Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 35 of 56
Found at i:6057397 original size:16 final size:16
Alignment explanation
Indices: 6057376--6057415 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6057366 TATTTTTTTG
6057376 ATATAATTATAAAAAT
1 ATATAATTATAAAAAT
* **
6057392 ATATAATTTTTTAAAT
1 ATATAATTATAAAAAT
6057408 ATATAATT
1 ATATAATT
6057416 TTTTAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATTATAAAAAT
Found at i:6057416 original size:16 final size:16
Alignment explanation
Indices: 6057388--6057427 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
6057378 ATAATTATAA
6057388 AAATATATAATTTTTT
1 AAATATATAATTTTTT
6057404 AAATATATAATTTTTT
1 AAATATATAATTTTTT
6057420 AAATATAT
1 AAATATAT
6057428 TTATTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATATATAATTTTTT
Found at i:6057434 original size:13 final size:13
Alignment explanation
Indices: 6057408--6057442 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
6057398 TTTTTTAAAT
*
6057408 ATATAATTTTTTAA
1 ATAT-ATTTATTAA
6057422 ATATATTTATTAA
1 ATATATTTATTAA
6057435 ATATATTT
1 ATATATTT
6057443 TTGTATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATATTTATTAA
Found at i:6057806 original size:15 final size:15
Alignment explanation
Indices: 6057786--6057826 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
6057776 CATCGGATTA
6057786 ATTTTAAATTAAATT
1 ATTTTAAATTAAATT
*
6057801 ATTTTAAATTAGATT
1 ATTTTAAATTAAATT
6057816 ATTTTAAATTA
1 ATTTTAAATTA
6057827 TAAAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTTAAATTAAATT
Found at i:6057834 original size:15 final size:15
Alignment explanation
Indices: 6057785--6057843 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
6057775 TCATCGGATT
6057785 AATTTTAAATTA-AA
1 AATTTTAAATTATAA
* * *
6057799 TTATTTTAAATTAGAT
1 -AATTTTAAATTATAA
*
6057815 TATTTTAAATTATAA
1 AATTTTAAATTATAA
6057830 AATTTTTAAATTAT
1 AA-TTTTAAATTAT
6057844 TTTTAAGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 25 0.68
16 12 0.32
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
AATTTTAAATTATAA
Found at i:6057837 original size:31 final size:31
Alignment explanation
Indices: 6057781--6057842 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
6057771 GCTGTCATCG
*
6057781 GATTAATTTTAAATTAAATTATTTTAAATTA
1 GATTAATTTTAAATTAAAATATTTTAAATTA
6057812 GATT-ATTTTAAATTATAAA-ATTTTTAAATTA
1 GATTAATTTTAAATTA-AAATA-TTTTAAATTA
6057843 TTTTTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (31 bp):
GATTAATTTTAAATTAAAATATTTTAAATTA
Found at i:6057891 original size:32 final size:31
Alignment explanation
Indices: 6057849--6057926 Score: 75
Period size: 32 Copynumber: 2.5 Consensus size: 31
6057839 ATTATTTTTA
* * *
6057849 AGTTTAGATCATTTCGAGTTTGAATTATTTCG
1 AGTTTGGATCATTT-GAATTTGAATCATTTCG
* *
6057881 AGTTTGGATCACTTTGAATTTGAGTCATTTTG
1 AGTTTGGATCA-TTTGAATTTGAATCATTTCG
* *
6057913 GGTTCGGATCATTT
1 AGTTTGGATCATTT
6057927 TAAGTTTAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 3 0.08
32 32 0.84
33 3 0.08
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (31 bp):
AGTTTGGATCATTTGAATTTGAATCATTTCG
Found at i:6059016 original size:16 final size:16
Alignment explanation
Indices: 6058995--6059055 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
6058985 CTTAATTTAA
6058995 GTTCGGATCATTTTGG
1 GTTCGGATCATTTTGG
*
6059011 GTTCGGATCATTTTGA
1 GTTCGGATCATTTTGG
* * **
6059027 ATTCGGGTCATTTCAG
1 GTTCGGATCATTTTGG
*
6059043 GTTCGAATCATTT
1 GTTCGGATCATTT
6059056 CGGATTCGAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.43
Consensus pattern (16 bp):
GTTCGGATCATTTTGG
Found at i:6059038 original size:32 final size:32
Alignment explanation
Indices: 6058996--6059134 Score: 129
Period size: 32 Copynumber: 4.3 Consensus size: 32
