Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 19 of 106
Found at i:3282238 original size:21 final size:20
Alignment explanation
Indices: 3282214--3282275 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
3282204 TTTTTTCTTT
3282214 TTTTTTAATAATTAATAATTA
1 TTTTTTAATAA-TAATAATTA
* * *
3282235 -TTTTAAAAAAT-ATATTTA
1 TTTTTTAATAATAATAATTA
*
3282253 TTATTATAATAATAATAATTA
1 TT-TTTTAATAATAATAATTA
3282274 TT
1 TT
3282276 ATTAATTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 6 0.19
19 2 0.06
20 15 0.48
21 8 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTTAATAATAATAATTA
Found at i:3282276 original size:21 final size:21
Alignment explanation
Indices: 3282219--3282279 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
3282209 TCTTTTTTTT
3282219 TAATAATTAATAATTATT-TTA
1 TAATAA-TAATAATTATTATTA
* *
3282240 -AAAAAT-ATATTTATTATTA
1 TAATAATAATAATTATTATTA
3282259 TAATAATAATAATTATTATTA
1 TAATAATAATAATTATTATTA
3282280 ATTTTAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.24
19 4 0.12
20 9 0.27
21 12 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATAATAATAATTATTATTA
Found at i:3282525 original size:22 final size:22
Alignment explanation
Indices: 3282491--3282556 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
3282481 AATCGAATTT
3282491 ATGCCC-GAGGTCTT-AGAAATC
1 ATGCCCGGAGGTCTTAAG-AATC
**
3282512 ATGTTCGGAGGTCTTAAGAATC
1 ATGCCCGGAGGTCTTAAGAATC
3282534 ATGCCCGGAGGTCTTACAGAATC
1 ATGCCCGGAGGTCTTA-AGAATC
3282557 GATCAGGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.11
22 26 0.68
23 8 0.21
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (22 bp):
ATGCCCGGAGGTCTTAAGAATC
Found at i:3282665 original size:23 final size:22
Alignment explanation
Indices: 3282621--3282665 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3282611 AATCGAATTT
* *
3282621 ATGCCCGGAGGTCTTAGAAATC
1 ATGCCCCGAGGTCTTACAAATC
3282643 ATGCCCCGAGGTCTTACAGAATC
1 ATGCCCCGAGGTCTTACA-AATC
3282666 GACTTAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (22 bp):
ATGCCCCGAGGTCTTACAAATC
Found at i:3282747 original size:110 final size:109
Alignment explanation
Indices: 3282518--3283074 Score: 544
Period size: 109 Copynumber: 5.1 Consensus size: 109
3282508 AATCATGTTC
* * *
3282518 GGAGGTCTTA-AGAATCATGCCCGGAGGTCTTACAGAATCGA-TCAGGATAACACCGCAAGTCAA
1 GGAGGTCTTAGA-AATCATGCCCAGAGGTCTTACAGAATCGACTTAGGATAACACCGTAAGTCAA
* * * * *
3282581 AAATAATGAATCGATC-AGAACAACATCGCAAATCGAATTTATGCCC
65 AAATAA-GAATCGATCGAG-ATAACACCGTAAATCGAAATTATGCCA
*
3282627 GGAGGTCTTAGAAATCATGCCCCGAGGTCTTACAGAATCGACTTA-GATAACACCGTAAGTTCAA
1 GGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTTAGGATAACACCGTAAG-TCAA
* * *
3282691 AAATCAAGAATCGATCGAGATAATACCGTAAATTGAATTTATGCCA
65 AAAT-AAGAATCGATCGAGATAACACCGTAAATCGAAATTATGCCA
* * * * **
3282737 AGAGGTCTTAGAAA-AATGTCCAGAGGTCTTACAGAATCGAC-TATGATAACATTGTAAGTCAAA
1 GGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTTAGGATAACACCGTAAGTC-AA
* * *
3282800 AAATAAGAAATTGATCGGGATAACACCGTGAATCGAAATTATG-CA
65 AAATAAG-AATCGATCGAGATAACACCGTAAATCGAAATTATGCCA
* * * * *
3282845 CGGAGGTCTTAAAAATCATGTCCGGAGGTCTTACAGAATCGAC-T-GTGATAACATCGTAAGTTA
1 -GGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTTAG-GATAACACCGTAAG-TC
* * * * * * *
3282908 AAAAATAAAAAATTGATCGGGATAACACCATGAACCAAAATTATGCC-
63 AAAAAT-AAGAATCGATCGAGATAACACCGTAAATCGAAATTATGCCA
3282955 GGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGAC-TAGGATAACACCGTAAGTCAAA
1 GGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTTAGGATAACACCGTAAGTC-AA
* * * ** **
3283019 AAATAAGGAATCAATCGGGATAACATCACAAATAAAAATTATGCTC-
65 AAATAA-GAATCGATCGAGATAACACCGTAAATCGAAATTATGC-CA
3283065 GGAGGTCTTA
1 GGAGGTCTTA
3283075 TAGAATCACC
Statistics
Matches: 385, Mismatches: 45, Indels: 35
0.83 0.10 0.08
Matches are distributed among these distances:
108 12 0.03
109 222 0.58
110 143 0.37
111 8 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (109 bp):
GGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTTAGGATAACACCGTAAGTCAAA
AATAAGAATCGATCGAGATAACACCGTAAATCGAAATTATGCCA
Found at i:3282863 original size:219 final size:218
Alignment explanation
Indices: 3282519--3283074 Score: 654
Period size: 219 Copynumber: 2.5 Consensus size: 218
3282509 ATCATGTTCG
* * *
3282519 GAGGTCTTA-AGAATCATGCCCGGAGGTCTTACAGAATCGA-TCAGGATAACACCGCAAGTC-AA
1 GAGGTCTTAGA-AATAATGCCCAGAGGTCTTACAGAATCGACT-AGGATAACACCGTAAGTCAAA
* * * * * * *
3282581 AAATAATGAATCGATCAGAACAACATCGCAAATCGAATTTATGCCCGGAGGTCTTAGAAATCATG
64 AAATAA-GAATCGATCGGGATAACACCGCAAATCGAAATTATGCACGGAGGTCTTAAAAATCATG
* * *
3282646 CCCCGAGGTCTTACAGAATCGACT-TAGATAACACCGTAAGTTCAAAAATCAAGAATCGATCGAG
128 CCCCGAGGTCTTACAGAATCGACTGT-GATAACACCGTAAGTTAAAAAATAAAAAATCGATCGAG
* * *** *
3282710 ATAATACCGTAAATTGAATTTATGCCAA
192 ATAACACCATAAACCAAAATTATGCC-A
* * **
3282738 GAGGTCTTAGAAA-AATGTCCAGAGGTCTTACAGAATCGACTATGATAACATTGTAAGTCAAAAA
1 GAGGTCTTAGAAATAATGCCCAGAGGTCTTACAGAATCGACTAGGATAACACCGTAAGTCAAAAA
* ** *
3282802 ATAAGAAATTGATCGGGATAACACCGTGAATCGAAATTATGCACGGAGGTCTTAAAAATCATGTC
66 ATAAG-AATCGATCGGGATAACACCGCAAATCGAAATTATGCACGGAGGTCTTAAAAATCATGCC
* * * *
3282867 CGGAGGTCTTACAGAATCGACTGTGATAACATCGTAAGTTAAAAAATAAAAAATTGATCGGGATA
130 CCGAGGTCTTACAGAATCGACTGTGATAACACCGTAAGTTAAAAAATAAAAAATCGATCGAGATA
* *
3282932 ACACCATGAACCAAAATTATGCCG
195 ACACCATAAACCAAAATTATGCCA
*
3282956 GAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTAGGATAACACCGTAAGTCAAAAA
1 GAGGTCTTAGAAATAATGCCCAGAGGTCTTACAGAATCGACTAGGATAACACCGTAAGTCAAAAA
* * * ** *
3283021 ATAAGGAATCAATCGGGATAACATCACAAATAAAAATTATGCTCGGAGGTCTTA
66 ATAA-GAATCGATCGGGATAACACCGCAAATCGAAATTATGCACGGAGGTCTTA
3283075 TAGAATCACC
Statistics
Matches: 283, Mismatches: 47, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
218 51 0.18
219 229 0.81
220 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (218 bp):
GAGGTCTTAGAAATAATGCCCAGAGGTCTTACAGAATCGACTAGGATAACACCGTAAGTCAAAAA
ATAAGAATCGATCGGGATAACACCGCAAATCGAAATTATGCACGGAGGTCTTAAAAATCATGCCC
CGAGGTCTTACAGAATCGACTGTGATAACACCGTAAGTTAAAAAATAAAAAATCGATCGAGATAA
CACCATAAACCAAAATTATGCCA
Found at i:3283223 original size:198 final size:197
Alignment explanation
Indices: 3282854--3283272 Score: 488
Period size: 198 Copynumber: 2.1 Consensus size: 197
3282844 ACGGAGGTCT
* * *
3282854 TAAAAATCATG-TCCGGAGGTCTTACAGAATCGACTGTGATAACATCGTAAGTTAAAAAATAAAA
1 TAAAAATTATGCT-CGGAGGTCTTACAGAATCGACTGTGATAACATCGCAAGTCAAAAAATAAAA
* * * * *
3282918 AATTGATCGGGATAACACCATGAACCAAAATTATGCCGGAGGTCTTAGAAATCATGCCCAGAGGT
65 AATTGATCGGGATAACACCACGAACCAAAATTATGCCGAAAGTCTTAAAAATCATGCCCAAAGGT
* * *
3282983 CTTACAGAATCGACTAGGATAACACCGTAAGTCAAAAAATAAGGAATCAATCGGGATAACA-TCA
130 CTTACAGAATCGACTAGGATAACACCGCAAGTCAAAAAATAAGCAATCAATCGAGATAACACT-A
3283047 CAAA
194 CAAA
* **
3283051 TAAAAATTATGCTCGGAGGTCTTATAGAATC-ACCTGTGATAACATCGCAAGTCAAAAAATAAGG
1 TAAAAATTATGCTCGGAGGTCTTACAGAATCGA-CTGTGATAACATCGCAAGTCAAAAAATAAAA
* * * * ***
3283115 AATTG-TTGGAGATAATATCGCGAATTGAAATTATGCCTGAAAGTCTTAAAAATCATGCCCAAAG
65 AATTGATCGG-GATAACACCACGAACCAAAATTATGCC-GAAAGTCTTAAAAATCATGCCCAAAG
* * * *
3283179 GTCTTACAGAATCGA-TTGTGATAACATCGCAAGTCAAAAAATAAGCAATCGATCGAGATAGCAC
128 GTCTTACAGAATCGACTAG-GATAACACCGCAAGTCAAAAAATAAGCAATCAATCGAGATAACAC
*
3283243 TACGAA
192 TACAAA
** *
3283249 TCGAAATTATGCCCGGAGGTCTTA
1 TAAAAATTATGCTCGGAGGTCTTA
3283273 GAAATCATGC
Statistics
Matches: 187, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
196 4 0.02
197 81 0.43
198 101 0.54
199 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (197 bp):
TAAAAATTATGCTCGGAGGTCTTACAGAATCGACTGTGATAACATCGCAAGTCAAAAAATAAAAA
ATTGATCGGGATAACACCACGAACCAAAATTATGCCGAAAGTCTTAAAAATCATGCCCAAAGGTC
TTACAGAATCGACTAGGATAACACCGCAAGTCAAAAAATAAGCAATCAATCGAGATAACACTACA
AA
Found at i:3283249 original size:110 final size:109
Alignment explanation
Indices: 3283051--3283608 Score: 590
Period size: 110 Copynumber: 5.1 Consensus size: 109
3283041 ACATCACAAA
* * *
3283051 TAAAAATTATGCTCGGAGGTCTTATAGAATC-ACCTGTGATAACATCGCAAGTCAAAAAATAAGG
1 TAAAAATCATGCCCGGAGGTCTTACAGAATCGA-CTGTGATAACATCGCAAGTCAAAAAATAA-G
* * * * *
3283115 AATTGTTGGAGATAATA-TCGCGAATTGAAATTATGCCTGAAAGTCT
64 AATCGATCGAGATAACACT-GCGAATCGAAATTATGCCTGAAAGTCT
** *
3283161 TAAAAATCATGCCCAAAGGTCTTACAGAATCGATTGTGATAACATCGCAAGTCAAAAAATAAGCA
1 TAAAAATCATGCCCGGAGGTCTTACAGAATCGACTGTGATAACATCGCAAGTCAAAAAATAAG-A
* * * * *
3283226 ATCGATCGAGATAGCACTACGAATCGAAATTATGCCCGGAGGTCT
65 ATCGATCGAGATAACACTGCGAATCGAAATTATGCCTGAAAGTCT
* * * * *
3283271 TAGAAATCATGCTCGGAGGTCTTACAGAATTGA-TCGGGATAACATCGCAAGT-AAGAAATAAAG
1 TAAAAATCATGCCCGGAGGTCTTACAGAATCGACT-GTGATAACATCGCAAGTCAAAAAAT-AAG
* * * * **
3283334 AATCGATTGAGACAACACCGCAAATTAAAATTATGCCT-AGAAGTCT
64 AATCGATCGAGATAACACTGCGAATCGAAATTATGCCTGA-AAGTCT
* *
3283380 TAAAAATCATGCTCGGAGGTCTTACAGAATCGACTGTGATAACATCACAAGTCAAAAAATAAAGA
1 TAAAAATCATGCCCGGAGGTCTTACAGAATCGACTGTGATAACATCGCAAGTCAAAAAAT-AAGA
* *
3283445 ATCGATCGAGATAACACTGTGAATCGAAATTATGCCTGAAGGTCT
65 ATCGATCGAGATAACACTGCGAATCGAAATTATGCCTGAAAGTCT
* * * * *
3283490 CAAAAATCATGCCCGGAGGTCTTACAAAATTGACTGTGATAATATCGTAAGTCAAAAAATAAGGA
1 TAAAAATCATGCCCGGAGGTCTTACAGAATCGACTGTGATAACATCGCAAGTCAAAAAATAA-GA
* * * * *
3283555 ATTGATC-AGGATAACA-TCGCGAATCAAAATTATGCCCGGAGGTCT
65 ATCGATCGA-GATAACACT-GCGAATCGAAATTATGCCTGAAAGTCT
3283600 TACAAAATC
1 TA-AAAATC
3283609 GACTGGGATA
Statistics
Matches: 375, Mismatches: 60, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
109 92 0.25
110 274 0.73
111 9 0.02
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (109 bp):
TAAAAATCATGCCCGGAGGTCTTACAGAATCGACTGTGATAACATCGCAAGTCAAAAAATAAGAA
TCGATCGAGATAACACTGCGAATCGAAATTATGCCTGAAAGTCT
Found at i:3283282 original size:22 final size:22
Alignment explanation
Indices: 3283251--3283294 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3283241 ACTACGAATC
*
3283251 GAAATTATGCCCGGAGGTCTTA
1 GAAATCATGCCCGGAGGTCTTA
*
3283273 GAAATCATGCTCGGAGGTCTTA
1 GAAATCATGCCCGGAGGTCTTA
3283295 CAGAATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (22 bp):
GAAATCATGCCCGGAGGTCTTA
Found at i:3283366 original size:307 final size:307
Alignment explanation
Indices: 3282759--3283601 Score: 802
Period size: 329 Copynumber: 2.7 Consensus size: 307
3282749 AAAATGTCCA
* *
3282759 GAGGTCTTACAGAATCGACTATGATAACATTGTAAGTCAAAAAATAAGAAATTGATCGGGATAAC
1 GAGGTCTTACAGAATCGACTATGATAACATCGCAAGTCAAAAAATAAGAAATTGATCGGGATAAC
* * * * **
3282824 ACCGTGAATCGAAATTATGCACGGAGGTCTTAAAAATCATGTCCGGAGGTCTTACAGAATCGACT
66 ACCGCGAATCGAAATTATGCACGAAAGTCTTAAAAATCATGCCCAAAGGTCTTACAGAATCGACT
* * * * *
3282889 GTGATAACATCGTAAGTTAAAAAATAAAAAATTGATCGGGATAACACCATGAACCAAAATTATGC
131 GTGATAACATCGCAAGTCAAAAAATAAAAAATCGATCGAGATAACACCACGAACCAAAATTATGC
*
3282954 CGGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTAGGATAACACCGTAAGTCAAA
196 CGGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTAGGATAACACCGCAAGTCAAA
* * * *
3283019 AAATAAGGAATCAATCGGGATAACATCACAAATAAAAATTATGCTCG
261 AAATAAAGAATCAATCGAGACAACACCACAAATAAAAATTATGCTCG
* * * *
3283066 GAGGTCTTATAGAATC-ACCTGTGATAACATCGCAAGTCAAAAAATAAGGAATTG-TTGGAGATA
1 GAGGTCTTACAGAATCGA-CTATGATAACATCGCAAGTCAAAAAATAAGAAATTGATCGG-GATA
* * *
3283129 ATATCGCGAATTGAAATTATGC-CTGAAAGTCTTAAAAATCATGCCCAAAGGTCTTACAGAATCG
