Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 171 of 230
Found at i:50940604 original size:51 final size:51
Alignment explanation
Indices: 50940526--50940664 Score: 147
Period size: 51 Copynumber: 2.7 Consensus size: 51
50940516 TGCCTATAAA
* *
50940526 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATA-GATAATGGT
1 CACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGA-AGGAT-ATGGT
* * * * * *
50940577 CACATGTGTAGTAATATGTGCATGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGAAGGATATGGT
* * *
50940628 CGCGTGTGTAGTACTATGTGAAAGCTACTACGTGTAT
1 CACATGTGTAGTACTATGTGCAAGCTACTACGTGTAT
50940665 TGAATGATAA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
51 68 0.94
52 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGAAGGATATGGT
Found at i:50966960 original size:16 final size:15
Alignment explanation
Indices: 50966933--50966966 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
50966923 ATAACTAGTA
*
50966933 TATAATTATATTTAT
1 TATAATTATATTAAT
50966948 TATAATATATATTAAT
1 TATAAT-TATATTAAT
50966964 TAT
1 TAT
50966967 TATCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:50967670 original size:25 final size:26
Alignment explanation
Indices: 50967628--50967681 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
50967618 TTCTCCTAAA
**
50967628 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATAGAATTA-TTAATAT
50967654 TTTCAA-TTTATAGAATTATTAATAT
1 TTTCAATTTTATAGAATTATTAATAT
50967679 TTT
1 TTT
50967682 ATACTGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATAGAATTATTAATAT
Found at i:50973450 original size:41 final size:41
Alignment explanation
Indices: 50973405--50973679 Score: 433
Period size: 41 Copynumber: 6.7 Consensus size: 41
50973395 GGTTTTAAAA
*
50973405 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
50973446 CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
50973487 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
50973528 CCTAGCAGGCTAAGTGCTGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
50973569 CCTAGCAGGCTAAGTGCTGGTGATCTAAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
50973610 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
50973651 CCTAACAGGGCTAAGTGCCAGTGGATCTG
1 CCTAGCA-GGCTAAGTGCCGGT-GATCTG
50973680 TTTAAATTAA
Statistics
Matches: 216, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 198 0.92
42 12 0.06
43 6 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:50978283 original size:32 final size:28
Alignment explanation
Indices: 50978247--50978321 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 28
50978237 CATAATAATT
50978247 CATTTAATTCAAATCATATCATCTGTAATTTC
1 CATTTAATTC-AA-CATA-C-TCTGTAATTTC
*
50978279 CATTTAATTC-ACGTACTCTGTAATTTC
1 CATTTAATTCAACATACTCTGTAATTTC
50978306 CATTTAATTC-ACATAC
1 CATTTAATTCAACATAC
50978322 AATTCAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
27 26 0.63
28 1 0.02
29 3 0.07
30 1 0.02
32 10 0.24
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (28 bp):
CATTTAATTCAACATACTCTGTAATTTC
Found at i:50978330 original size:27 final size:27
Alignment explanation
Indices: 50978270--50978332 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
50978260 TCATATCATC
* **
50978270 TGTAATTTCCATTTAATTCACGTACTC
1 TGTAATTTCCATTTAATTCACATACAA
50978297 TGTAATTTCCATTTAATTCACATACAA
1 TGTAATTTCCATTTAATTCACATACAA
50978324 T-TCAATTTC
1 TGT-AATTTC
50978333 ATTAAGTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (27 bp):
TGTAATTTCCATTTAATTCACATACAA
Found at i:50979955 original size:51 final size:50
Alignment explanation
Indices: 50979890--50980084 Score: 230
Period size: 51 Copynumber: 3.9 Consensus size: 50
50979880 CAATGATGTT
* * * *
50979890 CGATTCACATAGTAGCCTACTCATAGTACTACACATGTGACCATTACCATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * *
50979941 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
50979992 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* *
50980042 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA
50980085 CCACTTTCAC
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.34
51 77 0.63
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:50980073 original size:101 final size:101
Alignment explanation
Indices: 50979897--50980081 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
50979887 GTTCGATTCA
* *
50979897 CATAGTAGCCTACTCATAGTACTACACATGTGACCATTACCATCCGATACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTAGCCTGCA
50979962 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * * *
50979999 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTAGCCTGCA
50980063 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
50980082 CCACCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 32 0.42
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:50985067 original size:15 final size:15
Alignment explanation
Indices: 50985047--50985078 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50985037 GTGCTTTATT
50985047 GTTGAATGTATGATC
1 GTTGAATGTATGATC
50985062 GTTGAATGTATGATC
1 GTTGAATGTATGATC
50985077 GT
1 GT
50985079 ATCACTGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.41
Consensus pattern (15 bp):
GTTGAATGTATGATC
Found at i:50985194 original size:34 final size:34
Alignment explanation
Indices: 50985151--50985220 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
50985141 TTCAAGAGGA
*
50985151 AAGTTAGAACACCAACACAAAAATCACAACTAAG
1 AAGTTAGAACACCAAAACAAAAATCACAACTAAG
* *
50985185 AAGTTAGAACACCAAAACTAGAATCACAACTAAG
1 AAGTTAGAACACCAAAACAAAAATCACAACTAAG
50985219 AA
1 AA
50985221 ATAAAAGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.56, C:0.21, G:0.10, T:0.13
Consensus pattern (34 bp):
AAGTTAGAACACCAAAACAAAAATCACAACTAAG
Found at i:50986912 original size:23 final size:23
Alignment explanation
Indices: 50986878--50986928 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
50986868 AAGGCAATGC
*
50986878 TGTAATATCCCGAAAATTACTAT
1 TGTAATACCCCGAAAATTACTAT
*
50986901 TGTAATACCCCGAAAATTATTAT
1 TGTAATACCCCGAAAATTACTAT
*
50986924 AGTAA
1 TGTAA
50986929 GAAAGCATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAT
Found at i:51002138 original size:9 final size:9
Alignment explanation
Indices: 51002124--51002150 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
51002114 TAAGACTAAA
51002124 GATGAGCAT
1 GATGAGCAT
51002133 GATGAGCAT
1 GATGAGCAT
51002142 GATGAGCAT
1 GATGAGCAT
51002151 CTTAGAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (9 bp):
GATGAGCAT
Found at i:51006547 original size:18 final size:20
Alignment explanation
Indices: 51006511--51006548 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
51006501 GGATAATATC
*
51006511 ATATTAAAATTAGATTAAAT
1 ATATTAAAATAAGATTAAAT
51006531 ATATT-AAATAAGA-TAAAT
1 ATATTAAAATAAGATTAAAT
51006549 TAAATAGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
ATATTAAAATAAGATTAAAT
Found at i:51006746 original size:15 final size:15
Alignment explanation
Indices: 51006716--51006749 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51006706 TTAACTGCTT
**
51006716 AAAAATAAGTGTTGA
1 AAAAATAAGTACTGA
51006731 AAAAATAAGTACTGA
1 AAAAATAAGTACTGA
51006746 AAAA
1 AAAA
51006750 TTTAGTCTTG
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:0.62, C:0.03, G:0.15, T:0.21
Consensus pattern (15 bp):
AAAAATAAGTACTGA
Found at i:51008397 original size:24 final size:24
Alignment explanation
Indices: 51008369--51008414 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
51008359 ACCAAAATGA
51008369 CCACATACATATATCAACATAAAG
1 CCACATACATATATCAACATAAAG
51008393 CCACATACATATATCAACATAA
1 CCACATACATATATCAACATAA
51008415 CAACCAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (24 bp):
CCACATACATATATCAACATAAAG
Found at i:51008424 original size:24 final size:24
Alignment explanation
Indices: 51008368--51008425 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
51008358 TACCAAAATG
51008368 ACCACATACATATATCAACATAAA
1 ACCACATACATATATCAACATAAA
*
51008392 GCCACATACATATATCAACATAACA
1 ACCACATACATATATCAACATAA-A
51008417 ACCA-ATACA
1 ACCACATACA
51008426 AATCCAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.19
Consensus pattern (24 bp):
ACCACATACATATATCAACATAAA
Found at i:51013418 original size:28 final size:28
Alignment explanation
Indices: 51013363--51013419 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
51013353 TAATTTAATA
*
51013363 AATTTATTAATATGATATTTGTACTTTT
1 AATTTATTAATATGATACTTGTACTTTT
*
51013391 AATTTATTTAATAT-AGTACTTGTATTTTT
1 AATTTA-TTAATATGA-TACTTGTACTTTT
51013420 CTTTTGGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.58
Consensus pattern (28 bp):
AATTTATTAATATGATACTTGTACTTTT
Found at i:51016295 original size:23 final size:23
Alignment explanation
Indices: 51016268--51016314 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
51016258 TTGAAGGACC
51016268 TTGAAAAGACCTTGAAAAAGATA
1 TTGAAAAGACCTTGAAAAAGATA
51016291 TTGAAAAGACCTTGAAAAAGATA
1 TTGAAAAGACCTTGAAAAAGATA
51016314 T
1 T
51016315 AGAATTCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (23 bp):
TTGAAAAGACCTTGAAAAAGATA
Found at i:51016311 original size:12 final size:11
Alignment explanation
Indices: 51016264--51016308 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
51016254 AAGTTTGAAG
51016264 GACCTTGAAAA
1 GACCTTGAAAA
51016275 GACCTTGAAAAA
1 GACCTTG-AAAA
**
51016287 GATATTGAAAA
1 GACCTTGAAAA
51016298 GACCTTGAAAA
1 GACCTTGAAAA
