Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 26 of 30
Found at i:9168334 original size:43 final size:43
Alignment explanation
Indices: 9168286--9168369 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
9168276 CACCATCCCA
* * *
9168286 TCATCACCAGCTCATGCGCACTCCCTACTCGCACATGGCTGGG
1 TCATCACCAACTCATACGCACTCCCTACTCGCACATAGCTGGG
* * *
9168329 TCATCATCAATTTATACGCACTCCCTACTCGCACATAGCTG
1 TCATCACCAACTCATACGCACTCCCTACTCGCACATAGCTG
9168370 AGTACATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.23, C:0.37, G:0.15, T:0.25
Consensus pattern (43 bp):
TCATCACCAACTCATACGCACTCCCTACTCGCACATAGCTGGG
Found at i:9169851 original size:30 final size:31
Alignment explanation
Indices: 9169788--9169854 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
9169778 GAATACTAAA
* *
9169788 ATATCATAATTGATAATGATATGACTTGTTGAC
1 ATATCATAATTGATAATGACATGAC-T-ATGAC
*
9169821 ATATCATAATTGATGATGACATGAC-ATGAC
1 ATATCATAATTGATAATGACATGACTATGAC
9169851 ATAT
1 ATAT
9169855 TATGTTGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 8 0.26
33 23 0.74
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (31 bp):
ATATCATAATTGATAATGACATGACTATGAC
Found at i:9176105 original size:18 final size:19
Alignment explanation
Indices: 9176058--9176105 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
9176048 TTAATATTTT
9176058 AATATTATTTTATTCATAA
1 AATATTATTTTATTCATAA
* *
9176077 AATAATATTTTATT-TTAA
1 AATATTATTTTATTCATAA
*
9176095 AATATTCTTTT
1 AATATTATTTT
9176106 CACCTGTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATTTTATTCATAA
Found at i:9183649 original size:24 final size:24
Alignment explanation
Indices: 9183589--9183636 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9183579 GTAGGTTACT
9183589 AAGAATATGACTTTATATAGCCTC
1 AAGAATATGACTTTATATAGCCTC
9183613 AAGAATATGACTTTATATAGCCTC
1 AAGAATATGACTTTATATAGCCTC
9183637 TTGTTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (24 bp):
AAGAATATGACTTTATATAGCCTC
Found at i:9185593 original size:18 final size:17
Alignment explanation
Indices: 9185570--9185605 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9185560 ACTTAATATA
*
9185570 TATTATTTTATTTTATTT
1 TATTATTATATTTT-TTT
9185588 TATTATTATATTTTTTT
1 TATTATTATATTTTTTT
9185605 T
1 T
9185606 CCTTTTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TATTATTATATTTTTTT
Found at i:9188425 original size:24 final size:27
Alignment explanation
Indices: 9188377--9188428 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
9188367 CTCTTATTCA
9188377 TTTCAATCACATATTATAATAATAAAC
1 TTTCAATCACATATTATAATAATAAAC
*
9188404 TTTCTATCACATA-TAT-AT-ATAAAC
1 TTTCAATCACATATTATAATAATAAAC
9188428 T
1 T
9188429 GTAAAACCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 2 0.08
26 3 0.12
27 12 0.50
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTCAATCACATATTATAATAATAAAC
Found at i:9188999 original size:251 final size:250
Alignment explanation
Indices: 9188546--9189717 Score: 1341
Period size: 251 Copynumber: 4.7 Consensus size: 250
9188536 NNNNTAATGC
* * * * *
9188546 AGTAAGAATTAACATAAAACATTATAAATGTGGAATAAGCATTGTCAAAATATTGACGTAAATGT
1 AGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGACGTAAATGT
* * * * * *
9188611 GTGAAATGTATCGTAACAAATCAGTTATGTCAAATAAACATAATTTTTGAAAAAATTAAATATTT
66 GTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTT-AAGAAATTAAATATTT
** * *
9188676 AAATTTTTATTCTCCAGTTTAAAGTGTTTTATGGCTTACAAATTTTAATCTATGCATGAATAATA
130 AAATTTTTATTCTTGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGGATGAATAATA
* *
9188741 GTAAGGATAAAAATAATTATAGTGA-AAATTAATAGTT-CAAAACCTTGACGTAAAAT
195 GTAAGGAT-AAAATAATTATAGT-ACAAATTAATAGTTGAAAAACCTTGACGTAAAGT
* * * * * * *
9188797 AATAGGAATTAATGTAAAAAATTATAAAGGTGGGACAAGCATCGTCAAAATATTGACATAAATGT
1 AGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGACGTAAATGT
* * *
9188862 GTGAGATTTAACATAACAAATCAATTATGTCAAATAAACATAATTTTTAAGGAAATTAAACATTT
66 GTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTAA-GAAATTAAATATTT
* * *
9188927 AACTTTTTATTCTTGAGTTTAAAGAGTTTTACGGCTTATAAATTTTAATCTATGGATGAATAATA
130 AAATTTTTATTCTTGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGGATGAATAATA
* * * * *
9188992 ATAAGGATAAAATAATTATACTACTAATTAATAGTTGAAAAATCTTTACGTAAAGT
195 GTAAGGATAAAATAATTATAGTACAAATTAATAGTTGAAAAACCTTGACGTAAAGT
* * * * * * * * *
9189048 CGTAAGAATTAACATAAAATATTATAAAAGTGGAACAAACGTTGTCAAAATATTAATGTAATTAT
1 AGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGACGTAAATGT
* * * **
9189113 GTGAGATTTAACGTAATAAGTCAATTATGTCATATACACATAATTTTTGGGAAAATTAAATATTT
66 GTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTAAG-AAATTAAATATTT
* * * * *
9189178 AAATTTTTATTCTTAAGTTTAAAGTGATTTACAGCTTACAAATTTTAATCTATGTATGACTAATA
130 AAATTTTTATTCTTGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGGATGAATAATA
* * * *
9189243 GTAAGGATAAAAATAATTATGGTGA-AAATTAATTGTTGAAAAACCTTAACGTAAAGC
195 GTAAGGAT-AAAATAATTATAGT-ACAAATTAATAGTTGAAAAACCTTGACGTAAAGT
* * * *
9189300 AGTAA-AATTTAAAGTAAAAAATTATAAAGGTGGAACAAATATTGTCAAAATATTGATGTAAATA
1 AGTAAGAA-TTAACGTAAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGACGTAAATG
* * * * *
9189364 TGTGAGATTGAACCTAACAAGTCAATTATGTCAAATAAACATAATTTTTGACAAATTTAAACATT
65 TGTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTAAGAAA-TTAAATATT
* * * * *
9189429 TAACTTTTTATTCTCGAGTTTAAAGTATTTTACGGCTTACAAATTTTAGTCTATAGATGAATAAT
129 TAAATTTTTATTCTTGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGGATGAATAAT
* * ** * ** *
9189494 AGGAAGGATAAAATAATAATAGTATTAATTAGTAGTAAAAAAATCTTGACGTAAAGT
194 AGTAAGGATAAAATAATTATAGTACAAATTAATAGTTGAAAAACCTTGACGTAAAGT
* * * * * ** *
9189551 GGTAAGAATTAACGTAAAATATTAT-AAGGATGAAAAAAAAATTGTTGAAATATTGACGTAAGTG
1 AGTAAGAATTAACGTAAAAAATTATAAAGG-TGGAACAAACATTGTCAAAATATTGACGTAAATG
* * * *
9189615 TGTGAGGTTTAATGTAACAAGTCAATTATGTCAAATAAACATAATTTTGGAA-AAATTAAATAGT
65 TGTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTT-TAAGAAATTAAATATT
* *
9189679 TAAATTGTTATTCTCT-AGTTTAAAGTGTTTTATGGCTTA
129 TAAATTTTTATTCT-TGAGTTTAAAGTGTTTTACGGCTTA
9189718 TGTAACACTC
Statistics
Matches: 775, Mismatches: 133, Indels: 27
0.83 0.14 0.03
Matches are distributed among these distances:
249 1 0.00
250 72 0.09
251 491 0.63
252 210 0.27
253 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (250 bp):
AGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAACATTGTCAAAATATTGACGTAAATGT
GTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTAAGAAATTAAATATTTA
AATTTTTATTCTTGAGTTTAAAGTGTTTTACGGCTTACAAATTTTAATCTATGGATGAATAATAG
TAAGGATAAAATAATTATAGTACAAATTAATAGTTGAAAAACCTTGACGTAAAGT
Found at i:9189503 original size:503 final size:501
Alignment explanation
Indices: 9188547--9189710 Score: 1573
Period size: 503 Copynumber: 2.3 Consensus size: 501
9188537 NNNTAATGCA
* * * *
9188547 GTAAGAATTAACATAAAACATTATAAATGTGGAATAAGCATTGTCAAAATATTGACGTAAATGTG
1 GTAAGAATTAACATAAAATATTATAAAAGTGGAAAAAACATTGTCAAAATATTGACGTAAATGTG
* * * * * *
9188612 TGAAATGTATCGTAACAAATCAGTTATGTCAAATAAACATAATTTTTGAAAAAATTAAATATTTA
66 TGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTGGAAAAATTAAATATTTA
* **
9188677 AATTTTTATTCTCCAGTTTAAAGTGTTTTATGGCTTACAAATTTTAATCTATGCATGAATAATAG
131 AATTTTTATTCT-TAGTTTAAAGTGTTTTACAGCTTACAAATTTTAATCTATGCATGAATAATAG
* * * *
9188742 TAAGGATAAAAATAATTATAGTGAAAATTAATAGTTCAAAACCTTGACGTAAAATAATAGGAATT
195 TAAGGATAAAAATAATTATAGTGAAAATTAATAGTTAAAAACCTTAACGTAAAACAATAGAAATT
* * * * *
9188807 AATGTAAAAAATTATAAAGGTGGGACAAGCATCGTCAAAATATTGACATAAATGTGTGAGATTTA
260 AAAGTAAAAAATTATAAAGGTGGAACAAACATCGTCAAAATATTGACATAAATATGTGAGATTGA
*
9188872 ACATAACAAATCAATTATGTCAAATAAACATAATTTTTAAGGAAATTAAACATTTAACTTTTTAT
325 ACATAACAAATCAATTATGTCAAATAAACATAATTTTTAAGCAAATTAAACATTTAACTTTTTAT
* * * *
9188937 TCTTGAGTTTAAAGAGTTTTACGGCTTATAAATTTTAATCTATGGATGAATAATAATAAGGATAA
390 TCTCGAGTTTAAAGAGTTTTACGGCTTACAAATTTTAATCTATAGATGAATAATAAGAAGGATAA
* ** *
9189002 AATAATTATACTACTAATTAATAGTTGAAAAATCTTTACGTAAAGTC
455 AATAATAATACTACTAATTAATAGTAAAAAAATCTTGACGTAAAGTC
* * * * * *
9189049 GTAAGAATTAACATAAAATATTATAAAAGTGGAACAAACGTTGTCAAAATATTAATGTAATTATG
1 GTAAGAATTAACATAAAATATTATAAAAGTGGAAAAAACATTGTCAAAATATTGACGTAAATGTG
* * * *
9189114 TGAGATTTAACGTAATAAGTCAATTATGTCATATACACATAATTTTTGGGAAAATTAAATATTTA
66 TGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTGGAAAAATTAAATATTTA
* * *
9189179 AATTTTTATTCTTAAGTTTAAAGTGATTTACAGCTTACAAATTTTAATCTATGTATGACTAATAG
131 AATTTTTATTCTT-AGTTTAAAGTGTTTTACAGCTTACAAATTTTAATCTATGCATGAATAATAG
* * * *
9189244 TAAGGATAAAAATAATTATGGTGAAAATTAATTGTTGAAAAACCTTAACGTAAAGCAGTA-AAAT
195 TAAGGATAAAAATAATTATAGTGAAAATTAATAGTT-AAAAACCTTAACGTAAAACAATAGAAA-
* * **
9189308 TTAAAGTAAAAAATTATAAAGGTGGAACAAATATTGTCAAAATATTGATGTAAATATGTGAGATT
258 TTAAAGTAAAAAATTATAAAGGTGGAACAAACATCGTCAAAATATTGACATAAATATGTGAGATT
* * *
9189373 GAACCTAACAAGTCAATTATGTCAAATAAACATAATTTTTGA-CAAATTTAAACATTTAACTTTT
323 GAACATAACAAATCAATTATGTCAAATAAACATAATTTTTAAGCAAA-TTAAACATTTAACTTTT
* *
9189437 TATTCTCGAGTTTAAAGTA-TTTTACGGCTTACAAATTTTAGTCTATAGATGAATAATAGGAAGG
387 TATTCTCGAGTTTAAAG-AGTTTTACGGCTTACAAATTTTAATCTATAGATGAATAATAAGAAGG
* * * *
9189501 ATAAAATAATAATAGTATTAATTAGTAGTAAAAAAATCTTGACGTAAAGTG
451 ATAAAATAATAATACTACTAATTAATAGTAAAAAAATCTTGACGTAAAGTC
* * * * ** *
9189552 GTAAGAATTAACGTAAAATATTAT-AAGGATGAAAAAAAAATTGTTGAAATATTGACGTAAGTGT
1 GTAAGAATTAACATAAAATATTATAAAAG-TGGAAAAAACATTGTCAAAATATTGACGTAAATGT
* * *
9189616 GTGAGGTTTAATGTAACAAGTCAATTATGTCAAATAAACATAA-TTTTGGAAAAATTAAATAGTT
65 GTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTGGAAAAATTAAATATTT
*
9189680 AAATTGTTATTCTCTAGTTTAAAGTGTTTTA
130 AAATTTTTATTCT-TAGTTTAAAGTGTTTTA
9189711 TGGCTTATGT
Statistics
Matches: 574, Mismatches: 81, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
502 257 0.45
503 316 0.55
504 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (501 bp):
GTAAGAATTAACATAAAATATTATAAAAGTGGAAAAAACATTGTCAAAATATTGACGTAAATGTG
TGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTGGAAAAATTAAATATTTA
AATTTTTATTCTTAGTTTAAAGTGTTTTACAGCTTACAAATTTTAATCTATGCATGAATAATAGT
AAGGATAAAAATAATTATAGTGAAAATTAATAGTTAAAAACCTTAACGTAAAACAATAGAAATTA
AAGTAAAAAATTATAAAGGTGGAACAAACATCGTCAAAATATTGACATAAATATGTGAGATTGAA
CATAACAAATCAATTATGTCAAATAAACATAATTTTTAAGCAAATTAAACATTTAACTTTTTATT
CTCGAGTTTAAAGAGTTTTACGGCTTACAAATTTTAATCTATAGATGAATAATAAGAAGGATAAA
ATAATAATACTACTAATTAATAGTAAAAAAATCTTGACGTAAAGTC
Found at i:9196626 original size:252 final size:248
Alignment explanation
Indices: 9195935--9196923 Score: 1053
Period size: 251 Copynumber: 3.9 Consensus size: 248
9195925 TTTTATAAAA
*
9195935 TTTAATCTATGCATGAATAATAGTACA-GATAAAAAAATT-TATGGGAAAAATTAGTAGTTGAAA
1 TTTAATCTATGCATGAATAATAGTA-AGGATAAAAAAATTATA-GTG-AAAATTAGTAGTTGAAA
*** * ** * * * * *
9195998 AGTTTTGATGTAAAGTTGTAAGAATTAACGTAAAATATTATAAAGGTGGAACAAACGTTGTGAAA
63 AACCTTGACGTAAAGCAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAA
* ** *
9196063 ATATTAACATAAATGTATGAGATTTAACGTAA-ATCTCAATTATGTCAAATAAATATAATTTTTG
128 ATATTAACATAAATGTGTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTG
* * * * **
9196127 GAGAATTAAATATTAAAATTTTTATTCTCAAGTTGGAAGTGTTTTACGGCTTACAAAT
193 GAAAATTAAACATTTAAA-TTTTATTCTTAAGTTTAAAGTG-TTTACGGCTTACAAAT
* * * *
9196185 TTTAATCTATGCATGAATGATAATAAGGATAAAAAAATTATGGTGAAAATTAGTAGTTGAAAACC
1 TTTAATCTATGCATGAATAATAGTAAGGATAAAAAAATTATAGTGAAAATTAGTAGTTGAAAAAC
* * * *
9196250 CTTGACTTAAAACCA-TAAGAATTAATGT-AAAAATTATAAAGGTGGAACAAGCAATATCAAAAT
66 CTTGACGT-AAAGCAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAAAT
* * * *
9196313 ATTGACATAAATGTGAGAGATTTAACGTAACATGTCAATTATGTCAAATAAATATAATTTTTTGG
130 ATTAACATAAATGTGTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAA-TTTTTGG
* * * * *
9196378 AAAATTAGACATTTAAAGTTTTATTCTTGAGTTTAAAGTGTTCTATGACTTATAAAT
194 AAAATTAAACATTTAAA-TTTTATTCTTAAGTTTAAAGTGTT-TACGGCTTACAAAT
9196435 TTTAATCTATGCATGAATAATAGTAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAA
1 TTTAATCTATGCATGAATAATAGTAAGGATAAAAA-AATTATAGTGAAAATTAGTAGTTGAAAAA
* * * * * *
9196500 CATTGACATCAAGCAGTAAAAATTAACATAAAAAATTATAAAGGTGGAACAAGTATTATCAAAAT
65 CCTTGACGTAAAGCAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAAAT
* * * * * *
9196565 ATTAACATAAATGTGTGAGATTTAACTTAACAAGTTAACTATATCAAACAAACACAATTTTTGAG
130 ATTAACATAAATGTGTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTG-G
* * * * *
