Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 75 of 199
Found at i:21263454 original size:46 final size:46
Alignment explanation
Indices: 21263347--21263672 Score: 365
Period size: 46 Copynumber: 7.6 Consensus size: 46
21263337 TACGTATGAT
*
21263347 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
21263390 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
21263436 CACTTATCACTTTCTCACTTGATTAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
21263482 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
21263518 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
21263564 CACTTATCACTTTGTCTCTTGATCAAATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
21263600 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
21263646 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
21263673 AGTACTCAAA
Statistics
Matches: 244, Mismatches: 16, Indels: 43
0.81 0.05 0.14
Matches are distributed among these distances:
36 56 0.23
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.05
44 10 0.04
45 20 0.08
46 129 0.53
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:21263523 original size:36 final size:36
Alignment explanation
Indices: 21263482--21263636 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
21263472 CTAAGGCTAA
21263482 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
21263518 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * *
21263560 CTACCACTTATCACTTTGTCTCTTGATCAAATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
21263600 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
21263636 C
1 C
21263637 TAAAGTTACC
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 63 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:21263573 original size:82 final size:82
Alignment explanation
Indices: 21263436--21263672 Score: 393
Period size: 82 Copynumber: 2.9 Consensus size: 82
21263426 CTAAGGCTAT
* * * * *
21263436 CACTTATCACTTTCTCACTTGATTAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
21263501 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
21263518 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
* *
21263583 TGATCAAATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
21263600 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
21263665 TGATCAGA
66 TGATCAGA
21263673 AGTACTCAAA
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 145 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:21263650 original size:128 final size:126
Alignment explanation
Indices: 21263347--21263672 Score: 356
Period size: 128 Copynumber: 2.6 Consensus size: 126
21263337 TACGTATGAT
* * * * *
21263347 CACTTATCACTTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTG
1 CACTTATCACTTATCACTTGATCAGATAAGTGTAGCTAAGTTACCACTTATCACTTTATCACTTG
* * * *
21263411 ATCAGATAAGTGTAGCTAAGGCTATCACTTATCACTTTCTCACTTGATTAGATAAGTGTAG
66 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAAATAAGTGTAG
* ** * * * * *
21263472 CTAAGGC-TAACACTTATCACTTTG-TCACTTGA-T-CAGATAAGTATAGCACTTATCACTTTTT
1 C--A--CTTATCACTTATCAC-TTGATCAGATAAGTGTAGCTAAGT-TACCACTTATCACTTTAT
* *
21263533 CACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAAATAAGTGT
60 CACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAAATAAGTGT
21263598 AG
125 AG
* *
21263600 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTTATCTCT
1 CACTTATCAC-TTATCACTTGATCAGATAAGTGTAGCT-AAGTTACCACTTATCACTTTATCACT
21263665 TGATCAGA
64 TGATCAGA
21263673 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 28, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
124 1 0.01
125 9 0.06
126 12 0.08
127 7 0.04
128 118 0.74
129 11 0.07
130 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (126 bp):
CACTTATCACTTATCACTTGATCAGATAAGTGTAGCTAAGTTACCACTTATCACTTTATCACTTG
ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAAATAAGTGTAG
Found at i:21266594 original size:20 final size:21
Alignment explanation
Indices: 21266566--21266616 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
21266556 ATAAAATTTA
21266566 ATTAGAATATATAAACTAT-ATT
1 ATTA-AATATATAAA-TATAATT
*
21266588 -TTAAATATTTAAATATAATT
1 ATTAAATATATAAATATAATT
21266608 ATTAAATAT
1 ATTAAATAT
21266617 TTGTAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATATATAAATATAATT
Found at i:21266614 original size:21 final size:21
Alignment explanation
Indices: 21266566--21266618 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
21266556 ATAAAATTTA
*
21266566 ATTAGAATATATAAACTATATT
1 ATTA-AATATTTAAACTATATT
21266588 -TTAAATATTTAAA-TATAATT
1 ATTAAATATTTAAACTAT-ATT
21266608 ATTAAATATTT
1 ATTAAATATTT
21266619 GTAATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATATTTAAACTATATT
Found at i:21279826 original size:51 final size:51
Alignment explanation
Indices: 21279729--21279844 Score: 121
Period size: 51 Copynumber: 2.3 Consensus size: 51
21279719 TTATAAAACT
** *
21279729 TATATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATA-AA
1 TATATA-ATATAAAATACATAATGCATTTACAAAAAAAAGGAAAATATATAA
* * *
21279780 TATATACATATAAAATATATTCATGCATTTACAAAAAAAATG-AAATATATAA
1 TATATA-ATATAAAATACA-TAATGCATTTACAAAAAAAAGGAAAATATATAA
*
21279832 -GTATAATATAAAA
1 TATATAATATAAAA
21279845 CGTGGAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 8 0.15
51 28 0.51
52 19 0.35
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (51 bp):
TATATAATATAAAATACATAATGCATTTACAAAAAAAAGGAAAATATATAA
Found at i:21280614 original size:21 final size:21
Alignment explanation
Indices: 21280588--21280644 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
21280578 AATCATATCT
* *
21280588 TCTAAGATTGTATATATCGTA
1 TCTAAGATTGCATATATCATA
21280609 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
21280630 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
21280645 CCTCGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:21284824 original size:21 final size:22
Alignment explanation
Indices: 21284800--21284840 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21284790 GTTTTGTATG
21284800 TAAATATGT-TTTTTTTCTTCA
1 TAAATATGTCTTTTTTTCTTCA
* *
21284821 TAAATTTTTCTTTTTTTCTT
1 TAAATATGTCTTTTTTTCTT
21284841 ATTCCTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (22 bp):
TAAATATGTCTTTTTTTCTTCA
Found at i:21296716 original size:44 final size:43
Alignment explanation
Indices: 21296666--21297299 Score: 367
Period size: 44 Copynumber: 14.6 Consensus size: 43
21296656 TAACAGATCG
* *
21296666 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-AGGCA
* * * *
21296710 AGTCTTATC-CTCCTGAAGTTACGGTGAAGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAAGA-GGCA
* *
21296755 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGCCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAGGCA
* * * * ** *
21296797 GTAATCCTATCTCGCTGAAGTTGCAGT-GAGCGGATTAA-AACCTT
1 --AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAGGC-A
* * * * * *
21296841 AGATATTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCA-TCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-AGGCA
* * * * * *
21296882 ACTCTTATCTCCCTAAAGTTACAGTGAAGCAGACTAAGTGGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-AGGCA
*
21296926 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAGA-GGCA
*
21296971 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGTCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAG--G-CA
* ** * **
21297016 A-TCCTATCTCTTTGAAGTTGCAGTGGAGCGGATTAA-AATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAGGCA
* * * * *
21297057 CAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCA-TCT
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-AGGCA
* *
21297099 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGGAGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-GAGGCA
*
21297143 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGATTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATT-AAGA-GGCA
* * *
21297188 AATCTTATTTCCCCGAAGTTGCAGTGGAGCAGATTAA-A-GCTGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAGGC--A
* * * ** *
21297231 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAGGC-A
*
21297275 AGATCTTATCTCTCTGAAGTTGCAG
1 AG-TCTTATCTCCCTGAAGTTGCAG
21297300 AGAACAGATC
Statistics
Matches: 465, Mismatches: 80, Indels: 90
0.73 0.13 0.14
Matches are distributed among these distances:
40 38 0.08
41 21 0.05
42 13 0.03
43 59 0.13
44 223 0.48
45 104 0.22
46 7 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAGGCA
Found at i:21296851 original size:43 final size:43
Alignment explanation
Indices: 21296759--21296874 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
21296749 ATGGCAAATC
* *
21296759 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAGTAATC
1 TTATCTCCCTGAAGTTGCAGT-GAGCAGATTAAAACCAGTAATA
* * * *
21296803 CTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACC-TTAGATA
1 TTATCTCCCTGAAGTTGCAGTGAGCAGATTAAAACCAGTA-ATA
* *
21296846 TTATCTCTCTGAAGTTGCAGAGAGCAGAT
1 TTATCTCCCTGAAGTTGCAGTGAGCAGAT
21296875 CGCATCTACT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.03
43 40 0.66
44 19 0.31
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGAGCAGATTAAAACCAGTAATA
