Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002877.1 Hibiscus syriacus cultivar Beakdansim tig00005931_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 291049
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:13637 original size:20 final size:20
Alignment explanation
Indices: 13564--13620 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
13554 TTTGATTCAT
13564 GAAATATAAGATTATCAATA
1 GAAATATAAGATTATCAATA
13584 GAAATATAAGATTATCAATA
1 GAAATATAAGATTATCAATA
13604 GAAATATAAGATTATCA
1 GAAATATAAGATTATCA
13621 GTGAGAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
GAAATATAAGATTATCAATA
Found at i:14329 original size:25 final size:22
Alignment explanation
Indices: 14301--14364 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 22
14291 TGATTATTAA
*
14301 ATTATTTTTTAAAATTATGTATAAT
1 ATTATTATTT-AAATT-T-TATAAT
14326 ATTA-TATTTAAATTTTATAAT
1 ATTATTATTTAAATTTTATAAT
14347 ATTA-TATTTAAATTTTAT
1 ATTATTATTTAAATTTTAT
14365 TTTAATAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
21 24 0.63
22 1 0.03
23 5 0.13
24 4 0.11
25 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTATTATTTAAATTTTATAAT
Found at i:14336 original size:24 final size:22
Alignment explanation
Indices: 14308--14364 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
14298 TAAATTATTT
14308 TTTAAAATTATGTATAATATTATA
1 TTTAAAATT-T-TATAATATTATA
14332 TTT-AAATTTTATAATATTATA
1 TTTAAAATTTTATAATATTATA
14353 TTT-AAATTTTAT
1 TTTAAAATTTTAT
14365 TTTAATAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 24 0.73
22 1 0.03
23 5 0.15
24 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAAATTTTATAATATTATA
Found at i:14346 original size:21 final size:21
Alignment explanation
Indices: 14320--14364 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
14310 TAAAATTATG
14320 TATAATATTATATTTAAATTT
1 TATAATATTATATTTAAATTT
14341 TATAATATTATATTTAAATTT
1 TATAATATTATATTTAAATTT
14362 TAT
1 TAT
14365 TTTAATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATAATATTATATTTAAATTT
Found at i:14777 original size:48 final size:48
Alignment explanation
Indices: 14702--14797 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
14692 CATCACCCAC
* * *
14702 AATAATGGTTATTAATATCAAATCATCGATTTGCTATAATTCGATAAT
1 AATAATGGTTATTAATATCAAAGCATCGATTTGCTATAAATCAATAAT
* * *
14750 AATAATGGTTGTTAATATCGAAGCATCGATTTGTTATAAATCAATAAT
1 AATAATGGTTATTAATATCAAAGCATCGATTTGCTATAAATCAATAAT
14798 GCAAGATCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (48 bp):
AATAATGGTTATTAATATCAAAGCATCGATTTGCTATAAATCAATAAT
Found at i:20038 original size:19 final size:19
Alignment explanation
Indices: 20016--20059 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
20006 TATAAGGTAG
20016 TATATATATATA-TAG-TATT
1 TATAT-TATATAGTAGATA-T
20035 TATATTATATAGTAGATAT
1 TATATTATATAGTAGATAT
20054 TATATT
1 TATATT
20060 TAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 15 0.65
20 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
TATATTATATAGTAGATAT
Found at i:20102 original size:44 final size:47
Alignment explanation
Indices: 20019--20118 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 47
20009 AAGGTAGTAT
* *
20019 ATATATATATAGTATTTATATTATATAGTAGATATTATATTTAAAA-
1 ATATATATATAGTATTTATATAATATAGTAGATAGTATATTTAAAAC
* *
20065 ATATATATAGTAGT-TTTTTA-AATATA-TATATAGTATATTTAAAATC
1 ATATATATA-TAGTATTTATATAATATAGTAGATAGTATATTTAAAA-C
20111 ATATATAT
1 ATATATAT
20119 TTTTAATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 16 0.34
45 5 0.11
46 22 0.47
47 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (47 bp):
ATATATATATAGTATTTATATAATATAGTAGATAGTATATTTAAAAC
Found at i:20114 original size:23 final size:22
Alignment explanation
Indices: 20019--20118 Score: 96
Period size: 23 Copynumber: 4.5 Consensus size: 22
20009 AAGGTAGTAT
**
20019 ATATATATATAGTAT-TTATATT
1 ATATATATATAGTATATT-TAAA
* *
20041 ATATAGTAGATATTATATTTAAA
1 ATATA-TATATAGTATATTTAAA
* *
20064 A-ATATATATAGTAGTTTTTTAA
1 ATATATATATAGTA-TATTTAAA
20086 ATATATATATAGTATATTTAAA
1 ATATATATATAGTATATTTAAA
20108 ATCATATATAT
1 AT-ATATATAT
20119 TTTTAATTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
21 7 0.11
22 23 0.37
23 31 0.49
24 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (22 bp):
ATATATATATAGTATATTTAAA
Found at i:20287 original size:2 final size:2
Alignment explanation
Indices: 20266--20417 Score: 93
Period size: 2 Copynumber: 77.0 Consensus size: 2
20256 TTATACTTAC
* * *
20266 AT AT CAT AT CT AT GT AT AT AT AT AT AT AT AT A- AT TT AT AT -T
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
20307 AT AT AGT AG AT AT -T AT AT TT AA AA AT AT AT AT AGT AGT -T CT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T A-T AT AT
* * * *
20348 TT AA AT AT AT AT AG A- AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
20389 AT AT AT AT AT -T AT A- AT AT AGT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
20418 TAAAGGTATT
Statistics
Matches: 118, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
1 7 0.06
2 101 0.86
3 10 0.08
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20489 original size:27 final size:27
Alignment explanation
Indices: 20459--20530 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
20449 TTACCTATTC
20459 TATTTTATTTTATTATAATA-TAT-TA
1 TATTTTATTTTATTATAATATTATATA
*
20484 TGTATTTATATTTA-TACTAATATTATATA
1 TAT-TTTAT-TTTATTA-TAATATTATATA
20513 TATTTGTATTTATATTAT
1 TATTT-TATTT-TATTAT
20531 TATTTTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
25 2 0.05
26 7 0.19
27 9 0.24
28 7 0.19
29 10 0.27
30 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (27 bp):
TATTTTATTTTATTATAATATTATATA
Found at i:20534 original size:27 final size:27
Alignment explanation
Indices: 20459--20534 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
20449 TTACCTATTC
* *
20459 TATTTTATTT-TATTATAATATATTATG
1 TATTTTATTTATATTATTAT-TATTATA
* *
20486 TATTTATATTTATACTAATATTA-TATA
1 TATTT-TATTTATATTATTATTATTATA
20513 TATTTGTATTTATATTATTATT
1 TATTT-TATTTATATTATTATT
20535 TTTGTTTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 27 0.68
28 7 0.17
29 6 0.15
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (27 bp):
TATTTTATTTATATTATTATTATTATA
Found at i:21806 original size:19 final size:20
Alignment explanation
Indices: 21766--21806 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21756 ACATTGAGAG
21766 TTTATAAAATAATCATTAAA
1 TTTATAAAATAATCATTAAA
* *
21786 TTTATTAAATTATCA-TAAA
1 TTTATAAAATAATCATTAAA
21805 TT
1 TT
21807 GTGATCGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTATAAAATAATCATTAAA
Found at i:32194 original size:29 final size:31
Alignment explanation
Indices: 32162--32223 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
32152 TATCTATTAG
32162 TAAATTTATAA-TTTTTTAA-AAATAATTTT
1 TAAATTTATAATTTTTTTAAGAAATAATTTT
*
32191 TAAATTTGTAATTTTTTTAATGAAATAATTTT
1 TAAATTTATAATTTTTTTAA-GAAATAATTTT
32223 T
1 T
32224 TAAGATAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 10 0.34
30 8 0.28
32 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
TAAATTTATAATTTTTTTAAGAAATAATTTT
Found at i:40939 original size:16 final size:15
Alignment explanation
Indices: 40906--40948 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
40896 GAAGGTGCGT
*
40906 TGCATACACACA-CA
1 TGCATACATACATCA
40920 TGCATACATACATGCA
1 TGCATACATACAT-CA
40936 TGCATACATACAT
1 TGCATACATACAT
40949 AACCTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 11 0.42
16 15 0.58
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (15 bp):
TGCATACATACATCA
Found at i:44958 original size:37 final size:37
Alignment explanation
Indices: 44886--44958 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
44876 TATATTTTTG
*
44886 ATTTTGTAAAAAAAATTATATAAATATTATGAATTTA
1 ATTTTGTAAAAAAAATTATATAAATATTATCAATTTA
* * *
44923 ATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 ATTTTGTAAAAAAAATTATATAAATATTAT-CAATTT
44959 GAAATATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 13 0.42
37 18 0.58
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
ATTTTGTAAAAAAAATTATATAAATATTATCAATTTA
Found at i:45161 original size:20 final size:20
Alignment explanation
Indices: 45104--45154 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
45094 ATCCTATTCT
*
45104 CTGGTAATCTTTTATTCCTA
1 CTGGTAATCTTTTATTCCCA
45124 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
45144 CTGGTAATCTT
1 CTGGTAATCTT
45155 ACATTCCGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.47
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:45431 original size:25 final size:25
Alignment explanation
Indices: 45397--45449 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
45387 CGTAACATTG
45397 AATAAATTTATGTGATTTATAATTT
1 AATAAATTTATGTGATTTATAATTT
45422 AATAAATTTATGTGATTTATAATTT
1 AATAAATTTATGTGATTTATAATTT
45447 AAT
1 AAT
45450 TTCTTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (25 bp):
AATAAATTTATGTGATTTATAATTT
Found at i:45938 original size:5 final size:5
Alignment explanation
Indices: 45928--45952 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45918 CATCAATAAT
45928 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