51016309 AGATATAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (11 bp):
GACCTTGAAAA
Found at i:51016848 original size:16 final size:16
Alignment explanation
Indices: 51016827--51016878 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
51016817 AATGCATAAC
51016827 TTCCAAGAACTCAATT
1 TTCCAAGAACTCAATT
* *
51016843 TTCCAATGCA-T-AA-C
1 TTCCAA-GAACTCAATT
51016857 TTCCAAGAACTCAATT
1 TTCCAAGAACTCAATT
51016873 TTCCAA
1 TTCCAA
51016879 TCTTTCTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 2 0.07
14 7 0.25
15 4 0.14
16 13 0.46
17 2 0.07
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (16 bp):
TTCCAAGAACTCAATT
Found at i:51016851 original size:30 final size:30
Alignment explanation
Indices: 51016817--51016879 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
51016807 ACAAGAAAGA
51016817 AATGCATAACTTCCAAGAACTCAATTTTCC
1 AATGCATAACTTCCAAGAACTCAATTTTCC
51016847 AATGCATAACTTCCAAGAACTCAATTTTCC
1 AATGCATAACTTCCAAGAACTCAATTTTCC
51016877 AAT
1 AAT
51016880 CTTTCTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.30
Consensus pattern (30 bp):
AATGCATAACTTCCAAGAACTCAATTTTCC
Found at i:51017665 original size:6 final size:6
Alignment explanation
Indices: 51017651--51017682 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
51017641 GGCAATGTTG
*
51017651 CTAAAA CTAACA CTAACA CTAACA CTAACA CT
1 CTAACA CTAACA CTAACA CTAACA CTAACA CT
51017683 TCCACATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (6 bp):
CTAACA
Found at i:51022891 original size:3 final size:3
Alignment explanation
Indices: 51022883--51022932 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
51022873 CATGAAGTGC
*
51022883 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
51022931 AT
1 AT
51022933 GTACAAGAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:51024085 original size:3 final size:3
Alignment explanation
Indices: 51024077--51024105 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
51024067 CCTTGAAACT
51024077 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
51024106 TGCTTCTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:51025075 original size:39 final size:39
Alignment explanation
Indices: 51025030--51025107 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
51025020 TCTTGCCCAG
51025030 ATAGGAATTTTTGTTATTTATTTAGAAGTTAAATATATT
1 ATAGGAATTTTTGTTATTTATTTAGAAGTTAAATATATT
51025069 ATAGGAATTTTTGTTATTTATTTAGAAGTTAAATATATT
1 ATAGGAATTTTTGTTATTTATTTAGAAGTTAAATATATT
51025108 TTAATAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (39 bp):
ATAGGAATTTTTGTTATTTATTTAGAAGTTAAATATATT
Found at i:51025117 original size:39 final size:39
Alignment explanation
Indices: 51025034--51025117 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
51025024 GCCCAGATAG
*
51025034 GAATTTTTGTTATTTATTTAGAAGTTAAATATATTATAG
1 GAATTTTTGTTATTTATTTAGAAGTTAAATATATTATAA
*
51025073 GAATTTTTGTTATTTATTTAGAAGTTAAATATATTTTAA
1 GAATTTTTGTTATTTATTTAGAAGTTAAATATATTATAA
*
51025112 TAATTT
1 GAATTT
51025118 ATCTTGATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (39 bp):
GAATTTTTGTTATTTATTTAGAAGTTAAATATATTATAA
Found at i:51025517 original size:22 final size:23
Alignment explanation
Indices: 51025492--51025535 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
51025482 TTACTTTTTA
51025492 TTTATTTTT-TA-ATTAATAAATT
1 TTTATTTTTATATA-TAATAAATT
51025514 TTTATTTTTATATATAATAAAT
1 TTTATTTTTATATATAATAAAT
51025536 ATGTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 10 0.50
24 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTATTTTTATATATAATAAATT
Found at i:51025629 original size:19 final size:20
Alignment explanation
Indices: 51025607--51025648 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
51025597 TATATAAAAA
51025607 ATAAT-AAAAAATATTTTAT
1 ATAATGAAAAAATATTTTAT
**
51025626 ATAATGAAACCATATTTTAT
1 ATAATGAAAAAATATTTTAT
51025646 ATA
1 ATA
51025649 TATCATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAATGAAAAAATATTTTAT
Found at i:51025945 original size:45 final size:45
Alignment explanation
Indices: 51025796--51025947 Score: 196
Period size: 45 Copynumber: 3.3 Consensus size: 45
51025786 TTATAAAATC
*
51025796 AAATAATTATTTCAAATATCATTATTATTTTTATATGTAAAATATTTT
1 AAATAATTATTTCAAATATCATTATTA---TTATATGTGAAATATTTT
* * * * * *
51025844 AAATACTTATTCCAAATACCATTATTTTTATGTGTGAAATATTTC
1 AAATAATTATTTCAAATATCATTATTATTATATGTGAAATATTTT
* *
51025889 AATTAATTATTTCAAATATCACTATTATTATATGTGAAATATTTT
1 AAATAATTATTTCAAATATCATTATTATTATATGTGAAATATTTT
51025934 AAATAATTATTTCA
1 AAATAATTATTTCA
51025948 CATACACACA
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
45 65 0.74
48 23 0.26
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (45 bp):
AAATAATTATTTCAAATATCATTATTATTATATGTGAAATATTTT
Found at i:51027022 original size:27 final size:28
Alignment explanation
Indices: 51026970--51027022 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
51026960 AGTTAATAAA
*
51026970 TTCTCTTTGAGTTTTTCTTTTCAAGAAT
1 TTCTCTTTGAGTTTTTCTTTACAAGAAT
*
51026998 TTCTC-TTGAGTATTTT-TTTAGAAGA
1 TTCTCTTTGAGT-TTTTCTTTACAAGA
51027023 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.21, C:0.11, G:0.13, T:0.55
Consensus pattern (28 bp):
TTCTCTTTGAGTTTTTCTTTACAAGAAT
Found at i:51029512 original size:27 final size:27
Alignment explanation
Indices: 51029475--51029563 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
51029465 GGATCAAAAT
* *
51029475 ATACCCCTGTAGGGTAAAATAACTGTA
1 ATACCCCTGTAGGGTAAAATGACCGTA
51029502 ATACCCCTGTAGGGTAAAATGACCGTA
1 ATACCCCTGTAGGGTAAAATGACCGTA
* *
51029529 ATACCTCTGTAAGGTAAAATGACCGTA
1 ATACCCCTGTAGGGTAAAATGACCGTA
*
51029556 ATGCCCCT
1 ATACCCCT
51029564 CGAGGTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (27 bp):
ATACCCCTGTAGGGTAAAATGACCGTA
Found at i:51029573 original size:27 final size:26
Alignment explanation
Indices: 51029475--51029576 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 26
51029465 GGATCAAAAT
* *
51029475 ATACCCCTGTAGGGTAAAATAACTGTA
1 ATACCCCTGTA-GGTAAAATGACCGTA
51029502 ATACCCCTGTAGGGTAAAATGACCGTA
1 ATACCCCTGTA-GGTAAAATGACCGTA
*
51029529 ATACCTCTGTAAGGTAAAATGACCGTA
1 ATACCCCTGT-AGGTAAAATGACCGTA
* *
51029556 ATGCCCCTCG-AGGTTAAATGA
1 ATACCCCT-GTAGGTAAAATGA
51029577 TTGATTTGTC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 10 0.15
27 55 0.82
28 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (26 bp):
ATACCCCTGTAGGTAAAATGACCGTA
Found at i:51029651 original size:24 final size:23
Alignment explanation
Indices: 51029569--51029676 Score: 135
Period size: 23 Copynumber: 4.6 Consensus size: 23
51029559 CCCCTCGAGG
*
51029569 TTAAATGATTGATTTGTCTGTGG
1 TTAAATGATTGATTTGTCTGTGT
51029592 TTAAATGATTGATTTGTCTGTGT
1 TTAAATGATTGATTTGTCTGTGT
51029615 TTAAATGATTGATTTGTCTGTGT
1 TTAAATGATTGATTTGTCTGTGT
** * *
51029638 TTGGTATGACTGATTTGTTTGTGAT
1 TT-AAATGATTGATTTGTCTGTG-T
* *
51029663 TTGAATGACTGATT
1 TTAAATGATTGATT
51029677 CTGAGCATGG
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
23 47 0.61
24 27 0.35
25 3 0.04
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (23 bp):
TTAAATGATTGATTTGTCTGTGT
Found at i:51029921 original size:32 final size:32
Alignment explanation
Indices: 51029848--51030082 Score: 184
Period size: 32 Copynumber: 7.4 Consensus size: 32
51029838 GTTGTGATGC
* * *
51029848 TACTGATGGCTTTGTGCTGGTCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
51029880 TGCTAATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * * * *
51029912 TACCGATGGCTATGTACTGATAATTTTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * * *
51029944 TATTGATGGCTGTGTGCCGATAATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * *
51029976 TATTGATGGATTTGTACAGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
51030008 TACTGATGGCTATGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
51030040 TACTGATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
51030071 TACTTATGGCTT
1 TACTGATGGCTT
51030083 GTAGTCATTC
Statistics
Matches: 158, Mismatches: 45, Indels: 1
0.77 0.22 0.00
Matches are distributed among these distances:
31 11 0.07
32 147 0.93
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:51030054 original size:64 final size:64
Alignment explanation
Indices: 51029845--51030054 Score: 233
Period size: 64 Copynumber: 3.3 Consensus size: 64
51029835 TTTGTTGTGA
* * * * * *
51029845 TGCTACTGATGGCTTTGTGCTGGTCATAG-TACCGTTGCTAATGGCTTTGTGCCGATCATATTAC
1 TGCTACTGATGGCTTTGTACTGATCAT-GTTACCGTTACTGATGGCTATGTGCCGATCATATCAC
* * * * * * * * * *
51029909 CGTTACCGATGGCTATGTACTGATAATTTTACTGTTATTGATGGCTGTGTGCCGATAATATCAC
1 TGCTACTGATGGCTTTGTACTGATCATGTTACCGTTACTGATGGCTATGTGCCGATCATATCAC
* * *
51029973 TGCTATTGATGGATTTGTACAGATCATGTTACCGTTACTGATGGCTATGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTACTGATCATGTTACCGTTACTGATGGCTATGTGCCGATCATATCAC
51030037 TGCTACTGATGGCTTTGT
1 TGCTACTGATGGCTTTGT
51030055 GCCAATCACA
Statistics
Matches: 115, Mismatches: 30, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
64 115 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTACTGATCATGTTACCGTTACTGATGGCTATGTGCCGATCATATCAC
Found at i:51030099 original size:22 final size:21
Alignment explanation
Indices: 51030074--51030138 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
51030064 ATTACTGTAC
51030074 TTATGGCTTGTAGTCATTCTGT
1 TTATGGCTT-TAGTCATTCTGT
* * *
51030096 TTATAGCTTATAG-CTATCCTAT
1 TTATGGCTT-TAGTC-ATTCTGT
*
51030118 TTATGACTCTTAGTCATTCTG
1 TTATGGCT-TTAGTCATTCTG