9196630 AAAACTAAATATTTAACTCTTTATT-TTCAAGTTTACAA-TGTGTTACGGCCTGCAAAT
194 AAAATTAAACATTTAAAT-TTTATTCTT-AAGTTTA-AAGTGT-TTACGGCTTACAAAT
* * * * * *
9196687 TTTAATCTATGGATGAATAGTAGTGAGGATAAAATAATTATAGT-ATTAATTAGTAATTGAAAAA
1 TTTAATCTATGCATGAATAATAGTAAGGATAAAAAAATTATAGTGA-AAATTAGTAGTTGAAAAA
* * ** * *
9196751 CCTTGACGTAAAGTAGTAAGAATTAACGTAAAATATTATAAATAT-GAAAAACGAATTATCAAAA
65 CCTTGACGTAAAGCAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAA-GCATTATCAAAA
** * ***
9196815 TATTAATGTAAATGTGTGAGATTTAACGTATCAAGTCAATTATGTCAAATAAACATAATGTTCAA
129 TATTAACATAAATGTGTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAAT-TTTTG
*
9196880 GTAAATTAAACATTTAAATTGTTATTC-TAGAGTTTAAAGTGTTT
193 GAAAATTAAACATTTAAATT-TTATTCTTA-AGTTTAAAGTGTTT
9196924 TACTGCTAAT
Statistics
Matches: 617, Mismatches: 101, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
248 56 0.09
249 63 0.10
250 138 0.22
251 206 0.33
252 151 0.24
253 3 0.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (248 bp):
TTTAATCTATGCATGAATAATAGTAAGGATAAAAAAATTATAGTGAAAATTAGTAGTTGAAAAAC
CTTGACGTAAAGCAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGCATTATCAAAATA
TTAACATAAATGTGTGAGATTTAACGTAACAAGTCAATTATGTCAAATAAACATAATTTTTGGAA
AATTAAACATTTAAATTTTATTCTTAAGTTTAAAGTGTTTACGGCTTACAAAT
Found at i:9197022 original size:4 final size:4
Alignment explanation
Indices: 9197013--9197152 Score: 79
Period size: 4 Copynumber: 35.5 Consensus size: 4
9197003 TAAAAGCATA
* * * * * *
9197013 ATAT ATAT ATAT ATAT GTAT ATGT ATAT ACAT ATAC ATAT GTAT ACAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* ** * * * * ** *
9197061 ACAT GGAT GTAT ATAA AT-T CAT-T A-AT ATAT ACAT ACAT GCAT ATAC
1 ATAT ATAT ATAT ATAT ATAT -ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
9197107 ATAC ATAT ATAT ATAT ATAT ATAT ATTT ATAC ATAT ATAT ATAT AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
9197153 GTCACGACCC
Statistics
Matches: 106, Mismatches: 27, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
3 3 0.03
4 103 0.97
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (4 bp):
ATAT
Found at i:9197024 original size:6 final size:6
Alignment explanation
Indices: 9197013--9197152 Score: 79
Period size: 6 Copynumber: 23.7 Consensus size: 6
9197003 TAAAAGCATA
* * * * * *
9197013 ATATAT ATATAT ATATGT ATATGT ATATAC ATATAC ATATGT ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* ** * * * * ** *
9197061 ACATGG ATGTAT ATAAAT -TCAT-T A-ATAT ATACAT ACATGC ATATAC
1 ATATAT ATATAT ATATAT AT-ATAT ATATAT ATATAT ATATAT ATATAT
* * *
9197107 ATACAT ATATAT ATATAT ATATAT ATTTAT ACATAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
9197153 GTCACGACCC
Statistics
Matches: 98, Mismatches: 32, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
4 2 0.02
5 4 0.04
6 92 0.94
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (6 bp):
ATATAT
Found at i:9197071 original size:34 final size:34
Alignment explanation
Indices: 9197033--9197125 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
9197023 ATATATGTAT
* *
9197033 ATGTATATACATATACATATGTATACATACATGG
1 ATGTATATACATATACATATATATACATACATGC
*
9197067 ATGTATATA-A-ATTCATTAATATATACATACATGC
1 ATGTATATACATATACA-T-ATATATACATACATGC
* * *
9197101 ATATACATACATATATATATATATA
1 ATGTATATACATATACATATATATA
9197126 TATATATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
32 4 0.08
33 2 0.04
34 37 0.77
35 2 0.04
36 3 0.06
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (34 bp):
ATGTATATACATATACATATATATACATACATGC
Found at i:9197151 original size:14 final size:14
Alignment explanation
Indices: 9197013--9197151 Score: 89
Period size: 14 Copynumber: 9.5 Consensus size: 14
9197003 TAAAAGCATA
*
9197013 ATATATATATATAT
1 ATATATACATATAT
* **
9197027 ATGTATATGTATAT
1 ATATATACATATAT
* *
9197041 ACATATACATATGT
1 ATATATACATATAT
*
9197055 ATACATACATGGATGTAT
1 ATATATACAT--A--TAT
* *
9197073 ATAAATTCATTAATAT
1 ATATATACA-T-ATAT
* **
9197089 ATACATACATGCAT
1 ATATATACATATAT
*
9197103 ATACATACATATAT
1 ATATATACATATAT
*
9197117 ATATATATATATAT
1 ATATATACATATAT
*
9197131 ATTTATACATATAT
1 ATATATACATATAT
9197145 ATATATA
1 ATATATA
9197152 TGTCACGACC
Statistics
Matches: 96, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
14 73 0.76
15 1 0.01
16 11 0.11
18 10 0.10
19 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (14 bp):
ATATATACATATAT
Found at i:9203433 original size:14 final size:14
Alignment explanation
Indices: 9203410--9203447 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
9203400 TGTCAGGTTT
9203410 TACA-ATATATGTA
1 TACATATATATGTA
*
9203423 TACATATATATTTA
1 TACATATATATGTA
9203437 TACATATATAT
1 TACATATATAT
9203448 ATTAATGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (14 bp):
TACATATATATGTA
Found at i:9205534 original size:44 final size:44
Alignment explanation
Indices: 9205420--9205581 Score: 134
Period size: 44 Copynumber: 3.7 Consensus size: 44
9205410 ACCTACAACT
** * * * *
9205420 TTGTGATGCCACCTGTCAGGAGATTACTCTGGGTAATGATTATCA
1 TTGTGATGCCACCCATTAGGAGATTACTCTGGGTGATGACTA-CG
* *
9205465 TTGT-ACTGCCACTCA-TCGAGAGATTACTCTGGGTGATGACTACG
1 TTGTGA-TGCCACCCATTAG-GAGATTACTCTGGGTGATGACTACG
* *
9205509 TTGTGATGCCACCCATTAGGAGATTACT-TCGAGTGATGACTATG
1 TTGTGATGCCACCCATTAGGAGATTACTCT-GGGTGATGACTACG
* * *
9205553 TTGTGATACCACTCGTT-GGAAGATTACTC
1 TTGTGATGCCACCCATTAGG-AGATTACTC
9205582 CAAGTGATGA
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 3 0.03
44 58 0.61
45 34 0.36
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (44 bp):
TTGTGATGCCACCCATTAGGAGATTACTCTGGGTGATGACTACG
Found at i:9205588 original size:44 final size:44
Alignment explanation
Indices: 9205497--9205596 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
9205487 ATTACTCTGG
* * * *
9205497 GTGATGACTACGTTGTGATGCCACCCATTAGGAGATTACTTCGA
1 GTGATGACTATGTTGTGATACCACCCATTAGGAGATTACTCCAA
* *
9205541 GTGATGACTATGTTGTGATACCACTCGTT-GGAAGATTACTCCAA
1 GTGATGACTATGTTGTGATACCACCCATTAGG-AGATTACTCCAA
*
9205585 GTGATGATTATG
1 GTGATGACTATG
9205597 ATCGTAATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.04
44 46 0.96
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
GTGATGACTATGTTGTGATACCACCCATTAGGAGATTACTCCAA
Found at i:9214322 original size:140 final size:140
Alignment explanation
Indices: 9214070--9214350 Score: 526
Period size: 140 Copynumber: 2.0 Consensus size: 140
9214060 TGCAAGTATC
9214070 TGTCACTTGCGAGTAATTAAGGAAGCAGCACTTCCTTTGCCCAACCTTGCCCACCGGTTGGTCGG
1 TGTCACTTGCGAGTAATTAAGGAAGCAGCACTTCCTTTGCCCAACCTTGCCCACCGGTTGGTCGG
* *
9214135 TTGGGATACATAGTAAATAAATGGGGTGGGAAGGGGAGGAATATTGTTATGCCGTAATATATATA
66 TTGGCATACATAGTAAATAAATGGGGTGGGAAGAGGAGGAATATTGTTATGCCGTAATATATATA
9214200 TATATATATA
131 TATATATATA
9214210 TGTCACTTGCGAGTAATTAAGGAAGCAGCACTTCCTTTGCCCAACCTTGCCCACCGGTTGGTCGG
1 TGTCACTTGCGAGTAATTAAGGAAGCAGCACTTCCTTTGCCCAACCTTGCCCACCGGTTGGTCGG
* *
9214275 TTGGCATACATAGTAAATAAATGGGGTGGGAAGAGGAGGAGTATTGTTGTGCCGTAATATATATA
66 TTGGCATACATAGTAAATAAATGGGGTGGGAAGAGGAGGAATATTGTTATGCCGTAATATATATA
9214340 TATATATATA
131 TATATATATA
9214350 T
1 T
9214351 CTTGAATTGT
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (140 bp):
TGTCACTTGCGAGTAATTAAGGAAGCAGCACTTCCTTTGCCCAACCTTGCCCACCGGTTGGTCGG
TTGGCATACATAGTAAATAAATGGGGTGGGAAGAGGAGGAATATTGTTATGCCGTAATATATATA
TATATATATA
Found at i:9215372 original size:14 final size:14
Alignment explanation
Indices: 9215337--9215389 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
9215327 TATTTTCCAT
*
9215337 TTATTATTTTTATC
1 TTATTATATTTATC
* *
9215351 TAACTATATTTATC
1 TTATTATATTTATC
*
9215365 TTATTATATATAT-
1 TTATTATATTTATC
*
9215378 TTTTTATATTTA
1 TTATTATATTTA
9215390 AGTGTTTATC
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTATATTTATC
Found at i:9215771 original size:11 final size:10
Alignment explanation
Indices: 9215756--9215789 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9215746 TATATATATA
9215756 TTTTTTATTT
1 TTTTTTATTT
*
9215766 TATTTTATTT
1 TTTTTTATTT
9215776 TTTCTTTATTT
1 TTT-TTTATTT
9215787 TTT
1 TTT
9215790 GAGACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:9215788 original size:17 final size:17
Alignment explanation
Indices: 9215754--9215787 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9215744 ATTATATATA
9215754 TATTTTTTATTTTATTT
1 TATTTTTTATTTTATTT
*
9215771 TATTTTTT-CTTTATTT
1 TATTTTTTATTTTATTT
9215787 T
1 T
9215788 TTGAGACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TATTTTTTATTTTATTT
Found at i:9224973 original size:25 final size:25
Alignment explanation
Indices: 9224945--9225015 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
9224935 CTATTTATTT
* *
9224945 TTATTTCCCATTGGGCCATGCCCAC
1 TTATTTTCTATTGGGCCATGCCCAC
* * *
9224970 TTATTTTCTTTTGGGTCATGCCCAT
1 TTATTTTCTATTGGGCCATGCCCAC
9224995 TTATTTTCTATTTGGGCCATG
1 TTATTTTCTA-TTGGGCCATG
9225016 TCCATTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 29 0.76
26 9 0.24
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (25 bp):
TTATTTTCTATTGGGCCATGCCCAC
Found at i:9225015 original size:26 final size:26
Alignment explanation
Indices: 9224955--9225032 Score: 104
Period size: 25 Copynumber: 3.0 Consensus size: 26
9224945 TTATTTCCCA
*
9224955 TTGGGCCATGCCCACTTATTTTCT-T
1 TTGGGCCATGCCCATTTATTTTCTAT
*
9224980 TTGGGTCATGCCCATTTATTTTCTAT
1 TTGGGCCATGCCCATTTATTTTCTAT
*
9225006 TTGGGCCATGTCCATTTTTATTTTCTA
1 TTGGGCCATGCCCA--TTTATTTTCTA
9225033 CTTCTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
25 22 0.48
26 13 0.28
28 11 0.24
ACGTcount: A:0.14, C:0.22, G:0.15, T:0.49
Consensus pattern (26 bp):
TTGGGCCATGCCCATTTATTTTCTAT
Found at i:9225051 original size:22 final size:22
Alignment explanation
Indices: 9225020--9225067 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9225010 GCCATGTCCA
*
9225020 TTTTTATTTTCTACTTCTTTTT
1 TTTTTATTTTCTACTTCTTTCT
* **
9225042 TTTTTGTTTTCTTTTTCTTTCT
1 TTTTTATTTTCTACTTCTTTCT
9225064 TTTT
1 TTTT
9225068 CTCTCTTCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTATTTTCTACTTCTTTCT
Found at i:9225127 original size:22 final size:22
Alignment explanation
Indices: 9225088--9225131 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9225078 CCGTCACTCC
*
9225088 CTTCACCACCATGTCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
**
9225110 CTTCACCACTGTGGCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
9225132 ATTCCTTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.43, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTCACCACCATGGCTTCCTCT
Found at i:9225348 original size:35 final size:35
Alignment explanation
Indices: 9225272--9225390 Score: 161
Period size: 34 Copynumber: 3.5 Consensus size: 35
9225262 AAAGATGTCC
*
9225272 AATTTTTCTGCAC-AAACTACTAGCAAACAGCTCT
1 AATTTTTCTGCACAAAACTACCAGCAAACAGCTCT
* ** * *
9225306 AATTTTTCTGCACAAAATTGGCAGCAAACAACTCA
1 AATTTTTCTGCACAAAACTACCAGCAAACAGCTCT
*
9225341 AACTTTTCTGCAC-AAACTACCAGCAAACAGCTCT
1 AATTTTTCTGCACAAAACTACCAGCAAACAGCTCT
9225375 AATTTTTCTGCACAAA
1 AATTTTTCTGCACAAA
9225391 CAGCTCCAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
34 41 0.59
35 29 0.41
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (35 bp):
AATTTTTCTGCACAAAACTACCAGCAAACAGCTCT
Found at i:9225413 original size:24 final size:23
Alignment explanation
Indices: 9225364--9225437 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
9225354 AAACTACCAG
*
9225364 CAAACAGCTCTAATTTTTCTGCA
1 CAAACAGCTCCAATTTTTCTGCA
9225387 CAAACAGCTCCAATTTTTCTGCAA
1 CAAACAGCTCCAATTTTTCTGC-A
* * *
9225411 CAAACAGTTCCAAATTTTCTACA
1 CAAACAGCTCCAATTTTTCTGCA
9225434 CAAA
1 CAAA
9225438 TTGGCAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 26 0.57
24 20 0.43
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (23 bp):
CAAACAGCTCCAATTTTTCTGCA
Found at i:9225652 original size:24 final size:26
Alignment explanation
Indices: 9225618--9225665 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
9225608 AAAAATCAGC
*
9225618 TTTCTTACCT-CAAAAATTTCAGCTT
1 TTTCTTACCTCCAAAAATTGCAGCTT
9225643 TTTCTT-CCTCCAAAAATTGCAGC
1 TTTCTTACCTCCAAAAATTGCAGC
9225666 AAAAAGCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.40
Consensus pattern (26 bp):
TTTCTTACCTCCAAAAATTGCAGCTT
Found at i:9226619 original size:20 final size:20
Alignment explanation
Indices: 9226576--9226613 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9226566 TTTTGGCCCC
