Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 92 of 284
Found at i:30305015 original size:4 final size:4
Alignment explanation
Indices: 30305006--30305032 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
30304996 CGGGCCCATA
30305006 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
30305033 CAACAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:30306491 original size:19 final size:18
Alignment explanation
Indices: 30306408--30306526 Score: 74
Period size: 16 Copynumber: 6.7 Consensus size: 18
30306398 TATATGCATC
* *
30306408 TTTATAAATTTTGTTATA
1 TTTATATATTTTATTATA
30306426 TGTTATAT-TTTTATTATA
1 T-TTATATATTTTATTATA
* *
30306444 TATATTAATTATTCTATTATA
1 TTTA-T-A-TATTTTATTATA
30306465 -TT-TATATTTTATTATA
1 TTTATATATTTTATTATA
30306481 TGTTATATATTTT-TTACTA
1 T-TTATATATTTTATTA-TA
*
30306500 --TATATATTAT-TTAT-
1 TTTATATATTTTATTATA
30306514 TTTACTATATTTT
1 TTTA-TATATTTT
30306527 TATATGTAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
15 1 0.01
16 25 0.31
17 10 0.12
18 18 0.22
19 16 0.20
20 2 0.02
21 9 0.11
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:30306495 original size:21 final size:23
Alignment explanation
Indices: 30306477--30306531 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
30306467 TATATTTTAT
*
30306477 TATATGTTATATATTTTTTACTA
1 TATATATTATATATTTTTTACTA
*
30306500 TATATATTAT-T-TATTTTACTA
1 TATATATTATATATTTTTTACTA
*
30306521 TAT-TTTTATAT
1 TATATATTATAT
30306532 GTAAAATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 1 0.04
23 9 0.32
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATATTATATATTTTTTACTA
Found at i:30306503 original size:58 final size:55
Alignment explanation
Indices: 30306415--30306525 Score: 150
Period size: 58 Copynumber: 2.0 Consensus size: 55
30306405 ATCTTTATAA
* * *
30306415 ATTTTGTTATATGTTATATTTTTATTATATATATTAATTATTCTATTATATTTAT
1 ATTTTATTATATGTTATATTTTTACTATATATATTAATTATTCTACTATATTTAT
* *
30306470 ATTTTATTATATGTTATATATTTTTTACTATATATATTATTTATTTTACTATATTT
1 ATTTTATTATATG-T-TATA-TTTTTACTATATATATTAATTATTCTACTATATTT
30306526 TTATATGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
55 12 0.25
56 1 0.02
57 4 0.08
58 31 0.65
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (55 bp):
ATTTTATTATATGTTATATTTTTACTATATATATTAATTATTCTACTATATTTAT
Found at i:30307583 original size:107 final size:107
Alignment explanation
Indices: 30307397--30307609 Score: 399
Period size: 107 Copynumber: 2.0 Consensus size: 107
30307387 GCTGGGTTGC
* *
30307397 AATTTCTCGTTTGTCTAAATGCCTAAAATACCCTTCTAAACGATTTTATAAATTACGAGGTGACT
1 AATTTCCCGTTTGTCTAAATGCCTAAAATACCCTTCTAAACAATTTTATAAATTACGAGGTGACT
30307462 TCAGTTACAAGAGTTTTAGAATATTGTGTCCTATCATGCTGA
66 TCAGTTACAAGAGTTTTAGAATATTGTGTCCTATCATGCTGA
*
30307504 AATTTCCCGTTTGTCTAAATGCCTAAAATACCCTTTTAAACAATTTTATAAATTACGAGGTGACT
1 AATTTCCCGTTTGTCTAAATGCCTAAAATACCCTTCTAAACAATTTTATAAATTACGAGGTGACT
30307569 TCAGTTACAAGAGTTTTAGAATATTGTGTCCTATCATGCTG
66 TCAGTTACAAGAGTTTTAGAATATTGTGTCCTATCATGCTG
30307610 GATGTGATAT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (107 bp):
AATTTCCCGTTTGTCTAAATGCCTAAAATACCCTTCTAAACAATTTTATAAATTACGAGGTGACT
TCAGTTACAAGAGTTTTAGAATATTGTGTCCTATCATGCTGA
Found at i:30319350 original size:44 final size:44
Alignment explanation
Indices: 30319294--30319658 Score: 488
Period size: 44 Copynumber: 8.3 Consensus size: 44
30319284 GATCGAAGAC
*
30319294 ATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGC-GAATCAAAG
1 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAG-ATCAAAG
* *
30319338 ATAGCAGATTTGGCTTCTCTGTATTGTCAGAGAGCAGATCGAAG
1 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAG
* * *
30319382 ATAGTAGATTTGGCGTCTCTCTATTGTCAGAGAAC-GAAT-ATAAG
1 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAG-ATCA-AAG
* * * *
30319426 ATAGCAAATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAG
1 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAG
* * *
30319470 ATAGCAGATTTGGCGTCTCTGTATTGTTAGAGAG-TGAATCGAAG
1 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAG-ATCAAAG
* * *
30319514 ATAGCAGATTTGGCATCTCTGTATTGCCAGAGAGCAGATCGAAG
1 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAG
*
30319558 ATAGCAGATTTGGCGTCTCCGTATTGTCAGAGAGCAGATCAAAG
1 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAG
30319602 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAA-
1 ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATC-AAAG
*
30319646 ATAACAGATTTGG
1 ATAGCAGATTTGG
30319659 TGTTCCTAAG
Statistics
Matches: 283, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.00
44 277 0.98
45 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (44 bp):
ATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAG
Found at i:30319407 original size:88 final size:88
Alignment explanation
Indices: 30319283--30319658 Score: 551
Period size: 88 Copynumber: 4.2 Consensus size: 88
30319273 TACAAGGAGA
* *
30319283 AGATCGAAGACATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCGAATCAAAGATAGCAGATT
1 AGATCGAAG--ATAGCAGATTTGGCGTCTCTCTATTGTCAGAGAGCGAATCAAAGATAGCAGATT
*
30319348 TGGCTTCTCTGTATTGTCAGAGAGC
64 TGGCATCTCTGTATTGTCAGAGAGC
* * *
30319373 AGATCGAAGATAGTAGATTTGGCGTCTCTCTATTGTCAGAGAACGAAT-ATAAGATAGCAAATTT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTCTATTGTCAGAGAGCGAATCA-AAGATAGCAGATTT
30319437 GGCATCTCTGTATTGTCAGAGAGC
65 GGCATCTCTGTATTGTCAGAGAGC
* * * * *
30319461 AAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTTAGAGAGTGAATCGAAGATAGCAGATTTG
1 AGATCGAAGATAGCAGATTTGGCGTCTCTCTATTGTCAGAGAGCGAATCAAAGATAGCAGATTTG
*
30319526 GCATCTCTGTATTGCCAGAGAGC
66 GCATCTCTGTATTGTCAGAGAGC
30319549 AGATCGAAGATAGCAGATTTGGCGTCTC-CGTATTGTCAGAGAGC-AGATCAAAGATAGCAGATT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTC-TATTGTCAGAGAGCGA-ATCAAAGATAGCAGATT
*
30319612 TGGCGTCTCTGTATTGTCAGAGAGC
64 TGGCATCTCTGTATTGTCAGAGAGC
* *
30319637 AGATCGAAAATAACAGATTTGG
1 AGATCGAAGATAGCAGATTTGG
30319659 TGTTCCTAAG
Statistics
Matches: 260, Mismatches: 22, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
87 2 0.01
88 249 0.96
90 9 0.03
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (88 bp):
AGATCGAAGATAGCAGATTTGGCGTCTCTCTATTGTCAGAGAGCGAATCAAAGATAGCAGATTTG
GCATCTCTGTATTGTCAGAGAGC
Found at i:30319682 original size:132 final size:131
Alignment explanation
Indices: 30319283--30319700 Score: 474
Period size: 132 Copynumber: 3.2 Consensus size: 131
30319273 TACAAGGAGA
* *
30319283 AGATCGAAGACATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGC-GAATCAAAGATAGCAGAT
1 AGATCGAAG--ATAGCAAATTTGGCGTCTCTGTATTGTCAGAGAGCAG-ATCAAAGATAGCAGAT
* *
30319347 TTGGCTTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTCTA--TTGTC
63 TTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGG-GT-TCTCTAGTTTGT-
30319410 AGAGAA-C
125 A-AGAAGC
** * * *
30319417 -GAATATAAGATAGCAAATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGATAGCAGATTT
1 AG-ATCGAAGATAGCAAATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTT
* * ** **
30319481 GGCGTCTCTGTATTGTTAGAGAG-TGAATCGAAGATAGCAGATTTGGCATCTCT-GTATTGCCAG
65 GGCGTCTCTGTATTGTCAGAGAGCAG-ATCGAAGATAGCAGATTTGGGTTCTCTAGT-TTGTAAG
30319544 AGAGC
128 A-AGC
* *
30319549 AGATCGAAGATAGCAGATTTGGCGTCTCCGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTG
1 AGATCGAAGATAGCAAATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTG
* *
30319614 GCGTCTCTGTATTGTCAGAGAGCAGATCGAAAATAACAGATTTGGTGTTC-CTAAGTTTGTAAGA
66 GCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGG-GTTCTCT-AGTTTGTAAGA
30319678 AGC
129 AGC
* *
30319681 AGTTTGAAGATAGCAAATTT
1 AGATCGAAGATAGCAAATTT
30319701 AACACTCCTG
Statistics
Matches: 238, Mismatches: 33, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
130 8 0.03
131 2 0.01
132 210 0.88
133 11 0.05
134 7 0.03
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (131 bp):
AGATCGAAGATAGCAAATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCAGATTTG
GCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGGTTCTCTAGTTTGTAAGAAG
C
Found at i:30319691 original size:88 final size:89
Alignment explanation
Indices: 30319283--30319700 Score: 411
Period size: 88 Copynumber: 4.7 Consensus size: 89
30319273 TACAAGGAGA
* * * *
30319283 AGATCGAAGACATAGTAGATTTGGCG--TCTCTGTATTGTCAGAGAGC-GAATCAAAGATAGCAG
1 AGATCGAAG--ATAGCAGATTTGGCGTCTCTCTGTATTGTAAGA-AGCAG-TTCGAAGATAGCAG
*
30319345 ATTTGGCTTCTCTGTATTGTCAGAGAGC
62 ATTTGGCATCTCTGTATTGTCAGAGAGC
* * *
30319373 AGATCGAAGATAGTAGATTTGGCGTCTCTC--TATTGTCAGAGAA-CGAATAT--AAGATAGCAA
1 AGATCGAAGATAGCAGATTTGGCGTCTCTCTGTATTGT-A-AGAAGC-AGT-TCGAAGATAGCAG
30319433 ATTTGGCATCTCTGTATTGTCAGAGAGC
62 ATTTGGCATCTCTGTATTGTCAGAGAGC
* *
30319461 AAATCGAAGATAGCAGATTTGGCG--TCTCTGTATTGTTAG-AG-AGTGAATCGAAGATAGCAGA
1 AGATCGAAGATAGCAGATTTGGCGTCTCTCTGTATTGTAAGAAGCAGT---TCGAAGATAGCAGA
*
30319522 TTTGGCATCTCTGTATTGCCAGAGAGC
63 TTTGGCATCTCTGTATTGTCAGAGAGC
* * *
30319549 AGATCGAAGATAGCAGATTTGGCGTCTC-C-GTATTGTCAGAGAGCAGATCAAAGATAGCAGATT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTCTGTATTGTAAGA-AGCAGTTCGAAGATAGCAGATT
*
30319612 TGGCGTCTCTGTATTGTCAGAGAGC
65 TGGCATCTCTGTATTGTCAGAGAGC
* * * * *
30319637 AGATCGAAAATAACAGATTTGGTGT-TC-CTAAGT-TTGTAAGAAGCAGTTTGAAGATAGCAAAT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTCT--GTATTGTAAGAAGCAGTTCGAAGATAGCAGAT
30319699 TT
64 TT
30319701 AACACTCCTG
Statistics
Matches: 281, Mismatches: 25, Indels: 46
0.80 0.07 0.13
Matches are distributed among these distances:
84 2 0.01
85 1 0.00
86 8 0.03
87 3 0.01
88 233 0.83
89 9 0.03
90 23 0.08
91 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (89 bp):
AGATCGAAGATAGCAGATTTGGCGTCTCTCTGTATTGTAAGAAGCAGTTCGAAGATAGCAGATTT
GGCATCTCTGTATTGTCAGAGAGC
Found at i:30321365 original size:55 final size:52
Alignment explanation
Indices: 30321297--30321443 Score: 137
Period size: 55 Copynumber: 2.8 Consensus size: 52
30321287 ATGAAAAATA
*
30321297 ATATATATTATTA-TATGCATCTTTATAAATTTTATTCTATGTTATAT-TTTTATT
1 ATATATATTATTATTAT-CATCTTTAT--ATTTTATTATATGTTATATATTTT-TT
*
30321351 ATATATATTAATTATTCTATTATCTTTATATTTTATTATATGTTATATATTTTTT
1 ATATATATT-ATTA-T-TATCATCTTTATATTTTATTATATGTTATATATTTTTT
30321406 ACTATATA-TATTATT-T-AT-TTTACTATATTT-TTATATGT
1 A-TATATATTATTATTATCATCTTTA-TAT-TTTATTATATGT
30321444 AAAATTACTT
Statistics
Matches: 83, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
49 4 0.05
50 13 0.16
51 4 0.05
52 1 0.01
53 1 0.01
54 13 0.16
55 26 0.31
56 10 0.12
57 8 0.10
58 3 0.04
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (52 bp):
ATATATATTATTATTATCATCTTTATATTTTATTATATGTTATATATTTTTT
Found at i:30321401 original size:19 final size:19
Alignment explanation
Indices: 30321319--30321403 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
30321309 ATATGCATCT
* *
30321319 TTATAAATTTTATTCTATG
1 TTATATATTTTATTATATG
30321338 TTATAT-TTTTATTATAT-
1 TTATATATTTTATTATATG
* * *
30321355 ATAT-TAATTATT-CTATTATC
1 TTATAT-ATT-TTATTA-TATG
30321375 TT-TATATTTTATTATATG
1 TTATATATTTTATTATATG
30321393 TTATATATTTT
1 TTATATATTTT
30321404 TTACTATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
