Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 177 of 189
Found at i:52529848 original size:45 final size:44
Alignment explanation
Indices: 52529773--52529859 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 44
52529763 TAGGAAATGA
*
52529773 GAAATGAGAAATGAGAAATATTTAGGAATGATTATAGTTTTCTTC
1 GAAATGAGAAAT-AGAAATATTTAGGAATGATTATAGGTTTCTTC
*
52529818 GAAATGGAGAAAT-GAAATCATTT-GGAAATGATTGTAGGTTTC
1 GAAAT-GAGAAATAGAAAT-ATTTAGG-AATGATTATAGGTTTC
52529860 CAAAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
44 7 0.19
45 23 0.62
46 7 0.19
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (44 bp):
GAAATGAGAAATAGAAATATTTAGGAATGATTATAGGTTTCTTC
Found at i:52530104 original size:26 final size:26
Alignment explanation
Indices: 52530046--52530104 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
52530036 TATTTTCTCG
52530046 AAATTTTACCAGGGGCAAAATCGATA
1 AAATTTTACCAGGGGCAAAATCGATA
* * *
52530072 AAGTTTTACCATGGGTAAAATCG-TCA
1 AAATTTTACCAGGGGCAAAATCGAT-A
52530098 AAATTTT
1 AAATTTT
52530105 GCTAGAGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAGGGGCAAAATCGATA
Found at i:52535353 original size:4 final size:4
Alignment explanation
Indices: 52535344--52535371 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
52535334 GTGAAGCAAT
52535344 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
52535372 GAGTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:52537738 original size:23 final size:22
Alignment explanation
Indices: 52537706--52537753 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
52537696 ATATATGAGT
* *
52537706 TTTATCCAATACATGTATTTATA
1 TTTATACAATACATATATTT-TA
52537729 TTTATACAATACATATATTTTA
1 TTTATACAATACATATATTTTA
52537751 TTT
1 TTT
52537754 GTAATGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATACAATACATATATTTTA
Found at i:52539136 original size:11 final size:10
Alignment explanation
Indices: 52539108--52539134 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
52539098 ACTTCATGCT
52539108 AATTTTTATG
1 AATTTTTATG
52539118 AATTTTTATG
1 AATTTTTATG
52539128 AATTTTT
1 AATTTTT
52539135 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (10 bp):
AATTTTTATG
Found at i:52540302 original size:87 final size:85
Alignment explanation
Indices: 52540085--52540321 Score: 248
Period size: 87 Copynumber: 2.8 Consensus size: 85
52540075 TTAAGGGCGT
* * ** **
52540085 AAAAA-GCCCTCAAACGTTTTCAAAAAAAGTAATTAAATCCTTACTTTTTTATACTCAATTGGGT
1 AAAAAGGCTCTCAAA-GTTTTCAAAAAAAG-AATTAAGTCCTTTTTTTTTTGCACTCAATTGGGT
* **
52540149 ACTTGAACTTTCAAAATGCATC
64 ACTTAAACTGCCAAAATGCATC
* ** * *
52540171 AAAAAGGCTCTCAAA-CTTAAAAAAAAACAATTAAGCCCTGCTTTTTTTTTTGCACTCAATTGGG
1 AAAAAGGCTCTCAAAGTTTTCAAAAAAAGAATTAAG---TCCTTTTTTTTTTGCACTCAATTGGG
*
52540235 TATTTAAACTGCCAAAATGCATC
63 TACTTAAACTGCCAAAATGCATC
52540258 AAAAAGGCTCTCAAAGTTTTTCAAAAAAAGAGATTAAGTCC--TTTTTTTTGCACTCAATTGGGT
1 AAAAAGGCTCTCAAAG-TTTTCAAAAAAAGA-ATTAAGTCCTTTTTTTTTTGCACTCAATTGGGT
52540321 A
64 A
52540322 ATTTCACAAT
Statistics
Matches: 124, Mismatches: 20, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
84 6 0.05
85 32 0.26
86 5 0.04
87 65 0.52
89 10 0.08
90 6 0.05
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (85 bp):
AAAAAGGCTCTCAAAGTTTTCAAAAAAAGAATTAAGTCCTTTTTTTTTTGCACTCAATTGGGTAC
TTAAACTGCCAAAATGCATC
Found at i:52540447 original size:10 final size:9
Alignment explanation
Indices: 52540408--52540551 Score: 55
Period size: 9 Copynumber: 15.4 Consensus size: 9
52540398 TGACATGCAA
*
52540408 AAAAAATAT
1 AAAAATTAT
52540417 AAAAA-T-T
1 AAAAATTAT
*
52540424 AAAAATCAAT
1 AAAAAT-TAT
*
52540434 AAAAGTTAT
1 AAAAATTAT
52540443 AAAAATTATT
1 AAAAATTA-T
***
52540453 AATTTTTAAT
1 AAAAATT-AT
52540463 AAAAA-TATT
1 AAAAATTA-T
*
52540472 AAAATTTTATT
1 AAAA-ATTA-T
* *
52540483 GAAAACTAT
1 AAAAATTAT
52540492 AAAAA-TAT
1 AAAAATTAT
*
52540500 AAAAATCAT
1 AAAAATTAT
52540509 AAAAA-TAT
1 AAAAATTAT
*
52540517 AAAATTTTAT
1 AAAA-ATTAT
*
52540527 AAAAATCATTAA
1 -AAAA--ATTAT
52540539 AAAAATTAT
1 AAAAATTAT
52540548 AAAA
1 AAAA
52540552 TGCATAAAAA
Statistics
Matches: 100, Mismatches: 22, Indels: 26
0.68 0.15 0.18
Matches are distributed among these distances:
7 6 0.06
8 16 0.16
9 40 0.40
10 19 0.19
11 16 0.16
12 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:52540479 original size:20 final size:20
Alignment explanation
Indices: 52540441--52540480 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
52540431 AATAAAAGTT
*
52540441 ATAAAAATTATTAATTTTTA
1 ATAAAAATTATTAAATTTTA
52540461 ATAAAAA-TATTAAAATTTTA
1 ATAAAAATTATT-AAATTTTA
52540481 TTGAAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAAATTATTAAATTTTA
Found at i:52540495 original size:8 final size:8
Alignment explanation
Indices: 52540484--52540520 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
52540474 AATTTTATTG
*
52540484 AAAACTAT
1 AAAAATAT
52540492 AAAAATAT
1 AAAAATAT
52540500 AAAAATCAT
1 AAAAAT-AT
52540509 AAAAATAT
1 AAAAATAT
52540517 AAAA
1 AAAA
52540521 TTTTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:52543418 original size:15 final size:15
Alignment explanation
Indices: 52543394--52543427 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
52543384 TAACATTATG
*
52543394 TAAAAAAAAACTAAA
1 TAAAAAAAAAATAAA
*
52543409 TAAAACAAAAATAAA
1 TAAAAAAAAAATAAA
52543424 TAAA
1 TAAA
52543428 TAACTAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (15 bp):
TAAAAAAAAAATAAA
Found at i:52544879 original size:21 final size:22
Alignment explanation
Indices: 52544855--52544906 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
52544845 TGGCCAGTAC
*
52544855 AAATAACAA-AAACAATAGC-AA
1 AAATAACAACAAA-AACAGCAAA
52544876 AAATAACAACAAAAACAGCAGAA
1 AAATAACAACAAAAACAGCA-AA
52544899 AAATAACA
1 AAATAACA
52544907 GCACCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 3 0.11
23 10 0.37
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAAAACAGCAAA
Found at i:52544900 original size:23 final size:24
Alignment explanation
Indices: 52544859--52544906 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
52544849 CAGTACAAAT
*
52544859 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
*
52544883 AACAAAAACAGCAG-AAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
52544906 A
1 A
52544907 GCACCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAAAAACAACAGCAAAAATAAC
Found at i:52545557 original size:11 final size:11
Alignment explanation
Indices: 52545537--52545580 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
52545527 CTCAACACCA
52545537 AAATTGAGAGG
1 AAATTGAGAGG
*
52545548 AAATTTAGAGG
1 AAATTGAGAGG
*
52545559 AAACTGAGAGG
1 AAATTGAGAGG
52545570 AAATTTGAGAG
1 AAA-TTGAGAG
52545581 AGGATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 22 0.79
12 6 0.21
ACGTcount: A:0.45, C:0.02, G:0.32, T:0.20
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:52547718 original size:3 final size:3
Alignment explanation
Indices: 52547710--52547743 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
52547700 CTAACAATCA
52547710 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
52547744 GCATCTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:52556268 original size:31 final size:29
Alignment explanation
Indices: 52556233--52556308 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
52556223 TAATAGATGT
**
52556233 GTGACCAAAATATTAAATTTTGATAACGTT-A
1 GTGACCAAAATAGAAAATTTT-A-AAC-TTGA
*
52556264 GTGACTAAAATAGAAAATTTTAAACTTGA
1 GTGACCAAAATAGAAAATTTTAAACTTGA
*
52556293 GTAACCAAAATAGAAA
1 GTGACCAAAATAGAAA
52556309 CACTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 2 0.05
29 18 0.46
30 1 0.03
31 18 0.46
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (29 bp):
GTGACCAAAATAGAAAATTTTAAACTTGA
Found at i:52557199 original size:5 final size:5
Alignment explanation
Indices: 52557189--52557215 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
52557179 TAGTTACTTG
52557189 CATAC CATAC CATAC CATAC CATAC CA
1 CATAC CATAC CATAC CATAC CATAC CA
52557216 CTTTACAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (5 bp):
CATAC
Found at i:52561246 original size:13 final size:13
Alignment explanation
Indices: 52561228--52561252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52561218 GATATCAATA
52561228 GAGGTCAAAATCG
1 GAGGTCAAAATCG
52561241 GAGGTCAAAATC
1 GAGGTCAAAATC
52561253 AAGAGGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (13 bp):
GAGGTCAAAATCG
Found at i:52561825 original size:22 final size:23
Alignment explanation
Indices: 52561770--52561833 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 23
52561760 ACTTACGAAA
*
52561770 TTAAAATATAATAATATATAAGT
1 TTAAAATATAAAAATATATAAGT
* *
52561793 TT-AATTTTAAAAATAT-TGAA-T
1 TTAAAATATAAAAATATAT-AAGT
*
52561814 TTAAAATATAAATAT-TATAA
1 TTAAAATATAAAAATATATAA
52561834 TACTACATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
21 7 0.22
22 23 0.72
23 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (23 bp):
TTAAAATATAAAAATATATAAGT
Found at i:52561984 original size:21 final size:18
Alignment explanation
Indices: 52561953--52562011 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 18
52561943 AATTTATTGT
52561953 AATATTATTTAAATTTTTA
1 AATATTATTT-AATTTTTA
52561972 AATATCTATTTTAA-TTTT-
1 AATAT-TA-TTTAATTTTTA
*
52561990 AATAGTGTATTTAATTTATA
1 AATA-T-TATTTAATTTTTA
52562010 AA
1 AA
52562012 AGTATTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 9 0.27
19 15 0.45
20 6 0.18
21 3 0.09
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (18 bp):
AATATTATTTAATTTTTA
Found at i:52566013 original size:4 final size:4
Alignment explanation
Indices: 52566004--52566030 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
52565994 GAAGAAGATA
52566004 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
52566031 TAAAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:52580504 original size:23 final size:23
Alignment explanation
Indices: 52580462--52580513 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
52580452 TGCCACTTAT
* * *
52580462 TAAA-ATTAAATGATTTTGTTTA
1 TAAACATTAAATGAATATGTTCA
52580484 TAAACATTAAATGAATATGTTCA
1 TAAACATTAAATGAATATGTTCA
*
52580507 TGAACAT
1 TAAACAT
52580514 GTTCATCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (23 bp):
TAAACATTAAATGAATATGTTCA
Found at i:52590870 original size:19 final size:19
Alignment explanation