Found at i:21296990 original size:89 final size:88
Alignment explanation
Indices: 21296884--21297257 Score: 288
Period size: 89 Copynumber: 4.3 Consensus size: 88
21296874 TCGCATCTAC
* *
21296884 TCTTATCTCCCTAAAGTTACAGTGAAGCAGACT-AAGTGGGCAAGTCTTATCCTCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGT-GGCAAGTCTTAT-CTCCTGAAGTTGC
21296948 AGT-GAGGCAGACTAAAGATGGCAAA
64 AGTGGA-GCAGACTAAAGATGGCAAA
* * * * *
21296973 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGACAA-TCCTATCTCTTTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGT-GGCAAGTCTTATCTC-CTGAAGTTGC
* * ** *
21297037 AGTGGAGCGGATTAAA-ATCACAGA
64 AGTGGAGCAGACTAAAGATGGCAAA
* * ** * *
21297061 TCTTATCTCTCTGAAGTTGCAGAG-AGCAGA-TCGCA-T--CTAGTCTTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACT-AAAGTGGCAAGTCTTATCT-CCTGAAGTTGC
* *
21297121 AGTGGAGCAGACTAAGGA-GGCAAG
64 AGTGGAGCAGACTAAAGATGGCAAA
* * * * * * *
21297145 TCTTATC-CTCCTAAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATTTCCCCGAAGTTG
1 TCTTATCTC-CCTGAAGTTGCAGTGAAGCAGACTAAAG-TGGCAAGTCTTATCT-CCTGAAGTTG
* *
21297209 CAGTGGAGCAGATTAAAGCT-G-ATAA
63 CAGTGGAGCAGACTAAAGATGGCA-AA
*
21297234 TCCTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
21297258 GAGCGGATTA
Statistics
Matches: 224, Mismatches: 44, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
83 3 0.01
84 49 0.22
85 9 0.04
86 3 0.01
87 8 0.04
88 31 0.14
89 110 0.49
90 11 0.05
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAGTGGCAAGTCTTATCTCCTGAAGTTGCAG
TGGAGCAGACTAAAGATGGCAAA
Found at i:21297164 original size:217 final size:216
Alignment explanation
Indices: 21296666--21297380 Score: 1050
Period size: 217 Copynumber: 3.3 Consensus size: 216
21296656 TAACAGATCG
* * *
21296666 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAGGCAAGTCTTATCCTCCTGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAGGCAAGTCTTATCCTCCTGAAGTTG
* * *
21296731 CGGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCG
* *
21296796 AGTAATCCTATCTCGCTGAAGTTGCAGT-GAGCGGATTAAAACCTTAGATATTATCTCTCTGAAG
131 A-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
21296860 TTGCAGAGAGCAGATCGCATCT
195 TTGCAGAGAGCAGATCGCATCT
* * * *
21296882 ACTCTTATCTCCCTAAAGTTACAGTGAAGCAGACTAAGTG-GGCAAGTCTTATCCTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-GAGGCAAGTCTTATCCTCCTGAAGTT
*
21296946 GCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT
65 GCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-
* ** * **
21297011 CGACAATCCTATCTCTTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAA
129 CGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAA
21297076 GTTGCAGAGAGCAGATCGCATCT
194 GTTGCAGAGAGCAGATCGCATCT
* *
21297099 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGGAGGCAAGTCTTATCCTCCTAAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAGGCAAGTCTTATCCTCCTGAAGTTG
* * *
21297164 CAGTGAGGCAGATTGAAGATGGCAAATCTTATTTCCCCGAAGTTGCAGTGGAGCAGATTAAAGCT
66 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-
21297229 GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
130 GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
*
21297294 TTGCAGAGAACAGATCGCATCT
195 TTGCAGAGAGCAGATCGCATCT
* **
21297316 AGTC--ATC-CTCCTGAAGTTGCAGT-GAGACAGATCGAA-GATACAAGTCTTAT-CTCTCTGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-CTAAGGAGGCAAGTCTTATCCTC-CTGAA
21297375 GTTGCA
62 GTTGCA
21297381 ATGGAGTAGA
Statistics
Matches: 450, Mismatches: 40, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
214 7 0.02
215 42 0.09
216 145 0.32
217 256 0.57
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (216 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGAGGCAAGTCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCG
ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCGCATCT
Found at i:21297250 original size:173 final size:173
Alignment explanation
Indices: 21296926--21297255 Score: 395
Period size: 173 Copynumber: 1.9 Consensus size: 173
21296916 TAAGTGGGCA
*
21296926 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTAAAGTT
*** *
21296991 GCAGTGGAGCAGATTAAAGTCGACAATCCTATCTCTTTGAAGTTGCAGTGGAGCGGATTAAAATC
66 GCAGTGGAGCAGATTAAAGTCGACAATCCTATCTCCCCGAAGTTGCAGTGGAGCAGATTAAAATC
* *
21297056 ACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
131 ACAGATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCT
* * *
21297099 AGTCTTAT-CTCCCTGAAGTTGTAGTG-GAGCAGACTAAGGA-GGCAAGTCTTATC-CTCCTAAA
1 AGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTAAAGATGGCAAATCTTATCTC-CCTAAA
* * * *
21297160 GTTGCAGT-GAGGCAGATTGAAGAT-GGCAAATCTTATTTCCCCGAAGTTGCAGTGGAGCAGATT
63 GTTGCAGTGGA-GCAGATTAAAG-TCGAC-AATCCTATCTCCCCGAAGTTGCAGTGGAGCAGATT
* * *
21297223 AAAGCTGATA-ATCCTATCTCCCTGAAGTTGCAG
125 AAA-ATCACAGATCCTATCTCCCTGAAGTTGCAG
21297256 TGGAGCGGAT
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
171 3 0.02
172 40 0.30
173 87 0.65
174 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTAAAGTT
GCAGTGGAGCAGATTAAAGTCGACAATCCTATCTCCCCGAAGTTGCAGTGGAGCAGATTAAAATC
ACAGATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:21299177 original size:21 final size:22
Alignment explanation
Indices: 21299153--21299193 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21299143 GTTTTGTATG
21299153 TAAATATGT-TTTTTTTCTTCA
1 TAAATATGTCTTTTTTTCTTCA
* *
21299174 TAAATTTTTCTTTTTTTCTT
1 TAAATATGTCTTTTTTTCTT
21299194 ATTCCTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (22 bp):
TAAATATGTCTTTTTTTCTTCA
Found at i:21300316 original size:42 final size:43
Alignment explanation
Indices: 21300230--21300322 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
21300220 TATTTTAGGC
* * * * *
21300230 TTTT-TTTTCTAATTTAGATCTAAGGATTCAAATAGGTTGGAA
1 TTTTATTTTCTAATTTAGATATAAGGATTCAAAAAAGATAGAA
* *
21300272 TTTTATTTTCTAATTTA-ATATTAGGATTCAAAAAAGATATAA
1 TTTTATTTTCTAATTTAGATATAAGGATTCAAAAAAGATAGAA
21300314 TTTTATTTT
1 TTTTATTTT
21300323 ATTTTTTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 31 0.72
43 12 0.28
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (43 bp):
TTTTATTTTCTAATTTAGATATAAGGATTCAAAAAAGATAGAA
Found at i:21300392 original size:33 final size:33
Alignment explanation
Indices: 21300326--21300393 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
21300316 TTATTTTATT
* *
21300326 TTTTTCTAATTTAGATCTTAGGATTTAGATAGG
1 TTTTTCTAATTTAGAACTTAGGATTCAGATAGG
*
21300359 TTTTTCTCATTTAGAACTTAGGATTCA-ATTAGG
1 TTTTTCTAATTTAGAACTTAGGATTCAGA-TAGG
21300392 TT
1 TT
21300394 AAAATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (33 bp):
TTTTTCTAATTTAGAACTTAGGATTCAGATAGG
Found at i:21300407 original size:42 final size:43
Alignment explanation
Indices: 21300360--21300448 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
21300350 TTAGATAGGT
* ** * *
21300360 TTTTCTCATTTAGAACTTAGGATTCAATTAGGTTA-AAATTTA
1 TTTTCTAATTTAGAACTTAACATTCAAATAGGCTAGAAATTTA
*
21300402 TTTTCTAATTTAGATCTTAACATTCAAATAGGCTAGAAATTTA
1 TTTTCTAATTTAGAACTTAACATTCAAATAGGCTAGAAATTTA
21300445 TTTT
1 TTTT
21300449 ATTTTAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 29 0.73
43 11 0.28
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (43 bp):
TTTTCTAATTTAGAACTTAACATTCAAATAGGCTAGAAATTTA
Found at i:21306066 original size:18 final size:17
Alignment explanation
Indices: 21306043--21306086 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
21306033 AATTTATAAA
21306043 AAAATATTAA-AAATTATG
1 AAAATATTAATAAA--ATG
21306061 AAAATATATAATAAAATG
1 AAAATAT-TAATAAAATG
21306079 AAAATATT
1 AAAATATT
21306087 TAGATGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 17 0.71
19 3 0.12
20 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AAAATATTAATAAAATG
Found at i:21310388 original size:19 final size:18
Alignment explanation
Indices: 21310364--21310401 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
21310354 TGTACAATAT
21310364 AATTAAATAATATAAATTA
1 AATTAAATAAT-TAAATTA
21310383 AATTAAATAATTAAATTA
1 AATTAAATAATTAAATTA
21310401 A
1 A
21310402 CTGTTTACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTAAATAATTAAATTA
Found at i:21310399 original size:13 final size:14
Alignment explanation
Indices: 21310359--21310401 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
21310349 CAAAATGTAC
21310359 AATATAATTAAA-T
1 AATATAATTAAATT
21310372 AATATAAATTAAATT
1 AATAT-AATTAAATT
21310387 AA-ATAATTAAATT
1 AATATAATTAAATT
21310400 AA
1 AA
21310402 CTGTTTACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 16 0.57
14 9 0.32
15 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:21312706 original size:21 final size:20
Alignment explanation
Indices: 21312680--21312718 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21312670 TTATTTTTAT
21312680 TTATATATAAGAAATATAAAA
1 TTATAT-TAAGAAATATAAAA
*
21312701 TTATATTTAGAAATATAA
1 TTATATTAAGAAATATAA
21312719 GCAACTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATATTAAGAAATATAAAA
Found at i:21313234 original size:10 final size:10
Alignment explanation
Indices: 21313219--21313259 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
21313209 ATGAAATTTT