51030139 ACTACTAGCA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (21 bp):
TTATGGCTTTAGTCATTCTGT
Found at i:51031746 original size:34 final size:33
Alignment explanation
Indices: 51031677--51031747 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 33
51031667 TTTTGATTTT
* *
51031677 ATATATGTTTTGGAAATATGACATTTTAATTTG
1 ATATATGTTTTGGAAATATGACATTCTAATCTG
* * * *
51031710 ATATATGTTTTTGATAATGTGTCATTCTGATCTG
1 ATATATGTTTTGGA-AATATGACATTCTAATCTG
51031744 ATAT
1 ATAT
51031748 CCATACATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (33 bp):
ATATATGTTTTGGAAATATGACATTCTAATCTG
Found at i:51033916 original size:96 final size:96
Alignment explanation
Indices: 51033737--51033916 Score: 227
Period size: 96 Copynumber: 1.9 Consensus size: 96
51033727 AACTGATGTT
* * * ** *
51033737 TCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATGAGGGTTACGGATGTCCAATTAA
1 TCACCTATTGTGAAATGTTATTGGTGTAGCTCAAAAGATCATAAAGGTTACCAATGCCCAATTAA
51033802 ATATCCAAATAGAGAGAATACGATTGAGCTA
66 ATATCCAAATAGAGAGAATACGATTGAGCTA
* * * * *
51033833 TCACCTTTTGTGTAATTTTATTGGTGTAGCTCAAACGATTATAAAGGTT-CCAATGCCCAATTAA
1 TCACCTATTGTGAAATGTTATTGGTGTAGCTCAAAAGATCATAAAGGTTACCAATGCCCAATTAA
* *
51033897 ATATCTAACTAGAGAAGAAT
66 ATATCCAAATAGAG-AGAAT
51033917 GTAAGTATGA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
95 24 0.34
96 46 0.66
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (96 bp):
TCACCTATTGTGAAATGTTATTGGTGTAGCTCAAAAGATCATAAAGGTTACCAATGCCCAATTAA
ATATCCAAATAGAGAGAATACGATTGAGCTA
Found at i:51037568 original size:299 final size:299
Alignment explanation
Indices: 51037030--51037630 Score: 1130
Period size: 299 Copynumber: 2.0 Consensus size: 299
51037020 ACTAGGGACT
51037030 ATAACACCTTATACCTATCCCGGTCGCTGAGCCCGAATATCAGGATGCCATACCACCGTCTCATG
1 ATAACACCTTATACCTATCCCGGTCGCTGAGCCCGAATATCAGGATGCCATACCACCGTCTCATG
*
51037095 TCATACACAACAATTAAAAGCTCATTCTCAATGAAACGTCTTCCATTTTAGTATTCGTATAGGTT
66 TCATACACAACAATTAAAAGCTCATTCTCAATGAAACATCTTCCATTTTAGTATTCGTATAGGTT
51037160 TTAAGTCAATCTTACTTTTAAGTTATCATTGTTACATGATAAACATGCATCAGATAGTCTTATAA
131 TTAAGTCAATCTTACTTTTAAGTTATCATTGTTACATGATAAACATGCATCAGATAGTCTTATAA
* *
51037225 CAATAGTTTAACATGCATATGGTCTGTTTAGAAAAATCTCAAAACTGACTACATAGGTATTGGTA
196 CAATAGTTTAACATGCATAAGGTCTATTTAGAAAAATCTCAAAACTGACTACATAGGTATTGGTA
*
51037290 CTAGAATATGGGTACCAATATTTCTCTCAAGTGGTATCG
261 CTAGAACATGGGTACCAATATTTCTCTCAAGTGGTATCG
*
51037329 ATAACACCTTATACCTATCCCGGTCGCTGAGCTCGAATATCAGGATGCCATACCACCGTCTCATG
1 ATAACACCTTATACCTATCCCGGTCGCTGAGCCCGAATATCAGGATGCCATACCACCGTCTCATG
* *
51037394 TCATACACAACAATTAAAAGCTTATTCTCAATGAAACATCTTTCATTTTAGTATTCGTATAGGTT
66 TCATACACAACAATTAAAAGCTCATTCTCAATGAAACATCTTCCATTTTAGTATTCGTATAGGTT
*
51037459 TTAAGTCAATCTTACTTTTAAGTTATCATTGTTACATGCTAAACATGCATCAGATAGTCTTATAA
131 TTAAGTCAATCTTACTTTTAAGTTATCATTGTTACATGATAAACATGCATCAGATAGTCTTATAA
51037524 CAATAGTTTAACATGCATAAGGTCTATTTAGAAAAATCTCAAAACTGACTACATAGGTATTGGTA
196 CAATAGTTTAACATGCATAAGGTCTATTTAGAAAAATCTCAAAACTGACTACATAGGTATTGGTA
51037589 CTAGAACATGGGTACCAATATTTCTCTCAAGTGGTATCG
261 CTAGAACATGGGTACCAATATTTCTCTCAAGTGGTATCG
51037628 ATA
1 ATA
51037631 CCGCTTGGAA
Statistics
Matches: 294, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
299 294 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (299 bp):
ATAACACCTTATACCTATCCCGGTCGCTGAGCCCGAATATCAGGATGCCATACCACCGTCTCATG
TCATACACAACAATTAAAAGCTCATTCTCAATGAAACATCTTCCATTTTAGTATTCGTATAGGTT
TTAAGTCAATCTTACTTTTAAGTTATCATTGTTACATGATAAACATGCATCAGATAGTCTTATAA
CAATAGTTTAACATGCATAAGGTCTATTTAGAAAAATCTCAAAACTGACTACATAGGTATTGGTA
CTAGAACATGGGTACCAATATTTCTCTCAAGTGGTATCG
Found at i:51040008 original size:19 final size:19
Alignment explanation
Indices: 51039986--51040023 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
51039976 TCAATCATCC
51039986 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
51040005 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
51040024 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:51043185 original size:17 final size:17
Alignment explanation
Indices: 51043163--51043196 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51043153 CTTAGGAGCG
51043163 AGTATCAACTTAATACC
1 AGTATCAACTTAATACC
51043180 AGTATCAACTTAATACC
1 AGTATCAACTTAATACC
51043197 TAAGTCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (17 bp):
AGTATCAACTTAATACC
Found at i:51054248 original size:38 final size:39
Alignment explanation
Indices: 51054192--51054265 Score: 141
Period size: 38 Copynumber: 1.9 Consensus size: 39
51054182 AGCTAAGAAA
51054192 ATCATAAACAAATCATATACATACATACCATCCCTATAT
1 ATCATAAACAAATCATATACATACATACCATCCCTATAT
51054231 ATCA-AAACAAATCATATACATACATACCATCCCTA
1 ATCATAAACAAATCATATACATACATACCATCCCTA
51054266 CATTTATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 31 0.89
39 4 0.11
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.26
Consensus pattern (39 bp):
ATCATAAACAAATCATATACATACATACCATCCCTATAT
Found at i:51054711 original size:20 final size:20
Alignment explanation
Indices: 51054686--51054791 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 20
51054676 TAAATGTGTT
51054686 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
51054706 CAGGGGCA-CGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
* *
51054726 CACGGGTACCGAAGTATAAA
1 CAGGGGTACCGAAGTACAAA
** * *
51054746 CAAGGGG-ACATATGTGCAAA
1 C-AGGGGTACCGAAGTACAAA
51054766 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
51054786 CAGGGG
1 CAGGGG
51054792 CACGTATGTG
Statistics
Matches: 62, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
19 7 0.11
20 49 0.79
21 6 0.10
ACGTcount: A:0.36, C:0.19, G:0.32, T:0.13
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:51054733 original size:40 final size:40
Alignment explanation
Indices: 51054689--51054807 Score: 186
Period size: 40 Copynumber: 3.0 Consensus size: 40
51054679 ATGTGTTCAG
51054689 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAC
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAC
* * * *
51054729 GGGTACCGAAGTATAAACAAGGGG-ACATATGTGCAAACAG
1 GGGTACCGAAGTACAAAC-AGGGGCACGTATGTGCAATCAC
51054769 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
1 GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
51054808 TGCAATAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 5 0.07
40 60 0.86
41 5 0.07
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.15
Consensus pattern (40 bp):
GGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAC
Found at i:51057417 original size:22 final size:22
Alignment explanation
Indices: 51057374--51057438 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
51057364 TGCCAGTAGT
* *
51057374 CAGAATGGCTA-AGAGCCGTAAA
1 CAGAATAGCTACA-AGCCATAAA
* * *
51057396 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTACAAGCCATAAA
*
51057418 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTACAAGCCATAA
51057439 GTACAGTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTACAAGCCATAAA
Found at i:51057485 original size:32 final size:32
Alignment explanation
Indices: 51057430--51057757 Score: 408
Period size: 32 Copynumber: 10.3 Consensus size: 32
51057420 GAATGGCTAC
* *
51057430 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
51057461 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* ** ** *
51057493 CAGCCATCAACAATGGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
51057525 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
** *
51057557 AAGCCATCAGTAATGGTAATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
51057589 AAGCCATCCGTAAC-GATATTATGATCGGCACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
** * *
51057621 AAGCCATCAGTAATGGTAATATAATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
51057653 AAGCCATCAGTAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
51057685 AAGCCATCAGTAACAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
51057717 AAGCCATCAATAACAGTAATATGATCAGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
51057749 AAGCCATCA
1 AAGCCATCA
51057758 TTAGCATCGC
Statistics
Matches: 258, Mismatches: 36, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
31 11 0.04
32 246 0.95
33 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:51057815 original size:26 final size:26
Alignment explanation
Indices: 51057763--51057816 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
51057753 CATCATTAGC
* *
51057763 ATCGCAGCAAAGCTGCCAGCAGCAGT
1 ATCGCAACAAAGCTGCCAGCAACAGT
* *
51057789 ATCGCAACAAAGCTGCCAGTAATAGT
1 ATCGCAACAAAGCTGCCAGCAACAGT
51057815 AT
1 AT
51057817 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAGCAACAGT
Found at i:51057834 original size:27 final size:27
Alignment explanation
Indices: 51057804--51057867 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
51057794 AACAAAGCTG
*
51057804 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
51057831 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
51057858 CCAGT-ACAGT
1 CCAGTAACAGT
51057868 ACTTCCTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.21
27 25 0.74
28 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:51058064 original size:27 final size:27
Alignment explanation
Indices: 51058034--51058165 Score: 194
Period size: 27 Copynumber: 4.9 Consensus size: 27
51058024 GGTATTACGA
51058034 TCATTTTACCCTACAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGCATTACAG
* * *
51058061 TCATTTTACCTTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACAG
*
51058088 TCATTTTATCCTACAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGCATTACAG
*
51058115 TCATTTTACCCTATAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGCATTACAG
* *
51058142 TCA-TTTACCTTACAGGGGTATTAC
1 TCATTTTACCCTACAGGGGCATTAC
51058166 GATTATTTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 18 0.19
27 75 0.81
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACAG
Found at i:51060271 original size:30 final size:28
Alignment explanation
Indices: 51060237--51060292 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
51060227 TCATAATGAA
* *
51060237 ATATATTTAATATATTTTTATTATATAATT
1 ATATAATTAATAT-TTTAT-TTATATAATT
51060267 ATATAATTAATATTTTATTTATATAA
1 ATATAATTAATATTTTATTTATATAA
51060293 ATAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 4 0.17
30 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATATAATTAATATTTTATTTATATAATT
Found at i:51062819 original size:51 final size:50
Alignment explanation
Indices: 51062635--51062979 Score: 343
Period size: 51 Copynumber: 6.8 Consensus size: 50
51062625 ACTTTTATCA
* * * * *
51062635 TTCGATACACGTAGTAGCCTTCACATAGTACTACAAACATGATCAAGTTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * * *
51062685 TTCGGTTCACGTATTAGCCTTCACATAGTACTACATACGTGATCAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
51062734 TTACGGTTCACGTAGTAGCCTTTACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * *
51062786 TTTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * *
51062836 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * ** * * ***
51062888 CTCGGTACACATTCTAGCCTTCACTTAGTACTACACATGTGACCATTATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * *
51062938 TATCGATACACGTAGTAGCCTTCACACAATACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
51062980 TTCATCGATA
Statistics
Matches: 242, Mismatches: 45, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
49 6 0.02
50 86 0.36
51 142 0.59
52 6 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:51062856 original size:102 final size:102
Alignment explanation
Indices: 51062636--51062979 Score: 433
Period size: 102 Copynumber: 3.4 Consensus size: 102
51062626 CTTTTATCAT
* * * * * * *
51062636 TCGATACACGTAGTAGCCTTCACATAGTACTACAAACATGATC-AAG-TTTTTCGGTTCACGTAT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTT-GGTACACATAC
* * * * ***
51062699 TAGCCTTCACATAGTACTACATACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
51062737 -CGGTTCACGTAGTAGCCTTTACATAGTACTACACACGTGACCAAAGCTTTTTGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTTGGTACACATACT
51062801 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
51062838 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTCT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTTGGTACACATACT
*
51062903 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
*
51062940 TCGATACACGTAGTAGCCTTCACACAATACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
51062980 TTCATCGATA
Statistics
Matches: 214, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
100 36 0.17
101 42 0.20
102 136 0.64
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTTGGTACACATACT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:51069035 original size:16 final size:16
Alignment explanation
Indices: 51069014--51069075 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
51069004 ACCATGTTAA
51069014 TAGAAAGCATTTTTTG
1 TAGAAAGCATTTTTTG
*
51069030 TAGAAACCATTTTTT-
1 TAGAAAGCATTTTTTG
* * **
51069045 CAAAAAATATTTTTTTG
1 TAGAAAGCA-TTTTTTG
51069062 TAGAAAGCATTTTT
1 TAGAAAGCATTTTT
51069076 CATAAAGCAC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 5 0.14
16 25 0.71
17 5 0.14
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.45
Consensus pattern (16 bp):
TAGAAAGCATTTTTTG
Found at i:51085576 original size:27 final size:26
Alignment explanation
Indices: 51085546--51085620 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
51085536 AAAACAACCA
*
51085546 TCAAAATAAGAAAAATCAAAATATAGT-
1 TCAAAATAA-AAAAATCAAAAGA-AGTC
51085573 TCAAAATCAAAATAAA--ATAAAGAAGTC
1 TCAAAAT-AAAA-AAATCA-AAAGAAGTC
51085600 TCACAAATAAAAAAATCAAAA
1 TCA-AAATAAAAAAATCAAAA
51085621 ATCAAAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
26 7 0.17
27 23 0.57
28 10 0.25
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (26 bp):
TCAAAATAAAAAAATCAAAAGAAGTC
Found at i:51092802 original size:44 final size:44
Alignment explanation
Indices: 51092752--51092839 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
51092742 CACCAAATCG
*
51092752 GGATAACCTCCTCAATCCCATAATATTCTCCTAAAATCACTCCA
1 GGATAACCTCCCCAATCCCATAATATTCTCCTAAAATCACTCCA
*
51092796 GGATAACCTCCCCAATCCCATAATCTTCTCCTAAAATCACTCCA
1 GGATAACCTCCCCAATCCCATAATATTCTCCTAAAATCACTCCA
51092840 ACCTTCCCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.36, G:0.05, T:0.26
Consensus pattern (44 bp):
GGATAACCTCCCCAATCCCATAATATTCTCCTAAAATCACTCCA
Found at i:51093887 original size:143 final size:143
Alignment explanation
Indices: 51093626--51093887 Score: 339
Period size: 143 Copynumber: 1.8 Consensus size: 143
51093616 TCGATTTGTT
* * * *
51093626 CGACTAGCGCTGGATGCAACTTTCGTCAGTTTATCTAACTAGTGTTGGGCACACATTCGTCGGTT
1 CGACTAGCGCTGGATACAACTTTCGTCAGTTTATCTAACTAGTGCTGGGCACACAATCGTCGGTA
* * *
51093691 TATCCGACTAGCACTGGGTGAAAACATCGTTGGTTTATCCAACTAGAGTTGGGCTCACTATTGAT
66 TAACCGACTAGCACTGGGTCAAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTGAT
51093756 TTTTTGGTATATC
131 TTTTTGGTATATC
* * * *
51093769 CGACTAGCGCTGGGTACAACTTTTGAT-AGTTTATCTAACTAGTGCTGGGCACATAATCGTTGGT
1 CGACTAGCGCTGGATACAACTTTCG-TCAGTTTATCTAACTAGTGCTGGGCACACAATCGTCGGT
* * * * * *
51093833 ATAACTGACTAGCATTGGG-CACAATCATCTTTGGTTTGTCCAACTTGAGCTGGGC
65 ATAACCGACTAGCACTGGGTCA-AAACATCGTTGGTTTATCCAACTAGAGCTGGGC
51093888 ACATAAACAT
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
142 1 0.01
143 98 0.98
144 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (143 bp):
CGACTAGCGCTGGATACAACTTTCGTCAGTTTATCTAACTAGTGCTGGGCACACAATCGTCGGTA
TAACCGACTAGCACTGGGTCAAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTGAT
TTTTTGGTATATC
Found at i:51095468 original size:3 final size:3
Alignment explanation
Indices: 51095460--51095546 Score: 69
Period size: 3 Copynumber: 30.0 Consensus size: 3
51095450 CATCCAACAA
* *
51095460 AAT AAT AAT AAT AAT AA- AAGT AAT AAT AA- AAA AAT -AT GAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* *
51095503 AAT AAT AACT AAA AAT AAT AA- AAG AAT AAGT AA- AAT AA- AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
51095547 TAAATAAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
2 12 0.17
3 50 0.71
4 8 0.11
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:51095545 original size:35 final size:35
Alignment explanation
Indices: 51095463--51095550 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
51095453 CCAACAAAAT
* *
51095463 AATAATAATAA-TAAAAGTAATAATAAAAAAATATGAT
1 AATAATAATAACT-AAA--AATAATAAAAAAATAAGAA
*
51095500 AATAATAATAACTAAAAATAATAAAAGAATAAGTAA
1 AATAATAATAACTAAAAATAATAAAAAAATAAG-AA
*
51095536 AATAA-AATAATTAAA
1 AATAATAATAACTAAA
51095551 TAAAAATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
35 24 0.53
36 6 0.13
37 14 0.31
38 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (35 bp):
AATAATAATAACTAAAAATAATAAAAAAATAAGAA
Found at i:51095561 original size:25 final size:25
Alignment explanation
Indices: 51095514--51095561 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
51095504 ATAATAACTA
*
51095514 AAAATAATAAAAGAATAAGTAAAAT
1 AAAATAATAAAAGAAAAAGTAAAAT
* * *
51095539 AAAATAATTAAATAAAAATTAAA
1 AAAATAATAAAAGAAAAAGTAAA
51095562 TAGAAGAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAATAATAAAAGAAAAAGTAAAAT
Found at i:51095759 original size:22 final size:23
Alignment explanation
Indices: 51095719--51095762 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
51095709 AGGGAAGAAT
*
51095719 GGGGAAGGTGGGGACGAGAGGAA
1 GGGGAAGGTAGGGACGAGAGGAA
*
51095742 GGGGAAGG-AGGGATGAGAGGA
1 GGGGAAGGTAGGGACGAGAGGA
51095763 GATCGAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.32, C:0.02, G:0.61, T:0.05
Consensus pattern (23 bp):
GGGGAAGGTAGGGACGAGAGGAA
Found at i:51105392 original size:51 final size:50
Alignment explanation
Indices: 51105306--51105647 Score: 361
Period size: 51 Copynumber: 6.7 Consensus size: 50
51105296 TATTGATGAA
*
51105306 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGT
* * * * * * * *
51105357 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATT-GT
* * *
51105408 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGT
* * * *
51105459 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATT-GT
* *
51105510 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTG-T
* * *
51105561 CACGTGTGTAGTACTATGTGAAAGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTG-T
*
51105611 CACGTGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
51105648 TGAATGATAA
Statistics
Matches: 243, Mismatches: 39, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
50 48 0.20
51 193 0.79
52 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGT
Found at i:51105482 original size:102 final size:101
Alignment explanation
Indices: 51105306--51105644 Score: 450
Period size: 102 Copynumber: 3.3 Consensus size: 101
51105296 TATTGATGAA
* * * *
51105306 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
51105371 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