Indices: 52590846--52590885 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52590836 TAATTTGAAT
* *
52590846 TTTTTTAAATATAATATAA
1 TTTTTTAAATAAAATAAAA
*
52590865 TTTTTTTAATAAAATAAAA
1 TTTTTTAAATAAAATAAAA
52590884 TT
1 TT
52590886 AACTTAGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTTAAATAAAATAAAA
Found at i:52595453 original size:21 final size:21
Alignment explanation
Indices: 52595427--52595466 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52595417 AATTTTGGTG
*
52595427 CAGGTTTGTTTCAC-ATTGTCA
1 CAGG-TTGTTACACGATTGTCA
52595448 CAGGTTGTTACACGATTGT
1 CAGGTTGTTACACGATTGT
52595467 GTGACCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (21 bp):
CAGGTTGTTACACGATTGTCA
Found at i:52601632 original size:25 final size:25
Alignment explanation
Indices: 52601604--52601673 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
52601594 TTAAAATTTG
* *
52601604 AAAAGTAAAAGAACTAAAAATGACC
1 AAAATTAAAGGAACTAAAAATGACC
52601629 AAAATTAAAGGAACTAAAAATGACC
1 AAAATTAAAGGAACTAAAAATGACC
52601654 AAAATTAAAGGAACTAAAAA
1 AAAATTAAAGGAACTAAAAA
52601674 AAAATAAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.64, C:0.10, G:0.11, T:0.14
Consensus pattern (25 bp):
AAAATTAAAGGAACTAAAAATGACC
Found at i:52601686 original size:25 final size:25
Alignment explanation
Indices: 52601604--52601686 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
52601594 TTAAAATTTG
* * ** *
52601604 AAAAGTAAAAGAACTAAAAATGACC
1 AAAATTAAAGGAACTAAAAAAAAAC
** *
52601629 AAAATTAAAGGAACTAAAAATGACC
1 AAAATTAAAGGAACTAAAAAAAAAC
*
52601654 AAAATTAAAGGAACTAAAAAAAAAT
1 AAAATTAAAGGAACTAAAAAAAAAC
*
52601679 AAACTTAA
1 AAAATTAA
52601687 CAATTATCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.65, C:0.10, G:0.10, T:0.16
Consensus pattern (25 bp):
AAAATTAAAGGAACTAAAAAAAAAC
Found at i:52616364 original size:12 final size:12
Alignment explanation
Indices: 52616347--52616381 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
52616337 TTTAGACCCT
52616347 TTTATTTCTTTA
1 TTTATTTCTTTA
*
52616359 TTTATTTATTTA
1 TTTATTTCTTTA
*
52616371 TTTCTTTCTTT
1 TTTATTTCTTT
52616382 CTTTCATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTTCTTTA
Found at i:52628112 original size:29 final size:29
Alignment explanation
Indices: 52628056--52628114 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
52628046 TGGGAAAGAC
* *
52628056 AGAACGTAAAACAAACCCTCGTCCTGACA
1 AGAACGTAAAACAAACCCTAGGCCTGACA
*
52628085 AGAACGTAAAACAAACCCTAGGCTTGACA
1 AGAACGTAAAACAAACCCTAGGCCTGACA
52628114 A
1 A
52628115 CCCTAGGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.27, G:0.15, T:0.14
Consensus pattern (29 bp):
AGAACGTAAAACAAACCCTAGGCCTGACA
Found at i:52631363 original size:25 final size:25
Alignment explanation
Indices: 52631329--52631382 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
52631319 TCAATGAGTT
* *
52631329 ACACGGCCTGGCACAC-GGACGTGTG
1 ACACAGCCTGGCACACAAG-CGTGTG
52631354 ACACAGCCTGGCACACAAGCGTGTG
1 ACACAGCCTGGCACACAAGCGTGTG
52631379 ACAC
1 ACAC
52631383 GACCGTGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.26, C:0.33, G:0.30, T:0.11
Consensus pattern (25 bp):
ACACAGCCTGGCACACAAGCGTGTG
Found at i:52638373 original size:49 final size:49
Alignment explanation
Indices: 52638268--52638382 Score: 117
Period size: 49 Copynumber: 2.3 Consensus size: 49
52638258 CCAATTCACG
** *
52638268 GTGGTTATACGGTCATAGGTTGAAGTATAACCAGGGCTCCTAGTTGATA
1 GTGGTTATACGGTCACGGGTTGAAGTATAACCAGGGCTCCTAGTTGAGA
** * * *
52638317 GCAGTTATGCGGTCACGGGTTGGAGTATAACTCAGGAGC-CC-ATTTGAGA
1 GTGGTTATACGGTCACGGGTTGAAGTATAAC-CAGG-GCTCCTAGTTGAGA
*
52638366 GTGGTTATATGGTCACG
1 GTGGTTATACGGTCACG
52638383 ATTTTAAGTT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
49 44 0.85
50 6 0.12
51 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (49 bp):
GTGGTTATACGGTCACGGGTTGAAGTATAACCAGGGCTCCTAGTTGAGA
Found at i:52639027 original size:49 final size:49
Alignment explanation
Indices: 52638907--52639029 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 49
52638897 ATGGTATTAA
* * * * *
52638907 ACTTGAACCCGTGACTATATAATCACCGTCAACTAGGGACCCGAGTTAT
1 ACTTCAACCCATGACTGTATAACCACCGTCAACTAGAGACCCGAGTTAT
* * *
52638956 ACTTCAACCTATGACTGCATAACCACCGTCAACTAGA-AGCCCTAGTTAT
1 ACTTCAACCCATGACTGTATAACCACCGTCAACTAGAGA-CCCGAGTTAT
*
52639005 ACTTCAACCCCTGA-TCGTATAACCA
1 ACTTCAACCCATGACT-GTATAACCA
52639030 TTGTGAACTG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
48 2 0.03
49 59 0.97
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (49 bp):
ACTTCAACCCATGACTGTATAACCACCGTCAACTAGAGACCCGAGTTAT
Found at i:52641934 original size:50 final size:50
Alignment explanation
Indices: 52641822--52642068 Score: 219
Period size: 50 Copynumber: 4.8 Consensus size: 50
52641812 ATTTGGGTAA
* * *
52641822 AGAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCATTAAGACTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TATG
* * *
52641878 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
*** * * *
52641928 AGAGGTCCCCCATAAGACCATGTCTAGGACATGGCATGGGCACCAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
** * * * *
52641978 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATATG
* ** *
52642027 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
52642069 TGTTATTATC
Statistics
Matches: 157, Mismatches: 33, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
49 39 0.25
50 77 0.49
51 2 0.01
55 1 0.01
56 38 0.24
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATG
Found at i:52644522 original size:19 final size:18
Alignment explanation
Indices: 52644500--52644542 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
52644490 TTTTTCAGGC
*
52644500 CATTTTTATTTTCCTTTTT
1 CATTTTTA-TTTCCATTTT
* *
52644519 CATTTATATTTGCATTTT
1 CATTTTTATTTCCATTTT
52644537 CATTTT
1 CATTTT
52644543 GGAGAAAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.67
Consensus pattern (18 bp):
CATTTTTATTTCCATTTT
Found at i:52645346 original size:17 final size:18
Alignment explanation
Indices: 52645324--52645376 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
52645314 ACTTAATCAC
*
52645324 TTTAATATTAA-ATTTAA
1 TTTAATATTAATATTAAA
* *
52645341 TTTAATGTAAATATTAAA
1 TTTAATATTAATATTAAA
*
52645359 TTAAAT-TTAATATTAAA
1 TTTAATATTAATATTAAA
52645376 T
1 T
52645377 CTTATTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 20 0.67
18 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTAATATTAATATTAAA
Found at i:52645425 original size:62 final size:62
Alignment explanation
Indices: 52645348--52645498 Score: 275
Period size: 62 Copynumber: 2.4 Consensus size: 62
52645338 TAATTTAATG
*
52645348 TAAATATTAAATTAAATTTAATATTAAATCTTATTAAAATAATAGAATGTTTATCTACAAGA
1 TAAATATTAAATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATCTACAAGA
* *
52645410 TAAACATTAAATTAAATTTAATATTAAATCTTATTAAAATAATAGATTATTTATCTACAAGA
1 TAAATATTAAATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATCTACAAGA
52645472 TAAATATTAAATTAAATTTAATATTAA
1 TAAATATTAAATTAAATTTAATATTAA
52645499 GATAATCACT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (62 bp):
TAAATATTAAATTAAATTTAATATTAAATCTTATTAAAATAATAGAATATTTATCTACAAGA
Found at i:52645524 original size:20 final size:18
Alignment explanation
Indices: 52645474--52645525 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
52645464 CTACAAGATA
52645474 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
52645491 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
52645511 AATATTAAATTAATA
1 AATATTAAATTAATA
52645526 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:52645572 original size:38 final size:37
Alignment explanation
Indices: 52645509--52645580 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
52645499 GATAATCACT
52645509 TTAATATTAAATTAATAAAATACTATTAACAATAAGTC
1 TTAATATTAAATTAATAAAATACTATTAA-AATAAGTC
*
52645547 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAA
52645581 TATTATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
37 11 0.35
38 18 0.58
39 2 0.06
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAGTC
Found at i:52646022 original size:9 final size:9
Alignment explanation
Indices: 52645998--52646037 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
52645988 AAAATATCAT
52645998 ATTAATTTTA
1 ATTAA-TTTA
*
52646008 ATTAATTTG
1 ATTAATTTA
52646017 ATTAATTTA
1 ATTAATTTA
52646026 ATTAATTTA
1 ATTAATTTA
52646035 ATT
1 ATT
52646038 TTACTTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:52648544 original size:873 final size:874
Alignment explanation
Indices: 52646858--52648606 Score: 3455
Period size: 873 Copynumber: 2.0 Consensus size: 874
52646848 ACGGATTCAG
52646858 AATTAATTCATCTTGTGTCCAGTCCAATGTATCATTCTACCAATAAATACATCTATGCCTCCACT
1 AATTAATTCATCTTGTGTCCAGTCCAATGTATCATTCTACCAATAAATACATCTATGCCTCCACT
*
52646923 CATAAAGTTAACTATTGCGATAGCCGAGACTAGTCATCTCTCAAACTGGAATTGTAAACAACATA
66 CATAAAGTTAACTATTGCGATAGCCGAGACTAGTCATCTCTCAAACTGGAATGGTAAACAACATA
52646988 ATAATTATTCTCAGCATTTGATTCAAATACTCACTTTGATTCTTTTATGGGATTACGAACTTATT
131 ATAATTATTCTCAGCATTTGATTCAAATACTCACTTTGATTCTTTTATGGGATTACGAACTTATT
52647053 TAGGTTATCTACTGCAGTAAGTTGTCTTTCTAGCGATGTATATGTTCTTTACAATGCCACTTATC
196 TAGGTTATCTACTGCAGTAAGTTGTCTTTCTAGCGATGTATATGTTCTTTACAATGCCACTTATC
52647118 TTTAGTTTGAACTTTAGATAATCAATGAGCTAATATTTGTTTGTCACAATTTCGCTATGCATGCA
261 TTTAGTTTGAACTTTAGATAATCAATGAGCTAATATTTGTTTGTCACAATTTCGCTATGCATGCA
52647183 AAATATAAGACATAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTTATTC
326 AAATATAAGACATAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTTATTC
52647248 ATCGTTCAAATAAATAGAAAATAGATACATGTTTACTACAATATTAGCACATTTCCCAACAATCT
391 ATCGTTCAAATAAATAGAAAATAGATACATGTTTACTACAATATTAGCACATTTCCCAACAATCT
*
52647313 ATTCGCCTAATATGATCATATTTTTTTATGAAAAGTCAATTATTATCAAATAGTAATCAAGTCAT
456 ATTCGCCCAATATGATCATATTTTTTTATGAAAAGTCAATTATTATCAAATAGTAATCAAGTCAT
52647378 TCATCATAAAATCGAACGACTCGTGACGACGTTTACTTTTCAACAACCATGTAATGTCAATAAAA
521 TCATCATAAAATCGAACGACTCGTGACGACGTTTACTTTTCAACAACCATGTAATGTCAATAAAA
52647443 GGATATCATTTACCCATTTCATAGGCTATGAATTTCACTGTTGTGAATGACGCTACATACTGCAG
586 GGATATCATTTACCCATTTCATAGGCTATGAATTTCACTGTTGTGAATGACGCTACATACTGCAG
52647508 AAGTCGTACACCCAATGCATACATAATTTGTCATCCACTCAAGATTTAGGTATGCCATACTATGA
651 AAGTCGTACACCCAATGCATACATAATTTGTCATCCACTCAAGATTTAGGTATGCCATACTATGA
52647573 ACGTCACAAGTGAATAAATCCATAAATGAATTCAGGATCTATTCATCTTAGGTCCAGTCTGATGT
716 ACGTCACAAGTGAATAAATCCATAAATGAATTCAGGATCTATTCATCTTAGGTCCAGTCTGATGT