6058986 TTAATTTAAG
* ** * *
6058996 TTCGGATCATTTTGGGTTCGGATCATTTTGAA
1 TTCGGGTCATTTCAGGTTCGAATCATTTCGAA
*
6059028 TTCGGGTCATTTCAGGTTCGAATCATTTCGGA
1 TTCGGGTCATTTCAGGTTCGAATCATTTCGAA
* * * *
6059060 TTCGAGTCATTTCAGGTTTGAGTCATTTCGGA
1 TTCGGGTCATTTCAGGTTCGAATCATTTCGAA
* *
6059092 TTCAGGTCATTT-TGGATTCGAATCA-TTCTGAA
1 TTCGGGTCATTTCAGG-TTCGAATCATTTC-GAA
*
6059124 TTCGAGTCATT
1 TTCGGGTCATT
6059135 GCGAGTTTGA
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
31 5 0.06
32 83 0.94
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (32 bp):
TTCGGGTCATTTCAGGTTCGAATCATTTCGAA
Found at i:6059112 original size:64 final size:64
Alignment explanation
Indices: 6059018--6059151 Score: 166
Period size: 64 Copynumber: 2.1 Consensus size: 64
6059008 TGGGTTCGGA
* * * *
6059018 TCATTTTGAATTCGGGTCATTTCAGGTTCGAATCATT-TCGGATTCGAGTCATTTC-AGGTTTGA
1 TCATTTCGAATTCAGGTCATTTCAGGTTCGAATCATTCT-GAATTCGAGTCATTGCGA-GTTTGA
6059081 G
64 G
* *
6059082 TCATTTCGGATTCAGGTCATTT-TGGATTCGAATCATTCTGAATTCGAGTCATTGCGAGTTTGAG
1 TCATTTCGAATTCAGGTCATTTCAGG-TTCGAATCATTCTGAATTCGAGTCATTGCGAGTTTGAG
6059146 TCATTT
1 TCATTT
6059152 TAGTTCGAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
63 2 0.03
64 57 0.93
65 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (64 bp):
TCATTTCGAATTCAGGTCATTTCAGGTTCGAATCATTCTGAATTCGAGTCATTGCGAGTTTGAG
Found at i:6059117 original size:16 final size:16
Alignment explanation
Indices: 6059002--6059173 Score: 97
Period size: 16 Copynumber: 10.8 Consensus size: 16
6058992 TAAGTTCGGA
*
6059002 TCATTTTGGGTTCG-G
1 TCATTTTGGATTCGAG
* *
6059017 ATCATTTTGAATTCGGG
1 -TCATTTTGGATTCGAG
* *
6059034 TCATTTCAGG-TTCGAA
1 TCATTT-TGGATTCGAG
*
6059050 TCATTTCGGATTCGAG
1 TCATTTTGGATTCGAG
* *
6059066 TCATTTCAGG-TTTGAG
1 TCATTT-TGGATTCGAG
*
6059082 TCATTTCGGATTC-AGG
1 TCATTTTGGATTCGA-G
*
6059098 TCATTTTGGATTCGAA
1 TCATTTTGGATTCGAG
* *
6059114 TCATTCTGAATTCGAG
1 TCATTTTGGATTCGAG
*
6059130 TCA--TTGCGAGTTTGAG
1 TCATTTTG-GA-TTCGAG
*
6059146 TCATTTTAG-TTCGAG
1 TCATTTTGGATTCGAG
* *
6059161 TCAGTTCGGATTC
1 TCATTTTGGATTC
6059174 AGGTTGTTGA
Statistics
Matches: 119, Mismatches: 25, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
14 2 0.02
15 17 0.14
16 92 0.77
17 6 0.05
18 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.41
Consensus pattern (16 bp):
TCATTTTGGATTCGAG
Found at i:6059131 original size:48 final size:47
Alignment explanation
Indices: 6058995--6059134 Score: 131
Period size: 48 Copynumber: 2.9 Consensus size: 47
6058985 CTTAATTTAA
* * * *
6058995 GTTCGGATCATTTTGGGTTCGGATCATTTTGAATTCGGGTCATTTCAG
1 GTTCGAATCATTTTGGATTCGAATCA-TTTGAATTCGAGTCATTTCAG
* * * * *
6059043 GTTCGAATCATTTCGGATTCGAGTCATTTCAGGTTTGAGTCATTTC-G
1 GTTCGAATCATTTTGGATTCGAATCATTTGA-ATTCGAGTCATTTCAG
*
6059090 GATTC-AGGTCATTTTGGATTCGAATCATTCTGAATTCGAGTCATT
1 G-TTCGA-ATCATTTTGGATTCGAATCATT-TGAATTCGAGTCATT
6059135 GCGAGTTTGA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
47 7 0.10
48 64 0.88
49 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.41
Consensus pattern (47 bp):
GTTCGAATCATTTTGGATTCGAATCATTTGAATTCGAGTCATTTCAG
Found at i:6066911 original size:2 final size:2
Alignment explanation
Indices: 6066904--6066934 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6066894 AGATTCTCCA
*
6066904 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6066935 GGATTACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6068671 original size:19 final size:19
Alignment explanation
Indices: 6068647--6068683 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6068637 ATTTGTCAAT
6068647 TATTATTAT-TATTATATTA
1 TATTATTATAT-TTATATTA
6068666 TATTATTATATTTATATT
1 TATTATTATATTTATATT
6068684 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTATATTTATATTA
Found at i:6068725 original size:19 final size:19
Alignment explanation
Indices: 6068691--6068731 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6068681 ATTTTTTAAA
*
6068691 ATTAATATAAAATTATGTT
1 ATTAATATAAAATTATATT
6068710 ATTAATA-AAAATTTATATT
1 ATTAATATAAAA-TTATATT
6068729 ATT
1 ATT
6068732 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTAATATAAAATTATATT
Found at i:6068779 original size:45 final size:45
Alignment explanation
Indices: 6068675--6068761 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
6068665 ATATTATTAT
* * * *
6068675 ATTTATATTTTTTAAAATTAATATAAAATTATGTTATTAATAAAA
1 ATTTATATTTTTTTAAATTAATAAAAAATTATATTATTAAGAAAA
*
6068720 ATTTATATTATTTTAAATTAATAAAAAATTATATTATTAAGA
1 ATTTATATTTTTTTAAATTAATAAAAAATTATATTATTAAGA
6068762 GATTATTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (45 bp):
ATTTATATTTTTTTAAATTAATAAAAAATTATATTATTAAGAAAA
Found at i:6068974 original size:16 final size:15
Alignment explanation
Indices: 6068955--6069001 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
6068945 TATTTCTCGT
6068955 ATTAATTATTAAAAAA
1 ATTAATT-TTAAAAAA
*
6068971 ATTAATTTTAAAATTA
1 ATTAATTTTAAAA-AA
*
6068987 ATTAAATTTAAAAAA
1 ATTAATTTTAAAAAA
6069002 TTTGTATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAATTTTAAAAAA
Found at i:6069447 original size:22 final size:21
Alignment explanation
Indices: 6069422--6069499 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 21
6069412 TAGTTTAAAA
* *
6069422 TTATTTTATTTTAAGATATGAT
1 TTATTTTATTTTAAAAT-TAAT
6069444 TTATTTTTATTTATAAAATTAAT
1 TTA-TTTTATTT-TAAAATTAAT
*
6069467 TTAATTTATTTTTATTAAATTAA-
1 TTATTTTA-TTTTA--AAATTAAT
6069490 TT-TTTTATTT
1 TTATTTTATTT
6069500 GATTATGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.06
22 13 0.28
23 19 0.40
24 12 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTATTTTATTTTAAAATTAAT
Found at i:6069505 original size:24 final size:23
Alignment explanation
Indices: 6069442--6069499 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
6069432 TTAAGATATG
6069442 ATTTATTT-TTATTTATAAAATTA
1 ATTTATTTATT-TTTATAAAATTA
*
6069465 ATTTAATTTATTTTTATTAAATTA
1 ATTT-ATTTATTTTTATAAAATTA
6069489 ATTT-TTTATTT
1 ATTTATTTATTT
6069500 GATTATGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.22
23 4 0.12
24 19 0.59
25 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTATTTATTTTTATAAAATTA
Found at i:6081186 original size:2 final size:2
Alignment explanation
Indices: 6081179--6081206 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6081169 GGGTGATTAT
6081179 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6081207 GAGTGAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6082930 original size:16 final size:17
Alignment explanation
Indices: 6082911--6082945 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6082901 ATTTTTTATT
6082911 ATTTAAAATA-TTATAA
1 ATTTAAAATATTTATAA
*
6082927 ATTTATAATATTTATAA
1 ATTTAAAATATTTATAA
6082944 AT
1 AT
6082946 ATTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAAAATATTTATAA
Found at i:6083818 original size:20 final size:22
Alignment explanation
Indices: 6083782--6083824 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
6083772 TTATTTTGTA
6083782 TTTATATTGTGTTTTAATTTAT
1 TTTATATTGTGTTTTAATTTAT
6083804 TTTATATT-T-TTTTAATTTAT
1 TTTATATTGTGTTTTAATTTAT
6083824 T
1 T
6083825 ATAATGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.57
21 1 0.05
22 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
TTTATATTGTGTTTTAATTTAT
Found at i:6083875 original size:17 final size:18
Alignment explanation
Indices: 6083853--6083890 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
6083843 CTTCAAATTG
*
6083853 AATTACATAAAAT-TTTA