45953 TTCATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:46508 original size:14 final size:14
Alignment explanation
Indices: 46489--46519 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46479 CCCTGACTAA
46489 TAAAATATTGTAGT
1 TAAAATATTGTAGT
46503 TAAAATATTGTAGT
1 TAAAATATTGTAGT
46517 TAA
1 TAA
46520 TATTGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TAAAATATTGTAGT
Found at i:46523 original size:12 final size:13
Alignment explanation
Indices: 46491--46524 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
46481 CTGACTAATA
46491 AAATATTGTAGTT
1 AAATATTGTAGTT
46504 AAAATATTGTAGTT
1 -AAATATTGTAGTT
46518 -AATATTG
1 AAATATTG
46525 AAAACTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
14 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
AAATATTGTAGTT
Found at i:46691 original size:14 final size:14
Alignment explanation
Indices: 46672--46702 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46662 ACCCAAAAAA
46672 TAAAATATTGTAGT
1 TAAAATATTGTAGT
46686 TAAAATATTGTAGT
1 TAAAATATTGTAGT
46700 TAA
1 TAA
46703 TATTGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TAAAATATTGTAGT
Found at i:46706 original size:12 final size:13
Alignment explanation
Indices: 46674--46707 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
46664 CCAAAAAATA
46674 AAATATTGTAGTT
1 AAATATTGTAGTT
46687 AAAATATTGTAGTT
1 -AAATATTGTAGTT
46701 -AATATTG
1 AAATATTG
46708 AAAAATTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
14 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
AAATATTGTAGTT
Found at i:46863 original size:12 final size:13
Alignment explanation
Indices: 46840--46870 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
46830 TGTAAAGATA
46840 TTTGATTACTAAT
1 TTTGATTACTAAT
46853 TTTGATT-CTAAT
1 TTTGATTACTAAT
46865 TTTGAT
1 TTTGAT
46871 CATTACCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (13 bp):
TTTGATTACTAAT
Found at i:46905 original size:14 final size:14
Alignment explanation
Indices: 46886--46933 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
46876 CCCCGACTAA
46886 TAAAATATTGTAGT
1 TAAAATATTGTAGT
46900 TAAAATATTGTAGT
1 TAAAATATTGTAGT
46914 T--AATATTGTAGT
1 TAAAATATTGTAGT
46926 TAAAATAT
1 TAAAATAT
46934 GATACTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.38
14 20 0.62
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (14 bp):
TAAAATATTGTAGT
Found at i:46920 original size:12 final size:12
Alignment explanation
Indices: 46889--46928 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
46879 CGACTAATAA
46889 AATATTGTAGTT
1 AATATTGTAGTT
46901 AAAATATTGTAGTT
1 --AATATTGTAGTT
46915 AATATTGTAGTT
1 AATATTGTAGTT
46927 AA
1 AA
46929 AATATGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 14 0.54
14 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (12 bp):
AATATTGTAGTT
Found at i:47195 original size:14 final size:14
Alignment explanation
Indices: 47176--47206 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
47166 ACCCAAAAAA
47176 TAAAATATTGTAGT
1 TAAAATATTGTAGT
47190 TAAAATATTGTAGT
1 TAAAATATTGTAGT
47204 TAA
1 TAA
47207 TATTGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TAAAATATTGTAGT
Found at i:47210 original size:12 final size:13
Alignment explanation
Indices: 47178--47211 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
47168 CCAAAAAATA
47178 AAATATTGTAGTT
1 AAATATTGTAGTT
47191 AAAATATTGTAGTT
1 -AAATATTGTAGTT
47205 -AATATTG
1 AAATATTG
47212 AAAAATTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
14 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
AAATATTGTAGTT
Found at i:48570 original size:34 final size:35
Alignment explanation
Indices: 48509--48577 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
48499 ATGTGCAGGG
*
48509 GGGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATACCCCCTGGGGGGTATCGATTCCCC
*
48544 GGGAATAGATACCCCCT-GGGGGTATCGATTCCCC
1 GGGAACAGATACCCCCTGGGGGGTATCGATTCCCC
48578 CCTAAATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.20
Consensus pattern (35 bp):
GGGAACAGATACCCCCTGGGGGGTATCGATTCCCC
Found at i:51921 original size:3 final size:3
Alignment explanation
Indices: 51913--51951 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
51903 ACGAGTACAA
*
51913 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
51952 GTAAAGGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53255 original size:30 final size:30
Alignment explanation
Indices: 53168--53245 Score: 140
Period size: 30 Copynumber: 2.6 Consensus size: 30
53158 TTTAAGAGAT
53168 GAACACGGCAA-CCCGATTCAACTCACCGAC
1 GAACACGGCAACCCCG-TTCAACTCACCGAC
53198 GAACACGGCAACCCCGTTCAACTCACCGAC
1 GAACACGGCAACCCCGTTCAACTCACCGAC
53228 GAACACGGCAACCCCGTT
1 GAACACGGCAACCCCGTT
53246 TATGTCACCG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 43 0.91
31 4 0.09
ACGTcount: A:0.31, C:0.41, G:0.18, T:0.10
Consensus pattern (30 bp):
GAACACGGCAACCCCGTTCAACTCACCGAC
Found at i:67185 original size:2 final size:2
Alignment explanation
Indices: 67180--67205 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
67170 AATTGAATTA
67180 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
67206 TAAGTACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68047 original size:43 final size:45
Alignment explanation
Indices: 67999--68183 Score: 116
Period size: 44 Copynumber: 4.2 Consensus size: 45
67989 AAGCTCCTAA
* * *
67999 TTTTTTT-AATCTCACTTTTTTAAC-TTATAATTGAGGCCCT-TAGG
1 TTTTTTTCAATCTCAC-TTTCTAACTTTATAATTAAGG-CCTATACG
* *
68043 TTTTTTTCAATCACACTTTCTATCTTTATAATTAAGGCCTATACG
1 TTTTTTTCAATCTCACTTTCTAACTTTATAATTAAGGCCTATACG
* * * * *
68088 -TTTTTTCAATCTCGA--TTATATCTTTATAATTGAGACCCTA-A-T
1 TTTTTTTCAATCTC-ACTTTCTAACTTTATAATTAAG-GCCTATACG
* * * * *** *
68130 TTTTTTTAAATCTCAATTTTTACCTTTATAATTAAATTCTATAAG
1 TTTTTTTCAATCTCACTTTCTAACTTTATAATTAAGGCCTATACG
68175 TTTTTTTCA
1 TTTTTTTCA
68184 TAAAATTCTC
Statistics
Matches: 112, Mismatches: 19, Indels: 19
0.75 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 33 0.29
44 48 0.43
45 30 0.27
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (45 bp):
TTTTTTTCAATCTCACTTTCTAACTTTATAATTAAGGCCTATACG
Found at i:72805 original size:46 final size:48
Alignment explanation
Indices: 72738--72832 Score: 176
Period size: 46 Copynumber: 2.0 Consensus size: 48
72728 ATGAGTGACT
72738 AAATATATATTTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
1 AAATATATATTTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
72786 AAAT-TATA-TTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
1 AAATATATATTTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
72832 A
1 A
72833 CATTGAATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 39 0.83
47 4 0.09
48 4 0.09
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.45
Consensus pattern (48 bp):
AAATATATATTTTATCCTTTAATTTAAGTTATCAAATAATGATTATCA
Found at i:72871 original size:16 final size:15
Alignment explanation
Indices: 72850--72883 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
72840 TGGAATAGAT
72850 TAATTAAATTAAAAAA
1 TAATTAAA-TAAAAAA
*
72866 TAATTAAATAAGAAA
1 TAATTAAATAAAAAA
72881 TAA
1 TAA
72884 AAATTATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
TAATTAAATAAAAAA
Found at i:74214 original size:2 final size:2
Alignment explanation
Indices: 74207--74268 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
74197 GTTCAGGTAC
74207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74249 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
74269 CATTTTCCAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75911 original size:59 final size:55
Alignment explanation
Indices: 75846--75978 Score: 160
Period size: 59 Copynumber: 2.3 Consensus size: 55
75836 AAAAACAAAG
* *
75846 TGAAGAGTTTGAGAACTTGTTGTTAGTTATATTTCTCAAAAGTAAATTCCCTTG-TATAT
1 TGAAGAGTTTGAGAACTTGTTGGTAGTTATACTTCTC---A--AAATTCCCTTGTTATAT
* *
75905 TGAAGAGTTTGAGAACTTCTTGGTAGTTATACTTGTCAAAATTCCCTTGTTATAT
1 TGAAGAGTTTGAGAACTTGTTGGTAGTTATACTTCTCAAAATTCCCTTGTTATAT
* *
75960 GGAAGAGTTTAAGAACTTG
1 TGAAGAGTTTGAGAACTTG
75979 CCTAAATTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
54 11 0.17
55 21 0.32
56 1 0.02
59 33 0.50
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (55 bp):
TGAAGAGTTTGAGAACTTGTTGGTAGTTATACTTCTCAAAATTCCCTTGTTATAT
Found at i:76923 original size:13 final size:13
Alignment explanation
Indices: 76905--76931 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
76895 ATATCTTTAT
76905 TATTATTATTAAA
1 TATTATTATTAAA
76918 TATTATTATTAAA
1 TATTATTATTAAA
76931 T
1 T
76932 TTAAAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:78472 original size:15 final size:16
Alignment explanation
Indices: 78454--78494 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
78444 TATAATAAAT
78454 AAATAAAATAGAAA-A
1 AAATAAAATAGAAAGA
78469 AAATAAAATAGAAAGA
1 AAATAAAATAGAAAGA
78485 AAAGTAAAAT
1 AAA-TAAAAT
78495 TCACTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.58
16 4 0.17
17 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (16 bp):
AAATAAAATAGAAAGA
Found at i:80274 original size:66 final size:66
Alignment explanation
Indices: 80150--80274 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 66