52647638 ATTGTTAGTCCATTCAGTCACATCTATATCTTTATCTTCTATAAGCCATCCGCTCCGATGCCCAA
781 ATTGTTAGTCCATTCAGTCACATCTATATCTTTATCTTCTATAAGCCATCCGCTCCGATGCCCAA
52647703 GACAAAGCATCTCCCCAATTAGACTTGAT
846 GACAAAGCATCTCCCCAATTAGACTTGAT
52647732 AATTAATTCATCTTGTGTCCAGTCCAATGTATCATTCTACCAATAAATACATCTATGCCTCCACT
1 AATTAATTCATCTTGTGTCCAGTCCAATGTATCATTCTACCAATAAATACATCTATGCCTCCACT
52647797 CATAAAGTTAACTATTGCGATAGCCGAGACTAGTCATCTCTCAAACTGGAATGGTAAACAACATA
66 CATAAAGTTAACTATTGCGATAGCCGAGACTAGTCATCTCTCAAACTGGAATGGTAAACAACATA
52647862 ATAATTATTCTCAGCATTTGATTCAAATACTCACTTTGATTCTTTTATGGGATTACGAACTTATT
131 ATAATTATTCTCAGCATTTGATTCAAATACTCACTTTGATTCTTTTATGGGATTACGAACTTATT
52647927 TAGGTTATCTACTGCAGTAAGTTGTCTTTCTAGCGATGTATATGTTCTTTACAATGCCACTTATC
196 TAGGTTATCTACTGCAGTAAGTTGTCTTTCTAGCGATGTATATGTTCTTTACAATGCCACTTATC
52647992 TTTAGTTTGAACTTTAGATAATCAATGAGCTAATATTTGTTTGTCACAATTTCGCTATGCATGCA
261 TTTAGTTTGAACTTTAGATAATCAATGAGCTAATATTTGTTTGTCACAATTTCGCTATGCATGCA
52648057 AAATATAAGACATAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTA-TTATTTATTC
326 AAATATAAGACATAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTTATTC
52648121 ATCGTTCAAATAAATAGAAAATAGATACATGTTTACTACAATATTAGCACATTTCCCAACAATCT
391 ATCGTTCAAATAAATAGAAAATAGATACATGTTTACTACAATATTAGCACATTTCCCAACAATCT
52648186 ATTCGCCCAATATGATCATATTTTTTTATGAAAAGTCAATTATTATCAAATAGTAATCAAGTCAT
456 ATTCGCCCAATATGATCATATTTTTTTATGAAAAGTCAATTATTATCAAATAGTAATCAAGTCAT
52648251 TCATCATAAAATCGAACGACTCGTGACGACGTTTACTTTTCAACAACCATGTAATGTCAATAAAA
521 TCATCATAAAATCGAACGACTCGTGACGACGTTTACTTTTCAACAACCATGTAATGTCAATAAAA
52648316 GGATATCATTTACCCATTTCATAGGCTATGAATTTCACTGTTGTGAATGACGCTACATACTGCAG
586 GGATATCATTTACCCATTTCATAGGCTATGAATTTCACTGTTGTGAATGACGCTACATACTGCAG
52648381 AAGTCGTACACCCAATGCATACATAATTTGTCATCCACTCAAGATTTAGGTATGCCATACTATGA
651 AAGTCGTACACCCAATGCATACATAATTTGTCATCCACTCAAGATTTAGGTATGCCATACTATGA
*
52648446 ACGTCACAAGTGAATAAATCCATAAATGAATTCAGGATCTATTCATCTTAGGTCCAGTCTTATGT
716 ACGTCACAAGTGAATAAATCCATAAATGAATTCAGGATCTATTCATCTTAGGTCCAGTCTGATGT
52648511 ATTGTTAGTCCATTCAGTCACATCTATATCTTTATCTTCTATAAGCCATCCGCTCCGATGCCCAA
781 ATTGTTAGTCCATTCAGTCACATCTATATCTTTATCTTCTATAAGCCATCCGCTCCGATGCCCAA
*
52648576 GACAAAGCATCTCCCCAATTGGACTTGAT
846 GACAAAGCATCTCCCCAATTAGACTTGAT
52648605 AA
1 AA
52648607 AATACATATT
Statistics
Matches: 871, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
873 493 0.57
874 378 0.43
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (874 bp):
AATTAATTCATCTTGTGTCCAGTCCAATGTATCATTCTACCAATAAATACATCTATGCCTCCACT
CATAAAGTTAACTATTGCGATAGCCGAGACTAGTCATCTCTCAAACTGGAATGGTAAACAACATA
ATAATTATTCTCAGCATTTGATTCAAATACTCACTTTGATTCTTTTATGGGATTACGAACTTATT
TAGGTTATCTACTGCAGTAAGTTGTCTTTCTAGCGATGTATATGTTCTTTACAATGCCACTTATC
TTTAGTTTGAACTTTAGATAATCAATGAGCTAATATTTGTTTGTCACAATTTCGCTATGCATGCA
AAATATAAGACATAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTTATTC
ATCGTTCAAATAAATAGAAAATAGATACATGTTTACTACAATATTAGCACATTTCCCAACAATCT
ATTCGCCCAATATGATCATATTTTTTTATGAAAAGTCAATTATTATCAAATAGTAATCAAGTCAT
TCATCATAAAATCGAACGACTCGTGACGACGTTTACTTTTCAACAACCATGTAATGTCAATAAAA
GGATATCATTTACCCATTTCATAGGCTATGAATTTCACTGTTGTGAATGACGCTACATACTGCAG
AAGTCGTACACCCAATGCATACATAATTTGTCATCCACTCAAGATTTAGGTATGCCATACTATGA
ACGTCACAAGTGAATAAATCCATAAATGAATTCAGGATCTATTCATCTTAGGTCCAGTCTGATGT
ATTGTTAGTCCATTCAGTCACATCTATATCTTTATCTTCTATAAGCCATCCGCTCCGATGCCCAA
GACAAAGCATCTCCCCAATTAGACTTGAT
Found at i:52676187 original size:4 final size:4
Alignment explanation
Indices: 52676178--52676235 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
52676168 TTTGAGTTCA
52676178 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
52676226 ATAC ATAC AT
1 ATAC ATAC AT
52676236 GATTTGTTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:52678547 original size:4 final size:4
Alignment explanation
Indices: 52678538--52678593 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
52678528 GAAAATAAAC
52678538 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
52678586 GTAT GTAT
1 GTAT GTAT
52678594 TCATTTATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:52682341 original size:39 final size:39
Alignment explanation
Indices: 52682287--52682365 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
52682277 GGTGAATTAG
*
52682287 ACAAATTAGGCAATTGGGTAGTCTTTGGACAATCTCACC
1 ACAAATTAGGCAATTGGGTAGCCTTTGGACAATCTCACC
52682326 ACAAATTAGGCAATTGGGTAGCCTTTGGACAATCTCACC
1 ACAAATTAGGCAATTGGGTAGCCTTTGGACAATCTCACC
52682365 A
1 A
52682366 ATATATATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (39 bp):
ACAAATTAGGCAATTGGGTAGCCTTTGGACAATCTCACC
Found at i:52684227 original size:24 final size:24
Alignment explanation
Indices: 52684200--52684245 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
52684190 AAATAATTAC
52684200 AAATATCAAATA-ATGAGATTAAAT
1 AAATATCAAATATAT-AGATTAAAT
* *
52684224 AAATCTTAAATATATAGATTAA
1 AAATATCAAATATATAGATTAA
52684246 GTCTTAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (24 bp):
AAATATCAAATATATAGATTAAAT
Found at i:52684719 original size:23 final size:24
Alignment explanation
Indices: 52684671--52684732 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
52684661 AAATTCTTTT
*
52684671 TGTTTTGA-TTAATT-ATGTCATG
1 TGTTTTGATTTAATTAATGTCATA
*
52684693 TGTTTTGATTTAATTAAT-TTATA
1 TGTTTTGATTTAATTAATGTCATA
* *
52684716 TGTTTTTATTTACTTAA
1 TGTTTTGATTTAATTAA
52684733 AGTAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.24
23 24 0.71
24 2 0.06
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (24 bp):
TGTTTTGATTTAATTAATGTCATA
Found at i:52685184 original size:21 final size:19
Alignment explanation
Indices: 52685145--52685184 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
52685135 ATTTACTTTT
*
52685145 AATATAATAATTCAAAATA
1 AATATAATAATTAAAAATA
52685164 AATATAATAATATTAAAAATA
1 AATATAAT-A-ATTAAAAATA
52685185 CATTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAATAATTAAAAATA
Found at i:52691089 original size:2 final size:2
Alignment explanation
Indices: 52691082--52691151 Score: 104
Period size: 2 Copynumber: 35.0 Consensus size: 2
52691072 GCCGGTAAAT
52691082 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * *
52691124 TC TC CC TC CC TC CC TC CC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
52691152 ATTTTTTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (2 bp):
TC
Found at i:52694178 original size:50 final size:50
Alignment explanation
Indices: 52694103--52694201 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
52694093 TGAATTTTTA
52694103 TACTTATAATATGTAGTAGGTTTATTCATTAGCTTCAATAATTAGATATT
1 TACTTATAATATGTAGTAGGTTTATTCATTAGCTTCAATAATTAGATATT
52694153 TACTTATAATATGTAGTAGGTTTATTCATTAGCTTCAATAATTAGATAT
1 TACTTATAATATGTAGTAGGTTTATTCATTAGCTTCAATAATTAGATAT
52694202 CATAGTTCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (50 bp):
TACTTATAATATGTAGTAGGTTTATTCATTAGCTTCAATAATTAGATATT
Found at i:52694523 original size:12 final size:12
Alignment explanation
Indices: 52694506--52694530 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52694496 AGTAGTAATG
52694506 ATTAATTCTGCT
1 ATTAATTCTGCT
52694518 ATTAATTCTGCT
1 ATTAATTCTGCT
52694530 A
1 A
52694531 CTGTGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTAATTCTGCT
Found at i:52694827 original size:40 final size:40
Alignment explanation
Indices: 52694772--52694853 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
52694762 GCGACTCTAT
52694772 CCTTATTATTCCTAGTAGCTTCGTACATATTGACTTTAAC
1 CCTTATTATTCCTAGTAGCTTCGTACATATTGACTTTAAC
52694812 CCTTATTATTCCTAGTAGCTTCGTACATATTGACTTTAAC
1 CCTTATTATTCCTAGTAGCTTCGTACATATTGACTTTAAC
52694852 CC
1 CC
52694854 GACCACTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (40 bp):
CCTTATTATTCCTAGTAGCTTCGTACATATTGACTTTAAC
Found at i:52700385 original size:2 final size:2
Alignment explanation
Indices: 52700378--52700403 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52700368 TAATTGGTTT
52700378 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
52700404 AAAGACGGCA
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):
TA
Found at i:52701577 original size:2 final size:2
Alignment explanation
Indices: 52701570--52701595 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52701560 TCGATAATAC
52701570 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
52701596 TAAAGGAGAA
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:52706133 original size:18 final size:20
Alignment explanation
Indices: 52706097--52706133 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
52706087 ATATATAAGA
*
52706097 TATATATTTTTAATATTTAC
1 TATATATTTTAAATATTTAC
52706117 TATATA-TTTAAAT-TTTA
1 TATATATTTTAAATATTTA
52706134 TAAAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 6 0.38
20 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATATTTTAAATATTTAC
Found at i:52707820 original size:17 final size:17
Alignment explanation
Indices: 52707798--52707853 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
52707788 TTAGATTAAT
52707798 TTATATTTTATATATTA
1 TTATATTTTATATATTA
52707815 TTATA--TTA-A-ATTA
1 TTATATTTTATATATTA
* *
52707828 TTTATATCTTATTTATTA
1 -TTATATTTTATATATTA
52707846 TTATATTT
1 TTATATTT
52707854 ATTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 4 0.12
14 6 0.19
15 3 0.09
16 3 0.09
17 12 0.38
18 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTTATATATTA
Found at i:52707834 original size:31 final size:32
Alignment explanation
Indices: 52707787--52707852 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
52707777 ATATAAAAAA
* *
52707787 ATTAGATTAATTTATATTTTATATATTATTAT
1 ATTAAATTAATTTATATCTTATATATTATTAT
*
52707819 ATTAAATT-ATTTATATCTTATTTATTATTAT
1 ATTAAATTAATTTATATCTTATATATTATTAT
52707850 ATT
1 ATT
52707853 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (32 bp):
ATTAAATTAATTTATATCTTATATATTATTAT
Found at i:52708774 original size:98 final size:98
Alignment explanation
Indices: 52708605--52708800 Score: 392
Period size: 98 Copynumber: 2.0 Consensus size: 98
52708595 GTGTCTTTAG
52708605 TGTAGTTACATTGTCCGTATACTTGTAATTTTTTCAACAAATTGGTCTAATAAAATTCCATCATT
1 TGTAGTTACATTGTCCGTATACTTGTAATTTTTTCAACAAATTGGTCTAATAAAATTCCATCATT
52708670 ATCATTAAATATCTTTTGAATAATGTCTTAAAC
66 ATCATTAAATATCTTTTGAATAATGTCTTAAAC
52708703 TGTAGTTACATTGTCCGTATACTTGTAATTTTTTCAACAAATTGGTCTAATAAAATTCCATCATT
1 TGTAGTTACATTGTCCGTATACTTGTAATTTTTTCAACAAATTGGTCTAATAAAATTCCATCATT