1 AATTACAAAAAATATTTA
6083870 AATTACAAAAAATATTTA
1 AATTACAAAAAATATTTA
6083888 AAT
1 AAT
6083891 AAATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTACAAAAAATATTTA
Found at i:6083952 original size:22 final size:20
Alignment explanation
Indices: 6083906--6083952 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
6083896 ATAATTATTG
6083906 AATATAATTTAATTTAAATA
1 AATATAATTTAATTTAAATA
* *
6083926 TATATAATTATTAATTTAATTA
1 AATATAA-T-TTAATTTAAATA
6083948 AATAT
1 AATAT
6083953 TTATAAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 6 0.27
21 1 0.05
22 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATAATTTAATTTAAATA
Found at i:6083957 original size:26 final size:27
Alignment explanation
Indices: 6083910--6083965 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
6083900 TTATTGAATA
*
6083910 TAATTTAATTTAAATATATATAATTAT
1 TAATTTAATTTAAATATATATAAGTAT
*
6083937 TAATTTAA-TTAAATATTTATAAGTAT
1 TAATTTAATTTAAATATATATAAGTAT
6083963 TAA
1 TAA
6083966 AAATCTCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TAATTTAATTTAAATATATATAAGTAT
Found at i:6084025 original size:10 final size:10
Alignment explanation
Indices: 6084010--6084054 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
6084000 TAAAATGTTA
6084010 AATAAATTAT
1 AATAAATTAT
6084020 AATAAATTAAT
1 AATAAATT-AT
6084031 AATTAAATTAT
1 AA-TAAATTAT
*
6084042 -ATAAATTTT
1 AATAAATTAT
6084051 AATA
1 AATA
6084055 TATTTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
9 7 0.23
10 12 0.39
11 6 0.19
12 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATAAATTAT
Found at i:6084085 original size:26 final size:25
Alignment explanation
Indices: 6084057--6084110 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
6084047 TTTTAATATA
* *
6084057 TTTATATATTTATATTTTATTTATAAT
1 TTTATATA-TTAAATTATATTT-TAAT
*
6084084 TTTTTATATTAAATTATATTTTAAT
1 TTTATATATTAAATTATATTTTAAT
6084109 TT
1 TT
6084111 CTTTACGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 11 0.46
27 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTATATATTAAATTATATTTTAAT
Found at i:6085239 original size:2 final size:2
Alignment explanation
Indices: 6085232--6085264 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6085222 TGTGTATGCA
6085232 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6085265 ACCTATTCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6088622 original size:30 final size:30
Alignment explanation
Indices: 6088588--6088678 Score: 182
Period size: 30 Copynumber: 3.0 Consensus size: 30
6088578 ATGGGAAACT
6088588 ATCAAAAAACATGTCAACTTCTTAAAGCAA
1 ATCAAAAAACATGTCAACTTCTTAAAGCAA
6088618 ATCAAAAAACATGTCAACTTCTTAAAGCAA
1 ATCAAAAAACATGTCAACTTCTTAAAGCAA
6088648 ATCAAAAAACATGTCAACTTCTTAAAGCAA
1 ATCAAAAAACATGTCAACTTCTTAAAGCAA
6088678 A
1 A
6088679 CCTGGGTATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.23
Consensus pattern (30 bp):
ATCAAAAAACATGTCAACTTCTTAAAGCAA
Found at i:6092407 original size:1 final size:1
Alignment explanation
Indices: 6092401--6092430 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
6092391 ACGAATTCTG
6092401 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6092431 CTCTTTATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6093473 original size:211 final size:210
Alignment explanation
Indices: 6093360--6093796 Score: 693
Period size: 211 Copynumber: 2.1 Consensus size: 210
6093350 ATAAATTTAT
6093360 TTTAAAATTAATATATAATTAAATTAAAAATAAGTTTAAAGTATTTAATATACATTTGAATTAGA
1 TTTAAAATTAATATATAATTAAATTAAAAATAAGTTTAAAGTATTTAATATACATTTGAATTAGA
*
6093425 ATATAACTAAATAATAATTTAATTTAATAGTAATGAAAGATAATTTT--AAGATTAAATAAATCT
66 ATATAACTAAATAATAATTTAATTTAATAGTAATGAAAGATAATTTTAAAAGATAAAATAAATCT
* *
6093488 CATTATTTTATAATTTAAAATTTTTGAGTAAAAATGATGAAAATAATAATCAATAATTAAAAAAT