64 ACACCGCGAATCGAAATTATGCAC-GAAAGTCTTAAAAATCATGCCCAAAGGTCTTACAGAATCG
* ** * * * *
3283193 ATTGTGATAACATCGCAAGTCAAAAAATAAGCAATCGATCGAGATAGCACTACGAATCGAAATTA
128 ACTGTGATAACATCGCAAGTCAAAAAATAAAAAATCGATCGAGATAACACCACGAACCAAAATTA
* * * * *
3283258 TGCCCGGAGGTCTTAGAAATCATGCTCGGAGGTCTTACAGAATTGA-TCGGGATAACATCGCAAG
193 TG-CCGGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACT-AGGATAACACCGCAAG
* * *
3283322 T-AAGAAATAAAGAATCGATTGAGACAACACCGCAAATTAAAATTATGCCTAGAAGTCTTAAAAA
256 TCAAAAAATAAAGAATCAATCGAGACAACA-C-C-----------A---C-A-AA----TAAAAA
*
3283386 TCATGCTCG
299 TTATGCTCG
* * * *
3283395 GAGGTCTTACAGAATCGACTGTGATAACATCACAAGTCAAAAAATAA-AGAATCGATCGAGATAA
1 GAGGTCTTACAGAATCGACTATGATAACATCGCAAGTCAAAAAATAAGA-AATTGATCGGGATAA
* * * * ** * *
3283459 CACTGTGAATCGAAATTATGC-CTGAAGGTCTCAAAAATCATGCCCGGAGGTCTTACAAAATTGA
65 CACCGCGAATCGAAATTATGCAC-GAAAGTCTTAAAAATCATGCCCAAAGGTCTTACAGAATCGA
* * ** * * * *
3283523 CTGTGATAATATCGTAAGTCAAAAAATAAGGAATTGATC-AGGATAACATCGCGAATCAAAATTA
129 CTGTGATAACATCGCAAGTCAAAAAATAAAAAATCGATCGA-GATAACACCACGAACCAAAATTA
3283587 TGCCCGGAGGTCTTA
193 TG-CCGGAGGTCTTA
3283602 CAAAATCGAC
Statistics
Matches: 437, Mismatches: 68, Indels: 40
0.80 0.12 0.07
Matches are distributed among these distances:
306 5 0.01
307 182 0.42
308 54 0.12
309 1 0.00
320 1 0.00
323 1 0.00
324 1 0.00
325 2 0.00
328 1 0.00
329 186 0.43
330 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (307 bp):
GAGGTCTTACAGAATCGACTATGATAACATCGCAAGTCAAAAAATAAGAAATTGATCGGGATAAC
ACCGCGAATCGAAATTATGCACGAAAGTCTTAAAAATCATGCCCAAAGGTCTTACAGAATCGACT
GTGATAACATCGCAAGTCAAAAAATAAAAAATCGATCGAGATAACACCACGAACCAAAATTATGC
CGGAGGTCTTAGAAATCATGCCCAGAGGTCTTACAGAATCGACTAGGATAACACCGCAAGTCAAA
AAATAAAGAATCAATCGAGACAACACCACAAATAAAAATTATGCTCG
Found at i:3283439 original size:219 final size:221
Alignment explanation
Indices: 3283052--3283556 Score: 655
Period size: 219 Copynumber: 2.3 Consensus size: 221
3283042 CATCACAAAT
* * * * *
3283052 AAAAATTATGCTCGGAGGTCTTATAGAA-TCACCTGTGATAACATCGCAAGTCAAAAAATAAGGA
1 AAAAATCATGCTCGGAGGTCTTACAGAATTGACCTGGGATAACATCGCAAGTCAAAAAATAAAGA
* * * * * *
3283116 ATTGTTGGAGATAATATCGCGAATTGAAATTATGCCTGAAAGTCTTAAAAATCATGCCCAAAGGT
66 ATCGTTGGAGACAACACCGCAAATTAAAATTATGCCTGAAAGTCTTAAAAATCATGCCCAAAGGT
* * *
3283181 CTTACAGAATCGATTGTGATAACATCGCAAGTCAAAAAAT-AAGCAATCGATCGAGATAGCACTA
131 CTTACAGAATCGACTGTGATAACATCACAAGTCAAAAAATAAAG-AATCGATCGAGATAACACTA
* *
3283245 CGAATCGAAATTATGCCCGGAGGTCTT
195 CGAATCGAAATTATGCCCGAAGGTCTC
* * *
3283272 AGAAATCATGCTCGGAGGTCTTACAGAATTGATC-GGGATAACATCGCAAGT-AAGAAATAAAGA
1 AAAAATCATGCTCGGAGGTCTTACAGAATTGACCTGGGATAACATCGCAAGTCAAAAAATAAAGA
* **
3283335 ATCGATT-GAGACAACACCGCAAATTAAAATTATGCCT-AGAAGTCTTAAAAATCATGCTCGGAG
66 ATCG-TTGGAGACAACACCGCAAATTAAAATTATGCCTGA-AAGTCTTAAAAATCATGCCCAAAG
3283398 GTCTTACAGAATCGACTGTGATAACATCACAAGTCAAAAAATAAAGAATCGATCGAGATAACACT
129 GTCTTACAGAATCGACTGTGATAACATCACAAGTCAAAAAATAAAGAATCGATCGAGATAACACT
** *
3283463 GTGAATCGAAATTATGCCTGAAGGTCTC
194 ACGAATCGAAATTATGCCCGAAGGTCTC
* * * * * *
3283491 AAAAATCATGCCCGGAGGTCTTACAAAATTGA-CTGTGATAATATCGTAAGTCAAAAAATAAGGA
1 AAAAATCATGCTCGGAGGTCTTACAGAATTGACCTGGGATAACATCGCAAGTCAAAAAATAAAGA
3283555 AT
66 AT
3283557 TGATCAGGAT
Statistics
Matches: 246, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
218 2 0.01
219 183 0.74
220 58 0.24
221 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (221 bp):
AAAAATCATGCTCGGAGGTCTTACAGAATTGACCTGGGATAACATCGCAAGTCAAAAAATAAAGA
ATCGTTGGAGACAACACCGCAAATTAAAATTATGCCTGAAAGTCTTAAAAATCATGCCCAAAGGT
CTTACAGAATCGACTGTGATAACATCACAAGTCAAAAAATAAAGAATCGATCGAGATAACACTAC
GAATCGAAATTATGCCCGAAGGTCTC
Found at i:3283656 original size:88 final size:88
Alignment explanation
Indices: 3283492--3283685 Score: 255
Period size: 88 Copynumber: 2.2 Consensus size: 88
3283482 GAAGGTCTCA
* * * * ** *
3283492 AAAATCATGCCCGGAGGTCTTACAAAATTGACTGTGATAATATCGTAAGTCAAAAAATAAGGAAT
1 AAAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACAAGTCAAAAAATAAGAAAT
* *
3283557 TGATCAGGATAACATCGCGAATC
66 CGATCAGGATAACATCGCAAATC
* *
3283580 AAAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACGAGTCAAAAGATAAGAAAT
1 AAAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACAAGTCAAAAAATAAGAAAT
*
3283645 CGATC-GAGATAACATCGTAAATC
66 CGATCAG-GATAACATCGCAAATC
*
3283668 AAAATTATGCTCGGAGGT
1 AAAATTATGCCCGGAGGT
3283686 TTTAGAAATC
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 1 0.01
88 91 0.99
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (88 bp):
AAAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACAAGTCAAAAAATAAGAAAT
CGATCAGGATAACATCGCAAATC
Found at i:3283743 original size:198 final size:197
Alignment explanation
Indices: 3283382--3283915 Score: 723
Period size: 198 Copynumber: 2.7 Consensus size: 197
3283372 AGAAGTCTTA
* * * * *
3283382 AAAATCATGCTCGGAGGTCTTACAGAATCGACTGTGATAACATCACAAGTCAAAAAATAA-AGAA
1 AAAATTATGCCCGGAGGTCTTACAGAATCGACTGAGATAACATCACGAGTCAAAAGATAAGA-AA
* * * *
3283446 TCGATCGAGATAACACTGTGAATCGAAATTATGC-CTGAAGGTCTCAAAAATCATGCCCGGAGGT
65 TCGATCGAGATAACAC-GTGAATCGAAATTATGCTC-GGAGGTTTTAGAAATCATGCCCGGAGGT
* * *
3283510 CTTACAAAATTGACTGTGATAATATCGTAAGTCAAAAAATAAGGAATTGATCAGGATAACATCGC
128 CTTACAAAATCGACTGGGATAACATCGTAAGTCAAAAAATAAGGAATTGATCAGGATAACATCGC
3283575 GAATC
193 GAATC
* *
3283580 AAAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACGAGTCAAAAGATAAGAAAT
1 AAAATTATGCCCGGAGGTCTTACAGAATCGACTGAGATAACATCACGAGTCAAAAGATAAGAAAT
* * *
3283645 CGATCGAGATAACATCGTAAATCAAAATTATGCTCGGAGGTTTTAGAAATCATGCTCGGAGGTCT
66 CGATCGAGATAACA-CGTGAATCGAAATTATGCTCGGAGGTTTTAGAAATCATGCCCGGAGGTCT
* * * * *
3283710 TACAAAATCGACTGGGATAACATCGTGAGTCAAAAGATAATGAATTGATCGGGATAACATCGTGA
130 TACAAAATCGACTGGGATAACATCGTAAGTCAAAAAATAAGGAATTGATCAGGATAACATCGCGA
3283775 ATC
195 ATC
* * * * *
3283778 AAAATTATG-CCGGAGGTCTTATAGAATCGACTAAGATAACATCATGAGTCGAAAGATAAGGAAT
1 AAAATTATGCCCGGAGGTCTTACAGAATCGACTGAGATAACATCACGAGTCAAAAGATAAGAAAT
* * *
3283842 CGATTGGGATAACACCATGAATCGAAATTATGCTCGGAGGTTTTAGAAATCATGCCCGGAGGTCT
66 CGATCGAGATAACA-CGTGAATCGAAATTATGCTCGGAGGTTTTAGAAATCATGCCCGGAGGTCT
*
3283907 TACAGAATC
130 TACAAAATC
3283916 ATGCTCGAGA
Statistics
Matches: 297, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
197 114 0.38
198 180 0.61
199 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (197 bp):
AAAATTATGCCCGGAGGTCTTACAGAATCGACTGAGATAACATCACGAGTCAAAAGATAAGAAAT
CGATCGAGATAACACGTGAATCGAAATTATGCTCGGAGGTTTTAGAAATCATGCCCGGAGGTCTT
ACAAAATCGACTGGGATAACATCGTAAGTCAAAAAATAAGGAATTGATCAGGATAACATCGCGAA
TC
Found at i:3283784 original size:110 final size:111
Alignment explanation
Indices: 3283581--3283803 Score: 344
Period size: 110 Copynumber: 2.0 Consensus size: 111
3283571 TCGCGAATCA
*
3283581 AAATTATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACGAGTCAAAAGATAAGAAATC
1 AAATCATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACGAGTCAAAAGATAAGAAATC
3283646 GATCGAGATAACATCGTAAATCAAAATTATGCTCGGAGGT-TT-TAG
66 GATCGAGATAACATCGTAAATCAAAATTATGC-CGGAGGTCTTATAG
* **
3283691 AAATCATGCTCGGAGGTCTTACAAAATCGACTGGGATAACATCGTGAGTCAAAAGATAATG-AAT
1 AAATCATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACGAGTCAAAAGATAA-GAAAT
* * *
3283755 TGATCGGGATAACATCGTGAATCAAAATTATGCCGGAGGTCTTATAG
65 CGATCGAGATAACATCGTAAATCAAAATTATGCCGGAGGTCTTATAG
3283802 AA
1 AA
3283804 TCGACTAAGA
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
109 7 0.07
110 90 0.87
111 6 0.06
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (111 bp):
AAATCATGCCCGGAGGTCTTACAAAATCGACTGGGATAACATCACGAGTCAAAAGATAAGAAATC
GATCGAGATAACATCGTAAATCAAAATTATGCCGGAGGTCTTATAG
Found at i:3283851 original size:87 final size:88
Alignment explanation
Indices: 3283691--3283889 Score: 260
Period size: 87 Copynumber: 2.3 Consensus size: 88
3283681 GAGGTTTTAG
* * * ** * * *
3283691 AAATCATGCTCGGAGGTCTTACAAAATCGACTGGGATAACATCGTGAGTCAAAAGATAATGAATT
1 AAATTATGCTCGGAGGTCTTATAGAATCGACTAAGATAACATCATGAGTCAAAAGATAAGGAATC
* *
3283756 GATCGGGATAACATCGTGAATCA
66 GATCGGGATAACACCATGAATCA
*
3283779 AAATTATGC-CGGAGGTCTTATAGAATCGACTAAGATAACATCATGAGTCGAAAGATAAGGAATC
1 AAATTATGCTCGGAGGTCTTATAGAATCGACTAAGATAACATCATGAGTCAAAAGATAAGGAATC
* *
3283843 GATTGGGATAACACCATGAATCG
66 GATCGGGATAACACCATGAATCA
3283866 AAATTATGCTCGGAGGT-TT-TAGAA
1 AAATTATGCTCGGAGGTCTTATAGAA
3283890 ATCATGCCCG
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
86 5 0.05
87 77 0.79
88 15 0.15
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (88 bp):
AAATTATGCTCGGAGGTCTTATAGAATCGACTAAGATAACATCATGAGTCAAAAGATAAGGAATC
GATCGGGATAACACCATGAATCA
Found at i:3283896 original size:22 final size:22
Alignment explanation
Indices: 3283865--3283922 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
3283855 ACCATGAATC
* *
3283865 GAAATTATGCTCGGAGGTTTTA
1 GAAATCATGCTCGGAGGTCTTA
*
3283887 GAAATCATGCCCGGAGGTCTTA
1 GAAATCATGCTCGGAGGTCTTA
*
3283909 CAGAATCATGCTCG
1 GA-AATCATGCTCG
3283923 AGATTATGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (22 bp):
GAAATCATGCTCGGAGGTCTTA
Found at i:3284072 original size:22 final size:22
Alignment explanation
Indices: 3284047--3284093 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
3284037 CCCGAAGGCT
*
3284047 TTAGAGATTATGCCCGGAGGTC
1 TTAGAGATTATGCCCAGAGGTC
*
3284069 TTAGAGATTATGCTCAGAGGTC
1 TTAGAGATTATGCCCAGAGGTC
3284091 TTA
1 TTA
3284094 CAAATCTCAA
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:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (22 bp):
TTAGAGATTATGCCCAGAGGTC
Found at i:3284264 original size:12 final size:12
Alignment explanation
Indices: 3284247--3284271 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3284237 AGAGGCTTTC
3284247 AAATCTTGATTG
1 AAATCTTGATTG
3284259 AAATCTTGATTG
1 AAATCTTGATTG
3284271 A
1 A
3284272 GAACGGTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
AAATCTTGATTG
Found at i:3290390 original size:19 final size:19
Alignment explanation
Indices: 3290366--3290413 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
3290356 ATGATTGACC
3290366 TAAAATAAATA-TCACATAT
1 TAAAATAAATACTCACA-AT
3290385 TAAAATATAATACTCACAAT
1 TAAAATA-AATACTCACAAT
*
3290405 AAAAATAAA
1 TAAAATAAA
3290414 ATAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 12 0.46
21 5 0.19
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAATAAATACTCACAAT
Found at i:3290414 original size:5 final size:5
Alignment explanation
Indices: 3290406--3290430 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3290396 ACTCACAATA
3290406 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
3290431 GACTCAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:3292184 original size:16 final size:16
Alignment explanation
Indices: 3292163--3292193 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3292153 TTAGGGTTTT
3292163 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
3292179 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
3292194 GGTTTTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:3292223 original size:14 final size:15
Alignment explanation
Indices: 3292192--3292344 Score: 141
Period size: 15 Copynumber: 10.0 Consensus size: 15
3292182 TTTAGGGTTT
* *
3292192 GGGGTTTTGATTTAA
