Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 65 of 333
Found at i:19556378 original size:89 final size:88
Alignment explanation
Indices: 19556285--19556486 Score: 248
Period size: 89 Copynumber: 2.3 Consensus size: 88
19556275 TTTACTCTAT
* * *
19556285 TGCAACTTCAGAGAGATAAGATTCGCTAA-TTTCAAAATGCTCCACTATAACTTTAGAGAGATAA
1 TGCAACTTCAGAGAGATAAGATT--ATAATTTTC-AAATGCTCCACTACAACTTCAGAGAGATAA
19556349 GATCT-ATAACTTCAATCTGCTCCAC
63 GATCTGATAACTTCAATCTGCTCCAC
* * *
19556374 TGCAACTTCAGAGAGATAAGACTTATAATTTTCATATGCTCTACTGCAACTTCAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGA-TTATAATTTTCAAATGCTCCACTACAACTTCAGAGAGATAAGA
* * * *
19556439 TTTGCTATCTTCAATCTGCTTCAC
65 TCTGATAACTTCAATCTGCTCCAC
19556463 TGCAACTTCA-AGAAGATAAGATTA
1 TGCAACTTCAGAG-AGATAAGATTA
19556487 ATGGCTTCAA
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
88 37 0.37
89 60 0.61
90 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (88 bp):
TGCAACTTCAGAGAGATAAGATTATAATTTTCAAATGCTCCACTACAACTTCAGAGAGATAAGAT
CTGATAACTTCAATCTGCTCCAC
Found at i:19556381 original size:44 final size:44
Alignment explanation
Indices: 19556285--19556940 Score: 255
Period size: 44 Copynumber: 14.5 Consensus size: 44
19556275 TTTACTCTAT
** * **
19556285 TGCAACTTCAGAGAGATAAGATTCGCTAATTTCAAAATGCTCCAC
1 TGCAACTTCAGAGAGATAAGA-TCTATAACTTCAATCTGCTCCAC
** *
19556330 TATAACTTTAGAGAGATAAGATCTATAACTTCAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCAC
* * *
19556374 TGCAACTTCAGAGAGATAAGA-CTTATAATTTTC-ATATGCTCTAC
1 TGCAACTTCAGAGAGATAAGATC-TATAA-CTTCAATCTGCTCCAC
* * * *
19556418 TGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTTCAC
1 TGCAACTTCAGAGAGATAAGATCT-ATAACTTCAATCTGCTCCAC
** *
19556463 TGCAACTTCA-AGAAGATAAGAT-TAATGGCTTCAATCTACTCCAC
1 TGCAACTTCAGAG-AGATAAGATCT-ATAACTTCAATCTGCTCCAC
* * * *
19556507 TGCAACTTCA-AGGAGATAAGATTTACCATAATGATTTCAA-C-CCATCCCAT
1 TGCAACTTCAGA-GAGATAAGA--T--C-T-ATAACTTCAATCTGC-T-CCAC
** * * * * * * *
19556557 TATAACTTCAG-GGGTATAGGATTTGTAACTTCAACCTACTCCAT
1 TGCAACTTCAGAGAG-ATAAGATCTATAACTTCAATCTGCTCCAC
* * * * * *
19556601 TGCAACTTCA-AGGAGATAAGGTTTGTAACTTTAATTTGCTCTAC
1 TGCAACTTCAGA-GAGATAAGATCTATAACTTCAATCTGCTCCAC
** * * * * * *
19556645 CACAATTTCAGAGAGATAAGGTTTGCTATCTTCAATCTGCTCCAT
1 TGCAACTTCAGAGAGATAAGATCT-ATAACTTCAATCTGCTCCAC
* * * *
19556690 TGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCAA-C-CCATCCCAC
1 TGCAACTTCAGAGAGATAAGA--T--C-T-ATAACTTCAATCTGC-T-CCAC
* * * * * *
19556740 TACAACTTCAG-GGGTATAGGATTTGTAACTTCAACCTGCTCCAC
1 TGCAACTTCAGAGAG-ATAAGATCTATAACTTCAATCTGCTCCAC
* * * * * * *
19556784 TACAACTTTAGGGAGATAAGGTTTATAATTTCAATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCAC
*** * **
19556828 CATAATTTTGGAGAGATAAGATTTGCTAT-A-TTCAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGA--T-CTATAACTTCAATCTGCTCCAC
**
19556873 TGCAACTTCAG-GAAGATAAGAT-TAGTGGCTTCAATCTGCTCCAC
1 TGCAACTTCAGAG-AGATAAGATCTA-TAACTTCAATCTGCTCCAC
* * *
19556917 TACAACTTCAGGGAGATAATATCT
1 TGCAACTTCAGAGAGATAAGATCT
19556941 GCCATAATGA
Statistics
Matches: 462, Mismatches: 106, Indels: 86
0.71 0.16 0.13
Matches are distributed among these distances:
41 2 0.00
42 1 0.00
43 2 0.00
44 264 0.57
45 121 0.26
46 5 0.01
47 4 0.01
48 4 0.01
49 8 0.02
50 51 0.11
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCAC
Found at i:19556438 original size:133 final size:133
Alignment explanation
Indices: 19556279--19556527 Score: 335
Period size: 133 Copynumber: 1.9 Consensus size: 133
19556269 CTTTAATTTA
* * *
19556279 CTCTATTGCAACTTCAGAGAGATAAGATTCGCTAAT-TTCAAAATGCTCCACTATAACTT-TAGA
1 CTCTACTGCAACTTCAGAGAGATAAGATTCGCT-ATCTTCAAAATGCTCCACTACAACTTCAAGA
*
19556342 GAGATAAGATCT-ATAACTTCAATCTGCTCCACTGCAACTTC-AGAGAGATAAGACTTATAATTT
65 -AGATAAGAT-TAATAACTTCAATCTACTCCACTGCAACTTCAAG-GAGATAAGACTTATAATTT
19556405 TCATATG
127 TCATATG
* ** * *
19556412 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTTCACTGCAACTTCAAGAA
1 CTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAAAATGCTCCACTACAACTTCAAGAA
**
19556477 GATAAGATTAATGGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGA
66 GATAAGATTAATAACTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGA
19556528 TTTACCATAA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
132 3 0.03
133 93 0.92
134 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (133 bp):
CTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAAAATGCTCCACTACAACTTCAAGAA
GATAAGATTAATAACTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTATAATTTTCAT
ATG
Found at i:19556509 original size:89 final size:87
Alignment explanation
Indices: 19556285--19556531 Score: 234
Period size: 89 Copynumber: 2.8 Consensus size: 87
19556275 TTTACTCTAT
** * * ** *
19556285 TGCAACTTCAGAGAGATAAGATTCGCTAAT-TTCAAAATGCTCCACTATAACTTTAGAGAGATAA
1 TGCAACTTCAGAGAGATAAGA--CTATAATCTTC-ATATACTCCACTGCAACTTCAGAGAGATAA
*
19556349 GATCTATAACTTCAATCTGCTCCAC
63 GATTTATAACTTCAATCTGCTCCAC
* * *
19556374 TGCAACTTCAGAGAGATAAGACTTATAATTTTCATATGCTCTACTGCAACTTCAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGAC-TATAATCTTCATATACTCCACTGCAACTTCAGAGAGATAAGA
* * *
19556439 TTTGCTATCTTCAATCTGCTTCAC
65 TTT-ATAACTTCAATCTGCTCCAC
*
19556463 TGCAACTTCA-AGAAGATAAGA-T-TAATGGCTTCAATCTACTCCACTGCAACTTCA-AGGAGAT
1 TGCAACTTCAGAG-AGATAAGACTATAAT--CTTC-ATATACTCCACTGCAACTTCAGA-GAGAT
19556524 AAGATTTA
61 AAGATTTA
19556532 CCATAATGAT
Statistics
Matches: 134, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
86 4 0.03
87 2 0.01
88 39 0.29
89 89 0.66
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (87 bp):
TGCAACTTCAGAGAGATAAGACTATAATCTTCATATACTCCACTGCAACTTCAGAGAGATAAGAT
TTATAACTTCAATCTGCTCCAC
Found at i:19556597 original size:94 final size:93
Alignment explanation
Indices: 19556491--19556808 Score: 303
Period size: 94 Copynumber: 3.4 Consensus size: 93
19556481 AGATTAATGG
*
19556491 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCAACCCATCCCA
1 CTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCAACCCATCCCA
*
19556556 TTATAACTTCAGGGGTATAGGATTTGTAA
66 -TACAACTTCAGGGGTATAGGATTTGTAA
* * * * * * * *
19556585 CTTCAACCTACTCCATTGCAACTTCAAGGAGATAAGGTTTGTAAC-T-TTAATTT--GCTC-TAC
1 CTTCAACCTACTCCACTGCAACTTCAAGGAGATAA-GATT-TACCATAATGATTTCAACCCATCC
* * *
19556645 C--ACAATTTCAGAGAG-ATAAGG-TTTGCTAT
64 CATACAACTTCAG-GGGTAT-AGGATTTG-TAA
* * * * *
19556674 CTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCAACCCATCCCA
1 CTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCAACCCATCCCA
19556739 CTACAACTTCAGGGGTATAGGATTTGTAA
66 -TACAACTTCAGGGGTATAGGATTTGTAA
* * * * *
19556768 CTTCAACCTGCTCCACTACAACTTTAGGGAGATAAGGTTTA
1 CTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGATTTA
19556809 TAATTTCAAT
Statistics
Matches: 176, Mismatches: 33, Indels: 30
0.74 0.14 0.13
Matches are distributed among these distances:
87 2 0.01
88 18 0.10
89 44 0.25
91 5 0.03
92 5 0.03
94 80 0.45
95 19 0.11
96 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (93 bp):
CTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCAACCCATCCCA
TACAACTTCAGGGGTATAGGATTTGTAA
Found at i:19556619 original size:183 final size:183
Alignment explanation
Indices: 19556416--19556895 Score: 549
Period size: 183 Copynumber: 2.6 Consensus size: 183
19556406 CATATGCTCT
* **
19556416 ACTGCAACTTC-AGAGAGATAAGATTTGCTATCTTCAATCTGCT-TCACTGCAACTTCA-AGAAG
1 ACTGCAACTTCAAG-GAGATAAGATTTG-TAACTTCAATCTGCTCT-ACCACAACTTCAGAG-AG
*
19556478 ATAA-GATTAATGGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGAT
62 ATAAGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGAT
* *
19556542 TTCAACCCATCCCATTATAACTTCAGGGGTATAGGATTTGTAACTTCAACCTACTCC
127 TTCAACCCATCCCACTACAACTTCAGGGGTATAGGATTTGTAACTTCAACCTACTCC
* * * * *
19556599 ATTGCAACTTCAAGGAGATAAGGTTTGTAACTTTAATTTGCTCTACCACAATTTCAGAGAGATAA
1 ACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTGCTCTACCACAACTTCAGAGAGATAA
* ** * * * * *
19556664 GGTTTGCTATCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCA
66 GGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCA
*
19556729 ACCCATCCCACTACAACTTCAGGGGTATAGGATTTGTAACTTCAACCTGCTCC
131 ACCCATCCCACTACAACTTCAGGGGTATAGGATTTGTAACTTCAACCTACTCC
* * * * * * * * **
19556782 ACTACAACTTTAGGGAGATAAGGTTTATAATTTCAATCTGCTCTACCATAATTTTGGAGAGATAA
1 ACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTGCTCTACCACAACTTCAGAGAGATAA
** ** *
19556847 -GATTTGCTATATTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAGATT
66 GGA-TTAATAGCTTCAATCTACTCCACTGCAACTTCAAGG-AGATAAGATT
19556896 AGTGGCTTCA
Statistics
Matches: 256, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
182 30 0.12
183 224 0.88
184 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (183 bp):
ACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTGCTCTACCACAACTTCAGAGAGATAA
GGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTACCATAATGATTTCA
ACCCATCCCACTACAACTTCAGGGGTATAGGATTTGTAACTTCAACCTACTCC
Found at i:19556697 original size:89 final size:88
Alignment explanation
Indices: 19556585--19556892 Score: 241
Period size: 89 Copynumber: 3.4 Consensus size: 88
19556575 GGATTTGTAA
* *
19556585 CTTCAACCTACTCCATTGCAACTTCAAGGAGATAAGGTTTGTAACTTT-AATTTGCTCTACCACA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGTAA-TTTCAA-TTGCTCTACCACA
19556649 ATTTCAGAGAGATAAGGTTTGCTAT
64 ATTTCAGAGAGATAAGGTTTGCTAT
* * * * ** *
19556674 CTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCAA-CCCATCCC
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTG---T-A--ATTTCAATTGC-T-CT
* * * *
19556738 ACTACAACTTCAG-G-GGTATAGGATTTG-TAA
58 ACCACAATTTCAGAGAGATA-AGG-TTTGCTAT
* * * * *
19556768 CTTCAACCTGCTCCACTACAACTTTAGGGAGATAAGGTTTATAATTTCAATCTGCTCTACCATAA
1 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGTAATTTCAAT-TGCTCTACCACAA
** *
19556833 TTTTGGAGAGATAAGATTTGCTAT
65 TTTCAGAGAGATAAGGTTTGCTAT
* *
19556857 ATTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAG
1 CTTCAACCTGCTCCACTGCAACTTCAAGG-AGATAAG
19556893 ATTAGTGGCT
Statistics
Matches: 169, Mismatches: 33, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
88 22 0.13
89 71 0.42
90 5 0.03
91 1 0.01
92 1 0.01
93 5 0.03
94 45 0.27
95 19 0.11
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (88 bp):
CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGTAATTTCAATTGCTCTACCACAAT
TTCAGAGAGATAAGGTTTGCTAT
Found at i:19556775 original size:227 final size:227
Alignment explanation
Indices: 19556560--19556990 Score: 498
Period size: 227 Copynumber: 1.9 Consensus size: 227
19556550 ATCCCATTAT
* ** *
19556560 AACTTCAGGG-G-TATAGGATTTGTAACTTCAACCTACTCCATTGCA-ACTTCAAG-GAGATAAG
1 AACTTCAGGGAGATA-AGG-TTTATAACTTCAACCTACT-C-TACCATAATTCAAGAGAGATAAG
* * * * * * * *
19556621 GTTTG-TA-ACTTTAATTTGCTCTACCACAATTTCA-GAGAGATAAGGTTTGCTATCTTCAATCT
62 ATTTGCTATA-TTCAATCTGCTCCACCACAACTTCAGGA-AGATAAGATTAG-TAGCTTCAATCT
* * *
19556683 GCTCCATTGCAACTTCAGGGAGATAAGATTTGCCATAATGATTTCAACCCATCCCACTACAACTT
124 GCTCCACTACAACTTCAGGGAGATAAGATCTGCCATAATGATTTCAACCCATCCCACTACAACTT
19556748 CAGGGGTATAGGATTTGTAACTTCAACCTGCTCCACTAC
189 CAGGGGTATAGGATTTGTAACTTCAACCTGCTCCACTAC
* * * * ***
19556787 AACTTTAGGGAGATAAGGTTTATAATTTCAATCTGCTCTACCATAATTTTGGAGAGATAAGATTT
1 AACTTCAGGGAGATAAGGTTTATAACTTCAACCTACTCTACCATAATTCAAGAGAGATAAGATTT