16 1 0.02
17 3 0.06
18 21 0.41
19 24 0.47
20 2 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATATATTTTATTATATG
Found at i:30321413 original size:58 final size:56
Alignment explanation
Indices: 30321315--30321424 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 56
30321305 TATTATATGC
* *
30321315 ATCTTTATAAATTTTATTCTATGTTATATTTTTATTATATATATTAATTATTCTATT
1 ATCTTTAT-AATTTTATTATATGTTATATTTTTACTATATATATTAATTATTCTATT
*
30321372 ATCTTTAT-ATTTTATTATATGTTATATATTTTTTACTATATATATTATTTATT
1 ATCTTTATAATTTTATTATATG-T-TATA-TTTTTACTATATATATTAATTATT
30321425 TTACTATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
55 12 0.26
56 1 0.02
57 12 0.26
58 22 0.47
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (56 bp):
ATCTTTATAATTTTATTATATGTTATATTTTTACTATATATATTAATTATTCTATT
Found at i:30321414 original size:23 final size:22
Alignment explanation
Indices: 30321344--30321441 Score: 65
Period size: 21 Copynumber: 4.9 Consensus size: 22
30321334 TATGTTATAT
*
30321344 TTTTATTATATATATTA-ATTA
1 TTTTACTATATATATTATATTA
*
30321365 --TT-CTAT-TATCTT-TA-TA
1 TTTTACTATATATATTATATTA
* *
30321381 TTTTATTATATGT-TATATATT-
1 TTTTACTATATATAT-TATATTA
30321402 TTTTACTATATATATTAT-TTA
1 TTTTACTATATATATTATATTA
*
30321423 TTTTACTATAT-TTTTATAT
1 TTTTACTATATATATTATAT
30321442 GTAAAATTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
16 2 0.03
17 6 0.10
18 5 0.08
19 6 0.10
20 10 0.17
21 28 0.47
22 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (22 bp):
TTTTACTATATATATTATATTA
Found at i:30321415 original size:16 final size:16
Alignment explanation
Indices: 30321394--30321437 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
30321384 TATTATATGT
30321394 TATATATTTTTTACTA
1 TATATATTTTTTACTA
* * *
30321410 TATATATTATTTATTT
1 TATATATTTTTTACTA
30321426 TACTATATTTTT
1 TA-TATATTTTT
30321438 ATATGTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATATTTTTTACTA
Found at i:30322109 original size:24 final size:25
Alignment explanation
Indices: 30322082--30322181 Score: 104
Period size: 24 Copynumber: 4.1 Consensus size: 25
30322072 TGGTTTCAAC
30322082 AATTTACATGGAAAAAAATAA-TTA
1 AATTTACATGGAAAAAAATAATTTA
*
30322106 AATTTGCATGGAAAAAAAGATAATTTA
1 AATTTACATGG-AAAAAA-ATAATTTA
* *
30322133 AA-TGAAAT--AAGAAAAA-AA-TTA
1 AATTTACATGGAA-AAAAATAATTTA
30322154 AATTTACATGGAAAAAAATAATTTA
1 AATTTACATGGAAAAAAATAATTTA
30322179 AAT
1 AAT
30322182 GAAATGACAA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
21 5 0.08
22 6 0.10
23 8 0.13
24 18 0.30
25 12 0.20
26 7 0.11
27 5 0.08
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (25 bp):
AATTTACATGGAAAAAAATAATTTA
Found at i:30322157 original size:27 final size:26
Alignment explanation
Indices: 30322116--30322285 Score: 85
Period size: 27 Copynumber: 6.8 Consensus size: 26
30322106 AATTTGCATG
*
30322116 GAAAAAAAGATAATTTAAATGAAATAA
1 GAAAAAAATA-AATTTAAATGAAATAA
*
30322143 GAAAAAAATTAAATTTACATG------
1 GAAAAAAA-TAAATTTAAATGAAATAA
30322164 GAAAAAAAT-AATTTAAATGAAAT--
1 GAAAAAAATAAATTTAAATGAAATAA
* * **
30322187 GACAAAAA-AAA-TTAAATTAAAATGG
1 GAAAAAAATAAATTTAAA-TGAAATAA
* * *
30322212 GAAGATAGAT-AATTTAAATGAAATGA
1 GAA-AAAAATAAATTTAAATGAAATAA
* * *
30322238 GAAAAAATTTAAACTTAAATGAAAAAA
1 GAAAAAA-ATAAATTTAAATGAAATAA
*
30322265 GGAAAAAAATAAATTAAAATG
1 -GAAAAAAATAAATTTAAATG
30322286 GAAAGAAAGA
Statistics
Matches: 109, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
19 9 0.08
20 1 0.01
21 8 0.07
22 5 0.05
23 14 0.13
25 4 0.04
26 15 0.14
27 45 0.41
28 8 0.07
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.24
Consensus pattern (26 bp):
GAAAAAAATAAATTTAAATGAAATAA
Found at i:30322157 original size:48 final size:47
Alignment explanation
Indices: 30322095--30322265 Score: 195
Period size: 48 Copynumber: 3.6 Consensus size: 47
30322085 TTACATGGAA
*
30322095 AAAAATAATTAAATTTGCATGGAAAAAAAGATAATTTAAATGAAATAAG
1 AAAAA-AATTAAATTTACATGG-AAAAAAGATAATTTAAATGAAATAAG
30322144 AAAAAAATTAAATTTACATGGAAAAAA-ATAATTTAAATGAAATGACA-
1 AAAAAAATTAAATTTACATGGAAAAAAGATAATTTAAATGAAAT-A-AG
* * * * *
30322191 AAAAAAATTAAATTAAAATGGGAAGATAGATAATTTAAATGAAATGAG
1 AAAAAAATTAAATTTACAT-GGAAAAAAGATAATTTAAATGAAATAAG
* * *
30322239 AAAAAATTTAAACTTAAAT-GAAAAAAG
1 AAAAAAATTAAATTTACATGGAAAAAAG
30322266 GAAAAAAATA
Statistics
Matches: 106, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
46 22 0.21
47 25 0.24
48 38 0.36
49 21 0.20
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (47 bp):
AAAAAAATTAAATTTACATGGAAAAAAGATAATTTAAATGAAATAAG
Found at i:30322246 original size:21 final size:22
Alignment explanation
Indices: 30322127--30322264 Score: 70
Period size: 21 Copynumber: 6.0 Consensus size: 22
30322117 AAAAAAAGAT
*
30322127 AATTTAAA-TGAAATAAGAAAA
1 AATTTAAATTGAAATGAGAAAA
* * * *
30322148 AAATTAAATTTACATGGAAAAAAA
1 AATTTAAATTGAAAT-G-AGAAAA
*
30322172 TAATTTAAA-TGAAATGACAAAAA
1 -AATTTAAATTGAAATGA-GAAAA
* * *
30322195 AAATTAAATTAAAATGGGAAGATAGAT
1 AATTTAAATTGAAAT--G-AGA-A-AA
30322222 AATTTAAA-TGAAATGAGAAAA
1 AATTTAAATTGAAATGAGAAAA
30322243 AATTTAAACTT-AAATGA-AAAA
1 AATTTAAA-TTGAAATGAGAAAA
30322264 A
1 A
30322265 GGAAAAAAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
21 21 0.24
22 19 0.21
23 15 0.17
24 10 0.11
25 9 0.10
26 7 0.08
27 8 0.09
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.25
Consensus pattern (22 bp):
AATTTAAATTGAAATGAGAAAA
Found at i:30322560 original size:16 final size:16
Alignment explanation
Indices: 30322504--30322573 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
30322494 ATTGAATTAA
*
30322504 TAAAT-AAA-TAAATT
1 TAAATGAAATTAAATG
*
30322518 TAAATAGAAAATATAAATT
1 TAAAT-G-AAAT-TAAATG
30322537 TAAATGAAATTAAATG
1 TAAATGAAATTAAATG
* *
30322553 TAACTGAAATGAAATG
1 TAAATGAAATTAAATG
*
30322569 GAAAT
1 TAAAT
30322574 TAAAATGGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
14 5 0.11
16 22 0.48
17 7 0.15
18 1 0.02
19 11 0.24
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (16 bp):
TAAATGAAATTAAATG
Found at i:30322595 original size:12 final size:12
Alignment explanation
Indices: 30322564--30322602 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
30322554 AACTGAAATG
*
30322564 AAATGGAAATTA
1 AAATGGAGATTA
30322576 AAATGGAGATTA
1 AAATGGAGATTA
*
30322588 AAATGGAGATGA
1 AAATGGAGATTA
30322600 AAA
1 AAA
30322603 AAAAAAGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (12 bp):
AAATGGAGATTA
Found at i:30325160 original size:9 final size:9
Alignment explanation
Indices: 30325091--30325208 Score: 63
Period size: 9 Copynumber: 13.3 Consensus size: 9
30325081 TTTTAATTTG
30325091 TTATTTATT
1 TTATTTATT
30325100 TT-TTTA--
1 TTATTTATT
*
30325106 TTATTCATT
1 TTATTTATT
*
30325115 TTA-ATAGTT
1 TTATTTA-TT
*
30325124 TTA--TATA
1 TTATTTATT
30325131 TTATTTATT
1 TTATTTATT
**
30325140 TTAAACTATT
1 TT-ATTTATT
30325150 TTATTTATT
1 TTATTTATT
30325159 TTAATTT-TT
1 TT-ATTTATT
30325168 TATATATTATT
1 T-TAT-TTATT
*
30325179 TATATTAATT
1 T-TATTTATT
*
30325189 TT-TTTATA
1 TTATTTATT
30325197 TTATTTATT
1 TTATTTATT
30325206 TTA
1 TTA
30325209 AATTGTTTTA
Statistics
Matches: 84, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
6 2 0.02
7 7 0.08
8 13 0.15
9 36 0.43
10 19 0.23
11 7 0.08
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.69
Consensus pattern (9 bp):
TTATTTATT
Found at i:30325201 original size:43 final size:44
Alignment explanation
Indices: 30325092--30325202 Score: 136
Period size: 43 Copynumber: 2.5 Consensus size: 44
30325082 TTTAATTTGT
*
30325092 TATTTATTTTTTTATTATTCATTTTAATAGTTTTATATATTATTTA
1 TATTAATTTTTTTA-TATT-ATTTTAATAGTTTTATATATTATTTA
* * * *
30325138 TTTTAAACTATTTTAT-TTATTTTAAT-TTTTTATATATTATTTA
1 TATT-AATTTTTTTATATTATTTTAATAGTTTTATATATTATTTA
30325181 TATTAATTTTTTTATATTATTT
1 TATTAATTTTTTTATATTATTT
30325203 ATTTTAAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 9 0.16
43 25 0.45
44 8 0.15
45 2 0.04
46 4 0.07
47 7 0.13
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (44 bp):
TATTAATTTTTTTATATTATTTTAATAGTTTTATATATTATTTA
Found at i:30325224 original size:23 final size:24
Alignment explanation
Indices: 30325150--30325438 Score: 192
Period size: 26 Copynumber: 11.4 Consensus size: 24
30325140 TTAAACTATT
*
30325150 TTATTTATTTT-AATTTTTTATATA
1 TTATTTATTTTAAATTGTTT-TATA
* *
30325174 TTATTTATATT-AATTTTTTTATA
1 TTATTTATTTTAAATTGTTTTATA
30325197 TTATTTATTTTAAATTGTTTTAGATA
1 TTATTTATTTTAAATTGTTTT--ATA
30325223 TTATTTATTTTAAATTGTTTCATATA
1 TTATTTATTTTAAATTGTTT--TATA
* * * *
30325249 TTATTTATTTTGAACTGCGTTATACA
1 TTATTTATTTT-AAAT-TGTTTTATA
30325275 TTATTTTATTTTAAAATTGTTTCATATATA
1 TTA-TTTATTTT-AAATTG-TT--T-TATA
* *
30325305 TTATTTATTTTAGATTTTTTTACGTA
1 TTATTTATTTTAAATTGTTTTA--TA
* * * *
30325331 TTATTTCCTTTAAAAATGCTTTATATT
1 TTATTT-ATTTTAAATTG-TTT-TATA
* *
30325358 TTATTTATTTTAAATTGCTTTAGA
1 TTATTTATTTTAAATTGTTTTATA
* *
30325382 TTATTTATTTCAAATTGTTTTGTATC
1 TTATTTATTTTAAATTG-TTT-TATA
*
30325408 TTATTTATGTT-AATT-TTATT-TA
1 TTATTTATTTTAAATTGTT-TTATA
30325430 TTATTTATT
1 TTATTTATT
30325439 GTTTATTTTG
Statistics
Matches: 211, Mismatches: 34, Indels: 42
0.74 0.12 0.15
Matches are distributed among these distances:
22 9 0.04
23 17 0.08
24 47 0.22
25 9 0.04
26 71 0.34
27 31 0.15
28 11 0.05
29 10 0.05
30 6 0.03
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.62
Consensus pattern (24 bp):
TTATTTATTTTAAATTGTTTTATA
Found at i:30325278 original size:52 final size:52
Alignment explanation
Indices: 30325167--30325420 Score: 178
Period size: 56 Copynumber: 4.9 Consensus size: 52
30325157 TTTTAATTTT
* * * **
30325167 TTATATATTATTTATATT-AATT-TTT-TTATATTATTTATTTTAAATTGTT
1 TTATATATTATTTATTTTAAATTGTTTCATATATTATTTATTTTAAACTGCG
* *
30325216 TTAGATATTATTTATTTTAAATTGTTTCATATATTATTTATTTTGAACTGCG
1 TTATATATTATTTATTTTAAATTGTTTCATATATTATTTATTTTAAACTGCG
* * * ***
30325268 TTATACATTATTTTATTTTAAAATTGTTTCATATATATTATTTATTTTAGATTTTT
1 TTATATATTA-TTTATTTT-AAATTGTTTC--ATATATTATTTATTTTAAACTGCG
** * * * * *
30325324 TTACGTATTATTTCCTTTAAAAATGCTTT-ATATTTTATTTATTTTAAATTGC-
1 TTATATATTATTT-ATTTTAAATTG-TTTCATATATTATTTATTTTAAACTGCG
* * ** * *
30325376 TT-TAGATTATTTATTTCAAATTGTTTTGTATCTTATTTATGTTAA
1 TTATATATTATTTATTTTAAATTGTTTCATATATTATTTATTTTAA
30325421 TTTTATTTAT
Statistics
Matches: 161, Mismatches: 34, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
49 19 0.12
50 27 0.17
51 10 0.06
52 29 0.18
53 27 0.17
54 10 0.06
55 8 0.05
56 31 0.19
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (52 bp):
TTATATATTATTTATTTTAAATTGTTTCATATATTATTTATTTTAAACTGCG
Found at i:30325311 original size:108 final size:105
Alignment explanation
Indices: 30325193--30325401 Score: 253
Period size: 108 Copynumber: 2.0 Consensus size: 105
30325183 TTAATTTTTT
* *
30325193 TATATTATTTATTTTAAATTGTTTTA-GATATTATTT-ATTTTAAATTG-TTTCATATATTATTT
1 TATATTATTTATTTTAAATTGTTTTACG-TATTATTTCATTTAAAAATGCTTT-ATATATTATTT
*
30325255 ATTTTGAACTGCGTTATACATTATTTTATTTTAAAATTGTTTCATA
64 ATTTTAAACTGC-TT-TACATTA-TTTA-TTTAAAATTGTTTCATA
* * * *
30325301 TATATTATTTATTTTAGATTTTTTTACGTATTATTTCCTTTAAAAATGCTTTATATTTTATTTAT