1 GGGGTTTGGATTTTA
3292207 GGGG-TTGGATTTTA
1 GGGGTTTGGATTTTA
*
3292221 GGGATTTTGGATTTT-
1 GGG-GTTTGGATTTTA
3292236 GGGGTTTGGATTTTA
1 GGGGTTTGGATTTTA
3292251 GGGGTTTGGA-TTTA
1 GGGGTTTGGATTTTA
*
3292265 GGGGATTTTAGATTTTTA
1 GGGG--TTTGGA-TTTTA
*
3292283 GGGTTTTGGATTTTA
1 GGGGTTTGGATTTTA
** *
3292298 GGATTTTAGATTTTA
1 GGGGTTTGGATTTTA
**
3292313 GGATTTTGGATTTTA
1 GGGGTTTGGATTTTA
3292328 GGGGATTTTGGATTTTA
1 GGGG--TTTGGATTTTA
3292345 TGAGTTTTAG
Statistics
Matches: 117, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
14 29 0.25
15 51 0.44
16 19 0.16
17 11 0.09
18 7 0.06
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (15 bp):
GGGGTTTGGATTTTA
Found at i:3292227 original size:44 final size:46
Alignment explanation
Indices: 3292179--3292275 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 46
3292169 AGAGTTTGGA
*
3292179 GATTTTAGG-GTTTGGGGTTTTGATTTAAGGGG-TTGGATTTTA-GG
1 GATTTTAGGAGTTTGGGGTTTGGATTTAAGGGGTTTGGA-TTTAGGG
* *
3292223 GATTTT-GGATTTTGGGGTTTGGATTTTAGGGGTTTGGATTTAGGG
1 GATTTTAGGAGTTTGGGGTTTGGATTTAAGGGGTTTGGATTTAGGG
3292268 GATTTTAG
1 GATTTTAG
3292276 ATTTTTAGGG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
43 2 0.04
44 30 0.65
45 13 0.28
46 1 0.02
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (46 bp):
GATTTTAGGAGTTTGGGGTTTGGATTTAAGGGGTTTGGATTTAGGG
Found at i:3292230 original size:37 final size:37
Alignment explanation
Indices: 3292150--3292223 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
3292140 GGATATAGAA
* * *
3292150 GGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTAG
1 GGTTTGGGGTTTTGATTTAAGAGGTTGGAGATTTTAG
*
3292187 GGTTTGGGGTTTTGATTTAAGGGGTT-G-GATTTTAG
1 GGTTTGGGGTTTTGATTTAAGAGGTTGGAGATTTTAG
3292222 GG
1 GG
3292224 ATTTTGGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 10 0.30
36 1 0.03
37 22 0.67
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (37 bp):
GGTTTGGGGTTTTGATTTAAGAGGTTGGAGATTTTAG
Found at i:3292234 original size:7 final size:7
Alignment explanation
Indices: 3292211--3292343 Score: 86
Period size: 7 Copynumber: 17.3 Consensus size: 7
3292201 ATTTAAGGGG
3292211 TTGGATT
1 TTGGATT
3292218 TTAGGGATT
1 TT--GGATT
3292227 TTGGATT
1 TTGGATT
**
3292234 TTGGGGT
1 TTGGATT
3292241 TTGGATT
1 TTGGATT
**
3292248 TTAGGGGT
1 TT-GGATT
3292256 TTGGATT
1 TTGGATT
*
3292263 TAGGGGATT
1 T--TGGATT
*
3292272 TTAGATTT
1 TTGGA-TT
*
3292280 TTAGGGTT
1 TT-GGATT
3292288 TTGGATT
1 TTGGATT
3292295 TTAGGATT
1 TT-GGATT
*
3292303 TTAGATT
1 TTGGATT
3292310 TTAGGATT
1 TT-GGATT
3292318 TTGGATT
1 TTGGATT
3292325 TTAGGGGATT
1 TT---GGATT
3292335 TTGGATT
1 TTGGATT
3292342 TT
1 TT
3292344 ATGAGTTTTA
Statistics
Matches: 98, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
7 51 0.52
8 26 0.27
9 14 0.14
10 7 0.07
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (7 bp):
TTGGATT
Found at i:3292283 original size:8 final size:7
Alignment explanation
Indices: 3292268--3292328 Score: 59
Period size: 8 Copynumber: 8.1 Consensus size: 7
3292258 GGATTTAGGG
3292268 GATTTTA
1 GATTTTA
3292275 GATTTTTA
1 GA-TTTTA
* *
3292283 GGGTTTTG
1 -GATTTTA
3292291 GATTTTA
1 GATTTTA
3292298 GGATTTTA
1 -GATTTTA
3292306 GATTTTA
1 GATTTTA
*
3292313 GGATTTTG
1 -GATTTTA
3292321 GATTTTA
1 GATTTTA
3292328 G
1 G
3292329 GGGATTTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
7 21 0.48
8 22 0.50
9 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (7 bp):
GATTTTA
Found at i:3292310 original size:47 final size:46
Alignment explanation
Indices: 3292214--3292355 Score: 164
Period size: 47 Copynumber: 3.0 Consensus size: 46
3292204 TAAGGGGTTG
* ** *
3292214 GATTTTAGGGATTTTGGATTTT-GGGGTTTGGATTTTAGGGGTTTG
1 GATTTTAGGGATTTTGGATTTTAGGGTTTTGGATTTTAGGATTTTA
*
3292259 GA-TTTAGGGGATTTTAGATTTTTAGGGTTTTGGATTTTAGGATTTTA
1 GATTTTA-GGGATTTTGGA-TTTTAGGGTTTTGGATTTTAGGATTTTA
*
3292306 GATTTTA-GGATTTTGGATTTTAGGGGATTTTGGATTTTATGAGTTTTA
1 GATTTTAGGGATTTTGGATTTTA-GGG-TTTTGGATTTTAGGA-TTTTA
3292354 GA
1 GA
3292356 AACCTAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
44 4 0.05
45 17 0.20
46 16 0.19
47 35 0.42
48 11 0.13
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (46 bp):
GATTTTAGGGATTTTGGATTTTAGGGTTTTGGATTTTAGGATTTTA
Found at i:3292314 original size:62 final size:63
Alignment explanation
Indices: 3292216--3292343 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 63
3292206 AGGGGTTGGA
* * *
3292216 TTTTAGGGATTTTGGATTTTGGGGTTTGGATTTTAGGGGTTTGGA-TTTAGGGGATTTTAGAT
1 TTTTAGGGATTTTGGATTTTGGAGTTTAGATTTTAGGAGTTTGGATTTTAGGGGATTTTAGAT
* * *
3292278 TTTTAGGG-TTTTGGATTTTAGGATTTTAGATTTTAGGATTTTGGATTTTAGGGGATTTTGGAT
1 TTTTAGGGATTTTGGATTTT-GGAGTTTAGATTTTAGGAGTTTGGATTTTAGGGGATTTTAGAT
3292341 TTT
1 TTT
3292344 ATGAGTTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 11 0.19
62 28 0.48
63 19 0.33
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (63 bp):
TTTTAGGGATTTTGGATTTTGGAGTTTAGATTTTAGGAGTTTGGATTTTAGGGGATTTTAGAT
Found at i:3301972 original size:21 final size:21
Alignment explanation
Indices: 3301929--3301972 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3301919 ATGTTTTTGA
*
3301929 TTTATGATTTTTTTTTACTTT
1 TTTATGATTTTTTTTTACATT
*
3301950 TTTATTATATTTTTTTT-CATT
1 TTTATGAT-TTTTTTTTACATT
3301971 TT
1 TT
3301973 CTTTGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTATGATTTTTTTTTACATT
Found at i:3302294 original size:152 final size:150
Alignment explanation
Indices: 3302037--3302314 Score: 384
Period size: 152 Copynumber: 1.8 Consensus size: 150
3302027 TTTTTTATAC
*
3302037 TTTACTTTTTAATATAAATTATGTAAGAAAAAATCAATGAAGATAAGAATGAAAAAACAAACCTA
1 TTTACTTTTTAATATAAATTATGTAAGAAAAAATCAATGAACATAAGAATGAAAAAACAAACCTA
* * * * *
3302102 TCCAATGGGTTTCGAGTTGCTCCGATCAAATAAGTATATTTTTAAAAAATTGGGGATCAAACTTT
66 TCAAATGAGTTTCAAGTTGATCCAATCAAATAAGTATATTTTTAAAAAATTGGGGATCAAACTTT
3302167 TTTATTTAATTTATTTATTT
131 TTTATTTAATTTATTTATTT
*
3302187 TTTAC-TTTTAATGTAAATTATGTAAGAAAAAGAATCAATGAACA-AAGGAAT-AACAAAACAAT
1 TTTACTTTTTAATATAAATTATGTAAG-AAAA-AATCAATGAACATAA-GAATGAA-AAAACAA-
* * *
3302249 TCAC-ATCAAATGAGTTTCAAGTTGATCCAATCAAATAAGTGTATTTTTAAAAAATTTGGGATCA
61 AC-CTATCAAATGAGTTTCAAGTTGATCCAATCAAATAAGTATATTTTTAAAAAATTGGGGATCA
3302313 AA
125 AA
3302315 TAAGGTTTTT
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
149 20 0.18
150 13 0.12
151 22 0.20
152 56 0.50
153 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.35
Consensus pattern (150 bp):
TTTACTTTTTAATATAAATTATGTAAGAAAAAATCAATGAACATAAGAATGAAAAAACAAACCTA
TCAAATGAGTTTCAAGTTGATCCAATCAAATAAGTATATTTTTAAAAAATTGGGGATCAAACTTT
TTTATTTAATTTATTTATTT
Found at i:3303548 original size:51 final size:50
Alignment explanation
Indices: 3303453--3303558 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 50
3303443 AAATTTGGTG
*
3303453 AAAATGATGTTGAGAAATTTTGGGATTTAATTCTAGAATCAATTCATATT
1 AAAATGATGTTGAGAAATTTTGGGATTTAATTCCAGAATCAATTCATATT
*
3303503 AAAATGATGTTGAGAGATTTTGGGGATTTAATTCCAGAATCAATTCATATT
1 AAAATGATGTTGAGAAATTTT-GGGATTTAATTCCAGAATCAATTCATATT
3303554 AAAAT
1 AAAAT
3303559 TAAATCAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
50 20 0.38
51 33 0.62
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.38
Consensus pattern (50 bp):
AAAATGATGTTGAGAAATTTTGGGATTTAATTCCAGAATCAATTCATATT
Found at i:3304263 original size:22 final size:22
Alignment explanation
Indices: 3304251--3304329 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 22
3304241 TTCATTCTTA
3304251 TTTATTTTATTTTATATTTTAT
1 TTTATTTTATTTTATATTTTAT
*
3304273 TTTATTTTA-CTTACTATTATTAT
1 TTTATTTTATTTTA-TATT-TTAT
3304296 TATTATTATTATTGTTATTATTATTAT
1 T-TTATT-TTATT-TTA-TATT-TTAT
3304323 TTTATTT
1 TTTATTT
3304330 ACTTTAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.06
22 13 0.27
23 5 0.10
24 5 0.10
25 4 0.08
26 5 0.10
27 13 0.27
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (22 bp):
TTTATTTTATTTTATATTTTAT
Found at i:3304295 original size:3 final size:3
Alignment explanation
Indices: 3304252--3304328 Score: 78
Period size: 3 Copynumber: 27.7 Consensus size: 3
3304242 TCATTCTTAT
*
3304252 TTA TT- TTA TT- TTA -TA TT- TTA TT- TTA TT- TTA CTTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
3304292 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3304329 TACTTTAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
2 14 0.23
3 45 0.73
4 3 0.05
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:3313026 original size:16 final size:15
Alignment explanation
Indices: 3312989--3313028 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
3312979 TCAACTTATT
3312989 GTATAATTTTACGTA
1 GTATAATTTTACGTA
3313004 G-ATAATTTTACGTA
1 GTATAATTTTACGTA
3313018 GCTATAATTTT
1 G-TATAATTTT
3313029 GGGTTGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.61
15 1 0.04
16 8 0.35
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (15 bp):
GTATAATTTTACGTA
Found at i:3318271 original size:21 final size:21
Alignment explanation
Indices: 3318222--3318277 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
3318212 TTTTGGGTAA
3318222 AAAGTGATCAATCCATTCTTTC
1 AAAG-GATCAATCCATTCTTTC
* *
3318244 AAGGGATCGATCTCATTCTTT-
1 AAAGGATCAATC-CATTCTTTC
3318265 AAAGGATCAATCC
1 AAAGGATCAATCC
3318278 CTTTTTCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 17 0.59
22 11 0.38
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (21 bp):
AAAGGATCAATCCATTCTTTC
Found at i:3318982 original size:11 final size:9
Alignment explanation
Indices: 3318944--3318974 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
3318934 TCAATTCAAG
*
3318944 GCAATAATA
1 GCAACAATA
3318953 GCAACAATA
1 GCAACAATA
3318962 GCAACAATA
1 GCAACAATA
3318971 GCAA
1 GCAA
3318975 TCCAATAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.55, C:0.19, G:0.13, T:0.13
Consensus pattern (9 bp):
GCAACAATA
Found at i:3320315 original size:4 final size:4
Alignment explanation
Indices: 3320306--3320427 Score: 61
Period size: 4 Copynumber: 28.8 Consensus size: 4
3320296 TTTTATGTAT
* * * *
3320306 TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATC TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
3320355 TTTA -TTA TTAATA TTTA TATGTA TTTTA TTTA TATA GTTA TATA TTTA
1 TTTA TTTA TT--TA TTTA T-T-TA -TTTA TTTA TTTA TTTA TTTA TTTA
*
3320403 -TTA TTATA TTATAA TTTA TGTA TTT
1 TTTA TT-TA TT-T-A TTTA TTTA TTT
3320428 TTTTTCTTGT
Statistics
Matches: 90, Mismatches: 16, Indels: 24
0.69 0.12 0.18
Matches are distributed among these distances:
3 9 0.10
4 57 0.63
5 10 0.11
6 13 0.14
7 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:3320971 original size:11 final size:11
Alignment explanation
Indices: 3320955--3320992 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
3320945 ATCTCAGAAA
3320955 CCGACCAACTT
1 CCGACCAACTT
3320966 CCGACCAACTT
1 CCGACCAACTT
*
3320977 CCGGCCAACTT
1 CCGACCAACTT
*
3320988 TCGAC
1 CCGAC
3320993 AAAAAACCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.24, C:0.45, G:0.13, T:0.18
Consensus pattern (11 bp):
CCGACCAACTT
Found at i:3321376 original size:10 final size:10
Alignment explanation
Indices: 3321353--3321451 Score: 64
Period size: 10 Copynumber: 9.8 Consensus size: 10
3321343 TTAGATTAGG
*
3321353 TTTATTTAAT
1 TTTATTTTAT
3321363 ATTT-TTTTAT
1 -TTTATTTTAT