21313219 TAAATAATAA
1 TAAATAATAA
21313229 TAAATAATAA
1 TAAATAATAA
21313239 -ATAATAAATAA
1 TA-AAT-AATAA
21313250 TAAATAATAA
1 TAAATAATAA
21313260 ATAATTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 1 0.04
10 18 0.64
11 8 0.29
12 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAATAATAA
Found at i:21313282 original size:7 final size:7
Alignment explanation
Indices: 21313224--21313264 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
21313214 ATTTTTAAAT
21313224 AATAATA
1 AATAATA
21313231 AATAATA
1 AATAATA
21313238 AATAATA
1 AATAATA
21313245 AATAATA
1 AATAATA
21313252 AATAATA
1 AATAATA
21313259 AATAAT
1 AATAAT
21313265 TATCATTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:21314672 original size:9 final size:9
Alignment explanation
Indices: 21314660--21314782 Score: 76
Period size: 9 Copynumber: 13.6 Consensus size: 9
21314650 AAAAAAAGGT
21314660 TAAAAATTA
1 TAAAAATTA
21314669 T-AAAATTGA
1 TAAAAATT-A
*
21314678 TAGAAAATCA
1 TA-AAAATTA
21314688 TAAAAATTA
1 TAAAAATTA
* *
21314697 CAAATA-TA
1 TAAAAATTA
* *
21314705 TATAATTTA
1 TAAAAATTA
21314714 TTAAAAA-T-
1 -TAAAAATTA
21314722 TAAAAA-TA
1 TAAAAATTA
** *
21314730 TAGAAACGTG
1 TA-AAAATTA
21314740 TAAAAATTA
1 TAAAAATTA
*
21314749 TAAAAAGTA
1 TAAAAATTA
21314758 TAGAAAATTA
1 TA-AAAATTA
21314768 TAAAAATATA
1 TAAAAAT-TA
21314778 TAAAA
1 TAAAA
21314783 GTTTAAATTC
Statistics
Matches: 87, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.08
8 12 0.14
9 38 0.44
10 25 0.29
11 5 0.06
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:21314760 original size:28 final size:27
Alignment explanation
Indices: 21314660--21314782 Score: 92
Period size: 28 Copynumber: 4.5 Consensus size: 27
21314650 AAAAAAAGGT
*
21314660 TAAAAATTATAAAATTGATAGAAAA-TCA
1 TAAAAATTATAAAAAT-ATAGAAAAGT-A
* * * **
21314688 TAAAAATTACAAATATATA-TAATTTA
1 TAAAAATTATAAAAATATAGAAAAGTA
* *
21314714 TTAAAAA-T-TAAAAATATAGAAACGTG
1 -TAAAAATTATAAAAATATAGAAAAGTA
*
21314740 TAAAAATTATAAAAAGTATAGAAAATTA
1 TAAAAATTATAAAAA-TATAGAAAAGTA
21314768 TAAAAATATATAAAA
1 TAAAAAT-TATAAAA
21314783 GTTTAAATTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
25 14 0.19
26 8 0.11
27 16 0.22
28 29 0.39
29 7 0.09
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (27 bp):
TAAAAATTATAAAAATATAGAAAAGTA
Found at i:21314764 original size:10 final size:9
Alignment explanation
Indices: 21314722--21314789 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
21314712 TATTAAAAAT
21314722 TAAAAA-TA
1 TAAAAAGTA
* *
21314730 TAGAAACGTG
1 TA-AAAAGTA
*
21314740 TAAAAATTA
1 TAAAAAGTA
21314749 TAAAAAGTA
1 TAAAAAGTA
*
21314758 TAGAAAATTA
1 TA-AAAAGTA
21314768 TAAAAA-TA
1 TAAAAAGTA
*
21314776 TATAAAAGTT
1 TA-AAAAGTA
21314786 TAAA
1 TAAA
21314790 TTCTTTTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
8 6 0.13
9 27 0.57
10 14 0.30
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.28
Consensus pattern (9 bp):
TAAAAAGTA
Found at i:21314789 original size:18 final size:19
Alignment explanation
Indices: 21314742--21314782 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21314732 GAAACGTGTA
21314742 AAAATTATAAAAAGTATAG
1 AAAATTATAAAAAGTATAG
*
21314761 AAAATTATAAAAA-TATAT
1 AAAATTATAAAAAGTATAG
21314779 AAAA
1 AAAA
21314783 GTTTAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAAATTATAAAAAGTATAG
Found at i:21314821 original size:22 final size:23
Alignment explanation
Indices: 21314784--21314829 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
21314774 TATATAAAAG
21314784 TTTAAATTCTTTTTAATTTTATA
1 TTTAAATTCTTTTTAATTTTATA
21314807 TTTAAATT-TTTTTAATTTTATA
1 TTTAAATTCTTTTTAATTTTATA
21314829 T
1 T
21314830 AACCTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTAAATTCTTTTTAATTTTATA
Found at i:21315742 original size:29 final size:29
Alignment explanation
Indices: 21315709--21315776 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
21315699 TTAAGTGTTC
* *
21315709 TGAAAAAATAATTTTGACGAGATGGGTTT
1 TGAAAAAATAATTTTGACAAGATGAGTTT
21315738 TGAAAAAATAATTTTGACAAGATGAGTTT
1 TGAAAAAATAATTTTGACAAGATGAGTTT
21315767 TGAAAAAATA
1 TGAAAAAATA
21315777 TCCCAGGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.46, C:0.03, G:0.19, T:0.32
Consensus pattern (29 bp):
TGAAAAAATAATTTTGACAAGATGAGTTT
Found at i:21319315 original size:18 final size:17
Alignment explanation
Indices: 21319277--21319317 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21319267 ATAAAAAAAT
*
21319277 AAAAATAGAATGTAGAT
1 AAAAATAGAATGTAGAA
*
21319294 AAAAATAGAATTTAGGAA
1 AAAAATAGAATGTA-GAA
21319312 AAAAAT
1 AAAAAT
21319318 TATTAGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (17 bp):
AAAAATAGAATGTAGAA
Found at i:21319342 original size:11 final size:11
Alignment explanation
Indices: 21319328--21319369 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
21319318 TATTAGAGAA
21319328 TTTGAGAGATT
1 TTTGAGAGATT
21319339 TTTGAGAG-TT
1 TTTGAGAGATT
* *
21319349 GATTGAGAAATT
1 -TTTGAGAGATT
21319361 TTTGAGAGA
1 TTTGAGAGA
21319370 ATTGTGAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 2 0.08
11 21 0.84
12 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (11 bp):
TTTGAGAGATT
Found at i:21319377 original size:22 final size:22
Alignment explanation
Indices: 21319314--21319381 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
21319304 TTTAGGAAAA
*
21319314 AAATTATT-AGAGAATT-TGAG
1 AAATTTTTGAGAGAATTGTGAG
*
21319334 AGATTTTTGAGAG--TTGATTGAG
1 AAATTTTTGAGAGAATTG--TGAG
21319356 AAATTTTTGAGAGAATTGTGAG
1 AAATTTTTGAGAGAATTGTGAG
21319378 AAAT
1 AAAT
21319382 GTGAGTGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 6 0.15
21 4 0.10
22 24 0.62
24 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.37
Consensus pattern (22 bp):
AAATTTTTGAGAGAATTGTGAG
Found at i:21319889 original size:27 final size:28
Alignment explanation
Indices: 21319848--21319900 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
21319838 AGTATAATGA
21319848 TAAAATTATACTTT-ACCCCTTAAAGTT
1 TAAAATTATACTTTAACCCCTTAAAGTT
*
21319875 TAAAATT-TACTTTTAACCCTTTAAAG
1 TAAAATTATAC-TTTAACCCCTTAAAG
21319901 CAGTTTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 3 0.13
27 10 0.43
28 10 0.43
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (28 bp):
TAAAATTATACTTTAACCCCTTAAAGTT
Found at i:21320268 original size:23 final size:21
Alignment explanation
Indices: 21320236--21320277 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
21320226 ATATGTTTAA
21320236 TATTAATATAATTATTTAAAATT
1 TATTAATAT-ATT-TTTAAAATT
*
21320259 TATTATTATATTTTTAAAA
1 TATTAATATATTTTTAAAA
21320278 ATATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTAATATATTTTTAAAATT
Found at i:21320370 original size:24 final size:25
Alignment explanation
Indices: 21320343--21320424 Score: 71
Period size: 30 Copynumber: 3.2 Consensus size: 25
21320333 ACCCTTAAAA
21320343 ATAA-ACATATATATAATTAATTTTAT
1 ATAATACATATATATAATTAA-TTT-T
21320369 AATAAATTACATATATATAATTAATTTT
1 -AT-AA-TACATATATATAATTAATTTT
* *
21320397 ATAATAAAT-TAT-TAACTTATTTTT
1 ATAATACATATATATAA-TTAATTTT
21320421 ATAA
1 ATAA
21320425 ACAAATTCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.06
24 14 0.29
25 4 0.08
26 2 0.04
27 4 0.08
28 3 0.06
29 3 0.06
30 16 0.33
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
ATAATACATATATATAATTAATTTT
Found at i:21320376 original size:16 final size:16
Alignment explanation
Indices: 21320357--21320407 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
21320347 ACATATATAT
21320357 AATTAATTTTATAATA
1 AATTAATTTTATAATA
*
21320373 AATTACA-TATAT-AT-
1 AATTA-ATTTTATAATA
21320387 AATTAATTTTATAATA
1 AATTAATTTTATAATA
21320403 AATTA
1 AATTA
21320408 TTAACTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 9 0.31
15 4 0.14
16 14 0.48
17 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAATTTTATAATA
Found at i:21320382 original size:30 final size:30
Alignment explanation
Indices: 21320347--21320407 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
21320337 TTAAAAATAA
21320347 ACATATATATAATTAATTTTATAATAAATT
1 ACATATATATAATTAATTTTATAATAAATT
21320377 ACATATATATAATTAATTTTATAATAAATT
1 ACATATATATAATTAATTTTATAATAAATT
21320407 A
1 A
21320408 TTAACTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
ACATATATATAATTAATTTTATAATAAATT
Found at i:21320399 original size:14 final size:14
Alignment explanation
Indices: 21320352--21320399 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
21320342 AATAAACATA
21320352 TATATAATTAATTT
1 TATATAATTAATTT
*
21320366 TATAATAAATTACA-TA
1 TAT-AT-AATTA-ATTT
21320382 TATATAATTAATTT
1 TATATAATTAATTT
21320396 TATA
1 TATA
21320400 ATAAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.04
14 13 0.46
15 4 0.14
16 9 0.32
17 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATAATTAATTT
Found at i:21323092 original size:5 final size:5
Alignment explanation
Indices: 21323082--21323109 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
21323072 CTGAATATAC
21323082 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
21323110 AGCTAGCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:21328212 original size:20 final size:18