1 TATATTATTTATTTTAAATTGTTTTACGTATTATTTCATTTAAAAATGCTTTATATATTATTTAT
* * *
30325366 TTTAAATTGCTTTAGATTATTTATTTCAAATTGTTT
66 TTTAAACTGCTTTACATTATTTATTTAAAATTGTTT
30325402 TGTATCTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
105 12 0.14
106 4 0.05
107 6 0.07
108 34 0.39
109 29 0.33
110 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.59
Consensus pattern (105 bp):
TATATTATTTATTTTAAATTGTTTTACGTATTATTTCATTTAAAAATGCTTTATATATTATTTAT
TTTAAACTGCTTTACATTATTTATTTAAAATTGTTTCATA
Found at i:30325365 original size:82 final size:79
Alignment explanation
Indices: 30325196--30325401 Score: 213
Period size: 82 Copynumber: 2.6 Consensus size: 79
30325186 ATTTTTTTAT
* *
30325196 ATTATTTATTTT-AAATTGTTTTAGATATTATTTATTTTAAATTGTTTCATATATTATTTATTTT
1 ATTATTTATTTTAAAATTGTTTTAGATATTATTTATTTTAAATTGTTTCACATATTATTTATTTA
* *
30325260 GAACTGCGTTATAC
66 AAAATGCGTTATAC
* * * * * *
30325274 ATTATTTTATTTTAAAATTGTTTCATATATATTATTTATTTTAGATTTTTTTACGTATTATTTCC
1 ATTA-TTTATTTTAAAATTGTTT--TAGATATTATTTATTTTAAATTGTTTCACATATTATTT-A
* *
30325339 TTTAAAAATGCTTTATAT
62 TTTAAAAATGCGTTATAC
* * *
30325357 TTTATTTATTTT-AAATTGCTTTAG--ATTATTTATTTCAAATTGTTT
1 ATTATTTATTTTAAAATTGTTTTAGATATTATTTATTTTAAATTGTTT
30325402 TGTATCTTAT
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
77 18 0.17
78 4 0.04
79 10 0.10
80 9 0.09
81 8 0.08
82 40 0.38
83 16 0.15
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.59
Consensus pattern (79 bp):
ATTATTTATTTTAAAATTGTTTTAGATATTATTTATTTTAAATTGTTTCACATATTATTTATTTA
AAAATGCGTTATAC
Found at i:30325424 original size:22 final size:23
Alignment explanation
Indices: 30325399--30325448 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
30325389 TTTCAAATTG
*
30325399 TTTTGTATCTTATTTA-TGTTAA
1 TTTTGTATATTATTTATTGTTAA
* * *
30325421 TTTTATTTATTATTTATTGTTTA
1 TTTTGTATATTATTTATTGTTAA
30325444 TTTTG
1 TTTTG
30325449 AACCCCTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (23 bp):
TTTTGTATATTATTTATTGTTAA
Found at i:30325517 original size:25 final size:26
Alignment explanation
Indices: 30325483--30325546 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
30325473 TTAAAAAAAC
*
30325483 TTATATATTATTTATTTCAAACT-TT
1 TTATATATTATTTACTTCAAACTGTT
* *
30325508 TTATATATTATTTACTTCGAATTGTT
1 TTATATATTATTTACTTCAAACTGTT
30325534 TTATATATTATTT
1 TTATATATTATTT
30325547 TGTTTCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATATATTATTTACTTCAAACTGTT
Found at i:30329562 original size:30 final size:31
Alignment explanation
Indices: 30329490--30329550 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
30329480 AAGAGAAAAA
*
30329490 AAGAAATTATATGTCGGTATGGAGTGCCAAG
1 AAGAAATCATATGTCGGTATGGAGTGCCAAG
30329521 AAGAAATCATATGTCGGTATGGAGTGCCAA
1 AAGAAATCATATGTCGGTATGGAGTGCCAA
30329551 AGAGGATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (31 bp):
AAGAAATCATATGTCGGTATGGAGTGCCAAG
Found at i:30330226 original size:13 final size:13
Alignment explanation
Indices: 30330207--30330252 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
30330197 AAGAAAAAAT
30330207 AAAA-AAAAAC-A
1 AAAACAAAAACAA
*
30330218 AAAACAAAAATAA
1 AAAACAAAAACAA
*
30330231 AAAACAAACACAA
1 AAAACAAAAACAA
*
30330244 AAAAGAAAA
1 AAAACAAAA
30330253 GAAAAAAGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 19 0.68
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAACAAAAACAA
Found at i:30331542 original size:99 final size:98
Alignment explanation
Indices: 30331368--30331648 Score: 348
Period size: 99 Copynumber: 2.8 Consensus size: 98
30331358 TGAAGTTGTA
* * *
30331368 GATCTTATCTTCTTGAAGTTGCTGTGGAGCAGATCGAAGACAGTGAATCTTATTTCCCTAAAGTT
1 GATCTTATCTTCTTGAAGTTGCAGTGGAGCAGAT-GAAGACAGCGAATCTTATTTCCCTGAAGTT
*
30331433 GCAGTAGAATAGATTGAAGCTACAAATTATGGTG
65 GCAGTAGAATAGATTGAAGCTACAAATTATGGCG
* * *
30331467 GATCTTATCTTCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTT
1 GATCTTATCTTCTTGAAGTTGCAGTGGAGCAGA-TGAAGACAGCGAATCTTATTTCCCTGAAGTT
* * *
30331532 ACAGTGGAATAGATTGAAACTACAAATTATGGCG
65 GCAGTAGAATAGATTGAAGCTACAAATTATGGCG
* * * * * ** *
30331566 AATCTTATCTTCTTGAAGTTACAGTGAAGCAGATTGAAGCCA-CCAGCCTTATCTCCCTGAAGTT
1 GATCTTATCTTCTTGAAGTTGCAGTGGAGCAGA-TGAAGACAGCGAATCTTATTTCCCTGAAGTT
* *
30331630 GCAGTAGAGTAGACTGAAG
65 GCAGTAGAATAGATTGAAG
30331649 ACAGCGAATC
Statistics
Matches: 154, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
98 32 0.21
99 121 0.79
100 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (98 bp):
GATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATGAAGACAGCGAATCTTATTTCCCTGAAGTTG
CAGTAGAATAGATTGAAGCTACAAATTATGGCG
Found at i:30331784 original size:44 final size:45
Alignment explanation
Indices: 30331736--30331822 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
30331726 AGTTGTAATG
* *
30331736 GAGCAAATTGAAGCCA-CCAACCTTATCTCCCTAAAGTTGCAGCC
1 GAGCAAACTGAAGACAGCCAACCTTATCTCCCTAAAGTTGCAGCC
* * * *
30331780 GAGCAAACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCAG
1 GAGCAAACTGAAGACAGCCAACCTTATCTCCCTAAAGTTGCAG
30331823 TGGAACAGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 14 0.39
45 22 0.61
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (45 bp):
GAGCAAACTGAAGACAGCCAACCTTATCTCCCTAAAGTTGCAGCC
Found at i:30331808 original size:144 final size:143
Alignment explanation
Indices: 30331470--30332225 Score: 971
Period size: 143 Copynumber: 5.3 Consensus size: 143
30331460 TATGGTGGAT
* * *
30331470 CTTATCTTCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTACA
1 CTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
* * * *
30331535 GTGGAATAGATTGAAACTACAAATTATGGCGAATCTTATCTTCTTGAAGTTACAGTGAAGCAGAT
66 GTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGAT
30331600 TGAAGCCACCAGC
131 TGAAGCCACCAGC
* * * * *
30331613 CTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGACAGCGAATCTTATTTCTCTGAAGTTGTT
1 CTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTG-C
* * *
30331678 A-TGGAACAGATTGAAGCTAAAAATTATGGC-AGATCTTATCTTCTTGGAAGTTGTAATGGAGCA
65 AGTGGAACAGATTGAAGCTACAAATTATGGCGA-ATCTTATCTTCTT-GAAGTTGCAGTGGAGCA
* *
30331741 AATTGAAGCCACCAAC
128 GATTGAAGCCACCAGC
* *
30331757 CTTATCTCCCTAAAGTTGCAGCCGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
* * *
30331822 GTGGAACAGATTGAAACTACAAATTATGGCGAATCTTATCTTCTTGAAGTTACAGTGAAGCAGAT
66 GTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGAT
*
30331887 TGAAGCTACCAGC
131 TGAAGCCACCAGC
* * * * ** * * *
30331900 CTTATCTCCCTGAAGTTGCAGTAGAGTAGACTAAAGACAGAAAATCTTATTTCTCTAAAGTTGCT
1 CTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
* *
30331965 GTGGAATAGATTGAAGCTACAAATTATGGC-AGATCTTATCTTCTTGGAAGTTGTAGTGGAGCAG
66 GTGGAACAGATTGAAGCTACAAATTATGGCGA-ATCTTATCTTCTT-GAAGTTGCAGTGGAGCAG
*
30332029 ATTGAAGCCACCGGC
129 ATTGAAGCCACCAGC
* * * * * *
30332044 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAAGACAGCAAATCCTATTTCCCTGAGGTTGCA
1 CTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
* ** * * * *
30332109 GTGGAACATATT-AACGCTATGAATTATGACGAATCTTATGTTCTTGAAGTTGCAGTGGAACAAA
66 GTGGAACAGATTGAA-GCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGA
30332173 TTGAAGCCACCAGC
130 TTGAAGCCACCAGC
* * *
30332187 CTTATCTCCCTAAAATTGTAGCAGAGCAGATTGAAGACA
1 CTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAGACA
30332226 ACAAATCTCA
Statistics
Matches: 526, Mismatches: 78, Indels: 18
0.85 0.13 0.03
Matches are distributed among these distances:
142 2 0.00
143 281 0.53
144 241 0.46
145 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (143 bp):
CTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
GTGGAACAGATTGAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGAT
TGAAGCCACCAGC
Found at i:30331885 original size:287 final size:287
Alignment explanation
Indices: 30331470--30332233 Score: 1147
Period size: 287 Copynumber: 2.7 Consensus size: 287
30331460 TATGGTGGAT
* *
30331470 CTTATCTTCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTACA
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
*
30331535 GTGGAATAGATTGAAACTACAAATTATGGCGAATCTTATCTTCTTGAAGTTACAGTGAAGCAGAT
66 GTGGAACAGATTGAAACTACAAATTATGGCGAATCTTATCTTCTTGAAGTTACAGTGAAGCAGAT
**
30331600 TGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGACAGCGAATCTTATTT
131 TGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGACAGAAAATCTTATTT
* *
30331665 CTCTGAAGTTGTTATGGAACAGATTGAAGCTAAAAATTATGGCAGATCTTATCTTCTTGGAAGTT
196 CTCTAAAGTTGCTATGGAACAGATTGAAGCTAAAAATTATGGCAGATCTTATCTTCTTGGAAGTT
30331730 GTAATGGAGCAAATTGAAGCCACCAAC
261 GTAATGGAGCAAATTGAAGCCACCAAC
* *
30331757 CTTATCTCCCTAAAGTTGCAGCCGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
30331822 GTGGAACAGATTGAAACTACAAATTATGGCGAATCTTATCTTCTTGAAGTTACAGTGAAGCAGAT
66 GTGGAACAGATTGAAACTACAAATTATGGCGAATCTTATCTTCTTGAAGTTACAGTGAAGCAGAT
* *
30331887 TGAAGCTACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTAAAGACAGAAAATCTTATTT
131 TGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGACAGAAAATCTTATTT
* * *
30331952 CTCTAAAGTTGCTGTGGAATAGATTGAAGCTACAAATTATGGCAGATCTTATCTTCTTGGAAGTT
196 CTCTAAAGTTGCTATGGAACAGATTGAAGCTAAAAATTATGGCAGATCTTATCTTCTTGGAAGTT
* * **
30332017 GTAGTGGAGCAGATTGAAGCCACCGGC
261 GTAATGGAGCAAATTGAAGCCACCAAC
* * * * *
30332044 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAAGACAGCAAATCCTATTTCCCTGAGGTTGCA
1 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
* * ** * * * *
30332109 GTGGAACATATT-AACGCTATGAATTATGACGAATCTTATGTTCTTGAAGTTGCAGTGGAA-CAA
66 GTGGAACAGATTGAA-ACTACAAATTATGGCGAATCTTATCTTCTTGAAGTTACAGT-GAAGCAG
* * * * * *
30332172 ATTGAAGCCACCAGCCTTATCTCCCTAAAATTGTAGCAGAGCAGATTGAAGACA-ACAAATCT
129 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGACAGA-AAATCT
30332234 CATCCCCTTG
Statistics
Matches: 433, Mismatches: 41, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
286 3 0.01
287 427 0.99
288 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (287 bp):
CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGCA
GTGGAACAGATTGAAACTACAAATTATGGCGAATCTTATCTTCTTGAAGTTACAGTGAAGCAGAT
TGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGACAGAAAATCTTATTT
CTCTAAAGTTGCTATGGAACAGATTGAAGCTAAAAATTATGGCAGATCTTATCTTCTTGGAAGTT
GTAATGGAGCAAATTGAAGCCACCAAC
Found at i:30333890 original size:19 final size:17
Alignment explanation
Indices: 30333866--30333910 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
30333856 GTTTTATATG
30333866 TTATTTATTTTAAACTATT
1 TTATTTATTTTAAA-T-TT
30333885 TTATTTATTTTAAATTT
1 TTATTTATTTTAAATTT
*
30333902 TTATATATT
1 TTATTTATT
30333911 ATTTATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.40
18 1 0.04
19 14 0.56
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTATTTTAAATTT
Found at i:30333910 original size:26 final size:24
Alignment explanation
Indices: 30333885--30334149 Score: 167
Period size: 26 Copynumber: 10.4 Consensus size: 24
30333875 TTAAACTATT
30333885 TTATTTATTTTAAATTTTTATATA
1 TTATTTATTTTAAATTTTTATATA
* *
30333909 TTATTTATATTAAACTGTTTTAGATA
1 TTATTTATTTTAAA-T-TTTTATATA
30333935 TTATTTATTTTAAATTGTTTCATATA
1 TTATTTATTTTAAATT-TTT-ATATA
* *