3321373 ATTTATTTT-T
1 -TTTATTTTAT
**
3321383 TTTATTTTCC
1 TTTATTTTAT
3321393 TTTATTTTAT
1 TTTATTTTAT
3321403 ATTTATTTTAT
1 -TTTATTTTAT
3321414 TTT-TTTCT-T
1 TTTATTT-TAT
*
3321423 TTCACTTTTAT
1 TTTA-TTTTAT
*
3321434 TTTGTTTTACT
1 TTTATTTTA-T
3321445 TTT-TTTT
1 TTTATTTT
3321452 CCTCTAAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
9 14 0.19
10 32 0.44
11 27 0.37
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:3321382 original size:15 final size:15
Alignment explanation
Indices: 3321364--3321416 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
3321354 TTATTTAATA
3321364 TTTTTTTATATTTAT
1 TTTTTTTATATTTAT
*
3321379 TTTTTTTAT-TTTCCT
1 TTTTTTTATATTT-AT
*
3321394 TTATTTTATATTTAT
1 TTTTTTTATATTTAT
3321409 TTTATTTT
1 TTT-TTTT
3321417 TTTCTTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
14 3 0.10
15 21 0.68
16 7 0.23
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTATATTTAT
Found at i:3321433 original size:36 final size:36
Alignment explanation
Indices: 3321368--3321436 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
3321358 TTAATATTTT
3321368 TTTATATTTATTTTTTTTATTTTCCTTTATTTTATA
1 TTTATATTTATTTTTTTTATTTTCCTTTATTTTATA
*
3321404 TTTAT-TTTA-TTTTTTTCTTTTCACTTTTATTTT
1 TTTATATTTATTTTTTTTATTTTC-C-TTTATTTT
3321437 GTTTTACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 12 0.40
35 5 0.17
36 13 0.43
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (36 bp):
TTTATATTTATTTTTTTTATTTTCCTTTATTTTATA
Found at i:3321447 original size:16 final size:14
Alignment explanation
Indices: 3321353--3321416 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 14
3321343 TTAGATTAGG
*
3321353 TTTATTTAATATTTT
1 TTTATTTTAT-TTTT
3321368 TTTATATTTATTTTT
1 TTTAT-TTTATTTTT
* *
3321383 TTTATTTTCCTTTAT
1 TTTATTTT-ATTTTT
3321398 TTTATATTTATTTTAT
1 TTTAT-TTTATTTT-T
3321414 TTT
1 TTT
3321417 TTTCTTTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
14 3 0.08
15 26 0.65
16 11 0.28
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTTT
Found at i:3321549 original size:58 final size:59
Alignment explanation
Indices: 3321448--3321630 Score: 260
Period size: 60 Copynumber: 3.1 Consensus size: 59
3321438 TTTTACTTTT
* *
3321448 TTTTCCTCTAAAAATAAAATTTAAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCCT-TAAAAATAAAATTTCAAAAAAATA-GTTTTTGAGGAAAAGTTGAAAGTATCAA
*
3321509 TTTTCCTTAAAAATAAATTTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAATTTCAAAAAAATAGTTTTTGAGGAAAAGTTGAAAGTATCAA
* ** * *
3321567 TGTTCCTTGGAAATAAAAGTTTCAAAAAAATATTTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAA-TTTCAAAAAAATAGTTTTTGAGGAAAAGTTGAAAGTATCAA
3321627 TTTT
1 TTTT
3321631 TCCTGCACAA
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
58 41 0.37
59 13 0.12
60 50 0.45
61 7 0.06
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (59 bp):
TTTTCCTTAAAAATAAAATTTCAAAAAAATAGTTTTTGAGGAAAAGTTGAAAGTATCAA
Found at i:3341860 original size:16 final size:16
Alignment explanation
Indices: 3341839--3341888 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
3341829 TTTTTTTTGT
3341839 TTTATTATTATTATTA
1 TTTATTATTATTATTA
3341855 TTTATTATTATTATTA
1 TTTATTATTATTATTA
*
3341871 -TTATTGTTAATTATTA
1 TTTATTATT-ATTATTA
3341887 TT
1 TT
3341889 ACCAGTATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
15 7 0.23
16 23 0.74
17 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:3341897 original size:22 final size:20
Alignment explanation
Indices: 3341853--3341907 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
3341843 TTATTATTAT
** *
3341853 TATT-TATTATTATTATTAT
1 TATTGTATTATTATTACCAG
3341872 TATTGTTAATTATTATTACCAG
1 TATTG-T-ATTATTATTACCAG
3341894 TATTGTATTATTAT
1 TATTGTATTATTAT
3341908 AGTATAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 8 0.27
21 2 0.07
22 16 0.53
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (20 bp):
TATTGTATTATTATTACCAG
Found at i:3341907 original size:3 final size:3
Alignment explanation
Indices: 3341814--3341889 Score: 82
Period size: 3 Copynumber: 25.0 Consensus size: 3
3341804 TGTCAATTTT
* * * *
3341814 TTA TTA CTA TTA TTA TTT TTT TTG TT- TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
3341859 TTA TTA TTA TTA TTA TTG TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
3341890 CCAGTATTGT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 57 0.89
4 5 0.08
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3341929 original size:5 final size:5
Alignment explanation
Indices: 3341902--3342015 Score: 77
Period size: 5 Copynumber: 22.2 Consensus size: 5
3341892 AGTATTGTAT
* * * * *
3341902 TATTA TAGTA TAGTA TACTA TATTA TATT- TATTA TATTA TACTA TTACTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
* * * * * * *
3341952 TATTC TGTTA TATTA TTAGTA TATTA CATCA TATTG TATTA TTATTG TATTA
1 TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA -TATTA TATTA
3342004 TATTA TCATTA T
1 TATTA T-ATTA T
3342016 CATCATCATC
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
4 4 0.05
5 63 0.74
6 18 0.21
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:3341937 original size:29 final size:30
Alignment explanation
Indices: 3341901--3341974 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
3341891 CAGTATTGTA
*
3341901 TTATTATAGTATAGTA-TACTATATTATAT
1 TTATTATAGTATACTATTACTATATTATAT
* * *
3341930 TTATTATATTATACTATTACTATATTCTGT
1 TTATTATAGTATACTATTACTATATTATAT
3341960 TATATTATTAGTATA
1 T-TATTA-TAGTATA
3341975 TTACATCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 14 0.38
30 12 0.32
31 5 0.14
32 6 0.16
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (30 bp):
TTATTATAGTATACTATTACTATATTATAT
Found at i:3341976 original size:29 final size:28
Alignment explanation
Indices: 3341901--3342001 Score: 75
Period size: 29 Copynumber: 3.5 Consensus size: 28
3341891 CAGTATTGTA
3341901 TTATTA-TAGTATAGTATACTATATTATAT
1 TTATTATTAGTATA-T-TACTATATTATAT
* *
3341930 TTATTATATTA-TACTATTACTATATTCTGT
1 TTA-T-TATTAGTA-TATTACTATATTATAT
*
3341960 TATATTATTAGTATATTACATCATATTGTA-
1 T-TATTATTAGTATATTAC-T-ATATTATAT
3341990 TTATTATT-GTAT
1 TTATTATTAGTAT
3342002 TATATTATCA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
28 4 0.07
29 21 0.35
30 18 0.30
31 13 0.22
32 4 0.07
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (28 bp):
TTATTATTAGTATATTACTATATTATAT
Found at i:3342164 original size:3 final size:3
Alignment explanation
Indices: 3342156--3342207 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
3342146 CTAGGCCTAA
3342156 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3342204 AAT A
1 AAT A
3342208 GTAGTAGTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3343499 original size:65 final size:65
Alignment explanation
Indices: 3343368--3343511 Score: 164
Period size: 65 Copynumber: 2.2 Consensus size: 65
3343358 GTAAAACAAG
* * * *
3343368 AAATAAAATGATCTGAACTGAGCTGAGATCAAAGCAAGTGACCAGGATTGAATCATGAGTCAGAA
1 AAATAAAATGATCTGAACTGAGCTGAGATCAAAACAAGTGACCAGAATTAAACCATGAGTCAGAA
* * * * * **
3343433 AAATAAAATGATCTGAATTGAGCTGAGATTAAAATAGGTGACTAGAATTAAACCAT-AGGTTTGA
1 AAATAAAATGATCTGAACTGAGCTGAGATCAAAACAAGTGACCAGAATTAAACCATGA-GTCAGA
3343497 A
65 A
*
3343498 AAGTAAAATGATCT
1 AAATAAAATGATCT
3343512 AGACTAGGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 1 0.02
65 65 0.98
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.24
Consensus pattern (65 bp):
AAATAAAATGATCTGAACTGAGCTGAGATCAAAACAAGTGACCAGAATTAAACCATGAGTCAGAA
Found at i:3348442 original size:3 final size:3
Alignment explanation
Indices: 3348434--3348488 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
3348424 TTAAAGATAG
*
3348434 AAT AAT AAT AAT AAT AAT AAT AAGT AA- AAT AA- AAT AAAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT -AAT AAT AAT
*
3348479 GAT AA- AAT AA
1 AAT AAT AAT AA
3348489 AAAAATAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 6 0.14
3 31 0.72
4 6 0.14
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:3351540 original size:20 final size:20
Alignment explanation
Indices: 3351515--3351553 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3351505 TCTAACTTCA
3351515 TTTATTAATTCAAAT-TTTGT
1 TTTATTAATT-AAATATTTGT
*
3351535 TTTATTCATTAAATATTTG
1 TTTATTAATTAAATATTTG
3351554 GTGGTGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTATTAATTAAATATTTGT
Found at i:3355492 original size:16 final size:16
Alignment explanation
Indices: 3355468--3355530 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
3355458 GATTTTTTTT
*
3355468 AGGACTTTGGATTTCA
1 AGGATTTTGGATTTCA
* *
3355484 AGGATTTTGGGTTTCGG
1 AGGATTTTGGATTTC-A
* *
3355501 GGGGTTTTGGATTT-A
1 AGGATTTTGGATTTCA
3355516 ATGGATTTTGGATTT
1 A-GGATTTTGGATTT
3355531 TTAGGGCTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
16 25 0.69
17 11 0.31
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.44
Consensus pattern (16 bp):
AGGATTTTGGATTTCA
Found at i:3356995 original size:9 final size:9
Alignment explanation
Indices: 3356981--3357022 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
3356971 GATTTTATTT
3356981 TTTTGTTTG
1 TTTTGTTTG
*
3356990 TTTTGTTTT
1 TTTTGTTTG
3356999 TTTTGTTT-
1 TTTTGTTTG
3357007 TTTTGTTTG
1 TTTTGTTTG
3357016 TTTTGTT
1 TTTTGTT
3357023 AAATATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:3356998 original size:17 final size:16
Alignment explanation
Indices: 3356973--3357022 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
3356963 CTTATTTCGA
*
3356973 TTTTATTTTTTTGTTT
1 TTTTGTTTTTTTGTTT
3356989 GTTTTGTTTTTTTTGTTT
1 -TTTTG-TTTTTTTGTTT
3357007 TTTTGTTTGTTTTGTT
1 TTTTGTTT-TTTTGTT
3357023 AAATATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 3 0.10
17 16 0.53
18 11 0.37
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (16 bp):
TTTTGTTTTTTTGTTT
Found at i:3357007 original size:26 final size:26
Alignment explanation
Indices: 3356973--3357022 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
3356963 CTTATTTCGA
3356973 TTTTATTTTTTTGTTTGTTTTGTTTT
1 TTTTATTTTTTTGTTTGTTTTGTTTT
*
3356999 TTTTGTTTTTTTGTTTGTTTTGTT
1 TTTTATTTTTTTGTTTGTTTTGTT
3357023 AAATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (26 bp):
TTTTATTTTTTTGTTTGTTTTGTTTT
Found at i:3357341 original size:49 final size:49
Alignment explanation
Indices: 3357185--3357959 Score: 931
Period size: 49 Copynumber: 15.9 Consensus size: 49
3357175 ACAGAAAAGG
* * * *
3357185 GCTCCTCTTAGCAGAGGCTCAACCACTTTAAAAATTCTCATCTGAAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTG-AAAAA
* * *
3357235 GCTCCTCTCAACATAGGCTCCACAACTTTAAAAA-TCTCATTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTGAAAAA
* * *
3357283 GTTTCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTGAAAAA
* *
3357332 GCTCCTCTCAGCAGAAGCTCCACAACTTTAAAAATT-TCATCTGAAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTG-AAAAA
* * *
3357381 GCTCCTCTCAACAGAGGGTCTACAACTTTAAAAATTCTC-TTTGGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCT-GAAAAA
*
3357430 GCTCCTCTCAATAGAGGCTCCACAACTTT-AAAATT-TCATCTGGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCT-GAAAAA
* *
3357478 GCTCATCTTAACAGAGGCTCCACAACTTTAAAAATTCTC-T-TGAAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTG-AAAAA
* *