80140 CGTGTATCAG
* * **
80150 TACTATTATTCTACACTATTTTTGTCTGGGGAGTACGTGTACCAATACACTATGATAGTTAATCG
1 TACTATTATTCTACACTATTTTTGTCTGGGAAGTACGTATACCAATACACTACAATAGTTAATCG
80215 A
66 A
*
80216 TACTATTATTCTACACTGTTTTTGT-TCGGGAAGTACGTATACCAATACACTACAATAGT
1 TACTATTATTCTACACTATTTTTGTCT-GGGAAGTACGTATACCAATACACTACAATAGT
80275 GTATTGATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
65 1 0.02
66 52 0.98
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (66 bp):
TACTATTATTCTACACTATTTTTGTCTGGGAAGTACGTATACCAATACACTACAATAGTTAATCG
A
Found at i:83513 original size:62 final size:62
Alignment explanation
Indices: 83442--83650 Score: 181
Period size: 62 Copynumber: 3.4 Consensus size: 62
83432 AATATGTTCT
* *
83442 GATACGCACCGTGTACCGATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTATT
1 GATACGCACCATGTACCGATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTATC
* * * * ** * ***
83504 GATACGCACCATGTACCGGTACATTATGAATTTAT-TGTAATTACAGTGAGTTT-TGTGTGTATC
1 GATACGCACCATGTACCGATAC-TAAT-AAATTATGTGAAATTGTAGTGTGTTTCAACG-GTATC
* * * * * * * *
83567 GATATGTA-TAGTATACTGATACTAATAAATTATGTGGAATTGTAATGTGTTTCAACAGTATC
1 GATACGCACCA-TGTACCGATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTATC
83629 GATACGCACCATGTACCGATAC
1 GATACGCACCATGTACCGATAC
83651 ACTATGAATT
Statistics
Matches: 106, Mismatches: 34, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
61 6 0.06
62 58 0.55
63 36 0.34
64 6 0.06
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (62 bp):
GATACGCACCATGTACCGATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTATC
Found at i:83683 original size:125 final size:125
Alignment explanation
Indices: 83459--83703 Score: 409
Period size: 125 Copynumber: 2.0 Consensus size: 125
83449 ACCGTGTACC
* * * *
83459 GATACTAATAAATTATGTGAAATTGTAGTGTGTTTCAACGGTATTGATACGCACCATGTACCGGT
1 GATACTAATAAATTATGTGAAATTGTAATGTGTTTCAACAGTATCGATACGCACCATGTACCGAT
* * *
83524 ACATTATGAATTTATTGTAATTACAGTGAGTTTTGTGTGTATCGATATGTATAGTATACT
66 ACACTATGAATTTATTATAATTACAATGAGTTTTGTGTGTATCGATATGTATAGTATACT
*
83584 GATACTAATAAATTATGTGGAATTGTAATGTGTTTCAACAGTATCGATACGCACCATGTACCGAT
1 GATACTAATAAATTATGTGAAATTGTAATGTGTTTCAACAGTATCGATACGCACCATGTACCGAT
*
83649 ACACTATGAATTTATTATAATTACAATGATTTTTGTGTGTATCGATATGTATAGT
66 ACACTATGAATTTATTATAATTACAATGAGTTTTGTGTGTATCGATATGTATAGT
83704 GTATCGATAC
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
125 111 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (125 bp):
GATACTAATAAATTATGTGAAATTGTAATGTGTTTCAACAGTATCGATACGCACCATGTACCGAT
ACACTATGAATTTATTATAATTACAATGAGTTTTGTGTGTATCGATATGTATAGTATACT
Found at i:84639 original size:19 final size:20
Alignment explanation
Indices: 84591--84637 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
84581 ATCATCCAAT
84591 TTTTTAAACCCCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
84611 TTTTTAAACCCCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
84631 TTTTTAA
1 TTTTTAA
84638 CCGGTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:84658 original size:13 final size:12
Alignment explanation
Indices: 84625--84673 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
84615 TAAACCCCAG
*
84625 ACCGGATTTTTA
1 ACCGGTTTTTTA
84637 ACCGGTTTTTTA
1 ACCGGTTTTTTA
*
84649 TCCGGTTTTTTTCAA
1 ACCGG-TTTTTT--A
84664 ACCGGTTTTT
1 ACCGGTTTTT
84674 AATCCGGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 15 0.48
13 6 0.19
14 5 0.16
15 5 0.16
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.49
Consensus pattern (12 bp):
ACCGGTTTTTTA
Found at i:84680 original size:12 final size:12
Alignment explanation
Indices: 84626--84681 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
84616 AAACCCCAGA
84626 CCGGATTTTTAA-
1 CCGG-TTTTTAAT
*
84638 CCGGTTTTTTAT
1 CCGGTTTTTAAT
*
84650 CCGGTTTTTTTCAAA
1 CCGG--TTTTT-AAT
84665 CCGGTTTTTAAT
1 CCGGTTTTTAAT
84677 CCGGT
1 CCGGT
84682 AAAAAATCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
11 6 0.17
12 15 0.42
13 5 0.14
14 5 0.14
15 5 0.14
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (12 bp):
CCGGTTTTTAAT
Found at i:92542 original size:22 final size:23
Alignment explanation
Indices: 92503--92549 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
92493 AACCCTAAAT
92503 AAGCCCAAAAATCATATCTGCTA
1 AAGCCCAAAAATCATATCTGCTA
* * *
92526 AAGCCC-AGAATCGTATCTTCTA
1 AAGCCCAAAAATCATATCTGCTA
92548 AA
1 AA
92550 CTCGCGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (23 bp):
AAGCCCAAAAATCATATCTGCTA
Found at i:99076 original size:2 final size:2
Alignment explanation
Indices: 99069--99096 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
99059 TCTTGAAGAA
99069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99097 GAAGGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99489 original size:16 final size:16
Alignment explanation
Indices: 99468--99500 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
99458 TAATAAATAG
99468 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
99484 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
99500 A
1 A
99501 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:99596 original size:16 final size:16
Alignment explanation
Indices: 99571--99635 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
99561 TAATAAATAA
*
99571 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
99587 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
99603 ATGAACATAAATGAAC
1 ACGAACATAAACGAAC
99619 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
99635 A
1 A
99636 TCAACGTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.11
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:99600 original size:10 final size:10
Alignment explanation
Indices: 99567--99641 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
99557 CATTTAATAA
*
99567 ATAAACGAAT
1 ATAAACGAAC
99577 ATAAACGAAC
1 ATAAACGAAC
99587 ----ACGAAC
1 ATAAACGAAC
99593 ATAAACGAAC
1 ATAAACGAAC
* *
99603 ATGAAC-ATAA
1 ATAAACGA-AC
99613 ATGAACACGAAC
1 AT-AA-ACGAAC
99625 ATAAACGAAC
1 ATAAACGAAC
*
99635 ATCAACG
1 ATAAACG
99642 TTGAAGTCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:100633 original size:24 final size:24
Alignment explanation
Indices: 100605--100655 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
100595 GATTGGGTTA
100605 AACATAAAT-GAAAGAACATAAACG
1 AACAT-AATCGAAAGAACATAAACG
* *
100629 AACATAATCGAACGAACATAATCG
1 AACATAATCGAAAGAACATAAACG
100653 AAC
1 AAC
100656 GAACATAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.14
Consensus pattern (24 bp):
AACATAATCGAAAGAACATAAACG
Found at i:100642 original size:14 final size:14
Alignment explanation
Indices: 100625--100694 Score: 94
Period size: 14 Copynumber: 5.3 Consensus size: 14
100615 AAAGAACATA
*
100625 AACGAACATAATCG
1 AACGAACATAACCG
*
100639 AACGAACATAATCG
1 AACGAACATAACCG
100653 AACGAACAT-A---
1 AACGAACATAACCG
100663 AACGAACATAACCG
1 AACGAACATAACCG
100677 AACGAACATAACCG
1 AACGAACATAACCG
100691 AACG
1 AACG
100695 TTCACGAACG
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.17
11 1 0.02
13 1 0.02
14 41 0.79
ACGTcount: A:0.51, C:0.24, G:0.14, T:0.10
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:100660 original size:38 final size:38
Alignment explanation
Indices: 100605--100694 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 38
100595 GATTGGGTTA
* *
100605 AACATAAAT-GAAAGAACATAAACGAACATAATCGAACG
1 AACAT-AATCGAACGAACATAAACGAACATAACCGAACG
100643 AACATAATCGAACGAACATAAACGAACATAACCGAACG
1 AACATAATCGAACGAACATAAACGAACATAACCGAACG
*
100681 AACATAACCGAACG
1 AACATAATCGAACG
100695 TTCACGAACG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
37 3 0.06
38 45 0.94
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.11
Consensus pattern (38 bp):
AACATAATCGAACGAACATAAACGAACATAACCGAACG
Found at i:100704 original size:24 final size:24
Alignment explanation
Indices: 100639--100693 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
100629 AACATAATCG
*
100639 AACGAACATAATCGAACGAACATA
1 AACGAACATAACCGAACGAACATA
100663 AACGAACATAACCGAACGAACATA
1 AACGAACATAACCGAACGAACATA
*
100687 ACCGAAC
1 AACGAAC
100694 GTTCACGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.53, C:0.25, G:0.13, T:0.09
Consensus pattern (24 bp):
AACGAACATAACCGAACGAACATA
Found at i:102358 original size:17 final size:17
Alignment explanation
Indices: 102320--102371 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
102310 ATTCAAATTG
102320 ATTTATATTAAATATCATAT
1 ATTTATATT--ATA-CATAT
102340 -TTTA-ATTATACATAT
1 ATTTATATTATACATAT
*
102355 ATTTATATTATATATAT
1 ATTTATATTATACATAT
102372 TATTATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 5 0.17
16 7 0.24
17 10 0.34
18 3 0.10
19 4 0.14
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATATTATACATAT
Found at i:102492 original size:21 final size:23
Alignment explanation
Indices: 102456--102509 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
102446 ATAAAAATAT
* *
102456 TTAATTTATATATAAATTATTTTA
1 TTAATTT-TATATAAATCATGTTA
102480 TT-ATTTTAT-TAAATCATGTTA
1 TTAATTTTATATAAATCATGTTA
102501 TTAATTTTA
1 TTAATTTTA
102510 ACAGATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.44