30333961 TTATTTATTTTGAACTGCTTTATATA
1 TTATTTATTTT-AAAT-TTTTATATA
* *
30333987 TTATTTTATTTTAAAACTGTTATATA
1 TTA-TTTATTTT-AAATTTTTATATA
* *
30334013 GTATTTATTTTAGATTTTTTTATTACATA
1 TTATTTATTTTA-A-ATTTTTA-T--ATA
* * *
30334042 TTATTTCTTTTAAAAATGCTGTATATA
1 TTATTTATTTT--AAAT-TTTTATATA
* *
30334069 TTATTTATTTTAAATTGCTT-TAGA
1 TTATTTATTTTAAATT-TTTATATA
** * *
30334093 TTATTTATTGCAAACTGTTTTGTATT
1 TTATTTATTTTAAA-T-TTTTATATA
* *
30334119 TTATTTATGTT-AA-TTTTATTTA
1 TTATTTATTTTAAATTTTTATATA
30334141 TTATTTATT
1 TTATTTATT
30334150 ATTTATTATT
Statistics
Matches: 185, Mismatches: 37, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
22 14 0.08
24 30 0.16
25 24 0.13
26 68 0.37
27 30 0.16
29 14 0.08
30 4 0.02
31 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTATTTATTTTAAATTTTTATATA
Found at i:30333922 original size:43 final size:44
Alignment explanation
Indices: 30333841--30333930 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 44
30333831 TATTTTTTTA
* *
30333841 TTATTCATTTTAATAGTTTTATATGTTATTTATTTTAAACTATT
1 TTATTCATTTTAATAGTTTTATATATTATTTATATTAAACTATT
* * *
30333885 TTATTTATTTTAA-ATTTTTATATATTATTTATATTAAACTGTT
1 TTATTCATTTTAATAGTTTTATATATTATTTATATTAAACTATT
30333928 TTA
1 TTA
30333931 GATATTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 29 0.71
44 12 0.29
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (44 bp):
TTATTCATTTTAATAGTTTTATATATTATTTATATTAAACTATT
Found at i:30333971 original size:69 final size:66
Alignment explanation
Indices: 30333826--30333971 Score: 152
Period size: 69 Copynumber: 2.2 Consensus size: 66
30333816 TTTTAATTTG
* * * * *
30333826 TTATTTATTTTTTTATTATTCATTTTAATAGTTTTATATGTTATTTATTTTAAACTATTTTATTT
1 TTATTTATTTTTTTATTATTCATTTAAATAGTTTTAGATATTATTTATTTTAAACTATTTCATAT
30333891 A
66 A
* * * *
30333892 TT-TTAAATTTTTATATATTATTTATATTAAACT-GTTTTAGATATTATTTATTTTAAATTGTTT
1 TTATT-TATTTTT-T-TATTATTCAT-TTAAA-TAGTTTTAGATATTATTTATTTTAAACTATTT
30333955 CATATA
61 CATATA
30333961 TTATTTATTTT
1 TTATTTATTTT
30333972 GAACTGCTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
65 2 0.03
66 8 0.12
67 1 0.02
68 9 0.14
69 41 0.64
70 3 0.05
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (66 bp):
TTATTTATTTTTTTATTATTCATTTAAATAGTTTTAGATATTATTTATTTTAAACTATTTCATAT
A
Found at i:30333977 original size:52 final size:52
Alignment explanation
Indices: 30333885--30334101 Score: 203
Period size: 52 Copynumber: 4.2 Consensus size: 52
30333875 TTAAACTATT
* *
30333885 TTATTTATTTT-AAATT-TTTATATATTATTTATATTAAACTGTTTTAGATA
1 TTATTTATTTTAAAATTGTTTATATATTATTTATTTTAAACTGCTTTAGATA
* *
30333935 TTATTTATTTT-AAATTGTTTCATATATTATTTATTTTGAACTGCTTTATATA
1 TTATTTATTTTAAAATTGTTT-ATATATTATTTATTTTAAACTGCTTTAGATA
* * ** ** *
30333987 TTATTTTATTTTAAAACTG-TTATATAGTATTTATTTTAGATTTTTTTATTACATA
1 TTA-TTTATTTTAAAATTGTTTATATATTATTTATTTTA-A-ACTGCT-TTAGATA
* * * *
30334042 TTATTTCTTTTAAAAATGCTGTATATATTATTTATTTTAAATTGCTTTAG--A
1 TTATTTATTTTAAAATTG-TTTATATATTATTTATTTTAAACTGCTTTAGATA
30334093 TTATTTATT
1 TTATTTATT
30334102 GCAAACTGTT
Statistics
Matches: 137, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
50 16 0.12
51 12 0.09
52 45 0.33
53 14 0.10
54 23 0.17
55 10 0.07
56 17 0.12
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (52 bp):
TTATTTATTTTAAAATTGTTTATATATTATTTATTTTAAACTGCTTTAGATA
Found at i:30333990 original size:78 final size:78
Alignment explanation
Indices: 30333885--30334101 Score: 221
Period size: 78 Copynumber: 2.8 Consensus size: 78
30333875 TTAAACTATT
* *
30333885 TTATTTATTTTAAAT-TTTTATATATTATTTATATTAAACTGTTTTAGATATTATTTATTTTAAA
1 TTATTTATTTTAAATGCTTTATATATTATTTATTTTAAACTG-TTTAGATATTATTTATTTTAAA
30333949 TTGTTTCA-T-ATA
65 TTGTTTCATTAATA
* * *
30333961 TTATTTATTTTGAACTGCTTTATATATTATTTTATTTTAAAACTG-TTATATAGTATTTATTTTA
1 TTATTTATTTT-AAATGCTTTATATATTA-TTTATTTT-AAACTGTTTAGATATTATTTATTTTA
* * *
30334025 GATTTTTTTATTACATA
63 AATTGTTTCATTA-ATA
* * *
30334042 TTATTTCTTTTAAAAATGCTGTATATATTATTTATTTTAAATTGCTTTAG--ATTATTTATT
1 TTATTTATTTT--AAATGCTTTATATATTATTTATTTTAAACTG-TTTAGATATTATTTATT
30334102 GCAAACTGTT
Statistics
Matches: 116, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
76 11 0.09
77 3 0.03
78 35 0.30
79 8 0.07
80 20 0.17
81 21 0.18
82 18 0.16
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (78 bp):
TTATTTATTTTAAATGCTTTATATATTATTTATTTTAAACTGTTTAGATATTATTTATTTTAAAT
TGTTTCATTAATA
Found at i:30334146 original size:7 final size:7
Alignment explanation
Indices: 30334134--30334163 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
30334124 TATGTTAATT
30334134 TTATTTA
1 TTATTTA
30334141 TTATTTA
1 TTATTTA
30334148 TTATTTA
1 TTATTTA
30334155 TTATTTA
1 TTATTTA
30334162 TT
1 TT
30334164 TTGAACCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:30334234 original size:25 final size:26
Alignment explanation
Indices: 30334200--30334263 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
30334190 TTAAAAAAAA
*
30334200 TTATATATTATTTATTTCAAACT-TT
1 TTATATATTATTTACTTCAAACTGTT
* * *
30334225 TTATAAATTATTTACTTCGAATTGTT
1 TTATATATTATTTACTTCAAACTGTT
30334251 TTATATATTATTT
1 TTATATATTATTT
30334264 TGTTTCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TTATATATTATTTACTTCAAACTGTT
Found at i:30336156 original size:24 final size:24
Alignment explanation
Indices: 30336112--30336157 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
30336102 TTATTTTAAA
*
30336112 ATAATAATAAAATAGTTATTACAC
1 ATAATAATAAAATAGTAATTACAC
*
30336136 ATAA-AATTAAATAGTAAATTAC
1 ATAATAATAAAATAGT-AATTAC
30336158 TTTTTCGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAATAATAAAATAGTAATTACAC
Found at i:30339840 original size:30 final size:29
Alignment explanation
Indices: 30339775--30339841 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
30339765 AAATTAGATT
** *
30339775 TTTTTATAAATTAATATAATTTTATGTTT
1 TTTTTATAAATTAATATAATTTTATCATA
30339804 TCTTTTATAATATTAA-ATAATTTTATACATA
1 T-TTTTATAA-ATTAATATAATTTTAT-CATA
30339835 TTTTTAT
1 TTTTTAT
30339842 TATTTTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 24 0.75
31 7 0.22
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTTATAAATTAATATAATTTTATCATA
Found at i:30349674 original size:65 final size:65
Alignment explanation
Indices: 30349462--30349654 Score: 368
Period size: 65 Copynumber: 3.0 Consensus size: 65
30349452 TTTCTTAGAC
* *
30349462 GGAAATTCACATTTTTATATTAATGCTATAGAAAACAGTTAGGTTAAATAGGCATATTAAAAGTG
1 GGAAATTCACGTTTTTATATTAATGCAATAGAAAACAGTTAGGTTAAATAGGCATATTAAAAGTG
30349527 GGAAATTCACGTTTTTATATTAATGCAATAGAAAACAGTTAGGTTAAATAGGCATATTAAAAGTG
1 GGAAATTCACGTTTTTATATTAATGCAATAGAAAACAGTTAGGTTAAATAGGCATATTAAAAGTG
30349592 GGAAATTCACGTTTTTATATTAATGCAATAGAAAACAGTTAGGTTAAATAGGCATATTAAAAG
1 GGAAATTCACGTTTTTATATTAATGCAATAGAAAACAGTTAGGTTAAATAGGCATATTAAAAG
30349655 AGGAGAAAAT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 126 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.33
Consensus pattern (65 bp):
GGAAATTCACGTTTTTATATTAATGCAATAGAAAACAGTTAGGTTAAATAGGCATATTAAAAGTG
Found at i:30356577 original size:26 final size:27
Alignment explanation
Indices: 30356527--30356586 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
30356517 GGAAAAGTTT
30356527 TAATTTAATTTAATTTGATT-TTTTTA
1 TAATTTAATTTAATTTGATTCTTTTTA
*
30356553 TAATTTAATTCT-ATTCT-ATTCTTTTTT
1 TAATTTAATT-TAATT-TGATTCTTTTTA
30356580 TAATTTA
1 TAATTTA
30356587 GTTTTGTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (27 bp):
TAATTTAATTTAATTTGATTCTTTTTA
Found at i:30360084 original size:2 final size:2
Alignment explanation
Indices: 30360077--30360103 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30360067 TTAGGCAATT
30360077 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30360104 GTATTTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30363553 original size:18 final size:19
Alignment explanation
Indices: 30363530--30363565 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30363520 TGATTTTGGT
*
30363530 TTTCATTTTTTAT-TAGGA
1 TTTCATTTATTATCTAGGA
30363548 TTTCATTTATTATCTAGG
1 TTTCATTTATTATCTAGG
30363566 TTGTCTCTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.08, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTCATTTATTATCTAGGA
Found at i:30364396 original size:24 final size:24
Alignment explanation
Indices: 30364369--30364418 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
30364359 AATACAAATG
30364369 ACATAATAGTGAAATGAGAAATTA
1 ACATAATAGTGAAATGAGAAATTA
30364393 ACATAATAGTGAAATGAGAAATTA
1 ACATAATAGTGAAATGAGAAATTA
30364417 AC
1 AC
30364419 TTTATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.16, T:0.24
Consensus pattern (24 bp):
ACATAATAGTGAAATGAGAAATTA
Found at i:30371191 original size:28 final size:28
Alignment explanation
Indices: 30371160--30371216 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
30371150 TTTTTGATGT
* *
30371160 ATTTTATATTTTTTATGATTTTTATAAA
1 ATTTTATATTTTTTATAATTTCTATAAA
30371188 ATTTTATATTTTTTATAATTTCTATAAA
1 ATTTTATATTTTTTATAATTTCTATAAA
30371216 A
1 A
30371217 AATTTCTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTTTATATTTTTTATAATTTCTATAAA
Found at i:30371213 original size:18 final size:17
Alignment explanation
Indices: 30371170--30371213 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
30371160 ATTTTATATT
*
30371170 TTTTATGATTTTTATAAAA
1 TTTTAT-ATTTTT-TATAA
30371189 TTTTATATTTTTTATAA
1 TTTTATATTTTTTATAA
30371206 TTTCTATA
1 TTT-TATA
30371214 AAAAATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 6 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTATATTTTTTATAA
Found at i:30371243 original size:28 final size:30
Alignment explanation
Indices: 30371212--30371290 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 30
30371202 ATAATTTCTA
*
30371212 TAAAAAATTTCTA-ATTTTTAA-TGAAATT
1 TAAAAAATTTCTATATTTTTAATTAAAATT
* *
30371240 T-AAATATTTTTATATTTTTAATTAAAATT
1 TAAAAAATTTCTATATTTTTAATTAAAATT
* * *
30371269 TAATAATTTTTTATAATTTTTA
1 TAAAAAATTTCTAT-ATTTTTA
30371291 TTGATATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
27 9 0.22
28 9 0.22
29 7 0.17
30 9 0.22
31 7 0.17
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (30 bp):
TAAAAAATTTCTATATTTTTAATTAAAATT
Found at i:30371302 original size:31 final size:31
Alignment explanation
Indices: 30371223--30371311 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
30371213 AAAAAATTTC
* *
30371223 TAATTTTTAATGAAATTTAAAT-A-TTTTTA
1 TAATTTTTATTGAAATTTTAATAATTTTTTA
*
30371252 T-ATTTTTAATT-AAAATTTAATAATTTTTTA
1 TAATTTTT-ATTGAAATTTTAATAATTTTTTA
*
30371282 TAATTTTTATTGATATTTTAATAATTTTTT
1 TAATTTTTATTGAAATTTTAATAATTTTTT
30371312 TGCCACATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 14 0.28
29 4 0.08
30 10 0.20
31 22 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (31 bp):
TAATTTTTATTGAAATTTTAATAATTTTTTA
Found at i:30372247 original size:69 final size:67
Alignment explanation
Indices: 30372127--30372258 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 67
30372117 ATAAACAATA
* * *
