *
3603409 AGAAAAAGCTCCTCTCAGCAAAGGCTCAGCAATTTTAAAAATCTCAT-A
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTTATCT
* * *
3603457 TGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTT-AAAATTTTGT-T
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTTATCT
* * * * * *
3603504 TCAAAAAGGTTCATCTC-G-ATAGAGGCTCAAAAACTTTAAAAATCTCATCT
1 TGAAAAA-GCTCCTCTCAGCA-A-AGGCTCAACAACTTTAAAAATTTTATCT
* * * * *
3603554 AG-AAAAGCTCATTTCAG-AGAGGCTCAACAACTTT-AAAATTCTTAT-A
1 TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATT-TTATCT
* ** * *
3603600 TGAAAAAAGCTCCTCTTAATAGAAGCGCTCAACAACTTTAAAAATCTTCATAT
1 TG-AAAAAGCTCCTCTCAGCA-AAG-GCTCAACAACTTTAAAAAT-TTTATCT
* * * *
3603653 TAAAAAAGCTCCTCTCAGCAGAA-ACTCAATAACTTTAAAAA----ATAT
1 TGAAAAAGCTCCTCTCAGCA-AAGGCTCAACAACTTTAAAAATTTTATCT
** ** *
3603698 TGAAAAAAATTCCTCTCAATAGAGGCTCAACAACTTTAAAAAT
1 TG-AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAAT
3603741 CTCCTATGTT
Statistics
Matches: 372, Mismatches: 84, Indels: 46
0.74 0.17 0.09
Matches are distributed among these distances:
45 6 0.02
46 37 0.10
47 62 0.17
48 104 0.28
49 72 0.19
50 50 0.13
51 13 0.03
52 26 0.07
53 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (49 bp):
TGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTTATCT
Found at i:3603563 original size:96 final size:97
Alignment explanation
Indices: 3603240--3603743 Score: 452
Period size: 96 Copynumber: 5.2 Consensus size: 97
3603230 CAGCAAAGGT
* * * * * * * *
3603240 TCAACAACTTT-AGAATTTTATCTTGAAAAAGATCCTCTAAGCAGAGGCTTAACAACTTTAAAAA
1 TCAACAACTTTAAAAATCTCATCTAGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
* * *
3603304 TTCATCTTC--AAAAGTTTCTTTCAATAGAGGC
66 TTTAT-TTCAAAAAAGTTCCTCTCAATAGAGGC
* * * * * *
3603335 TCAACAACTTTAAAAATTCTTATCTTGAAAAAGCTCATCTCAGCAAAGGCTCGATAACTTTAAAA
1 TCAACAACTTTAAAAA-TCTCATCTAGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAA
* * ** *
3603400 ATTTTATAT-AGAAAAAGCTCCTCTCAGCAAAGGC
64 ATTTTATTTCA-AAAAAGTTCCTCTCAATAGAGGC
* * * *
3603434 TCAGCAATTTTAAAAATCTCATAT-GAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAT
1 TCAACAACTTTAAAAATCTCATCTAGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
* * * *
3603498 TTTGTTTCAAAAAGGTTCATCTCGATAGAGGC
66 TTTATTTCAAAAAAGTTCCTCTCAATAGAGGC
* * *
3603530 TCAAAAACTTTAAAAATCTCATCTAG-AAAAGCTCATTTCAG-AGAGGCTCAACAACTTTAAAAT
1 TCAACAACTTTAAAAATCTCATCTAGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
* * * *
3603593 TCTTATATGAAAAAAGCTCCTCTTAATAGAAGCGC
66 T-TTATTTCAAAAAAGTTCCTCTCAATAG-AG-GC
* ** *
3603628 TCAACAACTTTAAAAATCTTCATATTA-AAAAAGCTCCTCTCAGCAGAAACTCAATAACTTTAAA
1 TCAACAACTTTAAAAATC-TCAT-CTAGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
** * *
3603692 A-AATA-TTGAAAAAAATTCCTCTCAATAGAGGC
64 ATTTTATTTCAAAAAAGTTCCTCTCAATAGAGGC
3603724 TCAACAACTTTAAAAATCTC
1 TCAACAACTTTAAAAATCTC
3603744 CTATGTTCTC
Statistics
Matches: 331, Mismatches: 63, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
95 36 0.11
96 101 0.31
97 73 0.22
98 52 0.16
99 36 0.11
100 15 0.05
101 18 0.05
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (97 bp):
TCAACAACTTTAAAAATCTCATCTAGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT
TTTATTTCAAAAAAGTTCCTCTCAATAGAGGC
Found at i:3603642 original size:194 final size:193
Alignment explanation
Indices: 3603215--3603743 Score: 563
Period size: 194 Copynumber: 2.7 Consensus size: 193
3603205 TTTAAAATCT
* * * * * *
3603215 GAAAGAAGCTCCTCTCAGCAAAGGTTCAACAACTTT-AGAAT-TTTATCTTGAAAAAGATCCTCT
1 GAAA-AAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATCTTCATATTGAAAAAGCTCCTCT
* * * * *
3603278 AAGCAGAGGCTTAACAACTTTAAAAATTCATCTTC-AAAAGTTTCTTTCAATAGAGGCTCAACAA
65 CAGCAGAGGCTCAACAACTTT-AAAATT--TTTTCAAAAAGATTCTCTCAATAGAGGCTCAACAA
* * * *
3603342 CTTTAAAAATTCTTATCTTGAAAAAGCTCATCTCAGCAAAGGCTCGATAACTTTAAAAATTTTAT
127 CTTTAAAAA-TCTCATCTAGAAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAATTTTAT
3603407 ATA
191 ATA
* * *
3603410 GAAAAAGCTCCTCTCAGCAAAGGCTCAGCAATTTTAAAAATC-TCATA-TGAAAAAGCTCCTCTC
1 GAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATCTTCATATTGAAAAAGCTCCTCTC
* * * *
3603473 AGTAGAGGCTCAACAACTTTAAAATTTTGTTTCAAAAAGGTTCATCTCGATAGAGGCTCAAAAAC
66 AGCAGAGGCTCAACAACTTTAAAA-TTT-TTTCAAAAAGATTC-TCTCAATAGAGGCTCAACAAC
* *
3603538 TTTAAAAATCTCATCTAG-AAAAGCTCATTTCAG-AGAGGCTCAACAACTTT-AAAATTCTTATA
128 TTTAAAAATCTCATCTAGAAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAATT-TTATA
3603600 T-
192 TA
* * *
3603601 GAAAAAAGCTCCTCTTAATAGAAGCGCTCAACAACTTTAAAAATCTTCATATTAAAAAAGCTCCT
1 G-AAAAAGCTCCTCTCAACA-AAG-GCTCAACAACTTTAAAAATCTTCATATTGAAAAAGCTCCT
** * ** * * *
3603666 CTCAGCAGAAACTCAATAACTTTAAAAAATATTGAAAAAAATTCCTCTCAATAGAGGCTCAACAA
63 CTCAGCAGAGGCTCAACAACTTTAAAATTTTTTCAAAAAGATT-CTCTCAATAGAGGCTCAACAA
3603731 CTTTAAAAATCTC
127 CTTTAAAAATCTC
3603744 CTATGTTCTC
Statistics
Matches: 282, Mismatches: 39, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
191 7 0.02
192 36 0.13
193 24 0.09
194 136 0.48
195 44 0.16
196 35 0.12
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (193 bp):
GAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATCTTCATATTGAAAAAGCTCCTCTC
AGCAGAGGCTCAACAACTTTAAAATTTTTTCAAAAAGATTCTCTCAATAGAGGCTCAACAACTTT
AAAAATCTCATCTAGAAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAATTTTATATA
Found at i:3603714 original size:242 final size:242
Alignment explanation
Indices: 3603282--3603738 Score: 572
Period size: 242 Copynumber: 1.9 Consensus size: 242
3603272 TCCTCTAAGC
* * * * *
3603282 AGAGGCTTAACAACTTTAAAAATTCATCTTCAAAAGTTTCTTTCAATAGAGGCTCAACAACTTTA
1 AGAGGCTCAAAAACTTTAAAAATTCATCTACAAAAGTCTCTTTCAAGAGAGGCTCAACAACTTTA
* * * * *
3603347 AAAATTCTTATCTTGAAAAAGCTCATCTCAGCAAAGGCTCGATAACTTTAAAAATTTTATATAGA
66 AAAATTCTTATCATGAAAAAGCTCATCTCAACAAAGGCTCAACAACTTTAAAAATTTCATATAGA
* * * * * *
3603412 AAAAGCTCCTCTCAGCAAAGGCTCAGCAATTTTAAAAATCTCATATGAAAAAGCTCCTCTCAGTA
131 AAAAGCTCCTCTCAGCAAAGACTCAACAACTTTAAAAATATCATATGAAAAAACTCCTCTCAATA
3603477 GAGGCTCAACAACTTTAAAATTTTGTTTCAAAAAGGTTCATCTCGAT
196 GAGGCTCAACAACTTTAAAATTTTGTTTCAAAAAGGTTCATCTCGAT
*
3603524 AGAGGCTCAAAAACTTTAAAAATCTCATCTAGAAAAG-CTCATTTC-AGAGAGGCTCAACAACTT
1 AGAGGCTCAAAAACTTTAAAAAT-TCATCTACAAAAGTCTC-TTTCAAGAGAGGCTCAACAACTT
* * *
3603587 T-AAAATTCTTAT-ATGAAAAAAGCTCCTCTTAATAGAAGCGCTCAACAACTTTAAAAATCTTCA
64 TAAAAATTCTTATCATG-AAAAAGCTCATCTCAACA-AAG-GCTCAACAACTTTAAAAAT-TTCA
* *
3603650 TATTA-AAAAAGCTCCTCTCAGCAGAA-ACTCAATAACTTTAAAAA-AT-AT-TGAAAAAAATTC
125 TA-TAGAAAAAGCTCCTCTCAGCA-AAGACTCAACAACTTTAAAAATATCATATG-AAAAAACTC