131 CATTATTTTATAATTT---ATTTTTCACTAAAAATGATGAAAATAATAATCAATAATTAAAAAAT
*
6093553 AATATATTTATTTTTACA
193 AATATATTTATATTTACA
6093571 TTTAAAATTAATATATAATTAAATTAAAAATAAGTTTAAAGTATTTAATATACATTTGAATTAGA
1 TTTAAAATTAATATATAATTAAATTAAAAATAAGTTTAAAGTATTTAATATACATTTGAATTAGA
*
6093636 ATATAACTAAATAATAATTTAATTTAATAGTAATGAAAGATAATTTT--AAGATTAAATAAATCT
66 ATATAACTAAATAATAATTTAATTTAATAGTAATGAAAGATAATTTTAAAAGATAAAATAAATCT
* *
6093699 CATTATTTTATAATTTAAAATTTTTGAGTAAAAATGATGAAAAATAATAATCAATAATTAAAAAA
131 CATTATTTTATAATTT---ATTTTTCACTAAAAATGATG-AAAATAATAATCAATAATTAAAAAA
*
6093764 TAATATATTTAGCTTTTTACA
192 TAATATATTTA--TATTTACA
6093785 TTTAAAATTAAT
1 TTTAAAATTAAT
6093797 TTAAAAATAA
Statistics
Matches: 223, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
211 167 0.75
212 36 0.16
214 20 0.09
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.41
Consensus pattern (210 bp):
TTTAAAATTAATATATAATTAAATTAAAAATAAGTTTAAAGTATTTAATATACATTTGAATTAGA
ATATAACTAAATAATAATTTAATTTAATAGTAATGAAAGATAATTTTAAAAGATAAAATAAATCT
CATTATTTTATAATTTATTTTTCACTAAAAATGATGAAAATAATAATCAATAATTAAAAAATAAT
ATATTTATATTTACA
Found at i:6094197 original size:11 final size:12
Alignment explanation
Indices: 6094181--6094212 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6094171 TCTTTTTATT
6094181 TTATAAATTT-A
1 TTATAAATTTAA
6094192 TTATAAATTTAA
1 TTATAAATTTAA
6094204 TT-TAAATTT
1 TTATAAATTT
6094213 TTAAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTATAAATTTAA
Found at i:6094488 original size:22 final size:22
Alignment explanation
Indices: 6094446--6094488 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6094436 AAGATTGTTA
* *
6094446 ATTGATTTGATAAATTGAATTC
1 ATTGATTTAATAAAATGAATTC
6094468 ATTGATTTAATCAAAAT-AATT
1 ATTGATTTAAT-AAAATGAATT
6094489 TAATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTGATTTAATAAAATGAATTC
Found at i:6094705 original size:20 final size:20
Alignment explanation
Indices: 6094649--6094706 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
6094639 ATACTCAAAA
* *
6094649 TAATTTTTACTA-ATTTTATT
1 TAATTTTTA-TATATTTAAAT
6094669 TAATTTTTAT-TGA-TTAAAT
1 TAATTTTTATAT-ATTTAAAT
6094688 TAATTTTTATATATTTAAA
1 TAATTTTTATATATTTAAA
6094707 AAATTATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TAATTTTTATATATTTAAAT
Found at i:6095369 original size:16 final size:16
Alignment explanation
Indices: 6095350--6095415 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 16
6095340 ATAAATGTAT
*
6095350 ATAATATAAAATATTA
1 ATAATATAATATATTA
*
6095366 ATAAATTATAATTATATAA
1 AT-AA-TATAA-TATATTA
6095385 AT-ATATAATATATT-
1 ATAATATAATATATTA
6095399 A-AATATAAT-TA-TA
1 ATAATATAATATATTA
6095412 ATAA
1 ATAA
6095416 AAAAATAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
12 1 0.02
13 3 0.07
14 10 0.24
15 5 0.12
16 7 0.17
17 3 0.07
18 5 0.12
19 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATATAATATATTA
Found at i:6095370 original size:26 final size:26
Alignment explanation
Indices: 6095340--6095399 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
6095330 AACGAACAAT
6095340 ATAAATGTATATAATATA-AAATAT-TA
1 ATAAAT-TATA-AATATATAAATATATA
*
6095366 ATAAATTATAATTATATAAATATATA
1 ATAAATTATAAATATATAAATATATA
*
6095392 ATATATTA
1 ATAAATTA
6095400 AATATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 10 0.33
26 15 0.50
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
ATAAATTATAAATATATAAATATATA
Found at i:6095383 original size:8 final size:7
Alignment explanation
Indices: 6095347--6095414 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 7
6095337 AATATAAATG
6095347 TATATAA
1 TATATAA
*
6095354 TATAAAA
1 TATATAA
6095361 TAT-TAA
1 TATATAA
* *
6095367 TAAATTA
1 TATATAA
*
6095374 TA-ATTA