** *
19556852 GCTATATTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTAGTGGCTTCAATCTGCTCCAC
66 GCTATATTCAATCTGCTCCACCACAACTTCAGGAAGATAAGATTAGTAGCTTCAATCTGCTCCAC
* * *
19556917 TACAACTTCAGGGAGATAATATCTGCCATAATGATTTCAACCCATTCCACTGCAACTTCAGGGGT
131 TACAACTTCAGGGAGATAAGATCTGCCATAATGATTTCAACCCATCCCACTACAACTTCAGGGGT
19556982 ATAGGATTT
196 ATAGGATTT
19556991 ATGATTTCTC
Statistics
Matches: 169, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
225 3 0.02
226 5 0.03
227 121 0.72
228 35 0.21
229 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (227 bp):
AACTTCAGGGAGATAAGGTTTATAACTTCAACCTACTCTACCATAATTCAAGAGAGATAAGATTT
GCTATATTCAATCTGCTCCACCACAACTTCAGGAAGATAAGATTAGTAGCTTCAATCTGCTCCAC
TACAACTTCAGGGAGATAAGATCTGCCATAATGATTTCAACCCATCCCACTACAACTTCAGGGGT
ATAGGATTTGTAACTTCAACCTGCTCCACTAC
Found at i:19563602 original size:17 final size:17
Alignment explanation
Indices: 19563580--19563612 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19563570 GTGATATTAA
*
19563580 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
19563597 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
19563613 ATGCGAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:19566397 original size:43 final size:43
Alignment explanation
Indices: 19566348--19566433 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
19566338 ATAAATAGGG
19566348 TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
1 TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
19566391 TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
1 TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
19566434 ATACTTAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (43 bp):
TAAGCTAATTGTTTCTATTGTAGGAGCTTACTAAGTATTTATA
Found at i:19566418 original size:22 final size:22
Alignment explanation
Indices: 19566350--19566418 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
19566340 AAATAGGGTA
19566350 AGCTAATTGTTTCTATTGTAGG
1 AGCTAATTGTTTCTATTGTAGG
* * *
19566372 AGCTTACTAAGTATT-TA-TATA--
1 AGC-TAAT-TGT-TTCTATTGTAGG
19566393 AGCTAATTGTTTCTATTGTAGG
1 AGCTAATTGTTTCTATTGTAGG
19566415 AGCT
1 AGCT
19566419 TACTAAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
18 2 0.06
19 4 0.12
20 6 0.18
21 3 0.09
22 7 0.21
23 6 0.18
24 4 0.12
25 2 0.06
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (22 bp):
AGCTAATTGTTTCTATTGTAGG
Found at i:19569385 original size:2 final size:2
Alignment explanation
Indices: 19569380--19569404 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19569370 TTTTTTTGGT
19569380 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
19569405 TATCTGGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:19578086 original size:45 final size:45
Alignment explanation
Indices: 19578019--19578108 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
19578009 ACAAGATTAA
19578019 AATATATTACTTTTATCAATTATCATTATTATTTTGAATATTTAT
1 AATATATTACTTTTATCAATTATCATTATTATTTTGAATATTTAT
*
19578064 AATATATTACTTTTATCGATTATCATTATTATTTTGAATATTTAT
1 AATATATTACTTTTATCAATTATCATTATTATTTTGAATATTTAT
19578109 TCTTTATTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (45 bp):
AATATATTACTTTTATCAATTATCATTATTATTTTGAATATTTAT
Found at i:19579137 original size:20 final size:20
Alignment explanation
Indices: 19579112--19579150 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19579102 CTCCCGAACT
19579112 CGAAATCGAATAATTCAAAC
1 CGAAATCGAATAATTCAAAC
*
19579132 CGAAATCGAGTAATTCAAA
1 CGAAATCGAATAATTCAAA
19579151 GTGCATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.21
Consensus pattern (20 bp):
CGAAATCGAATAATTCAAAC
Found at i:19581893 original size:9 final size:9
Alignment explanation
Indices: 19581879--19581915 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19581869 TATAGTTTGA
19581879 TATTCGAAT
1 TATTCGAAT
19581888 TATTCGAAT
1 TATTCGAAT
*
19581897 TATTCGAGT
1 TATTCGAAT
19581906 TATTCGAAT
1 TATTCGAAT
19581915 T
1 T
19581916 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19581984 original size:9 final size:9
Alignment explanation
Indices: 19581965--19581997 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
19581955 ATTCGAGTTG
19581965 ACTCGAATA
1 ACTCGAATA
19581974 ACTC-AATTA
1 ACTCGAA-TA
19581983 ACTCGAATA
1 ACTCGAATA
19581992 ACTCGA
1 ACTCGA
19581998 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:19583415 original size:25 final size:25
Alignment explanation
Indices: 19583378--19583428 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
19583368 TATACTAAAA
* *
19583378 AATGGCATTTCATTATCAGAA-CTAG
1 AATGACATATCATT-TCAGAATCTAG
19583403 AATGACATATCATTTCAGAATCTAG
1 AATGACATATCATTTCAGAATCTAG
19583428 A
1 A
19583429 TGGCATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (25 bp):
AATGACATATCATTTCAGAATCTAG
Found at i:19584369 original size:2 final size:2
Alignment explanation
Indices: 19584364--19584400 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
19584354 TGAATATATA
19584364 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
19584401 AATATGTGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:19586202 original size:39 final size:40
Alignment explanation
Indices: 19586099--19586281 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
19586089 TCGAATGATG
* * * *
19586099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAA
* *
19586139 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTGGTGCGAGTTACTAAA
* *
19586179 TCCGGGCTAAG-CCTGAAGGCATTGGTGCTAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
* * *
19586218 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTCTAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-AAA
*
19586259 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19586282 TGAACGAGTA
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 9 0.07
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:19586235 original size:79 final size:80
Alignment explanation
Indices: 19586099--19586278 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
19586089 TCGAATGATG
* *
19586099 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTG
19586164 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
* * **
19586179 TCCGGGCTAAG-CCTGAAGGCATTGGTGCT-AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
*
19586241 TTGTGCGAGTTACTCTAA-
64 TGGTGCGAGTTA--CTAAT
*
19586259 -CCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
19586279 ATTTGAACGA
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 55 0.64
80 26 0.30
81 4 0.05
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTG
GTGCGAGTTACTAAT
Found at i:19586305 original size:79 final size:78
Alignment explanation
Indices: 19586099--19586306 Score: 203
Period size: 79 Copynumber: 2.6 Consensus size: 78
19586089 TCGAATGATG
*
19586099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAG-CTATATCCGG-TTAAGATCCGAAGGCAT
19586162 TGGTGCGAGTTACTAA
63 TGGTGCGAGTTACTAA
* * * *
19586178 TTCCGGGCTAAG-CCTGAAGGCATTGGTGCTAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCA
*
19586240 TTTGTGCGAGTTACTCTAA
62 TTGGTGCGAGTTA--CTAA
* ** *
19586259 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGTTAA
19586307 ATTTCGAAGG
Statistics
Matches: 106, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
78 1 0.01
79 59 0.56
80 42 0.40
81 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGTTAAGATCCGAAGGCATTGG
TGCGAGTTACTAA
Found at i:19604857 original size:47 final size:47
Alignment explanation
Indices: 19604803--19605091 Score: 362
Period size: 47 Copynumber: 6.1 Consensus size: 47
19604793 TTAAGATTTT
* ** * * *
19604803 ATGTGATGAATGCGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19604850 ATGTGATGAATGTGAACCTGTATATATATGCGGGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* * *
19604901 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
19604948 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19604995 ATATGATAAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19605042 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
19605089 ATG
1 ATG
19605092 CGAAATGTGT
Statistics
Matches: 215, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
47 167 0.78
49 11 0.05
51 37 0.17
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19605201 original size:46 final size:46
Alignment explanation
Indices: 19605065--19605201 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
19605055 GAACATGTAT
* *
19605065 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
19605111 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
19605157 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
19605202 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:19608706 original size:48 final size:48
Alignment explanation
Indices: 19608635--19609089 Score: 793
Period size: 48 Copynumber: 9.5 Consensus size: 48
19608625 ATAAATGTGT
*
19608635 GTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAGATATGTATAC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
*
19608683 GTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
19608731 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
19608779 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
**
19608827 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATTT
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
* * *
19608875 GTGGTAAAGTCGAATGACTAGTGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
*
19608923 GTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAGATATGTATAC
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
* *
19608971 GTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
* * *
19609019 GTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATAT
1 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
19609067 GTGGTAAAGCCGAATGGCTAGTG
1 GTGGTAAAGCCGAATGGCTAGTG
19609090 ATTCGGCTAG
Statistics
Matches: 390, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 390 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (48 bp):
GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAC
Found at i:19609309 original size:37 final size:37
Alignment explanation
Indices: 19609259--19609361 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
19609249 GGAAATATAT
19609259 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
19609296 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
19609333 TCCGGGTAAGACCCGATAACTACCTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
19609362 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:19611211 original size:17 final size:18
Alignment explanation
Indices: 19611189--19611225 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19611179 GCTAAAGGTC
19611189 ATAAAAT-TTAAAAAAAT
1 ATAAAATATTAAAAAAAT
*
19611206 ATAAAATATTATAAAAAT
1 ATAAAATATTAAAAAAAT
19611224 AT
1 AT
19611226 TATAAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAATATTAAAAAAAT
Found at i:19611379 original size:19 final size:19
Alignment explanation
Indices: 19611334--19611380 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
19611324 TTCATTATTA
*
19611334 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
19611353 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
19611372 AATAAAAAT
1 AATAAAAAT
19611381 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:19612161 original size:15 final size:15