Alignment explanation
Indices: 21328187--21328229 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
21328177 TAATACATCA
21328187 AATAATTAATACATATTACC
1 AATAATTAATACA-ATT-CC
*
21328207 AATAA-TAATTCAATTCC
1 AATAATTAATACAATTCC
21328224 AATAAT
1 AATAAT
21328230 AAAACACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.33
18 3 0.14
19 6 0.29
20 5 0.24
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAATTAATACAATTCC
Found at i:21334940 original size:3 final size:3
Alignment explanation
Indices: 21334932--21334968 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
21334922 CCTCTGAAAT
21334932 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
21334969 CTTTCCGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:21338419 original size:25 final size:25
Alignment explanation
Indices: 21338373--21338420 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
21338363 AATTTAGCCA
* * * *
21338373 TTTTTATTTTATTTTTATATTTTTC
1 TTTTAATTTAATTTTCACATTTTTC
21338398 TTTTAATTTAATTTTCACATTTT
1 TTTTAATTTAATTTTCACATTTT
21338421 AATTTTTTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTAATTTAATTTTCACATTTTTC
Found at i:21341500 original size:94 final size:94
Alignment explanation
Indices: 21341278--21341501 Score: 234
Period size: 94 Copynumber: 2.4 Consensus size: 94
21341268 GTTTTTAACC
* * * *
21341278 CACACGGCCTGGACACACGGGTGTGTCCTAGGCCATGTGCACAAAGGAGTGTTCTACAGTGAGTC
1 CACACGGCCTGGACACACGGGCGTGTCCTAGGTCGTATGCACAAAGGAGTGTTCTACAGTGAGTC
* **
21341343 ACATGGCCTGGCGACACGACAGTGTAGCA
66 ACACGGCCTGAAGACACGACAGTGTAGCA
* * * * * * *
21341372 CACATGGCCTGGACGCACGGGCTTGTCATAGGTCGTATGCACAAGGGAGTGTTCTGCAGTGAGTT
1 CACACGGCCTGGACACACGGGCGTGTCCTAGGTCGTATGCACAAAGGAGTGTTCTACAGTGAGTC
** * **
21341437 ACACGGTGTGAAGACATGACCA-TGTAGGT
66 ACACGGCCTGAAGACACGA-CAGTGTAGCA
* * *
21341466 CACACGGCCTAGACACACAGGCGTGTCCTTGGTCGT
1 CACACGGCCTGGACACACGGGCGTGTCCTAGGTCGT
21341502 GTGAGTCTTG
Statistics
Matches: 103, Mismatches: 26, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
94 101 0.98
95 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.31, T:0.21
Consensus pattern (94 bp):
CACACGGCCTGGACACACGGGCGTGTCCTAGGTCGTATGCACAAAGGAGTGTTCTACAGTGAGTC
ACACGGCCTGAAGACACGACAGTGTAGCA
Found at i:21344954 original size:25 final size:27
Alignment explanation
Indices: 21344925--21344988 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 27
21344915 TATATTTGTT
21344925 TTTTTATACATATAA-TTAATTT-TATA
1 TTTTTATA-ATATAAGTTAATTTATATA
21344951 TTTTTATAA-A-AAGTTAATTTATATA
1 TTTTTATAATATAAGTTAATTTATATA
21344976 TTTTTATATATAT
1 TTTTTATA-ATAT
21344989 GTATGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 2 0.06
24 8 0.24
25 13 0.39
26 9 0.27
27 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTTATAATATAAGTTAATTTATATA
Found at i:21345026 original size:25 final size:24
Alignment explanation
Indices: 21344971--21345019 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
21344961 AAGTTAATTT
21344971 ATATATTTTTATATATATGTATGA
1 ATATATTTTTATATATATGTATGA
*
21344995 ATAATATTTTTTTACTATATGTATG
1 AT-ATATTTTTATA-TATATGTATG
21345020 TGTATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 10 0.45
26 10 0.45
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (24 bp):
ATATATTTTTATATATATGTATGA
Found at i:21357564 original size:44 final size:44
Alignment explanation
Indices: 21357451--21357918 Score: 220
Period size: 44 Copynumber: 10.7 Consensus size: 44
21357441 AGTAAGTAGG
* * * **
21357451 TCTTATCCCCCTGAAGTTGTAGTGG-GACAGATCGAAGATGGCA-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAA-ACCG-ATAA
*
21357496 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAACCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCGATAA
* * * ***
21357540 TCTGATCTCCTTGAAGTTGTAGTGGAGCAGATT-AAATTAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCGATA-A
* * ** * * *
21357584 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAA-C-A-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCGATAA
* * *
21357625 TCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCGATAA
* * * * *** *
21357669 TCCTATCTCCCTGAAGTTGTAGTGAAGCGGATT-AAAGTAATGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCGAT-AA
* * *
21357713 TCTTATCTCTCTGAAGTTGCAGT--AG-AG--TG-AATCGCATCAGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCG-AT-A-A
* * * * **
21357754 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGC-A-GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA--AACCGATAA
* * *
21357798 TCTTATCCCCCTGAAGTTGCAGT-GAGACAGATCGAAGACC-ACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAA-ACCGA-TAA
* * *
21357843 TCTTATCTCCATGAAGTTACAGTGGAGCAGATT-AAGA-CGATGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ACCGAT-AA
* * *
21357887 TCTCATC-CCTCTGAAGTTGTAGTAGAGCAGAT
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGAT
21357919 CACATCAGAC
Statistics
Matches: 319, Mismatches: 77, Indels: 55
0.71 0.17 0.12
Matches are distributed among these distances:
39 3 0.01
40 2 0.01
41 51 0.16
42 5 0.02
43 24 0.08
44 167 0.52
45 57 0.18
46 6 0.02
47 1 0.00
49 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCGATAA
Found at i:21357685 original size:129 final size:129
Alignment explanation
Indices: 21357496--21357784 Score: 463
Period size: 129 Copynumber: 2.2 Consensus size: 129
21357486 AGATGGCAAA
*
21357496 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAACCGATAATCTGATCTCCTTGAAGTTGTA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAACCGATAATCTGATCTCCCTGAAGTTGTA
* * *
21357561 GTGGAGCAGATTAAATTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAACAAG
66 GTGAAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGAATCGCAACAAG
* *
21357625 TCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCCGATAATCCT-ATCTCCCTGAAGTTGT
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAACCGATAAT-CTGATCTCCCTGAAGTTGT
* * * *
21357689 AGTGAAGCGGATTAAAGTAATGGATCTTATCTCTCTGAAGTTGCAGTAGAGTGAATCGCATCAGG
65 AGTGAAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGAATCGCAACAAG
*
21357754 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
21357785 CTGAGTAAGC
Statistics
Matches: 147, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
129 145 0.99
130 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAACCGATAATCTGATCTCCCTGAAGTTGTA
GTGAAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGAATCGCAACAAG
Found at i:21357810 original size:129 final size:129
Alignment explanation
Indices: 21357496--21357822 Score: 428
Period size: 129 Copynumber: 2.5 Consensus size: 129
21357486 AGATGGCAAA
* * *
21357496 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGA-AACCGATAATCTGATCTCCTTGAAGTTGT
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-TGAGAAGCGATAATCTTATCTCCCTGAAGTTGT
* * *
21357560 AGTGGAGCAGATTAAATTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAACAAG
65 AGTGAAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGAATCGCAACAAG
* * *
21357625 TCTTATCTCCCTGAGGTTGCAGTGGAGTAGAT-TGAAGCCGATAATCCTATCTCCCTGAAGTTGT
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATGAGAAG-CGATAATCTTATCTCCCTGAAGTTGT
* * * *
21357689 AGTGAAGCGGATTAAAGTAATGGATCTTATCTCTCTGAAGTTGCAGTAGAGTGAATCGCATCAGG
65 AGTGAAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGAATCGCAACAAG
* ** *
21357754 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGC-A-GGTCTTATCCCCCTGAAGTTG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-TGAG-AAGCGATAATCTTATCTCCCTGAAGTTG
*
21357817 CAGTGA
64 TAGTGA
21357823 GACAGATCGA
Statistics
Matches: 172, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
128 3 0.02
129 162 0.94
130 2 0.01
131 2 0.01
132 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATGAGAAGCGATAATCTTATCTCCCTGAAGTTGTA
GTGAAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGAATCGCAACAAG
Found at i:21358076 original size:44 final size:45
Alignment explanation
Indices: 21357971--21358122 Score: 130
Period size: 44 Copynumber: 3.4 Consensus size: 45
21357961 GCTACAATCC
* * *
21357971 CCCTGAAGTTACAGTGG-GACAGATTGAAGATGGCAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAG-CAGATTGAAGACGACAAATCTTATCT
* * * * *
21358016 CCCTGAGGTTGTAGTGGAGCAGATTGAAGCCGATAATTC-TATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGACGACAAATCTTATCT
** * * *
21358060 CCCTGAAGTTGCAGTGGAGCAGACAGAAGA-AACCAATCCTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGACGACAAATCTTATCT
* * *
21358104 CCCTAAAGTTACAATGGAG
1 CCCTGAAGTTGCAGTGGAG
21358123 TGGATTAAAA
Statistics
Matches: 85, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
43 4 0.05
44 51 0.60
45 29 0.34
46 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (45 bp):
CCCTGAAGTTGCAGTGGAGCAGATTGAAGACGACAAATCTTATCT
Found at i:21359709 original size:25 final size:27
Alignment explanation
Indices: 21359680--21359743 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 27
21359670 TATATTTGTT
21359680 TTTTTATACATATAA-TTAATTT-TATA
1 TTTTTATA-ATATAAGTTAATTTATATA
21359706 TTTTTATAA-A-AAGTTAATTTATATA
1 TTTTTATAATATAAGTTAATTTATATA
21359731 TTTTTATATATAT
1 TTTTTATA-ATAT