3603710 CTCTCAATAGAGGCTCAACAACTTTAAAA
187 CTCTCAATAGAGGCTCAACAACTTTAAAA
3603739 ATCTCCTATG
Statistics
Matches: 184, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
240 2 0.01
241 27 0.15
242 81 0.44
243 33 0.18
244 37 0.20
245 4 0.02
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (242 bp):
AGAGGCTCAAAAACTTTAAAAATTCATCTACAAAAGTCTCTTTCAAGAGAGGCTCAACAACTTTA
AAAATTCTTATCATGAAAAAGCTCATCTCAACAAAGGCTCAACAACTTTAAAAATTTCATATAGA
AAAAGCTCCTCTCAGCAAAGACTCAACAACTTTAAAAATATCATATGAAAAAACTCCTCTCAATA
GAGGCTCAACAACTTTAAAATTTTGTTTCAAAAAGGTTCATCTCGAT
Found at i:3603715 original size:46 final size:45
Alignment explanation
Indices: 3603649--3603739 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 45
3603639 AAAAATCTTC
* * *
3603649 ATATTAAAAAAGCTCCTCTCAGCAGAAACTCAATAACTTTAAAAA
1 ATATTAAAAAAACTCCTCTCAACAGAAACTCAACAACTTTAAAAA
* * **
3603694 ATATTGAAAAAAATTCCTCTCAATAGAGGCTCAACAACTTTAAAAA
1 ATATT-AAAAAAACTCCTCTCAACAGAAACTCAACAACTTTAAAAA
3603740 TCTCCTATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 5 0.13
46 33 0.87
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (45 bp):
ATATTAAAAAAACTCCTCTCAACAGAAACTCAACAACTTTAAAAA
Found at i:3604560 original size:8 final size:8
Alignment explanation
Indices: 3604547--3604581 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
3604537 ATATATGTCA
3604547 TTATTTTT
1 TTATTTTT
3604555 TTA-TTTT
1 TTATTTTT
3604562 TTATTTTT
1 TTATTTTT
3604570 TTGATTTTT
1 TT-ATTTTT
3604579 TTA
1 TTA
3604582 AGTAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.28
8 10 0.40
9 8 0.32
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (8 bp):
TTATTTTT
Found at i:3604567 original size:15 final size:16
Alignment explanation
Indices: 3604547--3604579 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3604537 ATATATGTCA
3604547 TTATTTTTTT-ATTTT
1 TTATTTTTTTGATTTT
3604562 TTATTTTTTTGATTTT
1 TTATTTTTTTGATTTT
3604578 TT
1 TT
3604580 TAAGTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (16 bp):
TTATTTTTTTGATTTT
Found at i:3608104 original size:31 final size:31
Alignment explanation
Indices: 3608050--3608109 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
3608040 TTGGCACACA
*
3608050 AAAATGAAATGGCAAAAAAATGATGGAAAAAG
1 AAAATGAAATAGCAAAAAAATGAT-GAAAAAG
**
3608082 AAAATGAAA-AGCAAAATGATGATGAAAA
1 AAAATGAAATAGCAAAAAAATGATGAAAA
3608110 CAATAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 11 0.44
32 9 0.36
ACGTcount: A:0.63, C:0.03, G:0.20, T:0.13
Consensus pattern (31 bp):
AAAATGAAATAGCAAAAAAATGATGAAAAAG
Found at i:3615755 original size:21 final size:22
Alignment explanation
Indices: 3615707--3615755 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
3615697 TATTAATAAC
*
3615707 AAATTTTAAAATAACAAAAATA
1 AAATTTTAAAAAAACAAAAATA
* *
3615729 ATATTTTAAAAAAATAAAAA-A
1 AAATTTTAAAAAAACAAAAATA
3615750 AAATTT
1 AAATTT
3615756 ACCTGAACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATTTTAAAAAAACAAAAATA
Found at i:3617040 original size:2 final size:2
Alignment explanation
Indices: 3617033--3617064 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3617023 TTTATGGATT
3617033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3617065 GTGTGGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3619120 original size:86 final size:86
Alignment explanation
Indices: 3618968--3619135 Score: 203
Period size: 86 Copynumber: 2.0 Consensus size: 86
3618958 GTTTTTAGCG
* ** **
3618968 AAAAATACCTTCAATAATGCTTTATAAAAAATTTAATAAAGGTTATTCAAGGTGTTTCAGGTAAA
1 AAAAATACCTTCAATAATACTTTATAAAAAATTTAATAAAGGTTATTCAAGGCATTTCAGACAAA
* *
3619033 AAATATCTTCAATAATCCCCT
66 AAACACCTTCAATAATCCCCT
* * * * *
3619054 AAAAATACTTTCAATAATATTTTATAAAAAATTTAATGGAA-GTTATTGAAGGCATTTCTGACAA
1 AAAAATACCTTCAATAATACTTTATAAAAAATTTAAT-AAAGGTTATTCAAGGCATTTCAGACAA
*
3619118 AAAACGCCTTCAATAATC
65 AAAACACCTTCAATAATC
3619136 TTCTCATGAA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
86 66 0.97
87 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (86 bp):
AAAAATACCTTCAATAATACTTTATAAAAAATTTAATAAAGGTTATTCAAGGCATTTCAGACAAA
AAACACCTTCAATAATCCCCT
Found at i:3621679 original size:11 final size:11
Alignment explanation
Indices: 3621663--3621717 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
3621653 CGGTTAGGTA
*
3621663 TTTATTTGTTT
1 TTTATTTATTT
3621674 TTTATTTATTT
1 TTTATTTATTT
**
3621685 TTTAAAT-TTT
1 TTTATTTATTT
*
3621695 TTTATATTATTA
1 TTTAT-TTATTT
3621707 TTT-TTTATTT
1 TTTATTTATTT
3621717 T
1 T
3621718 GAGTTTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
10 13 0.37
11 17 0.49
12 5 0.14
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:3621873 original size:18 final size:18
Alignment explanation
Indices: 3621815--3621876 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
3621805 ATAAAATAGG
*
3621815 ATAATAA-CTAAAAAAAA
1 ATAATAATCTAAAAAATA
*
3621832 ACTAAAAATGCTTAAAATAATA
1 A-TAATAAT-C-TAAAA-AATA
3621854 ATAATAATCTAAAAAATA
1 ATAATAATCTAAAAAATA
3621872 ATAAT
1 ATAAT
3621877 TTAATAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 1 0.03
18 14 0.38
19 5 0.14
20 2 0.05
21 11 0.30
22 4 0.11
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAATAATCTAAAAAATA
Found at i:3622016 original size:3 final size:3
Alignment explanation
Indices: 3622008--3622048 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
3621998 AAAAAGGATA
3622008 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3622049 ATTTTCATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3622383 original size:15 final size:15
Alignment explanation
Indices: 3622327--3622384 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
3622317 AACCCTAATC
*
3622327 CCAAAA-TCTTAAAT
1 CCAAAATTCTAAAAT
* **
3622341 CCTAAACCCTAAAAT
1 CCAAAATTCTAAAAT
3622356 CCAAAACTT-TAAAAT
1 CCAAAA-TTCTAAAAT
3622371 CCAAAATTCTAAAA
1 CCAAAATTCTAAAA
3622385 ACCCCAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 7 0.20
15 28 0.80
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (15 bp):
CCAAAATTCTAAAAT
Found at i:3624750 original size:33 final size:33
Alignment explanation
Indices: 3624698--3624767 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
3624688 AATAAAAAAG
3624698 TAATCAAATTATATACAAATAAT-AAAAAATAAA
1 TAATCAAATTATATACAAATAATGAAAAAAT-AA
* * *
3624731 TAATTAAATTATATTCAAATAATGAAATAATAA
1 TAATCAAATTATATACAAATAATGAAAAAATAA
3624764 TAAT
1 TAAT
3624768 ACAGTGGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (33 bp):
TAATCAAATTATATACAAATAATGAAAAAATAA