22 9 0.33
23 4 0.15
24 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTAATTTTATATAAATCATGTTA
Found at i:102697 original size:17 final size:18
Alignment explanation
Indices: 102675--102714 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
102665 ATAAAAGTAT
102675 AAATTTTAATT-AAATTA
1 AAATTTTAATTCAAATTA
* *
102692 AAATTTTATTTCATATTA
1 AAATTTTAATTCAAATTA
102710 AAATT
1 AAATT
102715 ACAAACGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTTAATTCAAATTA
Found at i:103895 original size:23 final size:22
Alignment explanation
Indices: 103843--103920 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
103833 TAAAATAATA
* *
103843 TATATTTTTAATTTTTTAGTAATT
1 TATATTTTT-ATTTTTGA-TATTT
103867 TA-ATTTTTATTTTTGATATTAT
1 TATATTTTTATTTTTGATATT-T
*
103889 TATA-TTTAAGTTTTTGAATATTTT
1 TATATTTTTA-TTTTTG-ATA-TTT
103913 TATATTTT
1 TATATTTT
103921 GAATTTCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.07
22 14 0.31
23 13 0.29
24 10 0.22
25 5 0.11
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TATATTTTTATTTTTGATATTT
Found at i:104449 original size:2 final size:2
Alignment explanation
Indices: 104442--104521 Score: 54
Period size: 2 Copynumber: 45.0 Consensus size: 2
104432 GAAAATATTT
* *
104442 TA TA TA TA -A T- TA -A TA TA -A AA TA TA TA -A AA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
104478 TA TA TA -A T- TA -A TA TA AA TA TA TA AA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104516 TA TA TA
1 TA TA TA
104522 ATTAGGGCGG
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
1 10 0.16
2 52 0.84
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:104480 original size:34 final size:33
Alignment explanation
Indices: 104433--104515 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 33
104423 CCTGAACCTG
*
104433 AAAATATTTTATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATAT-AAATATAT
104467 AAAATATTATATATATAATTAATATAAATATAT
1 AAAATATTATATATATAATTAATATAAATATAT
104500 -AAATATTATATATATA
1 AAAATATTATATATATA
104516 TATATAATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 16 0.33
33 8 0.17
34 24 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
AAAATATTATATATATAATTAATATAAATATAT
Found at i:104498 original size:21 final size:19
Alignment explanation
Indices: 104442--104525 Score: 97
Period size: 19 Copynumber: 4.6 Consensus size: 19
104432 GAAAATATTT
104442 TATATATAATTAATATA-A
1 TATATATAATTAATATATA
*
104460 AATATATAA--AATAT-TA
1 TATATATAATTAATATATA
*
104476 TATATATAATTAATATAAA
1 TATATATAATTAATATATA
*
104495 TATATA-AATATTATATATA
1 TATATATAAT-TAATATATA
104514 TATATATAATTA
1 TATATATAATTA
104526 GGGCGGGGCG
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
16 14 0.26
18 16 0.30
19 21 0.39
20 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATATAATTAATATATA
Found at i:105604 original size:11 final size:11
Alignment explanation
Indices: 105590--105615 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
105580 TAATATATGA
105590 TATATATTATT
1 TATATATTATT
105601 TATATATTATT
1 TATATATTATT
105612 TATA
1 TATA
105616 AATTTCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:106000 original size:21 final size:21
Alignment explanation
Indices: 105983--106029 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
105973 AATATAAATA
105983 TATATATATATTAAATAAAAAG
1 TATATAT-TATTAAATAAAAAG
* *
106005 TATATATTATTAAATATAAGG
1 TATATATTATTAAATAAAAAG
106026 TATA
1 TATA
106030 GATTTGTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (21 bp):
TATATATTATTAAATAAAAAG
Found at i:109570 original size:21 final size:21
Alignment explanation
Indices: 109544--109593 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
109534 TCGCCAACTT
109544 TTCAGGCCGAGCTAAACGATA
1 TTCAGGCCGAGCTAAACGATA
109565 TTCAGGCCGAGCTAAACGATA
1 TTCAGGCCGAGCTAAACGATA
109586 TTCAGGCC
1 TTCAGGCC
109594 ACAAACTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (21 bp):
TTCAGGCCGAGCTAAACGATA
Found at i:113638 original size:2 final size:2
Alignment explanation
Indices: 113590--113626 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
113580 TTTGTGTGTG
113590 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113627 CACACATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:117446 original size:36 final size:37
Alignment explanation
Indices: 117413--117481 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 37
117403 TACAAATTGT
117413 AAAATATTTATAT-ATTTTCTTTA-AAAATTAAATTC
1 AAAATATTTATATAATTTTCTTTACAAAATTAAATTC
* *
117448 ATAATATTTATATAATTTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTCTTTACAAAATTAAA
117482 AATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 12 0.40
36 9 0.30
37 9 0.30
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (37 bp):
AAAATATTTATATAATTTTCTTTACAAAATTAAATTC
Found at i:119944 original size:3 final size:3
Alignment explanation
Indices: 119936--119967 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
119926 AATAAATCAA
119936 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
119968 AAGTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:121273 original size:3 final size:3
Alignment explanation
Indices: 121244--121306 Score: 76
Period size: 3 Copynumber: 20.7 Consensus size: 3
121234 AACGGGAAAA
*
121244 AAT AA- AAT AA- AAT AAGT AAT AAAT AAT AAT AAT AAAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT -AAT AAT AAT AAT -AAT AAT AAT AAT
121290 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
121307 ATATAAAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 4 0.08
3 40 0.75
4 9 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:121278 original size:25 final size:26
Alignment explanation
Indices: 121244--121303 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
121234 AACGGGAAAA
121244 AATAA-AATAAAATAA-G-TAATAAAT
1 AATAATAATAAAATAATGATAAT-AAT
121268 AATAATAAT-AAATAATGATAATAAT
1 AATAATAATAAAATAATGATAATAAT
121293 AATAATAATAA
1 AATAATAATAA
121304 TAAATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.34
25 16 0.50
26 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (26 bp):
AATAATAATAAAATAATGATAATAAT
Found at i:121400 original size:31 final size:32
Alignment explanation
Indices: 121365--121443 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
121355 CTATATATTA
*
121365 TATATAAATTTAAAAAAT-TATTTTAAAAAAC
1 TATATAATTTTAAAAAATGTATTTTAAAAAAC
* * **
121396 TATATAATTTTAAAAAGTGTTTTTTTTAAAAC
1 TATATAATTTTAAAAAATGTATTTTAAAAAAC
*
121428 CATATAATTTTAAAAA
1 TATATAATTTTAAAAA
121444 TGTTTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 16 0.39
32 25 0.61
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (32 bp):
TATATAATTTTAAAAAATGTATTTTAAAAAAC
Found at i:121559 original size:36 final size:35
Alignment explanation
Indices: 121440--121686 Score: 180
Period size: 36 Copynumber: 6.8 Consensus size: 35
121430 TATAATTTTA
* * *
121440 AAAATGTTTT-AAAACTACATATTATATATGCTTTC
1 AAAATGTTTTAAAAACTATATAATATATAT-ATTTC
* *
121475 AAAATGTTTTTCAAAAAATTCTATATTATATATTTATTTC
1 AAAATG-TTTT--AAAAA--CTATATAATATATATATTTC
* *
121515 -AAACGTTTTAAAAACTATATAATATGTATATTTC
1 AAAATGTTTTAAAAACTATATAATATATATATTTC
* * * *
121549 AAAAATGTTTTGAAAACTATATATTATATTTCTTTTC
1 -AAAATGTTTTAAAAACTATATAATATATAT-ATTTC
* * *
121586 AAAAACGTTTT-AAAACTATATAATATATAAATGTTTTT
1 -AAAATGTTTTAAAAACTATATAATATAT--AT-ATTTC
*
121624 AAAATGTTTTAAAAATTATAT-ATCATATAT-TTTC
1 AAAATGTTTTAAAAACTATATAAT-ATATATATTTC
* * *
121658 AAAATGTTTTCAAAATTATGTAATATATA
1 AAAATGTTTTAAAAACTATATAATATATA
121687 AATAAAAAAC
Statistics
Matches: 173, Mismatches: 25, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
34 44 0.25
35 8 0.05
36 51 0.29
37 25 0.14
38 22 0.13
39 8 0.05
40 4 0.02
41 11 0.06
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (35 bp):
AAAATGTTTTAAAAACTATATAATATATATATTTC
Found at i:121572 original size:38 final size:35
Alignment explanation
Indices: 121429--121672 Score: 116
Period size: 37 Copynumber: 6.7 Consensus size: 35
121419 TTTTAAAACC
* * *
121429 ATATAATTTT-AAAAATGTTTTAAAACTACATATT
1 ATATTATTTTCAAAAATGTTTTAAAACTATATATA
121463 ATA-TATGCTTTC-AAAATGTTTTTCAAAAAATTCTATAT-TA
1 ATATTAT--TTTCAAAAATG-TTTT---AAAA--CTATATATA
*
121503 TATATT-TATTTC--AAACGTTTTAAAA--ACTATATA
1 -ATATTAT-TTTCAAAAATGTTTTAAAACTA-TATATA
*
121536 ATATGTATATTTCAAAAATGTTTTGAAAACTATATATT
1 ATAT-TAT-TTTCAAAAATGTTTT-AAAACTATATATA
* *
121574 ATATTTCTTTTCAAAAACGTTTTAAAACTATATA-A
1 ATA-TTATTTTCAAAAATGTTTTAAAACTATATATA
* ** * *
121609 TATATAAATGTTTTTAAAATGTTTTAAAAATTATATATC
1 -ATAT-TAT-TTTCAAAAATGTTTT-AAAACTATATATA
121648 ATA-TATTTTC-AAAATGTTTTCAAAA
1 ATATTATTTTCAAAAATGTTTT-AAAA
121673 TTATGTAATA
Statistics
Matches: 164, Mismatches: 20, Indels: 52
0.69 0.08 0.22
Matches are distributed among these distances:
31 1 0.01
32 7 0.04
33 5 0.03
34 23 0.14
35 17 0.10
36 29 0.18
37 30 0.18
38 27 0.16
39 10 0.06
40 5 0.03
41 9 0.05
42 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (35 bp):
ATATTATTTTCAAAAATGTTTTAAAACTATATATA
Found at i:121708 original size:4 final size:4
Alignment explanation
Indices: 121679--121725 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
121669 AAAATTATGT
* * *