1 TATATAA
6095380 TATA-AA
1 TATATAA
6095386 TATATAA
1 TATATAA
6095393 TATATTAA
1 TATA-TAA
6095401 -ATATAA
1 TATATAA
6095407 T-TATAA
1 TATATAA
6095413 TA
1 TA
6095415 AAAAAATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
6 24 0.48
7 23 0.46
8 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:6096041 original size:11 final size:11
Alignment explanation
Indices: 6096020--6096091 Score: 69
Period size: 11 Copynumber: 6.5 Consensus size: 11
6096010 TATTAATTTA
6096020 TATATTCAT-AT
1 TATATT-ATAAT
6096031 TATAATTATATAT
1 TAT-ATTATA-AT
6096044 TATATTAT-AT
1 TATATTATAAT
6096054 TATATTATAAT
1 TATATTATAAT
6096065 TATATT-TAAAT
1 TATATTAT-AAT
* *
6096076 TATTTTATATT
1 TATATTATAAT
6096087 TATAT
1 TATAT
6096092 AAATTTTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
10 11 0.21
11 27 0.52
12 9 0.17
13 5 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATTATAAT
Found at i:6096049 original size:5 final size:5
Alignment explanation
Indices: 6096020--6096091 Score: 67
Period size: 5 Copynumber: 14.0 Consensus size: 5
6096010 TATTAATTTA
*
6096020 TATAT TCATAT TATAA T-TA- TATAT TATAT TATAT TATAT TATAAT TATATT
1 TATAT T-ATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT-AT TATA-T
* *
6096071 TAAAT TATTT TATATT TATAT
1 TATAT TATAT TATA-T TATAT
6096092 AAATTTTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
3 1 0.02
4 4 0.07
5 32 0.57
6 19 0.34
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:6096584 original size:11 final size:11
Alignment explanation
Indices: 6096570--6096595 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6096560 ATTGATTAAG
6096570 ACATGATATAA
1 ACATGATATAA
6096581 ACATGATATAA
1 ACATGATATAA
6096592 ACAT
1 ACAT
6096596 AATTTTTTTC
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:0.54, C:0.12, G:0.08, T:0.27
Consensus pattern (11 bp):
ACATGATATAA
Found at i:6097171 original size:24 final size:23
Alignment explanation
Indices: 6097096--6097185 Score: 71
Period size: 24 Copynumber: 3.8 Consensus size: 23
6097086 AAAATTTTCA
*
6097096 TCTT-TTTCTCTTTCTTTTTCCCTT
1 TCTTCTTTCTTTTTC-TTTT-CCTT
*
6097120 TCAT-TTTCTTTTT-TTTTCCTAT
1 TCTTCTTTCTTTTTCTTTTCCT-T
6097142 GT-TTCTTTCTTTTTTCTTTTCCTT
1 -TCTTCTTTC-TTTTTCTTTTCCTT
*
6097166 TCTTCTCTTCTCTTTCTTTT
1 TCTTCT-TTCTTTTTCTTTT
6097186 TTTTATTCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
21 3 0.05
22 6 0.11
23 6 0.11
24 30 0.55
25 10 0.18
ACGTcount: A:0.02, C:0.24, G:0.01, T:0.72
Consensus pattern (23 bp):
TCTTCTTTCTTTTTCTTTTCCTT
Found at i:6098705 original size:18 final size:17
Alignment explanation
Indices: 6098664--6098706 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6098654 AATTTTTGTG
*
6098664 ATTATTTTTGTAATTTT
1 ATTATTTTTGAAATTTT
*
6098681 AGATATTTTTGAAATATTT
1 A-TTATTTTTGAAAT-TTT
6098700 ATTATTT
1 ATTATTT
6098707 AATAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 16 0.76
19 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
ATTATTTTTGAAATTTT
Found at i:6099363 original size:13 final size:13
Alignment explanation
Indices: 6099347--6099371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6099337 TTAGTAGTTA
6099347 TTTAAAATAATTT
1 TTTAAAATAATTT
6099360 TTTAAAATAATT
1 TTTAAAATAATT
6099372 ACATACAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAAAATAATTT
Found at i:6103285 original size:157 final size:157
Alignment explanation
Indices: 6102999--6103309 Score: 541
Period size: 157 Copynumber: 2.0 Consensus size: 157
6102989 CTAAATTTAC
6102999 ATTTTAAAAGTCAATTACAAATATGTATTTATACTTTAATATATTATGCAATTATTATTTCTATT
1 ATTTTAAAAGTCAATTACAAATATGTATTTATACTTTAATATATTATGCAATTATTATTTCTATT
* *
6103064 TAATATTGATGTCTGATAATTTAGATGATATTTGATATAAAATAATATTTGTTTATAGGTTTATT