9226576 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
9226596 ATTTTACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
9226614 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:9226697 original size:27 final size:27
Alignment explanation
Indices: 9226667--9226724 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
9226657 TTGGAGTAAA
*
9226667 AGGGTAAAATGGTAATTTTGCCACC-CC
1 AGGGCAAAATGGTAATTTT-CCACCACC
*
9226694 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATGGTAATTTTCCACCACC
9226722 AGG
1 AGG
9226725 ACATTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATGGTAATTTTCCACCACC
Found at i:9232776 original size:13 final size:13
Alignment explanation
Indices: 9232758--9232782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9232748 TTTCAGAAAA
9232758 TTTATAAAATCAT
1 TTTATAAAATCAT
9232771 TTTATAAAATCA
1 TTTATAAAATCA
9232783 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9243974 original size:19 final size:19
Alignment explanation
Indices: 9243952--9244012 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 19
9243942 TATATTTGAA
9243952 TTATCTTTATTTATTATTT
1 TTATCTTTATTTATTATTT
* * *
9243971 TTATCTTTTTTTTTTCTATTG
1 TTATC-TTTATTTAT-TATTT
9243992 TTA--TTTATTTATTATTT
1 TTATCTTTATTTATTATTT
9244009 TTAT
1 TTAT
9244013 TGAATAACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 7 0.21
18 7 0.21
19 5 0.15
20 7 0.21
21 7 0.21
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATCTTTATTTATTATTT
Found at i:9244013 original size:13 final size:13
Alignment explanation
Indices: 9243951--9244013 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
9243941 ATATATTTGA
*
9243951 ATTATCTTTATTT
1 ATTATTTTTATTT
9243964 ATTATTTTTATCTT
1 ATTATTTTTAT-TT
*
9243978 -TT-TTTTT-TCT
1 ATTATTTTTATTT
*
9243988 ATTGTTATTTATTT
1 ATTATT-TTTATTT
9244002 ATTATTTTTATT
1 ATTATTTTTATT
9244014 GAATAACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 1 0.02
11 3 0.07
12 7 0.17
13 21 0.51
14 9 0.22
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (13 bp):
ATTATTTTTATTT
Found at i:9244977 original size:25 final size:24
Alignment explanation
Indices: 9244948--9245008 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
9244938 CAGTTTCTCT
* *
9244948 CTTCTCATCCCTGCGTCGGTAGCTC
1 CTTCTC-TCCCTGCGACGGCAGCTC
9244973 CTTCTCTTCCCTGCGACGGCAGCTC
1 CTTCTC-TCCCTGCGACGGCAGCTC
*
9244998 CTGCTCTCCCT
1 CTTCTCTCCCT
9245009 ATCTACCGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.07, C:0.44, G:0.18, T:0.31
Consensus pattern (24 bp):
CTTCTCTCCCTGCGACGGCAGCTC
Found at i:9246230 original size:22 final size:22
Alignment explanation
Indices: 9246199--9246241 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9246189 TTACTCTATT
*
9246199 TTTTTTCTTTGTTTATTTTTTA
1 TTTTTCCTTTGTTTATTTTTTA
*
9246221 TTTTTCCTTTTTTTATTTTTT
1 TTTTTCCTTTGTTTATTTTTT
9246242 TTTAGTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTCCTTTGTTTATTTTTTA
Found at i:9250295 original size:20 final size:20
Alignment explanation
Indices: 9250258--9250304 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
9250248 AGTGAATATT
* *
9250258 TTAATTTAATGAAAAAAATTA
1 TTAA-TTAAGGAAAAAAATAA
*
9250279 TTAATTAAGGAATAAAATAA
1 TTAATTAAGGAAAAAAATAA
9250299 TTAATT
1 TTAATT
9250305 CTATAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
TTAATTAAGGAAAAAAATAA
Found at i:9253872 original size:22 final size:20
Alignment explanation
Indices: 9253831--9253872 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9253821 GCATATTAAA
9253831 ATTTAATATTAAAAATAATT
1 ATTTAATATTAAAAATAATT
*
9253851 ATTTATTATTATAATAATAATT
1 ATTTAATATTA-AA-AATAATT
9253873 TATAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAATATTAAAAATAATT
Found at i:9253930 original size:19 final size:19
Alignment explanation
Indices: 9253906--9253942 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9253896 TAACACAAAA
*
9253906 TAAAAGTAAATATTTATAT
1 TAAAAGTAAATATATATAT
*
9253925 TAAAAGTATATATATATA
1 TAAAAGTAAATATATATA
9253943 GTAATTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
TAAAAGTAAATATATATAT
Found at i:9254708 original size:3 final size:3
Alignment explanation
Indices: 9254700--9254726 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9254690 GGGGGACGCC
9254700 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
9254727 TATTTAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9269565 original size:28 final size:27
Alignment explanation
Indices: 9269526--9269578 Score: 97
Period size: 28 Copynumber: 1.9 Consensus size: 27
9269516 ATGTCCTGAT
9269526 GGTGGAAAATTACCATTTTACCCTTGA
1 GGTGGAAAATTACCATTTTACCCTTGA
9269553 GGTGGCAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACCATTTTACCCTT
9269579 TTACTCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTGGAAAATTACCATTTTACCCTTGA
Found at i:9269648 original size:20 final size:20
Alignment explanation
Indices: 9269623--9269668 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
9269613 CTTCTAAACC
9269623 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
9269643 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCCAATAAG
9269663 TCAAAT
1 TCAAAT
9269669 GGGGTCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:9272400 original size:2 final size:2
Alignment explanation
Indices: 9272393--9272439 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
9272383 AATGTCATGA
* *
9272393 AT AT AT AT AT AT AT AT AT AT AT AA AT AT -T AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9272434 AT AT AT
1 AT AT AT
9272440 TTAATTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9272449 original size:23 final size:25
Alignment explanation
Indices: 9272392--9272439 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9272382 AAATGTCATG
*
9272392 AATA-TATATATATATATATATATA
1 AATATTATATATATATACATATATA
9272416 AATATTATATATATATACATATAT
1 AATATTATATATATATACATATAT
9272440 TTAATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AATATTATATATATATACATATATA
Found at i:9272510 original size:30 final size:29
Alignment explanation
Indices: 9272476--9272558 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
9272466 ACTTAAAATA
9272476 AATTTTATTATTTATATTATTACATTTAAT
1 AATTTTATTATTTATA-TATTACATTTAAT
* * **
9272506 AATTTTATTAGTTATCATCTTAGTTTTAAT
1 AATTTTATTATTTAT-ATATTACATTTAAT
*
9272536 AA-TATATTATTTATA-ATTA-ATTT
1 AATTTTATTATTTATATATTACATTT
9272559 TTATTTATAC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
28 1 0.02
29 10 0.23
30 26 0.59
31 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (29 bp):
AATTTTATTATTTATATATTACATTTAAT
Found at i:9272625 original size:2 final size:2
Alignment explanation
Indices: 9272618--9272668 Score: 61
Period size: 2 Copynumber: 26.0 Consensus size: 2
9272608 ATTAATTTCG
*
9272618 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A GTA -A TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
9272659 TA AA TA TA TA
1 TA TA TA TA TA
9272669 CTATTAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.93
3 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:9273236 original size:25 final size:26
Alignment explanation
Indices: 9273208--9273262 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
9273198 TTTTAGTGAG
9273208 TTATTTTAATT-TTATGTTATT-CTTT
1 TTATTTTAATTATTAT-TTATTGCTTT
* *
9273233 TTATTTTAGTTATTATTTATTGGTTT
1 TTATTTTAATTATTATTTATTGCTTT
9273259 TTAT
1 TTAT
9273263 ATTTTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (26 bp):
TTATTTTAATTATTATTTATTGCTTT
Found at i:9273246 original size:18 final size:19
Alignment explanation
Indices: 9273211--9273246 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9273201 TAGTGAGTTA
9273211 TTTTAATTTTATGTTATTC
1 TTTTAATTTTATGTTATTC
*
9273230 TTTTTATTTTA-GTTATT
1 TTTTAATTTTATGTTATT
9273247 ATTTATTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (19 bp):
TTTTAATTTTATGTTATTC
Found at i:9277906 original size:13 final size:12
Alignment explanation
Indices: 9277893--9277931 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
9277883 ACCTTAATCT
9277893 TTAATATTATTC
1 TTAATATTATTC
9277905 TTATATATT-TTC
1 TTA-ATATTATTC
9277917 TTAATCATTATTC
1 TTAAT-ATTATTC
9277930 TT
1 TT
9277932 TGATTATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 12 0.50
13 10 0.42
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAATATTATTC
Found at i:9288987 original size:59 final size:58
Alignment explanation
Indices: 9288895--9289011 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 58
9288885 AGAAAACTGA
9288895 TGTTAAGCCTTGCGAGGTTTCGATTGGTATTTCAGGTAATGAATGTCTATCGAGACAT
1 TGTTAAGCCTTGCGAGGTTTCGATTGGTATTTCAGGTAATGAATGTCTATCGAGACAT
9288953 NTGTTAAGCCTTGCGAGGTTTCGATTGGTATTTCAGGTAATGAATGTCTATCGAGACAT
1 -TGTTAAGCCTTGCGAGGTTTCGATTGGTATTTCAGGTAATGAATGTCTATCGAGACAT
9289012 CACAGCGGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (58 bp):
TGTTAAGCCTTGCGAGGTTTCGATTGGTATTTCAGGTAATGAATGTCTATCGAGACAT
Found at i:9291023 original size:43 final size:43
Alignment explanation
Indices: 9290959--9291052 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
9290949 TGTGATAATT
* * * *
9290959 ATGACCCAGCTATGTGTGGTGTAGGAGTGCACATGAGTTGATG
1 ATGACCCAACCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
9291002 ATGACCCAACCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCCAACCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
9291045 ATGACCCA
1 ATGACCCA
9291053 GTTGAAGGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (43 bp):
ATGACCCAACCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
Found at i:9298640 original size:34 final size:34
Alignment explanation
Indices: 9298554--9298734 Score: 229
Period size: 34 Copynumber: 5.3 Consensus size: 34
9298544 CAAAAGGAGT
* * * * *
9298554 AGCTTAGCTGCTGATTTTTAAAGGGAAAATAGAGT
1 AGCTTGGCTGTTGATTTTT-GAGGAAAAATAGAGC
* *
9298589 AGCTTAGCTGTTAATTTTTGAGGAAAAATAGAGC
1 AGCTTGGCTGTTGATTTTTGAGGAAAAATAGAGC
* *
9298623 ATCTTGGCTATTGATTTTTGAGGAAAAATAGAGC
1 AGCTTGGCTGTTGATTTTTGAGGAAAAATAGAGC
*
9298657 AGCTTGGCTGTTGATTTTTGAGGAAAAATAGAGT
1 AGCTTGGCTGTTGATTTTTGAGGAAAAATAGAGC
* *
9298691 AGCTTGGCTGCTGATTTTTG-GCGAAAAATATAGC
1 AGCTTGGCTGTTGATTTTTGAG-GAAAAATAGAGC
9298725 AGCTTGGCTG
1 AGCTTGGCTG
9298735 CTAATTTTGA
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 1 0.01
34 112 0.86
35 17 0.13
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (34 bp):
AGCTTGGCTGTTGATTTTTGAGGAAAAATAGAGC
Found at i:9298919 original size:6 final size:5
Alignment explanation
Indices: 9298911--9298974 Score: 69
Period size: 5 Copynumber: 12.6 Consensus size: 5
9298901 GAGAGAGGAG
* *
9298911 AAAGA GAAAGAA AAAAA AAAGA AAAGA AAAGA GAAAGA AAGGA AAAGA
1 AAAGA -AAAG-A AAAGA AAAGA AAAGA AAAGA -AAAGA AAAGA AAAGA
9298959 AAAGA AAA-A AAA-A AAA
1 AAAGA AAAGA AAAGA AAA
9298975 TATAATAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
4 8 0.15
5 31 0.60
6 12 0.23
7 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:9298941 original size:21 final size:21
Alignment explanation
Indices: 9298911--9298972 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
9298901 GAGAGAGGAG
9298911 AAAGAGAAAGAAAAAAAAAAGA
1 AAAGA-AAAGAAAAAAAAAAGA
* * *
9298933 AAAGAAAAGAGAAAGAAAGGA
1 AAAGAAAAGAAAAAAAAAAGA
9298954 AAAGAAAAGAAAAAAAAAA
1 AAAGAAAAGAAAAAAAAAA
9298973 AATATAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAGAAAAGAAAAAAAAAAGA
Found at i:9298967 original size:27 final size:27
Alignment explanation
Indices: 9298911--9298966 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
9298901 GAGAGAGGAG
9298911 AAAGAGAAAGAAAAAAAAAAGAAAAGA
1 AAAGAGAAAGAAAAAAAAAAGAAAAGA
**
9298938 AAAGAGAAAG-AAAGGAAAAGAAAAGA
1 AAAGAGAAAGAAAAAAAAAAGAAAAGA
9298964 AAA
1 AAA
9298967 AAAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (27 bp):
AAAGAGAAAGAAAAAAAAAAGAAAAGA
Found at i:9306729 original size:19 final size:19
Alignment explanation
Indices: 9306705--9306742 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9306695 ACTTCTTAAC
9306705 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
9306724 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
9306743 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:9307978 original size:19 final size:19
Alignment explanation
Indices: 9307936--9307984 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
9307926 TAAATTAATA