Found at i:3634255 original size:101 final size:101
Alignment explanation
Indices: 3634080--3634279 Score: 355
Period size: 101 Copynumber: 2.0 Consensus size: 101
3634070 CTCGTATTTG
* *
3634080 CTCAAGTGAAGTTTATTTTCCAGTGAGGCGACAAATCAAGTTTTTTCATACTAACGTATAAGTTT
1 CTCAAGTGAAGTTTATTTTCCAGTGAGCCGACAAATCAAGTTTTTTCATACTAACGTACAAGTTT
3634145 GGAGAGATGTTGAAAACCCAACAAAATATATATACA
66 GGAGAGATGTTGAAAACCCAACAAAATATATATACA
*
3634181 CTCAAGTGAAGTTTATTTTCCAGTGAGCCGACAAATCAAGTTTTTTTATACTAACGTACAAGTTT
1 CTCAAGTGAAGTTTATTTTCCAGTGAGCCGACAAATCAAGTTTTTTCATACTAACGTACAAGTTT
* *
3634246 GGAGGGATGTTGAAAACCCAACAATATATATATA
66 GGAGAGATGTTGAAAACCCAACAAAATATATATA
3634280 TATATATATA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (101 bp):
CTCAAGTGAAGTTTATTTTCCAGTGAGCCGACAAATCAAGTTTTTTCATACTAACGTACAAGTTT
GGAGAGATGTTGAAAACCCAACAAAATATATATACA
Found at i:3634276 original size:2 final size:2
Alignment explanation
Indices: 3634269--3634294 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3634259 AAACCCAACA
3634269 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3634295 TGGGTAGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3636172 original size:34 final size:31
Alignment explanation
Indices: 3636120--3636199 Score: 79
Period size: 34 Copynumber: 2.5 Consensus size: 31
3636110 TTGAAAATCT
* *
3636120 AATTTTATTAAAAATAAAAAATATTTAATAAATA
1 AATTATATTAAAAAT-AAAAATATATAA-AAA-A
* *
3636154 AATTATATTATAATTAAAAATATATAAAAAA
1 AATTATATTAAAAATAAAAATATATAAAAAA
*
3636185 AATTAAATATAAAAA
1 AATTATAT-TAAAAA
3636200 AAATCAAGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 8 0.21
32 7 0.18
33 11 0.29
34 12 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
AATTATATTAAAAATAAAAATATATAAAAAA
Found at i:3636689 original size:16 final size:16
Alignment explanation
Indices: 3636669--3636715 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
3636659 ATTTATTTAA
*
3636669 ATTTAAATTTATATATT
1 ATTTATATTTATAT-TT
3636686 -TTTATATTTATATTT
1 ATTTATATTTATATTT
3636701 ATTTATATTTATATT
1 ATTTATATTTATATT
3636716 AAAAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 2 0.07
16 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTATATTTATATTT
Found at i:3636694 original size:22 final size:22
Alignment explanation
Indices: 3636662--3636715 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
3636652 TTTAATCATT
*
3636662 TATTTAAATTTAAATTTATATA
1 TATTTATATTTAAATTTATATA
* * *
3636684 TTTTTATATTTATATTTATTTA
1 TATTTATATTTAAATTTATATA
3636706 TATTTATATT
1 TATTTATATT
3636716 AAAAATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTATATTTAAATTTATATA
Found at i:3636695 original size:6 final size:6
Alignment explanation
Indices: 3636662--3636715 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
3636652 TTTAATCATT
* * *
3636662 TATTTA AATTTA AATTTA TA--TA TTTTTA TATTTA TA-TT- TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
3636706 TATTTA TATT
1 TATTTA TATT
3636716 AAAAATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 5 0.12
5 4 0.10
6 31 0.77
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:3641261 original size:15 final size:17
Alignment explanation
Indices: 3641233--3641264 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3641223 AGTAGATTTA
3641233 TAACTACTTATTTTATT
1 TAACTACTTATTTTATT
3641250 TAAC-ACTT-TTTTATT
1 TAACTACTTATTTTATT
3641265 AAAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
TAACTACTTATTTTATT
Found at i:3643537 original size:13 final size:13
Alignment explanation
Indices: 3643521--3643545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3643511 TTTTAAAAAG
3643521 AATTTTAAATTTA
1 AATTTTAAATTTA
3643534 AATTTTAAATTT
1 AATTTTAAATTT
3643546 CAATATTTAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTTAAATTTA
Found at i:3646446 original size:3 final size:3
Alignment explanation
Indices: 3646385--3646434 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
3646375 GCAGTGGTAG
* * *
3646385 CAA CAA CTA CAA CAA CTA CAA CAA CAA CAA CAA CAA CAA CAG CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
3646433 CA
1 CA
3646435 GAAGTAACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.60, C:0.34, G:0.02, T:0.04
Consensus pattern (3 bp):
CAA
Found at i:3648601 original size:16 final size:17
Alignment explanation
Indices: 3648582--3648650 Score: 67
Period size: 16 Copynumber: 4.3 Consensus size: 17
3648572 ATATTTTTTA
3648582 ATATAAATATA-AAATT
1 ATATAAATATATAAATT
3648598 ATATAAATATATAAA-T
1 ATATAAATATATAAATT
*
3648614 ATA-AAATTATATAAATA
1 ATATAAA-TATATAAATT
* *
3648631 AT-TAAA-AAATAATTT
1 ATATAAATATATAAATT
3648646 ATATA
1 ATATA
3648651 TATTAAGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
15 11 0.25
16 25 0.57
17 8 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATAAATATATAAATT
Found at i:3648608 original size:8 final size:8
Alignment explanation
Indices: 3648582--3648630 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
3648572 ATATTTTTTA
3648582 ATATAAAT
1 ATATAAAT
3648590 ATA-AAATT
1 ATATAAA-T
3648598 ATATAAAT
1 ATATAAAT
3648606 ATATAAAT
1 ATATAAAT
3648614 ATA-AAATT
1 ATATAAA-T
3648622 ATATAAAT
1 ATATAAAT
3648630 A
1 A
3648631 ATTAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
7 6 0.16
8 25 0.68
9 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAAAT
Found at i:3648636 original size:24 final size:25
Alignment explanation
Indices: 3648580--3648636 Score: 100
Period size: 24 Copynumber: 2.4 Consensus size: 25
3648570 ATATATTTTT
3648580 TAATATAAATATAAAATTATATAAA
1 TAATATAAATATAAAATTATATAAA
3648605 T-ATATAAATATAAAATTATATAAA
1 TAATATAAATATAAAATTATATAAA
3648629 TAAT-TAAA
1 TAATATAAA
3648637 AAATAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TAATATAAATATAAAATTATATAAA
Found at i:3649088 original size:28 final size:30
Alignment explanation
Indices: 3649049--3649107 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
3649039 TAAAAATTTC
3649049 ATTATAATTAATC-AATCAAA-ATTATATG
1 ATTATAATTAATCTAATCAAATATTATATG
* *
3649077 ATTAT-ATATAATCTATTTAAATATTATATG
1 ATTATAAT-TAATCTAATCAAATATTATATG
3649107 A
1 A
3649108 AATACATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 2 0.08
28 10 0.38
29 5 0.19
30 9 0.35
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (30 bp):
ATTATAATTAATCTAATCAAATATTATATG
Found at i:3649164 original size:21 final size:21
Alignment explanation
Indices: 3649138--3649185 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3649128 GGATTTTTAT
3649138 ATAATTAT-TAATTATAATTAA