21359744 GTATGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 2 0.06
24 8 0.24
25 13 0.39
26 9 0.27
27 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTTATAATATAAGTTAATTTATATA
Found at i:21359777 original size:30 final size:27
Alignment explanation
Indices: 21359726--21359785 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 27
21359716 AAGTTAATTT
21359726 ATATATTTTTATATATATGTATGA-ATA
1 ATATATTTTTATATATATGTAT-ATATA
*
21359753 ATATTTTTTTACTATACGTATGTATATATA
1 ATATATTTTTA-TATA--TATGTATATATA
21359783 ATA
1 ATA
21359786 ATACATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 10 0.36
28 4 0.14
29 1 0.04
30 13 0.46
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (27 bp):
ATATATTTTTATATATATGTATATATA
Found at i:21361291 original size:29 final size:29
Alignment explanation
Indices: 21361247--21361425 Score: 211
Period size: 29 Copynumber: 6.2 Consensus size: 29
21361237 GAGGTCTCGA
21361247 GCCACTGGTTTTCCAAATTTTACAATTTT
1 GCCACTGGTTTTCCAAATTTTACAATTTT
* * * *
21361276 GTCACTGATTTTCCAAATTTTATAGTTTT
1 GCCACTGGTTTTCCAAATTTTACAATTTT
* * *
21361305 GCCACT-GTTATTCCAGATTTT-CAGTTCT
1 GCCACTGGTT-TTCCAAATTTTACAATTTT
*
21361333 GCCACTGGTTTTCCAAATTTTACAATTCT
1 GCCACTGGTTTTCCAAATTTTACAATTTT
* *
21361362 ACCACT-GTTATTCCAGATTTTACAATTTT
1 GCCACTGGTT-TTCCAAATTTTACAATTTT
* *
21361391 GCCACTGGTTTTCCAGATTTTACAGTTTT
1 GCCACTGGTTTTCCAAATTTTACAATTTT
21361420 GCCACT
1 GCCACT
21361426 CTTCTTCAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
28 26 0.20
29 100 0.78
30 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (29 bp):
GCCACTGGTTTTCCAAATTTTACAATTTT
Found at i:21361392 original size:86 final size:87
Alignment explanation
Indices: 21361247--21361425 Score: 256
Period size: 86 Copynumber: 2.1 Consensus size: 87
21361237 GAGGTCTCGA
* ** * *
21361247 GCCACTGGTTTTCCAAATTTTACAATTTTGTCACTGATTTTCCAAATTTTATAGTTTTGCCACT-
1 GCCACTGGTTTTCCAAATTTTACAATTCTACCACTGATTTTCCAAATTTTACAATTTTGCCACTG
21361311 GTTATTCCAGATTTT-CAGTTCT
66 GTT-TTCCAGATTTTACAGTTCT
*
21361333 GCCACTGGTTTTCCAAATTTTACAATTCTACCACTG-TTATTCCAGATTTTACAATTTTGCCACT
1 GCCACTGGTTTTCCAAATTTTACAATTCTACCACTGATT-TTCCAAATTTTACAATTTTGCCACT
*
21361397 GGTTTTCCAGATTTTACAGTTTT
65 GGTTTTCCAGATTTTACAGTTCT
21361420 GCCACT
1 GCCACT
21361426 CTTCTTCAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
85 2 0.02
86 66 0.80
87 15 0.18
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (87 bp):
GCCACTGGTTTTCCAAATTTTACAATTCTACCACTGATTTTCCAAATTTTACAATTTTGCCACTG
GTTTTCCAGATTTTACAGTTCT
Found at i:21364717 original size:12 final size:12
Alignment explanation
Indices: 21364700--21364725 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21364690 TTCATGAATC
21364700 AAATTACATATT
1 AAATTACATATT
21364712 AAATTACATATT
1 AAATTACATATT
21364724 AA
1 AA
21364726 CTTTAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATTACATATT
Found at i:21364914 original size:19 final size:19
Alignment explanation
Indices: 21364892--21364938 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
21364882 TAAAATTCAT
21364892 ATTTATTTATTGGA-TATA
1 ATTTATTTATTGGAGTATA
*
21364910 GATTTATGTA-TGGAGTATA
1 -ATTTATTTATTGGAGTATA
*
21364929 ATTTTTTTAT
1 ATTTATTTAT
21364939 AAAACATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (19 bp):
ATTTATTTATTGGAGTATA
Found at i:21365190 original size:18 final size:20
Alignment explanation
Indices: 21365153--21365190 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21365143 AAAGAGCTCA
*
21365153 TTTTATAAATAATTTTATTT
1 TTTTATAAATAATTTAATTT
21365173 TTTTATAAA-AA-TTAATTT
1 TTTTATAAATAATTTAATTT
21365191 GAATAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATAAATAATTTAATTT
Found at i:21365372 original size:14 final size:14
Alignment explanation
Indices: 21365334--21365362 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21365324 TAATAACATA
21365334 ATAAATTA-TTAAT
1 ATAAATTATTTAAT
21365347 ATAAATTATTTAAT
1 ATAAATTATTTAAT
21365361 AT
1 AT
21365363 TATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAATTATTTAAT
Found at i:21366374 original size:20 final size:20
Alignment explanation
Indices: 21366349--21366398 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
21366339 TGGCTTAAAA
21366349 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
21366369 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
21366386 GTGGTAGTGGATT
1 TTGGTAGTGGATT
21366399 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:21371013 original size:20 final size:20
Alignment explanation
Indices: 21370988--21371037 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
21370978 TGGCTTAAAA
21370988 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
21371008 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
21371025 GTGGTAGTGGATT
1 TTGGTAGTGGATT
21371038 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:21373588 original size:23 final size:22
Alignment explanation
Indices: 21373552--21373614 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
21373542 AAATTATATA
21373552 CAAT-TATATGAAATTAAAAAATT
1 CAATATATAT-AAATTAAAAAA-T
21373575 CAATATATATAAATTTAAAAAAT
1 CAATATATATAAA-TTAAAAAAT
* * *
21373598 AAAAATATTTAAATTAA
1 CAATATATATAAATTAA
21373615 GAATGGATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 4 0.11
23 18 0.51
24 13 0.37
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (22 bp):
CAATATATATAAATTAAAAAAT
Found at i:21373592 original size:24 final size:23
Alignment explanation
Indices: 21373552--21373597 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
21373542 AAATTATATA
21373552 CAATTATATGAAATTAAAAAATT
1 CAATTATATGAAATTAAAAAATT
21373575 CAATATATAT-AAATTTAAAAAAT
1 CAAT-TATATGAAA-TTAAAAAAT
21373598 AAAAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (23 bp):
CAATTATATGAAATTAAAAAATT
Found at i:21373887 original size:21 final size:21
Alignment explanation
Indices: 21373863--21373904 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21373853 ATTTTTTCTA
21373863 AAGTTAAAA-GTCAAAACTATT
1 AAGTTAAAAGGT-AAAACTATT
21373884 AAGTTAAAAGGTAAAACTATT
1 AAGTTAAAAGGTAAAACTATT
21373905 TCGTTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:21378468 original size:23 final size:22
Alignment explanation
Indices: 21378417--21378468 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
21378407 CCTCGTCTTT
*
21378417 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
21378439 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
21378462 TTCTTTT
1 TTCTTTT
21378469 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:21389545 original size:20 final size:22
Alignment explanation
Indices: 21389510--21389553 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
21389500 AATTATATCA
21389510 TTGATATTTATATTTTTTAAAT
1 TTGATATTTATATTTTTTAAAT
21389532 TTGATA-TT-TATTTTTTAAAT
1 TTGATATTTATATTTTTTAAAT
21389552 TT
1 TT
21389554 TAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTGATATTTATATTTTTTAAAT
Found at i:21391091 original size:73 final size:73
Alignment explanation
Indices: 21391009--21391194 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
21390999 TATTATTATT
*
21391009 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
21391074 ATTTTAAG
66 ATTTTAAG
21391082 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
21391147 ATTTTAAG
66 ATTTTAAG
21391155 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
21391195 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:21395553 original size:73 final size:73
Alignment explanation
Indices: 21395434--21395619 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
21395424 TATTATTATT
*
21395434 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
21395499 ATTTTAAG
66 ATTTTAAG
21395507 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
21395572 ATTTTAAG
66 ATTTTAAG
21395580 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
21395620 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:21406353 original size:22 final size:22
Alignment explanation
Indices: 21406308--21406353 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
21406298 ACTGATCGAC
* **
21406308 ATGTTGCAACACGGGGAGTTGA
1 ATGTTGCAACACAGGGAGCAGA
*
21406330 ATGTTGCAACATAGGGAGCAGA
1 ATGTTGCAACACAGGGAGCAGA
21406352 AT
1 AT
21406354 AGCATAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.22
Consensus pattern (22 bp):
ATGTTGCAACACAGGGAGCAGA
Found at i:21408672 original size:31 final size:31
Alignment explanation
Indices: 21408637--21408698 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
21408627 TATATGGAGG
*
21408637 AGACAAACCTCTCTTCTACT-ATATTAACAAT
1 AGACAAACCTCTCTTCCACTGA-ATTAACAAT
21408668 AGACAAACCTCTCTTCCACTGAATTAACAAT
1 AGACAAACCTCTCTTCCACTGAATTAACAAT
21408699 CCCACTGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (31 bp):
AGACAAACCTCTCTTCCACTGAATTAACAAT
Found at i:21412885 original size:20 final size:20
Alignment explanation
Indices: 21412860--21412900 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21412850 AAGTTTGTTT
21412860 TATTTTTTCTTTCTCTGATA
1 TATTTTTTCTTTCTCTGATA
21412880 TATTTTTTCTTTCTCTGATA
1 TATTTTTTCTTTCTCTGATA
21412900 T
1 T