Alignment explanation
Indices: 19612141--19612169 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19612131 AAAAGAATAT
19612141 TAGCAACAAATTATG
1 TAGCAACAAATTATG
19612156 TAGCAACAAATTAT
1 TAGCAACAAATTAT
19612170 AAATTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (15 bp):
TAGCAACAAATTATG
Found at i:19613465 original size:7 final size:7
Alignment explanation
Indices: 19613453--19613494 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
19613443 TTACCTATAT
19613453 ATATTAA
1 ATATTAA
19613460 ATATTAA
1 ATATTAA
*
19613467 AT-GTAA
1 ATATTAA
19613473 ATATTAA
1 ATATTAA
*
19613480 AT-GTAA
1 ATATTAA
19613486 ATATTAA
1 ATATTAA
19613493 AT
1 AT
19613495 GTCAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (7 bp):
ATATTAA
Found at i:19613473 original size:13 final size:13
Alignment explanation
Indices: 19613457--19613505 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
19613447 CTATATATAT
19613457 TAAATATTAAATG
1 TAAATATTAAATG
19613470 TAAATATTAAATG
1 TAAATATTAAATG
19613483 TAAATATTAAATG
1 TAAATATTAAATG
19613496 TCAAAT-TTAA
1 T-AAATATTAA
19613506 CTAAAACAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
13 31 0.89
14 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (13 bp):
TAAATATTAAATG
Found at i:19616651 original size:17 final size:17
Alignment explanation
Indices: 19616631--19616663 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19616621 AACGAAGGAT
19616631 CGAGAGAAAAACAGTAA
1 CGAGAGAAAAACAGTAA
*
19616648 CGAGAGAAAAAGAGTA
1 CGAGAGAAAAACAGTA
19616664 GCTAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.27, T:0.06
Consensus pattern (17 bp):
CGAGAGAAAAACAGTAA
Found at i:19617032 original size:7 final size:7
Alignment explanation
Indices: 19617022--19617095 Score: 121
Period size: 7 Copynumber: 10.3 Consensus size: 7
19617012 ATATTAAATA
*
19617022 TTAACTT
1 TTAATTT
19617029 TTAAGTTTT
1 TTAA-T-TT
19617038 TTAATTT
1 TTAATTT
19617045 TTAATTT
1 TTAATTT
19617052 TTAATTT
1 TTAATTT
19617059 TTAATTT
1 TTAATTT
19617066 TTAATTT
1 TTAATTT
19617073 TTAATTT
1 TTAATTT
19617080 TTAATTT
1 TTAATTT
19617087 TTAATTT
1 TTAATTT
19617094 TT
1 TT
19617096 TTTGAAGATT
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
7 57 0.89
8 1 0.02
9 6 0.09
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:19617466 original size:37 final size:37
Alignment explanation
Indices: 19617411--19617501 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
19617401 CGCAGCAGAT
* *
19617411 GCACAGGGCGAAGGCGATGGAGGAGATGGGTTGCGAC
1 GCACGGGGCGAAGGCGATGGAGGAGATGGGTTACGAC
* *
19617448 GCACGGGGCGAAGGCGATGGAGGGGATGGGTTACGAT
1 GCACGGGGCGAAGGCGATGGAGGAGATGGGTTACGAC
*
19617485 GCACGGGGTGAAGGCGA
1 GCACGGGGCGAAGGCGA
19617502 CAAACGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.23, C:0.15, G:0.51, T:0.11
Consensus pattern (37 bp):
GCACGGGGCGAAGGCGATGGAGGAGATGGGTTACGAC
Found at i:19617616 original size:15 final size:14
Alignment explanation
Indices: 19617597--19617659 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
19617587 TTATGGCCAT
19617597 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
19617611 TAAAACCCTAAACCA
1 T-AAACCTTAAACCA
* * *
19617626 TAGACCTTAAATCT
1 TAAACCTTAAACCA
** *
19617640 TAAATATTAAACCC
1 TAAACCTTAAACCA
19617654 TAAACC
1 TAAACC
19617660 CAAAAATAAA
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:19617888 original size:46 final size:46
Alignment explanation
Indices: 19617760--19617890 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 46
19617750 TCAACATCCA
* **
19617760 TATGATGTTTTTTGGGGTTTAGGGTTTTAAAAGTTATAGATTAGTGTT
1 TATGAT-TTTTTT-GGGTTTAGGATTTTAAGGGTTATAGATTAGTGTT
** *
19617808 TAGTG-TTTTTAAGGGGTTAGGGATTTTAAGGGTTATAGATTAGTGTT
1 TA-TGATTTTTTTGGGTTTA-GGATTTTAAGGGTTATAGATTAGTGTT
*
19617855 TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATA
1 TATGATTTTTTTGGGTTTAGGATTTTAAGGGTTATA
19617891 TGACTTTTTG
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
46 24 0.34
47 41 0.59
48 3 0.04
49 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (46 bp):
TATGATTTTTTTGGGTTTAGGATTTTAAGGGTTATAGATTAGTGTT
Found at i:19617940 original size:41 final size:41
Alignment explanation
Indices: 19617902--19618031 Score: 203
Period size: 41 Copynumber: 3.2 Consensus size: 41
19617892 GACTTTTTGT
*
19617902 GGCGTTTTGAGCAAAAACGCCGCTATTGCTTAGTTTTTTAGC
1 GGCG-TTTGACCAAAAACGCCGCTATTGCTTAGTTTTTTAGC
19617944 GGCGTTTGACCAAAAACGCCGCTATTGC-TATGTTTTTTAGC
1 GGCGTTTGACCAAAAACGCCGCTATTGCTTA-GTTTTTTAGC
19617985 GGCGTTTGACCAAAAACGCCGCTATTGCTCT-G-TTTTTAGC
1 GGCGTTTGACCAAAAACGCCGCTATTGCT-TAGTTTTTTAGC
19618025 GGCGTTT
1 GGCGTTT
19618032 TTGGTCAAAC
Statistics
Matches: 84, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
40 17 0.20
41 62 0.74
42 4 0.05
43 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (41 bp):
GGCGTTTGACCAAAAACGCCGCTATTGCTTAGTTTTTTAGC
Found at i:19618091 original size:12 final size:12
Alignment explanation
Indices: 19618076--19618102 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19618066 CGTTTTTGAT
19618076 AAAACGCCGCTA
1 AAAACGCCGCTA
19618088 AAAACGCCGCTA
1 AAAACGCCGCTA
19618100 AAA
1 AAA
19618103 CCCTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:19624381 original size:80 final size:79
Alignment explanation
Indices: 19624297--19624468 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
19624287 GGACTAAGAT
*
19624297 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
19624361 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
19624377 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
19624442 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
19624456 CCGAAGGCATTTG
1 CCGAAGGCATTTG
19624469 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:19624448 original size:39 final size:39
Alignment explanation
Indices: 19624297--19624466 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 39
19624287 GGACTAAGAT
*
19624297 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
19624337 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
19624377 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
19624417 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
19624456 CCGAAGGCATT
1 CCGAAGGCATT
19624467 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
39 38 0.32
40 75 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:19624486 original size:79 final size:80
Alignment explanation
Indices: 19624324--19624501 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
19624314 AGATACAAAT
* * * *
19624324 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
19624389 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
19624404 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
19624468 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
19624483 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19624502 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:19635116 original size:46 final size:43
Alignment explanation
Indices: 19635032--19635154 Score: 120
Period size: 46 Copynumber: 2.7 Consensus size: 43
19635022 GACGAGAGCT
* * *
19635032 AGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAAACATGTCTGGGACATGCATC-GGCTCGAGATGT--GCC
* * *
19635078 AGTGTAAAACATGTTTGGGACATGCATCGGCTATGAGATGTGTC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCT-CGAGATGTGCC
* *
19635122 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAA-AACATGTCTGGGACAT-GCATCGGC
19635155 ACAGATATGT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 9 0.14
45 16 0.25
46 40 0.62
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
AGTGTAAAACATGTCTGGGACATGCATCGGCTCGAGATGTGCC
Found at i:19643461 original size:56 final size:56
Alignment explanation
Indices: 19643386--19643494 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 56
19643376 ACCATGGCAT
*
19643386 CGATATATGTGGGCCAGTAAGACCACA-TTTAATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGGGCCAGTAAGA-CAAAGTTTAATACGTTGGCATCGATATGTGACTC
* ** *
19643442 CGATATATGTGTGTGAGTAAGACAAAGTTTAGTACGTTGGCATCGATATGTGA
1 CGATATATGTGGGCCAGTAAGACAAAGTTTAATACGTTGGCATCGATATGTGA
19643495 TTTCAAGTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 3 0.06
56 44 0.94
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (56 bp):
CGATATATGTGGGCCAGTAAGACAAAGTTTAATACGTTGGCATCGATATGTGACTC
Found at i:19651966 original size:27 final size:27
Alignment explanation
Indices: 19651936--19652113 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
19651926 ATATTGAGTC
* *
19651936 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19651963 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19651990 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
19652018 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
19652045 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
19652072 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
19652099 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19652114 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19660102 original size:27 final size:27
Alignment explanation
Indices: 19660072--19660247 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
19660062 ATATTGAGTC
* *
19660072 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19660099 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19660126 CGCACACTTAGTGC-ACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
19660153 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
19660180 CGCACACTTAGTGC-ATCATATTC-TTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
19660206 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
19660233 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19660248 GTACAATTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 28 0.22
27 92 0.73
28 6 0.05
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19660230 original size:53 final size:53
Alignment explanation
Indices: 19660072--19660246 Score: 199
Period size: 54 Copynumber: 3.3 Consensus size: 53
19660062 ATATTGAGTC
* * * * * *
19660072 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ACATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
19660126 CGCACACTTAGTGCACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCACATAGTC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
19660180 CGCACACTTAGTGCATCATATTC-TTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCA-CATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
19660233 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19660247 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
53 44 0.43
54 53 0.51
55 6 0.06
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCACATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:19668230 original size:27 final size:27
Alignment explanation
Indices: 19668200--19668377 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
19668190 ATATTGAGTC
* *
19668200 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19668227 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19668254 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
19668282 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
19668309 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