1 ATAATTATATAATTATAA-TAA
*
3649159 ATAATTATATGATTATAATAA
1 ATAATTATATAATTATAATAA
*
3649180 AAAATT
1 ATAATT
3649186 GCAAGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAATTATATAATTATAATAA
Found at i:3649490 original size:13 final size:13
Alignment explanation
Indices: 3649472--3649496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3649462 TTAAGTAAAG
3649472 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
3649485 AAAAAAAGAAAA
1 AAAAAAAGAAAA
3649497 TTGACATATT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:3651809 original size:15 final size:14
Alignment explanation
Indices: 3651777--3651830 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
3651767 TATTTATTAA
3651777 TATTTT-TTATAA-
1 TATTTTATTATAAG
3651789 TAATTTTACTTATAAG
1 T-ATTTTA-TTATAAG
*
3651805 TATTTTTATTTTAAG
1 TA-TTTTATTATAAG
3651820 TATTTT-TTATA
1 TATTTTATTATA
3651831 TTAACATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 1 0.03
13 9 0.26
14 4 0.11
15 15 0.43
16 6 0.17
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (14 bp):
TATTTTATTATAAG
Found at i:3651826 original size:16 final size:15
Alignment explanation
Indices: 3651801--3651834 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3651791 ATTTTACTTA
*
3651801 TAAGTATTTTTATTT
1 TAAGTATTTTTATAT
3651816 TAAGTATTTTTTATAT
1 TAAGTA-TTTTTATAT
3651832 TAA
1 TAA
3651835 CATAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TAAGTATTTTTATAT
Found at i:3651922 original size:26 final size:25
Alignment explanation
Indices: 3651887--3651943 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 25
3651877 TTTTTTAATA
3651887 TTAATAATAAATAATTTTAATATATT
1 TTAATAATAAATAATTTTAA-ATATT
*
3651913 TTAATAATAAATAATTTTTAATATT
1 TTAATAATAAATAATTTTAAATATT
3651938 TTAATA
1 TTAATA
3651944 GTTATATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAATAATAAATAATTTTAAATATT
Found at i:3655614 original size:6 final size:6
Alignment explanation
Indices: 3655597--3655627 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
3655587 TTTGTATGCA
3655597 AAGCTGG AAGCTG AAGCTG AAGCTG AAGCTG
1 AAGCT-G AAGCTG AAGCTG AAGCTG AAGCTG
3655628 TAGCAGTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (6 bp):
AAGCTG
Found at i:3666025 original size:2 final size:2
Alignment explanation
Indices: 3666018--3666052 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3666008 AATAAAGATG
3666018 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
3666053 CTTAAAATCT
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:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3667141 original size:29 final size:30
Alignment explanation
Indices: 3667079--3667151 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
3667069 TGATAGGAAC
* *
3667079 TTAATAATACT-TTTCTAATTTTTTGGCCAG
1 TTAATAATACTCTTCCT-ATTTTTTGGCCAA
3667109 TTAATAATACTCTTCCT-TTTTTTGGCCAA
1 TTAATAATACTCTTCCTATTTTTTGGCCAA
3667138 TTAATAATACTCTT
1 TTAATAATACTCTT
3667152 ATTTTGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 25 0.62
30 11 0.28
31 4 0.10
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.49
Consensus pattern (30 bp):
TTAATAATACTCTTCCTATTTTTTGGCCAA
Found at i:3685391 original size:50 final size:50
Alignment explanation
Indices: 3685316--3685412 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
3685306 CTAGAAGTTG
*
3685316 AGCTCCTTGCGAAGTAACATTCTTGCTTATCTCCCTAATTTATATGTATT
1 AGCTCCTTGCGAAGTAACATTCTTGCTTATCTCCCTAAGTTATATGTATT
* * * *
3685366 AGCTCCTTGTGAGGTAGCGTTCTTGCTTATCTCCCTAAGTTATATGT
1 AGCTCCTTGCGAAGTAACATTCTTGCTTATCTCCCTAAGTTATATGT
3685413 GTCTTCTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (50 bp):
AGCTCCTTGCGAAGTAACATTCTTGCTTATCTCCCTAAGTTATATGTATT
Found at i:3686512 original size:119 final size:119
Alignment explanation
Indices: 3686301--3686535 Score: 461
Period size: 119 Copynumber: 2.0 Consensus size: 119
3686291 GCAAAAATCT
3686301 CGCTTCTAGTTTGGTTGGTTGTTTCAGATATTAGGAAACAAGAACAATAACACAAGTTTATTTTG
1 CGCTTCTAGTTTGGTTGGTTGTTTCAGATATTAGGAAACAAGAACAATAACACAAGTTTATTTTG
*
3686366 CTAATGTCTTCTTCATTGTGTAATTTAAGTTTATGCATTCAACACAACCTATCC
66 CTAATGTCTTCTTCATTGTGTAATTTAAGTTTATGCACTCAACACAACCTATCC
3686420 CGCTTCTAGTTTGGTTGGTTGTTTCAGATATTAGGAAACAAGAACAATAACACAAGTTTATTTTG
1 CGCTTCTAGTTTGGTTGGTTGTTTCAGATATTAGGAAACAAGAACAATAACACAAGTTTATTTTG
3686485 CTAATGTCTTCTTCATTGTGTAATTTAAGTTTATGCACTCAACACAACCTA
66 CTAATGTCTTCTTCATTGTGTAATTTAAGTTTATGCACTCAACACAACCTA
3686536 CTGGGTCTTA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 115 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (119 bp):
CGCTTCTAGTTTGGTTGGTTGTTTCAGATATTAGGAAACAAGAACAATAACACAAGTTTATTTTG
CTAATGTCTTCTTCATTGTGTAATTTAAGTTTATGCACTCAACACAACCTATCC
Found at i:3695012 original size:27 final size:28
Alignment explanation
Indices: 3694957--3695013 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
3694947 CATTTAATTA
* * **
3694957 AAATCATATTTTATATTTTAGTAGTTAT
1 AAATAATATTTTATATTTTAATAAATAT
3694985 AAATAATA-TTTATATTTTAATAAATAT
1 AAATAATATTTTATATTTTAATAAATAT
3695012 AA
1 AA
3695014 CAAATAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (28 bp):
AAATAATATTTTATATTTTAATAAATAT
Found at i:3695241 original size:21 final size:19
Alignment explanation
Indices: 3695215--3695253 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
3695205 ATGTAGATTT
3695215 TTTTATTAATTGTATTTTTTC
1 TTTTATTAA-T-TATTTTTTC
3695236 TTTTATTAATTATTTTTT
1 TTTTATTAATTATTTTTT
3695254 ATTATGATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTATTAATTATTTTTTC
Found at i:3695983 original size:29 final size:31
Alignment explanation
Indices: 3695941--3696031 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 31
3695931 ATATTTTATA
*
3695941 TTTTTATATCAATA-AAT-TATAAT-TCATAAT
1 TTTTTATATAAATATAATATA-AATAT-ATAAT
3695971 TTTTTATA-AAATATAATATAAATATATAAT
1 TTTTTATATAAATATAATATAAATATATAAT
* ** *
3696001 TTTTAATATTTTATATATTATAAATATATAA
1 TTTTTATA-TAAATATAATATAAATATATAA
3696032 ATAATCAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
29 4 0.08
30 26 0.51
31 3 0.06
32 18 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTTTATATAAATATAATATAAATATATAAT
Found at i:3696000 original size:30 final size:31
Alignment explanation
Indices: 3695966--3696031 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
3695956 ATTATAATTC
3695966 ATAATTTTT-TATAAAATATAATATAAATAT
1 ATAATTTTTATATAAAATATAATATAAATAT
*** *
3695996 ATAATTTTTAATATTTTATATATTATAAATAT
1 ATAATTTTT-ATATAAAATATAATATAAATAT
3696028 ATAA
1 ATAA