51105408 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
51105473 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* *
51105510 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-AACTTGATCACGTGTGTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA--TGGTCACATGTGTAGT
* * * * * *
51105573 ACTATGTGAAAGCTACTACGTGAACCGTAAAAC-TTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
*
51105611 CACGTGTGTAGTACTATGTGGAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
51105645 TATTGAATGA
Statistics
Matches: 213, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.00
101 41 0.19
102 170 0.80
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:51105565 original size:153 final size:152
Alignment explanation
Indices: 51105301--51105647 Score: 412
Period size: 153 Copynumber: 2.3 Consensus size: 152
51105291 TAAGGTATTG
* * *
51105301 ATGAACACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
* * * * * * *
51105366 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAG
66 AGTACTAAGTGAAGGCTACAACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAA
* **
51105431 GCTACTACGTGAATCGATAAATG
131 GCTACTACGTGAACCG-TAAAAC
* * * * *
51105454 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGTCACGTGT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATT-GTCACATGT
* * * *
51105517 GTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTG
64 CTAGTACTAAGTGAAGGCTACAACGTGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATGTG
51105581 AAAGCTACTACGTGAACCGTAAAAC
128 AAAGCTACTACGTGAACCGTAAAAC
* * *
51105606 TTGATCACGTGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTAT
51105648 TGAATGATAA
Statistics
Matches: 163, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
152 45 0.28
153 114 0.70
154 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (152 bp):
ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
AGTACTAAGTGAAGGCTACAACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAA
GCTACTACGTGAACCGTAAAAC
Found at i:51117886 original size:15 final size:15
Alignment explanation
Indices: 51117866--51117897 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51117856 CGACGGTTTA
51117866 TAGCAGAAACAGAGG
1 TAGCAGAAACAGAGG
51117881 TAGCAGAAACAGAGG
1 TAGCAGAAACAGAGG
51117896 TA
1 TA
51117898 CAGTCTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.31, T:0.09
Consensus pattern (15 bp):
TAGCAGAAACAGAGG
Found at i:51119369 original size:25 final size:25
Alignment explanation
Indices: 51119313--51119372 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
51119303 AAAAAAACAT
* *
51119313 TTTAATTTTCCTATTATTATTATTA
1 TTTATTTTTACTATTATTATTATTA
51119338 TTTATTTTTACTATT-TTATT-TTA
1 TTTATTTTTACTATTATTATTATTA
51119361 TTTTCATTTTTA
1 -TTT-ATTTTTA
51119373 TTTTTACACG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 3 0.10
24 8 0.26
25 20 0.65
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTATTTTTACTATTATTATTATTA
Found at i:51119375 original size:6 final size:6
Alignment explanation
Indices: 51119326--51119378 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
51119316 AATTTTCCTA
* *
51119326 TTATTA TTATTAT TTATTT TTACTATT TTA-TT TTATTT TCATTT TTATTT
1 TTATTT TTATT-T TTATTT TTA-T-TT TTATTT TTATTT TTATTT TTATTT
51119376 TTA
1 TTA
51119379 CACGAAACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.12
6 24 0.60
7 6 0.15
8 5 0.12
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:51119377 original size:18 final size:20
Alignment explanation
Indices: 51119327--51119378 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
51119317 ATTTTCCTAT
*
51119327 TATTATTATTATTTATTTTTAC
1 TATT-TTATT-TTTATTTTCAC
51119349 TATTTTA-TTTTATTTTCA-
1 TATTTTATTTTTATTTTCAC
51119367 T-TTTTATTTTTA
1 TATTTTATTTTTA
51119379 CACGAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.18
18 6 0.21
19 9 0.32
20 1 0.04
21 3 0.11
22 4 0.14
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTATTTTTATTTTCAC
Found at i:51130956 original size:21 final size:20
Alignment explanation
Indices: 51130927--51130969 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
51130917 TTTATTATCT
*
51130927 ATTGTATATTATTTATAAACAC
1 ATTGTATA-TATTT-TAAAAAC
51130949 ATTG-ATATATTTTAAAAAC
1 ATTGTATATATTTTAAAAAC
51130968 AT
1 AT
51130970 AATTTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 5 0.25
21 3 0.15
22 4 0.20
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTGTATATATTTTAAAAAC
Found at i:51134812 original size:26 final size:25
Alignment explanation
Indices: 51134766--51134814 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
51134756 ATCGATGTAT
* *
51134766 AAATAAATTGTATTGTGATAAAACA
1 AAATAAATTATATTGTAATAAAACA
*
51134791 AAATAAATATATATTTTAATAAAA
1 AAATAAAT-TATATTGTAATAAAA
51134815 TGTTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
AAATAAATTATATTGTAATAAAACA
Found at i:51139354 original size:39 final size:40
Alignment explanation
Indices: 51139309--51139480 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
51139299 GCTCCTCGTT
* * *
51139309 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
51139349 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
51139388 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
51139428 CAAAGGCCTTCGGGGCTTAACCCAGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCC-GGATTTAGTAACTCGCA
51139468 CAAATGCCTTCGG
1 CAAATGCCTTCGG
51139481 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.66
41 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:51139409 original size:40 final size:39
Alignment explanation
Indices: 51139311--51139533 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
51139301 TCCTCGTTCA
* * * *
51139311 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
51139350 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
51139389 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
51139429 AAAGGCCTTCGGGGCTTAACCCAGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCC-GGATTTAGTAACTCGCAC
** * * * *
51139469 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
51139510 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
51139534 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 41 0.26
40 101 0.65
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:51139542 original size:41 final size:41
Alignment explanation
Indices: 51139465--51139542 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
51139455 TTTGTATCTC
* * *
51139465 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
51139506 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
51139543 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:51158226 original size:48 final size:48
Alignment explanation
Indices: 51158155--51158251 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
51158145 CATGTATATG
51158155 TCGAGGTAGTTCATATGTTCGAGTTGTAATAGCCTTATTTTGTTGAAC
1 TCGAGGTAGTTCATATGTTCGAGTTGTAATAGCCTTATTTTGTTGAAC
51158203 TCGAGGTAGTTCATATGTTCGAGTTGTAATAGCCTTATTTTGTTGAAC
1 TCGAGGTAGTTCATATGTTCGAGTTGTAATAGCCTTATTTTGTTGAAC
51158251 T
1 T
51158252 TTCTTAAATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (48 bp):
TCGAGGTAGTTCATATGTTCGAGTTGTAATAGCCTTATTTTGTTGAAC
Found at i:51160037 original size:17 final size:19
Alignment explanation
Indices: 51159998--51160041 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
51159988 CTTTCATTTT
*
51159998 ATATATTTACAATTGATAT
1 ATATATTTACAATTGATAC
*
51160017 ATATATTTA-GATT-ATAC
1 ATATATTTACAATTGATAC
51160034 ATATATTT
1 ATATATTT
51160042 CTTGAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 3 0.13
19 9 0.39
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
ATATATTTACAATTGATAC
Found at i:51161207 original size:6 final size:6
Alignment explanation
Indices: 51161196--51161223 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
51161186 GATTGATTGC
51161196 CTGATT CTGATT CTGATT CTGATT CTGA
1 CTGATT CTGATT CTGATT CTGATT CTGA
51161224 CTATGACCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:51163209 original size:18 final size:17
Alignment explanation
Indices: 51163176--51163209 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51163166 AAATATGACG
*
51163176 TAAAAATTTAAAAAATC
1 TAAAAAATTAAAAAATC
51163193 TAAAAAATTATAAAAAT
1 TAAAAAATTA-AAAAAT
51163210 TTCTCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAATTAAAAAATC
Found at i:51163244 original size:23 final size:22
Alignment explanation
Indices: 51163202--51163243 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
51163192 CTAAAAAATT
*
51163202 ATAAAAATTTCTCAAATTTTAA
1 ATAAAAAATTCTCAAATTTTAA
51163224 ATAAAAAATTCT-AAACTTTT
1 ATAAAAAATTCTCAAA-TTTT
51163244 TTAATGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAAAAATTCTCAAATTTTAA
Found at i:51163582 original size:24 final size:24
Alignment explanation
Indices: 51163555--51163602 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
51163545 AAATTAGTAA
51163555 GTCAAATAAACTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
* *
51163579 GTCAAATATATTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
51163603 ACTAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
GTCAAATAAACTATACTAATAAAT
Found at i:51165548 original size:24 final size:24
Alignment explanation
Indices: 51165521--51165568 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
51165511 AAATTAGTAA
51165521 GTCAAATAAACTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
* *
51165545 GTCAAATATATTATACTAATAAAT