19668336 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
19668363 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19668378 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19673825 original size:48 final size:49
Alignment explanation
Indices: 19673714--19674038 Score: 413
Period size: 48 Copynumber: 6.6 Consensus size: 49
19673704 GGCCGATGTA
19673714 GATGTGATGAATTGTGAAAGGTGATATATATATGTGATTAAGGCCT-ATGGCC
1 GATGTGATGAA-TGTGAAA-GTG-TATATATATGTGA-TAAGGCCTAATGGCC
19673766 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
*
19673814 -ATGTGATTGAATGTG-AAGTGTATATATATGTGATAAGGCCTAATAGCC
1 GATGTGA-TGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
19673862 GATTGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT-AT-GCC
1 GA-TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
19673908 GATG-GATGAATGTGAAAGTGTATATATATGTGATTGGAAGGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGA-T--AA-GGCCTAATGGCC
*
19673960 GATGTTATGAAGTGGTTGAAAGT-TGATATAATATGTGATAAGG-CTAATGGCC
1 GATGTGATGAA-T-G-TGAAAGTGT-ATAT-ATATGTGATAAGGCCTAATGGCC
19674012 GATGTGATGAAT-TGAAAGTGTATATAT
1 GATGTGATGAATGTGAAAGTGTATATAT
19674039 GGATGAAGTG
Statistics
Matches: 250, Mismatches: 2, Indels: 47
0.84 0.01 0.16
Matches are distributed among these distances:
44 16 0.06
45 2 0.01
46 16 0.06
47 40 0.16
48 52 0.21
49 27 0.11
50 18 0.07
51 10 0.04
52 37 0.15
53 7 0.03
54 3 0.01
55 2 0.01
56 12 0.05
57 8 0.03
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.32
Consensus pattern (49 bp):
GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
Found at i:19673847 original size:109 final size:108
Alignment explanation
Indices: 19673651--19674020 Score: 372
Period size: 109 Copynumber: 3.6 Consensus size: 108
19673641 GTATGGCGTA
*
19673651 ATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGGGCCTAATGGCCGATGTAGA
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA-GGGCCTAATGGCCGATGTAGA
*
19673716 TGTGATGAATTGTGAAAGGTGATATATATATGTGATTAAGGCCT
65 TGTGATGAAGTGTGAAAGGTGATATATATATGTGATTAAGGCCT
19673760 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA-GGCCTAAT-GCC-ATGT-GA-
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGGCCTAATGGCCGATGTAGAT
19673820 -T--TGAA-TGTG-AA-GTG-TATATATATGTGA-TAAGGCCT
66 GTGATGAAGTGTGAAAGGTGATATATATATGTGATTAAGGCCT
*
19673855 AATAGCCGATTGTGATGAATGTGAAAGTG--TATATATGTGATAA-GGCCT-AT-GCC------G
1 -ATGGCCGA-TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGGCCTAATGGCCGATGTAG
19673909 ATG-GATGAA-TGTGAAA-GTG-TATATATATGTGATTGGAAGGGCCT
64 ATGTGATGAAGTGTGAAAGGTGATATATATATGTGATT--AA-GGCCT
*
19673953 AATGGCCGATGTTATGAAGTGGTTGAAAGT-TGATATAATATGTGATAA-GG-CTAATGGCCGAT
1 -ATGGCCGATGTGATGAA-T-G-TGAAAGTGT-ATAT-ATATGTGATAAGGGCCTAATGGCCGAT
19674015 GT-GATG
60 GTAGATG
19674021 AATTGAAAGT
Statistics
Matches: 232, Mismatches: 4, Indels: 50
0.81 0.01 0.17
Matches are distributed among these distances:
90 2 0.01
93 8 0.03
94 23 0.10
95 28 0.12
96 20 0.09
97 32 0.14
98 16 0.07
99 5 0.02
100 11 0.05
102 6 0.03
103 15 0.06
104 5 0.02
105 4 0.02
106 3 0.01
107 8 0.03
109 46 0.20
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (108 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGGCCTAATGGCCGATGTAGAT
GTGATGAAGTGTGAAAGGTGATATATATATGTGATTAAGGCCT
Found at i:19674054 original size:24 final size:23
Alignment explanation
Indices: 19674017--19674064 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
19674007 TGGCCGATGT
*
19674017 GATGAATTGAAAGTGTATATATG
1 GATGAATGGAAAGTGTATATATG
*
19674040 GATGAAGTGGAAAGTGTATCTATG
1 GATGAA-TGGAAAGTGTATATATG
19674064 G
1 G
19674065 TGATAGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.35, C:0.02, G:0.31, T:0.31
Consensus pattern (23 bp):
GATGAATGGAAAGTGTATATATG
Found at i:19675278 original size:100 final size:96
Alignment explanation
Indices: 19675074--19675498 Score: 552
Period size: 100 Copynumber: 4.3 Consensus size: 96
19675064 GGGATAGGGG
* * * ** * *
19675074 TGTTACAAAC-TGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTCCCAGACATGGTCT
1 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCT
*
19675138 TACACTAGCTCTCATATAAATGCCCGATTGCCA
66 TACACTAGCTCTCATATAAATG-CCGA-TACCA
*
19675171 TGTTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGTCCGATGCCATGTCCCAGACATGGT
1 TG-TTCCAAACATGGTCTTACACTGGCTCACATATCGAGG-CCGATGCCATGTCCCAGACATGGT
* *
19675236 CTTACACTAGCTTCTCATATTAAAATGTCGATACTA
64 CTTACACTAGC-TCTCATA-T-AAATGCCGATACCA
*
19675272 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCCGATACCATGTCCCAGACATGGTC
1 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGG-CCGATGCCATGTCCCAGACATGGTC
*
19675337 TGTACACTAGCTCTCATTTAAATGCCGATACCA
65 T-TACACTAGCTCTCATATAAATGCCGATACCA
*
19675370 TGTTCCAAACATGGTCTTACACTGGCTCACATTATCGAGGCC-ATGCCCAATGTCCCAGGCATGG
1 TGTTCCAAACATGGTCTTACACTGGCTCACA-TATCGAGGCCGATG-CC-ATGTCCCAGACATGG
* * * *
19675434 TCTTATACAAGCTCTCATATAAATGCTGATGCCA
63 TCTTACACTAGCTCTCATATAAATGCCGATACCA
19675468 TGTTCC-AACAT-GTCTTACACTGGCTCACATA
1 TGTTCCAAACATGGTCTTACACTGGCTCACATA
19675499 CCCCTAGTAT
Statistics
Matches: 296, Mismatches: 22, Indels: 22
0.87 0.06 0.06
Matches are distributed among these distances:
95 2 0.01
96 18 0.06
97 9 0.03
98 86 0.29
99 50 0.17
100 101 0.34
101 21 0.07
102 4 0.01
103 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (96 bp):
TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCT
TACACTAGCTCTCATATAAATGCCGATACCA
Found at i:19675336 original size:49 final size:48
Alignment explanation
Indices: 19675084--19675498 Score: 368
Period size: 49 Copynumber: 8.5 Consensus size: 48
19675074 TGTTACAAAC
* * *
19675084 TGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTCCCAGACA
1 TGGTCTTACACTAGCTCACATATAAATGCCGATACCATGTCCCAGACA
* * * *
19675132 TGGTCTTACACTAGCTCTCATATAAATGCCCGATTGCCATGTTTCCAAACA
1 TGGTCTTACACTAGCTCACATATAAATG-CCGA-TACCATG-TCCCAGACA
** * *
19675183 TGGTCTTACACTAGCTCACATATCGAGGTCCGATGCCATGTCCCAGACA
1 TGGTCTTACACTAGCTCACATATAAATG-CCGATACCATGTCCCAGACA
* * * * *
19675232 TGGTCTTACACTAGCTTCTCATATTAAAATGTCGATACTATGTTCCAAACA
1 TGGTCTTACACTAGC-TCACATA-T-AAATGCCGATACCATGTCCCAGACA
* ** *
19675283 TGGTCTTACACTGGCTCACATATCGAGGCCCGATACCATGTCCCAGACA
1 TGGTCTTACACTAGCTCACATATAAATG-CCGATACCATGTCCCAGACA
* * * *
19675332 TGGTCTGTACACTAGCTCTCATTTAAATGCCGATACCATGTTCCAAACA
1 TGGTCT-TACACTAGCTCACATATAAATGCCGATACCATGTCCCAGACA
* ** * * *
19675381 TGGTCTTACACTGGCTCACATTATCGAGGCC-ATGCCCAATGTCCCAGGCA
1 TGGTCTTACACTAGCTCACA-TATAAATGCCGAT-ACC-ATGTCCCAGACA
* * * * * *
19675431 TGGTCTTATACAAGCTCTCATATAAATGCTGATGCCATGTTCCA-ACA
1 TGGTCTTACACTAGCTCACATATAAATGCCGATACCATGTCCCAGACA
*
19675478 T-GTCTTACACTGGCTCACATA
1 TGGTCTTACACTAGCTCACATA
19675499 CCCCTAGTAT
Statistics
Matches: 294, Mismatches: 61, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
46 16 0.05
47 3 0.01
48 51 0.17
49 88 0.30
50 69 0.23
51 65 0.22
52 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (48 bp):
TGGTCTTACACTAGCTCACATATAAATGCCGATACCATGTCCCAGACA
Found at i:19702448 original size:29 final size:29
Alignment explanation
Indices: 19702415--19702472 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
19702405 GTTATTGTAG
19702415 GTAGACTTCCATCTCCCTTTACATCCCTT
1 GTAGACTTCCATCTCCCTTTACATCCCTT
19702444 GTAGACTTCCATCTCCCTTTACATCCCTT
1 GTAGACTTCCATCTCCCTTTACATCCCTT
19702473 CTTTTGTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.38, G:0.07, T:0.38
Consensus pattern (29 bp):
GTAGACTTCCATCTCCCTTTACATCCCTT
Found at i:19707167 original size:27 final size:27
Alignment explanation
Indices: 19707137--19707314 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19707127 ATATTGAGTC
* * * *
19707137 CGCACACTCAGTGCTATATAATCAAGT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19707164 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19707191 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19707219 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19707246 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19707273 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19707300 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19707315 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19707276 original size:82 final size:81
Alignment explanation
Indices: 19707158--19707313 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19707148 TGCTATATAA
* *
19707158 TCAAGTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAAGTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19707223 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19707240 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAAGTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19707304 CACTTAGTGC
65 CACTTAGTGC
19707314 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAAGTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19725127 original size:51 final size:43
Alignment explanation
Indices: 19725122--19725209 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
19725112 ACATGAGTCG
* * *
19725122 CATCCATTATGAACTCGGGCCTCTCAACGAGCTTGGATGCTCA
1 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTCA
*
19725165 CATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGC-CA
1 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTCA
19725207 CAT
1 CAT
19725210 ATCTTACGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTCA
Found at i:19727281 original size:49 final size:49
Alignment explanation
Indices: 19727204--19727440 Score: 289
Period size: 49 Copynumber: 4.8 Consensus size: 49
19727194 TAGCCAAAGC
* *
19727204 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* * ** *
19727253 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACC-AAT
* * * *
19727303 CATCTGATACACGTAGTAGCCT-CACTTAGTACTACACACGTG-ATCAAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-T
* * * *
19727353 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
19727402 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
19727441 CGTGACCTCA
Statistics
Matches: 156, Mismatches: 26, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
49 97 0.62
50 42 0.27
51 17 0.11
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:19727371 original size:100 final size:99
Alignment explanation
Indices: 19727217--19727445 Score: 320
Period size: 100 Copynumber: 2.3 Consensus size: 99
19727207 CTGGTACGCA
* * *
19727217 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAATTATCCGGTACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTG-AACAAATTATCAGGTACACATAGTAGCCTGCACT
*
19727280 TAGTACTACACACGTGACCTAACCATCTGATACACG
65 TAGTACTACACACGCGACC-AACCATCTGATACACG
* *
19727316 TAGTAGCCT-CACTTAGTACTACACACGTGATCAAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGAACAAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** *
19727380 TAGTACTACACATGCGACCAATTATCTGGTACACG
65 TAGTACTACACACGCGACCAACCATCTGATACACG
19727415 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
19727446 CCTCACGATA
Statistics
Matches: 116, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
98 16 0.14
99 35 0.30
100 65 0.56
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGAACAAATTATCAGGTACACATAGTAGCCTGCACTT
AGTACTACACACGCGACCAACCATCTGATACACG
Found at i:19742786 original size:15 final size:16
Alignment explanation