52708768 ATCATTAAATATCTTTTGAATAATGTCTTAAAC
66 ATCATTAAATATCTTTTGAATAATGTCTTAAAC
52708801 GGTTTTTGTA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (98 bp):
TGTAGTTACATTGTCCGTATACTTGTAATTTTTTCAACAAATTGGTCTAATAAAATTCCATCATT
ATCATTAAATATCTTTTGAATAATGTCTTAAAC
Found at i:52715349 original size:2 final size:2
Alignment explanation
Indices: 52715342--52715366 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52715332 CTGATGCTGG
52715342 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
52715367 TTTACATAAA
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:52722450 original size:25 final size:25
Alignment explanation
Indices: 52722371--52722452 Score: 67
Period size: 31 Copynumber: 3.0 Consensus size: 25
52722361 CGTCCTATGT
* * *
52722371 ATCAATTTAACCCTTATACTATTAA
1 ATCAAATTAATCCTTTTACTATTAA
52722396 ATCAAATTAATCTCTCTATTA-TAAAAATTAA
1 ATCAAATTAATC-CT-T-TTACT----ATTAA
52722427 ATCAAATTAATCCTTTTACTATTAA
1 ATCAAATTAATCCTTTTACTATTAA
52722452 A
1 A
52722453 AAAATCAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
25 16 0.35
26 2 0.04
27 2 0.04
28 5 0.11
29 2 0.04
30 2 0.04
31 17 0.37
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (25 bp):
ATCAAATTAATCCTTTTACTATTAA
Found at i:52722456 original size:34 final size:31
Alignment explanation
Indices: 52722391--52722467 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 31
52722381 CCCTTATACT
*
52722391 ATTAAATCAAATTAATCTCTCTATTATAAAA
1 ATTAAATCAAATTAATCTCTCTATTAAAAAA
*
52722422 ATTAAATCAAATTAATCCTTTTACTATTAAAAAA
1 ATTAAATCAAATTAAT-C-TCT-CTATTAAAAAA
* *
52722456 ATCAAATAAAAT
1 ATTAAATCAAAT
52722468 AAAATTGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
31 16 0.41
32 1 0.03
33 2 0.05
34 20 0.51
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (31 bp):
ATTAAATCAAATTAATCTCTCTATTAAAAAA
Found at i:52722719 original size:14 final size:14
Alignment explanation
Indices: 52722698--52722739 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
52722688 GTTTGATTGC
52722698 CAGTAAAATATTTT
1 CAGTAAAATATTTT
*
52722712 CCGTAAAATGA-TTT
1 CAGTAAAAT-ATTTT
*
52722726 CAGGAAAATATTTT
1 CAGTAAAATATTTT
52722740 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (14 bp):
CAGTAAAATATTTT
Found at i:52722752 original size:34 final size:35
Alignment explanation
Indices: 52722708--52722774 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
52722698 CAGTAAAATA
*
52722708 TTTTCCGTAAAATGATTT-CAGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACAGAAAAATATTTTAC
* *
52722742 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGAAAAATATTTT
52722775 CTGTTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGAAAAATATTTTAC
Found at i:52734688 original size:21 final size:21
Alignment explanation
Indices: 52734649--52734688 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
52734639 GCATGTATAT
** *
52734649 ATAATATATTTTTTTATAAAA
1 ATAATATATAATTTAATAAAA
52734670 ATAATATATAATTTAATAA
1 ATAATATATAATTTAATAA
52734689 GAAACTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATATATAATTTAATAAAA
Found at i:52752625 original size:5 final size:5
Alignment explanation
Indices: 52752617--52752647 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
52752607 GTAAACTAAA
52752617 CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC C
1 CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC C
52752648 CAATCGCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.61, G:0.19, T:0.00
Consensus pattern (5 bp):
CGCAC
Found at i:52759300 original size:27 final size:26
Alignment explanation
Indices: 52759262--52759319 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
52759252 ACTCTAGTAC
*
52759262 AATTTTAACGATTCTACCCCTCAATAA
1 AATTTTAACGATTATACCCCT-AATAA
* *
52759289 AATTTTGACGATTATACCCCTAGTAA
1 AATTTTAACGATTATACCCCTAATAA
52759315 AATTT
1 AATTT
52759320 CGAGAAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (26 bp):
AATTTTAACGATTATACCCCTAATAA
Found at i:52761987 original size:15 final size:15
Alignment explanation
Indices: 52761969--52761997 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52761959 CAATCAAATC
52761969 CTCTATAATCTCATT
1 CTCTATAATCTCATT
52761984 CTCTATAATCTCAT
1 CTCTATAATCTCAT
52761998 ATGTTCAGTC
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:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (15 bp):
CTCTATAATCTCATT
Found at i:52763145 original size:30 final size:30
Alignment explanation
Indices: 52763109--52763168 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
52763099 GGGTCCTTGT
52763109 AACCACTGTCACCCATCATAATAAAATTTG
1 AACCACTGTCACCCATCATAATAAAATTTG
*
52763139 AACCACTTTCACCCATCATAATAAAATTTG
1 AACCACTGTCACCCATCATAATAAAATTTG
52763169 TCCACCTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.27, G:0.05, T:0.28
Consensus pattern (30 bp):
AACCACTGTCACCCATCATAATAAAATTTG
Found at i:52763775 original size:31 final size:30
Alignment explanation
Indices: 52763740--52763799 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52763730 AGAGGTGGGA
*
52763740 TGGGAAAGGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AAGGAATAAAAATTTTAGGGGAAAAG
* * *
52763771 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGAATAAAAATTTTAGGGGAAAA
52763800 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAATAAAAATTTTAGGGGAAAAG
Found at i:52764026 original size:9 final size:9
Alignment explanation
Indices: 52764012--52764048 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
52764002 TATAGTTTGA
52764012 TATTCGAAT
1 TATTCGAAT
52764021 TATTCGAAT
1 TATTCGAAT
*
52764030 TATTCGAGT
1 TATTCGAAT
52764039 TATTCGAAT
1 TATTCGAAT
52764048 T
1 T
52764049 CAAAAACTCA
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:52772994 original size:38 final size:39
Alignment explanation
Indices: 52772932--52773035 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 39
52772922 TTTTTCTATA
* *
52772932 TTTATGTATATTTTATAAATTTTTTTACGATTTTTATAAAAT
1 TTTATCTATATTTTA-ATA-TTTTTTACGATTTTTAT-AAAT
*
52772974 TTTA-C-AT-TTTTAATAATTTTTTACGATTTTTATAAGT
1 TTTATCTATATTTTAAT-ATTTTTTACGATTTTTATAAAT
52773011 TTTATCTATATTTTAATATTTTTTA
1 TTTATCTATATTTTAATATTTTTTA
52773036 TTAAAATTCA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
37 7 0.13
38 19 0.35
39 16 0.29
40 9 0.16
42 4 0.07
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (39 bp):
TTTATCTATATTTTAATATTTTTTACGATTTTTATAAAT
Found at i:52773013 original size:19 final size:19
Alignment explanation
Indices: 52772942--52773013 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
52772932 TTTATGTATA
52772942 TTTTATAAATTTTTTTACGAT
1 TTTTATAAA--TTTTTACGAT
*
52772963 TTTTATAAAATTTTAC-AT
1 TTTTATAAATTTTTACGAT
*
52772981 TTTTAATAATTTTTTACGAT
1 TTTT-ATAAATTTTTACGAT
*
52773001 TTTTATAAGTTTT
1 TTTTATAAATTTT
52773014 ATCTATATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.13
19 24 0.53
20 6 0.13
21 9 0.20
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAAATTTTTACGAT
Found at i:52778665 original size:21 final size:21
Alignment explanation
Indices: 52778625--52778681 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
52778615 TTTTGACTTT
52778625 TTTTCTCTT-GTTCAGTTTTTTC
1 TTTTCTCTTGGTT--GTTTTTTC
*
52778647 TTTTCTCTTGGTTGTTTTTTG
1 TTTTCTCTTGGTTGTTTTTTC
52778668 TTTTCTCTTGGTTG
1 TTTTCTCTTGGTTG
52778682 GAAAAACTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 21 0.64
22 9 0.27
23 3 0.09
ACGTcount: A:0.02, C:0.14, G:0.16, T:0.68
Consensus pattern (21 bp):
TTTTCTCTTGGTTGTTTTTTC
Found at i:52779501 original size:13 final size:13
Alignment explanation
Indices: 52779483--52779514 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52779473 TTTCCAGCAA
52779483 TTATGAATTTATT
1 TTATGAATTTATT
52779496 TTATGAATTTATT
1 TTATGAATTTATT
*
52779509 TGATGA
1 TTATGA
52779515 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:52779722 original size:50 final size:50
Alignment explanation
Indices: 52779609--52779800 Score: 240
Period size: 50 Copynumber: 3.7 Consensus size: 50
52779599 ATTCGGGTAA
*
52779609 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* * *
52779665 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
52779715 AGAGGTCCCATGTAATACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
*
52779765 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
52779801 TTTAGCATGT
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
50 48 0.39
51 30 0.24
52 1 0.01
53 3 0.02
55 2 0.02
56 39 0.32
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:52785142 original size:26 final size:25
Alignment explanation
Indices: 52785113--52785198 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
52785103 TCCATATTCA
52785113 AGAATGCTCATACGAGCACATA-AACG
1 AGAA-GCTCATACGAGC-CATATAACG
* *
52785139 AGAAGCTCTTTCGAGCCATATAACG
1 AGAAGCTCATACGAGCCATATAACG
**
52785164 AGAAGCTCCGGA-GAGCCAT-TAATCG
1 AGAAGCT-CATACGAGCCATATAA-CG
52785189 AGAAGCTCAT
1 AGAAGCTCAT
52785199 GAAAGAGCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 8 0.16
25 37 0.74
26 5 0.10
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (25 bp):
AGAAGCTCATACGAGCCATATAACG
Found at i:52785212 original size:27 final size:27
Alignment explanation
Indices: 52785175--52785277 Score: 179
Period size: 27 Copynumber: 3.8 Consensus size: 27
52785165 GAAGCTCCGG
* *
52785175 AGAGCCATTAATCGAGAAGCTCATGAA
1 AGAGCCTTTAATCGGGAAGCTCATGAA
52785202 AGAGCCTTTAATCGGGAAGCTCATGAA
1 AGAGCCTTTAATCGGGAAGCTCATGAA
52785229 AGAGCCTTTAATCGGGAAGCTCATGAA
1 AGAGCCTTTAATCGGGAAGCTCATGAA
*
52785256 GGAGCCTTTAATCGGGAAGCTC
1 AGAGCCTTTAATCGGGAAGCTC
52785278 CGAAGAGCCA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (27 bp):
AGAGCCTTTAATCGGGAAGCTCATGAA
Found at i:52787494 original size:23 final size:23
Alignment explanation
Indices: 52787468--52787565 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
52787458 ATAAGTGCCA
52787468 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
52787491 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
52787514 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
52787536 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
52787559 CACTGAT
1 CACTGAT
52787566 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:52787533 original size:45 final size:45
Alignment explanation
Indices: 52787475--52787563 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
52787465 CCACACTGAT
* *