30372127 TAATGGTTTTGCCTTTTAACTTAATAGGTAAACATTTGTCAAAACGACGTAGTTTTGCCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAAGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTTTAA
30372192 CT
66 CT
* * *
30372194 TAATGG-TTTGACTTTTAACTTTAGGAAAGGTAAATATTTATCAGAACGGCGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAAC-TTA--AAAGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTT
30372258 T
63 T
30372259 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
66 12 0.21
67 9 0.16
69 35 0.62
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTTTAA
CT
Found at i:30375233 original size:14 final size:15
Alignment explanation
Indices: 30375209--30375237 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30375199 TTTGAGCATG
30375209 TTTTTGATTCTTCAT
1 TTTTTGATTCTTCAT
30375224 TTTTTG-TTCTTCAT
1 TTTTTGATTCTTCAT
30375238 CCTGATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.14, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTGATTCTTCAT
Found at i:30392002 original size:177 final size:177
Alignment explanation
Indices: 30391706--30392768 Score: 2126
Period size: 177 Copynumber: 6.0 Consensus size: 177
30391696 GAATATACTC
30391706 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
1 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
30391771 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
66 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
30391836 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
131 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
30391883 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
1 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
30391948 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
66 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
30392013 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
131 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
30392060 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
1 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
30392125 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
66 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
30392190 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
131 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
30392237 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
1 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
30392302 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
66 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
30392367 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
131 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
30392414 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
1 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
30392479 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
66 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
30392544 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
131 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
30392591 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
1 AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
30392656 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
66 TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
30392721 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
131 TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
30392768 A
1 A
30392769 GGAGGAGGAG
Statistics
Matches: 886, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 886 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (177 bp):
AAGTCTAGTTTCATTTAAAATTAGCGGATCTTAATTTCGAGTTGTGTAGCTCAAGATATAAATAA
TTTAGTGACTATAACACAAATGGACAGTTTTGAATATACATTTATGTAAAAAGTGAAATTATTGA
TAATTTTACTTGTAGCATGTTATATAAATTAAGGAAGTGGAATGGAG
Found at i:30400734 original size:19 final size:19
Alignment explanation
Indices: 30400702--30400740 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30400692 AAACTGAATC
* * *
30400702 TATGGGTTTTTTGGAGTAA
1 TATGGCTTTGTTGGAATAA
30400721 TATGGCTTTGTTGGAATAA
1 TATGGCTTTGTTGGAATAA
30400740 T
1 T
30400741 TTCGTGAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.28, T:0.46
Consensus pattern (19 bp):
TATGGCTTTGTTGGAATAA
Found at i:30402378 original size:64 final size:64
Alignment explanation
Indices: 30402203--30402380 Score: 191
Period size: 64 Copynumber: 2.8 Consensus size: 64
30402193 GTGTGGTCTC
* * * * * ** *
30402203 CCCGTGTGATC-CTAAATCACAAACAGTAAGGCACACGGCCTGG--ACACGTGCTTGTGTCTTTG
1 CCCGTGTGGTCTCTAAATCACAAACAATGAGTCACACAGCCTGGACACACGT-C-AATGTCTCTG
30402265 G
64 G
* * * *
30402266 CCTGTGTGGTCTCTAAATCACAAACAGTTAGTCACATAGCCTGGACACACGTCAATGTCTCTGG
1 CCCGTGTGGTCTCTAAATCACAAACAATGAGTCACACAGCCTGGACACACGTCAATGTCTCTGG
* *
30402330 CCCGTGTGGTCTTTAAATCACAAATAATGAGTCACACAGCCTGGACACACG
1 CCCGTGTGGTCTCTAAATCACAAACAATGAGTCACACAGCCTGGACACACG
30402381 CCCGTGTCCT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
63 9 0.09
64 81 0.84
65 1 0.01
66 6 0.06
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (64 bp):
CCCGTGTGGTCTCTAAATCACAAACAATGAGTCACACAGCCTGGACACACGTCAATGTCTCTGG
Found at i:30405433 original size:10 final size:10
Alignment explanation
Indices: 30405406--30405443 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
30405396 TTAAATTCTA
*
30405406 AAAGATAAAT
1 AAAGATAATT
30405416 ACAA-ATAATT
1 A-AAGATAATT
30405426 AAAGATAATT
1 AAAGATAATT
30405436 AAAGATAA
1 AAAGATAA
30405444 ATGAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAATT
Found at i:30430036 original size:15 final size:15
Alignment explanation
Indices: 30430018--30430047 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30430008 TTGTTTTTTA
*
30430018 ATTTTTAATATTAAT
1 ATTTTTAACATTAAT
30430033 ATTTTTAACATTAAT
1 ATTTTTAACATTAAT
30430048 TTTAGTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTAACATTAAT
Found at i:30431553 original size:24 final size:24
Alignment explanation
Indices: 30431526--30431577 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
30431516 TTACTAAAAG
30431526 ATTTAGTATTTATT-ACTATAATAT
1 ATTTAGTATTTATTAAC-ATAATAT
*
30431550 ATTTAGTATTTATTAACATAATTT
1 ATTTAGTATTTATTAACATAATAT
30431574 ATTT
1 ATTT
30431578 GACCTACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTTATTAACATAATAT
Found at i:30438003 original size:69 final size:69
Alignment explanation
Indices: 30437888--30438043 Score: 278
Period size: 69 Copynumber: 2.3 Consensus size: 69
30437878 CTGCAACCAG
* *
30437888 AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTTTATGAAGAAGAAGCAAGCAATAA
1 AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTGTATGAAGAAAAAGCAAGCAATAA
30437953 TTAA
66 TTAA
30437957 AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTGTATGAAGAAAAAGCAAGCAATAA
1 AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTGTATGAAGAAAAAGCAAGCAATAA
30438022 TTAA
66 TTAA
30438026 AATTCAGAG-CAATTTCCG
1 AATTCAGAGTC-ATTTCCG
30438044 ACTGCAAAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
68 1 0.01
69 83 0.99
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (69 bp):
AATTCAGAGTCATTTCCGTGGTTGGCAGTTAAGAAGGAATTGTATGAAGAAAAAGCAAGCAATAA
TTAA
Found at i:30445523 original size:25 final size:25
Alignment explanation
Indices: 30445494--30445549 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
30445484 CATCTCCTTG
30445494 TCATATCTTTGCACACTGCATATGC
1 TCATATCTTTGCACACTGCATATGC
30445519 TCATATCTTTGCACACTGCATATGC
1 TCATATCTTTGCACACTGCATATGC
30445544 TCATAT
1 TCATAT
30445550 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.38
Consensus pattern (25 bp):
TCATATCTTTGCACACTGCATATGC
Found at i:30447820 original size:13 final size:13
Alignment explanation
Indices: 30447794--30447827 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30447784 TAGTAAAAAT
*
30447794 TTAATTATATTAA
1 TTAATTATACTAA
*
30447807 TTATTTATACTAA
1 TTAATTATACTAA
30447820 TTAATTAT
1 TTAATTAT
30447828 TTGATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAATTATACTAA
Found at i:30452779 original size:8 final size:8
Alignment explanation
Indices: 30452748--30452806 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
30452738 GAAATCTAAT
30452748 AAATTATTA
1 AAATTA-TA
30452757 AAATTATA
1 AAATTATA
***
30452765 TTTTTATA
1 AAATTATA
30452773 AAATTATA
1 AAATTATA
30452781 AAA-TACTA
1 AAATTA-TA
30452789 AAATATATA
1 AAAT-TATA
30452798 AAATT-TA
1 AAATTATA
30452805 AA
1 AA
30452807 TTTTATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
7 6 0.15
8 21 0.51
9 12 0.29
10 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
AAATTATA
Found at i:30453490 original size:18 final size:18
Alignment explanation
Indices: 30453469--30453503 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30453459 TTTACTAGAA
*
30453469 TTTTTATATTTTTATAAC
1 TTTTTATATTTCTATAAC
*
30453487 TTTTTATGTTTCTATAA
1 TTTTTATATTTCTATAA
30453504 AACTTTAAAT
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:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTATATTTCTATAAC
Found at i:30453566 original size:15 final size:16
Alignment explanation
Indices: 30453548--30453589 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
30453538 ATTATAGTTT
30453548 ATTTTTTTATTATAA-
1 ATTTTTTTATTATAAC
*
30453563 ATTTTTTTATTTTTAAC
1 ATTTTTTTA-TTATAAC
30453580 ATTTTTTTAT
1 ATTTTTTTAT
30453590 AAGTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 9 0.38
16 6 0.25
17 9 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTTTATTATAAC
Found at i:30453570 original size:18 final size:19
Alignment explanation
Indices: 30453534--30453589 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
30453524 TAATTTTATA
*
30453534 ATTTATTAT-AGTTTATTTT
1 ATTTATTATAAATTT-TTTT
30453553 -TTTATTATAAATTTTTTT
1 ATTTATTATAAATTTTTTT
*
30453571 ATTT-TTA-ACATTTTTTT
1 ATTTATTATAAATTTTTTT
30453588 AT
1 AT
30453590 AAGTTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 11 0.33
18 15 0.45
19 7 0.21
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTATTATAAATTTTTTT
Found at i:30453583 original size:17 final size:16
Alignment explanation
Indices: 30453548--30453589 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
30453538 ATTATAGTTT
30453548 ATTTTTTTA-TTATAA
1 ATTTTTTTATTTATAA
*
30453563 ATTTTTTTATTTTTAA
1 ATTTTTTTATTTATAA
30453579 CATTTTTTTAT
1 -ATTTTTTTAT
30453590 AAGTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
16 5 0.21
17 10 0.42
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTTTATTTATAA
Found at i:30454603 original size:55 final size:55
Alignment explanation
Indices: 30454504--30454611 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
30454494 TGTACTTTCA
30454504 TTCGGTTAATCTTTGTTACCCTGACCTAAATTTTCGTTTTAAAAAAAAATTAAAC
1 TTCGGTTAATCTTTGTTACCCTGACCTAAATTTTCGTTTTAAAAAAAAATTAAAC
* * * *
30454559 TTCGTTTATTCTTTGTTCCCCTGACCTAAATTTTC-TTTTAAAAAAAAAATAAA
1 TTCGGTTAATCTTTGTTACCCTGACCTAAATTTTCGTTTTAAAAAAAAATTAAA
30454612 AAAAGCCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 17 0.35
55 32 0.65
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (55 bp):
TTCGGTTAATCTTTGTTACCCTGACCTAAATTTTCGTTTTAAAAAAAAATTAAAC
Found at i:30455521 original size:29 final size:30