1 GTCAAATAAACTATACTAATAAAT
51165569 ACTAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
GTCAAATAAACTATACTAATAAAT
Found at i:51168201 original size:24 final size:23
Alignment explanation
Indices: 51168163--51168215 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
51168153 TGAAATAAAA
* *
51168163 TAAAAATAGTGATAATCATATATT
1 TAAAAATAATGATAATCAT-TAAT
* *
51168187 TAAAAATAATTATAATTATTAAT
1 TAAAAATAATGATAATCATTAAT
51168210 TAAAAA
1 TAAAAA
51168216 ACTATGCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
TAAAAATAATGATAATCATTAAT
Found at i:51174312 original size:19 final size:20
Alignment explanation
Indices: 51174280--51174319 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
51174270 GTGGTAAAAT
51174280 TAAAGTTCTATTAATGCAAA
1 TAAAGTTCTATTAATGCAAA
51174300 TAAAGTT-TATTAATGCAAA
1 TAAAGTTCTATTAATGCAAA
51174319 T
1 T
51174320 GCTAGGGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
TAAAGTTCTATTAATGCAAA
Found at i:51176628 original size:21 final size:22
Alignment explanation
Indices: 51176612--51176658 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
51176602 GTATTTTTAT
51176612 TTTTTAA-AATTTAATTTATAA
1 TTTTTAAGAATTTAATTTATAA
* *
51176633 TTTTTAAGAATTT-TTTTAAAA
1 TTTTTAAGAATTTAATTTATAA
51176654 TTTTT
1 TTTTT
51176659 TTCATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTAAGAATTTAATTTATAA
Found at i:51176648 original size:12 final size:11
Alignment explanation
Indices: 51176611--51176675 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
51176601 TGTATTTTTA
51176611 TTTTTTAAAAT
1 TTTTTTAAAAT
* *
51176622 TTAATTTATAA-
1 TT-TTTTAAAAT
51176633 -TTTTTAAGAAT
1 TTTTTTAA-AAT
51176644 TTTTTTAAAAT
1 TTTTTTAAAAT
* *
51176655 TTTTTTCATAT
1 TTTTTTAAAAT
51176666 TTTTTTAAAA
1 TTTTTTAAAA
51176676 AATAAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 4 0.10
10 3 0.07
11 22 0.52
12 13 0.31
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:51178011 original size:11 final size:12
Alignment explanation
Indices: 51177993--51178021 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
51177983 GCATTAAGGT
51177993 TATTTTATTTTA
1 TATTTTATTTTA
51178005 T-TTTTATTTTA
1 TATTTTATTTTA
51178016 TATTTT
1 TATTTT
51178022 TGATGTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTATTTTA
Found at i:51184619 original size:50 final size:50
Alignment explanation
Indices: 51184501--51184996 Score: 442
Period size: 50 Copynumber: 9.7 Consensus size: 50
51184491 GGATGAGATA
* *
51184501 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAAAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTC
*
51184557 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * *
51184607 TCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * * **
51184657 TCC-CGTAAGACTATGTCTGGGACATGGCATAGGCACCTATATGAGAACTC
1 -CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * *
51184707 CCATGTAAGACCATGTTTGGGATATGGCATTGGCATCATTAAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-GATGAGAGGTC
* * *
51184763 CCATGTAAGACCATGTTTGGGACATGACATTGGCACCGAGATGAGAAGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* *
51184813 TCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
** * * * * **
51184863 CCCCGTAAGACCATGTATGGGATATGGCA-TGGACACCTATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGATGAGAGGTC
* * * * * * * **
51184913 CCATGTAAGACCATATCTGGGATATGACATTAGCA--GTACAAGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTC
* * *
51184962 CCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
51184997 TGTTATATTC
Statistics
Matches: 364, Mismatches: 65, Indels: 29
0.79 0.14 0.06
Matches are distributed among these distances:
49 40 0.11
50 236 0.65
51 6 0.02
53 3 0.01
55 3 0.01
56 76 0.21
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:51184796 original size:156 final size:156
Alignment explanation
Indices: 51184597--51184892 Score: 421
Period size: 156 Copynumber: 1.9 Consensus size: 156
51184587 TGGCACCGAG
* * * * * *
51184597 ATGAGAGGTCTCATGTAAGACCATGTCTAGGACATGGCGTTGGCACTGAGATGAGAGGTCTCCCG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGACATTGGCACCGAGATGAGAAGTCTCACG
* * * * *
51184662 TAAGACTATGTCTGGGACATGGCATAGGCACCTATATGAGAACTCCCATGTAAGACCATGTTTGG
66 TAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCCCACGTAAGACCATGTATGG
51184727 GATATGGCATTGGCATCATTAAGATT
131 GATATGGCATTGGCATCATTAAGATT
* * *
51184753 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCACCGAGATGAGAAGTCTCATG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGACATTGGCACCGAGATGAGAAGTCTCACG
* * ** *
51184818 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGG
66 TAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCCCACGTAAGACCATGTATGG
51184883 GATATGGCAT
131 GATATGGCAT
51184893 GGACACCTAT
Statistics
Matches: 121, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
156 121 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (156 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGACATTGGCACCGAGATGAGAAGTCTCACG
TAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCCCACGTAAGACCATGTATGG
GATATGGCATTGGCATCATTAAGATT
Found at i:51184856 original size:206 final size:206
Alignment explanation
Indices: 51184501--51184943 Score: 726
Period size: 206 Copynumber: 2.2 Consensus size: 206
51184491 GGATGAGATA
* *
51184501 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAAAGGTCCCATGTAAG
1 CCATGTAAGACCATGTCTGGGATATGGCATTGGCATCATTAAGATTATGAAAGGTCCCATGTAAG
* * *
51184566 ACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCATGTAAGACCATGTCTAGGACA
66 ACCATGTCTGGGACATGACATTGGCACCGAGATGAGAAGTCTCATGTAAGACCATGTCTAGGACA
* * * *
51184631 TGGCGTTGGCACTGAGATGAGAGGTCTCCCGTAAGACTATGTCTGGGACATGGCATAGG-CACCT
131 TGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCAT-GGACACCT
51184695 ATATGAGAACTC
195 ATATGAGAACTC
* *
51184707 CCATGTAAGACCATGTTTGGGATATGGCATTGGCATCATTAAGATTATGAGAGGTCCCATGTAAG
1 CCATGTAAGACCATGTCTGGGATATGGCATTGGCATCATTAAGATTATGAAAGGTCCCATGTAAG
* *
51184772 ACCATGTTTGGGACATGACATTGGCACCGAGATGAGAAGTCTCATGTAAGACCATGTCTGGGACA
66 ACCATGTCTGGGACATGACATTGGCACCGAGATGAGAAGTCTCATGTAAGACCATGTCTAGGACA
*
51184837 TGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGGGATATGGCATGGACACCTA
131 TGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGACACCTA
51184902 TATGAGAACTC
196 TATGAGAACTC
* *
51184913 CCATGTAAGACCATATCTGGGATATGACATT
1 CCATGTAAGACCATGTCTGGGATATGGCATT
51184944 AGCAGTACAA
Statistics
Matches: 219, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
205 2 0.01
206 217 0.99
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (206 bp):
CCATGTAAGACCATGTCTGGGATATGGCATTGGCATCATTAAGATTATGAAAGGTCCCATGTAAG
ACCATGTCTGGGACATGACATTGGCACCGAGATGAGAAGTCTCATGTAAGACCATGTCTAGGACA
TGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGACACCTA
TATGAGAACTC
Found at i:51187317 original size:30 final size:30
Alignment explanation
Indices: 51187252--51187337 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
51187242 CACGAGAATA
* **
51187252 AGTTGCTCACACAAGCTGACAATATTTCAG
1 AGTTGCTCACACAAGCTGACATTATAACAG
* *
51187282 GGTTGCTCACACAAGCTGACATTGTAACAG
1 AGTTGCTCACACAAGCTGACATTATAACAG
* *
51187312 AGTTGCTTACATAAGCTGACATTATA
1 AGTTGCTCACACAAGCTGACATTATA
51187338 TCGAGATTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (30 bp):
AGTTGCTCACACAAGCTGACATTATAACAG
Found at i:51192699 original size:11 final size:11
Alignment explanation
Indices: 51192683--51192708 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51192673 ATACCAAATG
51192683 TAAAAAATAAA
1 TAAAAAATAAA
51192694 TAAAAAATAAA
1 TAAAAAATAAA
51192705 TAAA
1 TAAA
51192709 TGGCAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:51193654 original size:16 final size:16
Alignment explanation
Indices: 51193633--51193665 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51193623 TTTAAAAGAT
51193633 TTGAAA-GAAAACTCAA
1 TTGAAATGAAAA-TCAA
51193649 TTGAAATGAAAATCAA
1 TTGAAATGAAAATCAA
51193665 T
1 T
51193666 GCCGAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (16 bp):
TTGAAATGAAAATCAA
Found at i:51200819 original size:17 final size:16
Alignment explanation
Indices: 51200795--51200826 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
51200785 TTTTTTTATT
51200795 TTTCTTATTTATTTAA
1 TTTCTTATTTATTTAA
51200811 TTTCGTTATTTATTTA
1 TTTC-TTATTTATTTA
51200827 TTTTTATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTCTTATTTATTTAA
Found at i:51203771 original size:50 final size:50
Alignment explanation
Indices: 51203672--51203859 Score: 178
Period size: 50 Copynumber: 3.6 Consensus size: 50
51203662 AAAGAGATCC
*
51203672 CATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATGAGAGGTCA
1 CATGTAAGACCATGTCTGGGACATGACATTGGCACCA---AG---ATGAGAGGTCA
* * *
51203728 CATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATGAGAGGTCA
1 CATGTAAGACCATGTCTGGGACATGACATTGGCACCAAGATGAGAGGTCA
** * * * * ** *
51203778 CCCGTAAGACCATGTCTGGGACATGTCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGACATTGGCACCAAGATGAGAGGTCA
* * *
51203828 CATGTAAGACCCTATCTGGGATATGACATTGG
1 CATGTAAGACCATGTCTGGGACATGACATTGG
51203860 TAGTTCAAGA
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 75 0.68
53 2 0.02
56 33 0.30
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGACATTGGCACCAAGATGAGAGGTCA
Found at i:51211606 original size:35 final size:35
Alignment explanation
Indices: 51211507--51211607 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 35