9307936 AATTAATAAT-TTATTGATT
1 AATTAATAATATT-TTGATT
9307955 -A--AATAATATTTTGATT
1 AATTAATAATATTTTGATT
9307971 AATTAATAA-ATTTT
1 AATTAATAATATTTT
9307985 CATAGTCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 12 0.46
17 3 0.12
18 6 0.23
19 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
AATTAATAATATTTTGATT
Found at i:9319446 original size:20 final size:20
Alignment explanation
Indices: 9319413--9319454 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9319403 ATGTTTCGTA
*
9319413 ATATAAAATGTTATGAATAT
1 ATATAAAATGTTATAAATAT
* *
9319433 ATATATAATTTTATAAATAT
1 ATATAAAATGTTATAAATAT
9319453 AT
1 AT
9319455 TATGTATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATAAAATGTTATAAATAT
Found at i:9319651 original size:2 final size:2
Alignment explanation
Indices: 9319644--9319669 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9319634 CATTGATTTC
9319644 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9319670 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9326779 original size:15 final size:15
Alignment explanation
Indices: 9326759--9326801 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
9326749 CTTAAAACAA
*
9326759 CTTTAAAACCAAAGG
1 CTTTAAAATCAAAGG
* *
9326774 CTTTAAAATCTAATG
1 CTTTAAAATCAAAGG
9326789 CTTTAAAATCAAA
1 CTTTAAAATCAAA
9326802 ATATCTGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (15 bp):
CTTTAAAATCAAAGG
Found at i:9328215 original size:13 final size:13
Alignment explanation
Indices: 9328197--9328221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9328187 TTTCAGAAAA
9328197 TTTATAAAATCAT
1 TTTATAAAATCAT
9328210 TTTATAAAATCA
1 TTTATAAAATCA
9328222 CAATTTCCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9332528 original size:19 final size:19
Alignment explanation
Indices: 9332504--9332540 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9332494 CTTATAAACT
9332504 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
9332523 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
9332541 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:9335889 original size:59 final size:60
Alignment explanation
Indices: 9335757--9335902 Score: 170
Period size: 59 Copynumber: 2.5 Consensus size: 60
9335747 AAAATATACT
* * * * * *
9335757 AATCGAATGATCAATTCCTTTTTCAAGACAAGAAAATCAATAGTGGATATTGTCATTATC
1 AATCAAATAATCAATTCCTTTTTCAGGACAAGAAAATCAACAATGGATATTGTCATTACC
* * *
9335817 GATTAAATGATCAATTCCTTTTTCAGGACAA-AAAATCAACAATGGATATT-TCTATTACC
1 AATCAAATAATCAATTCCTTTTTCAGGACAAGAAAATCAACAATGGATATTGTC-ATTACC
* *
9335876 AATCATATAATCAATTCCTCTTTCAGG
1 AATCAAATAATCAATTCCTTTTTCAGG
9335903 GTGAACAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
58 2 0.03
59 44 0.60
60 27 0.37
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (60 bp):
AATCAAATAATCAATTCCTTTTTCAGGACAAGAAAATCAACAATGGATATTGTCATTACC
Found at i:9336198 original size:25 final size:26
Alignment explanation
Indices: 9336169--9336234 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
9336159 TTCTGGTAGC
9336169 AAAATTATCCTTAGA-TTTTAATGGT
1 AAAATTATCCTTAGACTTTTAATGGT
* **
9336194 AAAATTATCCATCCACTTTTAATGGT
1 AAAATTATCCTTAGACTTTTAATGGT
*
9336220 AAAATTATTCTTAGA
1 AAAATTATCCTTAGA
9336235 ATTAAAATAG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (26 bp):
AAAATTATCCTTAGACTTTTAATGGT
Found at i:9336718 original size:90 final size:90
Alignment explanation
Indices: 9336584--9336758 Score: 226
Period size: 90 Copynumber: 1.9 Consensus size: 90
9336574 GATATCAAGT
* * * * *
9336584 CACTTACTTGATTTGTTACAACCAAAAATTAAAAACCAATCATTGAAATCCTTTTAAAGCTT-AG
1 CACTTACCTGATTTGCTAAAACCAAAAATCAAAAACAAATCATTGAAATCCTTTTAAAGCTTGA-
9336648 AGATGATGAAAACAAAATAATAGCAA
65 AGATGATGAAAACAAAATAATAGCAA
* * * * *
9336674 CACTTACCTGATTTGCTAAAACTATAAATCAAAATCAAATCATTGAAATCCTTTTGAAGGTTGAA
1 CACTTACCTGATTTGCTAAAACCAAAAATCAAAAACAAATCATTGAAATCCTTTTAAAGCTTGAA
**
9336739 GATGATGAAATTAAAATAAT
66 GATGATGAAAACAAAATAAT
9336759 TCTAAAACTT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
90 71 0.99
91 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (90 bp):
CACTTACCTGATTTGCTAAAACCAAAAATCAAAAACAAATCATTGAAATCCTTTTAAAGCTTGAA
GATGATGAAAACAAAATAATAGCAA
Found at i:9338234 original size:81 final size:76
Alignment explanation
Indices: 9338138--9338290 Score: 182
Period size: 76 Copynumber: 1.9 Consensus size: 76
9338128 TTTATGAACG
* * * *
9338138 TATTTTCGTTTTTTTA-TCATGATGTGCAATTTCTTTGATGTTTCCATTGAAATGTTGTGTTTTA
1 TATTTTCGCTTTTTTACT-ATGATGTGCAA----TTT-ATGTTTCCATTGAAATGCTATCTTTTA
9338202 AGCATAGTCTGCATTCA
60 AGCATAGTCTGCATTCA
* *
9338219 TATTTTTGCTTTTTTACTATGATGTGCAATTTATGTTTTCATTGAAATGCTATCTTTTAAGCATA
1 TATTTTCGCTTTTTTACTATGATGTGCAATTTATGTTTCCATTGAAATGCTATCTTTTAAGCATA
*
9338284 GTTTGCA
66 GTCTGCA
9338291 GCTTCTATAG
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
76 35 0.55
77 3 0.05
81 25 0.39
82 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (76 bp):
TATTTTCGCTTTTTTACTATGATGTGCAATTTATGTTTCCATTGAAATGCTATCTTTTAAGCATA
GTCTGCATTCA
Found at i:9339229 original size:46 final size:46
Alignment explanation
Indices: 9339176--9339269 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
9339166 TTACCACTTA
* * *
9339176 AACAATTATGCAACTTTTGACATTTTCTGTTCACATTGCAGTTAAC
1 AACAATTATGCAACTTTTGACATTTTCTATACAAATTGCAGTTAAC
* *
9339222 AACAATTATGCAACTTTTGACTTTTTCTATACAAATTGTAGTTAAC
1 AACAATTATGCAACTTTTGACATTTTCTATACAAATTGCAGTTAAC
9339268 AA
1 AA
9339270 ATAGGTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (46 bp):
AACAATTATGCAACTTTTGACATTTTCTATACAAATTGCAGTTAAC
Found at i:9340141 original size:21 final size:21
Alignment explanation
Indices: 9340115--9340157 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9340105 ACTATTGAAT
9340115 AATTTTTGAATATTTTATAAC
1 AATTTTTGAATATTTTATAAC
* *
9340136 AATTTTTGTATATTTTGTAAC
1 AATTTTTGAATATTTTATAAC
9340157 A
1 A
9340158 GATATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (21 bp):
AATTTTTGAATATTTTATAAC
Found at i:9357679 original size:2 final size:2
Alignment explanation
Indices: 9357672--9357714 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
9357662 TAAGTAGTAG
*
9357672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9357714 T
1 T
9357715 GTAATTATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9358861 original size:35 final size:34
Alignment explanation
Indices: 9358822--9358952 Score: 110
Period size: 35 Copynumber: 3.8 Consensus size: 34
9358812 CTCTAACCAA
9358822 CGACA-AATAACCCAAAATTTATCCTCTCTAATCGG
1 CGACACAA-AACCCAAAATTTATCCTCTC-AATCGG
* *
9358857 CGACACCAAACCCAAAATTTATCCTCTCCAT---
1 CGACACAAAACCCAAAATTTATCCTCTCAATCGG
** *
9358888 CGACAGCAACTAACCCAAGCTTT-TCCTCTCCAACCGG
1 CGACA-CAA--AACCCAAAATTTATCCTCT-CAATCGG
* *
9358925 CGGCACCAAACCCAAAATTTATCCTCTC
1 CGACACAAAACCCAAAATTTATCCTCTC
9358953 CACCGATGAC
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
31 5 0.07
32 2 0.03
33 6 0.08
34 25 0.33
35 31 0.41
36 3 0.04
37 4 0.05
ACGTcount: A:0.33, C:0.37, G:0.08, T:0.22
Consensus pattern (34 bp):
CGACACAAAACCCAAAATTTATCCTCTCAATCGG
Found at i:9358926 original size:68 final size:67
Alignment explanation
Indices: 9358829--9359077 Score: 268
Period size: 68 Copynumber: 3.6 Consensus size: 67
9358819 CAACGACAAA
* * * *
9358829 TAACCCAAAATTTATCCTCTCTAATCGGCGACACCAAACCCAAAATTTATCCTCTCCATCGACAG
1 TAACCCAAACTTT-TCCTCTCCAACCGGCGACACCAAACCCAAAATTTATCCTCTCCACCGA-AG
9358894 CAAC
64 CAAC
* * *
9358898 TAACCCAAGCTTTTCCTCTCCAACCGGCGGCACCAAACCCAAAATTTATCCTCTCCACCGATGAC
1 TAACCCAAACTTTTCCTCTCCAACCGGCGACACCAAACCCAAAATTTATCCTCTCCACCGAAG-C
9358963 AAC
65 AAC
* * * * **
9358966 TAACCCAAACTTTTCCTTTCCAACCGG-TAGCACCAAACCTAAACTTTATCCTCTCCACCGGTGG
1 TAACCCAAACTTTTCCTCTCCAACCGGCGA-CACCAAACCCAAAATTTATCCTCTCCACC-GAAG
9359030 CAAC
64 CAAC
* * * *
9359034 TAACCCAAGCACTCTACC-CTCCAATCGGCGGCACCAAACCCAAA
1 TAACCCAA--ACTTTTCCTCTCCAACCGGCGACACCAAACCCAAA
9359078 GTTCACTTCC
Statistics
Matches: 152, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
67 1 0.01
68 112 0.74
69 33 0.22
70 6 0.04
ACGTcount: A:0.31, C:0.38, G:0.10, T:0.21
Consensus pattern (67 bp):
TAACCCAAACTTTTCCTCTCCAACCGGCGACACCAAACCCAAAATTTATCCTCTCCACCGAAGCA
AC
Found at i:9358953 original size:35 final size:35
Alignment explanation
Indices: 9358830--9359077 Score: 195
Period size: 34 Copynumber: 7.2 Consensus size: 35
9358820 AACGACAAAT
* * * *
9358830 AACCCAAAATTTATCCTCTCTAATCGGCGACACCA
1 AACCCAAACTTTATCCTCTCCAACCGGCGGCACCA
* * * * * *
9358865 AACCCAAAATTTATCCTCTCC-ATCGACAGCAACT
1 AACCCAAACTTTATCCTCTCCAACCGGCGGCACCA
*
9358899 AACCCAAGCTTT-TCCTCTCCAACCGGCGGCACCA
1 AACCCAAACTTTATCCTCTCCAACCGGCGGCACCA
* ** * * *
9358933 AACCCAAAATTTATCCTCTCC-ACCGATGACAACT
1 AACCCAAACTTTATCCTCTCCAACCGGCGGCACCA
* **
9358967 AACCCAAACTTT-TCCTTTCCAACCGGTAGCACCA
1 AACCCAAACTTTATCCTCTCCAACCGGCGGCACCA
* * * *
9359001 AACCTAAACTTTATCCTCTCC-ACCGGTGGCAACT
1 AACCCAAACTTTATCCTCTCCAACCGGCGGCACCA
* *
9359035 AACCCAAGCACTCTA-CC-CTCCAATCGGCGGCACCA
1 AACCCAA--ACTTTATCCTCTCCAACCGGCGGCACCA
9359070 AACCCAAA
1 AACCCAAA
9359078 GTTCACTTCC
Statistics
Matches: 168, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
33 16 0.10
34 94 0.56
35 53 0.32
36 5 0.03
ACGTcount: A:0.31, C:0.38, G:0.10, T:0.21
Consensus pattern (35 bp):
AACCCAAACTTTATCCTCTCCAACCGGCGGCACCA
Found at i:9360047 original size:13 final size:13
Alignment explanation
Indices: 9360029--9360053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9360019 TGAGAAATTG
9360029 TGATTTTATAAAA
1 TGATTTTATAAAA
9360042 TGATTTTATAAA
1 TGATTTTATAAA
9360054 TTTCTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:9361375 original size:29 final size:29
Alignment explanation
Indices: 9361290--9361378 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
9361280 CATTAAATGT
* *
9361290 AACAAAATTTTTTCGAACATGGCGTGTAA-
1 AACAATATTTTTTC-AACATGACGTGTAAC
* * **
9361319 AATTAATATTTTTTCAATATGATTTGTAAC
1 AA-CAATATTTTTTCAACATGACGTGTAAC
*
9361349 AACAATATTTTTTCAACATAACGTGTAAC
1 AACAATATTTTTTCAACATGACGTGTAAC
9361378 A
1 A
9361379 GTAACTTTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
29 35 0.74
30 12 0.26
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (29 bp):
AACAATATTTTTTCAACATGACGTGTAAC
Found at i:9361405 original size:59 final size:59
Alignment explanation
Indices: 9361290--9361408 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 59
9361280 CATTAAATGT
** * * *
9361290 AACAAAATTTTTTCGAACATGGCGTGTAAAATTAATATTTTTTCAATATGATTTGTAAC
1 AACAAAATTTTTTCGAACATAACGTGTAAAAGTAATATTTTTTCAATATAACTTGTAAC
* * * *
9361349 AACAATATTTTTTC-AACATAACGTGTAACAGTAACTTTTTTTTCAATGTAACTTGTAAC
1 AACAAAATTTTTTCGAACATAACGTGTAAAAGTAA-TATTTTTTCAATATAACTTGTAAC
9361408 A
1 A
9361409 TGTTTTTGTG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 16 0.32
59 34 0.68
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (59 bp):
AACAAAATTTTTTCGAACATAACGTGTAAAAGTAATATTTTTTCAATATAACTTGTAAC
Found at i:9361497 original size:26 final size:25
Alignment explanation
Indices: 9361468--9361541 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
9361458 AGTAACAACC
*
9361468 TTTTTTAACCATGGTATGTAATATGT
1 TTTTTTAA-CATGGCATGTAATATGT
* *
9361494 TTTTGT-ACATGGCGTGTAATAATGT
1 TTTTTTAACATGGCATGTAAT-ATGT
* *
9361519 TTTTTCAACATGGCATATAATAT
1 TTTTTTAACATGGCATGTAATAT
9361542 CATGTGCACT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 11 0.28
25 11 0.28
26 17 0.44
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.46
Consensus pattern (25 bp):
TTTTTTAACATGGCATGTAATATGT
Found at i:9363166 original size:39 final size:40
Alignment explanation
Indices: 9363102--9363180 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
9363092 AGTTTTTTAT
9363102 AGGCATTACATGACTGAATATTTGTT-AGCATTGCGTGAC
1 AGGCATTACATGACTGAATATTTGTTGAGCATTGCGTGAC
* * *
9363141 AGGCGTTACGTGACTGAATATTTGTTGAGCATTGTGTGAC
1 AGGCATTACATGACTGAATATTTGTTGAGCATTGCGTGAC
9363181 CTTTGTAGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 24 0.67
40 12 0.33
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (40 bp):
AGGCATTACATGACTGAATATTTGTTGAGCATTGCGTGAC
Found at i:9363844 original size:19 final size:19
Alignment explanation
Indices: 9363806--9363846 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9363796 ATTTTTAGAA
** *
9363806 TAAAATAATATTTTATTAT
1 TAAAATAATATTAAAATAT
9363825 TAAAATAATATTAAAATAT