Indices: 19742752--19742798 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19742742 GAAATATTTT
*
19742752 AATATAATTTAATATAAA
1 AATAT-ATTAAAT-TAAA
*
19742770 AATA-ATTATATTAAA
1 AATATATTAAATTAAA
19742785 AATATATTAAATTA
1 AATATATTAAATTA
19742799 TATATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 8 0.32
16 13 0.52
18 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATATTAAATTAAA
Found at i:19743088 original size:16 final size:16
Alignment explanation
Indices: 19743067--19743122 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
19743057 TGAATTACTG
19743067 ATTACAGCTTTATTAT
1 ATTACAGCTTTATTAT
* * *
19743083 ATTACAACTATATTTT
1 ATTACAGCTTTATTAT
* *
19743099 ATTACAGTTTTATTCT
1 ATTACAGCTTTATTAT
19743115 ATTACAGC
1 ATTACAGC
19743123 AAACCAAACG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.48
Consensus pattern (16 bp):
ATTACAGCTTTATTAT
Found at i:19749988 original size:21 final size:21
Alignment explanation
Indices: 19749922--19749989 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
19749912 ACACATGCCT
19749922 GTGTGGTCAAGGGACACGCCC
1 GTGTGGTCAAGGGACACGCCC
* * *
19749943 ATGTAGTCAAGGGACATGCCC
1 GTGTGGTCAAGGGACACGCCC
*
19749964 GTGTGGTCAAGGGACACGCCT
1 GTGTGGTCAAGGGACACGCCC
19749985 GTGTG
1 GTGTG
19749990 ACCCTATGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.19
Consensus pattern (21 bp):
GTGTGGTCAAGGGACACGCCC
Found at i:19752266 original size:93 final size:93
Alignment explanation
Indices: 19752156--19752326 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
19752146 GCCCCTAAGT
* * *
19752156 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19752221 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
19752249 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19752314 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19752327 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:19752323 original size:46 final size:46
Alignment explanation
Indices: 19752151--19752323 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
19752141 AACCCGCCCC
* * * * *
19752151 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
19752197 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
19752245 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
19752290 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19752324 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:19754748 original size:15 final size:16
Alignment explanation
Indices: 19754722--19754784 Score: 69
Period size: 15 Copynumber: 4.1 Consensus size: 16
19754712 CAAGAAAACC
19754722 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCAA
* *
19754738 G-ATAGAGAAAT-CTA
1 GAATAAAGAAATCCAA
19754752 GAATAAAGAAATCC-A
1 GAATAAAGAAATCCAA
* *
19754767 GAATATAGAAACCCAA
1 GAATAAAGAAATCCAA
19754783 GA
1 GA
19754785 TACGATACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 3 0.08
15 31 0.79
16 5 0.13
ACGTcount: A:0.57, C:0.13, G:0.16, T:0.14
Consensus pattern (16 bp):
GAATAAAGAAATCCAA
Found at i:19757857 original size:93 final size:93
Alignment explanation
Indices: 19757748--19757918 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
19757738 GCCCATAAGT
* * *
19757748 GAACTCAGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
19757813 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
19757841 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19757906 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19757919 TTAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:19757934 original size:46 final size:47
Alignment explanation
Indices: 19757740--19757915 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 47
19757730 TGTAACCCGC
* * *
19757740 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGG-GCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
19757786 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* * * *
19757836 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
19757879 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19757916 TGCTTAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.57
47 27 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:19762359 original size:27 final size:27
Alignment explanation
Indices: 19762329--19762588 Score: 313
Period size: 27 Copynumber: 9.6 Consensus size: 27
19762319 TTAGTTTACC
19762329 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
19762356 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
19762383 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
19762410 AAATTCCCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
19762437 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * * *
19762464 AAATTACTAGAATACCCTTTGTTTATT
1 AAATTACCAAAATACCCCTGGTTTGTA
*
19762491 AAATTACCAAAATATCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
19762518 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
19762545 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
19762572 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
19762589 TCGACCTGTA
Statistics
Matches: 194, Mismatches: 39, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 194 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:19762394 original size:54 final size:54
Alignment explanation
Indices: 19762329--19762589 Score: 362
Period size: 54 Copynumber: 4.8 Consensus size: 54
19762319 TTAGTTTACC
19762329 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
19762383 AAATCACCAAAATACCCCTAGTTTGTAAAATTCCCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
19762437 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTTGTTTATT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
19762491 AAATTACCAAAATATCCCTGGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
** * *
19762545 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
19762590 CGACCTGTAA
Statistics
Matches: 180, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 178 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:19762585 original size:81 final size:80
Alignment explanation
Indices: 19762329--19762634 Score: 319
Period size: 81 Copynumber: 3.8 Consensus size: 80
19762319 TTAGTTTACC
* * *
19762329 AAATTACCAAAATACCCCTGGTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTATC-AAAATACCCCTGGTTTGTAAAATTACCAA
19762393 AATACCCCTAGTTTGTA
64 AATACCCCTAGTTTGTA
* ** * * *
19762410 AAATTCCCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGA
1 AAATTACCAAAATACCC-TGGTTTGTAAAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAA
* * * *
19762475 ATACCCTTTGTTTATT
65 ATACCCCTAGTTTGTA
*
19762491 AAATTACCAAAATATCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
19762556 ATACCCCTAATTTGTG
65 ATACCCCTAGTTTGTA
** *** ** **
19762572 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCA
1 AAATTACCAAAATACCCT-GGTTTGTAAAATTATCAAAATACCCCT-GGTTTGTAAAATTACCA
19762635 TAGTACCTTG
Statistics
Matches: 186, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
80 11 0.06
81 171 0.92
82 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (80 bp):
AAATTACCAAAATACCCTGGTTTGTAAAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAAA
TACCCCTAGTTTGTA
Found at i:19762599 original size:54 final size:54
Alignment explanation
Indices: 19762329--19762659 Score: 330
Period size: 54 Copynumber: 6.1 Consensus size: 54
19762319 TTAGTTTACC
*
19762329 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGATTTATA
* * * * * *
19762383 AAATCACCAAAATACCCCTAGTTTGTAAAATTCCCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGATTTATA
* *
19762437 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTTG-TTTATT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC-TTGATTTATA
* * *
19762491 AAATTACCAAAATATCCCTGGTTTGTAAAATTA-TCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTTGA-TTTATA
** * * * ** *
19762545 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGATTTATA
*** ** * * *
19762599 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCATAGTA-CCTTGATTTATA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACTAAAATACCCTTGATTTATA
*
19762652 GAATTACC
1 AAATTACC
19762660 GTTTTACCCT
Statistics
Matches: 227, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
53 19 0.08
54 203 0.89
55 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGATTTATA
Found at i:19762602 original size:27 final size:27
Alignment explanation
Indices: 19762572--19762632 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
19762562 CTAATTTGTG
19762572 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
19762599 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
19762626 AAATTAC
1 AAATTAC
19762633 CATAGTACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:19762694 original size:27 final size:27
Alignment explanation
Indices: 19762572--19762695 Score: 90
Period size: 27 Copynumber: 4.6 Consensus size: 27
19762562 CTAATTTGTG
* * *
19762572 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCGAAATACCCTCGACTTATA
** *
19762599 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGACTTATA
* * *
19762626 AAATTACC-ATAGTA-CCTTGATTTATA
1 AAATTACCGA-AATACCCTCGACTTATA
* *** * *
19762652 GAATTACCGTTTTACCCTCGATTTAAA
1 AAATTACCGAAATACCCTCGACTTATA
19762679 AAATTACCGAAATACCC
1 AAATTACCGAAATACCC
19762696 CTGTAGGTTA
Statistics
Matches: 76, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
26 19 0.25
27 57 0.75
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGACTTATA
Found at i:19762710 original size:27 final size:27
Alignment explanation
Indices: 19762680--19762910 Score: 327
Period size: 27 Copynumber: 8.6 Consensus size: 27
19762670 CGATTTAAAA
*
19762680 AATTACCGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
19762707 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19762734 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
19762761 AATTACCGGAATATCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19762788 AATTACCGAAACACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
19762815 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
19762842 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
19762869 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19762896 AATTACCGAGATACC
1 AATTACCGAAATACC
19762911 TTCTGGGGTA
Statistics
Matches: 177, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 177 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:19763388 original size:22 final size:22
Alignment explanation
Indices: 19763358--19763419 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
19763348 AAGCCTTCTG
* *
19763358 ATTATGGCTTTGTGTCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
19763380 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
19763402 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
19763420 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:19763616 original size:27 final size:27
Alignment explanation
Indices: 19763584--19763678 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
19763574 TTAAGTGGTT
* *
19763584 TGCCACATTATCTGTTTTTGGTGGCTA
1 TGCCACAATATCTGTTTCTGGTGGCTA
*
19763611 TGCCACAACTATCTG-TTCTGGTGGCTC
1 TGCCACAA-TATCTGTTTCTGGTGGCTA
* * *
19763638 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTTTCTGGTGGCTA
*
19763665 TGTCACAATATCTG
1 TGCCACAATATCTG