121679 AATA TATA AATA AA-A AACA AACA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
121726 TGGACGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:121789 original size:17 final size:18
Alignment explanation
Indices: 121756--121791 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
121746 CAGCTGCCCC
121756 TCTTTGTCCTATTTTTCGT
1 TCTTTGTCC-ATTTTTCGT
121775 TCTTTGTCC-TTTTTCGT
1 TCTTTGTCCATTTTTCGT
121792 GGAACGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.03, C:0.22, G:0.11, T:0.64
Consensus pattern (18 bp):
TCTTTGTCCATTTTTCGT
Found at i:122474 original size:84 final size:83
Alignment explanation
Indices: 122354--123223 Score: 1064
Period size: 84 Copynumber: 10.5 Consensus size: 83
122344 AAGGTCTTTA
* * *
122354 GCAGATAGCCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCATTGAGCTGAGTGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGA
*
122419 ACTCAAAGGTCTTTTGTTG
65 ACTCAAAGGTCTTTGGTTG
* * *
122438 GCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
*
122503 ACTCGAAGGTCTTTGGTTG
65 ACTCAAAGGTCTTTGGTTG
* *
122522 GCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
*
122587 ACTCGAAGGTCTTTGGTTG
65 ACTCAAAGGTCTTTGGTTG
* * * *
122606 GTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCG
**
122671 AACTC-GGGGTC--T--TTG
64 AACTCAAAGGTCTTTGGTTG
* * *
122686 GCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGA
*
122751 ACTCAAAGGTCTTTGGTTT
65 ACTCAAAGGTCTTTGGTTG
* * * * *
122770 ACAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCG
***
122835 AACTCGGGGGTC--T--TTG
64 AACTCAAAGGTCTTTGGTTG
* * *
122851 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCTTAGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
*
122916 ACTCAAAGGTCCTTGGTTG
65 ACTCAAAGGTCTTTGGTTG
* * * *
122935 GTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCG
***
123000 AACTCGGGGGTC--T--TTG
64 AACTCAAAGGTCTTTGGTTG
* ** *
123016 GCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGA
* *
123081 ACTCAAAGATCTTTTGTTG
65 ACTCAAAGGTCTTTGGTTG
* * * *
123100 GCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
*
123165 ACTCAAAGGTCTTTGGCTG
65 ACTCAAAGGTCTTTGGTTG
*
123184 GCAGATAACCATTCTCGACTTAAGTTATGCTGCAAATGAT
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
123224 TTGTTTAAAA
Statistics
Matches: 678, Mismatches: 84, Indels: 48
0.84 0.10 0.06
Matches are distributed among these distances:
79 20 0.03
80 95 0.14
81 85 0.13
82 4 0.01
83 6 0.01
84 399 0.59
85 69 0.10
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (83 bp):
GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAA
CTCAAAGGTCTTTGGTTG
Found at i:122943 original size:165 final size:165
Alignment explanation
Indices: 122332--123223 Score: 1227
Period size: 165 Copynumber: 5.4 Consensus size: 165
122322 ATGTTGAATA
* * * *
122332 TAATTGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTTGACTTAAGTTATGCTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * * *
122397 CCATTGAGCTGAGTGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAG
66 CCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* * * *
122462 TTATGCTGCAAATGATATG-CCTTGGAGCTGAGCG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* * * *
122496 TAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * *
122561 TATGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGAC
62 TGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC
122625 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
126 TTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* *
122665 TAATCGAACTCG-GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
**
122729 CCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTTACAGATAACCCTTCTCGACTTAAG
66 CCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
*
122794 TTATACTGCAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
**
122829 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * *
122894 TC-TTAGAGCTGAGCGTAGTCGAACTCAAAGGTCCTTGGTTGGTAGATAACCCTTCTCGACTTAA
66 CCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
122958 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
130 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
** * *
122994 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATATG
1 TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * *
123059 CCGTTGAGCTGAGCGTAGTCGAACTCAAAGATCTTTTGTTGGCAGACAACCCTTCTAGACTTAAG
66 CCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* * * * *
123124 TTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* * * * *
123158 TAGTCGAACTCAAAGGTCTTTGGCTGGCAGATAACCATTCTCGACTTAAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTC-TT---TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
123223 T
62 T
123224 TTGTTTAAAA
Statistics
Matches: 656, Mismatches: 58, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
164 189 0.29
165 281 0.43
166 4 0.01
167 2 0.00
168 157 0.24
169 23 0.04
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
TAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:126267 original size:19 final size:19
Alignment explanation
Indices: 126243--126288 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
126233 AGTTAATGTG
*
126243 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAAAAA
126262 AATGCAAAGAAAATAAAAA
1 AATGCAAAGAAAATAAAAA
*
126281 AATACAAA
1 AATGCAAA
126289 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.72, C:0.09, G:0.09, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAAAAA
Found at i:128091 original size:3 final size:3
Alignment explanation
Indices: 128083--128111 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
128073 AATAAATCAA
128083 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
128112 AAGTAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:129427 original size:3 final size:3
Alignment explanation
Indices: 129395--129457 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
129385 AACGGGAAAA
*
129395 AAT AA- AAT AA- AAT AAGT AAT AA- AA- AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT
129438 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
129458 ATATAAAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 8 0.15
3 39 0.74
4 6 0.11
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:129463 original size:9 final size:10
Alignment explanation
Indices: 129399--129460 Score: 76
Period size: 10 Copynumber: 6.5 Consensus size: 10
129389 GGAAAAAATA
129399 AAATAA-AAT
1 AAATAATAAT
* *
129408 AAGTAATAAA
1 AAATAATAAT
129418 AAATAATAAT
1 AAATAATAAT
*
129428 AAATAATGAT
1 AAATAATAAT
129438 -AATAATAAT
1 AAATAATAAT
129447 -AATAATAAT
1 AAATAATAAT
129456 AAATA
1 AAATA
129461 TAAAAACTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.49
10 23 0.51
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:129550 original size:31 final size:31
Alignment explanation
Indices: 129515--129605 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 31
129505 CTATATATTA
129515 TATATAAATTTAAAAAATTATTTTAAAAAAC
1 TATATAAATTTAAAAAATTATTTTAAAAAAC
* * * **
129546 TATATAATTTTAAAAAGTGTTTTTTTTAAAAC
1 TATATAAATTTAAAAAAT-TATTTTAAAAAAC
* ** *
129578 CATAT-AATTTTTAAAATTGTTTTAAAAA
1 TATATAAATTTAAAAAATTATTTTAAAAA
129606 CTACATATTA
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
30 8 0.17
31 24 0.52
32 14 0.30
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (31 bp):
TATATAAATTTAAAAAATTATTTTAAAAAAC
Found at i:129631 original size:37 final size:36
Alignment explanation
Indices: 129579--129841 Score: 203
Period size: 37 Copynumber: 7.1 Consensus size: 36
129569 TTTTAAAACC
* *
129579 ATATA-ATTTTTAAAATTGTTTTAAAAACTACATATT
1 ATATATATTTTCAAAA-TGTTTTAAAAACTATATATT
** *
129615 ATATATGCTTTCAAAATGTTTTTCAAAAAATTATATATT
1 ATATATATTTTCAAAATG-TTTT--AAAAACTATATATT
* *
129654 ATATATTTATTTTCAAAACGTTTTAAAAACTATATAAT
1 ATATA--TATTTTCAAAATGTTTTAAAAACTATATATT
* * *
129692 ATGTATATTTTTAAAAATGTTTTGAAAACTATATATT
1 ATATATA-TTTTCAAAATGTTTTAAAAACTATATATT
* * *
129729 ATATTTCTTTTCAAAAACGTTTT-AAAACTATATAATAT
1 ATATATATTTTC-AAAATGTTTTAAAAACTATAT-AT-T
* * * *
129767 ATAAATGTTTTTAAAATGTTTT-AAAAGT-TATA-T
1 ATATATATTTTCAAAATGTTTTAAAAACTATATATT
* * * *
129800 ATCATATATTTTCAAAATGTTTTCAAAATTATGTAAT
1 AT-ATATATTTTCAAAATGTTTTAAAAACTATATATT
129837 ATATA
1 ATATA
129842 AATAAAAAAC
Statistics
Matches: 182, Mismatches: 31, Indels: 28
0.76 0.13 0.12
Matches are distributed among these distances:
33 3 0.02
34 17 0.09
35 6 0.03
36 32 0.18
37 68 0.37
38 25 0.14
39 17 0.09
40 4 0.02
41 10 0.05
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (36 bp):
ATATATATTTTCAAAATGTTTTAAAAACTATATATT
Found at i:129740 original size:73 final size:72
Alignment explanation
Indices: 129641--129844 Score: 234
Period size: 73 Copynumber: 2.8 Consensus size: 72
129631 TGTTTTTCAA
* * *
129641 AAAATTATATATTATATATTTATTTTCAAAACGTTTTAAAAACTATATAATATGTATAT-TTTTA
1 AAAACTATATA-T-TATATTTATTTTCAAAACGTTTT-AAAACTATATAATATATAAATGTTTTA
129705 AAAATGTTTT
63 AAAATGTTTT
* *
129715 GAAAACTATATATTATATTTCTTTTCAAAAACGTTTTAAAACTATATAATATATAAATGTTTTTA
1 -AAAACTATATATTATATTTATTTTC-AAAACGTTTTAAAACTATATAATATATAAATGTTTTAA
129780 AAATGTTTT
64 AAATGTTTT
* * * * *