51211497 ATTTATTGAT
* * * *
51211507 ATTCTGATTCGCATGTTGAGCATGCTATTATTCTG
1 ATTCTGATTCGCATGTTAAGCATGCCATTGTTCTA
* * * *
51211542 ATTCTGATTCACTTGTTAAGCTTGTCATTGTTCTA
1 ATTCTGATTCGCATGTTAAGCATGCCATTGTTCTA
* *
51211577 ATTCTGATTCGCATATTAAACATGCCATTGT
1 ATTCTGATTCGCATGTTAAGCATGCCATTGT
51211608 GATAAATCGT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.44
Consensus pattern (35 bp):
ATTCTGATTCGCATGTTAAGCATGCCATTGTTCTA
Found at i:51212857 original size:11 final size:11
Alignment explanation
Indices: 51212828--51212860 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
51212818 AGTGAAAAAG
51212828 AAAAGTGAG-A
1 AAAAGTGAGAA
51212838 AAAAGTGAGAA
1 AAAAGTGAGAA
*
51212849 AAAAATGAGAA
1 AAAAGTGAGAA
51212860 A
1 A
51212861 TTCCAGTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (11 bp):
AAAAGTGAGAA
Found at i:51213089 original size:101 final size:102
Alignment explanation
Indices: 51212969--51213153 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
51212959 AAAGTGATGG
* *
51212969 TCACGTGTGTAGTAGTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
51213032 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
* * *
51213070 TCACGTGTGTAGTACTATGTGCAGGCTACTTCGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
* *
51213135 TTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
51213154 TGAACCAGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:51213095 original size:51 final size:50
Alignment explanation
Indices: 51212969--51213151 Score: 172
Period size: 51 Copynumber: 3.6 Consensus size: 50
51212959 AAAGTGATGG
* * *
51212969 TCACGTGTGTAGTAGTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
* * * * *
51213019 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAT-G-ATAGA
* * * * *
51213070 TCACGTGTGTAGTACTATGTGCAGGCTACTTCGTGTATCGGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGA-A-TGATAGA
* * *
51213121 TCACATGTGTAGTATTATGTGTAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
51213152 TGTGAACCAG
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
49 4 0.04
50 35 0.32
51 63 0.58
52 3 0.03
53 2 0.02
54 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
Found at i:51217429 original size:21 final size:21
Alignment explanation
Indices: 51217391--51217430 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51217381 ATTATAGCAA
*
51217391 CTCAAAACATGATTAAACAAG
1 CTCAAAACATGATAAAACAAG
51217412 CTCAAAACATG-TCAAAACA
1 CTCAAAACATGAT-AAAACA
51217431 TCTATCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.53, C:0.23, G:0.07, T:0.17
Consensus pattern (21 bp):
CTCAAAACATGATAAAACAAG
Found at i:51221383 original size:3 final size:3
Alignment explanation
Indices: 51221368--51221397 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
51221358 TGTCCATGGA
*
51221368 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
51221398 GGAAAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:51224354 original size:22 final size:22
Alignment explanation
Indices: 51224322--51224364 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
51224312 TACACACGCA
*
51224322 AATATTTTTTAAAAAATATTTT
1 AATATTATTTAAAAAATATTTT
*
51224344 AATATTATTTAAAATATATTT
1 AATATTATTTAAAAAATATTT
51224365 CATTATCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATTATTTAAAAAATATTTT
Found at i:51229678 original size:57 final size:57
Alignment explanation
Indices: 51229584--51229743 Score: 248
Period size: 57 Copynumber: 2.8 Consensus size: 57
51229574 GCATGTAACA
* *
51229584 CTTAGAGACAACTCTCACTTCACCAGTTCGCAACTCCATCTCAGTTCACATGCAATG
1 CTTAGAGACAGCTCACACTTCACCAGTTCGCAACTCCATCTCAGTTCACATGCAATG
* * * * *
51229641 CTTAGAGACAGCTCGCACTTCACCAGTTTGTATCTCCATCTCTGTTCACATGCAATG
1 CTTAGAGACAGCTCACACTTCACCAGTTCGCAACTCCATCTCAGTTCACATGCAATG
*
51229698 CTTAGAGACAGCTCACACTTCACCAGTTCGCAACTCCATCTTAGTT
1 CTTAGAGACAGCTCACACTTCACCAGTTCGCAACTCCATCTCAGTT
51229744 TCCAAGCTCT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 91 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.29
Consensus pattern (57 bp):
CTTAGAGACAGCTCACACTTCACCAGTTCGCAACTCCATCTCAGTTCACATGCAATG
Found at i:51234774 original size:99 final size:100
Alignment explanation
Indices: 51234617--51234814 Score: 335
Period size: 99 Copynumber: 2.0 Consensus size: 100
51234607 AATATTTTAA
* *
51234617 AAATTTTAAAATATATATTATTATAAAGTACATAAAAATTAAAAACAAAAACAAGAAGTACACGT
1 AAATTTTAAAAAATATATAATTATAAAGTACATAAAAATTAAAAACAAAAACAAGAAGTACACGT
51234682 -GGTTGCCATGCGGGCTGCCATATTTAAAAATTTT
66 AGGTTGCCATGCGGGCTGCCATATTTAAAAATTTT
* *
51234716 AAATTTTAAAAAATATATAATTATAAAGTACATAAAAATTAAAAACAAAAACATGAAGTACATGT
1 AAATTTTAAAAAATATATAATTATAAAGTACATAAAAATTAAAAACAAAAACAAGAAGTACACGT
* *
51234781 AGGTTGCCATGCGGGCTGTCATATTTCAAAATTT
66 AGGTTGCCATGCGGGCTGCCATATTTAAAAATTT
51234815 AATGTTTTAG
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 61 0.66
100 31 0.34
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (100 bp):
AAATTTTAAAAAATATATAATTATAAAGTACATAAAAATTAAAAACAAAAACAAGAAGTACACGT
AGGTTGCCATGCGGGCTGCCATATTTAAAAATTTT
Found at i:51234893 original size:31 final size:31
Alignment explanation
Indices: 51234855--51234917 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
51234845 ATAATTCAAT
*
51234855 TCTTTTTT-AAAGATTGATGGTCAAATTTAAC
1 TCTTTTTTAAAAGATTGA-GATCAAATTTAAC
*
51234886 TCTTTTTTAAAAGCTTGAGATCAAATTTAAC
1 TCTTTTTTAAAAGATTGAGATCAAATTTAAC
51234917 T
1 T
51234918 AAAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
TCTTTTTTAAAAGATTGAGATCAAATTTAAC
Found at i:51240370 original size:78 final size:76
Alignment explanation
Indices: 51240288--51240524 Score: 384
Period size: 76 Copynumber: 3.1 Consensus size: 76
51240278 TTTAAATACA
*
51240288 AAGTTGACTATTTAAATTGTAAAAAAAACAACATAAAATTGATAAATAAAATGACAACAAATTCA
1 AAGTTGACTATTTAAATTG-AAAAAAAA-AACATAAAATTGATAAATAAAATGGCAACAAATTCA
51240353 TTACATAAATATG
64 TTACATAAATATG
*
51240366 AAGTTGACTATTTAAATTGAAAAAAAAATCATAAAATTGATAAATAAAATGGCAACAAATTCATT
1 AAGTTGACTATTTAAATTGAAAAAAAAAACATAAAATTGATAAATAAAATGGCAACAAATTCATT
51240431 ACATAAATATG
66 ACATAAATATG
* * * *
51240442 AAGTTGACTATTTAAATCGAAAAAAATAAATCATAAAATTGATAAATAAAATGGGAAAAAAATCA
1 AAGTTGACTATTTAAATTGAAAAAAA-AAA-CATAAAATTGATAAATAAAATGGCAACAAATTCA
51240507 TTACATAAATATG
64 TTACATAAATATG
51240520 AAGTT
1 AAGTT
51240525 ATTTATATTA
Statistics
Matches: 150, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
76 72 0.48
77 10 0.07
78 68 0.45
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (76 bp):
AAGTTGACTATTTAAATTGAAAAAAAAAACATAAAATTGATAAATAAAATGGCAACAAATTCATT
ACATAAATATG
Found at i:51240422 original size:76 final size:77
Alignment explanation
Indices: 51240288--51240524 Score: 388
Period size: 78 Copynumber: 3.1 Consensus size: 77
51240278 TTTAAATACA
*
51240288 AAGTTGACTATTTAAATTGTAAAAAAAACAA-CATAAAATTGATAAATAAAATGACAACAAATTC
1 AAGTTGACTATTTAAATTG-AAAAAAAA-AATCATAAAATTGATAAATAAAATGGCAACAAATTC
51240352 ATTACATAAATATG
64 ATTACATAAATATG
51240366 AAGTTGACTATTTAAATTG-AAAAAAAAATCATAAAATTGATAAATAAAATGGCAACAAATTCAT
1 AAGTTGACTATTTAAATTGAAAAAAAAAATCATAAAATTGATAAATAAAATGGCAACAAATTCAT
51240430 TACATAAATATG
66 TACATAAATATG
* * * *
51240442 AAGTTGACTATTTAAATCGAAAAAAATAAATCATAAAATTGATAAATAAAATGGGAAAAAAATCA
1 AAGTTGACTATTTAAATTGAAAAAAA-AAATCATAAAATTGATAAATAAAATGGCAACAAATTCA
51240507 TTACATAAATATG
65 TTACATAAATATG
51240520 AAGTT
1 AAGTT
51240525 ATTTATATTA
Statistics
Matches: 151, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
75 2 0.01
76 71 0.47
77 6 0.04
78 72 0.48
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (77 bp):
AAGTTGACTATTTAAATTGAAAAAAAAAATCATAAAATTGATAAATAAAATGGCAACAAATTCAT
TACATAAATATG
Found at i:51240751 original size:33 final size:33
Alignment explanation
Indices: 51240709--51240772 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
51240699 ATGAACTTGA
*
51240709 GCCGGGAGAAGTGGTGTACGACGGTGGATACGG
1 GCCGGGAGAAGTGGAGTACGACGGTGGATACGG
51240742 GCCGGGAGAAGTGGAGTACGACGGTGGATAC
1 GCCGGGAGAAGTGGAGTACGACGGTGGATAC
51240773 AGGTTGGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.47, T:0.14
Consensus pattern (33 bp):
GCCGGGAGAAGTGGAGTACGACGGTGGATACGG
Found at i:51240788 original size:33 final size:33
Alignment explanation
Indices: 51240709--51240793 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
51240699 ATGAACTTGA
* * *
51240709 GCCGGGAGAAGTGGTGTACGACGGTGGATACGG
1 GCCGGAAGAAGTGGAGTACGACGGTGGATACAG
*
51240742 GCCGGGAGAAGTGGAGTACGACGGTGGATACAG
1 GCCGGAAGAAGTGGAGTACGACGGTGGATACAG
** *
51240775 GTTGGAAGGAGTGGAGTAC
1 GCCGGAAGAAGTGGAGTAC
51240794 TGAGTTGGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.25, C:0.13, G:0.47, T:0.15
Consensus pattern (33 bp):
GCCGGAAGAAGTGGAGTACGACGGTGGATACAG
Found at i:51240964 original size:12 final size:12
Alignment explanation
Indices: 51240947--51240985 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51240937 TGTAGTTCCA
51240947 GCTCTACCTCCG
1 GCTCTACCTCCG
* *
51240959 GCTCTAGCTCTG
1 GCTCTACCTCCG
*
51240971 GCTCTGCCTCCG
1 GCTCTACCTCCG
51240983 GCT
1 GCT
51240986 ATGGTGCATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.05, C:0.44, G:0.23, T:0.28
Consensus pattern (12 bp):
GCTCTACCTCCG
Found at i:51243195 original size:30 final size:29
Alignment explanation
Indices: 51243156--51243212 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
51243146 ATAAACACTA
* *
51243156 AACATAAACAATTTATAAATAATAATTAAT
1 AACAAAAACAATTTATAAACAA-AATTAAT
51243186 AACAAAAACAATTTATAAACAAAATTA