19763679 ATAACTGAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 6 0.10
27 48 0.80
28 6 0.10
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (27 bp):
TGCCACAATATCTGTTTCTGGTGGCTA
Found at i:19763853 original size:6 final size:6
Alignment explanation
Indices: 19763815--19763959 Score: 86
Period size: 6 Copynumber: 23.3 Consensus size: 6
19763805 TTGCATTCAC
* * *
19763815 ATTCTG ATTTTTG ATTCTG -TTACTTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
19763865 -TTACCTG ATACTG ATTCTG ATAT-TG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG AT-TCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
19763915 ATTCTG -TCACCTG ATTCTG ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
19763960 AATGTTTCTT
Statistics
Matches: 108, Mismatches: 14, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
5 9 0.08
6 76 0.70
7 19 0.18
8 4 0.04
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:19763861 original size:31 final size:31
Alignment explanation
Indices: 19763815--19763950 Score: 185
Period size: 31 Copynumber: 4.5 Consensus size: 31
19763805 TTGCATTCAC
*
19763815 ATTCTGATTTTTGATTCTGTTACTTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
19763847 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
19763878 ATTCTGATATTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
19763909 ATTC------TGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
19763934 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
19763951 AGTTCTGATA
Statistics
Matches: 94, Mismatches: 4, Indels: 13
0.85 0.04 0.12
Matches are distributed among these distances:
25 23 0.24
31 64 0.68
32 7 0.07
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:19763872 original size:25 final size:25
Alignment explanation
Indices: 19763844--19763942 Score: 108
Period size: 25 Copynumber: 3.7 Consensus size: 25
19763834 TTACTTGATA
*
19763844 CTGATTCTGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
*
19763869 CTGATACTGATTCTGATATTGATTCTGTTAC
1 CTGATTCTGATTC------TGATTCTGTTAC
* *
19763900 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTTAC
19763925 CTGATTCTGATTCTGATT
1 CTGATTCTGATTCTGATT
19763943 TTGATTCTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
25 39 0.61
31 25 0.39
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTTAC
Found at i:19766628 original size:5 final size:5
Alignment explanation
Indices: 19766618--19766668 Score: 93
Period size: 5 Copynumber: 10.2 Consensus size: 5
19766608 ATTTTAATAT
*
19766618 TATTA TATTA TATTA TATTA TATTA TATCA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
19766668 T
1 T
19766669 TAAGTATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:19773272 original size:18 final size:18
Alignment explanation
Indices: 19773227--19773284 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
19773217 TATTATAATA
* *
19773227 ATATAATAA-TATATTAT
1 ATATATTAAGTATTTTAT
19773244 AT-TATTAAGTATTTATAT
1 ATATATTAAGTATTT-TAT
19773262 ATATATT-AGTATTTTAT
1 ATATATTAAGTATTTTAT
*
19773279 ACATAT
1 ATATAT
19773285 GTACATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 5 0.14
17 14 0.40
18 12 0.34
19 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (18 bp):
ATATATTAAGTATTTTAT
Found at i:19773277 original size:19 final size:19
Alignment explanation
Indices: 19773241--19773284 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
19773231 AATAATATAT
19773241 TATAT-TATTAAGTATTTA
1 TATATATATTAAGTATTTA
19773259 TATATATATT-AGTATTT-
1 TATATATATTAAGTATTTA
*
19773276 TATACATAT
1 TATATATAT
19773285 GTACATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (19 bp):
TATATATATTAAGTATTTA
Found at i:19774419 original size:25 final size:25
Alignment explanation
Indices: 19774389--19774440 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
19774379 TAAAATGTAA
*
19774389 ATTATTGAACTGAAAATGCCAAAAT
1 ATTATTGAACTAAAAATGCCAAAAT
*
19774414 ATTATTGAACTAAAAATGCCAACAT
1 ATTATTGAACTAAAAATGCCAAAAT
19774439 AT
1 AT
19774441 ATGCTAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (25 bp):
ATTATTGAACTAAAAATGCCAAAAT
Found at i:19774834 original size:34 final size:34
Alignment explanation
Indices: 19774785--19774850 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
19774775 GATAATCCAA
*
19774785 AACAACATTACGTCTCGTAAATCAATCTAACCAC
1 AACAACATTACGTCTCATAAATCAATCTAACCAC
* *
19774819 AACAATATTATGTCTCATAAATCAATCTAACC
1 AACAACATTACGTCTCATAAATCAATCTAACC
19774851 CCATAATAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.27
Consensus pattern (34 bp):
AACAACATTACGTCTCATAAATCAATCTAACCAC
Found at i:19775185 original size:106 final size:106
Alignment explanation
Indices: 19775000--19775214 Score: 360
Period size: 106 Copynumber: 2.0 Consensus size: 106
19774990 TGTTTCAAAA
* * * * *
19775000 TACACAACCTTAAGACTTAAACCCTCGACGACTTTAGTGTAGATATAAGATTTAGTTGACCTCAG
1 TACACAACCTCAAGACTTAAACCCTCCACGACTTTAGTGCAAAAATAAGATTTAGTTGACCTCAG
19775065 ATAATTTAACACATAAATATTGTTTCCAAGGAAAGAAAATT
66 ATAATTTAACACATAAATATTGTTTCCAAGGAAAGAAAATT
*
19775106 TACACAACCTCAAGACTTAAACCCTCCACGACTTTAGTGCAAAAATAAGATTTAGTTGACC-CTG
1 TACACAACCTCAAGACTTAAACCCTCCACGACTTTAGTGCAAAAATAAGATTTAGTTGACCTC-A
19775170 GATAATTTAACACATAAATATTGTTTCCAAGGAAAGAAAATT
65 GATAATTTAACACATAAATATTGTTTCCAAGGAAAGAAAATT
19775212 TAC
1 TAC
19775215 TCATTTTGAC
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 1 0.01
106 101 0.99
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.29
Consensus pattern (106 bp):
TACACAACCTCAAGACTTAAACCCTCCACGACTTTAGTGCAAAAATAAGATTTAGTTGACCTCAG
ATAATTTAACACATAAATATTGTTTCCAAGGAAAGAAAATT
Found at i:19777447 original size:816 final size:814
Alignment explanation
Indices: 19775859--19777490 Score: 2383
Period size: 816 Copynumber: 2.0 Consensus size: 814
19775849 TAGTTTGGAA
** * ** * *
19775859 TGTAACATCTTGAAATAGGGCCTAGTCAGAATGGTGGTTTTTGGCCCACAAATCTGACATCAAAA
1 TGTAACATCCCGAAATAGGGCCTAGTCAGAATAGTGGTTTCAGGACCACAAATCCGACATCAAAA
* *
19775924 TATTTATTTTATGATTATTATGAGGCCTAGAATATAAGTATATGCATGTGTTAAAGTTTCATGAA
66 TATTTATTTTATGATTATTATGAGGCCTAGAATATAAGTATATGCATGTGTTAAAATTTCACGAA
** * *
19775989 GAAATTCTTTGAGTAAGGTGTTCAATTGGAAGTTAGGGACTAAATTGAATAAATTGCAAAAATTG
131 GAAATTCTAAGAGTAAGATGTCCAATTGGAAGTTAGGGACTAAATTGAATAAATTGCAAAAATTG
* * *
19776054 AATTCTAGAAGCAATTTGTATGAAATTGCTTTGGGTTATGAATTAGAAGGTCTTGGAGAGCAATT
196 AATTCTAGAAGAAATTTGTATGAAATTGCTTTAGATTATGAATTAGAAGGTCTTGGAGAGCAATT
* * **
19776119 TTCCCAAATTCTAAGTTTTTGGACAAAAATGGGCTTGCATGGATGGAATTTTAAGAAAAAAGTTT
261 TGCCCAAATTCTAAATTTTTGGACAAAAATGGGCTTGCATGGATGGAATTTTAAGAAAAAAGCAT
* * * * *
19776184 AAGGGCATTTTGGTCATTTGGTATTTTAATGAAATAAAATGGGAAAAATGAACCAAAATCAGCCC
326 AAAGGCATTTTGGTCATTAGGCATTTTAATGAAATAAAAAGGGAAAAATGAACAAAAATCAGCCC
* * *** *
19776249 ATTCTCTTCCTTGTCCAGTCGAAACTTCAAGGGTTTCCCTAGCTAGGGTTTTCAAGCTTTCCAAG
391 ATTCTCTTCCTAGTCCA--CAAAACTTCAA-GGACACCATAGCTAGGGTTTTCAA-CTTTCCAAG
*
19776314 CTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTCATGCTTTTTGTATTTTTGAAATCCCAGTAGCT
452 CTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTCATGCTTTTTGTATTTTTGAAATCCCAGTAACT
19776379 TGCTCTCTCCATTTCTACCCATATTTCATGCTAGGGTTAAAGTTTAAAAATTTACCCATGCATGA
517 TGCTCTCTCCATTTCTACCCATATTTCATGCTAGGGTTAAAGTTTAAAAATTTACCCATGCATGA
*
19776444 TTTGCTTGTATTTTGATGGATTATGGAGGAATATGAAAGATGAATGTGTATTAAACATATTTTCC
582 GTTGCTTGTATTTTGATGGATTATGGAGGAATATGAAAGATGAATGTGTATTAAACATATTTTCC
* *
19776509 CAGTTGATTTTCATGAAAAACCCTTATAGGGACTATTTTGCAAAAGATGTAAATGTGTGGTAGAA
647 CAGTTGATTTTCATGAAAAACCCTTATAGAGACCATTTTGCAAAAGATGTAAATGTGTGGTAGAA
* *
19776574 ATGAGAAAATAATGAAACATGTGGGCTACCATAAGAAAGAAAAGTGTTTGACTAGGCTTGGGTAA
712 ATGAGAAAATAATGAAACATGTGGGCTACCATAAGAAAGAAAAATGTTCGACTAGGCTTGGGTAA
19776639 GATAGAAAGTGCATGTGTTTCATTAT-TCGAGCCTAGGG
777 GATAGAAAGTGCATGTGTTTCATTATAT-GAGCCTAGGG
*
19776677 TGTAACATCCCGAAATAGGGCCTAGTCGGAATAGTGGTTTCAGGACCACAAATCCGACATCAAAA
1 TGTAACATCCCGAAATAGGGCCTAGTCAGAATAGTGGTTTCAGGACCACAAATCCGACATCAAAA
* *
19776742 TATTTATTTTATGGTTATTATGAGGCCTATAATATGAA-TATATGCATGTGTTAAAAATTTCACG
66 TATTTATTTTATGATTATTATGAGGCCTAGAATAT-AAGTATATGCATGTGTT-AAAATTTCACG
19776806 AAGAAATTCTAAGTA-TAAGATGTCCAATTGGAA-TTAAGGG-CTAAATTGAATAAATTGCAAAA
129 AAGAAATTCTAAG-AGTAAGATGTCCAATTGGAAGTT-AGGGACTAAATTGAATAAATTGCAAAA
* * *
19776868 CTTGGATTCTAGAAGAAATTTGTATGAAATTTCTTTAGATTATGAATTAGAAGGTCTTGGAGAGC
192 ATTGAATTCTAGAAGAAATTTGTATGAAATTGCTTTAGATTATGAATTAGAAGGTCTTGGAGAGC
* *
19776933 AATTTGCCCAAATTCTAAATTTTTGGACAAAAATGGGCTTGCATGGAT-GAAGTTTTAA-AGAAG
257 AATTTGCCCAAATTCTAAATTTTTGGACAAAAATGGGCTTGCATGGATGGAA-TTTTAAGAAAAA
* * *
19776996 GGCATAAAGGCATTTTGGTCATTAGGCATTTTAATGGAATAAAAAGGG-AAAATGGAGCAAAAAT
321 AGCATAAAGGCATTTTGGTCATTAGGCATTTTAATGAAATAAAAAGGGAAAAAT-GAACAAAAAT
* * * *
19777060 -ATGCTCA-TCTTCTTCCCATAGCTGCA-AAAATTTGGAA-GACACCATAGCTAGGGTTTCTTCA
385 CA-GCCCATTC-TCTT-CC-TAG-TCCACAAAACTT-CAAGGACACCATAGCTAGGG-TT-TTCA
* *
19777121 A-TTTTCAAGCTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTCATGTTTTTTGTATTTTTGAAAT
442 ACTTTCCAAGCTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTCATGCTTTTTGTATTTTTGAAAT
* * * *
19777185 CCCGGTAACTTGCTCTCTCCATTTCTACCCATATTTCATGCTAGGGTTCATGTTTGAAAATTTAC
507 CCCAGTAACTTGCTCTCTCCATTTCTACCCATATTTCATGCTAGGGTTAAAGTTTAAAAATTTAC
*
19777250 CCATGCATGAGTTGCTTGTATTTTGATGGATTATGGAGGGATATGAAAGATGAATGTGTATTAAA
572 CCATGCATGAGTTGCTTGTATTTTGATGGATTATGGAGGAATATGAAAGATGAATGTGTATTAAA
* * *
19777315 CATCTTTTCCTAGTTGATTTTCATGAGAAACCCTTATAGAGACCATTTTGCAAAAGATGTAAATG
637 CATATTTTCCCAGTTGATTTTCATGAAAAACCCTTATAGAGACCATTTTGCAAAAGATGTAAATG
* * *
19777380 TGTGGTAGAAATGAGAAAATAATGGATA-ATGTGGGCTACCATAAGAGAGAAAAATGTTCGGCTA
702 TGTGGTAGAAATGAGAAAATAAT-GAAACATGTGGGCTACCATAAGAAAGAAAAATGTTCGACTA
* *
19777444 GGCTTGGGTAAGATAGAAATTGCATGTGTTTTATTATATGAGCCTAG
766 GGCTTGGGTAAGATAGAAAGTGCATGTGTTTCATTATATGAGCCTAG
19777491 CGACTAAATC
Statistics
Matches: 731, Mismatches: 67, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
816 362 0.50
817 73 0.10
818 248 0.34
819 44 0.06
820 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (814 bp):
TGTAACATCCCGAAATAGGGCCTAGTCAGAATAGTGGTTTCAGGACCACAAATCCGACATCAAAA
TATTTATTTTATGATTATTATGAGGCCTAGAATATAAGTATATGCATGTGTTAAAATTTCACGAA
GAAATTCTAAGAGTAAGATGTCCAATTGGAAGTTAGGGACTAAATTGAATAAATTGCAAAAATTG
AATTCTAGAAGAAATTTGTATGAAATTGCTTTAGATTATGAATTAGAAGGTCTTGGAGAGCAATT
TGCCCAAATTCTAAATTTTTGGACAAAAATGGGCTTGCATGGATGGAATTTTAAGAAAAAAGCAT
AAAGGCATTTTGGTCATTAGGCATTTTAATGAAATAAAAAGGGAAAAATGAACAAAAATCAGCCC
ATTCTCTTCCTAGTCCACAAAACTTCAAGGACACCATAGCTAGGGTTTTCAACTTTCCAAGCTCA
ATAGTAAGTGCTCCCAAGCCCCGTTTTTCATGCTTTTTGTATTTTTGAAATCCCAGTAACTTGCT
CTCTCCATTTCTACCCATATTTCATGCTAGGGTTAAAGTTTAAAAATTTACCCATGCATGAGTTG
CTTGTATTTTGATGGATTATGGAGGAATATGAAAGATGAATGTGTATTAAACATATTTTCCCAGT
TGATTTTCATGAAAAACCCTTATAGAGACCATTTTGCAAAAGATGTAAATGTGTGGTAGAAATGA
GAAAATAATGAAACATGTGGGCTACCATAAGAAAGAAAAATGTTCGACTAGGCTTGGGTAAGATA
GAAAGTGCATGTGTTTCATTATATGAGCCTAGGG
Found at i:19782898 original size:28 final size:28
Alignment explanation
Indices: 19782835--19782988 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
19782825 ATATTAAGTC
* *
19782835 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19782862 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