21412901 CCCAGTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTTTTTCTTTCTCTGATA
Found at i:21414014 original size:13 final size:13
Alignment explanation
Indices: 21413998--21414047 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
21413988 ATAGCCATTA
*
21413998 TTTCTTACATTTG
1 TTTCTTACATTTC
21414011 TTTCTGTA-ATTTC
1 TTTCT-TACATTTC
21414024 TTTCTTACA-TTC
1 TTTCTTACATTTC
21414036 TTTCTTACATTT
1 TTTCTTACATTT
21414048 GTATTTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 14 0.42
13 17 0.52
14 2 0.06
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.62
Consensus pattern (13 bp):
TTTCTTACATTTC
Found at i:21414038 original size:12 final size:12
Alignment explanation
Indices: 21413993--21414046 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
21413983 TATGCATAGC
*
21413993 CATTATTTCTTA
1 CATTCTTTCTTA
*
21414005 CATTTGTTTCTGTA
1 CA-TTCTTTCT-TA
21414019 -ATTTCTTTCTTA
1 CA-TTCTTTCTTA
21414031 CATTCTTTCTTA
1 CATTCTTTCTTA
21414043 CATT
1 CATT
21414047 TGTATTTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 18 0.49
13 17 0.46
14 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.59
Consensus pattern (12 bp):
CATTCTTTCTTA
Found at i:21417032 original size:18 final size:18
Alignment explanation
Indices: 21417009--21417054 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
21416999 GGTTGCAAAA
21417009 AGGACGATGACGATGATG
1 AGGACGATGACGATGATG
*
21417027 AGGACGATGAGGATGATG
1 AGGACGATGACGATGATG
*
21417045 AGGATGATGA
1 AGGACGATGA
21417055 TGTTTCTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.07, G:0.41, T:0.17
Consensus pattern (18 bp):
AGGACGATGACGATGATG
Found at i:21417035 original size:9 final size:9
Alignment explanation
Indices: 21417009--21417054 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
21416999 GGTTGCAAAA
*
21417009 AGGACGATG
1 AGGATGATG
*
21417018 ACGATGATG
1 AGGATGATG
*
21417027 AGGACGATG
1 AGGATGATG
21417036 AGGATGATG
1 AGGATGATG
21417045 AGGATGATG
1 AGGATGATG
21417054 A
1 A
21417055 TGTTTCTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.41, T:0.17
Consensus pattern (9 bp):
AGGATGATG
Found at i:21417255 original size:11 final size:11
Alignment explanation
Indices: 21417229--21417263 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
21417219 TGTGTACTTG
21417229 TGGATGTGCTTA
1 TGGATGTGC-TA
21417241 TGGATGTGCTA
1 TGGATGTGCTA
21417252 TGGATGTGCTA
1 TGGATGTGCTA
21417263 T
1 T
21417264 CTATATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.17, C:0.09, G:0.34, T:0.40
Consensus pattern (11 bp):
TGGATGTGCTA
Found at i:21418119 original size:16 final size:18
Alignment explanation
Indices: 21418093--21418126 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21418083 TTGGAATTGG
21418093 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
21418110 ATTG-GAAAATTAATTTA
1 ATTGAGAAAATTAATTTA
21418127 GTTAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:21426092 original size:22 final size:21
Alignment explanation
Indices: 21426067--21426110 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
21426057 TGATAAACTT
21426067 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
21426089 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
21426110 T
1 T
21426111 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:21431614 original size:18 final size:17
Alignment explanation
Indices: 21431587--21431620 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
21431577 TAACAGACTT
21431587 ATTCACCAAGCCTTTAG
1 ATTCACCAAGCCTTTAG
21431604 ATTCAACCAAGCCTTTA
1 ATTC-ACCAAGCCTTTA
21431621 AATTTGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.29
Consensus pattern (17 bp):
ATTCACCAAGCCTTTAG
Found at i:21436893 original size:19 final size:19
Alignment explanation
Indices: 21436851--21436896 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
21436841 CATAATTAAT
21436851 AATTCAATTTTGATATAAA
1 AATTCAATTTTGATATAAA
*
21436870 TATTCAATTTTGAT-TAAA
1 AATTCAATTTTGATATAAA
21436888 CAATTCAAT
1 -AATTCAAT
21436897 AATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (19 bp):
AATTCAATTTTGATATAAA
Found at i:21437043 original size:20 final size:19
Alignment explanation
Indices: 21437015--21437054 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21437005 TTTATTTGAG
*
21437015 AGTAAAGGGTGAGAAATAAA
1 AGTAAAGGG-GAAAAATAAA
*
21437035 AGTATAGGGGAAAAATAAA
1 AGTAAAGGGGAAAAATAAA
21437054 A
1 A
21437055 AGTTTTGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.28, T:0.15
Consensus pattern (19 bp):
AGTAAAGGGGAAAAATAAA
Found at i:21437207 original size:30 final size:31
Alignment explanation
Indices: 21437168--21437227 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21437158 GGAGGTGGGA
*
21437168 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
21437199 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
21437228 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:21441736 original size:44 final size:44
Alignment explanation
Indices: 21441686--21441775 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
21441676 GTTAAAATAA
* * * * * *
21441686 AATAGAAGTTGTGATAATTATACATTTAAAAATAATTATAATTT
1 AATAGAAATAGTGAAAATTACACATTTAAAAATAAATAGAATTT
21441730 AATAGAAATAGTGAAAATTACACATTTAAAAATAAATAGAATTT
1 AATAGAAATAGTGAAAATTACACATTTAAAAATAAATAGAATTT
21441774 AA
1 AA
21441776 ATTAAAATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (44 bp):
AATAGAAATAGTGAAAATTACACATTTAAAAATAAATAGAATTT
Found at i:21442039 original size:44 final size:45
Alignment explanation
Indices: 21441967--21442057 Score: 132
Period size: 44 Copynumber: 2.0 Consensus size: 45
21441957 AAAGTTGGAA
* * *
21441967 AATAGAAGTTTGTCATAATTATAAATTTAAAAATAATTATAATTT
1 AATAGAAGTTTATAATAATTATAAATTTAAAAATAATTAGAATTT
21442012 AATAGAAG-TTATAATAATTA-AACATTTAAAAATAATTAGAATTT
1 AATAGAAGTTTATAATAATTATAA-ATTTAAAAATAATTAGAATTT
21442056 AA
1 AA
21442058 ATTATTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 2 0.05
44 32 0.76
45 8 0.19
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (45 bp):
AATAGAAGTTTATAATAATTATAAATTTAAAAATAATTAGAATTT
Found at i:21442057 original size:17 final size:18
Alignment explanation
Indices: 21442024--21442058 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21442014 TAGAAGTTAT
21442024 AATAATTAAACATTTAAA
1 AATAATTAAACATTTAAA
*
21442042 AATAATTAGA-ATTTAAA
1 AATAATTAAACATTTAAA
21442059 TTATTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AATAATTAAACATTTAAA
Found at i:21442403 original size:20 final size:22
Alignment explanation
Indices: 21442369--21442414 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
21442359 GAATAAGTTA
21442369 AAAATTTTTTAATTAT-TATTT
1 AAAATTTTTTAATTATATATTT
21442390 AAAATTTTTT-ATTATAATATTT
1 AAAATTTTTTAATTAT-ATATTT
21442412 AAA
1 AAA
21442415 TTTATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AAAATTTTTTAATTATATATTT
Found at i:21443087 original size:20 final size:20
Alignment explanation
Indices: 21443054--21443105 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
21443044 TTGCTATAAA
* * *
21443054 TATTTTAAAATTTTGAAAAT
1 TATTTTGAATTTTTGAAAAC
*
21443074 TATTTTGAATTTTTTTAAAAC
1 TATTTTGAA-TTTTTGAAAAC
21443095 TATTTTGAATT
1 TATTTTGAATT
21443106 GGTTTGTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (20 bp):
TATTTTGAATTTTTGAAAAC
Found at i:21443093 original size:21 final size:21
Alignment explanation
Indices: 21443064--21443105 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21443054 TATTTTAAAA
*
21443064 TTTTGAAAATTATTTTGAATT
1 TTTTGAAAACTATTTTGAATT
*
21443085 TTTTTAAAACTATTTTGAATT
1 TTTTGAAAACTATTTTGAATT
21443106 GGTTTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTGAAAACTATTTTGAATT
Found at i:21444723 original size:17 final size:17
Alignment explanation
Indices: 21444701--21444739 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
21444691 ACTTTATTGT
21444701 ATTTATTAATT-AATATA
1 ATTTATT-ATTAAATATA
*
21444718 ATTTATTATTAAATTTA
1 ATTTATTATTAAATATA
21444735 ATTTA
1 ATTTA
21444740 ATAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATTATTAAATATA
Found at i:21449322 original size:21 final size:22
Alignment explanation
Indices: 21449296--21449342 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
21449286 CTCTGCTCAA
*
21449296 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
21449317 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
21449339 ACTC
1 ACTC
21449343 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:21458685 original size:15 final size:15
Alignment explanation
Indices: 21458664--21458704 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
21458654 AACTAAACAC
21458664 AAATAAAATTAATA-
1 AAATAAAATTAATAG
*
21458678 ATAATAAAATAAATAG
1 A-AATAAAATTAATAG
21458694 AAA-AAAATTAA
1 AAATAAAATTAA
21458705 GAAGGAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.35
15 14 0.61
16 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AAATAAAATTAATAG
Found at i:21462296 original size:16 final size:15
Alignment explanation
Indices: 21462271--21462300 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21462261 ATTAAGTTAA