52787475 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
52787520 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
52787564 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:52793722 original size:13 final size:13
Alignment explanation
Indices: 52793704--52793735 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52793694 TTTCCAGCAA
52793704 TTATGAATTTATT
1 TTATGAATTTATT
52793717 TTATGAATTTATT
1 TTATGAATTTATT
*
52793730 TGATGA
1 TTATGA
52793736 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:52793941 original size:50 final size:50
Alignment explanation
Indices: 52793828--52794069 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
52793818 ATTTGGGTAA
* * *
52793828 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
52793884 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
52793934 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
52793984 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
52794034 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
52794070 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:52794017 original size:100 final size:103
Alignment explanation
Indices: 52793828--52794077 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
52793818 ATTTGGGTAA
52793828 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
52793893 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
52793934 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
52793996 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
52794034 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
52794078 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:52800842 original size:13 final size:13
Alignment explanation
Indices: 52800824--52800855 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52800814 TTTCCAGCAA
52800824 TTATGAATTTATT
1 TTATGAATTTATT
52800837 TTATGAATTTATT
1 TTATGAATTTATT
*
52800850 TGATGA
1 TTATGA
52800856 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:52801063 original size:50 final size:50
Alignment explanation
Indices: 52800950--52801191 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
52800940 ATTTGGGTAA
* * *
52800950 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
52801006 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
52801056 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
52801106 AGAGGTCCCCTATAAGACCAGGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
52801156 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
52801192 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.19
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:52801140 original size:100 final size:103
Alignment explanation
Indices: 52800950--52801199 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
52800940 ATTTGGGTAA
52800950 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
52801015 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCAGGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
52801056 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
52801118 TAAGACCAGGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCAGGTCTGGGACATGGCATGGGCACCATCACG
* *
52801156 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
52801200 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCAGGTCTGGGACATGGCATGGGCACCATCACG
Found at i:52803676 original size:30 final size:30
Alignment explanation
Indices: 52803628--52803747 Score: 143
Period size: 30 Copynumber: 4.0 Consensus size: 30
52803618 AACTATGTTG
* * *
52803628 CTCACATAAGTTGAATTTATATCAAGGTTA
1 CTCACACAAGCTGAATTTATATTAAGGTTA
* * *
52803658 CTCACACAAGCTGGATTTATGTTAAGGTTT
1 CTCACACAAGCTGAATTTATATTAAGGTTA
* * *
52803688 CTCACACAAGCTGGATTTATGTTAAGGTTT
1 CTCACACAAGCTGAATTTATATTAAGGTTA
*
52803718 CTCACACAAGCTTAATTTATATT-AGGTTA
1 CTCACACAAGCTGAATTTATATTAAGGTTA
52803747 C
1 C
52803748 CCGTCTAAGT
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
29 6 0.08
30 74 0.93
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (30 bp):
CTCACACAAGCTGAATTTATATTAAGGTTA
Found at i:52824791 original size:417 final size:416
Alignment explanation
Indices: 52824017--52824851 Score: 1485
Period size: 417 Copynumber: 2.0 Consensus size: 416
52824007 GCAGTCCAAC
*
52824017 TAGATTTTAAGTGCCTATTTGGATTTCTAAAAGGGATGAAAATAGATTTTAAATTAAATAAATTT
1 TAGATTTTAAGTGCCAATTTGGATTTCTAAAAGGGATGAAAATAGATTTTAAATTAAATAAATTT
52824082 AATTAATTAAAATTTTTAAACCTAAACCTTAACTGAAAAAACTGTTCATCTCCTCTTTTTAATTT
66 AATTAATTAAAATTTTTAAACCTAAACCTTAACTGAAAAAACTGTTCATCTCCTCTTTTTAATTT
*
52824147 TTCTCCGTCTCTTCTTTTTTTAGGGTTTTTTTTCATTTGACTGGAAAAACTATTATTAAGATCAA
131 TTCTCCGTCTCTTCTTTTTTTAGGGTTTTTTTTCATTTGACTGAAAAAACTATTATTAAGATCAA
* *
52824212 AATAGTTGAAATCAAATTGACTGCTTCATAAAGTTGGATTCAATGGAGAGTTCAGGTATGTCTTC
196 AATAGTTGAAATCAAATTGACTGCTTCATAAAGATGGATTCAATAGAGAGTTCAGGTATGTCTTC
52824277 TTTGCATTCCTCTGTCTCTTTTATTCAATACTGAAAAACAAAAGATTGAATTTTTTATTGTTTAA
261 TTTGCATTCCTCTGTCTCTTTTATTCAATACTGAAAAACAAAAGATTGAATTTTTTATTGTTTAA
* * *
52824342 TGAAAACCCTAAATTAAAATTCTTGATATTTTCTTCAACTTTTTGAAATTGTTTGTGAACATGTA
326 AGAAAACCCTAAATTAAAATTCTTAATATTTTCTTCAACTTTTT-AAATTGTTCGTGAACATGTA
*
52824407 TTTTATTTTGCGTCGGTAGACATCCCA
390 TTTTATTTTGCGTCAGTAGACATCCCA
*
52824434 TAGATTTTAAGTGTCAATTTGGATTTCTAAATA-GGATGAAAATAGATTTTAAATTAAATAAATT
1 TAGATTTTAAGTGCCAATTTGGATTTCTAAA-AGGGATGAAAATAGATTTTAAATTAAATAAATT
52824498 TAATTAATTAAAATTTTTAAACCTAAACCTTAACTGAAAAAACTGTTCATCTCCTCTTTTTAATT
65 TAATTAATTAAAATTTTTAAACCTAAACCTTAACTGAAAAAACTGTTCATCTCCTCTTTTTAATT
* * *
52824563 TTTCTTCGTCTCTTC-TTTTTTAGGTTTTTTTTTTCATTTGACTGAAAAAATTATTATTAAGATC
130 TTTCTCCGTCTCTTCTTTTTTTAGG-GTTTTTTTTCATTTGACTGAAAAAACTATTATTAAGATC
*
52824627 AAAATAGTTGAAATCAAATTGACTGCTTCATAAAGATGGGTTCAATAGAGAGTTCAGGTATGTCT
194 AAAATAGTTGAAATCAAATTGACTGCTTCATAAAGATGGATTCAATAGAGAGTTCAGGTATGTCT
* *
52824692 TCTTTGTATTCCTCTGTCTTTTTTATTCAATACTGAAAAACAAAAGATTGAATTTTTTATTGTTT
259 TCTTTGCATTCCTCTGTCTCTTTTATTCAATACTGAAAAACAAAAGATTGAATTTTTTATTGTTT
*
52824757 AAAGAAAACCCTAAATTAAAATTCTTAATATTTTCTTCGACTTTTTAAATTGTTCGTGAACATGT
324 AAAGAAAACCCTAAATTAAAATTCTTAATATTTTCTTCAACTTTTTAAATTGTTCGTGAACATGT
52824822 ATTTTATTTTGCGTCAGTAGACATCCCA
389 ATTTTATTTTGCGTCAGTAGACATCCCA
52824850 TA
1 TA
52824852 AAATGCAACT
Statistics
Matches: 400, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
416 56 0.14
417 343 0.86
418 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (416 bp):
TAGATTTTAAGTGCCAATTTGGATTTCTAAAAGGGATGAAAATAGATTTTAAATTAAATAAATTT
AATTAATTAAAATTTTTAAACCTAAACCTTAACTGAAAAAACTGTTCATCTCCTCTTTTTAATTT
TTCTCCGTCTCTTCTTTTTTTAGGGTTTTTTTTCATTTGACTGAAAAAACTATTATTAAGATCAA
AATAGTTGAAATCAAATTGACTGCTTCATAAAGATGGATTCAATAGAGAGTTCAGGTATGTCTTC
TTTGCATTCCTCTGTCTCTTTTATTCAATACTGAAAAACAAAAGATTGAATTTTTTATTGTTTAA
AGAAAACCCTAAATTAAAATTCTTAATATTTTCTTCAACTTTTTAAATTGTTCGTGAACATGTAT
TTTATTTTGCGTCAGTAGACATCCCA
Found at i:52830487 original size:21 final size:22
Alignment explanation
Indices: 52830463--52830513 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
52830453 ATTTATCATG
52830463 AAATTAAAT-AAATT-ATACAAT
1 AAATTAAATAAAATTAATA-AAT
*
52830484 AAATCAAATAAAATTAATAAAT
1 AAATTAAATAAAATTAATAAAT
52830506 -AATTAAAT
1 AAATTAAAT
52830514 TATATAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 15 0.58
22 8 0.31
23 3 0.12
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATTAAATAAAATTAATAAAT
Found at i:52831612 original size:28 final size:28
Alignment explanation
Indices: 52831547--52831614 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
52831537 ACGTTCAAAC
* *
52831547 TTACATTTTT-GTCATTTTCGTCTACCAT
1 TTAC-TTTTTGGTCATTTTCATCCACCAT
*
52831575 TTTCTTTTTGGTCATTTTCATCCACCA-
1 TTACTTTTTGGTCATTTTCATCCACCAT
52831602 TTACTTGTTTGGT
1 TTACTT-TTTGGT
52831615 TTTCATCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 10 0.29
28 24 0.71
ACGTcount: A:0.15, C:0.21, G:0.10, T:0.54
Consensus pattern (28 bp):
TTACTTTTTGGTCATTTTCATCCACCAT
Found at i:52831720 original size:44 final size:42
Alignment explanation
Indices: 52831670--52831862 Score: 180
Period size: 44 Copynumber: 4.6 Consensus size: 42
52831660 TAAAAAGTAC
*
52831670 GAGAAAACCCCCTCTATTTAAAAAAAATATTATTTCTTTTGTTA
1 GAGAAAAACCCCTCTATTTAAAAAAAATATTA-TT-TTTTGTTA
* ** *
52831714 GAGAAAAGCCCCTCTATTTTTAAATAATATTA----TT-TTA
1 GAGAAAAACCCCTCTATTTAAAAAAAATATTATTTTTTGTTA
** *
52831751 GAGAAAAACCATTCTATTTAAAAAATATATTATTTTTTGTTA
1 GAGAAAAACCCCTCTATTTAAAAAAAATATTATTTTTTGTTA
* * * * * *
52831793 GAGAAAAGCCCCTCTATTTTAAAATATATATTGTTTTTTTATTT
1 GAGAAAAACCCCTCTA-TTTAAAAAAAATATT-ATTTTTTGTTA
*
52831837 GAGAAAAACCCCTCTATTTTAAAAAA
1 GAGAAAAACCCCTCTATTTAAAAAAA
52831863 TGTATATTAT
Statistics
Matches: 120, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
37 28 0.23
38 2 0.02
41 2 0.02
42 16 0.13
43 21 0.17
44 51 0.43
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (42 bp):
GAGAAAAACCCCTCTATTTAAAAAAAATATTATTTTTTGTTA
Found at i:52831752 original size:37 final size:38
Alignment explanation
Indices: 52831711--52831829 Score: 132
Period size: 37 Copynumber: 3.1 Consensus size: 38
52831701 ATTTCTTTTG
*
52831711 TTAGAGAAAAGCCCCTCTATTTTTAAATA-ATATTATT
1 TTAGAGAAAAGCCCCTCTATTTTAAAATATATATTATT
* ** * *
52831748 TTAGAGAAAAACCATTCTATTTAAAAAATATATTATTTTTT
1 TTAGAGAAAAGCCCCTCTATTT-TAAAATATA-TA-TTATT
*
52831789 GTTAGAGAAAAGCCCCTCTATTTTAAAATATATATTGTT
1 -TTAGAGAAAAGCCCCTCTATTTTAAAATATATATTATT
52831828 TT
1 TT
52831830 TTTATTTGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
37 19 0.29
38 7 0.11
39 5 0.08
40 4 0.06
41 12 0.18
42 19 0.29
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (38 bp):
TTAGAGAAAAGCCCCTCTATTTTAAAATATATATTATT
Found at i:52833676 original size:20 final size:20
Alignment explanation
Indices: 52833653--52833696 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
52833643 AATAAAGTAG
52833653 AAGCAACTCAAAG-ACAAAAA
1 AAGCAA-TCAAAGAACAAAAA
* *
52833673 AAGCAATGAGAGAACAAAAA
1 AAGCAATCAAAGAACAAAAA
52833693 AAGC
1 AAGC
52833697 CACAAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.64, C:0.16, G:0.16, T:0.05
Consensus pattern (20 bp):
AAGCAATCAAAGAACAAAAA
Found at i:52848915 original size:24 final size:25
Alignment explanation
Indices: 52848888--52848946 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
52848878 CTTTGGTAGT
52848888 TTGGG-TTGATGGGGCT-TTTGGGTA
1 TTGGGTTTG-TGGGGCTGTTTGGGTA
*
52848912 TTGGGTTTGTTGGGCTGTTTGGGTA
1 TTGGGTTTGTGGGGCTGTTTGGGTA