3357526 GCTCCTCTCAACAGAGACTCAACAACTTT-AAAA-TCTCATCTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTGAAAAA
* *
3357573 GCTCCTCTCAACAGAGGCTCCACAACTTT-AAAATTCTCCTCTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATC-TGAAAAA
** * * *
3357622 GCTCCTCTACTCTCAGTAGAGGCTCAACAA-TTTTAAAATT-TCTTCTTGAAAAA
1 G---CTC--CTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATC-TGAAAAA
* * * *
3357675 GCTCCTCTTAACAGAGGTTCAACAATTTTAAAAA-TCTCATCTGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTGAAAAA
* *
3357723 GCTCCTCTCAGCAGAGGCTCTCACAACTTT-AAAATTCTTATCTGAAAAAA
1 GCTCCTCTCAACAGAGGCTC-CACAACTTTAAAAATTCTCATCTG-AAAAA
3357773 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTC-TCTGGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCT-GAAAAA
3357822 GCTCCTCTCAACAGAGGCTCC-CAACTTTAAAAATTCTC-T-TGAAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTG-AAAAA
* * * *
3357869 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTTATATGAAAAA
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTGAAAAA
*
3357918 GCTCCTTTCAACAGAGGCTCCACAACTTT-AAAATTCTCATCT
1 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCT
3357960 TTTTTCAAAG
Statistics
Matches: 633, Mismatches: 63, Indels: 60
0.84 0.08 0.08
Matches are distributed among these distances:
46 5 0.01
47 69 0.11
48 213 0.34
49 232 0.37
50 72 0.11
52 3 0.00
53 15 0.02
54 24 0.04
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (49 bp):
GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTCATCTGAAAAA
Found at i:3362647 original size:263 final size:261
Alignment explanation
Indices: 3362182--3362705 Score: 818
Period size: 263 Copynumber: 2.0 Consensus size: 261
3362172 TCCACCTAAG
* * * * *
3362182 TATGGTGTATGGGAGTGGACTAGAGGAGATTGAGAGTGTCACATAAGTATGATGAATGCGTATAT
1 TATGGTGCATGAGAATGGACTAGAGGAGATTGAGAGTGTCACATAAGTATAATAAATGCGTATAT
* * *
3362247 ATGAGTATATATTTGTTTATGTTGAAATGGTGCACATGGGTATATATTTGTTTGGTTAGAATACT
66 ATGAGTATATATTTATTTATGTTGAAAGGGTGCACATGGGTATATATTTATTTGGTTAGAATACT
* *
3362312 CTCTATGATTAAAAGAGATTGAGAGGGTCTATGGATATTAGTTATGAGTGTTTGATTTAATTTGT
131 CTCTATGACTAAAAGAGATTGAGAGAGTCTATGGATATTAGTTATGAGTGTTTGATTTAATTTGT
* * *
3362377 ATGTTTGTAATTCTCTACAACTAGTGGATCTTGTTTCTTATCTGTAGAC-TTAGATTGATTTAAC
196 ATGTTTGTAATTCTCTACAACTAGTGGATCTTATTTCTTATCCGTAGACGTAAG-TTGATTTAAC
3362441 CA
260 CA
* * *
3362443 TATGGTGCATGAGAATGGACTATAGGAGATTGAGAGTGTCCACATAGGTATAATAAATGGGTATA
1 TATGGTGCATGAGAATGGACTAGAGGAGATTGAGAGTGT-CACATAAGTATAATAAATGCGTATA
* * *
3362508 TATGAGTATATGTTTATTTATGTTGAAAGGGTGCACATGGGTATATGTTTATTTTGTTGAGAATA
65 TATGAGTATATATTTATTTATGTTGAAAGGGTGCACATGGGTATATATTTATTTGGTT-AGAATA
3362573 CTC-CATATGACTAAAAGAGATTGAGAGAGTCTATGGATATTAGTTATGAGTGTTTGATTTAATT
129 CTCTC-TATGACTAAAAGAGATTGAGAGAGTCTATGGATATTAGTTATGAGTGTTTGATTTAATT
*
3362637 TGTATGTTTGTAATTCTCTATAACTAGTGGATCTTATTTCTTATCCGTAGACGTAAGTTGATTTA
193 TGTATGTTTGTAATTCTCTACAACTAGTGGATCTTATTTCTTATCCGTAGACGTAAGTTGATTTA
3362702 ACCA
258 ACCA
3362706 AACCATGTTA
Statistics
Matches: 239, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
261 35 0.15
262 74 0.31
263 127 0.53
264 3 0.01
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.39
Consensus pattern (261 bp):
TATGGTGCATGAGAATGGACTAGAGGAGATTGAGAGTGTCACATAAGTATAATAAATGCGTATAT
ATGAGTATATATTTATTTATGTTGAAAGGGTGCACATGGGTATATATTTATTTGGTTAGAATACT
CTCTATGACTAAAAGAGATTGAGAGAGTCTATGGATATTAGTTATGAGTGTTTGATTTAATTTGT
ATGTTTGTAATTCTCTACAACTAGTGGATCTTATTTCTTATCCGTAGACGTAAGTTGATTTAACC
A
Found at i:3372146 original size:21 final size:21
Alignment explanation
Indices: 3372104--3372159 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
3372094 TTTTGGGTAA
3372104 AAAGTGATCAATCCATTCCTTT
1 AAAG-GATCAATCCATTCCTTT
* *
3372126 AAGGGATCGATCTCATT-CTTT
1 AAAGGATCAATC-CATTCCTTT
3372147 AAAGGATCAATCC
1 AAAGGATCAATCC
3372160 CTTTTTCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 21 0.72
22 7 0.24
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (21 bp):
AAAGGATCAATCCATTCCTTT
Found at i:3372841 original size:9 final size:9
Alignment explanation
Indices: 3372823--3372854 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
3372813 ATCAATTCAA
*
3372823 AGCAATAAT
1 AGCAACAAT
3372832 AGCAACAAT
1 AGCAACAAT
3372841 AGCAACAAT
1 AGCAACAAT
3372850 AGCAA
1 AGCAA
3372855 TCCAATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.12
Consensus pattern (9 bp):
AGCAACAAT
Found at i:3383472 original size:20 final size:20
Alignment explanation
Indices: 3383424--3383474 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
3383414 AATTACTCTC
3383424 CATTAACTTTGATGACATGG
1 CATTAACTTTGATGACATGG
* *
3383444 CATTGACTTT-ATAGACTTGG
1 CATTAACTTTGAT-GACATGG
*
3383464 TATTAACTTTG
1 CATTAACTTTG
3383475 CTAATGTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
CATTAACTTTGATGACATGG
Found at i:3384642 original size:20 final size:20
Alignment explanation
Indices: 3384619--3384658 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3384609 GTAATTGGAC
*
3384619 AAAATTGTTATTAAATTAAA
1 AAAAATGTTATTAAATTAAA
3384639 AAAAATGTTATTAAATTAAA
1 AAAAATGTTATTAAATTAAA
3384659 CTTGTACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATGTTATTAAATTAAA
Found at i:3386902 original size:25 final size:25
Alignment explanation
Indices: 3386874--3386927 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
3386864 CTTTAAATCT
*
3386874 GTTGATAATTACCGATGTAAAATTC
1 GTTGATAATTACCGACGTAAAATTC
* * *
3386899 GTTGGTAATTACTGGCGTAAAATTC
1 GTTGATAATTACCGACGTAAAATTC
3386924 GTTG
1 GTTG
3386928 GTAGTTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (25 bp):
GTTGATAATTACCGACGTAAAATTC
Found at i:3387058 original size:20 final size:21
Alignment explanation
Indices: 3387023--3387064 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
3387013 GATTTTTTTT
3387023 AGTAATAATAAAAATTTCATC
1 AGTAATAATAAAAATTTCATC
3387044 AGTAATAAT-AAAATTTCATC
1 AGTAATAATAAAAATTTCATC
3387064 A
1 A
3387065 ATAAATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
AGTAATAATAAAAATTTCATC
Found at i:3389169 original size:18 final size:18
Alignment explanation
Indices: 3389135--3389169 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3389125 AATCTTAATA
*
3389135 ATATATAAGTTACTTCAT
1 ATATATAAATTACTTCAT
*
3389153 ATATATAAATTATTTCA
1 ATATATAAATTACTTCA
3389170 AAACAAATAT
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:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (18 bp):
ATATATAAATTACTTCAT
Found at i:3389647 original size:59 final size:60
Alignment explanation
Indices: 3389584--3389730 Score: 156
Period size: 59 Copynumber: 2.5 Consensus size: 60
3389574 AATATGTAAA
* *
3389584 CAAAACCCAAATAAATTTCAACAAATTTAA-AACCAACAAAAGCACAACAAATT-AGCAAC
1 CAAAACACAAATAAATTTCAACAAATTTAATAACCAACAAAAACACAACAAATTGA-CAAC
* * * * * *
3389643 CAAAAAACAAATAAATTTCAACAAA-TAAATAACTAACAAAAACTCAACACATTGATAAC
1 CAAAACACAAATAAATTTCAACAAATTTAATAACCAACAAAAACACAACAAATTGACAAC
* * * *
3389702 CAAAACTCACACAAATTTTAACAAATTTA
1 CAAAACACAAATAAATTTCAACAAATTTA
3389731 TAATAAAAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
58 3 0.04
59 65 0.92
60 3 0.04
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (60 bp):
CAAAACACAAATAAATTTCAACAAATTTAATAACCAACAAAAACACAACAAATTGACAAC
Found at i:3389723 original size:22 final size:22
Alignment explanation
Indices: 3389676--3389726 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
3389666 AATAAATAAC
*
3389676 TAACAAAAACTCAACACATTGA
1 TAACAAAAACTCAACAAATTGA
* *
3389698 TAACCAAAACTCACACAAATT-T
1 TAACAAAAACTCA-ACAAATTGA
3389720 TAACAAA
1 TAACAAA
3389727 TTTATAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.55, C:0.24, G:0.02, T:0.20
Consensus pattern (22 bp):
TAACAAAAACTCAACAAATTGA
Found at i:3400514 original size:12 final size:12
Alignment explanation
Indices: 3400497--3400528 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3400487 ATTAGTTAAG
3400497 AAAAAGAAAAAA
1 AAAAAGAAAAAA
3400509 AAAAAGAAAAAA
1 AAAAAGAAAAAA
*
3400521 GAAAAGAA
1 AAAAAGAA
3400529 CATATGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:3408472 original size:21 final size:21
Alignment explanation
Indices: 3408428--3408472 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3408418 TTTTGGGAAT
* * *
3408428 AATCCAGGCAAAATTTGGAGA
1 AATCCAGGAAAAATTTGAAAA
*
3408449 AATCTAGGAAAAATTTGAAAA
1 AATCCAGGAAAAATTTGAAAA
3408470 AAT
1 AAT
3408473 TTGGGTTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCCAGGAAAAATTTGAAAA
Found at i:3408923 original size:19 final size:19
Alignment explanation
Indices: 3408895--3408981 Score: 56
Period size: 18 Copynumber: 4.6 Consensus size: 19
3408885 TGATCATAGG
* *
3408895 TTTTTCTTTTTCATTTTAT-
1 TTTTACTTTTT-ATTTTTTA
3408914 TTTTA-TTTTTATTTTTTGA
1 TTTTACTTTTTATTTTTT-A
*
3408933 TTTGA--TTTTATTTTTTA
1 TTTTACTTTTTATTTTTTA
* * * *
3408950 ATCTATTTTTTATTTTTTTG
1 TTTTACTTTTTA-TTTTTTA
3408970 TTTTACTTTTTA
1 TTTTACTTTTTA
3408982 AAAGGGAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
17 9 0.17
18 16 0.30
19 13 0.25
20 15 0.28
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (19 bp):
TTTTACTTTTTATTTTTTA
Found at i:3408928 original size:24 final size:24
Alignment explanation
Indices: 3408901--3408947 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3408891 TAGGTTTTTC
*
3408901 TTTTTCATTTTATTTTTATTTTTAT
1 TTTTTCATTTGA-TTTTATTTTTAT
*
3408926 TTTTTGATTTGATTTTATTTTT
1 TTTTTCATTTGATTTTATTTTT
3408948 TAATCTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTCATTTGATTTTATTTTTAT
Found at i:3408959 original size:18 final size:18
Alignment explanation
Indices: 3408917--3408967 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
3408907 ATTTTATTTT
* *
3408917 TATTTTTATTTTTTGATT
1 TATTTTTATTTTTTAATC
3408935 TGA-TTTTATTTTTTAATC
1 T-ATTTTTATTTTTTAATC
3408953 TATTTTTTATTTTTT
1 TA-TTTTTATTTTTT
3408968 TGTTTTACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 1 0.04
18 15 0.54
19 12 0.43
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (18 bp):
TATTTTTATTTTTTAATC
Found at i:3419543 original size:98 final size:98
Alignment explanation
Indices: 3419407--3419601 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
3419397 TTCAAACACT
* *
3419407 TTAGCCATTGAAGTTTTGACTTCATCTATCCCTCTTTTTATATAGCATGCTTGTCTATCAATTAA
1 TTAGCCATTGAAGTTTTGACTTCATCTATCCCTCTTTTTATATAACATGCTTGTCCATCAATTAA
*
3419472 AGCATTTATTATCGATCTAGTAAGATTTGGTAG
66 AGCAGTTATTATCGATCTAGTAAGATTTGGTAG
* *
3419505 TTAGCTATTGAAGTTTTGACTTCATCTATCCCTTTTTTTATATAACATGCTTGTCCATCAATTAA
1 TTAGCCATTGAAGTTTTGACTTCATCTATCCCTCTTTTTATATAACATGCTTGTCCATCAATTAA
3419570 AGCAGTTATTATCGATCTAGTAAGATTTGGTA
66 AGCAGTTATTATCGATCTAGTAAGATTTGGTA
3419602 AAGGGTTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (98 bp):
TTAGCCATTGAAGTTTTGACTTCATCTATCCCTCTTTTTATATAACATGCTTGTCCATCAATTAA
AGCAGTTATTATCGATCTAGTAAGATTTGGTAG
Found at i:3425241 original size:28 final size:29
Alignment explanation
Indices: 3425200--3425261 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
3425190 TTTTCCATCT
*
3425200 TTTTTATTATTAA-TTTAGTTAATTTTTA
1 TTTTTATTAATAATTTTAGTTAATTTTTA
3425228 TTTTTATTAATAATTTTTAGTTAATTTTTA
1 TTTTTATTAATAA-TTTTAGTTAATTTTTA
3425258 TTTT
1 TTTT
3425262 ATTTTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