21462271 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
21462286 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
21462301 ATGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:21473677 original size:29 final size:29
Alignment explanation
Indices: 21473614--21473681 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
21473604 TAATCAACCG
*
21473614 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
21473643 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
21473672 CGCACACTTA
1 CGCACACTTA
21473682 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:21473793 original size:174 final size:174
Alignment explanation
Indices: 21473503--21473830 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
21473493 AACTCAAGGT
* *
21473503 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
21473568 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
21473633 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
21473677 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
21473742 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
21473807 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
21473831 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:21473822 original size:29 final size:30
Alignment explanation
Indices: 21473783--21473861 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
21473773 CTTAATAATC
21473783 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
21473813 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
21473842 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21473862 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:21500963 original size:11 final size:11
Alignment explanation
Indices: 21500947--21500989 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
21500937 GTTTTAATTA
21500947 AATAAAATATT
1 AATAAAATATT
21500958 AAT-AAATATCT
1 AATAAAATAT-T
21500969 AATTAAAATATT
1 AA-TAAAATATT
21500981 AATAAAATA
1 AATAAAATA
21500990 ATATTTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.21
11 13 0.45
12 4 0.14
13 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAAAATATT
Found at i:21502278 original size:38 final size:38
Alignment explanation
Indices: 21502227--21502302 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
21502217 TATATTGACT
21502227 TGTTTTAAAAACAGTTTGACTAATTGAAAGAATTCTAA
1 TGTTTTAAAAACAGTTTGACTAATTGAAAGAATTCTAA
21502265 TGTTTTAAAAACAGTTTGACTAATTGAAAGAATTCTAA
1 TGTTTTAAAAACAGTTTGACTAATTGAAAGAATTCTAA
21502303 CTTATTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (38 bp):
TGTTTTAAAAACAGTTTGACTAATTGAAAGAATTCTAA
Found at i:21502323 original size:38 final size:38
Alignment explanation
Indices: 21502231--21502312 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
21502221 TTGACTTGTT
*
21502231 TTAAAAACAGTTTGACTAATTGAAAGAATTCTAATGTT
1 TTAAAAACAGTTTGACTAATTGAAAGAATTCTAATGTA
21502269 TTAAAAACAGTTTGACTAATTGAAAGAATTCTAACT-TA
1 TTAAAAACAGTTTGACTAATTGAAAGAATTCTAA-TGTA
21502307 TTAAAA
1 TTAAAA
21502313 TTATTTTGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
38 41 0.98
39 1 0.02
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (38 bp):
TTAAAAACAGTTTGACTAATTGAAAGAATTCTAATGTA
Found at i:21502453 original size:22 final size:24
Alignment explanation
Indices: 21502427--21502470 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
21502417 ATTTTGTTCA
21502427 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
21502449 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
21502471 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:21507910 original size:18 final size:17
Alignment explanation
Indices: 21507878--21507912 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21507868 TTTACAAACT
*
21507878 TAAAAAATATATTAAAA
1 TAAAAAATAAATTAAAA
21507895 TAAAAAATAAATTTAAAA
1 TAAAAAATAAA-TTAAAA
21507913 AAGGAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAATAAATTAAAA
Found at i:21513717 original size:25 final size:25
Alignment explanation
Indices: 21513670--21513717 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21513660 TAGGCTAACT
* *
21513670 AGAGTTTAAGTGAGAAACTAAAAAC
1 AGAGTTTAACTGAGAAACGAAAAAC
21513695 AGAGTTTAACTGAGAGAA-GAAAA
1 AGAGTTTAACTGAGA-AACGAAAA
21513718 CTAAAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAGTTTAACTGAGAAACGAAAAAC
Found at i:21515290 original size:27 final size:27
Alignment explanation
Indices: 21515260--21515317 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
21515250 ATGATAATGA
*
21515260 ATTTAAATTTTTTTATTAGTT-TTTTAT
1 ATTTAAATTTATTTATT-GTTATTTTAT
* *
21515287 ATTTATATTTATTTATTGTTATTTTCT
1 ATTTAAATTTATTTATTGTTATTTTAT
21515314 ATTT
1 ATTT
21515318 TAGCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (27 bp):
ATTTAAATTTATTTATTGTTATTTTAT
Found at i:21533919 original size:4 final size:4
Alignment explanation
Indices: 21533910--21533937 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
21533900 TACTAGTCTC
21533910 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
21533938 CCATTTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:21535679 original size:45 final size:45
Alignment explanation
Indices: 21535615--21535707 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
21535605 AATTTGTTCA
21535615 CTCAAATACACTCACAAAATACATTCCACAATGAACAGACAAGTG
1 CTCAAATACACTCACAAAATACATTCCACAATGAACAGACAAGTG
*
21535660 CTCAAATACACTCACAAAATACGTTCCACAATGAACAGACAAGTG
1 CTCAAATACACTCACAAAATACATTCCACAATGAACAGACAAGTG
21535705 CTC
1 CTC
21535708 TCAATACTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (45 bp):
CTCAAATACACTCACAAAATACATTCCACAATGAACAGACAAGTG
Found at i:21537199 original size:20 final size:21
Alignment explanation
Indices: 21537176--21537214 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
21537166 ATATGTGTAT
*
21537176 AATAATTAGTGTT-TAAATGA
1 AATAAATAGTGTTATAAATGA
*
21537196 AATAAATATTGTTATAAAT
1 AATAAATAGTGTTATAAAT
21537215 TTATTGGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (21 bp):
AATAAATAGTGTTATAAATGA
Found at i:21539250 original size:17 final size:17
Alignment explanation
Indices: 21539228--21539260 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21539218 GATGAATGAC
21539228 TTAATT-ACTATTTCATA
1 TTAATTGACT-TTTCATA
21539245 TTAATTGACTTTTCAT
1 TTAATTGACTTTTCAT
21539261 GAAGGAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (17 bp):
TTAATTGACTTTTCATA
Found at i:21542090 original size:26 final size:26
Alignment explanation
Indices: 21542052--21542157 Score: 124
Period size: 26 Copynumber: 4.1 Consensus size: 26
21542042 TGTACCTAAA
*
21542052 TAGCAGGCCTTGAGCCGGTGTTTATT
1 TAGCAGGCTTTGAGCCGGTGTTTATT
* * * *
21542078 TAGCAAGCTTTGAGCTGGTGATTACT
1 TAGCAGGCTTTGAGCCGGTGTTTATT
* * *
21542104 T-GCAGGCTATGAGCTGGTGCTTATT
1 TAGCAGGCTTTGAGCCGGTGTTTATT
*
21542129 TAGCAGGCTTTGAGCCAGTGTTTATT
1 TAGCAGGCTTTGAGCCGGTGTTTATT
21542155 TAG
1 TAG
21542158 TAGGTACTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
25 21 0.32
26 45 0.68
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.36
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCCGGTGTTTATT
Found at i:21554284 original size:26 final size:26
Alignment explanation
Indices: 21554253--21554305 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
21554243 CCCAAATCAT
*
21554253 ATAAATAAACAAAATATAA-AAAAATA
1 ATAAATAAA-AAAATAAAACAAAAATA
21554279 ATAAATAAAAAAATAAAACAAAAATA
1 ATAAATAAAAAAATAAAACAAAAATA
21554305 A
1 A
21554306 AGTAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (26 bp):
ATAAATAAAAAAATAAAACAAAAATA
Found at i:21554302 original size:11 final size:11
Alignment explanation
Indices: 21554255--21554306 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
21554245 CAAATCATAT
21554255 AAAT-AAACAA
1 AAATAAAACAA
21554265 AATATAAAA-AA
1 AA-ATAAAACAA
*
21554276 ATAATAAATAAAA
1 A-AATAAA-ACAA
21554289 AAATAAAACAA
1 AAATAAAACAA
21554300 AAATAAA
1 AAATAAA
21554307 GTAATTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 2 0.06
11 20 0.56
12 11 0.31
13 3 0.08
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (11 bp):
AAATAAAACAA
Found at i:21555852 original size:14 final size:14
Alignment explanation
Indices: 21555833--21555859 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21555823 ATATAGATAT
21555833 ACTATTTTTATTAA
1 ACTATTTTTATTAA
21555847 ACTATTTTTATTA
1 ACTATTTTTATTA
21555860 TACATATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
ACTATTTTTATTAA
Found at i:21556048 original size:18 final size:18
Alignment explanation
Indices: 21556020--21556060 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21556010 TGATGTGAGC
21556020 TTATTGTCTTATGTGTAT
1 TTATTGTCTTATGTGTAT
*
21556038 TGTATTG-CTTATTTGTAT
1 T-TATTGTCTTATGTGTAT
21556056 TTATT
1 TTATT
21556061 AATTATTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.17, C:0.05, G:0.15, T:0.63
Consensus pattern (18 bp):
TTATTGTCTTATGTGTAT
Found at i:21561661 original size:23 final size:23
Alignment explanation
Indices: 21561635--21561710 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
21561625 ATAAGTGCCA