66 TAATATTGATGTCTGATAATTTAAATAATATTTGATATAAAATAATATTTGTTTATAGGTTTATT
6103129 AAATAAAATGAGCAATAGATTGATCGT
131 AAATAAAATGAGCAATAGATTGATCGT
* * * *
6103156 ATTTTAAAAGTCGATTACAAATATTTATTTATATTTTAATATATTATGCAGTTATTATTTCTATT
1 ATTTTAAAAGTCAATTACAAATATGTATTTATACTTTAATATATTATGCAATTATTATTTCTATT
* *
6103221 TTATATTGATGTCTGATAATTTAAATAATATTTGATATAAAATAGTATTTGTTTATAGGTTTATT
66 TAATATTGATGTCTGATAATTTAAATAATATTTGATATAAAATAATATTTGTTTATAGGTTTATT
*
6103286 AAATAAAATGAGTAATAGATTGAT
131 AAATAAAATGAGCAATAGATTGAT
6103310 TACATTGTCT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 145 1.00
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.47
Consensus pattern (157 bp):
ATTTTAAAAGTCAATTACAAATATGTATTTATACTTTAATATATTATGCAATTATTATTTCTATT
TAATATTGATGTCTGATAATTTAAATAATATTTGATATAAAATAATATTTGTTTATAGGTTTATT
AAATAAAATGAGCAATAGATTGATCGT
Found at i:6109554 original size:2 final size:2
Alignment explanation
Indices: 6109547--6109582 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6109537 TAAACTTGAT
6109547 TA TA TA TA TA 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 TA TA TA TA TA
6109583 AAAGATAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6110220 original size:18 final size:18
Alignment explanation
Indices: 6110174--6110220 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
6110164 TAGCATAAAA
* *
6110174 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTATTAC
6110192 ATAAAATTAATTTATTAC
1 ATAAAATTAATTTATTAC
6110210 A-AAAATATAAT
1 ATAAAAT-TAAT
6110221 ATTTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAAAATTAATTTATTAC
Found at i:6110613 original size:15 final size:16
Alignment explanation
Indices: 6110582--6110615 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6110572 GAAATGACTA
*
6110582 ATAATTTATAGATATG
1 ATAATTTATAAATATG
6110598 ATAATTT-TAAATATG
1 ATAATTTATAAATATG
6110613 ATA
1 ATA
6110616 CGATTATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
ATAATTTATAAATATG
Found at i:6116095 original size:199 final size:199
Alignment explanation
Indices: 6115755--6116145 Score: 782
Period size: 199 Copynumber: 2.0 Consensus size: 199
6115745 TGTGGAAATT
6115755 AACTCCAACTACATTTAAGAAAAAATTGAATAAACTTAATTTGTAATTTTGGAAAAAAATGAAGA
1 AACTCCAACTACATTTAAGAAAAAATTGAATAAACTTAATTTGTAATTTTGGAAAAAAATGAAGA
6115820 ATTTATTAAATATGCAAAATTATATGATAAACAACTAAATCCACAGTTATAAGATATAATGCCAA
66 ATTTATTAAATATGCAAAATTATATGATAAACAACTAAATCCACAGTTATAAGATATAATGCCAA
6115885 TTTATGTTGTGTTATGTGTTATTTGGAGGAAATGTTCATGTAAGCAGTTATGTGTATAAAAAATG
131 TTTATGTTGTGTTATGTGTTATTTGGAGGAAATGTTCATGTAAGCAGTTATGTGTATAAAAAATG
6115950 AATA
196 AATA
6115954 AACTCCAACTACATTTAAGAAAAAATTGAATAAACTTAATTTGTAATTTTGGAAAAAAATGAAGA
1 AACTCCAACTACATTTAAGAAAAAATTGAATAAACTTAATTTGTAATTTTGGAAAAAAATGAAGA
6116019 ATTTATTAAATATGCAAAATTATATGATAAACAACTAAATCCACAGTTATAAGATATAATGCCAA
66 ATTTATTAAATATGCAAAATTATATGATAAACAACTAAATCCACAGTTATAAGATATAATGCCAA
6116084 TTTATGTTGTGTTATGTGTTATTTGGAGGAAATGTTCATGTAAGCAGTTATGTGTATAAAAA
131 TTTATGTTGTGTTATGTGTTATTTGGAGGAAATGTTCATGTAAGCAGTTATGTGTATAAAAA
6116146 TTTATCAAAT
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
199 192 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (199 bp):
AACTCCAACTACATTTAAGAAAAAATTGAATAAACTTAATTTGTAATTTTGGAAAAAAATGAAGA
ATTTATTAAATATGCAAAATTATATGATAAACAACTAAATCCACAGTTATAAGATATAATGCCAA
TTTATGTTGTGTTATGTGTTATTTGGAGGAAATGTTCATGTAAGCAGTTATGTGTATAAAAAATG
AATA
Found at i:6116969 original size:15 final size:15
Alignment explanation
Indices: 6116949--6116978 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6116939 AGATTGAAAT
6116949 CGAAAAACATAATAA
1 CGAAAAACATAATAA
*
6116964 CGAAAAAGATAATAA
1 CGAAAAACATAATAA
6116979 TATTTTCGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (15 bp):
CGAAAAACATAATAA