3696032 ATAATCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 9 0.30
32 21 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
ATAATTTTTATATAAAATATAATATAAATAT
Found at i:3700394 original size:2 final size:2
Alignment explanation
Indices: 3700387--3700419 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3700377 GACATATTTC
3700387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3700420 CATCTTACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3700538 original size:18 final size:18
Alignment explanation
Indices: 3700502--3700541 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3700492 GAAATGTGAT
***
3700502 GGCTATGGCCACTGGTGA
1 GGCTATGGCCACAACTGA
3700520 GGCTATGGCCACAACTGA
1 GGCTATGGCCACAACTGA
3700538 GGCT
1 GGCT
3700542 CCAGTGGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (18 bp):
GGCTATGGCCACAACTGA
Found at i:3716599 original size:18 final size:19
Alignment explanation
Indices: 3716576--3716614 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3716566 AATCACGATC
*
3716576 GTGAATTGCAATG-TAACA
1 GTGAATAGCAATGATAACA
*
3716594 GTGAATAGCGATGATAACA
1 GTGAATAGCAATGATAACA
3716613 GT
1 GT
3716615 CGTTATTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (19 bp):
GTGAATAGCAATGATAACA
Found at i:3719001 original size:25 final size:25
Alignment explanation
Indices: 3718973--3719037 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
3718963 TCAAATATTT
* *
3718973 GAGATGTGGGAAGAGTTGATAGTTC
1 GAGATATGGGAAGAGTTGACAGTTC
* *
3718998 GAGACATGAGAAGAGTTGACAGTTC
1 GAGATATGGGAAGAGTTGACAGTTC
3719023 GAGATATGGGAAGAG
1 GAGATATGGGAAGAG
3719038 CTTGGTTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.34, C:0.06, G:0.38, T:0.22
Consensus pattern (25 bp):
GAGATATGGGAAGAGTTGACAGTTC
Found at i:3719288 original size:11 final size:11
Alignment explanation
Indices: 3719270--3719309 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
3719260 AATCCTATAA
3719270 GAGATTTGTTT
1 GAGATTTGTTT
* *
3719281 GGGATTTGTTA
1 GAGATTTGTTT
3719292 GAGATTTGTTT
1 GAGATTTGTTT
3719303 GAGATTT
1 GAGATTT
3719310 ATCAGATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:3719427 original size:52 final size:52
Alignment explanation
Indices: 3719349--3719492 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 52
3719339 TTACAAAAAG
* * *
3719349 AGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTTGACTTGCAATAGA
1 AGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTTGACTTACAAGAGA
* *
3719401 AGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAGGAGA
1 AGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAGA
* *
3719453 AGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 AGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTG
3719493 TATGGTTATA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 78 0.94
53 5 0.06
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.27
Consensus pattern (52 bp):
AGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAGA
Found at i:3720277 original size:33 final size:33
Alignment explanation
Indices: 3720240--3720302 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
3720230 TAAGAACTTT
*
3720240 TTTTCTCTTTCGAGTTTATGCTTAGATTTTTCC
1 TTTTCTCTTTCGAGCTTATGCTTAGATTTTTCC
*
3720273 TTTTCTCTTTTGAGCTTATGCTTAGATTTT
1 TTTTCTCTTTCGAGCTTATGCTTAGATTTT
3720303 CATTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.59
Consensus pattern (33 bp):
TTTTCTCTTTCGAGCTTATGCTTAGATTTTTCC
Found at i:3721892 original size:21 final size:23
Alignment explanation
Indices: 3721866--3721909 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
3721856 CTTATAGGCG
*
3721866 TAGCATTCAAAT-GC-CATTTTT
1 TAGCATCCAAATGGCTCATTTTT
3721887 TAGCATCCAAATGGCTCATTTTT
1 TAGCATCCAAATGGCTCATTTTT
3721910 AGGCATAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (23 bp):
TAGCATCCAAATGGCTCATTTTT
Found at i:3726400 original size:111 final size:112
Alignment explanation
Indices: 3726206--3726433 Score: 431
Period size: 111 Copynumber: 2.0 Consensus size: 112
3726196 CTCAGCTATG
3726206 TTTAAATTGATGTTGTTTATACACAGTTGAGTAGACCGAGACAAGAAAATTAATTGCTTTTTATT
1 TTTAAATTGATGTTGTTTATACACAGTTGAGTAGACCGAGACAAGAAAATTAATTGCTTTTTATT
3726271 TTCTTGTCAACCAAACAGAAGGTAA-TTTTTTTTTAATTTTAGTTAT
66 TTCTTGTCAACCAAACAGAAGGTAATTTTTTTTTTAATTTTAGTTAT
3726317 TTTAAATTGATGTTGTTTATACACAGTTGAGTAGACCGAGACAAGAAAATTAATTGCTTTTTATT
1 TTTAAATTGATGTTGTTTATACACAGTTGAGTAGACCGAGACAAGAAAATTAATTGCTTTTTATT
3726382 TTCTTGTCAACCAAACAGAAGGTAATTTTTTTTTTTTAATTTTAGTTAT
66 TTCTTGTCAACCAAACAGAAGGTAA--TTTTTTTTTTAATTTTAGTTAT
3726431 TTT
1 TTT
3726434 GGCTGTTAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
111 90 0.79
114 24 0.21
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (112 bp):
TTTAAATTGATGTTGTTTATACACAGTTGAGTAGACCGAGACAAGAAAATTAATTGCTTTTTATT
TTCTTGTCAACCAAACAGAAGGTAATTTTTTTTTTAATTTTAGTTAT
Found at i:3730187 original size:28 final size:29
Alignment explanation
Indices: 3730155--3730210 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
3730145 CACCTAGTAA
3730155 AAAAT-GGGGCTGGTTTAGCCAAGCAGTT
1 AAAATGGGGGCTGGTTTAGCCAAGCAGTT
3730183 AAAATGGGGGCTGGTTTAGCCAAGCAGT
1 AAAATGGGGGCTGGTTTAGCCAAGCAGT
3730211 CAGTTTGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (29 bp):
AAAATGGGGGCTGGTTTAGCCAAGCAGTT
Found at i:3735560 original size:40 final size:40
Alignment explanation
Indices: 3735516--3735595 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
3735506 GGCTATATGT
3735516 TGCAACTAATCATTAAACTGAAAAAGCCAAAGTGCTTAAA
1 TGCAACTAATCATTAAACTGAAAAAGCCAAAGTGCTTAAA
*
3735556 TGCAACTAATCATTAAACTGCAAAAGCCAAAGTGCTTAAA
1 TGCAACTAATCATTAAACTGAAAAAGCCAAAGTGCTTAAA
3735596 AGTTTATCAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (40 bp):
TGCAACTAATCATTAAACTGAAAAAGCCAAAGTGCTTAAA
Found at i:3740448 original size:30 final size:30
Alignment explanation
Indices: 3740412--3740501 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
3740402 TTATTTGAAG
**
3740412 GATTTATTTAAATATAAATTAAATGTTAAA
1 GATTTATTTAAATATAAATTAAAAATTAAA
*
3740442 -ATTTTATTTAAAGATAAATTAAAAATTAAA
1 GA-TTTATTTAAATATAAATTAAAAATTAAA
* * *
3740472 GACTTATTTAAATACAAATTAAAAAATAAA
1 GATTTATTTAAATATAAATTAAAAATTAAA
3740502 AATATAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
29 1 0.02
30 49 0.96
31 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (30 bp):
GATTTATTTAAATATAAATTAAAAATTAAA
Found at i:3741151 original size:28 final size:28
Alignment explanation
Indices: 3741119--3741173 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3741109 TATAATCATA