*
52848937 TTGAGTTTGT
1 TTGGGTTTGT
52848947 AAAAAATTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.07, C:0.03, G:0.42, T:0.47
Consensus pattern (25 bp):
TTGGGTTTGTGGGGCTGTTTGGGTA
Found at i:52848925 original size:25 final size:25
Alignment explanation
Indices: 52848899--52848946 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
52848889 TGGGTTGATG
52848899 GGGCT-TTTGGGTATTGGGTTTGTT
1 GGGCTGTTTGGGTATTGGGTTTGTT
*
52848923 GGGCTGTTTGGGTATTGAGTTTGT
1 GGGCTGTTTGGGTATTGGGTTTGT
52848947 AAAAAATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.06, C:0.04, G:0.42, T:0.48
Consensus pattern (25 bp):
GGGCTGTTTGGGTATTGGGTTTGTT
Found at i:52851435 original size:19 final size:19
Alignment explanation
Indices: 52851413--52851456 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
52851403 AAATATCTTA
*
52851413 AATTTTCAAAGTTATTTTG
1 AATTTTCAAAATTATTTTG
*
52851432 AATTTTTGAAAATTATTTTG
1 AA-TTTTCAAAATTATTTTG
52851452 -ATTTT
1 AATTTT
52851457 TTTTTGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 3 0.14
20 15 0.68
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
AATTTTCAAAATTATTTTG
Found at i:52852682 original size:22 final size:21
Alignment explanation
Indices: 52852657--52852697 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
52852647 ATAAGAATAT
*
52852657 TGTTACAGTATAATTAATTTCA
1 TGTTACAGCAT-ATTAATTTCA
*
52852679 TGTTAGAGCATATTAATTT
1 TGTTACAGCATATTAATTT
52852698 GAAACCATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (21 bp):
TGTTACAGCATATTAATTTCA
Found at i:52871605 original size:20 final size:20
Alignment explanation
Indices: 52871582--52871623 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
52871572 TCTTTATTTT
52871582 ATTATTTTAATATCAATA-TA
1 ATTATTTTAAT-TCAATACTA
*
52871602 ATTATTTTTATTCAATACTA
1 ATTATTTTAATTCAATACTA
52871622 AT
1 AT
52871624 ATAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTATTTTAATTCAATACTA
Found at i:52884281 original size:3 final size:3
Alignment explanation
Indices: 52884273--52884307 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
52884263 ATATAAAGCT
52884273 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
52884308 CAACATGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:52887274 original size:3 final size:3
Alignment explanation
Indices: 52887266--52887295 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
52887256 CTTCGAGGCT
52887266 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
52887296 GAACCCCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:52887746 original size:101 final size:101
Alignment explanation
Indices: 52887574--52887766 Score: 228
Period size: 101 Copynumber: 1.9 Consensus size: 101
52887564 TTTTTGGGAA
* * * **
52887574 CATGGATGGTTAAATGTATAGCTTACATAAGTTATCAACCCTTGCCAAAAGACATTACAAGAGGT
1 CATGCATGGTTAAATGTATAGCTTACATAAGTAATAAACCCTTGCCAAAAGACATTACAAGAAAT
** *
52887639 GGATAGGATCCACGATTGTGTATTCGCATGCATGCATT
66 AAATAGGA--CACGATAGTGTATTCGCATGCATGCATT
* * ** *
52887677 CATGCATGGTTAAAT-TATTGCTTATATAA-TAATAAACCCTTGCGTAAAGACATTACATGAAAT
1 CATGCATGGTTAAATGTATAGCTTACATAAGTAATAAACCCTTGCCAAAAGACATTACAAGAAAT
*
52887740 AAATAGGACACGATAGTTTATTCGCAT
66 AAATAGGACACGATAGTGTATTCGCAT
52887767 TATTGCTATT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
99 17 0.22
101 33 0.43
102 12 0.16
103 14 0.18
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (101 bp):
CATGCATGGTTAAATGTATAGCTTACATAAGTAATAAACCCTTGCCAAAAGACATTACAAGAAAT
AAATAGGACACGATAGTGTATTCGCATGCATGCATT
Found at i:52888477 original size:106 final size:106
Alignment explanation
Indices: 52888292--52888492 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
52888282 AAGCTTTAAG
*
52888292 AGGATATTTGGCTATTTAGTTGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
52888357 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
52888398 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
52888463 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
52888493 GAAAAATTCC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:52888950 original size:23 final size:25
Alignment explanation
Indices: 52888915--52888965 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
52888905 AAAAAGTTTA
*
52888915 TACAAAACGATTTTAAAA-TACTATG
1 TACAAAAC-ATTTTAAAAGTAATATG
52888940 TACAAAA-ATTTTAAAAGTAATATG
1 TACAAAACATTTTAAAAGTAATATG
52888964 TA
1 TA
52888966 TGTACATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 8 0.33
25 7 0.29
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
TACAAAACATTTTAAAAGTAATATG
Found at i:52898076 original size:20 final size:20
Alignment explanation
Indices: 52898053--52898091 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
52898043 TCAAAGATTT
52898053 ACACAGCTTGACTACACGAA
1 ACACAGCTTGACTACACGAA
52898073 ACACAGCTTGACTACACGA
1 ACACAGCTTGACTACACGA
52898092 CCATGTGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.15
Consensus pattern (20 bp):
ACACAGCTTGACTACACGAA
Found at i:52910218 original size:20 final size:21
Alignment explanation
Indices: 52910172--52910218 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
52910162 AAACATACCT
*
52910172 AACCCAAAACAATAAAATTAC
1 AACCCAAAACAATAAAATTAA
*
52910193 AGCCCAAAA-AGA-AAAATTAA
1 AACCCAAAACA-ATAAAATTAA
52910213 AACCCA
1 AACCCA
52910219 GCCTAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.11
Consensus pattern (21 bp):
AACCCAAAACAATAAAATTAA
Found at i:52911260 original size:3 final size:3
Alignment explanation
Indices: 52911201--52911275 Score: 55
Period size: 3 Copynumber: 24.7 Consensus size: 3
52911191 TTTAGCATTT
* * * * *
52911201 TTA TTA TT- TTA TTCA TTA TTT TTA ATA TT- TTA TCA TCTT TTA TCA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
52911246 TTA TTG TTA TTA TTA GTTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
52911276 TCTTCATCTA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
2 4 0.07
3 44 0.80
4 7 0.13
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:52911912 original size:110 final size:110
Alignment explanation
Indices: 52911763--52912082 Score: 403
Period size: 110 Copynumber: 2.9 Consensus size: 110
52911753 TTCAAAAAAC
* * *
52911763 AAAAATTTTTCAAATAAGGCAATG-TTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * *
52911827 AGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATACCCTTTT
*
52911872 AAAAAATTTTAAAATAAGGCAACGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
52911937 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
66 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATACCCTTTT
* ** * ** * ** * * *
52911982 TAAAAATTTCGAAGTAAGATAATATTTTGCGTTTGGAAATTTAAGGAAACGTACCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * *
52912047 GGGTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATA
66 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATA
52912083 TCCTCTCGAA
Statistics
Matches: 184, Mismatches: 26, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
108 23 0.12
109 21 0.11
110 140 0.76
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (110 bp):
AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATACCCTTTT
Found at i:52915461 original size:18 final size:18
Alignment explanation
Indices: 52915440--52915478 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
52915430 AAGGCAAGAA
*
52915440 AAAGAAAAAATTAAAATC
1 AAAGAAAAAATGAAAATC
**
52915458 AAAGTCAAAATGAAAATC
1 AAAGAAAAAATGAAAATC
52915476 AAA
1 AAA
52915479 AATCAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (18 bp):
AAAGAAAAAATGAAAATC
Found at i:52915532 original size:24 final size:23
Alignment explanation
Indices: 52915470--52915532 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
52915460 AGTCAAAATG
*
52915470 AAAATCAAAAATCAA-AAATAAAA
1 AAAATC-AAAATCAAGAAAGAAAA
* **
52915493 AAAAACAAAAAGAAGAAAGAAGAA
1 AAAATCAAAATCAAGAAAGAA-AA
52915517 AAAATCAAAATCAAGA
1 AAAATCAAAATCAAGA
52915533 TCAAAATGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 6 0.19
23 10 0.32
24 15 0.48
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (23 bp):
AAAATCAAAATCAAGAAAGAAAA
Found at i:52915569 original size:6 final size:6
Alignment explanation
Indices: 52915535--52915559 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52915525 AATCAAGATC
52915535 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
52915560 GAAAAAGAAA
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:52916507 original size:7 final size:7
Alignment explanation
Indices: 52916490--52916540 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
52916480 CTTTGAGTAA
52916490 AAAAATG
1 AAAAATG
*
52916497 -AAAATA
1 AAAAATG
52916503 AAAAATG
1 AAAAATG
52916510 AAAAA-G
1 AAAAATG
52916516 AAAAATG
1 AAAAATG
52916523 AAAAATG
1 AAAAATG
52916530 AAAAATG
1 AAAAATG
52916537 AAAA
1 AAAA
52916541 GTAAAATGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 11 0.28
7 29 0.73
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:52916507 original size:13 final size:13
Alignment explanation
Indices: 52916489--52916546 Score: 73
Period size: 13 Copynumber: 4.3 Consensus size: 13
52916479 ACTTTGAGTA
52916489 AAAAAATGAAAAT
1 AAAAAATGAAAAT
52916502 AAAAAATGAAAA-
1 AAAAAATGAAAAT
52916514 AGAAAAATGAAAAAT
1 A-AAAAATG-AAAAT
*
52916529 GAAAAATGAAAAGT
1 AAAAAATGAAAA-T
52916543 AAAA
1 AAAA
52916547 TGGAGAGGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 1 0.03
13 23 0.59
14 15 0.38
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (13 bp):
AAAAAATGAAAAT
Found at i:52916520 original size:20 final size:21
Alignment explanation
Indices: 52916490--52916546 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
52916480 CTTTGAGTAA
52916490 AAAAATG-AAAATAAAAAATG
1 AAAAATGAAAAATAAAAAATG
*
52916510 AAAAA-GAAAAATGAAAAATG
1 AAAAATGAAAAATAAAAAATG
*
52916530 AAAAATGAAAAGTAAAA
1 AAAAATGAAAAATAAAA
52916547 TGGAGAGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 22 0.69
21 9 0.28
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAATGAAAAATAAAAAATG
Found at i:52918009 original size:87 final size:85
Alignment explanation
Indices: 52917830--52918518 Score: 322
Period size: 87 Copynumber: 7.9 Consensus size: 85
52917820 TTGAAGCCAG
** * * ** * *
52917830 AGATCTTATCTCCCTG-AGATTACAACGAAGTAGATCGAAGACACTATCCTATCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGTAGATCGAA-TCA-GGTCTTATCTCCCTGAGGTT
* ** * **
52917894 ACAGTGAAGCGGAT-TAAAATAA
63 ACAGTGGAGTAGATCGAAAATTC