30 19 0.61
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (29 bp):
TTTTTATTAATAATTTTAGTTAATTTTTA
Found at i:3425282 original size:21 final size:23
Alignment explanation
Indices: 3425255--3425306 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
3425245 TAGTTAATTT
*
3425255 TTATTTTATT-TTTTATAGAAAA
1 TTATTTTATTATTGTATAGAAAA
*
3425277 TT-TTTT-TTATTGTATTGAAAA
1 TTATTTTATTATTGTATAGAAAA
3425298 TTATTTTAT
1 TTATTTTAT
3425307 AAATACTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 6 0.24
23 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (23 bp):
TTATTTTATTATTGTATAGAAAA
Found at i:3425459 original size:21 final size:21
Alignment explanation
Indices: 3425426--3425474 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
3425416 CTTTTCTTAC
* *
3425426 ATTTTTTTATTATTTTTATTT
1 ATTTTTTGATTATTCTTATTT
* *
3425447 ATTTTTTGGTTATTCTTCTTT
1 ATTTTTTGATTATTCTTATTT
*
3425468 TTTTTTT
1 ATTTTTT
3425475 CAAATTTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (21 bp):
ATTTTTTGATTATTCTTATTT
Found at i:3425530 original size:3 final size:3
Alignment explanation
Indices: 3425515--3425571 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
3425505 TCATTTTCAT
* *
3425515 TTA TTA TTG TTA TTA TTA TTA TTA TTA TCT- TAA GTTA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TTA
3425559 TTA -TA TTA TTA TT
1 TTA TTA TTA TTA TT
3425572 TGTTAAAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3426891 original size:23 final size:22
Alignment explanation
Indices: 3426857--3426917 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
3426847 TCCTCTTTTT
*
3426857 TTTTTAATTTTAATTATTATTA
1 TTTTTAATTTTAATTAATATTA
* *
3426879 TTTTTATTATTTATTTAATATTTAA
1 TTTTTAAT-TTTAATTAATA-TT-A
*
3426904 TTATTAATTTTAAT
1 TTTTTAATTTTAAT
3426918 AAATTTAAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
22 7 0.23
23 9 0.30
24 7 0.23
25 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTAATTTTAATTAATATTA
Found at i:3428896 original size:43 final size:43
Alignment explanation
Indices: 3428844--3428928 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
3428834 TTGCAATCAT
* * *
3428844 TTTAGTTAGTATCATATATTTGTTTCATGTTGCATCATATGCC
1 TTTAGTTAGTATCATATACTTATTTCATGTTACATCATATGCC
*
3428887 TTTAGTTAGTATCATTTACTTATTTCATGTTACATCATATGC
1 TTTAGTTAGTATCATATACTTATTTCATGTTACATCATATGC
3428929 TCGTTGTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (43 bp):
TTTAGTTAGTATCATATACTTATTTCATGTTACATCATATGCC
Found at i:3432293 original size:17 final size:17
Alignment explanation
Indices: 3432271--3432305 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3432261 ATCTTAAAAA
*
3432271 TAATTTTTAAGCATATG
1 TAATTTTTAAGCAGATG
3432288 TAATTTTTAAGCAGATG
1 TAATTTTTAAGCAGATG
3432305 T
1 T
3432306 GCAAGTAGCT
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:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (17 bp):
TAATTTTTAAGCAGATG
Found at i:3442399 original size:24 final size:24
Alignment explanation
Indices: 3442372--3442422 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
3442362 TGAGTTGTAA
*
3442372 TTTAATTTCAATCTTG-ATTTTGAT
1 TTTAATTTCAAT-TTGTATTTAGAT
*
3442396 TTTAATTTTAATTTGTATTTAGAT
1 TTTAATTTCAATTTGTATTTAGAT
3442420 TTT
1 TTT
3442423 TCTATTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (24 bp):
TTTAATTTCAATTTGTATTTAGAT
Found at i:3447541 original size:21 final size:22
Alignment explanation
Indices: 3447500--3447541 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3447490 TCTTTCTTGA
* *
3447500 AAAAAGATGAAAAATATAAAAT
1 AAAAAGATGAAAAAAAGAAAAT
3447522 AAAAA-ATGAAAAAAAGAAAA
1 AAAAAGATGAAAAAAAGAAAA
3447542 AAGAAGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAAAGATGAAAAAAAGAAAAT
Found at i:3449095 original size:46 final size:46
Alignment explanation
Indices: 3449001--3449156 Score: 147
Period size: 46 Copynumber: 3.4 Consensus size: 46
3448991 ATCTTTAAAA
* * * * *
3449001 TTTTCAAATAAGAATTTTTG-AATTTTGGATGTGAAACCCTGAAA-T
1 TTTTCAAATGAGAATCTTTGAAATTTTAGATGTGAAATCAT-AAAGT
*
3449046 TTTTCAAATGAGAATCTTTGAAATTTTATATGTGAAATCATAAAGT
1 TTTTCAAATGAGAATCTTTGAAATTTTAGATGTGAAATCATAAAGT
* * * *
3449092 TTTTTAGAATGAAAACCTTTGAAACTTTAGATGT-AAATCACTAAAGT
1 TTTTCA-AATGAGAATCTTTGAAATTTTAGATGTGAAATCA-TAAAGT
** *
3449139 TTTTTGAATGTGAATCTT
1 TTTTCAAATGAGAATCTT
3449157 AAAGATTTGG
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
45 21 0.23
46 37 0.40
47 34 0.37
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (46 bp):
TTTTCAAATGAGAATCTTTGAAATTTTAGATGTGAAATCATAAAGT
Found at i:3449114 original size:47 final size:46
Alignment explanation
Indices: 3449052--3449148 Score: 133
Period size: 47 Copynumber: 2.1 Consensus size: 46
3449042 AAATTTTTCA
* * * *
3449052 AATGAGAATCTTTGAAATTTTATATGTGAAATCA-TAAAGTTTTTTAG
1 AATGAAAACCTTTGAAACTTTAGATGT-AAATCACTAAAGTTTTTT-G
3449099 AATGAAAACCTTTGAAACTTTAGATGTAAATCACTAAAGTTTTTTG
1 AATGAAAACCTTTGAAACTTTAGATGTAAATCACTAAAGTTTTTTG
3449145 AATG
1 AATG
3449149 TGAATCTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
46 11 0.24
47 34 0.76
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (46 bp):
AATGAAAACCTTTGAAACTTTAGATGTAAATCACTAAAGTTTTTTG
Found at i:3449672 original size:16 final size:17
Alignment explanation
Indices: 3449635--3449672 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
3449625 CTTTAAAAGT
*
3449635 CTTGCAAATCTTTGAATT
1 CTTGCAAATC-TTGAATG
3449653 CTTGCAAATC-TGAATG
1 CTTGCAAATCTTGAATG
3449669 CTTG
1 CTTG
3449673 TGAAACTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (17 bp):
CTTGCAAATCTTGAATG
Found at i:3449683 original size:85 final size:85
Alignment explanation
Indices: 3449556--3449741 Score: 198
Period size: 85 Copynumber: 2.2 Consensus size: 85
3449546 AAATCTTATG
* *
3449556 AATC-TTGCAATTCTTGCAAATCTGAATTCAAGCAAAATTGAAATTCTTAC-AAACCTGAAAATC
1 AATCTTTG-AATTCTTGCAAATCTGAATGCAAGCAAAACTGAAATTCTTACGAAA-CTGAAAATC
* * *
3449619 TTGCGACTTT-AAAAGTCTTGCA
64 TTGCAAATTTGAAAA-ACTTGCA
** ** * * *
3449641 AATCTTTGAATTCTTGCAAATCTGAATGCTTGTGAAACTGAAATTCTTGCGAAATTGAAAATTTT
1 AATCTTTGAATTCTTGCAAATCTGAATGCAAGCAAAACTGAAATTCTTACGAAACTGAAAATCTT
* *
3449706 GCAAATTTGAAAAACTTTCC
66 GCAAATTTGAAAAACTTGCA
3449726 AATCTTTGAATTCTTG
1 AATCTTTGAATTCTTG
3449742 TGAATCTAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
85 74 0.88
86 10 0.12
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (85 bp):
AATCTTTGAATTCTTGCAAATCTGAATGCAAGCAAAACTGAAATTCTTACGAAACTGAAAATCTT
GCAAATTTGAAAAACTTGCA
Found at i:3449694 original size:17 final size:17
Alignment explanation
Indices: 3449649--3449700 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
3449639 CAAATCTTTG
3449649 AATTCTTGC-AAATCTG-
1 AATTCTTGCGAAA-CTGA
* *
3449665 AATGCTTGTGAAACTGA
1 AATTCTTGCGAAACTGA
*
3449682 AATTCTTGCGAAATTGA
1 AATTCTTGCGAAACTGA
3449699 AA
1 AA
3449701 ATTTTGCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (17 bp):
AATTCTTGCGAAACTGA
Found at i:3449707 original size:17 final size:18
Alignment explanation
Indices: 3449681--3449718 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
3449671 TGTGAAACTG
3449681 AAATTCTTGCGAAA-TTGA
1 AAATTCTTGC-AAATTTGA
3449699 AAATT-TTGCAAATTTGA
1 AAATTCTTGCAAATTTGA
3449716 AAA
1 AAA
3449719 ACTTTCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 11 0.58
18 5 0.26
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (18 bp):
AAATTCTTGCAAATTTGA
Found at i:3450234 original size:24 final size:24
Alignment explanation
Indices: 3450207--3450257 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
3450197 TGAGTTGTAA
*
3450207 TTTAATTTCAATCTT-GATTTTGAT
1 TTTAATTTCAAT-TTGGATTTAGAT
*
3450231 TTTAATTTTAATTTGGATTTAGAT
1 TTTAATTTCAATTTGGATTTAGAT
3450255 TTT
1 TTT
3450258 TCTATTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.61
Consensus pattern (24 bp):
TTTAATTTCAATTTGGATTTAGAT
Found at i:3450859 original size:25 final size:25
Alignment explanation
Indices: 3450812--3450859 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
3450802 GTTCTGGGAA
*
3450812 TTTTTTTGTTGAATTCTAGTTTTTT
1 TTTTTTTGTTGAATTCTAATTTTTT
3450837 TTTTTTTGTTGAATT-TGAATTTT
1 TTTTTTTGTTGAATTCT-AATTTT
3450860 GGGCAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (25 bp):
TTTTTTTGTTGAATTCTAATTTTTT
Found at i:3453323 original size:22 final size:22
Alignment explanation
Indices: 3453298--3453385 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
3453288 ACTTGTATCT
*
3453298 AAATGTACATATCCCAAAAGCA
1 AAATGTACATATCCTAAAAGCA
* * *
3453320 AAATGAACATATTCTAACAGCA
1 AAATGTACATATCCTAAAAGCA
** * *
3453342 CTATGTGCATATCCTAAAA-AA
1 AAATGTACATATCCTAAAAGCA
*
3453363 ACAATGTACATATCCTTAAAGCA
1 A-AATGTACATATCCTAAAAGCA
3453386 TTATGTAAAG
Statistics
Matches: 48, Mismatches: 16, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
21 1 0.02
22 46 0.96
23 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.24
Consensus pattern (22 bp):
AAATGTACATATCCTAAAAGCA
Found at i:3454322 original size:16 final size:16
Alignment explanation
Indices: 3454301--3454333 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3454291 TACTTCTATG
3454301 ATTCCCCTCTTTTTGT
1 ATTCCCCTCTTTTTGT
3454317 ATTCCCCTCTTTTTGT
1 ATTCCCCTCTTTTTGT
3454333 A
1 A
3454334 AATCCCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.30, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTCCCCTCTTTTTGT
Found at i:3454339 original size:17 final size:16
Alignment explanation
Indices: 3454303--3454341 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3454293 CTTCTATGAT
*
3454303 TCCCCTCTTTTTGTAT
1 TCCCCTCTTTTTGTAA
3454319 TCCCCTCTTTTTGTAAA
1 TCCCCTCTTTTTGT-AA
3454336 TCCCCT
1 TCCCCT
3454342 TTTATAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.10, C:0.36, G:0.05, T:0.49
Consensus pattern (16 bp):
TCCCCTCTTTTTGTAA
Found at i:3457683 original size:61 final size:61
Alignment explanation
Indices: 3457618--3457754 Score: 168
Period size: 61 Copynumber: 2.2 Consensus size: 61
3457608 TCGCTACAAC
** * * * *
3457618 TATAATTATGAAAATA-CTCTTTTATCATCATTAGCCAAAATTACTATAATATTATTTTTAT
1 TATAATTATGAAAATACCTCTCATATCATAATTAGCCAAAATTACTATAATACT-TTCTAAT
* * *
3457679 TATAATTACGAAAATACCTCTCATATTATAATTAGCTAAAATTACTATAATACTTTCTAAT
1 TATAATTATGAAAATACCTCTCATATCATAATTAGCCAAAATTACTATAATACTTTCTAAT
*
3457740 CATAATTATGAAAAT
1 TATAATTATGAAAAT
3457755 GCATCCTATC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 33 0.52
62 31 0.48
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (61 bp):
TATAATTATGAAAATACCTCTCATATCATAATTAGCCAAAATTACTATAATACTTTCTAAT
Found at i:3458732 original size:21 final size:23
Alignment explanation
Indices: 3458682--3458732 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
3458672 ATCCATACAA
*
3458682 TCATAATTATGAAAATGCCCTCC
1 TCATAATTATGAAAATGACCTCC
3458705 TACCATAATTATGAAAAT-ACCT-C
1 T--CATAATTATGAAAATGACCTCC
3458728 TCATA
1 TCATA
3458733 TTACAATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.16
23 3 0.12
24 3 0.12
25 15 0.60
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (23 bp):
TCATAATTATGAAAATGACCTCC
Found at i:3459531 original size:88 final size:88
Alignment explanation
Indices: 3459420--3459597 Score: 302
Period size: 88 Copynumber: 2.0 Consensus size: 88
3459410 ATCATAATGT