Alignment explanation
Indices: 30455474--30455541 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
30455464 TTGCCTAAGA
* *
30455474 GTAAATACTCAAAATTTGAAAGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAAGACTAATAGT
* *
30455504 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAAGACTAATAGT
*
30455534 GCAAATAT
1 GTAAATAT
30455542 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAAGACTAATAGT
Found at i:30458022 original size:46 final size:46
Alignment explanation
Indices: 30457970--30458974 Score: 1922
Period size: 46 Copynumber: 21.8 Consensus size: 46
30457960 GCTCTCTGAA
30457970 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458016 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458062 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458108 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458154 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458200 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458246 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458292 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458338 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458384 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458430 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458476 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458522 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458568 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458614 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458660 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458706 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458752 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458798 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
30458844 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
* * * *
30458890 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
* * * *
30458936 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
30458975 TCATGTCAAA
Statistics
Matches: 950, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
45 1 0.00
46 949 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTAAT
Found at i:30462848 original size:10 final size:10
Alignment explanation
Indices: 30462812--30462849 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
30462802 TAACATTTTA
30462812 AAAAATTTTCAT
1 AAAAA-TTTC-T
30462824 AAAAA-TTCT
1 AAAAATTTCT
30462833 AAAAATTTCT
1 AAAAATTTCT
30462843 AAAAATT
1 AAAAATT
30462850 AAAATTCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.24
10 14 0.56
12 5 0.20
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTTCT
Found at i:30463375 original size:20 final size:21
Alignment explanation
Indices: 30463350--30463396 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
30463340 TTTTCTTAAG
30463350 TAAAAAA-TACCATAAAATTC
1 TAAAAAACTACCATAAAATTC
** *
30463370 TAAAAAACTTTCATAATATTC
1 TAAAAAACTACCATAAAATTC
30463391 TAAAAA
1 TAAAAA
30463397 TTTTAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAAAACTACCATAAAATTC
Found at i:30463496 original size:14 final size:17
Alignment explanation
Indices: 30463476--30463513 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
30463466 TATAATTTTA
30463476 ATTTTTT-AAATA-ATT
1 ATTTTTTAAAATAGATT
30463491 -TTTTTTAAAATAGATT
1 ATTTTTTAAAATAGATT
30463507 ATTTTTT
1 ATTTTTT
30463514 TAGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.30
15 5 0.25
16 3 0.15
17 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTTTAAAATAGATT
Found at i:30475721 original size:43 final size:43
Alignment explanation
Indices: 30475671--30475817 Score: 181
Period size: 43 Copynumber: 3.4 Consensus size: 43
30475661 TATCCCTGAT
*
30475671 ATGGTCTTACATGTAATC-ACATAACGATGCCACTGTCCCAAAC
1 ATGGTCTTACATGTAATCTA-ATAACGATGCCAATGTCCCAAAC
* * * * *
30475714 AGGGTCTTACACGAAATCGATTAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCTAATAACGATGCCAATGTCCCAAAC
* * *
30475757 ATGGTCTTACATGTAATCTTAAT-ACAATTCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATC-TAATAACGATGCCAATGTCCCAAAC
30475800 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGTAATC
30475818 ACATATCGAT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 86 0.97
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCTAATAACGATGCCAATGTCCCAAAC
Found at i:30479792 original size:25 final size:25
Alignment explanation
Indices: 30479764--30479813 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
30479754 AAAAATAATA
*
30479764 ATTTTTTTTTCAAAATTTAAACTTT
1 ATTTATTTTTCAAAATTTAAACTTT
30479789 ATTTATTTTTCAAAATTTAAACTTT
1 ATTTATTTTTCAAAATTTAAACTTT
30479814 CTCCTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTATTTTTCAAAATTTAAACTTT
Found at i:30479822 original size:25 final size:24
Alignment explanation
Indices: 30479768--30479828 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
30479758 ATAATAATTT
*
30479768 TTTTTTCAAAATTTAAACTTTATT
1 TTTTTTCAAAATTTAAACTTTATC
*
30479792 TATTTTTCAAAATTTAAACTTTCTCC
1 T-TTTTTCAAAATTTAAACTTTAT-C
*
30479818 TTTTTTTAAAA
1 TTTTTTCAAAA
30479829 AACACTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTTTCAAAATTTAAACTTTATC
Found at i:30483281 original size:17 final size:16
Alignment explanation
Indices: 30483261--30483308 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
30483251 ATTAATTAGT
*
30483261 TAATCTATCAAATTAA
1 TAATCTATCAAATCAA
*
30483277 CTAATTTACTCAAATCAA
1 -TAATCTA-TCAAATCAA
30483295 TAATCTATCCAAAT
1 TAATCTAT-CAAAT
30483309 ATTCTAGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 17 0.65
18 8 0.31
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATCTATCAAATCAA
Found at i:30484224 original size:17 final size:17
Alignment explanation
Indices: 30484202--30484235 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30484192 TCACCTTATG
30484202 GTCTTACCATGCACAAA
1 GTCTTACCATGCACAAA
30484219 GTCTTACCATGCACAAA
1 GTCTTACCATGCACAAA
30484236 CAATCCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (17 bp):
GTCTTACCATGCACAAA
Found at i:30488997 original size:15 final size:15
Alignment explanation
Indices: 30488973--30489008 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30488963 TTTCCACTAA
30488973 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
* *
30488988 AAAAAGAAAAAGAAG
1 AAAAAAAAAAAAAAG
30489003 AAAAAA
1 AAAAAA
30489009 TTGTAAGGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:30489642 original size:51 final size:51
Alignment explanation
Indices: 30489566--30489668 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
30489556 AAAAGTTTGT
* *
30489566 TTACGCAGTTCAATTTCTTTACATTTGTGAAGTCTAGCTCAGTTAGAAGTA
1 TTACGCAGTTCAATTTCTTTACATTTGTGAAGTCTAGCTCAATGAGAAGTA
*
30489617 TTACGCAGTTCAATTTCTTTACATTTGTGGAGTCTAGCTCAATGAGAAGTA
1 TTACGCAGTTCAATTTCTTTACATTTGTGAAGTCTAGCTCAATGAGAAGTA
30489668 T
1 T
30489669 CAACTATCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (51 bp):
TTACGCAGTTCAATTTCTTTACATTTGTGAAGTCTAGCTCAATGAGAAGTA
Found at i:30491612 original size:140 final size:140
Alignment explanation
Indices: 30491183--30491612 Score: 646
Period size: 140 Copynumber: 3.1 Consensus size: 140
30491173 ATGTCTACTG
* * ** * *
30491183 CGACACTTTTGGGGCGAGACTTTTTTAAGTGTTGGGATAGACTTGTTGACCTACGCTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTGACATACACTTTGGCCAA
30491248 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
30491313 AACACTATGC
131 AACACTATGC
** * * * **
30491323 CGACACTTTCAGGCTGACACTTTCCTATGTGTTGGGATAGACTCGCCGACATACACTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTGACATACACTTTGGCCAA
*
30491388 CTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
30491453 AACACTATGC
131 AACACTATGC
* **
30491463 CAACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTGTTATACACTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTGACATACACTTTGGCCAA
* * *
30491528 CCCTTTGTATAAGAGTTGGGATATGCAT-CCTTAAGACAACGCTTAAATAAGAGTCGGCTTTGTT
66 CTCTTTGTATAAGAGTTGGGATATGCATGCC-TAAGGCAACGCTTAAATAAGAGTCGGCTTTGTC
* *
30491592 CAACAGTATGT
130 CAACACTATGC
30491603 CGACACTTTT
1 CGACACTTTT
30491613 CTAAGTGATG
Statistics
Matches: 258, Mismatches: 31, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
139 2 0.01
140 256 0.99
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (140 bp):
CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTGACATACACTTTGGCCAA
CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
AACACTATGC
Found at i:30491702 original size:126 final size:126
Alignment explanation
Indices: 30491475--30491738 Score: 350
Period size: 126 Copynumber: 2.1 Consensus size: 126
30491465 ACACTTTTGG
* * * **
30491475 GCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTGTTATACACTTTGGCCAACCCTTTGTATAA
1 GCCGACACTTTTCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAA
* * * * *
30491540 GAGTTGGGATATGCATCCTTAAGACAACGCTTAAATAAGAGTCGGCTTTGTTCAACAGTAT
66 GAGTAGCGATATGCATCCTTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTAT
* * ** * *
30491601 GTCGACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATACGTTTTGGCTAACTCTTTGTATAA
1 GCCGACACTTTTCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAA
* *
30491666 GAGTAGCTATATGCATGCC-TAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTAT
66 GAGTAGCGATATGCAT-CCTTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTAT
30491727 GCCGACACTTTT
1 GCCGACACTTTT
30491739 GGGCCAACAC
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
126 116 0.98
127 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCCGACACTTTTCTAAGTGATGGGATAGACTTGTCGGCATACACTTTGGCCAACCCTTTGTATAA
GAGTAGCGATATGCATCCTTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTAT
Found at i:30491817 original size:266 final size:266
Alignment explanation
Indices: 30491338--30491856 Score: 725
Period size: 266 Copynumber: 2.0 Consensus size: 266
30491328 CTTTCAGGCT
* *
30491338 GACACTTTCCTATGTGTTGGGATAGACTCGCCGACATACACTTTGGCCAACTCTTTATATAAGAG
1 GACACTTTCCTAAGTGATGGGATAGACTCGCCGACATACACTTTGGCCAACTCTTTATATAAGAG
* * *
30491403 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
66 TAGCGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
* *****
30491468 CTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTGTTATACACTTTGGCCAACCCTT
131 CTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCTT
* * *
30491533 TGTATAAGAGTTGGGATATGCAT-CCTTAAGACAACGCTTAAATAAGAGTCGGCTTTGTTCAACA
196 TGGACAAGAGTCGGGATATGCATGCC-TAAGACAACGCTTAAATAAGAGTCGGCTTTGTTCAACA
30491597 GTATGTC
260 GTATGTC
* * * * * ** * *
30491604 GACACTTTTCTAAGTGATGGGGTAGACTTGTCGGCATACGTTTTGGCTAACTCTTTGTATAAGAG
1 GACACTTTCCTAAGTGATGGGATAGACTCGCCGACATACACTTTGGCCAACTCTTTATATAAGAG
* *
30491669 TAGCTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGACA
66 TAGCGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
* ** *
30491734 CTTTTGGGCCAACACTTTCTTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTT
131 CTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCTT
* * * *
30491799 TGGACGAGGGTCGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGTTTTGT
196 TGGACAAGAGTCGGGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGT
30491857 CCAATACTAT
Statistics
Matches: 219, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
266 217 0.99
267 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (266 bp):
GACACTTTCCTAAGTGATGGGATAGACTCGCCGACATACACTTTGGCCAACTCTTTATATAAGAG
TAGCGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
CTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACCCTT
TGGACAAGAGTCGGGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTTCAACAG
TATGTC
Found at i:30493174 original size:14 final size:14
Alignment explanation
Indices: 30493129--30493177 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
30493119 GGGTTTAAGA
30493129 TTTATGATTTTATGG
1 TTTATG-TTTTATGG
* *
30493144 TTGTAGGGTTTTGTGG
1 TT-TA-TGTTTTATGG
30493160 TTTATGTTTTATGG
1 TTTATGTTTTATGG
30493174 TTTA
1 TTTA
30493178 GGGTTTAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 12 0.43
15 4 0.14
16 11 0.39
17 1 0.04
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (14 bp):
TTTATGTTTTATGG
Found at i:30493259 original size:28 final size:28
Alignment explanation
Indices: 30493194--30493254 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
30493184 AGATGTTAAT
*
30493194 GTTT-GGGTTTTGAGTTTTAGTTTTAGA
1 GTTTAGGGTTTTGAGTTTTAGGTTTAGA
*
30493221 GTTTAGGGTTTTGTG-TTTAGGTTTAG-
1 GTTTAGGGTTTTGAGTTTTAGGTTTAGA
30493247 GTTTAGGG
1 GTTTAGGG
30493255 GGTTTGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 8 0.26
27 14 0.45
28 9 0.29
ACGTcount: A:0.13, C:0.00, G:0.34, T:0.52
Consensus pattern (28 bp):
GTTTAGGGTTTTGAGTTTTAGGTTTAGA
Found at i:30493260 original size:27 final size:27
Alignment explanation
Indices: 30493209--30493260 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
30493199 GGTTTTGAGT
* *
30493209 TTTAGTTTTAGAGTTTAGGGTTTTGTG
1 TTTAGGTTTAGAGTTTAGGGGTTTGTG
30493236 TTTAGGTTTAG-GTTTAGGGGGTTTG
1 TTTAGGTTTAGAGTTTA-GGGGTTTG
30493261 ATAAAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.13, C:0.00, G:0.35, T:0.52
Consensus pattern (27 bp):
TTTAGGTTTAGAGTTTAGGGGTTTGTG
Found at i:30514903 original size:61 final size:61
Alignment explanation
Indices: 30514808--30514929 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
30514798 GCTCAAGAAA
30514808 AGTTGATTGATCCATCTCAGAAGCCGGATTCATCATCAAGACTGAAGATCTCCCCTCAATT
1 AGTTGATTGATCCATCTCAGAAGCCGGATTCATCATCAAGACTGAAGATCTCCCCTCAATT
30514869 AGTTGATTGATCCATCTCAGAAGCCGGATTCATCATCAAGACTGAAGATCTCCCCTCAATT
1 AGTTGATTGATCCATCTCAGAAGCCGGATTCATCATCAAGACTGAAGATCTCCCCTCAATT
30514930 TTCCTTCAGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (61 bp):
AGTTGATTGATCCATCTCAGAAGCCGGATTCATCATCAAGACTGAAGATCTCCCCTCAATT
Found at i:30515111 original size:14 final size:14
Alignment explanation
Indices: 30515092--30515118 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30515082 ATATTTGGCT
30515092 TGTTCTTAATTATG
1 TGTTCTTAATTATG
30515106 TGTTCTTAATTAT
1 TGTTCTTAATTAT
30515119 TGTCTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:30517012 original size:20 final size:20
Alignment explanation
Indices: 30516983--30517053 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
30516973 GTATTGATCC
*
30516983 GGTATTGATACTTTTCTTAA
1 GGTATCGATACTTTTCTTAA
30517003 GGTATCGATACTTTTCTTAA
1 GGTATCGATACTTTTCTTAA
* *
30517023 GATATCGATA-TATTTCCTAAA
1 GGTATCGATACT-TTT-CTTAA
30517044 GGTATCGATA
1 GGTATCGATA
30517054 TTCTTACTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
19 1 0.02
20 31 0.69
21 13 0.29
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
GGTATCGATACTTTTCTTAA
Found at i:30520841 original size:34 final size:34
Alignment explanation
Indices: 30520797--30520863 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
30520787 TTGGTAATTT
30520797 AAGTAAGTGCGTATACTTGATTATATGAGGTATC
1 AAGTAAGTGCGTATACTTGATTATATGAGGTATC
*
30520831 AAGTACGTGCGTATACTTGATTATATGAGGTAT
1 AAGTAAGTGCGTATACTTGATTATATGAGGTAT
30520864 TATATCATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (34 bp):
AAGTAAGTGCGTATACTTGATTATATGAGGTATC
Found at i:30522275 original size:34 final size:33
Alignment explanation
Indices: 30522237--30522358 Score: 122
Period size: 34 Copynumber: 3.5 Consensus size: 33
30522227 AGGTTTAAAA
30522237 TTTTAAAAAAATTAATTAAATTAGGTCTTAGGGT
1 TTTTAAAAAAATTAATTAAATTAGGT-TTAGGGT
**
30522271 TTTTAAGTAAATTAATTAAATTAGAGTTTAGGGTTTT
1 TTTTAAAAAAATTAATTAAATTAG-GTTTAGGG---T
* *
30522308 TTTTAAAAAAAAATTAATTAAATTAAGGATTAAGG-
1 TTTT--AAAAAAATTAATTAAATT-AGGTTTAGGGT
30522343 TTTTAAAAAAA-TAATT
1 TTTTAAAAAAATTAATT
30522359 TTGTGTTTAG
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
32 5 0.07
33 7 0.09
34 28 0.37
35 6 0.08
37 5 0.07
39 22 0.29
40 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.12, T:0.42
Consensus pattern (33 bp):
TTTTAAAAAAATTAATTAAATTAGGTTTAGGGT
Found at i:30522716 original size:127 final size:125
Alignment explanation
Indices: 30522436--30523066 Score: 765
Period size: 118 Copynumber: 5.1 Consensus size: 125
30522426 AGAATGATTT
** * * *
30522436 TTTTTCTACAATAGTTTTTGAAAAATTAATTTTGAGAAGACGATTCTGAAAAAATAGTGACAAAA
1 TTTTTCTAC-ATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * *
30522501 ACGTTTCAAGCAAGATACA-TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACATGGACGCTC
* * * * * *
30522561 TTTTTCTACATTAGTTTCTGAAAGAATAATTCTGAAAAGACAGTTCTGAAAAAATAATGTCAAAA
1 TTTTTCTACA-TAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* ** *
30522626 ACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTAAAAAAAAAATCTCACGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCTCACATGGACGCTC
30522688 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACA-TAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* *
30522753 ACGCTTCAAGTAGGATGCACTGTAAGCAAAATTACTAAAAAAAGCTCTCACATGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACATGGACGCTC
30522814 -TTTT-T---T--TTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
1 TTTTTCTACATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* *
30522872 CGCTTCAAGTAGGATGCACTGTAAGCAAAATTACTAAAAAAAGCTCTCACATGGACGCTC
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACATGGACGCTC
30522932 -TTTT-T---T--TTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
1 TTTTTCTACATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* * * * * * *
30522990 CACTTCAAGCAGTATGCACTATCAGCAAAGTTACTGAAGAAAAA-TTC-CACATGAACGCTT
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AA-AAAAAGCTCTCACATGGACGCTC
*
30523050 TTTTTCTATAATAGTTC
1 TTTTTCTA-CATAGTTC
30523067 TTGCTTGGCC
Statistics
Matches: 452, Mismatches: 41, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
118 210 0.46
119 8 0.02
120 7 0.02
124 3 0.01
125 73 0.16
126 40 0.09
127 111 0.25
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (125 bp):
TTTTTCTACATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACATGGACGCTC
Found at i:30526637 original size:18 final size:18
Alignment explanation
Indices: 30526596--30526637 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
30526586 ATTGGGAAAA
*
30526596 AGAA-ACATATAAGGGTT
1 AGAATACATATAAGGGCT
30526613 A-AGATACATATAAGGGCT
1 AGA-ATACATATAAGGGCT
30526631 AGAATAC
1 AGAATAC
30526638 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 1 0.05
17 2 0.10
18 17 0.81
19 1 0.05
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (18 bp):
AGAATACATATAAGGGCT
Found at i:30529845 original size:7 final size:7
Alignment explanation
Indices: 30529835--30529859 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30529825 TCTAAAGTAT
30529835 AAAAATA
1 AAAAATA
30529842 AAAAATA
1 AAAAATA
30529849 AAAAATA
1 AAAAATA
30529856 AAAA
1 AAAA
30529860 CAGCTCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:30535148 original size:3 final size:3
Alignment explanation
Indices: 30535140--30535175 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
30535130 AATTGGTCCA
30535140 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30535176 TAAAAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30537944 original size:27 final size:26
Alignment explanation
Indices: 30537907--30537957 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
30537897 CAAAATAACT
* *
30537907 ATCCTACTTTGCTAAGCCTACTGGTG
1 ATCCTACTTTGCCAAGCATACTGGTG
30537933 ATCCTTACTTTGCCAAGCATACTGG
1 ATCC-TACTTTGCCAAGCATACTGG
30537958 CGAACACCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (26 bp):
ATCCTACTTTGCCAAGCATACTGGTG
Found at i:30539382 original size:28 final size:28
Alignment explanation
Indices: 30539350--30539410 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
30539340 CACGATGTCA
*
30539350 ACTTTGTTTCATCTGAAATGCGTGACAC
1 ACTTTGTTTCATCTGAAATGCGAGACAC
30539378 ACTTTGTTTCATCTGAAATGCGAGACAC
1 ACTTTGTTTCATCTGAAATGCGAGACAC
30539406 ACTTT
1 ACTTT
30539411 TCATTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (28 bp):
ACTTTGTTTCATCTGAAATGCGAGACAC
Found at i:30541061 original size:19 final size:20
Alignment explanation
Indices: 30541037--30541074 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
30541027 GTGGTTAGGA
30541037 TTTGAGTTAAGG-TTTAAGT
1 TTTGAGTTAAGGATTTAAGT
*
30541056 TTTGAGTTTAGGATTTAAG
1 TTTGAGTTAAGGATTTAAG
30541075 GTTCGTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (20 bp):
TTTGAGTTAAGGATTTAAGT
Found at i:30541262 original size:65 final size:65
Alignment explanation
Indices: 30541170--30541295 Score: 148
Period size: 65 Copynumber: 1.9 Consensus size: 65
30541160 GTTGACATGC
* * * * *
30541170 CATTAAATAATTGAAAAGGAACCATAAAT-GATGTAATGGAAAGAATATACAAAATAATTTCTCG
1 CATTAAATAATTAAAAAAGAACAATAAATAAAT-TAATGGAAAGAATACACAAAATAATTTCTCG
30541234 T
65 T
* * *
30541235 CATTAAATAATTAAAAAA-AGACAATAAATAAATTGATGGAAAGAATCCATAAAATAATTTC
1 CATTAAATAATTAAAAAAGA-ACAATAAATAAATTAATGGAAAGAATACACAAAATAATTTC
30541296 AATTACACGT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
64 1 0.02
65 48 0.94
66 2 0.04
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (65 bp):
CATTAAATAATTAAAAAAGAACAATAAATAAATTAATGGAAAGAATACACAAAATAATTTCTCGT
Found at i:30545634 original size:20 final size:20
Alignment explanation
Indices: 30545605--30545643 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30545595 ACTCTTTGCT
*
30545605 CGATTTCGGTTGCACTAACC
1 CGATTCCGGTTGCACTAACC
30545625 CGATTCCGGTTGCACTAAC
1 CGATTCCGGTTGCACTAAC
30545644 ACTGGGCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (20 bp):
CGATTCCGGTTGCACTAACC
Found at i:30550218 original size:47 final size:48
Alignment explanation
Indices: 30550162--30550485 Score: 204
Period size: 46 Copynumber: 6.8 Consensus size: 48
30550152 GGGGTAGAAT
30550162 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCGA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCGAG
* * * * *
30550209 GTCGATGCCATATCCCAGACATGGTCTTATACTGACT-ATCGTTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-G-TCTCGAG
** ** * * * *
30550258 GCCGACACCACATCCCATACATGGTCTTACACTAGCTCTCACATATC-CG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT--CATGTCTCGAG
* * * * *