1 TAAAATAATATTAAAATAT
9363844 TAA
1 TAA
9363847 TATTTAGCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATAATATTAAAATAT
Found at i:9367354 original size:30 final size:30
Alignment explanation
Indices: 9367318--9367377 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9367308 GGAGGTGCCT
9367318 TTGAGTGTGAGAGACCAATTGCACATATTC
1 TTGAGTGTGAGAGACCAATTGCACATATTC
* * *
9367348 TTGAGTGTGAGGGACTAGTTGCACATATTC
1 TTGAGTGTGAGAGACCAATTGCACATATTC
9367378 CAGCAGGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (30 bp):
TTGAGTGTGAGAGACCAATTGCACATATTC
Found at i:9368240 original size:111 final size:111
Alignment explanation
Indices: 9368013--9368518 Score: 537
Period size: 118 Copynumber: 4.4 Consensus size: 111
9368003 GGTGCGTGAC
* *
9368013 TGACTTGTGCAATTCATGTGTTGCTTT-GAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGTGTGA
1 TGACTTGTGCAATTCATGTGTTG-TTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGC-TTGCGTGA
* *
9368077 CTAATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
64 CTGATTTTTATATATTGCGTTACTTGTTGTAGCGAGAGTGGTGGCGCG
* * * *
9368125 TGACTTGTGCAATTCATGTGTTGTTTTGAGGATTTTGTTCAATAGGTTTTTAGGCTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * *
9368190 GGTTTTTATATATTGTGTTACTTGTTGTAGCGTGAGTGGTGGCGCA
66 GATTTTTATATATTGCGTTACTTGTTGTAGCGAGAGTGGTGGCGCG
* * * *
9368236 TGACTTGTGTAATTCATGTGTTGTTTAAAGGCTTTTGTTCAGTAGTTTTTTAGGGTTGCGTGATT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* *
9368301 GATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCACG
66 GATTTTTATATATTGCGTTA-C--TTG-T-TGTA--GCGAGAGTGGTGGCGCG
* * * *
9368354 TGACTTGTGCAATTCATGTGTTGTTTAGAGGTTTTTGTTCAGTAGTTTTTTAAGATTGCGTTACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * * * * *
9368419 GGTTTTTATGTATTACGTGACCTGTTGTTATATATTGCGAGAGCGGTGGCGCA
66 GATTTTTATATATTGCGTTA-C--TTG-T-TGTA--GCGAGAGTGGTGGCGCG
*** * * * *
9368472 TGACTTGTGCAATTCGCCTCTTGTTTAGGGGCGTTTGTTCACTAGTT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTT
9368519 ATTAGGCATT
Statistics
Matches: 337, Mismatches: 49, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
111 126 0.37
112 49 0.15
114 3 0.01
115 1 0.00
116 4 0.01
118 154 0.46
ACGTcount: A:0.17, C:0.11, G:0.27, T:0.44
Consensus pattern (111 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
GATTTTTATATATTGCGTTACTTGTTGTAGCGAGAGTGGTGGCGCG
Found at i:9368422 original size:229 final size:222
Alignment explanation
Indices: 9368013--9368432 Score: 601
Period size: 229 Copynumber: 1.9 Consensus size: 222
9368003 GGTGCGTGAC
* *
9368013 TGACTTGTGCAATTCATGTGTTGCTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGTGTGAC
1 TGACTTGTGCAATTCATGTGTTGCTTTAAGGCTTTTGTTCAGTAGTTTTTTAGG-AGTGCGTGAC
*
9368078 TAATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCGTGACTTGTGCAATTCATG
65 TAATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCACGTGACTTGTGCAATTCATG
* * *
9368143 TGTTGTTTTGAGGATTTTGTTCAATAGGTTTTTAGGCTTGCGTGACTGGTTTTTATATATTGTGT
130 TGTTGTTTAGAGGATTTTGTTCAATAGGTTTTTAAGATTGCGTGACTGGTTTTTATATATTGTGT
9368208 TACTTGTTGTAGCGTGAGTGGTGGCGCA
195 TACTTGTTGTAGCGTGAGTGGTGGCGCA
*
9368236 TGACTTGTGTAATTCATGTGTTG-TTTAAAGGCTTTTGTTCAGTAGTTTTTTAGG-GTTGCGTGA
1 TGACTTGTGCAATTCATGTGTTGCTTT-AAGGCTTTTGTTCAGTAGTTTTTTAGGAG-TGCGTGA
* * *
9368299 TTGATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCACGTGACTTGTGC
64 CTAATTTTTATATATTGCGTTACC---TG-T-TGTA--GCGAGAGTGGTGGCACGTGACTTGTGC
* * * * *
9368364 AATTCATGTGTTGTTTAGAGGTTTTTGTTCAGTAGTTTTTTAAGATTGCGTTACTGGTTTTTATG
122 AATTCATGTGTTGTTTAGAGGATTTTGTTCAATAGGTTTTTAAGATTGCGTGACTGGTTTTTATA
9368429 TATT
187 TATT
9368433 ACGTGACCTG
Statistics
Matches: 173, Mismatches: 15, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
221 1 0.01
222 31 0.18
223 48 0.28
225 2 0.01
226 1 0.01
227 4 0.02
229 86 0.50
ACGTcount: A:0.17, C:0.10, G:0.27, T:0.46
Consensus pattern (222 bp):
TGACTTGTGCAATTCATGTGTTGCTTTAAGGCTTTTGTTCAGTAGTTTTTTAGGAGTGCGTGACT
AATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCACGTGACTTGTGCAATTCATGT
GTTGTTTAGAGGATTTTGTTCAATAGGTTTTTAAGATTGCGTGACTGGTTTTTATATATTGTGTT
ACTTGTTGTAGCGTGAGTGGTGGCGCA
Found at i:9369608 original size:23 final size:23
Alignment explanation
Indices: 9369578--9369656 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
9369568 TTGTCACAAC
*
9369578 TGTGTCACACATTCCCACCATGG
1 TGTGTCACACATTCCAACCATGG
* * * *
9369601 TGTGTCACAAACTCTAAACCATGC
1 TGTGTCACACATTC-CAACCATGG
9369625 TGTGTCACACATTCCAACCAT-G
1 TGTGTCACACATTCCAACCATGG
9369647 TCGTGTCACA
1 T-GTGTCACA
9369657 AACTCTAAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
22 1 0.02
23 26 0.58
24 18 0.40
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (23 bp):
TGTGTCACACATTCCAACCATGG
Found at i:9369628 original size:24 final size:23
Alignment explanation
Indices: 9369594--9369667 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 23
9369584 ACACATTCCC
9369594 ACCATGGTGTGTCACAAACTCTAA
1 ACCAT-GTGTGTCACAAACTCTAA
* * *
9369618 ACCATGCTGTGTCACACATTC-CA
1 ACCATG-TGTGTCACAAACTCTAA
9369641 ACCATGTCGTGTCACAAACTCTAA
1 ACCATGT-GTGTCACAAACTCTAA
9369665 ACC
1 ACC
9369668 CTACCGTGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
22 1 0.02
23 19 0.46
24 21 0.51
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (23 bp):
ACCATGTGTGTCACAAACTCTAA
Found at i:9369646 original size:47 final size:47
Alignment explanation
Indices: 9369577--9369667 Score: 157
Period size: 47 Copynumber: 1.9 Consensus size: 47
9369567 ATTGTCACAA
*
9369577 CTGTGTCACACATTCCCACCATGGT-GTGTCACAAACTCTAAACCATG
1 CTGTGTCACACATTCCAACCAT-GTCGTGTCACAAACTCTAAACCATG
9369624 CTGTGTCACACATTCCAACCATGTCGTGTCACAAACTCTAAACC
1 CTGTGTCACACATTCCAACCATGTCGTGTCACAAACTCTAAACC
9369668 CTACCGTGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 2 0.05
47 40 0.95
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (47 bp):
CTGTGTCACACATTCCAACCATGTCGTGTCACAAACTCTAAACCATG
Found at i:9369675 original size:24 final size:24
Alignment explanation
Indices: 9369602--9369678 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
9369592 CCACCATGGT
*
9369602 GTGTCACAAACTCTAAACCATGCT
1 GTGTCACAAACTCTAAACCATGCC
* * * *
9369626 GTGTCACACATTC-CAACCATGTC
1 GTGTCACAAACTCTAAACCATGCC
* *
9369649 GTGTCACAAACTCTAAACCCTACC
1 GTGTCACAAACTCTAAACCATGCC
9369673 GTGTCA
1 GTGTCA
9369679 TAGCCTTGCC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 18 0.44
24 23 0.56
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (24 bp):
GTGTCACAAACTCTAAACCATGCC
Found at i:9369677 original size:47 final size:47
Alignment explanation
Indices: 9369579--9369678 Score: 148
Period size: 47 Copynumber: 2.1 Consensus size: 47
9369569 TGTCACAACT
* * *
9369579 GTGTCACACATTCCCACCATGGTGTGTCACAAACTCTAAACCATGCT
1 GTGTCACACATTCCAACCATGGTGTGTCACAAACTCTAAACCATACC
*
9369626 GTGTCACACATTCCAACCAT-GTCGTGTCACAAACTCTAAACCCTACC
1 GTGTCACACATTCCAACCATGGT-GTGTCACAAACTCTAAACCATACC
9369673 GTGTCA
1 GTGTCA
9369679 TAGCCTTGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 2 0.04
47 46 0.96
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (47 bp):
GTGTCACACATTCCAACCATGGTGTGTCACAAACTCTAAACCATACC
Found at i:9369722 original size:23 final size:23
Alignment explanation
Indices: 9369688--9369737 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
9369678 ATAGCCTTGC
*
9369688 CACACATGCCCACCATGTAGTGT
1 CACACATGCCCAACATGTAGTGT
* * *
9369711 CACACATTCCCAACATGTCGTTT
1 CACACATGCCCAACATGTAGTGT
9369734 CACA
1 CACA
9369738 AACTCTAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.36, G:0.12, T:0.24
Consensus pattern (23 bp):
CACACATGCCCAACATGTAGTGT
Found at i:9374008 original size:20 final size:20
Alignment explanation
Indices: 9373983--9374023 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9373973 ATAAGCCTTG
*
9373983 TTGATTTTTATGAAATGAAA
1 TTGATTTATATGAAATGAAA
9374003 TTGATTTATATGAAATGAAA
1 TTGATTTATATGAAATGAAA
9374023 T
1 T
9374024 GAGATTCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGATTTATATGAAATGAAA
Found at i:9374039 original size:25 final size:25
Alignment explanation
Indices: 9373992--9374041 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9373982 GTTGATTTTT
*
9373992 ATGAAATGAAATTGATTTATATGAA
1 ATGAAATGAAATTGATGTATATGAA
*
9374017 ATGAAATGAGATTCGATGT-TATGAA
1 ATGAAATGAAATT-GATGTATATGAA
9374042 TAATATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (25 bp):
ATGAAATGAAATTGATGTATATGAA
Found at i:9377359 original size:10 final size:10
Alignment explanation
Indices: 9377331--9377369 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
9377321 CCTTACCAAA
9377331 CATCAAATAT
1 CATCAAATAT
*
9377341 CACCAAAATAT
1 CATC-AAATAT
*
9377352 CATGAAATAT
1 CATCAAATAT
9377362 CATCAAAT
1 CATCAAAT
9377370 TCAGCCACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.26
Consensus pattern (10 bp):
CATCAAATAT
Found at i:9378066 original size:19 final size:19
Alignment explanation
Indices: 9378029--9378066 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9378019 ATTTCTGAAC
*
9378029 CTCAAATCATTCTCAAATA
1 CTCAAATCATACTCAAATA
*
9378048 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCAAATA
9378067 AGTGAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCAAATA
Found at i:9379541 original size:129 final size:129
Alignment explanation
Indices: 9379311--9379571 Score: 441
Period size: 129 Copynumber: 2.0 Consensus size: 129
9379301 GTGGCCCGAA
* **
9379311 CGTGAGGTGCACTCAAATCATACATCAGGAGATACTTCATCCAACATCTCCCCCCGGAGGTAGTT
1 CGTGAGGTGCACTCAAATCATACATCAGGAGATACTTCATCCAACATCTACCCCCGGAGGTAAAT
*
9379376 ATATAATTGAGTTACCGTGCCCCTCTCATAGGCAGTCCACGGAAACCCCCACCACTGCAGTGAC
66 ATATAATTGAGTTACCGTGCCCCTCTCATAGGCAGTCCACGGAAACCCCCACCACTACAGTGAC
* * *
9379440 CGTGAGGTGCATTCAAATCTTACCTCAGGAGATACTTCATCCAACATCTACCCCCGGAGGTAAAT
1 CGTGAGGTGCACTCAAATCATACATCAGGAGATACTTCATCCAACATCTACCCCCGGAGGTAAAT
* *
9379505 ATATAATTGGGTTACCGTGCCCCTTTCATAGGCAGTCCACGGAAACCCCCACCACTACAGTGAC
66 ATATAATTGAGTTACCGTGCCCCTCTCATAGGCAGTCCACGGAAACCCCCACCACTACAGTGAC
9379569 CGT
1 CGT
9379572 TTAATATACC
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (129 bp):
CGTGAGGTGCACTCAAATCATACATCAGGAGATACTTCATCCAACATCTACCCCCGGAGGTAAAT
ATATAATTGAGTTACCGTGCCCCTCTCATAGGCAGTCCACGGAAACCCCCACCACTACAGTGAC
Found at i:9382708 original size:18 final size:19
Alignment explanation
Indices: 9382685--9382721 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9382675 CTGCCAAACC
*
9382685 CTCAAATTATACT-CAATA
1 CTCAAATCATACTCCAATA
9382703 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
9382722 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:9403181 original size:19 final size:20
Alignment explanation
Indices: 9403157--9403197 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
9403147 TTTTTTATGA
9403157 AATATTAATA-AAATATTTT
1 AATATTAATATAAATATTTT
*
9403176 AATATTAATATTAATATTTT
1 AATATTAATATAAATATTTT
9403196 AA
1 AA
9403198 GTGTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATTAATATAAATATTTT
Found at i:9403192 original size:31 final size:31
Alignment explanation
Indices: 9403157--9403220 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
9403147 TTTTTTATGA
*
9403157 AATATTAATAA-AATATTTTAATATTAATATT
1 AATATT-ATAAGAATATTTTAATATTAAAATT
* **
9403188 AATATTTTAAGTGTATTTTAATATTAAAATT
1 AATATTATAAGAATATTTTAATATTAAAATT
9403219 AA
1 AA
9403221 ATAAAAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
AATATTATAAGAATATTTTAATATTAAAATT
Found at i:9405687 original size:171 final size:170
Alignment explanation
Indices: 9405306--9407463 Score: 1586
Period size: 170 Copynumber: 12.7 Consensus size: 170
9405296 ACTTAAGTAA
* *** * * * * *
9405306 TTTTATAA-CTTTATAAATGATTTTGAAATCATTTTGTTTTTCATTCTTGGTTGAAATAGATAAT
1 TTTTATAATC-TTATAAATGATTTT-AAGTCAAAAT-TTTTTCATTTTTGGTTAAAACAAATCAT
* * * ** * * ** *
9405370 AATTTGATGTTTGCATTAGGAAATATGAA-CTAAAAACCATTGATTGACAAGAAAAG-CCTAATT
63 AATTGGATGTTTGCATCAAGAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCC-ATTT
* * * * * *
9405433 ATAGTCACCCATGCCTTCAAAAAGCTTAATTGCTGGCTTTTAATGG
126 ATAGTCACTCATGCCTTC-GAAAGCCTAATTACTCGCTTTAAATGG
* *
9405479 TTTTATAATCTAATAAATGATTTTAAATCAAAATTTTATTCATTTTTGGTTAAAACAAATCATAA
1 TTTTATAATCTTATAAATGATTTTAAGTCAAAATTTT-TTCATTTTTGGTTAAAACAAATCATAA
* *
9405544 TTGGATGTTTGCATCAAGAAACGTGAGGCGAAAGCCATCCATAGACAAGAAAAGTCCATTTATAG
65 TTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAG
*** * * *
9405609 TCACTCATATTTTCAAAAGCCTAATTGCTCGCTTTAAATAG
130 TCACTCATGCCTTCGAAAGCCTAATTACTCGCTTTAAATGG
* *
9405650 TTTTATAATCTTACAAAAGATTTTAAGTCAAAATTTTATTCATTTTTGGTTAAAA-AAATCATAA
1 TTTTATAATCTTATAAATGATTTTAAGTCAAAATTTT-TTCATTTTTGGTTAAAACAAATCATAA
* * * * * * *
9405714 TTGCATGTTTACATCAAGAAACATGAGGGGCAAGCCATCCATTGACAAGAAAAGTTCATTTATAG
65 TTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAG
* * * *
9405779 TCACTCATGTCTTGGAAAGCCTAATTGCTCTCTTTAAATGG
130 TCACTCATGCCTTCGAAAGCCTAATTACTCGCTTTAAATGG
* * * * * *
9405820 TGTTATAATCTTATAGATGACTTTAAATCAAAATTTTATTCATTTTTGGTTCAAACAGATCATAA
1 TTTTATAATCTTATAAATGATTTTAAGTCAAAATTTT-TTCATTTTTGGTTAAAACAAATCATAA
* * * * *
9405885 TTGGATATTGGCATCGAA-AAACGTGGAA-CGAAACCCATCCATTGACATGGAAAGTCCATTTAT
65 TTGGATGTTTGCATC-AAGAAACGT-GAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTAT
* * *
9405948 AGTCACTCATGCCTTCGAAAGCCTAGTTACTCACTTTTAATGG
128 AGTCACTCATGCCTTCGAAAGCCTAATTACTCGCTTTAAATGG
* * * *
9405991 TTTTATTATCTTGTAAATGATTTTAA---AAATGTATATTTTTCACTTTTGGTTAAATCAAATCA
1 TTTTATAATCTTATAAATGATTTTAAGTCAAA---AT-TTTTTCATTTTTGGTTAAAACAAATCA
* * * * * *
9406053 TAATTTGATTTTTTCAATGAA-AAACGTAAAGCGAAAGCCATCCATTGACAA-AAAAATCCATTT
62 TAATTGGATGTTTGC-ATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTT
* * * * *
9406116 ATAGTCACTTATGCCTTTGAAAGCCTAGTTTCTCTCTTTAAATGG
126 ATAGTCACTCATGCCTTCGAAAGCCTAATTACTCGCTTTAAATGG
* * * * * * ** *
9406161 TTTTATAATTTTATAAATGAATTT-AGATTAAATTTTTTTCACTTTTGGCTAAAGTAGATCATAA
1 TTTTATAATCTTATAAATGATTTTAAG-TCAAAATTTTTTCATTTTTGGTTAAAACAAATCATAA
** * * * * * * *
9406225 TTTCATGTTTGAATTAGGAAACATGAA-CAAAAAGCTATCCATTGAC-----AAGTCCACTTATA
65 TTGGATGTTTGCATCAAGAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATA
* * * * *
9406284 ATCACTCATGCATTCGAAAGCCTAGTTACTCGTTTTAAATGA
129 GTCACTCATGCCTTCGAAAGCCTAATTACTCGCTTTAAATGG
* * ** * ** * *
9406326 TTCTACAATCTTATAAATGATTTTAAG-CCCAATGTTCTTCATTCCTAGTTAAAACATATCATAA
1 TTTTATAATCTTATAAATGATTTTAAGTCAAAAT-TTTTTCATTTTTGGTTAAAACAAATCATAA
** * ** * * *
9406390 TTGGATGTTTGCATTGAGAAACGTAAATTGAAAGCCGTCCATTAACAAGAAAAGTGCATTTATAG
65 TTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAG
* * *
9406455 TCACTCATGCCTTCGAAAGCCTCATTAC-CTACTTTAAATCG
130 TCACTCATGCCTTCGAAAGCCTAATTACTC-GCTTTAAATGG
* * ** * *** *
9406496 TTTTATAACCTTATAAATCATTTT-AGAT-TGAATTGTTTCCATTTACAGTTAAAACACATCATA
1 TTTTATAATCTTATAAATGATTTTAAG-TCAAAATT-TTTTCATTTTTGGTTAAAACAAATCATA
* * * ** * *
9406559 ATTTGTTGTTTACAT-TGGATAACGTGAAGCGAAAAGCCATCCATTAACAACAAAAGTCCATTTA
64 ATTGGATGTTTGCATCAAGA-AACGTGAAGCG-AAAGCCATCCATTGACAAGAAAAGTCCATTTA
* * *
9406623 TAGTCACTCATGCCTTCGAAAGCCTAGTTACTC-ATTTGAGATGG
127 TAGTCACTCATGCCTTCGAAAGCCTAATTACTCGCTTT-AAATGG
* * * ** ** *
9406667 ATTTATAATCATATAAATGATTTTAA-ACTGAATTTTTTCATTTTTAGTTTAGTTAAATTAGATC
1 TTTTATAATCTTATAAATGATTTTAAGTCAAAATTTTTTCATTTTT-G----GTTAAAACAAATC
*** * ** * * * * *
9406731 AT-ATTGGATGTTTGCATTGGGAAACATGAAGAAAAATCCATTCATTAATAAGAAAAGTCAATTT
61 ATAATTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTT
* * * * *
9406795 ATAGTCAC-GAGTGCCTTTGAAAG-CTAAGGTACTTG-TTTCAAGTGG
126 ATAGTCACTCA-TGCCTTCGAAAGCCTAA-TTACTCGCTTT-AAATGG
* ** * *
9406840 TTTTAT-ATCTTATAAATAATTTTAAACCAAAAGTTTTTTCATTTATGGTTAAAAGCATATCAT-
1 TTTTATAATCTTATAAATGATTTTAAGTCAAAA-TTTTTTCATTTTTGGTTAAAA-CAAATCATA
* *
9406903 AGTGGATGTTTGCATCTAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATA
64 ATTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATA
* * ** * *
9406968 GTCACTCATGTCTTAGAAAGCCTAATTGTTGGCTTTAAGTGG
129 GTCACTCATGCCTTCGAAAGCCTAATTACTCGCTTTAAATGG
* * * * * * *
9407010 TGTTATAATCTTAAAAATGATATTAAATC-AAATTTTATTCATTTTAGGTTCAAACAACT-ATTA
1 TTTTATAATCTTATAAATGATTTTAAGTCAAAATTTT-TTCATTTTTGGTTAAAACAAATCA-TA
* * * * * *
9407073 ATTGGATGTTTGCACCAAAAAACGTGAAGCAAAACCCATCCATTGATATGAAAAGTCCATTTATA
64 ATTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATA
* * * *
9407138 GTCACTCATACCTTCGAAAGCGTAATTACTTGCTTCAAATGG
129 GTCACTCATGCCTTCGAAAGCCTAATTACTCGCTTTAAATGG
* * * * ** *
9407180 ATTTGTAATCTTTTAAATGATTTTAA---AAATGTATATTTTTCACTTTTCATTAACACAAATCA
1 TTTTATAATCTTATAAATGATTTTAAGTCAAA---AT-TTTTTCATTTTTGGTTAAAACAAATCA
* * * ** * * * *
9407242 TAATTTGATTTTTTCATTGA-AAACAGTGAAGCGAAAGCCATTCATTGATAAAAAAAATCCATTT
62 TAATTGGATGTTTGCATCAAGAAAC-GTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTT
* * * * * *
9407306 ATAGTCACTTATGCCTTTGAAAGCCTAGTT-TTGTGCTTGAAATGG
126 ATAGTCACTCATGCCTTCGAAAGCCTAATTACT-CGCTTTAAATGG
* * ** * * *
9407351 TTTTATAATTTTATAAATGAATTT-AGATTTAATTTTTTTCATGTTTGGTTAAAACATATCATAA
1 TTTTATAATCTTATAAATGATTTTAAG-TCAAAATTTTTTCATTTTTGGTTAAAACAAATCATAA
* * * * * * *
9407415 TTTGATGTTTGAATTAGGAAACATGAAACGAAAGTCATCCATTGACAAG
65 TTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAG
9407464 TCTACTTATA
Statistics
Matches: 1580, Mismatches: 336, Indels: 141
0.77 0.16 0.07
Matches are distributed among these distances:
164 2 0.00
165 119 0.08
166 2 0.00
168 10 0.01
169 77 0.05
170 620 0.39
171 485 0.31
172 123 0.08
173 92 0.06
174 35 0.02
175 15 0.01
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (170 bp):
TTTTATAATCTTATAAATGATTTTAAGTCAAAATTTTTTCATTTTTGGTTAAAACAAATCATAAT
TGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGT
CACTCATGCCTTCGAAAGCCTAATTACTCGCTTTAAATGG
Found at i:9405884 original size:341 final size:337
Alignment explanation
Indices: 9405157--9407463 Score: 1678
Period size: 341 Copynumber: 6.8 Consensus size: 337
9405147 NNNTTTAAGT
* ** * *
9405157 TTATAAATGATTTTAGAT-TGAATATTTTTCATTTTTGGTTAAAACAAATCATAATTTGATGTTT
1 TTATAAATGATTTTAAATCAAAAT-TTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTT
* * * * ** *
9405221 GCATCAAGAAATGTGTAGAGAAAGCCTTTTATTGACAAGAAAAGTCCACTTATAGTCACTCATGC
65 GCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGC
* * *
9405286 ACTT-GAAAG-C-ACTTA--AG---T-AA---TTTTATAA-CTTTATAAATGATTTTGAAATCAT
130 -CTTCGAAAGCCTAGTTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTT--AA-CAA
** * * * * * * * ** *
9405338 TTTGTTTTTCATTCTTGGTTGAAATAGATAATAATTTGATGTTTGCATTAGGAAATATGAA-CTA
190 AAT-TTTTTCATTTTTGGTT-AAAAAAATCATAATTGGATGTTTGCATCAAGAAACGTGAAGC-G
* ** * * * * *
9405402 AAAACCATTGATTGACAAGAAAAG-CCTAATTATAGTCACCCATGCCTTCAAAAAGCTTAATTGC
252 AAAGCCATCCATTGACAAGAAAAGTCC-ATTTATAGTCACTCATGCCTTC-GAAAGCCTAATTAC
** *
9405466 TGGCTTTTAATGGTTTTATAATC
315 TCTCTTTAAATGGTTTTATAATC
* *
9405489 TAATAAATGATTTTAAATCAAAATTTTATTCATTTTTGGTTAAAACAAATCATAATTGGATGTTT
1 TTATAAATGATTTTAAATCAAAATTTT-TTCATTTTTGGTTAAAACAGATCATAATTGGATGTTT
* * **
9405554 GCATCAAGAAACGTGAGGCGAAAGCCATCCATAGACAAGAAAAGTCCATTTATAGTCACTCATAT
65 GCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGC
* * * * * * *
9405619 TTTCAAAAGCCTAATTGCTCGCTTTAAATAGTTTTATAATCTTACAAAAGATTTTAAGTCAAAAT
130 CTTCGAAAGCCTAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAA--CAAAAT
* * * * * *
9405684 TTTATTCATTTTTGGTTAAAAAAATCATAATTGCATGTTTACATCAAGAAACATGAGGGGCAAGC
193 TTT-TTCATTTTTGGTTAAAAAAATCATAATTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGC
* * * *
9405749 CATCCATTGACAAGAAAAGTTCATTTATAGTCACTCATGTCTTGGAAAGCCTAATTGCTCTCTTT
257 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTCTCTTT
*
9405814 AAATGGTGTTATAATC
322 AAATGGTTTTATAATC
* * * * *
9405830 TTATAGATGACTTTAAATCAAAATTTTATTCATTTTTGGTTCAAACAGATCATAATTGGATATTG
1 TTATAAATGATTTTAAATCAAAATTTT-TTCATTTTTGGTTAAAACAGATCATAATTGGATGTTT
* * *
9405895 GCATCGAA-AAACGTGGAA-CGAAACCCATCCATTGACATGGAAAGTCCATTTATAGTCACTCAT
65 GCATC-AAGAAACGT-GAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * *
9405958 GCCTTCGAAAGCCTAGTTACTCACTTTTAATGGTTTTATTATCTTGTAAATGATTTTAA-AAATG
128 GCCTTCGAAAGCCTAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAACAAA--
* * * * * * *
9406022 TATATTTTTCACTTTTGGTTAAATCAAATCATAATTTGATTTTTTCAATGAA-AAACGTAAAGCG
191 -AT-TTTTTCATTTTTGGTTAAA-AAAATCATAATTGGATGTTTGC-ATCAAGAAACGTGAAGCG
* * * * *
9406086 AAAGCCATCCATTGACAA-AAAAATCCATTTATAGTCACTTATGCCTTTGAAAGCCTAGTTTCTC
252 AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTC
*
9406150 TCTTTAAATGGTTTTATAATT
317 TCTTTAAATGGTTTTATAATC
* * * * * * ** **
9406171 TTATAAATGAATTTAGATTAAATTTTTTTCACTTTTGGCTAAAGTAGATCATAATTTCATGTTTG
1 TTATAAATGATTTTAAATCAAAATTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTG
* * * * * * * *
9406236 AATTAGGAAACATGAA-CAAAAAGCTATCCATTGAC-----AAGTCCACTTATAATCACTCATGC
66 CATCAAGAAACGTGAAGC-GAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGC
* * * * * **
9406295 ATTCGAAAGCCTAGTTACTCGTTTTAAATGATTCTACAATCTTATAAATGATTTTAAGCCCAATG
130 CTTCGAAAGCCTAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAA-CAAAAT-
* ** * * ** * **
9406360 TTCTTCATTCCTAGTTAAAACATATCATAATTGGATGTTTGCATTGAGAAACGTAAATTGAAAGC
193 TTTTTCATTTTTGGTTAAAA-AAATCATAATTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGC
* * * *
9406425 CGTCCATTAACAAGAAAAGTGCATTTATAGTCACTCATGCCTTCGAAAGCCTCATTAC-CTACTT
257 CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTCT-CTT
* *
9406489 TAAATCGTTTTATAACC
321 TAAATGGTTTTATAATC
* * ** * *** * * *
9406506 TTATAAATCATTTTAGAT-TGAATTGTTTCCATTTACAGTTAAAACACATCATAATTTGTTGTTT
1 TTATAAATGATTTTAAATCAAAATT-TTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTT
* ** * *
9406570 ACAT-TGGATAACGTGAAGCGAAAAGCCATCCATTAACAACAAAAGTCCATTTATAGTCACTCAT
65 GCATCAAGA-AACGTGAAGCG-AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCAT
* * * * **
9406634 GCCTTCGAAAGCCTAGTTACTC-ATTTGAGATGGATTTATAATCATATAAATGATTTTAAACTGA
128 GCCTTCGAAAGCCTAGTTACTCGCTTT-AAATGGTTTTATAATCTTATAAATGATTTT-AACAAA
* * *** *
9406698 ATTTTTTCATTTTTAGTTTAGTTAAATTAGATCAT-ATTGGATGTTTGCATTGGGAAACATGAAG
191 ATTTTTTCATTTTT-G----GTTAAA-AAAATCATAATTGGATGTTTGCATCAAGAAACGTGAAG
** * * * * * * * *
9406762 AAAAATCCATTCATTAATAAGAAAAGTCAATTTATAGTCAC-GAGTGCCTTTGAAAG-CTAAGGT
250 CGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA-TGCCTTCGAAAGCCTAA-TT
* *
9406825 ACT-TGTTTCAAGTGGTTTTAT-ATC
313 ACTCTCTTT-AAATGGTTTTATAATC
* * * * *
9406849 TTATAAATAATTTTAAACCAAAAGTTTTTTCATTTATGGTTAAAAGCATATCAT-AGTGGATGTT
1 TTATAAATGATTTTAAATCAAAA-TTTTTTCATTTTTGGTTAAAA-CAGATCATAATTGGATGTT
*
9406913 TGCATCTAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATG
64 TGCATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATG
* * * ** * * * * *
9406978 TCTTAGAAAGCCTAATTGTTGGCTTTAAGTGGTGTTATAATCTTAAAAATGATATTAA-ATCAAA
129 CCTTCGAAAGCCTAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAACA--AAA
* * * * * *
9407042 TTTTATTCATTTTAGGTTCAAACAA-CTATTAATTGGATGTTTGCACCAAAAAACGTGAAGCAAA
192 TTTT-TTCATTTTTGGTTAAAAAAATC-A-TAATTGGATGTTTGCATCAAGAAACGTGAAGCGAA
* * * * *
9407106 ACCCATCCATTGATATGAAAAGTCCATTTATAGTCACTCATACCTTCGAAAGCGTAATTACT-TG
254 AGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTCT-
* * *
9407170 CTTCAAATGGATTTGTAATC
318 CTTTAAATGGTTTTATAATC
* * * ** * * * *
9407190 TTTTAAATGATTTTAAA--AATGTATATTTTTCACTTTTCATTAACACAAATCATAATTTGATTT
1 TTATAAATGATTTTAAATCAA--AAT-TTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGT
* ** * * * * *
9407253 TTTCATTGA-AAACAGTGAAGCGAAAGCCATTCATTGATAAAAAAAATCCATTTATAGTCACTTA
63 TTGCATCAAGAAAC-GTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCA
* * * * * * **
9407317 TGCCTTTGAAAGCCTAGTT-TTGTGCTTGAAATGGTTTTATAATTTTATAAATGAATTTAGATTT
127 TGCCTTCGAAAGCCTAGTTACT-CGCTTTAAATGGTTTTATAATCTTATAAATGATTTTA-A-CA
* * * * * * * * *
9407381 AATTTTTTTCATGTTTGGTTAAAACATATCATAATTTGATGTTTGAATTAGGAAACATGAAACGA
189 AAATTTTTTCATTTTTGGTTAAAA-AAATCATAATTGGATGTTTGCATCAAGAAACGTGAAGCGA
*
9407446 AAGTCATCCATTGACAAG
253 AAGCCATCCATTGACAAG
9407464 TCTACTTATA
Statistics
Matches: 1561, Mismatches: 332, Indels: 155
0.76 0.16 0.08
Matches are distributed among these distances:
332 21 0.01
333 100 0.06
334 68 0.04
335 180 0.12
336 15 0.01
337 3 0.00
338 5 0.00
339 13 0.01
340 159 0.10
341 550 0.35
342 135 0.09
343 133 0.09
344 154 0.10
345 25 0.02
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (337 bp):
TTATAAATGATTTTAAATCAAAATTTTTTCATTTTTGGTTAAAACAGATCATAATTGGATGTTTG
CATCAAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCC
TTCGAAAGCCTAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAACAAAATTTT
TTCATTTTTGGTTAAAAAAATCATAATTGGATGTTTGCATCAAGAAACGTGAAGCGAAAGCCATC
CATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTCTCTTTAAAT
GGTTTTATAATC
Found at i:9408505 original size:20 final size:20
Alignment explanation