* *
3741119 ATTAAATATTACATACAAATAAA-AAATT
1 ATTAAATAAT-CAAACAAATAAACAAATT
3741147 ATTAAATAATCAAACAAATAAACAAAT
1 ATTAAATAATCAAACAAATAAACAAAT
3741174 AAATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (28 bp):
ATTAAATAATCAAACAAATAAACAAATT
Found at i:3741192 original size:36 final size:37
Alignment explanation
Indices: 3741133--3741216 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 37
3741123 AATATTACAT
*
3741133 ACAAATAAA-AAATTATTAAATAATCAAACAAATA-A
1 ACAAATAAATAAATTATCAAATAATCAAACAAATATA
* *
3741168 ACAAATAAATAAATTA-CAATATAATTAAATAAATATA
1 ACAAATAAATAAATTATCAA-ATAATCAAACAAATATA
*
3741205 ACATA-AAATAAA
1 ACAAATAAATAAA
3741217 ACAAAATTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 11 0.26
36 26 0.62
37 5 0.12
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (37 bp):
ACAAATAAATAAATTATCAAATAATCAAACAAATATA
Found at i:3749425 original size:3 final size:3
Alignment explanation
Indices: 3749417--3749446 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3749407 GTAGTTCTGA
3749417 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3749447 GCTTGTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3751597 original size:2 final size:2
Alignment explanation
Indices: 3751586--3751622 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3751576 TTTAAAGTAA
*
3751586 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3751623 ACCTGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3755130 original size:50 final size:50
Alignment explanation
Indices: 3755050--3755149 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
3755040 TCCCAAAAAA
*
3755050 GTTAATTTCCGAATAATGCCTTATGGAAAGATATTGAACATGTTTGTTTT
1 GTTAATTTCCGAATAATGCCTTATGAAAAGATATTGAACATGTTTGTTTT
* *
3755100 GTTAATTTCTGAATAATGCCTTATGAAAAGATATTGAACATGTTTTTTTT
1 GTTAATTTCCGAATAATGCCTTATGAAAAGATATTGAACATGTTTGTTTT
3755150 CTCCCCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (50 bp):
GTTAATTTCCGAATAATGCCTTATGAAAAGATATTGAACATGTTTGTTTT
Found at i:3761604 original size:2 final size:2
Alignment explanation
Indices: 3761597--3761623 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3761587 CGTCTAACTT
3761597 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3761624 TCTATATCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3762670 original size:15 final size:15
Alignment explanation
Indices: 3762630--3762671 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
3762620 TTCATTGATT
3762630 TATGTAATTTTAAAAA
1 TATG-AATTTTAAAAA
3762646 -AT-AATGTTTAAAAA
1 TATGAAT-TTTAAAAA
3762660 TATGAATTTTAA
1 TATGAATTTTAA
3762672 TTTTAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.13
14 8 0.35
15 9 0.39
16 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
TATGAATTTTAAAAA
Found at i:3763482 original size:16 final size:18
Alignment explanation
Indices: 3763463--3763499 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3763453 AACTATCATT
3763463 TTTAAATT-TT-ATATAA
1 TTTAAATTATTAATATAA
3763479 TTTAAATTATTAATATAA
1 TTTAAATTATTAATATAA
3763497 TTT
1 TTT
3763500 TTAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAAATTATTAATATAA
Found at i:3766438 original size:3 final size:3
Alignment explanation
Indices: 3766430--3766476 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
3766420 TCCTTCACAA
* * * *
3766430 AAT AAT AAT AAT AAT AAT TAT TAT TAT TAT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3766477 CAGAATAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:3772486 original size:54 final size:55
Alignment explanation
Indices: 3772421--3772532 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 55
3772411 TCCTAAGAAC
* * *
3772421 AAATTGTAATAGCAA-AAATATATATTTTGGAAAAAAAGTTATAAA-TAAAAAAAT
1 AAATTGCAATAGCAATAAA-ATATATCTTGGAAAAAAAGTTACAAACTAAAAAAAT
* * * * *
3772475 AAATTGCAATAGTAATAGAATATCTCTTGGAAAAAAAGTTGCAAACTAAAAAACT
1 AAATTGCAATAGCAATAAAATATATCTTGGAAAAAAAGTTACAAACTAAAAAAAT
3772530 AAA
1 AAA
3772533 AAACTGATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
54 35 0.73
55 13 0.27
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.27
Consensus pattern (55 bp):
AAATTGCAATAGCAATAAAATATATCTTGGAAAAAAAGTTACAAACTAAAAAAAT
Found at i:3773064 original size:26 final size:25
Alignment explanation
Indices: 3773035--3773083 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
3773025 ATTTTCAATT
* * *
3773035 ATAATTTTAATATTTTTTATATTTGA
1 ATAAATTTAAAATTATTTA-ATTTGA
3773061 ATAAATTTAAAATTATTTAATTT
1 ATAAATTTAAAATTATTTAATTT
3773084 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
ATAAATTTAAAATTATTTAATTTGA
Found at i:3775620 original size:28 final size:30
Alignment explanation
Indices: 3775562--3775647 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 30
3775552 TATTCGAATA
*
3775562 AAATATATAAATATATAAAATTTT-ATTTTT
1 AAATAT-TAAATATATAAAATTTTAAATTTT
* *
3775592 TAAT-TTAAATATTTAAAATTTTAAATTTT
1 AAATATTAAATATATAAAATTTTAAATTTT
*
3775621 AAATATTAAATTAAATAAAA-TTTAAAT
1 AAATATTAAA-TATATAAAATTTTAAAT
3775648 AAATATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 16 0.34
29 9 0.19
30 15 0.32
31 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AAATATTAAATATATAAAATTTTAAATTTT
Found at i:3775624 original size:14 final size:15
Alignment explanation
Indices: 3775595--3775632 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
3775585 TATTTTTTAA
3775595 TTTAAATATTTAAAAT
1 TTTAAAT-TTTAAAAT
3775611 TTTAAATTTT-AAAT
1 TTTAAATTTTAAAAT
*
3775625 ATTAAATT
1 TTTAAATT
3775633 AAATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 3 0.14
16 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAATTTTAAAAT
Found at i:3775645 original size:30 final size:29
Alignment explanation
Indices: 3775562--3775647 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
3775552 TATTCGAATA
* *
3775562 AAATATATAAATATATAAAATTTTATTTTT
1 AAATAT-TAAATATATAAAATTTAAATTTT
* *
3775592 TAAT-TTAAATATTTAAAATTTTAAATTTT
1 AAATATTAAATATATAAAA-TTTAAATTTT
*
3775621 AAATATTAAATTAAATAAAATTTAAAT
1 AAATATTAAA-TATATAAAATTTAAAT
3775648 AAATATATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 12 0.26
29 12 0.26
30 15 0.33
31 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATATTAAATATATAAAATTTAAATTTT
Found at i:3775652 original size:15 final size:17
Alignment explanation
Indices: 3775621--3775652 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3775611 TTTAAATTTT
3775621 AAATATTAAATTAAATA
1 AAATATTAAATTAAATA
3775638 AAAT-TTAAA-TAAATA
1 AAATATTAAATTAAATA