19782890 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19782918 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
19782946 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
19782974 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19782989 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:19790225 original size:28 final size:28
Alignment explanation
Indices: 19790162--19790312 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
19790152 ATATTAAGTC
* *
19790162 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19790189 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
19790217 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19790245 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
19790273 CGCACACTTAGTGCTACATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
19790300 CG--CACTTAGTGCT
1 CGCACACTTAGTGCT
19790313 GTACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
25 11 0.09
27 27 0.23
28 81 0.68
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:19793842 original size:40 final size:40
Alignment explanation
Indices: 19793794--19793953 Score: 284
Period size: 40 Copynumber: 4.0 Consensus size: 40
19793784 GGACTAAGAT
*
19793794 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
19793834 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
19793874 CCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
19793914 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
19793954 TATATCCGGC
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:19805560 original size:27 final size:28
Alignment explanation
Indices: 19805529--19805581 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
19805519 CTGCCAGAAC
*
19805529 AGATAAT-GTGACAGAGTCACCAGATAT
1 AGATAATCGTGACAGAGCCACCAGATAT
*
19805556 AGATAATCGTGGCAGAGCCACCAGAT
1 AGATAATCGTGACAGAGCCACCAGAT
19805582 CAGGTAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (28 bp):
AGATAATCGTGACAGAGCCACCAGATAT
Found at i:19805577 original size:28 final size:26
Alignment explanation
Indices: 19805522--19805603 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
19805512 AGCATGGCTG
* * *
19805522 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGATCAGATAATGTGGCAGAGCCA
*
19805548 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAAT-GTGGCAGAGCCA
* *
19805576 CCAGATCAGGTAATTGTGGCATAGCCA
1 CCAGATCAGATAA-TGTGGCAGAGCCA
19805603 C
1 C
19805604 TAGGACGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.11
27 24 0.52
28 17 0.37
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGATCAGATAATGTGGCAGAGCCA
Found at i:19805774 original size:28 final size:26
Alignment explanation
Indices: 19805712--19805774 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
19805702 AAAGTACCCC
** *
19805712 TAAGGGTATAATGGTAATTTTACACC
1 TAAGGGTATAACAGTAATTTTACACA
*
19805738 TAAGGGTATAACAGTAATTTTGCATACA
1 TAAGGGTATAACAGTAATTTT--ACACA
19805766 TAAGGGTAT
1 TAAGGGTAT
19805775 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 19 0.61
28 12 0.39
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (26 bp):
TAAGGGTATAACAGTAATTTTACACA
Found at i:19806762 original size:56 final size:56
Alignment explanation
Indices: 19806676--19806795 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
19806666 ACAAGGGATG
*
19806676 ATGGGCAAAACATGTCATGAACCATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
19806732 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
19806788 ATGAGCAA
1 ATGGGCAA
19806796 TAAACTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:19808306 original size:47 final size:47
Alignment explanation
Indices: 19808252--19808801 Score: 768
Period size: 47 Copynumber: 11.6 Consensus size: 47
19808242 TATTTGAATA
*
19808252 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
19808299 AATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
19808348 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
19808397 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
19808444 AACGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
19808493 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
19808540 AATGAGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
19808587 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
19808634 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
19808681 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
19808728 AATGTGAAAGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* ** *
19808775 GATGTGGTAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
19808802 TCCCGAAGGG
Statistics
Matches: 468, Mismatches: 29, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 328 0.70
49 138 0.29
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:19811315 original size:40 final size:40
Alignment explanation
Indices: 19811050--19811431 Score: 332
Period size: 40 Copynumber: 9.6 Consensus size: 40
19811040 TCGAATGATG
* *
19811050 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
19811090 TCCGGACTAAGAT-CCGAA-AGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGA-GCATTCGTGCTAGTGA-TATA
* * * *
19811130 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCAAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * * *
19811170 TTCGGGTTAAGTCCCGAAG-GCATTTGTACGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
19811210 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
** *
19811250 TCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
19811290 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGGGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
19811330 TCCGGGCTAAGTTCCGAAGAGCATT-GTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
19811369 TCCGTGCTAAACCCCGAAGAGCATTCGTGGTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
19811409 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
19811432 ATCATGCTGG
Statistics
Matches: 286, Mismatches: 45, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
39 58 0.20
40 191 0.67
41 30 0.10
42 7 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:19811396 original size:119 final size:120
Alignment explanation
Indices: 19811211--19811439 Score: 325
Period size: 119 Copynumber: 1.9 Consensus size: 120
19811201 GTTACTATAA
* ****
19811211 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTC
* *
19811276 GTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGGGATGTAT
66 GTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGGGATGTAT
* * *
19811331 CCGGGCTAAGTTCCGAAGAGCATT-GTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTC
1 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTC
* * * *
19811395 GTGGTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
66 GTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCT
19811440 GGTGACGTGT
Statistics
Matches: 95, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
119 72 0.76
120 23 0.24
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTC
GTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGGGATGTAT
Found at i:19811411 original size:79 final size:80
Alignment explanation
Indices: 19811206--19811431 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 80
19811196 TACGAGTTAC
* ** * *
19811206 TATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTTCGAAGAG
1 TATATCCGGGCTAAACCCCGAAGAGCATTCATGCTGGTGATGTATCCGGGCTAAGTTCCGAAGAG
19811271 CATTCGTGCTAGTGA
66 CATTCGTGCTAGTGA
* **
19811286 TGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGG-GATGTATCCGGGCTAAGTTCCGAAGA
1 TATATCCGGGCTAAACCCCGAAGAGCATTCATGCT-GGTGATGTATCCGGGCTAAGTTCCGAAGA
19811350 GCATT-GTGCTAGTGA
65 GCATTCGTGCTAGTGA
* * * * * * *
19811365 TATATCCGTGCTAAACCCCGAAGAGCATTCGTGGTGGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 TATATCCGGGCTAAACCCCGAAGAGCATTCATGCTGGTGATGTATCCGGGCTAAGTTCCGAAGAG
19811430 CA
66 CA
19811432 ATCATGCTGG
Statistics
Matches: 130, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
78 2 0.02
79 64 0.49
80 63 0.48
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TATATCCGGGCTAAACCCCGAAGAGCATTCATGCTGGTGATGTATCCGGGCTAAGTTCCGAAGAG
CATTCGTGCTAGTGA
Found at i:19812798 original size:56 final size:56
Alignment explanation
Indices: 19812712--19812831 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
19812702 ACAAGGGATG
*
19812712 ATGGGCAAAACATGTCATGAACCATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
19812768 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
19812824 ATGGGCAA
1 ATGGGCAA
19812832 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:19814369 original size:49 final size:49
Alignment explanation
Indices: 19814285--19814646 Score: 539
Period size: 47 Copynumber: 7.6 Consensus size: 49
19814275 TATTTGAATA
*
19814285 AATGTGAAAGTGTAT-T-TATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
19814332 AATGTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
19814381 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
19814430 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
19814477 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
19814526 AATGTGAACA-TG--CATGTATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
19814573 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
19814620 GATGTGGAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
19814647 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 13, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
46 1 0.00
47 154 0.52
48 2 0.01
49 136 0.46
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:19814391 original size:96 final size:96
Alignment explanation
Indices: 19814285--19814646 Score: 545
Period size: 96 Copynumber: 3.8 Consensus size: 96
19814275 TATTTGAATA
*
19814285 AATGTGAAAGTGTAT-T-TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
* * *
19814348 TATATGCGATAAGGCCTAATGGCCGATGTGATG
64 TATATGAGATAAGGCCGAATGGCCAATGTGATG
* *
19814381 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
19814446 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGAGATAAGGCCGAATGGCCAATGTGATG
*
19814477 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCAT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
19814541 GTATGAGATAAGGCCGAATGGCCAATGTGATG
65 ATATGAGATAAGGCCGAATGGCCAATGTGATG
* *
19814573 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
19814636 AATGTGATAAG
66 TATGAGATAAG
19814647 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
93 1 0.00
94 54 0.22
96 148 0.60
97 2 0.01
98 42 0.17
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:19816937 original size:16 final size:16
Alignment explanation
Indices: 19816916--19816947 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19816906 GCTAAAAGAC
19816916 AAAGAAAAGATGAGCA
1 AAAGAAAAGATGAGCA
*
19816932 AAAGAAGAGATGAGCA
1 AAAGAAAAGATGAGCA
19816948 GAGAATTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.28, T:0.06
Consensus pattern (16 bp):
AAAGAAAAGATGAGCA
Found at i:19822571 original size:15 final size:15
Alignment explanation
Indices: 19822543--19822573 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
19822533 CAATCTTTAT
19822543 AAAATTTTGTTTTTG
1 AAAATTTTGTTTTTG
19822558 AAAATCTTTGTTTTTG
1 AAAAT-TTTGTTTTTG
19822574 TAAACCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (15 bp):
AAAATTTTGTTTTTG
Found at i:19823580 original size:27 final size:26