* ** *
52917916 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGAATCAGGTCTTATCTCCCTGAGGTTAC
*
52917981 AGTGGAGTAGACCGAATAATTTC
65 AGTGGAGTAGATCGAA-AA-TTC
* * * * * *
52918004 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATT
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGAA-TCAG-G-TCTTATCTCCCTGAGGTT
* *
52918069 ACAGCGGAGTAGATCGAAGA--C
63 ACAGTGGAGTAGATCGAAAATTC
* * * ** ** * * * *
52918090 ACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGT
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGTAGA-TCGAAT-CAGG-TCTTATCTCCCTGAGGT
** *
52918155 TACAGCAGAGTAGATCG--CA-TC
62 TACAGTGGAGTAGATCGAAAATTC
* * * * *
52918176 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGATG
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGTAGATCG---AA--TCAGGTCTTATCTCCCTGAGG
* * ***
52918241 TTACAGTGGAGCAGATTG-AAGCCC
61 TTACAGTGGAGTAGATCGAAAATTC
* * * ** * *
52918265 GAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
1 -AGATCTTATCTCCCTGAAG-TTACAGTGGAGTAGATCGAA-TCA-GGTCTTATCTCCCTGAGGT
* * **
52918329 TACAGTGGAG-CGTAT-TAAAATAA
62 TACAGTGGAGTAG-ATCGAAAATTC
* *** * *
52918352 AGGATCTTATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTAC
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGAATCAGGTCTTATCTCCCTGAGGTTAC
*
52918417 AGTGGAGTAGACCGAAGAATTTC
65 AGTGGAGTAGATCGAA-AA-TTC
* * * * * * * *
52918440 AGATCTTGTC-CCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAAGATCTTATCTCTCTGAAGTT
1 AGATCTTATCTCCC-TGAAGTTACAGTGGAGTAGATCGAA-TC-AGGTCTTATCTCCCTGAGGTT
* *
52918504 ATAGTAGAGTAGATC
63 ACAGTGGAGTAGATC
52918519 ACATCAGATT
Statistics
Matches: 453, Mismatches: 117, Indels: 63
0.72 0.18 0.10
Matches are distributed among these distances:
85 78 0.17
86 20 0.04
87 240 0.53
88 19 0.04
89 34 0.08
90 62 0.14
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (85 bp):
AGATCTTATCTCCCTGAAGTTACAGTGGAGTAGATCGAATCAGGTCTTATCTCCCTGAGGTTACA
GTGGAGTAGATCGAAAATTC
Found at i:52918159 original size:218 final size:218
Alignment explanation
Indices: 52917781--52918920 Score: 1775
Period size: 218 Copynumber: 5.2 Consensus size: 218
52917771 ATCAGTGAAT
* * *
52917781 ATTTCAGATCTTATCTCACTGAGGTCACAGTGGAGCAAATTGAAGCCAGAGATCTTATCTCCCTG
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
* * *
52917846 AGATTACAACGAAGTAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAA
66 AGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
52917911 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
131 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
*
52917976 GTTACAGTGGAGTAGACCGAATA
196 GTTACAGTGGAGTAGACCGAAGA
*
52917999 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTA
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
*
52918064 AGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAA
66 AGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
*
52918129 AATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
131 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
*
52918194 GTTACAGTGGAGTAGACCGAAAA
196 GTTACAGTGGAGTAGACCGAAGA
* *
52918217 ATTTCAGATCTTATCTCCCTGATGTTACAGTGGAGCAGATTGAAGCCCGAGATCTTATCTCCCTG
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
* *
52918282 AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGTATTAA
66 AGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
* *
52918347 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAAAGTAGATCGCATCAGGTCTTATCTCCCTAAG
131 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
52918412 GTTACAGTGGAGTAGACCGAAGA
196 GTTACAGTGGAGTAGACCGAAGA
* *
52918435 ATTTCAGATCTTGTC-CCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA-AGATCTTATCTCTCT
1 ATTTCAGATCTTATCTCCC-TGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCT
* ** * * * *
52918498 GA-AGTTATAGTAGAGTAGATCACATCAGATTGAAGCCGATAATCCTATCTTCCTGAAGTTATAG
65 GAGA-TTACAGCGGAGTAGATC-GA--AGA---CA--C--T-ATCCTATCTCCCTGAAGTTACAG
* *
52918562 TGGAGTGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTC
118 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTC
*
52918627 TTATCTCCCTGAGGTTACAGAGGAGTAGACCGAAGA
183 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA
*
52918663 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTG
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
* * * * *
52918728 AGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATT
66 AGATTACAGCGGAGTAGATCGAAGACACT-ATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATT
*
52918792 AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTG
129 AAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTG
52918857 AGGTTACAGTGGAGTAGACCGAAGA
194 AGGTTACAGTGGAGTAGACCGAAGA
* *
52918882 ATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA
52918921 CGAAAAATAC
Statistics
Matches: 848, Mismatches: 57, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
216 1 0.00
217 32 0.04
218 460 0.54
219 153 0.18
220 3 0.00
223 2 0.00
225 1 0.00
226 3 0.00
227 1 0.00
228 159 0.19
229 32 0.04
230 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
ATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG
AGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
GTTACAGTGGAGTAGACCGAAGA
Found at i:52919095 original size:174 final size:174
Alignment explanation
Indices: 52918877--52919308 Score: 783
Period size: 174 Copynumber: 2.5 Consensus size: 174
52918867 GGAGTAGACC
52918877 GAAGAATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCT
1 GAAG-ATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCT
* *
52918942 CTCTGAAGTTGTAGTGGAGTGGATGAAAACGATGAATCATATACCTCTAAAGTTGCAGTAGGTCA
65 CTCTGAAGTTGCAGTGGAGTGGATGAAAACAATGAATCATATACCTCTAAAGTTGCAGTAGGTCA
52919007 AATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
130 AATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
*
52919052 GAAGATTTTAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTC
1 GAAGATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTC
* *
52919117 TCTGAAGTTGCAGTGGAGTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGA
66 TCTGAAGTTGCAGTGGAGTGGATGAAAACAATGAATCATATACCTCTAAAGTTGCAGTAGGTCAA
52919182 ATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
131 ATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
* *
52919226 GAAGATTTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAAATACCAATTGTGTCTC
1 GAAGATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTC
*
52919291 CCTGAAGTTGCAGTGGAG
66 TCTGAAGTTGCAGTGGAG
52919309 AAGACGAAAA
Statistics
Matches: 248, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
174 244 0.98
175 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (174 bp):
GAAGATTTCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTC
TCTGAAGTTGCAGTGGAGTGGATGAAAACAATGAATCATATACCTCTAAAGTTGCAGTAGGTCAA
ATTGGATCAAACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTT
Found at i:52919293 original size:218 final size:217
Alignment explanation
Indices: 52919069--52919482 Score: 729
Period size: 218 Copynumber: 1.9 Consensus size: 217
52919059 TTAGATCTTA
* * * *
52919069 TCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCAATCGTGTCTCTCTGAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAATAGA
*
52919134 GTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAACCTTAT
66 GTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAAACTTAT
* * *
52919199 CTCCCTGAAGTCGTAGTGGAGCAGGTTGAAGATTTCAGATCTTATCTCCCTGAAGTTACAGTGGA
131 CTCCCTGAAGTCGCAGTGGAGCAGGTTGAAGA-TACAAATCTTATCTCCCTGAAGTTACAGTGGA
52919264 GCAGACGAAAAATACCAATTGTG
195 GCAGACGAAAAATACCAATTGTG
52919287 TCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAATAGA
1 TCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAATAGA
*
52919352 GTGGATGAAAACGATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAAACTTAT
66 GTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAAACTTAT
*
52919417 CTCCCTGAAGTCGCAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
131 CTCCCTGAAGTCGCAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTACAGTGGAG
52919482 C
196 C
52919483 GGATTAAAAC
Statistics
Matches: 186, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
217 31 0.17
218 155 0.83
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (217 bp):
TCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCAATCGTGTCTCCCTGAAGTTGCAATAGA
GTGGATGAAAACAATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAAACTTAT
CTCCCTGAAGTCGCAGTGGAGCAGGTTGAAGATACAAATCTTATCTCCCTGAAGTTACAGTGGAG
CAGACGAAAAATACCAATTGTG
Found at i:52919550 original size:85 final size:85
Alignment explanation
Indices: 52918670--52919830 Score: 334
Period size: 85 Copynumber: 13.4 Consensus size: 85
52918660 AGAATTTCAG
* * * * * *
52918670 ATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTGAAG-TTA
* * **
52918734 CAGTGGAGCAGATTGAAGATAGTA
65 CAGTAGAGCAGA-TCAA-AT-CCA
* * * * * *
52918758 ATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAA-TAAAGGATCTTATCTCTCTGAAGTT
1 ATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAACCACA-GATCTTATCTCCCTGAAGTT
* **
52918821 ACAGTAGAGTAGATCGCAT-CA
64 ACAGTAGAGCAGATCAAATCCA
* * * * ** ***
52918842 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGT
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCACAGATCTTATCTCCCTGAAGT
* *
52918907 TGCAGTGGAGCAGA-CGAAAAATACCA
63 TACAGTAGAGCAGATC---AAAT-CCA
* * * * ** * * * * * *
52918933 ATCGTGTCTCTCTGAAGTTGTAGTGGAGTGGATGAAAACGA-TGAATCATATAC-CTCTAAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG-ATCTTAT-CTCCCTGAAGTT
* * *** *
52918996 GCAGTAG-GTCAAATTGGATCAA
64 ACAGTAGAG-CAGATCAAATCCA
* * * * * **** *
52919018 ACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTTGAAGATTTTAGATCTTATCTCCCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCACAGATCTTATCTCCCTGAAGTTA
*
52919083 CAGTGGAGCAGA-CGAAAAATACCA
65 CAGTAGAGCAGATC---AAAT-CCA
* * * ** * * *
52919107 ATCGTGTCTCTCTGAAGTTGCAGTGGAGTGGATGAAAA-CA-ATGAATCATATAC-CTCTGAAGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA-G-ATCTTAT-CTCCCTGAAGT
* *** *
52919169 TGCAGTAG-GTC-GAATTGGATCAA
63 TACAGTAGAG-CAG-ATCAAATCCA
* * * * * ***
52919192 ACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTTGAAGATTTCAGATCTTATCTCCCTGAAGTTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCACAGATCTTATCTCCCTGAAGTTA
*
52919257 CAGTGGAGCAGA-CGAAAAATACCA
65 CAGTAGAGCAGATC---AAAT-CCA
* * ** ** * *