* *
3459420 CTTTCTAATTGATTGACAATTGAATGACTCGCATTCAAATCAACTATAATGCCCCTCATTCTATA
1 CTTTCTAATTGATTGACAATTGAATGACACGCATTCAAATCAACTATAACGCCCCTCATTCTATA
3459485 ATTAACTAAAATTATTATATTAC
66 ATTAACTAAAATTATTATATTAC
* **
3459508 CTTTCTAATTGCTTGACAATTGAATGACACGCATTCAAATCAACTATAACGCCCCTTTTTCTATA
1 CTTTCTAATTGATTGACAATTGAATGACACGCATTCAAATCAACTATAACGCCCCTCATTCTATA
*
3459573 ATTAGCTAAAATTATTATATTAC
66 ATTAACTAAAATTATTATATTAC
3459596 CT
1 CT
3459598 CTTTTAACAT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (88 bp):
CTTTCTAATTGATTGACAATTGAATGACACGCATTCAAATCAACTATAACGCCCCTCATTCTATA
ATTAACTAAAATTATTATATTAC
Found at i:3460862 original size:20 final size:20
Alignment explanation
Indices: 3460837--3460885 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
3460827 AAATAAAATA
3460837 AACAAAATAAGTAAAATAAC
1 AACAAAATAAGTAAAATAAC
3460857 AACAAAA-AAGTAAAATAAC
1 AACAAAATAAGTAAAATAAC
3460876 ATA-AAAATAA
1 A-ACAAAATAA
3460886 AATCAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.14
Consensus pattern (20 bp):
AACAAAATAAGTAAAATAAC
Found at i:3460869 original size:19 final size:19
Alignment explanation
Indices: 3460820--3460876 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
3460810 TAATAAAAAT
3460820 AACAATAAAA-TAAAAT-A-
1 AACAA-AAAAGTAAAATAAC
3460837 AACAAAATAAGTAAAATAAC
1 AACAAAA-AAGTAAAATAAC
3460857 AACAAAAAAGTAAAATAAC
1 AACAAAAAAGTAAAATAAC
3460876 A
1 A
3460877 TAAAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.06
17 7 0.19
18 6 0.17
19 14 0.39
20 7 0.19
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.14
Consensus pattern (19 bp):
AACAAAAAAGTAAAATAAC
Found at i:3460882 original size:19 final size:18
Alignment explanation
Indices: 3460815--3460882 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
3460805 ATGAATAATA
*
3460815 AAAATAAC-AATAAAA-T
1 AAAATAACAAAAAAAAGT
*
3460831 AAAATAA-ACAAAATAAGT
1 AAAATAACA-AAAAAAAGT
3460849 AAAATAACAACAAAAAAGT
1 AAAATAACAA-AAAAAAGT
*
3460868 AAAATAACATAAAAA
1 AAAATAACAAAAAAA
3460883 TAAAATCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.16
17 5 0.12
18 14 0.33
19 17 0.40
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAACAAAAAAAAGT
Found at i:3461813 original size:3 final size:3
Alignment explanation
Indices: 3461807--3461832 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3461797 AATAGTAATA
3461807 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
3461833 AAAAATGAAA
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:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:3463271 original size:81 final size:83
Alignment explanation
Indices: 3463124--3463275 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 83
3463114 AAGGAATTTG
* *
3463124 AAAATTTGAACTTTGAATACTCAAATATCACCACTTAGTGAATTTGATTAAAGCTCAGATAGCAC
1 AAAATTTAAACTTTGAATACTCAAATATCACCACTGAGTGAATTTGATTAAAGCTCAGATAGCAC
3463189 CATTGAGAAAGTTTTAAA
66 CATTGAGAAAGTTTTAAA
* *
3463207 AAAATTTAAACTTT-AATACTCAAATATCA-CA-TCGAGTGAATTTGATTAAAGCTCGGATATCA
1 AAAATTTAAACTTTGAATACTCAAATATCACCACT-GAGTGAATTTGATTAAAGCTCAGATAGCA
3463269 CCATTGA
65 CCATTGA
3463276 AAGAGTGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
80 1 0.02
81 35 0.55
82 15 0.23
83 13 0.20
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (83 bp):
AAAATTTAAACTTTGAATACTCAAATATCACCACTGAGTGAATTTGATTAAAGCTCAGATAGCAC
CATTGAGAAAGTTTTAAA
Found at i:3463397 original size:110 final size:109
Alignment explanation
Indices: 3463208--3463406 Score: 272
Period size: 110 Copynumber: 1.8 Consensus size: 109
3463198 AGTTTTAAAA
* * * * * * *
3463208 AAATTTAAACTTTAATACTCAAATATCACATCGAGTGAATTTGATTAAAGCTCGGATATCACCAT
1 AAATTCAAACTTGAATACTCAAATATCACACCAAGTGAATTTGATTAAAACTCAGATATCACCAC
3463273 TGAAAGAGTGTTGATAAAAGTTTGGATTAGAAAAAATTTTAATG
66 TGAAAGAGTGTTGATAAAAGTTTGGATTAGAAAAAATTTTAATG
** * *
3463317 AAATTCAAACTTGAATACTTGAATATCACCACCAAGTGAATTTGATTAAAATTTAGATATCACCA
1 AAATTCAAACTTGAATACTCAAATATCA-CACCAAGTGAATTTGATTAAAACTCAGATATCACCA
* *
3463382 CTGAGAGAGTTTTGATAAAAGTTTG
65 CTGAAAGAGTGTTGATAAAAGTTTG
3463407 CATTTCACCA
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
109 24 0.32
110 52 0.68
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33
Consensus pattern (109 bp):
AAATTCAAACTTGAATACTCAAATATCACACCAAGTGAATTTGATTAAAACTCAGATATCACCAC
TGAAAGAGTGTTGATAAAAGTTTGGATTAGAAAAAATTTTAATG
Found at i:3464300 original size:15 final size:16
Alignment explanation
Indices: 3464276--3464310 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
3464266 CACCAACCAT
3464276 AAAAACAGAAAC-ACA
1 AAAAACAGAAACAACA
*
3464291 AAAAATAGAAACAACA
1 AAAAACAGAAACAACA
3464307 AAAA
1 AAAA
3464311 GGAGACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.77, C:0.14, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAACAGAAACAACA
Found at i:3465461 original size:16 final size:15
Alignment explanation
Indices: 3465426--3465542 Score: 101
Period size: 16 Copynumber: 7.5 Consensus size: 15
3465416 TAGGTTTTTA
* *
3465426 AAACCCCTGAAATCTG
1 AAACCCCTAAAATC-C
3465442 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
* *
3465457 TAAACCCTTAAAATTCA
1 -AAACCCCTAAAA-TCC
* *
3465474 AAATCCCTTAAATCC
1 AAACCCCTAAAATCC
3465489 AAACCCCTAAAAATCC
1 AAACCCCT-AAAATCC
3465505 AAAACCCCCTAAAATCC
1 -AAA-CCCCTAAAATCC
* *
3465522 AAACCCGT-AAATCA
1 AAACCCCTAAAATCC
3465536 AAACCCC
1 AAACCCC
3465543 AAACCTTAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
14 11 0.13
15 13 0.16
16 42 0.51
17 12 0.14
18 5 0.06
ACGTcount: A:0.45, C:0.35, G:0.03, T:0.17
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:3465487 original size:32 final size:32
Alignment explanation
Indices: 3465445--3465542 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
3465435 AAATCTGAAA
*
3465445 CCCCTAAAATCCTAAACCCTTAAAATTCAAAA-
1 CCCCTAAAATCC-AAACCCTTAAAATCCAAAAC
* * *
3465477 TCCCTTAAATCCAAACCCCTAAAAATCCAAAAC
1 CCCCTAAAATCCAAA-CCCTTAAAATCCAAAAC
*
3465510 CCCCTAAAATCCAAACCCGT-AAAT-CAAAAC
1 CCCCTAAAATCCAAACCCTTAAAATCCAAAAC
3465540 CCC
1 CCC
3465543 AAACCTTAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
30 9 0.16
31 7 0.12
32 27 0.48
33 13 0.23
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (32 bp):
CCCCTAAAATCCAAACCCTTAAAATCCAAAAC
Found at i:3465533 original size:47 final size:47
Alignment explanation
Indices: 3465442--3465542 Score: 125
Period size: 47 Copynumber: 2.1 Consensus size: 47
3465432 CTGAAATCTG
* * * *
3465442 AAACCCCTAAAATCCTAAACCCTTAAAATTCAAAATCCCTTAAATCC
1 AAACCCCTAAAATCCAAAACCCCTAAAATTCAAAATCCCGTAAATCA
*
3465489 AAACCCCTAAAAATCCAAAACCCCCTAAAA-TCCAAA-CCCGTAAATCA
1 AAACCCCT-AAAATCCAAAA-CCCCTAAAATTCAAAATCCCGTAAATCA
3465536 AAACCCC
1 AAACCCC
3465543 AAACCTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 24 0.51
48 15 0.32
49 8 0.17
ACGTcount: A:0.47, C:0.36, G:0.01, T:0.17
Consensus pattern (47 bp):
AAACCCCTAAAATCCAAAACCCCTAAAATTCAAAATCCCGTAAATCA
Found at i:3472286 original size:20 final size:21
Alignment explanation
Indices: 3472238--3472295 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 21
3472228 TGGGGCATAA
3472238 AAAAATAAAACAAAAAAAGAG
1 AAAAATAAAACAAAAAAAGAG
* *
3472259 -TAAA-AAAA-AGAAAAAGAG
1 AAAAATAAAACAAAAAAAGAG
3472277 AAAAATAAAACAAACAAAA
1 AAAAATAAAACAAA-AAAA
3472296 AGGATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 9 0.31
19 7 0.24
20 7 0.24
21 2 0.07
22 4 0.14
ACGTcount: A:0.81, C:0.05, G:0.09, T:0.05
Consensus pattern (21 bp):
AAAAATAAAACAAAAAAAGAG
Found at i:3472687 original size:19 final size:19
Alignment explanation
Indices: 3472650--3472694 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
3472640 AATTAAAATT
3472650 CAAAAAAAAAAAGAGAAAA
1 CAAAAAAAAAAAGAGAAAA
*
3472669 CAAGAAAAAAAAG-GAAAAA
1 CAAAAAAAAAAAGAG-AAAA
3472688 CAAAAAA
1 CAAAAAA
3472695 TATGTACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (19 bp):
CAAAAAAAAAAAGAGAAAA
Found at i:3474033 original size:41 final size:41
Alignment explanation
Indices: 3473988--3474076 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 41
3473978 TTAAAGTCTT
3473988 TGTTTAAGAAAAACC-ATTCTCAATCAAGATTTCAAAGCCTC
1 TGTTTAAGAAAAACCAATT-TCAATCAAGATTTCAAAGCCTC
* ** *
3474029 TGTTTAATAGGAACCAATTTCAATTAAGATTTCAAAGCCTC
1 TGTTTAAGAAAAACCAATTTCAATCAAGATTTCAAAGCCTC
3474070 TGTTTAA
1 TGTTTAA
3474077 AGGGAACCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 40 0.93
42 3 0.07
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (41 bp):
TGTTTAAGAAAAACCAATTTCAATCAAGATTTCAAAGCCTC
Found at i:3474083 original size:41 final size:41
Alignment explanation
Indices: 3473999--3474084 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
3473989 GTTTAAGAAA
3473999 AACCATTCTCAATCAAGATTTCAAAGCCTCTGTTTAATAGG
1 AACCATTCTCAATCAAGATTTCAAAGCCTCTGTTTAATAGG
*
3474040 AACCAATT-TCAATTAAGATTTCAAAGCCTCTGTTTAA-AGGG
1 AACC-ATTCTCAATCAAGATTTCAAAGCCTCTGTTTAATA-GG
3474081 AACC
1 AACC
3474085 TTCCTCAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
40 1 0.02
41 38 0.90
42 3 0.07
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (41 bp):
AACCATTCTCAATCAAGATTTCAAAGCCTCTGTTTAATAGG
Found at i:3474288 original size:23 final size:22
Alignment explanation
Indices: 3474238--3474317 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
3474228 ATAATCTCTG
* *
3474238 AGACCTCCGGGCATAACTTTC-A
1 AGACCTCTGGGCATGA-TTTCTA
*
3474260 AGACCTCTGGGCATGATTCTGTA
1 AGACCTCTGGGCATGATT-TCTA
* *
3474283 AGACCTTTGGCCATGATTTCTA
1 AGACCTCTGGGCATGATTTCTA
*
3474305 AG-CCTCTGAGCAT
1 AGACCTCTGGGCAT
3474318 AAATTTGATT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 10 0.21
22 20 0.43
23 17 0.36
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (22 bp):
AGACCTCTGGGCATGATTTCTA
Found at i:3474433 original size:23 final size:23
Alignment explanation
Indices: 3474384--3474434 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
3474374 ATCCCAGTCG
* * *
3474384 ATTTTGTAAGACCTCCGGGTATG
1 ATTTTGTAAGACCTCCAGGCATA
3474407 ATTTT-TAAGACCTCCAGGCATA
1 ATTTTGTAAGACCTCCAGGCATA
*
3474429 AATTTG
1 ATTTTG
3474435 ATTTATGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (23 bp):
ATTTTGTAAGACCTCCAGGCATA
Found at i:3474471 original size:110 final size:110
Alignment explanation
Indices: 3474274--3474644 Score: 332
Period size: 110 Copynumber: 3.4 Consensus size: 110
3474264 CTCTGGGCAT
* ** * ** * *
3474274 GATTCTGTAAGACCTTTGGCCATGATTTCTAAG-CCT-CTGAGCATAAATTTGATTCGCGATGTT
1 GATTCTGTAAGACCTTCGGGTATGATTTCTAAGACCTCCAG-GCATAAATTCAATTCACGGTGTT
* * * * ** *
3474337 ATCCCAATCGATTCTTTATATTTTGACTTGCGGTGTTATCCCAGTC
65 ATCTCGATCGATTCCTCACCTTTTGACTTGTGGTGTTATCCCAGTC
* * * ** * *
3474383 GATTTTGTAAGACCTCCGGGTATGATTTTTAAGACCTCCAGGCATAAATTTGATTTATGGTGTTA
1 GATTCTGTAAGACCTTCGGGTATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACGGTGTTA
* ** * *
3474448 TCTCGATTGATTCCTCATTTTTTGACTTATGGTGTTATCCCATTC
66 TCTCGATCGATTCCTCACCTTTTGACTTGTGGTGTTATCCCAGTC
* * * * *
3474493 GATTCTGTAAGACCTTTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGGTGTTA
1 GATTCTGTAAGACCTTCGGGTATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACGGTGTTA
* * * * ** *
3474558 TCTTGATCGATTCTTTACCTTTCGACTTGTAATGTTATCCCAGTT
66 TCTCGATCGATTCCTCACCTTTTGACTTGTGGTGTTATCCCAGTC
* * *
3474603 AATTCTGTAAGACCTTCGGATATGATTCTGTAAGACCTCCAG