Indices: 9408477--9408522 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
9408467 TTTTTGCCCC
*
9408477 ATTTAACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
9408497 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
9408517 ATTTGA
1 ATTTGA
9408523 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:9417343 original size:171 final size:168
Alignment explanation
Indices: 9416648--9418486 Score: 1342
Period size: 171 Copynumber: 10.8 Consensus size: 168
9416638 GTCGTGAGAG
*
9416648 CATTTATAGTCACTCATGCCTTCG-AAAGCCTCATTACTCACTTTAAATGGTTTTATAATCTTAT
1 CATTTATAGTCACTCATGCCTT-GAAAAGCCTAATTACTCACTTTAAATGG-TTTATAATCTTAT
* * ** * * * * *
9416712 AAATCATTTTAGATTGAATTGTTTTTCATTTATGGTTAAAACACATCATAATTTGCTATTTGCAT
64 AAATGATTTTAAATCAAAAT-TTTTTCATTT-TGGTTAAAACAGATCATAATTGGATGTTTGCAT
* * * * * *
9416777 TGGAAAACATAAAGCGAAAACCATCCATTGACGACAAAAGTC
127 CGAAAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * * *
9416819 CATTTATAGTCACTCATGCCTTCAGAAGCCTAGTTACTCACTTGAAATGGATTTATAATCTTATA
1 CATTTATAGTCACTCATGCCTTGAAAAGCCTAATTACTCACTTTAAATGG-TTTATAATCTTATA
* ** * ** * * *
9416884 AATGATTTTAGAT-TGAATTTTTTCATTTTTTGTTAAAGTAGATTAT-ATTGGATGTATGCATTG
65 AATGATTTTAAATCAAAATTTTTTCA-TTTTGGTTAAAACAGATCATAATTGGATGTTTGCATCG
** * * * * * *
9416947 GGAAACGTGAAGCAAAATCCATTCATTGACAATAAAAGTT
129 AAAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * * ** ** *
9416987 CATTTATAGT-AATGAGTGCCTTCG-GAAG-CTAGCGTACGT-GTTTTAAGTGGTGTTATAATCT
1 CATTTATAGTCACTCA-TGCCTT-GAAAAGCCTA-ATTAC-TCACTTTAAATGGT-TTATAATCT
* * *
9417048 TATAAATGATTTTAAATCAAAAGCTTTTTCATTTCTGGTTAAAAGCATATCATAGTTGGATGTTT
61 TATAAATGATTTTAAATCAAAA-TTTTTTCATTT-TGGTTAAAA-CAGATCATAATTGGATGTTT
* * *
9417113 GCATCTAGAAACATGAAGCGAAAGCCATCCATTGATAAGAAAAGTC
123 GCATCGAAAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * ** ** *
9417159 CATTTATAGTCACTCATGTCTTGAAAAGCCCAATTGTTGGCTTTAAATGGTGTTATAATCTTAAA
1 CATTTATAGTCACTCATGCCTTGAAAAGCCTAATTACTCACTTTAAATGGT-TTATAATCTTATA
* * * *
9417224 AATGATTTTAAGTCAAAATTTTATTCATTTTAGGGTCAAACAGATCATAATTGGATGTTTACATC
65 AATGATTTTAAATCAAAATTTT-TTCATTTT-GGTTAAAACAGATCATAATTGGATGTTTGCATC
* * *
9417289 GAAAAACATGAAGCGAAACCCATCTATTGACATGAAAAGTC
128 GAAAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * * * * * *
9417330 CATTTACAGTCACTTATGCCTTCG-AAAGCATAGTTACTCGCTTTAAATAGATTTATAATCTTTT
1 CATTTATAGTCACTCATGCCTT-GAAAAGCCTAATTACTCACTTTAAAT-GGTTTATAATCTTAT
** ** * * * *
9417394 AAATGATTTTAAA--AATGTGTATTTTTCACTTTTCATTAAAACAAATCATAATTTGAGTTTTTT
64 AAATGATTTTAAATCAA--AAT-TTTTTCA-TTTTGGTTAAAACAGATCATAATTGGA-TGTTTG
* * * * * *
9417457 CATTG-AAAACGATGAAGCGAAAGCCATCTAGTGATAAAAAAAATC
124 CATCGAAAAAC-ATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * * * *
9417502 CATTTATAATCACTCATGCCTTTG-AAAGCCTAGTTTCTCACTTTAAATGAGTTGATAATTTTAT
1 CATTTATAGTCACTCATGCC-TTGAAAAGCCTAATTACTCACTTTAAATG-GTTTATAATCTTAT
* * * * * * *
9417566 AAATGAATTTT-GATTAAATTTTTTTCAAGTTTGGTTAAAACAAATCATAATTTGATGTTTGAAT
64 AAATG-ATTTTAAATCAAAATTTTTTC-ATTTTGGTTAAAACAGATCATAATTGGATGTTTGCAT
* * *
9417630 -TAGGAATCATGAAGCG-AAGCCATCCATTGAC-----AAGTC
127 CGA-AAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * * * *
9417666 CACTTATAGTCACTCATGCCTTCG-AAAGCTTAGTTACTCACTTTAAATGATTCTGTAATCTTAT
1 CATTTATAGTCACTCATGCCTT-GAAAAGCCTAATTACTCACTTTAAATGGTT-TATAATCTTAT
* * ** ** * * * * *
9417730 AACTGATTTTCACCCAAACGTTTTACATTCCTAGTTAAAACATATCATAATTGGATGTTTCCATC
64 AAATGATTTTAAATCAAAATTTTTTCATT-TTGGTTAAAACAGATCATAATTGGATGTTTGCATC
* * * * * * *
9417795 AAAAAACGTAAAGTGAAAGCCTTCCATTGATACA-AAAAGTG
128 GAAAAACATGAAGCGAAAGCCATCCATTGACA-AGAAAAGTC
* *
9417836 CATTTATAGTCACTCATGCCTTCAAAAGCCTCATTACTCAC-TTAAATGGTTTTATAATCTTATA
1 CATTTATAGTCACTCATGCCTTGAAAAGCCTAATTACTCACTTTAAATGG-TTTATAATCTTATA
* * * ** * * * * *
9417900 AATCATTTTAGATTGAATTTTTTTTCATTTATGGTTAAAACACATCATAATTTGTTATTTGCATT
65 AATGATTTTA-AATCAAAATTTTTTCATTT-TGGTTAAAACAGATCATAATTGGATGTTTGCATC
* * *
9417965 GGAAAACATGAAGCGAAAGCCATCCGTTGACAATAAAAGTC
128 GAAAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * * * *
9418006 CATTTATAGTCATTCATGCCCTCAAAAGCCTAGTTACTCACTTGAAATGGATTTATAATCTTATA
1 CATTTATAGTCACTCATGCCTTGAAAAGCCTAATTACTCACTTTAAATGG-TTTATAATCTTATA
** ** * * * *
9418071 AATGATTTTAAAT-TGAATTTTTTCATTTTTGGTTAAAGTAGTTCAT-ATTGGATGTCTACATTG
65 AATGATTTTAAATCAAAATTTTTTCA-TTTTGGTTAAAACAGATCATAATTGGATGTTTGCATCG
** ** * * * * * *
9418134 GGAAATGTGAAGCAAAATCCATTCATTGATAGGAAAAGTT
129 AAAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * ** ** *
9418174 CATTTATAGTCAC-GAGTGCCTTTAAAAG-CTAGGGTACAT-GTTTTAAGTGGTTTTATAATCTT
1 CATTTATAGTCACTCA-TGCCTTGAAAAGCCTA-ATTAC-TCACTTTAAATGG-TTTATAATCTT
* * * *
9418236 ATAAATGACTTTAAATCAAAAGTTTTTCATTTCTGGTTAAAACCAGATTATAGTTGGATGTTTGC
62 ATAAATGATTTTAAATCAAAATTTTTTCATTT-TGGTTAAAA-CAGATCATAATTGGATGTTTGC
* * *
9418301 ATCTAGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
125 ATCGAAAAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
* * * * * * * *
9418345 CATTTATAGTCACTTATGCTTTGGAAAGCTTAATTGCTCGCTTTAAATGGTGCTATAATCTTAAA
1 CATTTATAGTCACTCATGCCTTGAAAAGCCTAATTACTCACTTTAAATGGT-TTATAATCTTATA
* * * * *
9418410 AATGATTTTAAACCAAAATTTATTAATTTTTGGTTCAAACAGATCATAATT-GATGTTTGTATCG
65 AATGATTTTAAATCAAAATTTTTTCA-TTTTGGTTAAAACAGATCATAATTGGATGTTTGCATCG
*
9418474 AAAAACGTGAAGC
129 AAAAACATGAAGC
9418487 AAAATGTAAC
Statistics
Matches: 1313, Mismatches: 291, Indels: 130
0.76 0.17 0.07
Matches are distributed among these distances:
163 11 0.01
164 102 0.08
165 14 0.01
167 11 0.01
168 202 0.15
169 127 0.10
170 201 0.15
171 405 0.31
172 226 0.17
173 12 0.01
174 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (168 bp):
CATTTATAGTCACTCATGCCTTGAAAAGCCTAATTACTCACTTTAAATGGTTTATAATCTTATAA
ATGATTTTAAATCAAAATTTTTTCATTTTGGTTAAAACAGATCATAATTGGATGTTTGCATCGAA
AAACATGAAGCGAAAGCCATCCATTGACAAGAAAAGTC
Found at i:9429181 original size:20 final size:20
Alignment explanation
Indices: 9429152--9429200 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
9429142 CTAGGAGAGA
*
9429152 GAAAGGAAGAAA-GAAGAAAG
1 GAAAGAAAGAAAGGAA-AAAG
9429172 GAAAGAAAGAAAGGAAAAAG
1 GAAAGAAAGAAAGGAAAAAG
9429192 GAAGAGAAA
1 GAA-AGAAA
9429201 AGCTCGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGAAAGGAAAAAG
Found at i:9430353 original size:38 final size:38
Alignment explanation
Indices: 9430310--9430387 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
9430300 GCGTGTGTGC
*
9430310 TGTGGGAGTACACATGACGGTGTCAGTAGTGTGCGATG
1 TGTGGGAGTACACATGACGATGTCAGTAGTGTGCGATG
*
9430348 TGTGGGAGTGCACATGACGATGTCAGTAGTGTGCGATG
1 TGTGGGAGTACACATGACGATGTCAGTAGTGTGCGATG
9430386 TG
1 TG
9430388 CTGTGTGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.13, G:0.40, T:0.27
Consensus pattern (38 bp):
TGTGGGAGTACACATGACGATGTCAGTAGTGTGCGATG
Found at i:9430393 original size:43 final size:39
Alignment explanation
Indices: 9430346--9430482 Score: 118
Period size: 39 Copynumber: 3.5 Consensus size: 39
9430336 TAGTGTGCGA
* *
9430346 TGTGTGGGAGTGCACATGACGATGTCAGTAGTGTGCGATGTGC
1 TGTGTGGGAGTGCACATGACGATG--A-TA-TATGCCATGTGC
* *
9430389 TGTGTGGGAGAGCACATGATGATGATATATGCCATGTGC
1 TGTGTGGGAGTGCACATGACGATGATATATGCCATGTGC
* * * **
9430428 GGTGTGAGAGTGCACATGAAGAT-AT-TA-GTTATGTGC
1 TGTGTGGGAGTGCACATGACGATGATATATGCCATGTGC
* *
9430464 GGTGTAGGAGTGCACATGA
1 TGTGTGGGAGTGCACATGA
9430483 GCTGAGTTGA
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
36 24 0.29
37 2 0.02
38 2 0.02
39 29 0.35
40 2 0.02
41 1 0.01
43 22 0.27
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.28
Consensus pattern (39 bp):
TGTGTGGGAGTGCACATGACGATGATATATGCCATGTGC
Found at i:9431379 original size:18 final size:19
Alignment explanation
Indices: 9431356--9431398 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
9431346 TTTGTGGAGA
9431356 AATTGAG-TTGGA-AAAAGT
1 AATTGAGCTTGGATAAAA-T
*
9431374 AATTGAGCTTTGATAAAAT
1 AATTGAGCTTGGATAAAAT
9431393 AATTGA
1 AATTGA
9431399 TTTAGGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (19 bp):
AATTGAGCTTGGATAAAAT
Found at i:9441203 original size:58 final size:57
Alignment explanation
Indices: 9441087--9441261 Score: 273
Period size: 58 Copynumber: 3.1 Consensus size: 57
9441077 ATAAATGGAC
* * *
9441087 CACATGGGAAAAATGATTGCAAAATGAAAAAAATACAAAGGAC-AGCAACAGAGGGAT
1 CACA-GGGAAAGATGATTGCAAAATGACAAAAATAAAAAGGACGAGCAACAGAGGGAT
*
9441144 CACAGGGAAAGATGATTGCAAAATGACAAAAATAAAAAGGACGGAGAAACAGAGGGAT
1 CACAGGGAAAGATGATTGCAAAATGACAAAAATAAAAAGGAC-GAGCAACAGAGGGAT
*
9441202 CACAGGGAAAGATGATTGCAAAATGACAAAAATAAAAAGGACG-GCAACAGAGGCAT
1 CACAGGGAAAGATGATTGCAAAATGACAAAAATAAAAAGGACGAGCAACAGAGGGAT
9441258 CACA
1 CACA
9441262 TCAATTATTC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
56 50 0.45
57 5 0.05
58 55 0.50
ACGTcount: A:0.51, C:0.13, G:0.25, T:0.11
Consensus pattern (57 bp):
CACAGGGAAAGATGATTGCAAAATGACAAAAATAAAAAGGACGAGCAACAGAGGGAT
Found at i:9444683 original size:17 final size:17
Alignment explanation
Indices: 9444661--9444720 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
9444651 GGACTATCAC
* *
9444661 GTCTTTTCTATCATAAA
1 GTCTTTTCTGTCAGAAA
9444678 GTCTTTTCTGTCAGAAA
1 GTCTTTTCTGTCAGAAA
*
9444695 GTATTTTCTGTCAGAAA
1 GTCTTTTCTGTCAGAAA
*
9444712 TTCTTTTCT
1 GTCTTTTCT
9444721 TTCAAGTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (17 bp):
GTCTTTTCTGTCAGAAA
Found at i:9444850 original size:55 final size:55
Alignment explanation
Indices: 9444779--9444909 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 55
9444769 CATCATGACA
* * *
9444779 TGTAACAACTAAATTTTTCAATATGACGTATAACAATTAAATCTTC-AACATGGCT
1 TGTAACAACTATATTTTTCAATATGACGTATAACAACTAAAT-TTCAAACATGGCG
** * * * * * *
9444834 TGTAGTAACTATATTTTGCAATATGGCGTGTAATAGCTAAATTTCAAACATTGCG
1 TGTAACAACTATATTTTTCAATATGACGTATAACAACTAAATTTCAAACATGGCG
9444889 TGTAACAACTATATTTTTCAA
1 TGTAACAACTATATTTTTCAA
9444910 CATATTGTTT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 3 0.05
55 58 0.95
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (55 bp):
TGTAACAACTATATTTTTCAATATGACGTATAACAACTAAATTTCAAACATGGCG
Found at i:9444956 original size:27 final size:26
Alignment explanation
Indices: 9444925--9445187 Score: 105
Period size: 27 Copynumber: 9.6 Consensus size: 26
9444915 TGTTTAACCG
*
9444925 TTAAATTTTCAACATGATGTGTAATTA
1 TTAAATTTTCAACATGAT-TGTAATAA
* *
9444952 CTAAATCTTT-AACATGACTTGTAACAA
1 TTAAAT-TTTCAACATGA-TTGTAATAA
* * *
9444979 TTACATTTTTTAACATGACATGTAATAA
1 TTA-AATTTTCAACATGA-TTGTAATAA
* *
9445007 TTAAATTTTCAACATTGCTTGTAACAA
1 TTAAATTTTCAACA-TGATTGTAATAA
* * * *
9445034 TTATATTTTTCAACATGGTATATAACAA
1 TTA-AATTTTCAACATGAT-TGTAATAA
* * ** *
9445062 CTAAATCTTCAACATCGCCTGTAACAA
1 TTAAATTTTCAACAT-GATTGTAATAA
* * * * *
9445089 CTATATTTTTCAGCATGAGATGTAACAA
1 TTA-AATTTTCAACATGA-TTGTAATAA
* * * * *
9445117 CTAAATCTTCAACATGGCTTATAACAA
1 TTAAATTTTCAACAT-GATTGTAATAA
* * * * *
9445144 TTACATTTTTCATCGTAATGTGTAACAA
1 TTA-AATTTTCAACATGAT-TGTAATAA
9445172 TTAAATTTTCAACATG
1 TTAAATTTTCAACATG
9445188 GTGTGTCGTA
Statistics
Matches: 179, Mismatches: 44, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
27 94 0.53
28 85 0.47
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (26 bp):
TTAAATTTTCAACATGATTGTAATAA
Found at i:9445003 original size:110 final size:110
Alignment explanation
Indices: 9444889--9445155 Score: 263
Period size: 110 Copynumber: 2.4 Consensus size: 110
9444879 AAACATTGCG
* ** * * **
9444889 TGTAACAACTATATTTTTCAACATATTG-TT-TAACCGTTA-AATTTTCAACATGATGTGTAATT
1 TGTAACAACTA-AATTTTCAAC--ATTGCTTGTAACAATTATAATTTTCAACATGATATATAACA
* * * *
9444951 ACTAAATCTTTAACAT-GACTTGTAACAATTACATTTTTTAACATGACA
63 ACTAAATCTTCAACATCG-CCTGTAACAACTACATTTTTCAACATGACA
* * * *
9444999 TGTAATAATTAAATTTTCAACATTGCTTGTAACAATTATATTTTTCAACATGGTATATAACAACT
1 TGTAACAACTAAATTTTCAACATTGCTTGTAACAATTATAATTTTCAACATGATATATAACAACT
* * *
9445064 AAATCTTCAACATCGCCTGTAACAACTATATTTTTCAGCATGAGA
66 AAATCTTCAACATCGCCTGTAACAACTACATTTTTCAACATGACA
* * * * *
9445109 TGTAACAACTAAATCTTCAACATGGCTTATAACAATTACATTTTTCA
1 TGTAACAACTAAATTTTCAACATTGCTTGTAACAATTATAATTTTCA
9445156 TCGTAATGTG
Statistics
Matches: 129, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
107 4 0.03
108 2 0.02
109 16 0.12
110 106 0.82
111 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (110 bp):
TGTAACAACTAAATTTTCAACATTGCTTGTAACAATTATAATTTTCAACATGATATATAACAACT
AAATCTTCAACATCGCCTGTAACAACTACATTTTTCAACATGACA