30550308 GTCGATGTCATGTCCCACACATGGTCTTACACT-G-ACACGTCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCG-AG
* * **
30550354 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTTAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCGAG
* * * * * *
30550400 GCCAATG-CATGTCTCAAACAT-GTCTTACACTAGCTC-TCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-GTCTCGAG
* * * *
30550446 GCCAATGGCATGTCCCAGACATGGTTTTACACTAGCTCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT
30550486 AATAACCCAT
Statistics
Matches: 216, Mismatches: 43, Indels: 34
0.74 0.15 0.12
Matches are distributed among these distances:
44 14 0.06
45 17 0.08
46 58 0.27
47 46 0.21
48 19 0.09
49 28 0.13
50 27 0.12
51 4 0.02
52 1 0.00
54 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCGAG
Found at i:30553545 original size:27 final size:27
Alignment explanation
Indices: 30553515--30553692 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30553505 ATATTGAGTC
* * * *
30553515 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30553542 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30553569 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30553597 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30553624 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30553651 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30553678 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30553693 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30553654 original size:82 final size:81
Alignment explanation
Indices: 30553536--30553691 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30553526 TGCTATATAA
* *
30553536 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30553601 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30553618 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30553682 CACTTAGTGC
65 CACTTAGTGC
30553692 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30556360 original size:78 final size:78
Alignment explanation
Indices: 30556231--30556387 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
30556221 GGATAGTGTG
30556231 AGCTTCGAGGTGATCTAACTGACACATTTTGTGACCAACAATGTAACACCCCAAACCCGGCCTAG
1 AGCTTCGAGGTGATCTAACTGACACATTTTGTGACCAACAATGTAACACCCCAAACCCGGCCTAG
30556296 ACGTTATGGCCGA
66 ACGTTATGGCCGA
30556309 AGCTTCGAGGTGATCTAACTGACACATTTTGTGACCAACAATGTAACACCCCAAACCCGGCCTAG
1 AGCTTCGAGGTGATCTAACTGACACATTTTGTGACCAACAATGTAACACCCCAAACCCGGCCTAG
30556374 ACGTTATGGCCGA
66 ACGTTATGGCCGA
30556387 A
1 A
30556388 TCTGGCGATG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (78 bp):
AGCTTCGAGGTGATCTAACTGACACATTTTGTGACCAACAATGTAACACCCCAAACCCGGCCTAG
ACGTTATGGCCGA
Found at i:30565752 original size:43 final size:43
Alignment explanation
Indices: 30565694--30565800 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
30565684 GGTTATCAAG
* * * * * *
30565694 ATGTGATTACCTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATAACATGTAAGACCATATCCGGGACAGTGGCATCGAT
** *
30565737 AAT-TGATTTCATGTAAGACCCTATCCGGGACAGTGGCATCGAT
1 -ATGTGATAACATGTAAGACCATATCCGGGACAGTGGCATCGAT
30565780 ATGTGATAACATGTAAGACCA
1 ATGTGATAACATGTAAGACCA
30565801 CATATGGGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 2 0.04
43 48 0.92
44 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
ATGTGATAACATGTAAGACCATATCCGGGACAGTGGCATCGAT
Found at i:30572869 original size:17 final size:17
Alignment explanation
Indices: 30572832--30572869 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
30572822 ATCAATAAGC
*
30572832 CATTCAAATCCAAATTC
1 CATTCAAATCCAAATTA
30572849 CATTCAAAT-CATAATTA
1 CATTCAAATCCA-AATTA
30572866 CATT
1 CATT
30572870 TATGAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (17 bp):
CATTCAAATCCAAATTA
Found at i:30576551 original size:266 final size:267
Alignment explanation
Indices: 30576042--30576566 Score: 732
Period size: 266 Copynumber: 2.0 Consensus size: 267
30576032 AACTAAACTG
* * * * *
30576042 AAATTCGTGTCCATAATGTGTGAAAAATGAGCCTATTGATTGTGCGGGCCATAACTCCCATTAAC
1 AAATTCGTGTCCATAATGTGTGAAAAATGAGCCCATTGATTGTGCGGACCAAAACGCCCACTAAC
** * * * *
30576107 TCATGTTAATTATTATCCAGAGTTGATGTTGTAACACATCAGTACCAGTGTCGTGACATAGGAGT
66 TCATGTTAATTAGCATCCACAGTCGATGTCGTAACACATCAGTACCAGTGCCGTGACATAGGAGT
30576172 CAGTATATTCCTCTCGGGATATCTTTAAGGGTATGTTGCAACACCCTTCATCAGTGTTGCGACGT
131 CAGTATATTCCTCTCGGGATATCTTTAAGGGTATGTTGCAACACCCTTCATCAGTGTTGCGACGT
* * * * *
30576237 TGAATTCGGTCTGAAGATTTTTCCATTCTACTCCCTATGTTGCGATATCTAACCCTCCATGTTTC
196 TGAATGCAGTCTGAAGATTTCTCCATTCTACTCCCTATGTTACGATATCAAACCCTCCATGTTTC
30576302 AACACAA
261 AACACAA
*
30576309 AAATTCGTGTCCATAATGTG-GACAAATGAGCCCATTGATTGTGCGGACCAAAACGCCCACTAAC
1 AAATTCGTGTCCATAATGTGTGAAAAATGAGCCCATTGATTGTGCGGACCAAAACGCCCACTAAC
* * * *
30576373 TCGTGTTAATTCGCATCCACAGTCGATGTCGTGACACATTAGTACCTA-TGCCGTGACATAGGAG
66 TCATGTTAATTAGCATCCACAGTCGATGTCGTAACACATCAGTACC-AGTGCCGTGACATAGGAG
* * * ** * *
30576437 TCAGTATATTCCTCTTGGGATATCTTTAGGGGTATGTTGCGATGCCTTTTATCAGTGTTGCGACG
130 TCAGTATATTCCTCTCGGGATATCTTTAAGGGTATGTTGCAACACCCTTCATCAGTGTTGCGACG
* * *
30576502 TTGAATGCAGTCTCG-AGATTTCTCTATTCTACTCCCTCTGTTACGATATCAAATCCTCCATGTT
195 TTGAATGCAGTCT-GAAGATTTCTCCATTCTACTCCCTATGTTACGATATCAAACCCTCCATGTT
30576566 T
259 T
30576567 TGACATAGTG
Statistics
Matches: 225, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
266 203 0.90
267 22 0.10
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (267 bp):
AAATTCGTGTCCATAATGTGTGAAAAATGAGCCCATTGATTGTGCGGACCAAAACGCCCACTAAC
TCATGTTAATTAGCATCCACAGTCGATGTCGTAACACATCAGTACCAGTGCCGTGACATAGGAGT
CAGTATATTCCTCTCGGGATATCTTTAAGGGTATGTTGCAACACCCTTCATCAGTGTTGCGACGT
TGAATGCAGTCTGAAGATTTCTCCATTCTACTCCCTATGTTACGATATCAAACCCTCCATGTTTC
AACACAA
Found at i:30578043 original size:43 final size:42
Alignment explanation
Indices: 30577941--30578053 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 42
30577931 ATAATTTATG
* * * *
30577941 TGTAAGACCATGTCTGGGGCA-TCGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGTATTTGATTACA
*
30577983 TGTAAGACC-CGGACTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATTTGATTACA
*
30578026 TGTATGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
30578054 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 25 0.42
43 33 0.56
44 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:30583144 original size:14 final size:14
Alignment explanation
Indices: 30583125--30583151 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30583115 CTGAGAAGAT
30583125 AAAAATAAATACTC
1 AAAAATAAATACTC
30583139 AAAAATAAATACT
1 AAAAATAAATACT
30583152 TAAGAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAAATACTC
Found at i:30586670 original size:36 final size:37
Alignment explanation
Indices: 30586618--30586691 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
30586608 AGTGTGGGCT
* *
30586618 TAAACCAATTAAACCAAAACACATAACTA-AAAAAAA
1 TAAACCAATTAAACCAAAACAAAGAACTAGAAAAAAA
*
30586654 TAAACCAATTAGACCAAAACAAAGAACTAGAAAAAAA
1 TAAACCAATTAAACCAAAACAAAGAACTAGAAAAAAA
30586691 T
1 T
30586692 TTCTTTTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 26 0.76
37 8 0.24
ACGTcount: A:0.65, C:0.18, G:0.04, T:0.14
Consensus pattern (37 bp):
TAAACCAATTAAACCAAAACAAAGAACTAGAAAAAAA
Found at i:30587214 original size:27 final size:25
Alignment explanation
Indices: 30587151--30587224 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
30587141 TCTCTCGCCT
*
30587151 CAATTTTACTCTCG-TAAAATTTGGA
1 CAATTTTAC-CCCGATAAAATTTGGA
* *
30587176 CGATTTTACCCCTGATAAAATTTTGA
1 CAATTTTACCCC-GATAAAATTTGGA
30587202 CAATTTTATCCCCGATAAAATTT
1 CAATTTTA-CCCCGATAAAATTT
30587225 CGAGAAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.05
25 9 0.21
26 27 0.64
27 4 0.10
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.39
Consensus pattern (25 bp):
CAATTTTACCCCGATAAAATTTGGA
Found at i:30597801 original size:16 final size:16
Alignment explanation
Indices: 30597772--30597805 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30597762 GTCTTGATTC
*
30597772 TAAAAATTTCAAAATT
1 TAAAAATTTAAAAATT
*
30597788 TAAAATTTTAAAAATT
1 TAAAAATTTAAAAATT
30597804 TA
1 TA
30597806 TATAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAAATTTAAAAATT
Found at i:30600800 original size:54 final size:54
Alignment explanation
Indices: 30600715--30600847 Score: 230
Period size: 54 Copynumber: 2.5 Consensus size: 54
30600705 GTCGTTATAA
* *
30600715 GGGATTTAGCCTGGACTGGTAATCCCAACATCATCGTATGAGTTCATGATATGG
1 GGGATTTAGCCTGGACTGGTAATCCCAACATCACCGTATGAGTTCATGATATCG
*
30600769 GGGATTTAGCCTGGACTGGTAATCCCGACATCACCGTATGAGTTCATGATATCG
1 GGGATTTAGCCTGGACTGGTAATCCCAACATCACCGTATGAGTTCATGATATCG
*
30600823 GGGATTTAGCCTAGACTGGTAATCC
1 GGGATTTAGCCTGGACTGGTAATCC
30600848 AGCCATGAGA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCCAACATCACCGTATGAGTTCATGATATCG
Found at i:30608025 original size:13 final size:13
Alignment explanation
Indices: 30608007--30608034 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30607997 TTTTTACATT
30608007 AAAAATTAATATA
1 AAAAATTAATATA
30608020 AAAAATTAATATA
1 AAAAATTAATATA
30608033 AA
1 AA
30608035 TGAGTCAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATTAATATA
Found at i:30608914 original size:22 final size:23
Alignment explanation
Indices: 30608883--30608945 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
30608873 ATATAATATC
30608883 CAAATAATAACAACAAAATAGTAG
1 CAAAT-ATAACAACAAAATAGTAG
* * *
30608907 -AAATATAATAGCAAAATGGTAG
1 CAAATATAACAACAAAATAGTAG
*
30608929 CAAA-ACAACAACAAAAT
1 CAAATATAACAACAAAAT
30608946 GACAACAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.16
Consensus pattern (23 bp):
CAAATATAACAACAAAATAGTAG
Found at i:30616404 original size:36 final size:31
Alignment explanation
Indices: 30616329--30616394 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
30616319 TTTTGCAGTT
*
30616329 ATCTCATATATCTGCTCTGCTTTTTTAATCG
1 ATCTCATATATCTGCTCTGCTTTTTTAATCA
30616360 ATCTCATATATCTGCTCTGCTTTTTTAATCA
1 ATCTCATATATCTGCTCTGCTTTTTTAATCA
30616391 ATCT
1 ATCT
30616395 TTGTGCATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.08, T:0.48
Consensus pattern (31 bp):
ATCTCATATATCTGCTCTGCTTTTTTAATCA
Found at i:30616627 original size:20 final size:20
Alignment explanation
Indices: 30616602--30616641 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30616592 GGGCCCAACA
30616602 ACCTAGGTCTAAATTGACTT
1 ACCTAGGTCTAAATTGACTT
30616622 ACCTAGGTCTAAATTGACTT
1 ACCTAGGTCTAAATTGACTT
30616642 GGCTGGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
ACCTAGGTCTAAATTGACTT
Found at i:30616754 original size:14 final size:14
Alignment explanation
Indices: 30616735--30616795 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
30616725 GCATCTCTAT
*
30616735 TTTTTCTCTTATTC
1 TTTTTCTCTTCTTC
30616749 TTTTTCTCTTC-TC
1 TTTTTCTCTTCTTC
*
30616762 TTTTT-TTTTCTTC
1 TTTTTCTCTTCTTC
* *
30616775 TTTTCCCCTTCTTC
1 TTTTTCTCTTCTTC
30616789 TTTTTCT
1 TTTTTCT
30616796 AATACTTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 4 0.11
13 13 0.34
14 21 0.55
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTCTCTTCTTC
Done.