129789 AAAAGT-TATA-TATCATATATTTTCAAAATGTTTTCAAAATTATGTAATATATAAAT
1 AAAACTATATATTAT-ATTTATTTTCAAAACGTTTT-AAAACTATATAATATATAAAT
129845 AAAAAACAAA
Statistics
Matches: 114, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
71 12 0.11
72 31 0.27
73 36 0.32
74 25 0.22
75 10 0.09
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (72 bp):
AAAACTATATATTATATTTATTTTCAAAACGTTTTAAAACTATATAATATATAAATGTTTTAAAA
ATGTTTT
Found at i:130112 original size:29 final size:29
Alignment explanation
Indices: 130046--130103 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
130036 TTAGTTGAAG
130046 ACTGTATAACAATATAATTAAGAAATAAT
1 ACTGTATAACAATATAATTAAGAAATAAT
130075 ACTGTATAACAATATAATTAAGAAATAAT
1 ACTGTATAACAATATAATTAAGAAATAAT
130104 CTTAAATAAT
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:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (29 bp):
ACTGTATAACAATATAATTAAGAAATAAT
Found at i:130833 original size:35 final size:34
Alignment explanation
Indices: 130774--130885 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 34
130764 AAAACATTCC
* *
130774 TCAATTTCATTATAAATCCCAAATT-TCAAAGTAAT
1 TCAATTTCATTCTAAA-CCCAAATTCT-AAAATAAT
130809 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCTAAAATAAT
* *
130844 TCAATTACATTCTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTCTAAA-CCCAAATTCTAAAATAAT
130879 TCAATTT
1 TCAATTT
130886 AAGGAGAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.04
35 62 0.90
36 4 0.06
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.37
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCTAAAATAAT
Found at i:131975 original size:34 final size:34
Alignment explanation
Indices: 131900--132011 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 34
131890 AAAAAAGACA
* *
131900 GAAATTGAAGTATTTTAGAATTTGGGTTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGGG-TTTAGAAT
*
131935 GTAATTGAATTATTTTGGAATTTAGGG-TTAGAAT
1 GAAATTGAATTATTTTGGAATTT-GGGTTTAGAAT
*
131969 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTAGAAT
132004 GAAATTGA
1 GAAATTGA
132012 GAATTGTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
33 1 0.01
34 30 0.43
35 35 0.51
36 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTAGAAT
Found at i:133108 original size:35 final size:35
Alignment explanation
Indices: 133069--133144 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
133059 AAAACAATCA
*
133069 TCAATTTCATTCTAAACCCCAATTTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
133104 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
133139 TCAATT
1 TCAATT
133145 AAATTCAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:133661 original size:126 final size:128
Alignment explanation
Indices: 133526--133767 Score: 391
Period size: 126 Copynumber: 1.9 Consensus size: 128
133516 TTATTATATA
* *
133526 ATCAATTTGGTCCTAAATTAAATAAATTTAAT-AATTAATCATTTAATTAGGATCTGACATGTGT
1 ATCAATTTGGTCCTAAATTAAA-AAATTTAATAAATTAATCATTTAATCAGGATCTAACATGTGT
*
133590 TAGCACATGATCATGACACGTGTCA-TGGTGACACATGTCA-CACCTAATTATTTATATATGCT
65 TAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
133652 ATCAATTTGGTCCTAAATTAAAAAATTTAATAAATTAATCATTTAATCAGGATCTAACATGTGTT
1 ATCAATTTGGTCCTAAATTAAAAAATTTAATAAATTAATCATTTAATCAGGATCTAACATGTGTT
* * * *
133717 AACATATGATCATGATATGTGTTATTGGTGACACATGTCACCACCTAATTA
66 AACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
133768 GAAGAAAATT
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
125 9 0.08
126 72 0.68
127 15 0.14
128 10 0.09
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (128 bp):
ATCAATTTGGTCCTAAATTAAAAAATTTAATAAATTAATCATTTAATCAGGATCTAACATGTGTT
AACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:134250 original size:15 final size:16
Alignment explanation
Indices: 134226--134262 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
134216 TTTAATTTCT
134226 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
134240 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
134256 TGATTCA
1 T-ATTCA
134263 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:136631 original size:14 final size:13
Alignment explanation
Indices: 136597--136647 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
136587 CATTTTATCG
*
136597 TTAAAATTAATGA
1 TTAAAATTAATAA
136610 TT-AAATTATATAA
1 TTAAAATTA-ATAA
136623 TTAAAATTAA-AA
1 TTAAAATTAATAA
*
136635 TCAAAATTTAATA
1 TTAAAA-TTAATA
136648 TTATAATCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 13 0.41
13 12 0.38
14 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
TTAAAATTAATAA
Found at i:137383 original size:59 final size:60
Alignment explanation
Indices: 137311--137461 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 60
137301 TTACATCATA
* * * * * *
137311 TATTCCCACACTATGATTATTATTTTAAATTAATTCTTAAGT-TTTAAATATTTTAATTT
1 TATTCCCAAACTATGATTATCATTCTAAATTAATTCTTAAATCTTTAAACATTCTAATTT
* * * * *
137370 TATTCTCAAACTATGGTTCTCATTCTAGATTAGTTCTTAAATCTTTAAACATTCTAATTT
1 TATTCCCAAACTATGATTATCATTCTAAATTAATTCTTAAATCTTTAAACATTCTAATTT
* * * *
137430 CATCCCCAAACTATGAATCTCATTCTAAATTA
1 TATTCCCAAACTATGATTATCATTCTAAATTA
137462 GTCCCTAAAC
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
59 33 0.45
60 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.46
Consensus pattern (60 bp):
TATTCCCAAACTATGATTATCATTCTAAATTAATTCTTAAATCTTTAAACATTCTAATTT
Found at i:137440 original size:60 final size:59
Alignment explanation
Indices: 137336--137495 Score: 158
Period size: 60 Copynumber: 2.7 Consensus size: 59
137326 ATTATTATTT
* * * * * * * **
137336 TAAATTAATTCTTAAGTTTTAAATATTTTAATTTTATTCTCAAACTATGGTTCTCATTC
1 TAAATTAGTTCTTAAATTTTAAACATTCTAATTTCATCCCCAAACTATGAATCTCATTC
*
137395 TAGATTAGTTCTTAAATCTTTAAACATTCTAATTTCATCCCCAAACTATGAATCTCATTC
1 TAAATTAGTTCTTAAAT-TTTAAACATTCTAATTTCATCCCCAAACTATGAATCTCATTC
* * * * * *
137455 TAAATTAGTCCCTAAACTTTTAGATATTCAAATTTAATCCC
1 TAAATTAGTTCTTAAA-TTTTAAACATTCTAATTTCATCCC
137496 AAAATTCTTC
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
59 14 0.17
60 67 0.82
61 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (59 bp):
TAAATTAGTTCTTAAATTTTAAACATTCTAATTTCATCCCCAAACTATGAATCTCATTC
Found at i:148623 original size:53 final size:53
Alignment explanation
Indices: 148553--148653 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
148543 TGATTATTCG
*
148553 TTAGCTGATTACGTCTGTAGCATA-GAGATTTTAATGTTGTAGGCGATTGTTAA
1 TTAGCTGATTACGTCTGTAGCATATG-GATTTTAATGTTGGAGGCGATTGTTAA
* * *
148606 TTAGCTGATTACTTCTGTTGCATATGGATTTTAATGTTGGAGGGGATT
1 TTAGCTGATTACGTCTGTAGCATATGGATTTTAATGTTGGAGGCGATT
148654 ATTTAGTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 42 0.98
54 1 0.02
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.42
Consensus pattern (53 bp):
TTAGCTGATTACGTCTGTAGCATATGGATTTTAATGTTGGAGGCGATTGTTAA
Found at i:151389 original size:23 final size:23
Alignment explanation
Indices: 151315--151375 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
151305 TTGGACGCTG
151315 CTGACTGAACCTTCTAGAAACTA
1 CTGACTGAACCTTCTAGAAACTA
151338 CTGACTGAACCTTCTAGAAACTA
1 CTGACTGAACCTTCTAGAAACTA
151361 CTGACTGAACCTTCT
1 CTGACTGAACCTTCT
151376 GGAAGCTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (23 bp):
CTGACTGAACCTTCTAGAAACTA
Found at i:151554 original size:19 final size:19
Alignment explanation
Indices: 151514--151557 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
151504 ATGCACACAG
**
151514 AAATCATGTAAAAACGTTC
1 AAATCATGTAAAAACGCCC
*
151533 AAATTATGTAAAAACGCCC
1 AAATCATGTAAAAACGCCC
151552 AAATCA
1 AAATCA
151558 ACAATAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.23
Consensus pattern (19 bp):
AAATCATGTAAAAACGCCC
Found at i:152527 original size:40 final size:41
Alignment explanation
Indices: 152457--152538 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
152447 TTCGAGTTGA
* * *
152457 CAAGTCGAATTTTATGATTCAAAATTTATTTGAAATTTTTT
1 CAAGTCGAATTTTATCACTCAAAATTTATTTGAAATTCTTT
* *
152498 CAAGTCGAA-TTTGTCACTCAAATTTTATTTGAAATTCTTT
1 CAAGTCGAATTTTATCACTCAAAATTTATTTGAAATTCTTT
152538 C
1 C
152539 GGCTCGAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 27 0.75
41 9 0.25
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (41 bp):
CAAGTCGAATTTTATCACTCAAAATTTATTTGAAATTCTTT
Found at i:153392 original size:29 final size:29
Alignment explanation
Indices: 153350--153424 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
153340 AACCCAACCA
**
153350 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCAAC
* * *
153379 TAGGTCGCCATGCACGCCCGGCGACCAAG
1 TAGGTCGCCATGCACTCCCAGCGACCAAC
*
153408 GAGGTCGCCATGCACTC
1 TAGGTCGCCATGCACTC
153425 GGGGCGACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.19, C:0.40, G:0.27, T:0.15
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCAAC
Found at i:153430 original size:29 final size:29
Alignment explanation
Indices: 153351--153438 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
153341 ACCCAACCAT
* * ****
153351 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
153380 AGGTCGCCATGCACGCCCGGCGACCAAGG
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
* **
153409 AGGTCGCCATGCACTCGGGGCGACCAAGG
1 AGGTCGCCATGCACGCCCGGCGACCAAGG
153438 A
1 A