Alignment explanation
Indices: 19823546--19823656 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
19823536 AGCATGGCTG
* *
19823546 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
19823572 CAGATACAGATAATCGTGGCAGAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
*
19823600 TAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
* *
19823627 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGAACAGATAA-TGTGGCAGAGCCAC
19823654 CAG
1 CAG
19823657 GACACTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 5 0.07
27 54 0.72
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:19823637 original size:54 final size:54
Alignment explanation
Indices: 19823547--19823653 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
19823537 GCATGGCTGC
*
19823547 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACT
1 AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACT
* * *
19823601 AGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCAC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAC
19823654 CAGGACACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACT
Found at i:19824869 original size:16 final size:16
Alignment explanation
Indices: 19824844--19824876 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19824834 CTAAAAGACA
19824844 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
19824860 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
19824876 A
1 A
19824877 GAATTCGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:19833449 original size:93 final size:93
Alignment explanation
Indices: 19833341--19833512 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
19833331 GCCCATAAGT
* * *
19833341 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
19833406 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
19833434 GAACTCAGACTCAACTTAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
19833499 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
19833513 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:19833508 original size:46 final size:46
Alignment explanation
Indices: 19833333--19833508 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
19833323 TGTAACCCGC
* * * *
19833333 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
19833379 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
19833429 CTC-T---CGAACTCAGACTCAACTTAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
19833472 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
19833509 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 62 0.58
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:19835476 original size:30 final size:30
Alignment explanation
Indices: 19835432--19835520 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
19835422 CAAAGATAAC
*
19835432 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
19835461 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
19835491 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
19835521 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:19835480 original size:15 final size:14
Alignment explanation
Indices: 19835432--19835514 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
19835422 CAAAGATAAC
*
19835432 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
19835446 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
19835461 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
19835476 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
19835491 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
19835506 AAGAAACCC
1 AAGAAACCC
19835515 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:19835520 original size:15 final size:15
Alignment explanation
Indices: 19835443--19835520 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
19835433 AGAAAACCGA
19835443 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
19835458 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
19835472 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
19835487 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
19835503 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
19835518 ATA
1 ATA
19835521 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:19838032 original size:40 final size:40
Alignment explanation
Indices: 19837957--19838122 Score: 199
Period size: 40 Copynumber: 4.2 Consensus size: 40
19837947 AACCCAAGTA
* * *
19837957 CCTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * * *
19837996 CCTTCGACACTTAGCCCGGATATAGTAATTCTCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
19838036 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
19838076 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
19838116 CCTTCGG
1 CCTTCGG
19838123 ATCTTAGTCC
Statistics
Matches: 105, Mismatches: 21, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
39 10 0.10
40 95 0.90
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19839578 original size:14 final size:14
Alignment explanation
Indices: 19839556--19839598 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
19839546 TTTCATTTTG
19839556 TAACATAAAATTAT
1 TAACATAAAATTAT
*
19839570 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
19839583 TAACACAAAATAAT
1 TAACATAAAATTAT
19839597 TA
1 TA
19839599 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:19839592 original size:13 final size:13
Alignment explanation
Indices: 19839556--19839594 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
19839546 TTTCATTTTG
19839556 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
19839570 TAGCATAAAATAT
1 TAACATAAAATAT
*
19839583 TAACACAAAATA
1 TAACATAAAATA
19839595 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:19847324 original size:14 final size:14
Alignment explanation
Indices: 19847302--19847344 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
19847292 TTTCATTTTG
19847302 TAACATAAAATTAT
1 TAACATAAAATTAT
*
19847316 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
19847329 TAACACAAAATAAT
1 TAACATAAAATTAT
19847343 TA
1 TA
19847345 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:19847338 original size:13 final size:13
Alignment explanation
Indices: 19847302--19847340 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
19847292 TTTCATTTTG
19847302 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
19847316 TAGCATAAAATAT
1 TAACATAAAATAT
*
19847329 TAACACAAAATA
1 TAACATAAAATA
19847341 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:19847634 original size:1 final size:1
Alignment explanation
Indices: 19847628--19847654 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
19847618 TTTCCGACTA
19847628 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
19847655 CACTGGTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:19854389 original size:12 final size:11
Alignment explanation
Indices: 19854372--19854414 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
19854362 ATGCTATGAG
19854372 TTAAAAAAATA
1 TTAAAAAAATA
19854383 CTTAAAAAAATA
1 -TTAAAAAAATA
*
19854395 TTGAATAAAA-A
1 TT-AAAAAAATA
19854406 TTAAAAAAA
1 TTAAAAAAA
19854415 AGGTGATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 6 0.21
11 5 0.18
12 17 0.61
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:19867443 original size:24 final size:25
Alignment explanation
Indices: 19867411--19867460 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
19867401 GGTAAATTTT
*
19867411 GGCTATCACACGGCCT-GGGACACA
1 GGCTATCACACGGCCTAGCGACACA
19867435 GGCTATCACACGGCCTAGCGACACA
1 GGCTATCACACGGCCTAGCGACACA
19867460 G
1 G
19867461 TCGTGTGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.26, C:0.34, G:0.28, T:0.12
Consensus pattern (25 bp):
GGCTATCACACGGCCTAGCGACACA
Found at i:19872722 original size:71 final size:71
Alignment explanation
Indices: 19872601--19872743 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
19872591 AAATCGTCAC
*
19872601 ACTATTAATATATATTTATGGCATGTATGGCTAGACTCGTACTTTTGCTAGGTTAGTCCTAGAAC
1 ACTATTAATATATATTTATGGCATGTATGGCTAGACTCGTACTTTCGCTAGGTTAGTCCTAGAAC
19872666 TAACTA
66 TAACTA
19872672 ACTATTAATATATATTTATGGCATGTATGGCTAGACTCGTACTTTCGCTAGGTTAGTCCTAGAAC
1 ACTATTAATATATATTTATGGCATGTATGGCTAGACTCGTACTTTCGCTAGGTTAGTCCTAGAAC
19872737 TAACTA
66 TAACTA
19872743 A
1 A
19872744 ACCATGGATC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (71 bp):
ACTATTAATATATATTTATGGCATGTATGGCTAGACTCGTACTTTCGCTAGGTTAGTCCTAGAAC
TAACTA
Found at i:19874348 original size:46 final size:47
Alignment explanation
Indices: 19874140--19874391 Score: 241
Period size: 46 Copynumber: 5.3 Consensus size: 47
19874130 TGGGTAAGGT
*
19874140 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTA-CATC-TCGAG
* * ** * *
19874189 GCCGATGCCATGT-CTCGGACATGGTCTTACACTAGCTCTCACATAACCAT
1 GCCGATGCCATGTCCT-AGACATGGTCTTACACT-G-GCT-ACATCTCGAG
* *
19874239 GCCGATGCCATGTCCTAGACATGGTCTTACACTGAC-ACATCTC-ACA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTACATCTCGA-G
* *
19874285 GCTGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TACATCTCGAG
* *
19874331 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGC-ACTCATCTCGAT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTA--CATCTCGAG
19874377 GCCGATGCCATGTCC
1 GCCGATGCCATGTCC
19874392 CAGGTCTTAC
Statistics
Matches: 171, Mismatches: 20, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
44 13 0.08
45 15 0.09
46 63 0.37
47 8 0.05
48 2 0.01
49 30 0.18
50 32 0.19
51 7 0.04
52 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTACATCTCGAG
Found at i:19885494 original size:25 final size:25
Alignment explanation
Indices: 19885478--19885531 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
19885468 CTCGTATGAT
*
19885478 CTTACTATTATTTAGCTCGGAGGAG
1 CTTACCATTATTTAGCTCGGAGGAG
*
19885503 CTTACCATTATTTAGCTCAGAGGAG
1 CTTACCATTATTTAGCTCGGAGGAG
19885528 CTTA
1 CTTA
19885532 TCGTTTACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (25 bp):
CTTACCATTATTTAGCTCGGAGGAG
Found at i:19892053 original size:54 final size:54
Alignment explanation
Indices: 19891868--19892273 Score: 390
Period size: 54 Copynumber: 7.6 Consensus size: 54
19891858 AACTTACCAT
* * * *
19891868 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* **
19891921 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * *
19891976 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * * **
19892030 TGCCATGCCTTGGCATGGTCTTACATGATACCCGTATCTT-T----C-CA--AA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
** * * * *
19892076 TGCCATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTAT-GAAATCACCAA
1 TGCCATG--CCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* *
19892130 TGCCATGCCTTGGCATGGTCTTACATTG-GA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACA-TGATATCC-TTGCCTTATAG-AACTCATCAA
* * * *
19892185 TGCCATGTCTTGACATGGACTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* *
19892239 TGACATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
19892274 ATCTTACCAA
Statistics
Matches: 288, Mismatches: 45, Indels: 39
0.77 0.12 0.10
Matches are distributed among these distances:
46 9 0.03
47 23 0.08
48 4 0.01
49 1 0.00
52 8 0.03
53 57 0.20
54 96 0.33
55 86 0.30
56 4 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Done.