3775653 TATAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATTAAATTAAATA
Found at i:3775738 original size:186 final size:186
Alignment explanation
Indices: 3775515--3775886 Score: 744
Period size: 186 Copynumber: 2.0 Consensus size: 186
3775505 ATTTTAAGTT
3775515 AAAATTTAAATAAAAAATTAAAATTTGAGCTCAATTTTATTCGAATAAAATATATAAATATATAA
1 AAAATTTAAATAAAAAATTAAAATTTGAGCTCAATTTTATTCGAATAAAATATATAAATATATAA
3775580 AATTTTATTTTTTAATTTAAATATTTAAAATTTTAAATTTTAAATATTAAATTAAATAAAATTTA
66 AATTTTATTTTTTAATTTAAATATTTAAAATTTTAAATTTTAAATATTAAATTAAATAAAATTTA
3775645 AATAAATATATAAATTATTAATACTAGATCTCGCCGGCTATGACACCTCTGCCGTC
131 AATAAATATATAAATTATTAATACTAGATCTCGCCGGCTATGACACCTCTGCCGTC
3775701 AAAATTTAAATAAAAAATTAAAATTTGAGCTCAATTTTATTCGAATAAAATATATAAATATATAA
1 AAAATTTAAATAAAAAATTAAAATTTGAGCTCAATTTTATTCGAATAAAATATATAAATATATAA
3775766 AATTTTATTTTTTAATTTAAATATTTAAAATTTTAAATTTTAAATATTAAATTAAATAAAATTTA
66 AATTTTATTTTTTAATTTAAATATTTAAAATTTTAAATTTTAAATATTAAATTAAATAAAATTTA
3775831 AATAAATATATAAATTATTAATACTAGATCTCGCCGGCTATGACACCTCTGCCGTC
131 AATAAATATATAAATTATTAATACTAGATCTCGCCGGCTATGACACCTCTGCCGTC
3775887 CATATATAAA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 186 1.00
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (186 bp):
AAAATTTAAATAAAAAATTAAAATTTGAGCTCAATTTTATTCGAATAAAATATATAAATATATAA
AATTTTATTTTTTAATTTAAATATTTAAAATTTTAAATTTTAAATATTAAATTAAATAAAATTTA
AATAAATATATAAATTATTAATACTAGATCTCGCCGGCTATGACACCTCTGCCGTC
Found at i:3775806 original size:28 final size:30
Alignment explanation
Indices: 3775748--3775833 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 30
3775738 TATTCGAATA
*
3775748 AAATATATAAATATATAAAATTTT-ATTTTT
1 AAATAT-TAAATATATAAAATTTTAAATTTT
* *
3775778 TAAT-TTAAATATTTAAAATTTTAAATTTT
1 AAATATTAAATATATAAAATTTTAAATTTT
*
3775807 AAATATTAAATTAAATAAAA-TTTAAAT
1 AAATATTAAA-TATATAAAATTTTAAAT
3775834 AAATATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 16 0.34
29 9 0.19
30 15 0.32
31 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AAATATTAAATATATAAAATTTTAAATTTT
Found at i:3775810 original size:14 final size:15
Alignment explanation
Indices: 3775781--3775818 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
3775771 TATTTTTTAA
3775781 TTTAAATATTTAAAAT
1 TTTAAAT-TTTAAAAT
3775797 TTTAAATTTT-AAAT
1 TTTAAATTTTAAAAT
*
3775811 ATTAAATT
1 TTTAAATT
3775819 AAATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 3 0.14
16 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAAATTTTAAAAT
Found at i:3775831 original size:30 final size:29
Alignment explanation
Indices: 3775748--3775833 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
3775738 TATTCGAATA
* *
3775748 AAATATATAAATATATAAAATTTTATTTTT
1 AAATAT-TAAATATATAAAATTTAAATTTT
* *
3775778 TAAT-TTAAATATTTAAAATTTTAAATTTT
1 AAATATTAAATATATAAAA-TTTAAATTTT
*
3775807 AAATATTAAATTAAATAAAATTTAAAT
1 AAATATTAAA-TATATAAAATTTAAAT
3775834 AAATATATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 12 0.26
29 12 0.26
30 15 0.33
31 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATATTAAATATATAAAATTTAAATTTT
Found at i:3775838 original size:15 final size:17
Alignment explanation
Indices: 3775807--3775838 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3775797 TTTAAATTTT
3775807 AAATATTAAATTAAATA
1 AAATATTAAATTAAATA
3775824 AAAT-TTAAA-TAAATA
1 AAATATTAAATTAAATA
3775839 TATAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATTAAATTAAATA
Found at i:3776347 original size:41 final size:41
Alignment explanation
Indices: 3776256--3776340 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
3776246 CATCATTCAC
* * *
3776256 GTACATGTATAATTATTAATTATAAAATGTCTTCAATTCAT
1 GTACATATATAATTATTAATTATAAAATATCTTCAATGCAT
* *
3776297 TTACATATATAATTATTAATTACT-AAATATCTTCAATGGAT
1 GTACATATATAATTATTAATTA-TAAAATATCTTCAATGCAT
3776338 GTA
1 GTA
3776341 TTTATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (41 bp):
GTACATATATAATTATTAATTATAAAATATCTTCAATGCAT
Found at i:3778950 original size:3 final size:3
Alignment explanation
Indices: 3778942--3778967 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3778932 GTCTGGGTCA
3778942 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
3778968 ACATGATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:3786413 original size:3 final size:3
Alignment explanation
Indices: 3786407--3786441 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3786397 TTCATCATAT
3786407 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3786442 TTTCCAAGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3792416 original size:9 final size:9
Alignment explanation
Indices: 3792402--3792430 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
3792392 CAACCCTTCA
3792402 TCCTTTAAC
1 TCCTTTAAC
3792411 TCCTTTAAC
1 TCCTTTAAC
3792420 TCCTTTAAC
1 TCCTTTAAC
3792429 TC
1 TC
3792431 GATTATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (9 bp):
TCCTTTAAC
Found at i:3793108 original size:335 final size:338
Alignment explanation
Indices: 3792441--3793166 Score: 837
Period size: 335 Copynumber: 2.1 Consensus size: 338
3792431 GATTATTTTG
* * * *
3792441 ATTGTTGAAATTCAACCCATTGTTGTTGATTATAGTTATTCAATTGACTTTTTCAAGTCCAAGTG
1 ATTGTTGAAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGACTTTTTCAAGTCCAAGTA
* ** *** * * *
3792506 TGCTTAAAAGGAGGTGCAAGTTGCTTTGTTGAAGTTGTTTGTTTCATTGTTGAAGTTCATATTTA
66 AGCTTAAAACAAGGTGCAAGTTGCTTTGTTGAAGTCACTTGTTCCATAGTTGAAGTTCATATCTA
* *
3792571 ACATCCATGGATCCTGCCAGAATCGTTTTCTGCTTCCACTTTTCAAAACTTAAGTTAGAGTTTTT
131 ACACCCATAGATCCTG-CAGAATC-TTTTCTGCTTCCACTTTTCAAAAC---A-TTAGAGTTTTT
* * *
3792636 TACTAACCATGGGAAAATAATGAAAGATGCAAGTATATTAGTGGAGGGATTATATTATCCTGGAC
190 TACTAACCATGGGAAAATAATGAAAGATGCAAGTATATTAGTGAAGAGATTATATTATCCAGGAC
* *
3792701 TTTATTTTATATTTTACACATGAAATGAGTCATCATTAGAAATCTATCAACCACAACCCTTCATC
255 TTTATTTTATATTTTACACATGAAAGGAGTCATCATTAGAAATCCATCAACCACAACCCTTCATC
*
3792766 TCTTGACTCAATTATTACA
320 CCTTGACTCAATTATTACA
* * * *
3792785 ATTGTTGAAATTCAACTTATTGTTGTTGATTACACTTCTTAAATTGACTTTTTCATGTCCAAGTA
1 ATTGTTGAAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGACTTTTTCAAGTCCAAGTA
3792850 AGCTTAAAAAACAAGGTGCAAGTTGCTTTGTTGAAGTCACTTGTTCCACTAG-TGAAGTTCATAT
66 AGCTT--AAAACAAGGTGCAAGTTGCTTTGTTGAAGTCACTTGTTCCA-TAGTTGAAGTTCATAT
* ** * *
3792914 CTAACACCCATAGATCCTG-A-CAT-TTTT-TTTTTCTATTTTTCAAAAC-TTA-AG-TTTTTAC
128 CTAACACCCATAGATCCTGCAGAATCTTTTCTGCTTCCACTTTTCAAAACATTAGAGTTTTTTAC
* * * * *
3792972 TATCCGA-GGTAGAATAATG-GAGAATGCAAGTATATTAGTTGAATTAGATTATATTATCCAGGA