21561635 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21561658 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
21561681 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21561704 CACTGAT
1 CACTGAT
21561711 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:21570555 original size:145 final size:145
Alignment explanation
Indices: 21570289--21570613 Score: 526
Period size: 145 Copynumber: 2.2 Consensus size: 145
21570279 TGAAGTCGAT
* *
21570289 AATCCTATCTCCTTGAAGTTACAATAGAGCGGATTAAAATAAAGAATCTTATCTCTCTAAAATTA
1 AATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTAAAATTA
* * *
21570354 CAGTAGAATAGATCGCATCATGTCTTATCTCCTTGAGATTATAGTGAAATAAACCGAAGAATTCC
66 CAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGAAATAAACCGAAGAATTCC
21570419 TAATCGAAAATGGTG
131 TAATCGAAAATGGTG
*
21570434 AATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAATG-ATCTTATTTCTCTAAAATT
1 AATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAA-GAATCTTATCTCTCTAAAATT
* *
21570498 ACAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTC
65 ACAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGAAATAAACCGAAGAATTC
21570563 CTAATCGAAAATGGTG
130 CTAATCGAAAATGGTG
* * * *
21570579 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT
1 AATCCTATCTCCTTGAAGTTACAGTGGAGCGGATT
21570614 GAAGCTAGAA
Statistics
Matches: 167, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
145 166 0.99
146 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (145 bp):
AATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTAAAATTA
CAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGAAATAAACCGAAGAATTCC
TAATCGAAAATGGTG
Found at i:21570628 original size:145 final size:143
Alignment explanation
Indices: 21570289--21570656 Score: 493
Period size: 145 Copynumber: 2.5 Consensus size: 143
21570279 TGAAGTCGAT
* * * *
21570289 AATCCTATCTCCTTGAAGTTACAATAGAGCGGATTAAAATAAAGAATCTTATCTCTCTAAAATTA
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAT-AA-AATCTTATCTCTCTAAAATTA
* * *
21570354 CAGTAGAATAGATCGCATCATGTCTTATCTCCTTGAGATTATAGTGAAATAAACCGAAGAATTCC
64 CAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGAAATAAACCGAAGAATTCC
21570419 TAATCGAAAATGGTG
129 TAATCGAAAATGGTG
* * *
21570434 AATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATTTCTCTAAAATTA
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAA--ATCTTATCTCTCTAAAATTA
* *
21570499 CAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTCC
64 CAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGAAATAAACCGAAGAATTCC
21570564 TAATCGAAAATGGTG
129 TAATCGAAAATGGTG
* * ** * * *
21570579 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGATATTA
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATA-AAATCTTATCTCTCTAAAATTA
* *
21570644 CAGTGGAGTAGAT
64 CAGTAGAATAGAT
21570657 TGAAGCCGAT
Statistics
Matches: 199, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
143 1 0.01
144 2 0.01
145 190 0.95
146 4 0.02
147 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (143 bp):
AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAATCTTATCTCTCTAAAATTACA
GTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGAAATAAACCGAAGAATTCCTA
ATCGAAAATGGTG
Found at i:21570645 original size:44 final size:44
Alignment explanation
Indices: 21570579--21570701 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
21570569 GAAAATGGTG
21570579 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCTAGA-
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-AGAT
** * *
21570623 AATCTTATCTCCCTGATATTACAGTGGAGTAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCAGAT
** *
21570667 AATCCAATCTCCTTGAGGTTACAGTGGAGCAGATT
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT
21570702 AAAATAAATG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 2 0.03
44 66 0.97
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCAGAT
Found at i:21570721 original size:44 final size:43
Alignment explanation
Indices: 21570580--21570721 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 43
21570570 AAAATGGTGA
**
21570580 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAA-
1 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-AAAATA-AAT
** * * ****
21570624 ATCTTATCTCCCTGATATTACAGTGGAGTAGATTGAAGCCGAT
1 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAAAT
** *
21570667 AATCCAATCTCCTTGAGGTTACAGTGGAGCAGATTAAAATAAAT
1 -ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAAAT
21570711 GATCTTATCTC
1 -ATCTTATCTC
21570722 TCTAAAATTA
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 71 0.97
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAAAT
Found at i:21570730 original size:233 final size:232
Alignment explanation
Indices: 21570434--21571099 Score: 1131
Period size: 233 Copynumber: 2.9 Consensus size: 232
21570424 GAAAATGGTG
*
21570434 AATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATTTCTCTAAAATTA
1 AATCCTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAATAAATGATCTTA-TTCTCTAAAATTA
*
21570499 CAGTAGAATAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTCC
65 CAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTCC
*
21570564 TAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAAATCTT
130 TAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTT
* *
21570629 ATCTCCCTGATATTACAGTGGAGTAGATTGAAGCCGAT
195 ATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCGAT
* *
21570667 AATCCAATCTCCTTGAGGTTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTAAAATTA
1 AATCCTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAATAAATGATCTTAT-TCTCTAAAATTA
* * *
21570732 CAGTAGAGTAGATCACATCAGGTCTTATCTCCCTAAGATTACAATGGAATAGACCGAAGAATTCC
65 CAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTCC
*
21570797 TAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAAAAATCTT
130 TAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTT
*
21570862 ATCTCTCTGAGATTACAGTGGAGCAGATTGAAGCCGAT
195 ATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCGAT
* *
21570900 AATCCTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAATAAAAGATCTTA---TCTGAAATTAC
1 AATCCTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAATAAATGATCTTATTCTCTAAAATTAC
* * *
21570962 AGTAGAGTAGATCGCATCAAGTCTTATCTCCCTGAGATTACAGTGGAATAGATCGAAGAACTCCT
66 AGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTCCT
*
21571027 AATCGAAAATGGTGAATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTA
131 AATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTA
21571092 TCTCCCTG
196 TCTCCCTG
21571100 CGGTATAGTG
Statistics
Matches: 407, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
229 139 0.34
232 1 0.00
233 267 0.66
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (232 bp):
AATCCTATCTCCTTGAAGTTACAGTGGAGCAGATTAAAATAAATGATCTTATTCTCTAAAATTAC
AGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTCCT
AATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTA
TCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCGAT
Found at i:21570953 original size:44 final size:44
Alignment explanation
Indices: 21570812--21570934 Score: 169
Period size: 44 Copynumber: 2.8 Consensus size: 44
21570802 GAAAATGGTG
* *
21570812 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAAA
1 AATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGCCAAA
* *
21570856 AATCTTATCT-CTCTG-AGATTACAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCT-TGAAG-TTACAGTGGAGCAGATTGAAGCCAAA
*
21570900 AATCCTATCTCCTTGAAGTTACAGTGGAGCAGATT
1 AATCTTATCTCCTTGAAGTTACAGTGGAGCAGATT
21570935 AAAATAAAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.03
44 64 0.91
45 4 0.06
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGCCAAA
Found at i:21571257 original size:50 final size:49
Alignment explanation
Indices: 21571138--21571258 Score: 111
Period size: 50 Copynumber: 2.4 Consensus size: 49
21571128 ACGACAGATA
* * *
21571138 TTGCTTCCCCAACATTGCAGTTAGAAAGATTGAAGCTGCAATAGTGAATC
1 TTGCTTCCCCGACATTGCAG-TAGAAAGATTGAAGCTACAAAAGTGAATC
* * * ** *
21571188 TTACTGCCCAGTA-GGTGCAGTGGAACAGATTGAAGCTACAACAAG-GAATC
1 TTGCTTCCCCG-ACATTGCAGTAGAA-AGATTGAAGCTACAA-AAGTGAATC
21571238 TTGCTTCCCCGACATTGCAGT
1 TTGCTTCCCCGACATTGCAGT
21571259 TAAACGGATT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
49 5 0.09
50 45 0.85
51 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (49 bp):
TTGCTTCCCCGACATTGCAGTAGAAAGATTGAAGCTACAAAAGTGAATC
Found at i:21571540 original size:18 final size:18
Alignment explanation
Indices: 21571510--21571557 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
21571500 CAAATCAAAT
*
21571510 AAATAAACA-AAATATAAA
1 AAATAAAAATAAATA-AAA
*
21571528 AAA-AATAATAAATAAAA
1 AAATAAAAATAAATAAAA
21571545 AAATAAAAATAAA
1 AAATAAAAATAAA
21571558 GTTATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAAAATAAATAAAA
Found at i:21573161 original size:14 final size:14
Alignment explanation
Indices: 21573142--21573168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21573132 ATATAGATAT
21573142 ACTATTTTTATTAA
1 ACTATTTTTATTAA
21573156 ACTATTTTTATTA
1 ACTATTTTTATTA
21573169 TACATATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
ACTATTTTTATTAA
Done.