52919281 AT-TGTGTCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCA-ATCGTGTCTCCCTGAAGTT
1 ATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CAGATCTTATCTCCCTGAAGTT
* * ** * * *
52919344 GCAATAGAGTGGATGAAAACGATGA
64 ACAGTAGAGCAGATCAAATC---CA
* * * ** * *
52919369 ATCATATAC-CTCTGAAGTTGCAGTAGG-TC-GAATT-GGATCA-A-AACTTATCTCCCTGAAGT
1 ATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAG-ATTAAAACCACAGATCTTATCTCCCTGAAGT
** * * * *
52919428 CGCAGTGGAGCAGGTTGAAGATACAA
63 TACAGTAGAGCA-GATCAA-AT-CCA
* * *
52919454 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTGAAGTTAC
*
52919519 AGTAGAGCAGATCACATCCA
66 AGTAGAGCAGATCAAATCCA
** * * * * *
52919539 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGA-AATAAATCCTATCTCCCTTAAGTTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCACAGATCTTATCTCCCTGAAGTTA
* *
52919603 CAGTGGAGCAGATTAAAATCACA
65 CAGTAGAGCAGA-TCAAATC-CA
* * * * * * *
52919626 GATCTTATCTCTCTGAAGTT--A-T--AGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC-CA-CAGATCTTATCTCCCTGAAGT
* *
52919686 TATAGTGGAGCAGA-CGAAGGAAAT-CA
63 TACAGTAGAGCAGATC-----AAATCCA
* * * * * * *
52919712 ATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTAAAATTAT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTGAAGTTAC
* * *
52919777 AGTAGAGTAGATCGTAA-CAA
66 AGTAGAGCAGATC-AAATCCA
*
52919797 ATCTTATCTCCCTGAAGATGCAGTGGAGCAGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
52919831 GAAGACCGTT
Statistics
Matches: 773, Mismatches: 221, Indels: 161
0.67 0.19 0.14
Matches are distributed among these distances:
83 7 0.01
84 5 0.01
85 275 0.36
86 85 0.11
87 56 0.07
88 242 0.31
89 69 0.09
90 32 0.04
91 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (85 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTGAAGTTAC
AGTAGAGCAGATCAAATCCA
Found at i:52919555 original size:41 final size:43
Alignment explanation
Indices: 52918670--52919830 Score: 271
Period size: 44 Copynumber: 26.8 Consensus size: 43
52918660 AGAATTTCAG
* * * * * *
52918670 ATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * * *
52918713 GATCTTATCTCCCTG-AGATTACAGTGGAGCAGATTGAAGA-TAGTA
1 -ATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATT-AAAACCA-CA
* * * * *
52918758 ATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAA-TAAA
1 ATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAACCACA
* * * * *** * *
52918800 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCATCA-G
1 --ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * * * ** ***
52918843 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCACA
** **
52918888 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
* * * * ** * * *
52918933 ATCGTGTCTCTCTGAAGTTGTAGTGGAGTGGATGAAAACGATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
* * * * * ** *
52918977 ATCATATAC-CTCTAAAGTTGCAGTAGG-TCAAATT-GGATCA-A
1 ATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTAAAACCACA
* * * * * ****
52919018 ACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTTGAAGATTTTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCACA
** **
52919062 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAAATACCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
* * * ** * * *
52919107 ATCGTGTCTCTCTGAAGTTGCAGTGGAGTGGATGAAAACAATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
* * * ** *
52919151 ATCATATAC-CTCTGAAGTTGCAGTAGG-TC-GAATT-GGATCA-A
1 ATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAG-ATTAAAACCACA
* * * * * ***
52919192 ACCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTTGAAGATTTCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCACA
* ** **
52919236 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAAATACCA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
* * ** **
52919281 AT-TGTGTCTCCCTGAAGTTGCAGTGGAGAAGACGAAAAATACCA
1 ATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
* * * * ** * * *
52919325 ATCGTGTCTCCCTGAAGTTGCAATAGAGTGGATGAAAACGATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
* * * ** *
52919369 ATCATATAC-CTCTGAAGTTGCAGTAGG-TC-GAATT-GGATCA-A
1 ATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAG-ATTAAAACCACA
* * *
52919410 AACTTATCTCCCTGAAGTCGCAGTGGAGCAGGTTGAAGATA-CA-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-ACCACA
*
52919454 ATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * * * *
52919497 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACATC-CA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
** * *
52919539 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGA-AATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCA-CA
* * * *
52919583 ATCCTATCTCCCTTAAGTTACAGTGGAGCAGATTAAAATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* ** * * *** * *
52919626 GATCTTATCTCTCTGAAGTTATAGTAGAGTAGA-TCGCATCA-G
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * ** **
52919668 GTCTTATCTCCCTGAGGTTATAGTGGAGCAGACGAAGGAA--ATCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCA-CA
* * *
52919712 ATCATATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * * ** * * ***
52919755 GATCTTATCTCTCTAAAATTATAGTAGAGTAGATCGTAA-CA-A
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
*
52919797 ATCTTATCTCCCTGAAGATGCAGTGGAGCAGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
52919831 GAAGACCGTT
Statistics
Matches: 825, Mismatches: 230, Indels: 127
0.70 0.19 0.11
Matches are distributed among these distances:
40 9 0.01
41 175 0.21
42 13 0.02
43 41 0.05
44 482 0.58
45 77 0.09
46 28 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
Found at i:52919828 original size:129 final size:128
Alignment explanation
Indices: 52919287--52919828 Score: 581
Period size: 129 Copynumber: 4.2 Consensus size: 128
52919277 ACCAATTGTG
* * * * *
52919287 TCTCCCTGAAGTTGCAGTGGAGAAGACGAA-AAATACCAATCGTGTCTCCCTGAAGTTGCAATAG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACGAAGAAAT--CAATCATATCTCCCTGAAGTTGCAGTGG
* * * * * ** * * * *
52919351 AGTGGATGAAAACGA-TGAATCATATAC-CTCTGAAGTTGCAGTAG-GTCGAATTGGATCAAAAC
64 AGCGGATTAAAACCACAG-ATCTTAT-CTCTCTGAAGTTATAGTAGAGTAG-ATCGCATCAAATC
52919413 TTA
126 TTA
* ** * *
52919416 TCTCCCTGAAGTCGCAGTGGAGCAGGTTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCA-GACGAAGAAATC-AATCATATCTCCCTGAAGTTGCAGTGG
** * * *
52919480 AGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAATCTTA
64 AGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAAATCTTA
* * * *
52919545 TCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATAAATCCTATCTCCCTTAAGTTACAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACG-AAGAAATCAATCATATCTCCCTGAAGTTGCAGTGGA
* * **
52919610 GCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTA
65 GCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAAATCTTA
* **
52919674 TCTCCCTGAGGTTATAGTGGAGCAGACGAAGGAAATCAATCATATCTCCCTGAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGACGAA-GAAATCAATCATATCTCCCTGAAGTTGCAGTGGA
* * * * *
52919739 GCGGATTAAAACCATAGATCTTATCTCTCTAAAATTATAGTAGAGTAGATCGTAACAAATCTTA
65 GCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAAATCTTA
*
52919803 TCTCCCTGAAGATGCAGTGGAGCAGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGA
52919829 TTGAAGACCG
Statistics
Matches: 346, Mismatches: 58, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
128 6 0.02
129 331 0.96
130 7 0.02
131 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (128 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGACGAAGAAATCAATCATATCTCCCTGAAGTTGCAGTGGAG
CGGATTAAAACCACAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAAATCTTA
Found at i:52920272 original size:24 final size:24
Alignment explanation
Indices: 52920227--52920273 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
52920217 CACAAACCTT
* **
52920227 AAACCAAACCCAATACCCTAAAAC
1 AAACCAAACCCAAAACAATAAAAC
*
52920251 AAACCTAACCCAAAACAATAAAA
1 AAACCAAACCCAAAACAATAAAA
52920274 TTACAGCCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.09
Consensus pattern (24 bp):
AAACCAAACCCAAAACAATAAAAC
Found at i:52920303 original size:20 final size:21
Alignment explanation
Indices: 52920257--52920303 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
52920247 AAACAAACCT
*
52920257 AACCCAAAACAATAAAATTAC
1 AACCCAAAACAATAAAATTAA
*
52920278 AGCCCAAAA-AGA-AAAATTAA
1 AACCCAAAACA-ATAAAATTAA
52920298 AACCCA
1 AACCCA
52920304 GCCCAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.11
Consensus pattern (21 bp):
AACCCAAAACAATAAAATTAA
Found at i:52922021 original size:110 final size:110
Alignment explanation
Indices: 52921824--52922120 Score: 423
Period size: 110 Copynumber: 2.7 Consensus size: 110
52921814 TTCAAAAAAC
* * *
52921824 AAAAATTTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
* * *
52921889 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
52921934 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
52921999 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
* ** * * * * ** * * *
52922044 TAAAAATTTCGAAGTAAGGTAATATTTTGTGTTTGGAAATTTAAGGAAACGTACCCTAAGGTGTT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
*
52922109 GGGTTTCGATTT
66 GGGTGTCGATTT
52922121 CTCGTTTAAC
Statistics
Matches: 168, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 168 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (110 bp):
AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
Found at i:52923506 original size:24 final size:22
Alignment explanation
Indices: 52923460--52923507 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
52923450 TTAACCTTCT
*
52923460 ACAAATAATTTATAAACCTTAA
1 ACAAATAATTTATAAACCCTAA
*
52923482 ACAAATAAATTTGTTAAACCCTAA
1 ACAAAT-AATTT-ATAAACCCTAA
52923506 AC
1 AC
52923508 TTACAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
24 11 0.50
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (22 bp):
ACAAATAATTTATAAACCCTAA
Found at i:52923630 original size:35 final size:37
Alignment explanation
Indices: 52923591--52923661 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
52923581 GCTAATACTA
*
52923591 AACCCTAAACT-AACCCAAAATTCTT-TTTTCTTTTT
1 AACCCTAAACTGAACCCAAAATTCTTCTTTGCTTTTT
* *
52923626 AACCCTAAACTGACCCCAAACTTCTTCTTTGCTTTT
1 AACCCTAAACTGAACCCAAAATTCTTCTTTGCTTTT
52923662 CTTCTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 11 0.35
36 12 0.39
37 8 0.26
ACGTcount: A:0.28, C:0.30, G:0.03, T:0.39
Consensus pattern (37 bp):
AACCCTAAACTGAACCCAAAATTCTTCTTTGCTTTTT
Done.