153439 TTCATGCATG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.20, C:0.38, G:0.31, T:0.11
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGGCGACCAAGG
Found at i:153686 original size:29 final size:29
Alignment explanation
Indices: 153653--153737 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
153643 AGCAGGGGAT
* * **
153653 GTCGCCGCGAGTGCATGGCGACCTCCTTG
1 GTCGCCGGGAGTGCATGGCGACCTACGAG
* *
153682 GTCGCCGGGCGTGCATGGCGACCTAGGAG
1 GTCGCCGGGAGTGCATGGCGACCTACGAG
*
153711 GTCGCTGGGAGTGCATGGCGACCTACG
1 GTCGCCGGGAGTGCATGGCGACCTACG
153738 GCCACTGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.13, C:0.29, G:0.40, T:0.18
Consensus pattern (29 bp):
GTCGCCGGGAGTGCATGGCGACCTACGAG
Found at i:161665 original size:6 final size:6
Alignment explanation
Indices: 161654--161678 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
161644 TGACATGATC
161654 ATTGAA ATTGAA ATTGAA ATTGAA A
1 ATTGAA ATTGAA ATTGAA ATTGAA A
161679 GGCATTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATTGAA
Found at i:173071 original size:2 final size:2
Alignment explanation
Indices: 173064--173093 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
173054 TTATTATCAC
173064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
173094 CAGTATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:173260 original size:35 final size:35
Alignment explanation
Indices: 173219--173412 Score: 98
Period size: 36 Copynumber: 5.4 Consensus size: 35
173209 AATGTTTTCT
*
173219 AAGCATATAATATATAATTTTAAAAAT-TGGTTTAA
1 AAGCATAT-ATATATAATTTTAAAAATATGATTTAA
** *
173254 AAGCATAT-TATATGGTTTTGAAAATATGATTTAA
1 AAGCATATATATATAATTTTAAAAATATGATTTAA
* * * *
173288 AAACATATAT-TATAGTTTTGAAAACACAT-TTTTGAA
1 AAGCATATATATATAATTTT-AAAA-ATATGATTT-AA
* * * *
173324 AA-CGTATATTATATAGTTTTGAAAAACAT-TTTTGAA
1 AAGCATATA-TATATAATTTT-AAAAATATGATTT-AA
*
173360 AA-CATATATATTATATGATTTTAAAAAATAAT-TTTTAA
1 AAGCATATATA-TATA--ATTTT-AAAAAT-ATGATTTAA
*
173398 AAACATATATATATA
1 AAGCATATATATATA
173413 TATATTATGG
Statistics
Matches: 133, Mismatches: 14, Indels: 21
0.79 0.08 0.12
Matches are distributed among these distances:
33 14 0.11
34 22 0.17
35 22 0.17
36 30 0.23
37 14 0.11
38 17 0.13
39 14 0.11
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (35 bp):
AAGCATATATATATAATTTTAAAAATATGATTTAA
Found at i:173360 original size:36 final size:36
Alignment explanation
Indices: 173258--173414 Score: 151
Period size: 36 Copynumber: 4.3 Consensus size: 36
173248 GTTTAAAAGC
* * *
173258 ATATTATATGGTTTTG-AAAATATGATTTAAAAACAT
1 ATATTATATAGTTTTGAAAAACAT-TTTTAAAAACAT
* *
173294 ATA-T-TATAGTTTTGAAAACACATTTTTGAAAACGT
1 ATATTATATAGTTTTGAAAA-ACATTTTTAAAAACAT
*
173329 ATATTATATAGTTTTGAAAAACATTTTTGAAAACAT
1 ATATTATATAGTTTTGAAAAACATTTTTAAAAACAT
* *
173365 ATA-TATTATATGATTTTAAAAAATAATTTTTAAAAACAT
1 ATATTA-TATA-G-TTTTGAAAAA-CATTTTTAAAAACAT
173404 ATATATATATA
1 ATAT-TATATA
173415 TATTATGGTT
Statistics
Matches: 102, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
34 9 0.09
35 18 0.18
36 29 0.28
37 15 0.15
38 9 0.09
39 16 0.16
40 4 0.04
41 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (36 bp):
ATATTATATAGTTTTGAAAAACATTTTTAAAAACAT
Found at i:173370 original size:38 final size:38
Alignment explanation
Indices: 173258--173547 Score: 217
Period size: 38 Copynumber: 7.6 Consensus size: 38
173248 GTTTAAAAGC
* * * *
173258 ATATTATATGGTTTTG-AAAATATGATTT-AAAA-ACAT
1 ATATTATATAGTTTTGAAAAACAT-TTTTGAAAACATAT
*
173294 ATA-T-TATAGTTTTGAAAACACATTTTTGAAAAC--GT
1 ATATTATATAGTTTTGAAAA-ACATTTTTGAAAACATAT
173329 ATATTATATAGTTTTGAAAAACATTTTTGAAAACATAT
1 ATATTATATAGTTTTGAAAAACATTTTTGAAAACATAT
* * *
173367 ATATTATAT-GATTTTAAAAAATAATTTTTAAAAACATATAT
1 ATATTATATAG-TTTTGAAAAA-CATTTTTGAAAAC--ATAT
173408 ATATATATATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
1 ATAT-TATA-TA--GTTTTGAAAAAC-ATTTTTGAAAACATAT
* *
173451 ATATGT-TATGGTTTTGGAAAGTA-ATTTTTGAAAACATAT
1 ATAT-TATATAGTTTT-GAAA-AACATTTTTGAAAACATAT
* * * *
173490 ATATTATATAATTTCGAAAATA-ATCTTTGAAATCATAT
1 ATATTATATAGTTTTGAAAA-ACATTTTTGAAAACATAT
* *
173528 GTAATATATAGTTTT-AAAAA
1 ATATTATATAGTTTTGAAAAA
173548 TGATTTTTTT
Statistics
Matches: 208, Mismatches: 24, Indels: 44
0.75 0.09 0.16
Matches are distributed among these distances:
34 9 0.04
35 11 0.05
36 26 0.12
37 19 0.09
38 50 0.24
39 42 0.20
40 4 0.02
41 10 0.05
42 6 0.03
43 10 0.05
45 20 0.10
46 1 0.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (38 bp):
ATATTATATAGTTTTGAAAAACATTTTTGAAAACATAT
Found at i:173418 original size:47 final size:45
Alignment explanation
Indices: 173363--173454 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
173353 TTTTGAAAAC
*
173363 ATATATAT-TA-TATGATTTTAAAAAATAATTTTTAAAAACATAT
1 ATATATATATATTATGATTTTAAAAAACAATTTTTAAAAACATAT
* * *
173406 ATATATATATATTATGGTTTTGAAAAACAATTTTTGAAAACATAT
1 ATATATATATATTATGATTTTAAAAAACAATTTTTAAAAACATAT
173451 ATAT
1 ATAT
173455 GTTATGGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 8 0.19
44 2 0.05
45 33 0.77
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (45 bp):
ATATATATATATTATGATTTTAAAAAACAATTTTTAAAAACATAT
Found at i:173432 original size:45 final size:45
Alignment explanation
Indices: 173339--173499 Score: 152
Period size: 39 Copynumber: 3.9 Consensus size: 45
173329 ATATTATATA
*
173339 GTTTTGAAAAA-CATTTTTGAAAAC----ATATATAT-TA-TATG
1 GTTTTGAAAAATAATTTTTGAAAACATATATATATATATATTATG
* * *
173377 ATTTTAAAAAATAATTTTTAAAAACATATATATATATATATTATG
1 GTTTTGAAAAATAATTTTTGAAAACATATATATATATATATTATG
* *
173422 GTTTTGAAAAACAATTTTTGAAAAC------ATATATATGTTATG
1 GTTTTGAAAAATAATTTTTGAAAACATATATATATATATATTATG
* *
173461 GTTTTGGAAAGTAATTTTTGAAAACATATATAT-TATATA
1 GTTTTGAAAAATAATTTTTGAAAACATATATATATATATA
173500 ATTTCGAAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
38 9 0.09
39 46 0.47
43 8 0.08
44 7 0.07
45 27 0.28
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (45 bp):
GTTTTGAAAAATAATTTTTGAAAACATATATATATATATATTATG
Found at i:173443 original size:84 final size:82
Alignment explanation
Indices: 173339--173499 Score: 243
Period size: 84 Copynumber: 1.9 Consensus size: 82
173329 ATATTATATA
173339 GTTTTGAAAAACATTTTTGAAAACATATATAT-TATATGATTTTAAAAAATAATTTTTAAAAACA
1 GTTTTGAAAAACATTTTTGAAAACATATATATGT-TATGATTTTAAAAAATAATTTTTAAAAACA
173403 TATATATATATATATTATG
65 TATATAT-TATATATTATG
* ** * *
173422 GTTTTGAAAAACAATTTTTGAAAACATATATATGTTATGGTTTTGGAAAGTAATTTTTGAAAACA
1 GTTTTGAAAAAC-ATTTTTGAAAACATATATATGTTATGATTTTAAAAAATAATTTTTAAAAACA
173487 TATATATTATATA
65 TATATATTATATA
173500 ATTTCGAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
83 18 0.25
84 52 0.73
85 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (82 bp):
GTTTTGAAAAACATTTTTGAAAACATATATATGTTATGATTTTAAAAAATAATTTTTAAAAACAT
ATATATTATATATTATG
Found at i:179827 original size:34 final size:34
Alignment explanation
Indices: 179742--179831 Score: 103
Period size: 34 Copynumber: 2.6 Consensus size: 34
179732 GTTTTCTAAG
* *
179742 CATATAATATATAATTTTAAAAATTGGTTTAAAAA
1 CATAT-ATATATAATTTTGAAAATTGATTTAAAAA
** *
179777 CATAT-TATATGGTTTTGAAGATATGATTTAAAAA
1 CATATATATATAATTTTGAAAAT-TGATTTAAAAA
179811 CATATAT-TATAATTTTGAAAA
1 CATATATATATAATTTTGAAAA
179832 CACATTTTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
33 13 0.29
34 26 0.58
35 6 0.13
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (34 bp):
CATATATATATAATTTTGAAAATTGATTTAAAAA
Found at i:179852 original size:35 final size:37
Alignment explanation
Indices: 179807--179889 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
179797 ATATGATTTA
*
179807 AAAACATATATTATA-A-TTTTG-AAAACACATTTTTG
1 AAAACATATATTATATAGTTTCGAAAAACA-ATTTTTG
*
179842 AAAACGTATATTATATAGTTTCGAAAAACAATTTTTG
1 AAAACATATATTATATAGTTTCGAAAAACAATTTTTG
179879 AAAACATATAT
1 AAAACATATAT
179890 ATTATATGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 14 0.33
36 1 0.02
37 21 0.50
38 6 0.14
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (37 bp):
AAAACATATATTATATAGTTTCGAAAAACAATTTTTG
Found at i:181650 original size:21 final size:20
Alignment explanation
Indices: 181605--181650 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
181595 GGTCATCCAA
*
181605 ATTTTTAAACCCCATACCGG
1 ATTTTTAAACCCCAGACCGG
181625 ATTTTTAAACCCCAGACCGG
1 ATTTTTAAACCCCAGACCGG
181645 ATTTTT
1 ATTTTT
181651 TTCGGGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (20 bp):
ATTTTTAAACCCCAGACCGG
Found at i:182402 original size:2 final size:2
Alignment explanation
Indices: 182395--182476 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
182385 TTATTATCAC
182395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
182437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
182477 CAATATAACA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:186732 original size:35 final size:37
Alignment explanation
Indices: 186687--186769 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
186677 ATATGATTTA
*
186687 AAAACATATATTATA-A-TTTTG-AAAACACATTTTTG
1 AAAACATATATTATATAGTTTCGAAAAACA-ATTTTTG
*
186722 AAAACGTATATTATATAGTTTCGAAAAACAATTTTTG
1 AAAACATATATTATATAGTTTCGAAAAACAATTTTTG
186759 AAAACATATAT
1 AAAACATATAT
186770 ATTATATGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 14 0.33