Found at i:9445067 original size:137 final size:137
Alignment explanation
Indices: 9444781--9445076 Score: 306
Period size: 137 Copynumber: 2.2 Consensus size: 137
9444771 TCATGACATG
* * * ** *
9444781 TAACAACTAAATTTTTCAATATGACGTATAACAATTAAATCTTCAACATGGCTTGTAGTAACTAT
1 TAACAACTAAA-TTTTCAACATGACGTATAACAACTAAATCTTCAACATGACTTGTAACAACTAC
* * * *
9444846 ATTTTGCAATATGGCGTGTAATAGCTAAATTTCAAACATTGCGTGTAACAACTATATTTTTCAAC
65 ATTTTGCAACATGACATGTAATAACTAAATTTCAAACATTGCGTGTAACAACTATATTTTTCAAC
* * *
9444911 ATATTGTT
130 ATAGTATA
*** * * ** * *
9444919 TAACCGTTAAATTTTCAACATGATGTGTAATTACTAAATCTTTAACATGACTTGTAACAATTACA
1 TAACAACTAAATTTTCAACATGACGTATAACAACTAAATCTTCAACATGACTTGTAACAACTACA
** * * *
9444984 TTTTTTAACATGACATGTAATAATTAAATTTTC-AACATTGCTTGTAACAATTATATTTTTCAAC
66 TTTTGCAACATGACATGTAATAACTAAA-TTTCAAACATTGCGTGTAACAACTATATTTTTCAAC
*
9445048 ATGGTATA
130 ATAGTATA
*
9445056 TAACAACTAAATCTTCAACAT
1 TAACAACTAAATTTTCAACAT
9445077 CGCCTGTAAC
Statistics
Matches: 125, Mismatches: 32, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
137 113 0.90
138 12 0.10
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (137 bp):
TAACAACTAAATTTTCAACATGACGTATAACAACTAAATCTTCAACATGACTTGTAACAACTACA
TTTTGCAACATGACATGTAATAACTAAATTTCAAACATTGCGTGTAACAACTATATTTTTCAACA
TAGTATA
Found at i:9445130 original size:192 final size:191
Alignment explanation
Indices: 9444772--9445132 Score: 420
Period size: 192 Copynumber: 1.9 Consensus size: 191
9444762 ACTTTTTCAT
* *
9444772 CATGACATGTAACAACTAAATTTTTCAATATGACGTATAACAATTAAATCTTCAACATGGCTTGT
1 CATGACATGTAACAACTAAATTTTTCAACATGACATATAACAATTAAATCTTCAACATGGCTTGT
** * * * * * * *
9444837 AGTAACTATATTTTGCAATATGGCGTGTAATAGCTAAATTTCAAACATTGCGTGTAACAACTATA
66 AACAACTATATTTTGCAACATGGCATATAACAACTAAATTTCAAACATCGCCTGTAACAACTATA
* *** *
9444902 TTTTTCAACATATTGTTTAACCGTTAAATTTTCAACATGATGTGTAATTACTAAATCTTTAA
131 TTTTTCAACATA-TGTGTAACAACTAAATCTTCAACATGATGTGTAATTACTAAATCTTTAA
* * * * * * * *
9444964 CATGACTTGTAACAATTACATTTTTTAACATGACATGTAATAATTAAATTTTCAACATTGCTTGT
1 CATGACATGTAACAACTAAATTTTTCAACATGACATATAACAATTAAATCTTCAACATGGCTTGT
* * *
9445029 AACAATTATATTTTTCAACATGGTATATAACAACTAAATCTTC-AACATCGCCTGTAACAACTAT
66 AACAACTATATTTTGCAACATGGCATATAACAACTAAAT-TTCAAACATCGCCTGTAACAACTAT
*
9445093 ATTTTTCAGCATGA-GATGTAACAACTAAATCTTCAACATG
130 ATTTTTCAACAT-ATG-TGTAACAACTAAATCTTCAACATG
9445133 GCTTATAACA
Statistics
Matches: 138, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
191 1 0.01
192 133 0.96
193 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (191 bp):
CATGACATGTAACAACTAAATTTTTCAACATGACATATAACAATTAAATCTTCAACATGGCTTGT
AACAACTATATTTTGCAACATGGCATATAACAACTAAATTTCAAACATCGCCTGTAACAACTATA
TTTTTCAACATATGTGTAACAACTAAATCTTCAACATGATGTGTAATTACTAAATCTTTAA
Found at i:9445188 original size:55 final size:55
Alignment explanation
Indices: 9444930--9445188 Score: 268
Period size: 55 Copynumber: 4.7 Consensus size: 55
9444920 AACCGTTAAA
* ** *
9444930 TTTTCAACATGATGTGTAATTACTAAATCTTT-AACATGACTTGTAACAATTACAT
1 TTTTCAACATGATATGTAACAACTAAAT-TTTCAACATGGCTTGTAACAATTACAT
* * * * * *
9444985 TTTTTAACATGACATGTAATAATTAAATTTTCAACATTGCTTGTAACAATTATAT
1 TTTTCAACATGATATGTAACAACTAAATTTTCAACATGGCTTGTAACAATTACAT
* * * * * * *
9445040 TTTTCAACATGGTATATAACAACTAAATCTTCAACATCGCCTGTAACAACTATAT
1 TTTTCAACATGATATGTAACAACTAAATTTTCAACATGGCTTGTAACAATTACAT
* * * *
9445095 TTTTCAGCATGAGATGTAACAACTAAATCTTCAACATGGCTTATAACAATTACAT
1 TTTTCAACATGATATGTAACAACTAAATTTTCAACATGGCTTGTAACAATTACAT
* * * * *
9445150 TTTTCATCGTAATGTGTAACAATTAAATTTTCAACATGG
1 TTTTCAACATGATATGTAACAACTAAATTTTCAACATGG
9445189 TGTGTCGTAA
Statistics
Matches: 169, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
54 3 0.02
55 166 0.98
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (55 bp):
TTTTCAACATGATATGTAACAACTAAATTTTCAACATGGCTTGTAACAATTACAT
Found at i:9448936 original size:298 final size:296
Alignment explanation
Indices: 9448401--9448994 Score: 1134
Period size: 298 Copynumber: 2.0 Consensus size: 296
9448391 ATGCTGTTAT
* * *
9448401 CAGTCGCTTCTGGTTGCTTAATTAGCCTATGTTTTTGTTCAATATCAGGTTGGAGCGACTAGACG
1 CAGTCGCTTCTGGTTGCTTAATTAGCCTATGTTTTTGTTCAATATCACGTTGCAGCGACTAGAAG
*
9448466 AGATACATCTTCATCATATATAGAATGGGGAATCACTAGCATATCAAAGCTATGTTCATCACCTT
66 AGATACATCTTCATCATATATAGAATGAGGAATCACTAGCATATCAAAGCTATGTTCATCACCTT
9448531 GTTTGACCTCACTATCACTGATGTTTTCTTCTAAACTTATCGCAAAAAGTTTTACTTTCCCTCCA
131 GTTTGACCTCACTATCACTGATGTTTTCTTCTAAACTTATCGCAAAAAGTTTTACTTTCCCTCCA
9448596 TTAGAAAGCTTCATTATAATTGTAAACTCGGAAGCACCATATGATTATAAGGAGTGTGGGACCTC
196 TTAGAAAGCTTCATTATAATTGTAAACTCGGAAGCACCATATGATTATAAGGAGTGTGGGACCTC
9448661 AAGAAGAATCTTGACAATCAGTGGATTCTCATTGAA
261 AAGAAGAATCTTGACAATCAGTGGATTCTCATTGAA
9448697 NCAGTCGCTTCTGGTTGCTTAATTAGCCTATGTTTTTGTTCAATATCACGTTGCAGCGACTAGAA
1 -CAGTCGCTTCTGGTTGCTTAATTAGCCTATGTTTTTGTTCAATATCACGTTGCAGCGACTAGAA
9448762 GAGATACATCTTCATCCATATATAGAATGAGGAATCACTAGCATATCAAAGCTATGTTCATCACC
65 GAGATACATCTTCAT-CATATATAGAATGAGGAATCACTAGCATATCAAAGCTATGTTCATCACC
9448827 TTGTTTGACCTCACTATCACTGATGTTTTCTTCTAAACTTATCGCAAAAAGTTTTACTTTCCCTC
129 TTGTTTGACCTCACTATCACTGATGTTTTCTTCTAAACTTATCGCAAAAAGTTTTACTTTCCCTC
9448892 CATTAGAAAGCTTCATTATAATTGTAAACTCGGAAGCACCATATGATTATAAGGAGTGTGGGACC
194 CATTAGAAAGCTTCATTATAATTGTAAACTCGGAAGCACCATATGATTATAAGGAGTGTGGGACC
9448957 TCAAGAAGAATCTTGACAATCAGTGGATTCTCATTGAA
259 TCAAGAAGAATCTTGACAATCAGTGGATTCTCATTGAA
9448995 TGCATTCACG
Statistics
Matches: 292, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
297 76 0.26
298 216 0.74
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (296 bp):
CAGTCGCTTCTGGTTGCTTAATTAGCCTATGTTTTTGTTCAATATCACGTTGCAGCGACTAGAAG
AGATACATCTTCATCATATATAGAATGAGGAATCACTAGCATATCAAAGCTATGTTCATCACCTT
GTTTGACCTCACTATCACTGATGTTTTCTTCTAAACTTATCGCAAAAAGTTTTACTTTCCCTCCA
TTAGAAAGCTTCATTATAATTGTAAACTCGGAAGCACCATATGATTATAAGGAGTGTGGGACCTC
AAGAAGAATCTTGACAATCAGTGGATTCTCATTGAA
Found at i:9453520 original size:29 final size:29
Alignment explanation
Indices: 9453478--9453591 Score: 122
Period size: 29 Copynumber: 3.9 Consensus size: 29
9453468 CATGCTTGTA
*
9453478 TTAATTTAGACAAGAAAACCTATTTGATC
1 TTAATTTAGACAAGAAAACATATTTGATC
* *
9453507 TTAATTTAGACAAGAAAATATGTTT-ATC
1 TTAATTTAGACAAGAAAACATATTTGATC
* * * * *
9453535 TTTATTTAAGATAAAAAAAATATATTTTATC
1 TTAATTT-AGA-CAAGAAAACATATTTGATC
*
9453566 TTAATCTAGACAAGAAAACATATTTG
1 TTAATTTAGACAAGAAAACATATTTG
9453592 TCTCAACTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
28 9 0.13
29 37 0.54
30 15 0.22
31 8 0.12
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (29 bp):
TTAATTTAGACAAGAAAACATATTTGATC
Found at i:9453614 original size:59 final size:59
Alignment explanation
Indices: 9453498--9453628 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 59
9453488 CAAGAAAACC
* * * * ** *
9453498 TATTTGATCTTAATTTAGACAAGAAAATATGTTTATCTTTATTTAAGATAAAAAAAATA
1 TATTTTATCTTAATCTAGACAAGAAAACATATTTATCTCAACTTAAGATAAAAAAAATA
* *
9453557 TATTTTATCTTAATCTAGACAAGAAAACATATTTGTCTCAACTTAA-ATAAGATAAAATA
1 TATTTTATCTTAATCTAGACAAGAAAACATATTTATCTCAACTTAAGATAA-AAAAAATA
*
9453616 T-TTTTGTCTTAAT
1 TATTTTATCTTAAT
9453629 TAAAGACAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 15 0.25
59 46 0.75
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (59 bp):
TATTTTATCTTAATCTAGACAAGAAAACATATTTATCTCAACTTAAGATAAAAAAAATA
Found at i:9465470 original size:35 final size:32
Alignment explanation
Indices: 9465431--9465494 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
9465421 TTTTTATGGC
9465431 TATTAATTTTTTTAAAGAAAAATGAGTTTTTCCTG
1 TATTAA-TTTTTT-AAGAAAAA-GAGTTTTTCCTG
*
9465466 TATTAATTTTTTAAGGAAAAGAGTTTTTC
1 TATTAATTTTTTAAGAAAAAGAGTTTTTC
9465495 TTACATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 9 0.32
33 7 0.25
34 6 0.21
35 6 0.21
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (32 bp):
TATTAATTTTTTAAGAAAAAGAGTTTTTCCTG
Found at i:9465503 original size:32 final size:35
Alignment explanation
Indices: 9465432--9465503 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 35
9465422 TTTTATGGCT
**
9465432 ATTAATTTTTTTAAAGAAAAATGAGTTTTTCCTGT
1 ATTAATTTTTTTAAAGAAAAATGAGTTTTTCCTAC
* *
9465467 ATTAA-TTTTTT-AAGGAAAA-GAGTTTTTCTTAC
1 ATTAATTTTTTTAAAGAAAAATGAGTTTTTCCTAC
9465499 ATTAA
1 ATTAA
9465504 AATTATATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 15 0.45
33 7 0.21
34 6 0.18
35 5 0.15
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (35 bp):
ATTAATTTTTTTAAAGAAAAATGAGTTTTTCCTAC
Found at i:9471361 original size:23 final size:22
Alignment explanation
Indices: 9471331--9471375 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
9471321 AACAGGAGCT
9471331 CGTGATCAACAATGGCATGTGNG
1 CGTGATCAACAATGGCATGTG-G
9471354 CGTGATCAACAATGGCATGTGG
1 CGTGATCAACAATGGCATGTGG
9471376 GCACACTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.22
Consensus pattern (22 bp):
CGTGATCAACAATGGCATGTGG
Found at i:9472743 original size:56 final size:56
Alignment explanation
Indices: 9472656--9472828 Score: 274
Period size: 56 Copynumber: 3.1 Consensus size: 56
9472646 ATAAATGGAC
*
9472656 CACAGGGGAAAAATGATTGCAAAATGACAAAAATACAAAGGACAGAAACAGAGGGAT
1 CACA-GGGAAAAATGATTGCAAAATGACAAAAATACAAAGGACAGCAACAGAGGGAT
* * *
9472713 CACAGGGAAAGATGATTGCAAAATGACAAAAATAAAAAGGACGGCAACAGAGGGAT
1 CACAGGGAAAAATGATTGCAAAATGACAAAAATACAAAGGACAGCAACAGAGGGAT
* * *
9472769 CACAAGGAAAAATGATTGCAAAATGACAAAAATACAAAGGACAGCAACTGAGGCAT
1 CACAGGGAAAAATGATTGCAAAATGACAAAAATACAAAGGACAGCAACAGAGGGAT
9472825 CACA
1 CACA
9472829 TCAATTATTC
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
56 102 0.96
57 4 0.04
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.11
Consensus pattern (56 bp):
CACAGGGAAAAATGATTGCAAAATGACAAAAATACAAAGGACAGCAACAGAGGGAT
Found at i:9476247 original size:17 final size:17
Alignment explanation
Indices: 9476187--9476248 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
9476177 GTGGACTATC
* * *
9476187 AAGTCTTTTATATCATA
1 AAGTCTTTTCTGTCAGA
9476204 AAGTCTTTTCTGTCAGA
1 AAGTCTTTTCTGTCAGA
9476221 AAGTCTTTTCTGTCAGA
1 AAGTCTTTTCTGTCAGA
*
9476238 AATTCTTTTCT
1 AAGTCTTTTCT
9476249 TTCAAGTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (17 bp):
AAGTCTTTTCTGTCAGA
Found at i:9476332 original size:28 final size:28
Alignment explanation
Indices: 9476292--9476348 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
9476282 ATGCAACAAC
*
9476292 TTTTTCATCATGACATGTAACAACTAAA
1 TTTTTCATCATGACATATAACAACTAAA
* *
9476320 TTTTTCAAT-ATGACGTATAACAATTAAA
1 TTTTTC-ATCATGACATATAACAACTAAA
9476348 T
1 T
9476349 CTTCAACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (28 bp):
TTTTTCATCATGACATATAACAACTAAA
Found at i:9476405 original size:28 final size:27
Alignment explanation
Indices: 9476307--9476442 Score: 85
Period size: 27 Copynumber: 4.9 Consensus size: 27
9476297 CATCATGACA
* *
9476307 TGTAACAACTAAATTTTTCAATATGACG
1 TGTAATAACTAAA-TTTTCAATATGGCG
* * * * * *
9476335 TATAACAATTAAATCTTCAACATGGCT
1 TGTAATAACTAAATTTTCAATATGGCG
* *
9476362 TGTAGTAACTATATTTTGCAATATGGCG
1 TGTAATAACTAAATTTT-CAATATGGCG
* * *
9476390 TGTAATAGCTAAA-TTTCAAACATTGCG
1 TGTAATAACTAAATTTTC-AATATGGCG
* * *
9476417 TGTAACAACTATATTTTTCAACATGG
1 TGTAATAACTA-AATTTTCAATATGG
9476443 TGTTTAACCG
Statistics
Matches: 81, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
26 1 0.01
27 40 0.49
28 36 0.44
29 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (27 bp):
TGTAATAACTAAATTTTCAATATGGCG
Found at i:9476475 original size:55 final size:55
Alignment explanation
Indices: 9476293--9476476 Score: 165
Period size: 55 Copynumber: 3.3 Consensus size: 55
9476283 TGCAACAACT
* * * * *
9476293 TTTTCATCATGACATGTAACAACTAAATTTTTCAATATGACGTATAACAATTAAA
1 TTTTCAACATGACGTGTAACAACTATATTTTTCAATATGGCGTATAACAGTTAAA
* * * ** * * * *
9476348 TCTTCAACATGGCTTGTAGTAACTATATTTTGCAATATGGCGTGTAATAGCTAAA
1 TTTTCAACATGACGTGTAACAACTATATTTTTCAATATGGCGTATAACAGTTAAA
* * * *
9476403 -TTTCAAACATTG-CGTGTAACAACTATATTTTTCAACATGGTGTTTAACCGTTAAA
1 TTTTC-AACA-TGACGTGTAACAACTATATTTTTCAATATGGCGTATAACAGTTAAA
*
9476458 TTTTCAACATGATGTGTAA
1 TTTTCAACATGACGTGTAA
9476477 TTACTAAATC
Statistics
Matches: 100, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
54 5 0.05
55 89 0.89
56 6 0.06
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (55 bp):
TTTTCAACATGACGTGTAACAACTATATTTTTCAATATGGCGTATAACAGTTAAA
Done.