193 TAACC-ATGGGAAAATAATGAAAG-ATGCAAGTATATTAG-TGAA-GAGATTATATTATCCAGGA
* * *
3793035 CTTTATTTTATATTTTACATAT-AATAGGAGTCAT-TTTAGAAAATCCATCAACTACAACCCTTC
254 CTTTATTTTATATTTTACACATGAA-AGGAGTCATCATTAG-AAATCCATCAACCACAACCCTTC
** *
3793098 ATCCCTTGACTTGATTATTCCA
317 ATCCCTTGACTCAATTATTACA
* * *
3793120 GTTGTTGAGATTCAACCTATCGTTGTTGATTATAGTTCTTAAATTGA
1 ATTGTTGAAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGA
3793167 TACCATCCAT
Statistics
Matches: 326, Mismatches: 47, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
332 2 0.01
333 36 0.11
334 12 0.04
335 128 0.39
340 15 0.05
341 4 0.01
343 2 0.01
344 62 0.19
346 63 0.19
347 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (338 bp):
ATTGTTGAAATTCAACCTATTGTTGTTGATTATAGTTCTTAAATTGACTTTTTCAAGTCCAAGTA
AGCTTAAAACAAGGTGCAAGTTGCTTTGTTGAAGTCACTTGTTCCATAGTTGAAGTTCATATCTA
ACACCCATAGATCCTGCAGAATCTTTTCTGCTTCCACTTTTCAAAACATTAGAGTTTTTTACTAA
CCATGGGAAAATAATGAAAGATGCAAGTATATTAGTGAAGAGATTATATTATCCAGGACTTTATT
TTATATTTTACACATGAAAGGAGTCATCATTAGAAATCCATCAACCACAACCCTTCATCCCTTGA
CTCAATTATTACA
Found at i:3794813 original size:135 final size:135
Alignment explanation
Indices: 3794571--3794835 Score: 521
Period size: 135 Copynumber: 2.0 Consensus size: 135
3794561 ACATGATTGC
*
3794571 GTTCTGAAGCATACAATAACAAAAATAGTTAGAATGATTCTATCAGTCCAAATAATTGATTAGAA
1 GTTCTGAACCATACAATAACAAAAATAGTTAGAATGATTCTATCAGTCCAAATAATTGATTAGAA
3794636 AACTTTGCACATAGCATCTTACTTCAGCAATCCCATCATCTGCAACCTGACTTGGCAAACAACTT
66 AACTTTGCACATAGCATCTTACTTCAGCAATCCCATCATCTGCAACCTGACTTGGCAAACAACTT
3794701 AACAT
131 AACAT
3794706 GTTCTGAACCATACAATAACAAAAATAGTTAGAATGATTCTATCAGTCCAAATAATTGATTAGAA
1 GTTCTGAACCATACAATAACAAAAATAGTTAGAATGATTCTATCAGTCCAAATAATTGATTAGAA
3794771 AACTTTGCACATAGCATCTTACTTCAGCAATCCCATCATCTGCAACCTGACTTGGCAAACAACTT
66 AACTTTGCACATAGCATCTTACTTCAGCAATCCCATCATCTGCAACCTGACTTGGCAAACAACTT
3794836 TCAACACTTG
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 129 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (135 bp):
GTTCTGAACCATACAATAACAAAAATAGTTAGAATGATTCTATCAGTCCAAATAATTGATTAGAA
AACTTTGCACATAGCATCTTACTTCAGCAATCCCATCATCTGCAACCTGACTTGGCAAACAACTT
AACAT
Found at i:3794959 original size:2 final size:2
Alignment explanation
Indices: 3794952--3794988 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3794942 TCAAAATTTC
3794952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3794989 GACGGTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3802738 original size:81 final size:81
Alignment explanation
Indices: 3802603--3802760 Score: 244
Period size: 81 Copynumber: 2.0 Consensus size: 81
3802593 GAGACAGCAC
*
3802603 TACAAGAAGGCACATGCTCATTGTGCATATGAGATTGTGGTGTAAAAAAAACATGATATAACTCA
1 TACAAGAAGGCACATGCTCATTGTGCATATGAGATTGTAGTGTAAAAAAAACATGATATAACTCA
*
3802668 TCATTCTGTTCAGCGT
66 TCAGTCTGTTCAGCGT
* * * ** *
3802684 TACAAGAAGGCAGATGCTCCTTGTGCATCTGAGATTGTAGTGTAGGAGAAACATGATATAACTCA
1 TACAAGAAGGCACATGCTCATTGTGCATATGAGATTGTAGTGTAAAAAAAACATGATATAACTCA
3802749 TCAGTCTGTTCA
66 TCAGTCTGTTCA
3802761 TTGGTGCTAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (81 bp):
TACAAGAAGGCACATGCTCATTGTGCATATGAGATTGTAGTGTAAAAAAAACATGATATAACTCA
TCAGTCTGTTCAGCGT
Found at i:3802766 original size:225 final size:224
Alignment explanation
Indices: 3802458--3802903 Score: 592
Period size: 225 Copynumber: 2.0 Consensus size: 224
3802448 TGAAGAATCA
*
3802458 TTACATGAAGACACATGCTCCTTATGCATATGAGATTGTAGTGTAGAAGAAACAAGATATAACTC
1 TTACAAGAAGACACATGCTCCTTATGCATATGAGATTGTAGTGTAGAAGAAACAAGATATAACTC
* * *
3802523 ATCATTCTGTTCATTGGTGCTAAACTGATTTTGAACCCCATCAAAATCAT-CAACAAGGTTGTAC
66 ATCAGTCTGTTCATTGGTGCTAAACTGATTTTGAACCCCATCAAAATCATGC--CAAGATTATAC
* ** ***
3802587 AAGAATG-AGACAGCACTACAAGAAGGCACATGCTCATTGTGCATATGAGATTGTGGTGTAAAAA
129 AAGAATGTAG-CAACACTACAAGAAGGCACATGCTCATCATGCATATGAGATTGCAATGTAAAAA
3802651 AAAC-ATGATATAACTCATCATTCTGTTCAGCG
193 AAACGA-GATATAACTCATCATTCTGTTCAGCG
* * * * * *
3802683 TTACAAGAAGGCAGATGCTCCTTGTGCATCTGAGATTGTAGTGTAGGAGAAACATGATATAACTC
1 TTACAAGAAGACACATGCTCCTTATGCATATGAGATTGTAGTGTAGAAGAAACAAGATATAACTC
* * **
3802748 ATCAGTCTGTTCATTGGTGCTAGATTGATTTTGAACCCCATCAAAATCATGCTGAGATTATACAA
66 ATCAGTCTGTTCATTGGTGCTAAACTGATTTTGAACCCCATCAAAATCATGCCAAGATTATACAA
* * * * * * *
3802813 GAATGTAGCAACATTACAAGAAGGCACATGTTCCTCATGCATTTGAGATTGCAATGTAGAAGATA
131 GAATGTAGCAACACTACAAGAAGGCACATGCTCATCATGCATATGAGATTGCAATGTAAAAAAAA
3802878 CGAGATATAACTCATCATTCTGTTCA
196 CGAGATATAACTCATCATTCTGTTCA
3802904 TTGGTGCTAG
Statistics
Matches: 191, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
224 82 0.43
225 108 0.57
226 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (224 bp):
TTACAAGAAGACACATGCTCCTTATGCATATGAGATTGTAGTGTAGAAGAAACAAGATATAACTC
ATCAGTCTGTTCATTGGTGCTAAACTGATTTTGAACCCCATCAAAATCATGCCAAGATTATACAA
GAATGTAGCAACACTACAAGAAGGCACATGCTCATCATGCATATGAGATTGCAATGTAAAAAAAA
CGAGATATAACTCATCATTCTGTTCAGCG
Found at i:3804845 original size:13 final size:13
Alignment explanation
Indices: 3804827--3804851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3804817 AGTTTTAAAT
3804827 ATTTTAAAATATA
1 ATTTTAAAATATA
3804840 ATTTTAAAATAT
1 ATTTTAAAATAT
3804852 CTTAAAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTAAAATATA
Found at i:3804871 original size:23 final size:23
Alignment explanation
Indices: 3804823--3804872 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
3804813 AAACAGTTTT
* * *
3804823 AAATATTTTAAAATATAATTTTA
1 AAATATCTTAAAAAATAATTTAA
3804846 AAATATCTTAAAAAAT-ATATTAA
1 AAATATCTTAAAAAATAAT-TTAA
3804869 AAAT
1 AAAT
3804873 TGGAATAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATCTTAAAAAATAATTTAA
Found at i:3806213 original size:31 final size:31
Alignment explanation
Indices: 3806178--3806240 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
3806168 ACATCATTGG
3806178 AGAAATTTTCTCCAACGGTAACTACTGAAGA
1 AGAAATTTTCTCCAACGGTAACTACTGAAGA
*
3806209 AGAAATTTTTTCCAACGGTAACTACTGAAGA
1 AGAAATTTTCTCCAACGGTAACTACTGAAGA
3806240 A
1 A
3806241 TATTTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (31 bp):
AGAAATTTTCTCCAACGGTAACTACTGAAGA
Found at i:3807763 original size:18 final size:19
Alignment explanation
Indices: 3807728--3807768 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
3807718 TTTATAATAA
3807728 AAAAAAAATTTCGAACTATC
1 AAAAAAAATTTC-AACTATC
*
3807748 AAAAAAAATTT-TACTATC
1 AAAAAAAATTTCAACTATC
3807766 AAA
1 AAA
3807769 TAATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAAAATTTCAACTATC
Done.