36 1 0.02
37 21 0.50
38 6 0.14
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (37 bp):
AAAACATATATTATATAGTTTCGAAAAACAATTTTTG
Found at i:188527 original size:21 final size:20
Alignment explanation
Indices: 188482--188527 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
188472 GGTCATCCAA
*
188482 ATTTTTAAACCCCATACCGG
1 ATTTTTAAACCCCAGACCGG
188502 ATTTTTAAACCCCAGACCGG
1 ATTTTTAAACCCCAGACCGG
188522 ATTTTT
1 ATTTTT
188528 TTCGGGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (20 bp):
ATTTTTAAACCCCAGACCGG
Found at i:193908 original size:10 final size:10
Alignment explanation
Indices: 193893--193920 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
193883 CTCTATTTTA
193893 TTTGTTTTGT
1 TTTGTTTTGT
193903 TTTGTTTTGT
1 TTTGTTTTGT
193913 TTTGTTTT
1 TTTGTTTT
193921 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (10 bp):
TTTGTTTTGT
Found at i:204141 original size:30 final size:31
Alignment explanation
Indices: 204088--204155 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
204078 TTTTTTTAAT
* *
204088 ATTCTAATCTCTTCCTCAAACTATGGCTCTC
1 ATTCTAATCTCATCCTCAAACTATGACTCTC
*
204119 ATTCTAATTTCATCCT-AAACTATGACTCTC
1 ATTCTAATCTCATCCTCAAACTATGACTCTC
*
204149 TTTCTAA
1 ATTCTAA
204156 ATTAGTCCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.41
Consensus pattern (31 bp):
ATTCTAATCTCATCCTCAAACTATGACTCTC
Found at i:206221 original size:43 final size:42
Alignment explanation
Indices: 206121--206257 Score: 150
Period size: 43 Copynumber: 3.1 Consensus size: 42
206111 TGAGAACAAA
* * * *
206121 AAACGCCGCAAAAGGTCGAGATCTATATCTGCGTTTTTTTGGAAC
1 AAACGCCGCAAAAGGTC-AGATATCTAGCGGCG--TTTTTGGAAC
* *
206166 AAACGCCTCAAAAGGTTAGATAGT-TAGCGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCAGATA-TCTAGCGGCGTTTTTGGA-AC
*
206209 AAACGCCGCAAAAGGTCAGATATCTAGCGGCGTTTTTGAATAC
1 AAACGCCGCAAAAGGTCAGATATCTAGCGGCGTTTTTGGA-AC
206252 AAACGC
1 AAACGC
206258 TGCTAATTAC
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
42 9 0.11
43 45 0.56
44 10 0.12
45 16 0.20
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATATCTAGCGGCGTTTTTGGAAC
Found at i:206390 original size:18 final size:19
Alignment explanation
Indices: 206355--206391 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
206345 CTTTATATAA
*
206355 TTAACAACAACCATAAATT
1 TTAACAACAACAATAAATT
206374 TTAACAACAA-AATAAATT
1 TTAACAACAACAATAAATT
206392 AAAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (19 bp):
TTAACAACAACAATAAATT
Found at i:208648 original size:4 final size:4
Alignment explanation
Indices: 208639--210621 Score: 2864
Period size: 4 Copynumber: 499.8 Consensus size: 4
208629 CTCTGCATAC
** * * *
208639 ATGT ATGT ATGT ATGT ATGT ATAC ATGT ATGC ATGT ATGC ATGT AGGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
208687 ATAT ATGT ATGT ATGT ATGT AGGT AGGC ATGT ATGT ATGC ATGT AGGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * *
208735 AGGC ATGT ATGT AGGC ATGT AGGT AGGC ATGT ATGT AGGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * *
208783 AGGC ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATAT AGGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * * *
208831 ATGT AGGA ATGT ATGT AGGA ATGT ATGT AGGC ATGT TTGT AGGC ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
208879 ATGT AGGC ATGT ATGT AGGC ATGT ATGT ATGT ATGT AGGC ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
208927 ATGT ATGT AGGC ATGT ATGT AGGC ATGT ATGT AGGC ATGT ATGT AGGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * *
208975 ATGT AGGC ATGT ATGT AGGC ATGT ATGT AGGC ATGT ATGT AGGC ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
209023 ATGT AGGC ATGT ATGT AGGC ATGT ATGT ATGT ATGC ATGT ATAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* ** *
209071 ATGT ATGT ATGT ATGT ATAT ACAT ATGT ATGT ATGT ATGT ATGT ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
209119 ATGT ATGT AGGC ATGT ATGT AGGA ATGT ATGT ATGT ATGT AGGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
209167 ATGT AGGC ATGT ATGT AGGC ATGT ATGT ATGC ATGT ATGT AGGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
209215 TTGT AGGC ATGT ATGT ATGT ATG- AGGT AGGC ATGT ATGT AGGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
209262 ATAT AGGC ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209308 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209356 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209404 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
209452 ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209500 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * * * *
209547 AGGT AGGC ATGT ATGT AGGC ATGT ATAT AGGC ATGT ATGT AGGC ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
209595 ATGT AGGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209643 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209691 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209739 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209787 ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209833 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209879 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209927 ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
209973 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210019 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210067 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210115 ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210161 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210209 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210257 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210305 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210353 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210400 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210447 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210495 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210543 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
210591 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
210622 AGTAGTTGAT
Statistics
Matches: 1757, Mismatches: 206, Indels: 32
0.88 0.10 0.02
Matches are distributed among these distances:
2 14 0.01
3 4 0.00
4 1739 0.99
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:212636 original size:42 final size:42
Alignment explanation
Indices: 212492--212636 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 42
212482 AGTATCACGC
* *
212492 TACTTTAGTGGCGTTTTTAAGTAAAAACGCCGCTAAATACTCG
1 TACTTTAGTGGCGTTTTTAAG-ACAAACGCCGCTAAAGACTCG
* * * * * *
212535 TACTTTAGAGGCGTTTTTTAA-ACAAACACCGTTATAGAGTAG
1 TACTTTAGTGGCG-TTTTTAAGACAAACGCCGCTAAAGACTCG
212577 TACTTTAGTGGCG-TTTTAAGCACAAACGCCGCTAAAGACTCG
1 TACTTTAGTGGCGTTTTTAAG-ACAAACGCCGCTAAAGACTCG
212619 TA-TTTAGTGGCGTTTTTA
1 TACTTTAGTGGCGTTTTTA
212637 TATAAACGTT
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 6 0.07
41 10 0.12
42 49 0.58
43 12 0.14
44 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (42 bp):
TACTTTAGTGGCGTTTTTAAGACAAACGCCGCTAAAGACTCG
Found at i:212666 original size:41 final size:43
Alignment explanation
Indices: 212492--212674 Score: 139
Period size: 42 Copynumber: 4.4 Consensus size: 43
212482 AGTATCACGC
* * * * *
212492 TACTTTAGTGGCGTTTTTAAGTAAAAACGCCGCTAA-ATACTCG
1 TACTTTAGTGGCG-TTTTAAGCACAAACGCCGCTAATAGAGTAG
* * *
212535 TACTTTAGAGGCGTTTTTTAA--ACAAACACCG-TTATAGAGTAG
1 TACTTTAGTGGCG--TTTTAAGCACAAACGCCGCTAATAGAGTAG
* *
212577 TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAA-AGACTCG
1 TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAATAGAGTAG
* * * **
212619 TA-TTTAGTGGCGTTTTTA-TATAAACGTTGC-AATAGAGTAG
1 TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAATAGAGTAG
*
212659 TACTTTAGTGGTGTTT
1 TACTTTAGTGGCGTTT
212675 GTGCTTAAAA
Statistics
Matches: 113, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
39 2 0.02
40 21 0.19
41 29 0.26
42 40 0.35
43 14 0.12
44 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (43 bp):
TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAATAGAGTAG
Found at i:212686 original size:82 final size:80
Alignment explanation
Indices: 212492--212718 Score: 222
Period size: 82 Copynumber: 2.7 Consensus size: 80
212482 AGTATCACGC
* * *
212492 TACTTTAGTGGCGTTTTTAAGTAAAAACGCCGCTAAATACTCGTACTTTAGAGGCGTTTTTTAAA
1 TACTTTAGTGGCG-TTTT-AG-CAAAACGCCGCTAAAGACTCGTA-TTTAGTGGCG-TTTTTAAA
**
212557 CAAACACCGTTATAGAGTAG
61 CAAACACCGCAATAGAGTAG
* *
212577 TACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAAAGACTCGTATTTAGTGGCGTTTTTATATAA
1 TACTTTAGTGGCGTTTT-AGCA-AAACGCCGCTAAAGACTCGTATTTAGTGGCGTTTTTAAACAA
***
212642 ACGTTGCAATAGAGTAG
64 ACACCGCAATAGAGTAG
* * **
212659 TACTTTAGTGGTGTTTGT-GCTTAAAACGCCTCTAAAGTACGAGTATTTAGTGGCGTTTTT
1 TACTTTAGTGGCGTTT-TAGC--AAAACGCCGCTAAAG-ACTCGTATTTAGTGGCGTTTTT
212719 GCTTAAAATG
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
81 2 0.02
82 49 0.40
83 32 0.26
84 27 0.22
85 13 0.11
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (80 bp):
TACTTTAGTGGCGTTTTAGCAAAACGCCGCTAAAGACTCGTATTTAGTGGCGTTTTTAAACAAAC
ACCGCAATAGAGTAG
Done.