1 AACAAAAACAATTTATAAACAAAATTA
51243213 TTTACTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (29 bp):
AACAAAAACAATTTATAAACAAAATTAAT
Found at i:51243302 original size:27 final size:25
Alignment explanation
Indices: 51243237--51243303 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 25
51243227 ACTTACCTTT
51243237 TCTTTCTTTCTTCTTCTTCTTTTTC
1 TCTTTCTTTCTTCTTCTTCTTTTTC
* *
51243262 T-TTTTTTTTTTCTTC-TCTTTTCTC
1 TCTTTCTTTCTTCTTCTTCTTTT-TC
51243286 TCCTTTCTTTCTCTCTTC
1 T-CTTTCTTTCT-TCTTC
51243304 CGGTGCACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 6 0.18
24 15 0.44
25 1 0.03
26 7 0.21
27 5 0.15
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (25 bp):
TCTTTCTTTCTTCTTCTTCTTTTTC
Found at i:51245733 original size:24 final size:24
Alignment explanation
Indices: 51245701--51245752 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
51245691 TCGTGTAATG
51245701 ATGCACATGAACTTAGCAAGTTCT
1 ATGCACATGAACTTAGCAAGTTCT
51245725 ATGCACATGAACTTAGCAAGTTCT
1 ATGCACATGAACTTAGCAAGTTCT
51245749 ATGC
1 ATGC
51245753 TTTTTATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (24 bp):
ATGCACATGAACTTAGCAAGTTCT
Found at i:51246070 original size:29 final size:29
Alignment explanation
Indices: 51245950--51246109 Score: 137
Period size: 29 Copynumber: 5.4 Consensus size: 29
51245940 TTTGCATGAT
51245950 CATATAGGCTCGCATGTACCTAGGGTTCACATGG
1 CATATAGGCTCGCATGTACCTAGGGTT--C---G
* *
51245984 CATATAGGCAT-GCATGCT-CTTAGGGATCG
1 CATATAGGC-TCGCATG-TACCTAGGGTTCG
* * * *
51246013 CATAAAGGCTCGTAAGT-TCTAGGGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
*
51246041 CACATAGGCTCGCATGTACCTAGGGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* * * *
51246070 CATGTAGGGTCGCATGTACCTAAGGTTCA
1 CATATAGGCTCGCATGTACCTAGGGTTCG
51246099 CATATAGGCTC
1 CATATAGGCTC
51246110 ACATAATTCT
Statistics
Matches: 102, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
28 23 0.23
29 55 0.54
32 1 0.01
34 21 0.21
35 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (29 bp):
CATATAGGCTCGCATGTACCTAGGGTTCG
Found at i:51246170 original size:36 final size:36
Alignment explanation
Indices: 51246129--51246205 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
51246119 TAGGGTTCTT
* * * *
51246129 ATATAATCAACATATGGTTCGCATAACATGACTTGC
1 ATATAATAAACACATGGTTCACATAACATGACTCGC
* *
51246165 ATATAATAAACACATGGTTCACATATCATGGCTCGC
1 ATATAATAAACACATGGTTCACATAACATGACTCGC
51246201 ATATA
1 ATATA
51246206 GATTCAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (36 bp):
ATATAATAAACACATGGTTCACATAACATGACTCGC
Found at i:51247535 original size:30 final size:29
Alignment explanation
Indices: 51247499--51247574 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
51247489 ATGCTCAAAT
*
51247499 CAATTCAACAATGTATATC-ATATACGAA
1 CAATTCAACAATGTATATCGATATACCAA
** *
51247527 TCCAATTCAGGAATGAATATCGATATACCAA
1 --CAATTCAACAATGTATATCGATATACCAA
51247558 CAATTCAACAATGTATA
1 CAATTCAACAATGTATA
51247575 ACTATTCACG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 14 0.37
30 16 0.42
31 8 0.21
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (29 bp):
CAATTCAACAATGTATATCGATATACCAA
Found at i:51247811 original size:31 final size:31
Alignment explanation
Indices: 51247742--51247812 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
51247732 TATACCAAAC
* * *
51247742 AATTCAGCAATGTATAACCATACACGAATCA
1 AATTCGGCAATATATAACCATACACAAATCA
* *
51247773 AGA-TCGGCAATATATAATCATACACAAATTA
1 A-ATTCGGCAATATATAACCATACACAAATCA
51247804 AATTCGGCA
1 AATTCGGCA
51247813 TCCTATATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
30 1 0.03
31 31 0.94
32 1 0.03
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (31 bp):
AATTCGGCAATATATAACCATACACAAATCA
Found at i:51247880 original size:184 final size:184
Alignment explanation
Indices: 51247543--51248055 Score: 757
Period size: 184 Copynumber: 2.8 Consensus size: 184
51247533 TCAGGAATGA
* * * *
51247543 ATATCGATATACC-AACAATTCAACAATGTATAACTATTCACGAATCAAGATCGGCAATATATAA
1 ATATCCATATACCAAACAATTCAGCAATGTATAACCATACACGAATCAAGATCGGCAATATATAA
* *
51247607 TCAGACACAAATCAAA-TCAGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
66 TCAAACACAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
51247671 AGTACGAATTAATTTCAACAATGTACAACCCTGTACGAATCAAGTCAGCAACTT
131 AGTACGAATTAATTTCAACAATGTACAACCCTGTACGAATCAAGTCAGCAACTT
51247725 ATATCCATATACCAAACAATTCAGCAATGTATAACCATACACGAATCAAGATCGGCAATATATAA
1 ATATCCATATACCAAACAATTCAGCAATGTATAACCATACACGAATCAAGATCGGCAATATATAA
* *
51247790 TCATACACAAATTAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
66 TCAAACACAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
* ** *
51247855 AGTACGAATTAATTTTAGTAATGTACAACCCTGTATGAATCAAGTCAGCAACTT
131 AGTACGAATTAATTTCAACAATGTACAACCCTGTACGAATCAAGTCAGCAACTT
* * ** *
51247909 ATATCCATATACCAAATAATTC-GACAATGTATAACCATACACGAATCAAGTTCGATAATGTATA
1 ATATCCATATACCAAACAATTCAG-CAATGTATAACCATACACGAATCAAGATCGGCAATATATA
* * * * *
51247973 ATCAAATACAAATCCAATTCGGCATCCTATATACAT-AACAAATTCAATATCGCCAATATATAAC
65 ATCAAACACAAATCAAATTCGGCATCCTATATTCATAAAC-AATTCACTATCGACAATATATAAC
*
51248037 CATGTAC-AAGTTAATTTCA
129 CAAGTACGAA-TTAATTTCA
51248056 GCAAGGTAAA
Statistics
Matches: 301, Mismatches: 25, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
182 12 0.04
183 68 0.23
184 221 0.73
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (184 bp):
ATATCCATATACCAAACAATTCAGCAATGTATAACCATACACGAATCAAGATCGGCAATATATAA
TCAAACACAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
AGTACGAATTAATTTCAACAATGTACAACCCTGTACGAATCAAGTCAGCAACTT
Found at i:51247943 original size:91 final size:91
Alignment explanation
Indices: 51247654--51247945 Score: 266
Period size: 91 Copynumber: 3.2 Consensus size: 91
51247644 CAATTCACTA
*
51247654 TCGACAATATATAACCAAGTACGAATTAATTTCAACAATGTACAACCCTGTACGAATCAAGTCAG
1 TCGACAATATATAACCAAGTACGAATTAATTTCAGCAATGTACAACCCTGTACGAATCAAGTCAG
*
51247719 CAACTTATATCCATATACCAAACAAT
66 CAACTTATATCCATATACCAAATAAT
* * * ** * * * * * ** * * *
51247745 TC-AGCAATGTATAACCATA-CACGAATCAAGATCGGCAATATATAATCATACACAAATTAAATT
1 TCGA-CAATATATAACCA-AGTACGAATTAATTTCAGCAATGTACAACCCTGTACGAA-TCAAGT
* * * * * * *
51247808 CGGCATCCTATATTCATA-AACAATTCACT
63 CAGCAACTTATATCCATATACCAAAT-AAT
* * *
51247837 ATCGACAATATATAACCAAGTACGAATTAATTTTAGTAATGTACAACCCTGTATGAATCAAGTCA
1 -TCGACAATATATAACCAAGTACGAATTAATTTCAGCAATGTACAACCCTGTACGAATCAAGTCA
51247902 GCAACTTATATCCATATACCAAATAAT
65 GCAACTTATATCCATATACCAAATAAT
*
51247929 TCGACAATGTATAACCA
1 TCGACAATATATAACCA
51247946 TACACGAATC
Statistics
Matches: 143, Mismatches: 50, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
90 1 0.01
91 58 0.41
92 42 0.29
93 41 0.29
94 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27
Consensus pattern (91 bp):
TCGACAATATATAACCAAGTACGAATTAATTTCAGCAATGTACAACCCTGTACGAATCAAGTCAG
CAACTTATATCCATATACCAAATAAT
Found at i:51248105 original size:20 final size:21
Alignment explanation
Indices: 51248063--51248105 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
51248053 TCAGCAAGGT
*
51248063 AAAACATTTATATTAATTTCA
1 AAAACATTTATATTAATTACA
*
51248084 AAAACATTTAT-TTACTTACA
1 AAAACATTTATATTAATTACA
51248104 AA
1 AA
51248106 CTTACCTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAACATTTATATTAATTACA
Found at i:51262458 original size:16 final size:16
Alignment explanation
Indices: 51262433--51262463 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51262423 AACAAAAAGA
*
51262433 TTTACGGAAACAATTG
1 TTTACAGAAACAATTG
51262449 TTTACAGAAACAATT
1 TTTACAGAAACAATT
51262464 TTTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (16 bp):
TTTACAGAAACAATTG
Found at i:51266535 original size:101 final size:102
Alignment explanation
Indices: 51266356--51266560 Score: 367
Period size: 101 Copynumber: 2.0 Consensus size: 102
51266346 TCTTTTCTTT
*
51266356 TTAGGTCTGCATATGATTTTTTTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
1 TTAGGTCTGCATATGATTTTTGTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
* * *
51266421 TTTTCTTCGGTTTCTTGTACTAACTCAGGACCCATTA
66 TTGTCTTCAGTTTCCTGTACTAACTCAGGACCCATTA
51266458 TTAGGTCTGCATATGA-TTTTGTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
1 TTAGGTCTGCATATGATTTTTGTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
51266522 TTGTCTTCAGTTTCCTGTACTAACTCAGGACCCATTA
66 TTGTCTTCAGTTTCCTGTACTAACTCAGGACCCATTA
51266559 TT
1 TT
51266561 TTTCTTTCTT
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 83 0.84
102 16 0.16
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (102 bp):
TTAGGTCTGCATATGATTTTTGTCTGTTAGAAGTTGTTTTTAACCTCTCTTGAATTACTCAAATT
TTGTCTTCAGTTTCCTGTACTAACTCAGGACCCATTA
Found at i:51270477 original size:43 final size:43
Alignment explanation
Indices: 51270307--51270478 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 43
51270297 CATAGGATTC
* * * * * *
51270307 CGATATGTGATTACGTGTAAGACCACGTTTGGCACTTTGGCAT
1 CGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
51270350 TGAT-TTACGATTTACATGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATT-TGATTT-CATGTAAGACCACGTCTGGGACGTTGGCAT
** * * *
51270394 C-ATATAAGAGTTCGTGTAAGACC-C-TGCCGAGGACAG-TGGCAT
1 CGATATTTGATTTCATGTAAGACCACGT-CTG-GGAC-GTTGGCAT
51270436 CGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
51270479 TGAATGAGCT
Statistics
Matches: 97, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 23 0.24
43 41 0.42
44 29 0.30
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
Done.