1 GATTCTGTAAGACCTTCGGGTATGATT-TCTAAGACCTCCAG
3474645 ACATGATTTC
Statistics
Matches: 208, Mismatches: 51, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
109 27 0.13
110 167 0.80
111 14 0.07
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (110 bp):
GATTCTGTAAGACCTTCGGGTATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACGGTGTTA
TCTCGATCGATTCCTCACCTTTTGACTTGTGGTGTTATCCCAGTC
Found at i:3474630 original size:23 final size:23
Alignment explanation
Indices: 3474604--3474664 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
3474594 ATCCCAGTTA
* * *
3474604 ATTCTGTAAGACCTTCGGATATG
1 ATTCTGTAAGACCTCCAGACATG
3474627 ATTCTGTAAGACCTCCAGACATG
1 ATTCTGTAAGACCTCCAGACATG
*
3474650 ATT-TCTAAGACCTCC
1 ATTCTGTAAGACCTCC
3474665 GGGCATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCAGACATG
Found at i:3474865 original size:265 final size:266
Alignment explanation
Indices: 3474493--3476318 Score: 945
Period size: 243 Copynumber: 7.0 Consensus size: 266
3474483 TATCCCATTC
* * * *
3474493 GATTCTGTAAGACCTTTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGGTGTTA
1 GATTCTGTAAAACCTCTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGATATTA
* * *
3474558 TCTTGATCGATTCTTTACCTTTCGACTTGTAATGTTATCCCAGTTAATTCTGTAAGACCT-TCGG
66 TCTCGATCGATTCTTCACCTTTCGACTTGTAATGTTATCCCAGTCAATTCTGTAAGACCTCT-GG
* * *
3474622 ATATGATTCTGTAAGACCTCCAGACATGATTTCTAAGACCTCCGGGCATAAATTTAATTTACGAT
130 ACATGATTCTGTAAAACCTCCAGACATGATTTCTAAGACCTCCGGGCATAAATTTAATTCACGAT
* **
3474687 GTTATCCCAATCGATTCTTTATCTTTCGACTTATGGTGTTATCCC-GTCGATTCTGTAAGACCTC
195 GTTATCCCAATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTCGATTCTGTAAGACCTC
3474751 CAAGCAT
260 CAAGCAT
* * * * ** *
3474758 GATTCTGTAAAACCTCTGGGCATGATTTCTAAGACTTTTAGGCATAACTTTGATTTGCGATATTA
1 GATTCTGTAAAACCTCTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGATATTA
* * * *
3474823 TCTCGATCGATTCTTCATCTTTCGACTTGTAGTGTTATCCCAGTCGATTCTGTAAGACCTCTGGG
66 TCTCGATCGATTCTTCACCTTTCGACTTGTAATGTTATCCCAGTCAATTCTGTAAGACCTCTGGA
* * * * * *
3474888 CATGATTCTGTAAAACCTCCGGGCATGATTTCTAATACTTCCGGGCATAAATTTGATTCACGGTG
131 CATGATTCTGTAAAACCTCCAGACATGATTTCTAAGACCTCCGGGCATAAATTTAATTCACGATG
* * * * * *
3474953 TTATCTCGATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTCGATTTTGTAAAATCTAC
196 TTATCCCAATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTCGATTCTGTAAGACCTCC
*
3475018 GAGCAT
261 AAGCAT
* * * * *
3475024 GATT-TCTAAGACCTCT-A--A-G----C----A----TA---AT---TTCGATTCGCGGTGTTA
1 GATTCTGTAAAACCTCTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGATATTA
* * ** ** ** *
3475066 TCCCGATCGATTCTTTATTTTTTAACTTGTAATGTTATCATAGTCAATTCTGTAAGACCT-TCAG
66 TCTCGATCGATTCTTCACCTTTCGACTTGTAATGTTATCCCAGTCAATTCTGTAAGACCTCT-GG
* * * * * * ** *
3475130 ACATGATTCTCTAAGACCTGCAGACATGATTTTTAAGACCTTCGAGCAT-AATCTCGATTCACGG
130 ACATGATTCTGTAAAACCTCCAGACATGATTTCTAAGACCTCCGGGCATAAAT-TTAATTCACGA
* *** ** *
3475194 TGTTATCCCGATCGATTCTTTATCTTTCGACT-TGTGATGTTATCATAATCGATTCTGTAAGACC
194 TGTTATCCCAATCGATTCTTTATCTTTCGACTAACAG-TGTTATCCCAGTCGATTCTGTAAGACC
** *
3475258 TCCGGGTAT
258 TCCAAGCAT
* * * * *
3475267 GATT-TCTAAGA-C-CT---C-------C---GA-----A--CATAAATTCGATTCACGATGTTA
1 GATTCTGTAAAACCTCTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGATATTA
* * * * * ** * **
3475309 TCCCGATCGATTTTTTATCTTTCAACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTCCAGA
66 TCTCGATCGATTCTTCACCTTTCGACTTGTAATGTTATCCCAGTCAATTCTGTAAGACCTCTGGA
* * * * * * *
3475374 CATGATTTTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGTATAATTTTGATTCGCGATG
131 CATGATTCTGTAAAACCTCCAGACATGATTTCTAAGACCTCCGGGCATAAATTTAATTCACGATG
** * * * * * * *
3475439 TTATCCTGATCTATTTTTTATCTTTTGACTTACGGTGTTATCCCAGTTGATTCTGTAAGACCT-T
196 TTATCCCAATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTCGATTCTGTAAGACCTCC
* *
3475503 AGGATAT
261 AAG-CAT
* * * * * * *
3475510 GATTTTGTAAGACCTCCGGGCATGATTTCTAAGACTTCCAGGCAT-AATCTCAATTCGCGATGTT
1 GATTCTGTAAAACCTCTGAGCATGATTTCTAAGACCTCTAGGCATAAAT-TCAATTCGCGATATT
* * * * * ** * ** * **
3475574 ATC-CTGATCAATTCTTTATCTTTCAACTTATGGTGTTATCCCAATTGATTTTGTAAGACCTCCA
65 ATCTC-GATCGATTCTTCACCTTTCGACTTGTAATGTTATCCCAGTCAATTCTGTAAGACCTCTG
* * * * * ** *
3475638 GACACGTTTCTGTAAGACCTTC-GAGCATGATTTCTAAGACCTCCGAGCAT-AATCTCGATTCGC
129 GACATGATTCTGTAAAACCTCCAGA-CATGATTTCTAAGACCTCCGGGCATAAAT-TTAATTCAC
* * * * * ** * * *
3475701 GGTGTTATCCCGATCGATTCTTTATTTTTCAACTTATGGTGTTATCTCAATCAATTCTGTAAGAC
192 GATGTTATCCCAATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTCGATTCTGTAAGAC
3475766 CTCCGAA-CA-
257 CTCC-AAGCAT
* * * * * * * * * *
3475775 CATTTTTGTAAAACCTCCGAGCATGCTTTCTAAGACCTC-CGAGCATAATTTCGATTTG-TAGTG
1 GA-TTCTGTAAAACCTCTGAGCATGATTTCTAAGACCTCTAG-GCATAAATTCAATTCGCGA-TA
* * * * * * ** ** *
3475838 TTATCCCAATTGATTCTTTA-TTTTTGACTTGTGGTGTTATTTC-GATCAATTCTGTAAGA-CTT
63 TTATCTCGATCGATTCTTCACCTTTCGACTTGTAATGTTATCCCAG-TCAATTCTGTAAGACCTC
* * * * * * *
3475900 TCGGACATGATTCTCTAAGATCTCAAGGCATGATTTTTAAGACCTCCGAGCATGATTTCTAAGAC
127 T-GGACATGATTCTGTAAAACCTCCAGACATGATTTCTAAGACCTCCGGGC---A----TAA-A-
** ** **** *
3475965 CTTCGAGCATAATTTCGATTCGCAGTGTTATCCTGATACATTCTTTATCTTTCGACTTGTGGTAT
182 -TT------TAA-TTC-A--CG-A-TGTTATCCCAATCGATTCTTTATCTTTCGACTAACAGTGT
* **
3476030 TATCCTAGTCGATTCTGTAAGACCTCCGGGCAT
234 TATCCCAGTCGATTCTGTAAGACCTCCAAGCAT
* * * * * * *
3476063 GATTTTGTAAGACCTCTGGGCATGATTTCTAAGATCTCTAGGCATAATTTCGATTCGCGATGTTA
1 GATTCTGTAAAACCTCTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGATATTA
* * * * * ** * * *
3476128 TCCCAATCGATTTTTTATCTTTCGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTCCGGG
66 TCTCGATCGATTCTTCACCTTTCGACTTGTAATGTTATCCCAGTCAATTCTGTAAGACCTCTGGA
* * * * * * * * *
3476193 CATGATTCTATAAGACCTTCGGACATGATTTCTAAGACCTCCAGGCAT-AATTTTATTCGCGGTA
131 CATGATTCTGTAAAACCTCCAGACATGATTTCTAAGACCTCCGGGCATAAATTTAATTCACGATG
* * ** * * *
3476257 TTATCCTAATCGATTCTTTATCTTTCGACTTATGGTGTTATCCTAGTCGATTTTATAAGACC
196 TTATCCCAATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTCGATTCTGTAAGACC
3476319 CTATGCATGA
Statistics
Matches: 1240, Mismatches: 239, Indels: 164
0.75 0.15 0.10
Matches are distributed among these distances:
239 2 0.00
240 3 0.00
241 2 0.00
242 8 0.01
243 359 0.29
244 9 0.01
245 1 0.00
246 3 0.00
249 3 0.00
253 1 0.00
256 1 0.00
257 1 0.00
259 2 0.00
261 1 0.00
262 1 0.00
264 3 0.00
265 347 0.28
266 263 0.21
267 5 0.00
268 2 0.00
270 3 0.00
271 2 0.00
272 1 0.00
273 1 0.00
274 1 0.00
275 1 0.00
276 1 0.00
277 2 0.00
279 1 0.00
280 1 0.00
281 2 0.00
282 3 0.00
285 3 0.00
287 124 0.10
288 74 0.06
289 3 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (266 bp):
GATTCTGTAAAACCTCTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGATATTA
TCTCGATCGATTCTTCACCTTTCGACTTGTAATGTTATCCCAGTCAATTCTGTAAGACCTCTGGA
CATGATTCTGTAAAACCTCCAGACATGATTTCTAAGACCTCCGGGCATAAATTTAATTCACGATG
TTATCCCAATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTCGATTCTGTAAGACCTCC
AAGCAT
Found at i:3474894 original size:23 final size:23
Alignment explanation
Indices: 3474868--3474935 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
3474858 TATCCCAGTC
* *
3474868 GATTCTGTAAGACCTCTGGGCAT
1 GATTCTGTAAAACCTCCGGGCAT
3474891 GATTCTGTAAAACCTCCGGGCAT
1 GATTCTGTAAAACCTCCGGGCAT
* * *
3474914 GATT-TCTAATACTTCCGGGCAT
1 GATTCTGTAAAACCTCCGGGCAT
3474936 AAATTTGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 15 0.38
23 25 0.62
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (23 bp):
GATTCTGTAAAACCTCCGGGCAT
Found at i:3475024 original size:133 final size:132
Alignment explanation
Indices: 3474493--3475027 Score: 597
Period size: 133 Copynumber: 4.0 Consensus size: 132
3474483 TATCCCATTC
* ** * * * * *
3474493 GATTCTGTAAGACCTTTGAGCATGATTTCTAAGACCTCTAGGCATAAATTCAATTCGCGGTGTTA
1 GATTCTGTAAAACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAAATTTAATTCACGATGTTA
* * * * **
3474558 TCTTGATCGATTCTTTACCTTTCGACTTGTAATGTTATCCCAGTTAATTCTGTAAGACCTTCG-G
66 TCTCGATCGATTCTTTATCTTTCGACTTATAGTGTTATCCCAGTCGATTCTGTAAGACC-TCGAG
*
3474622 ATAT
130 -CAT
* * * * *
3474626 GATTCTGTAAGACCTCCAGACATGATTTCTAAGACCTCCGGGCATAAATTTAATTTACGATGTTA
1 GATTCTGTAAAACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAAATTTAATTCACGATGTTA
* * * *
3474691 TCCCAATCGATTCTTTATCTTTCGACTTATGGTGTTATCCC-GTCGATTCTGTAAGACCTCCAAG
66 TCTCGATCGATTCTTTATCTTTCGACTTATAGTGTTATCCCAGTCGATTCTGTAAGACCT-CGAG
3474755 CAT
130 CAT
* * ** * * ** *
3474758 GATTCTGTAAAACCTCTGGGCATGATTTCTAAGACTTTTAGGCATAACTTTGATTTGCGATATTA
1 GATTCTGTAAAACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAAATTTAATTCACGATGTTA
* * *
3474823 TCTCGATCGATTCTTCATCTTTCGACTTGTAGTGTTATCCCAGTCGATTCTGTAAGACCTCTGGG
66 TCTCGATCGATTCTTTATCTTTCGACTTATAGTGTTATCCCAGTCGATTCTGTAAGACCTC-GAG
3474888 CAT
130 CAT
* * * * *
3474891 GATTCTGTAAAACCTCCGGGCATGATTTCTAATACTTCCGGGCATAAATTTGATTCACGGTGTTA
1 GATTCTGTAAAACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAAATTTAATTCACGATGTTA
* * * * *
3474956 TCTCGATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTCGATTTTGTAAAATCTACGAG
66 TCTCGATCGATTCTTTATCTTTCGACTTATAGTGTTATCCCAGTCGATTCTGTAAGACCT-CGAG
3475021 CAT
130 CAT
3475024 GATT
1 GATT
3475028 TCTAAGACCT
Statistics
Matches: 338, Mismatches: 59, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
131 1 0.00
132 108 0.32
133 228 0.67
134 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (132 bp):
GATTCTGTAAAACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAAATTTAATTCACGATGTTA
TCTCGATCGATTCTTTATCTTTCGACTTATAGTGTTATCCCAGTCGATTCTGTAAGACCTCGAGC
AT
Found at i:3475102 original size:110 final size:110
Alignment explanation
Indices: 3474891--3475148 Score: 268
Period size: 110 Copynumber: 2.3 Consensus size: 110
3474881 CTCTGGGCAT
* * * * **
3474891 GATTCTGTAAAACCTCCGGGCATGATTTCTAATACTTCCGGGCATAAATTTGATTCACGGTGTTA
1 GATTCTGTAAAACCTACGAGCATGATTTCTAAGACCTCCAAGCATAAATTTGATTCACGGTGTTA
* * * *
3474956 TCTCGATCGATTCTTTATCTTTCGACTAACAGTGTTATCCCAGTC
66 TCCCGATCGATTCTTTATCTTTCAACTAACAATGTTATCACAGTC
* * * *
3475001 GATTTTGTAAAATCTACGAGCATGATTTCTAAGACCTCTAAGCAT-AATTTCGATTCGCGGTGTT
1 GATTCTGTAAAACCTACGAGCATGATTTCTAAGACCTCCAAGCATAAATTT-GATTCACGGTGTT
* * *** *
3475065 ATCCCGATCGATTCTTTATTTTTTAACTTGTAATGTTATCATAGTC
65 ATCCCGATCGATTCTTTATCTTTCAACTAACAATGTTATCACAGTC
* * *
3475111 AATTCTGTAAGACCTTC-AGACATGATTCTCTAAGACCT
1 GATTCTGTAAAACCTACGAG-CATGATT-TCTAAGACCT
3475149 GCAGACATGA
Statistics
Matches: 120, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
109 7 0.06
110 103 0.86
111 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (110 bp):
GATTCTGTAAAACCTACGAGCATGATTTCTAAGACCTCCAAGCATAAATTTGATTCACGGTGTTA
TCCCGATCGATTCTTTATCTTTCAACTAACAATGTTATCACAGTC
Found at i:3475138 original size:23 final size:23
Alignment explanation
Indices: 3475112--3475172 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
3475102 ATCATAGTCA
*
3475112 ATTCTGTAAGACCTTCAGACATG
1 ATTCTCTAAGACCTTCAGACATG
*
3475135 ATTCTCTAAGACCTGCAGACATG
1 ATTCTCTAAGACCTTCAGACATG
*
3475158 ATT-TTTAAGACCTTC
1 ATTCTCTAAGACCTTC
3475173 GAGCATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 10 0.29
23 24 0.71
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (23 bp):
ATTCTCTAAGACCTTCAGACATG
Done.