Found at i:6117881 original size:13 final size:13
Alignment explanation
Indices: 6117863--6117888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6117853 TACACAAAGT
6117863 ATGTATCGATACA
1 ATGTATCGATACA
6117876 ATGTATCGATACA
1 ATGTATCGATACA
6117889 CAAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6117886 original size:32 final size:32
Alignment explanation
Indices: 6117845--6117907 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
6117835 TAGCCAAACT
*
6117845 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAT-TGTATCGATACAA
6117877 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
6117908 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:6118409 original size:34 final size:35
Alignment explanation
Indices: 6118346--6118412 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
6118336 CTAAGTGATT
6118346 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
6118382 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
6118413 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:6119056 original size:20 final size:21
Alignment explanation
Indices: 6119031--6119074 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
6119021 GGTCAAAAAA
6119031 CAAAATAAAAAGCC-ATACAT
1 CAAAATAAAAAGCCTATACAT
* *
6119051 CAAAATAAAATGCCTATGCAT
1 CAAAATAAAAAGCCTATACAT
6119072 CAA
1 CAA
6119075 TTCAATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.55, C:0.20, G:0.07, T:0.18
Consensus pattern (21 bp):
CAAAATAAAAAGCCTATACAT
Found at i:6125042 original size:20 final size:20
Alignment explanation
Indices: 6124977--6125052 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 20
6124967 GCCAAGAAAA
* * *
6124977 TGTATCGATATATTACTAAA
1 TGTATCGATACATTTCTAAT
6124997 TGTATCGATACATGCTTAC-AAT
1 TGTATCGATACAT--TT-CTAAT
*
6125019 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCTAAT
6125039 TGTAGT-GATACATT
1 TGTA-TCGATACATT
6125053 ATGGGCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
19 1 0.02
20 28 0.60
21 1 0.02
22 16 0.34
23 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTCTAAT
Found at i:6131135 original size:34 final size:34
Alignment explanation
Indices: 6131097--6131346 Score: 140
Period size: 34 Copynumber: 7.4 Consensus size: 34
6131087 CATAACTCCA
6131097 TGGCACATTTTTCTTTTCAAAGCCTACAACTCTG
1 TGGCACATTTTTCTTTTCAAAGCCTACAACTCTG
* * * **
6131131 TGGCACTCTTTTTCCATTT--AAGTCTACAACTCCA
1 TGGCAC-ATTTTT-CTTTTCAAAGCCTACAACTCTG
* * * *
6131165 TGGCACATTTTTCTCTTCAAAACCTACAATTTTG
1 TGGCACATTTTTCTTTTCAAAGCCTACAACTCTG
* * * *
6131199 TGGCACCGTTTTCCTTTT-TAAGTCC-ACAATTCTG
1 TGGCA-CATTTTTCTTTTCAAAG-CCTACAACTCTG
* * *
6131233 TGACACCTTTTTCTCTTCAAAG-CTCACAACTCTG
1 TGGCACATTTTTCTTTTCAAAGCCT-ACAACTCTG
* ** *
6131267 TGGTAC-TTTTT-TTCCTTGTAAGTCTACAACT-TCG
1 TGGCACATTTTTCTT--TTCAAAGCCTACAACTCT-G
* * * *
6131301 TGGCACCTTTTTCTTTTCAAAAACC-ATAACTTTG
1 TGGCACATTTTTCTTTTC-AAAGCCTACAACTCTG
6131335 TGGCACATTTTT
1 TGGCACATTTTT
6131347 TCCTTCTAAG
Statistics
Matches: 161, Mismatches: 38, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
32 5 0.03
33 20 0.12
34 103 0.64
35 27 0.17
36 6 0.04
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (34 bp):
TGGCACATTTTTCTTTTCAAAGCCTACAACTCTG
Found at i:6131153 original size:68 final size:67
Alignment explanation
Indices: 6131077--6131374 Score: 280
Period size: 68 Copynumber: 4.4 Consensus size: 67
6131067 TAGTGACACC
* * *
6131077 CCTTTAAGTCCATAACTCCATGGCACATTTTTCTTTTCAAAGCCTACAACTCTGTGGCACTCTTT
1 CCTTTAAGTCCACAACTCCATGGCACATTTTTCTCTTCAAAACCTACAACTCTGTGGCACTCTTT
6131142 TT
66 TT
* * * *
6131144 CCATTTAAGTCTACAACTCCATGGCACATTTTTCTCTTCAAAACCTACAATTTTGTGGCAC-CGT
1 CC-TTTAAGTCCACAACTCCATGGCACATTTTTCTCTTCAAAACCTACAACTCTGTGGCACTCTT
6131208 TTT
65 TTT
* ** * * * * *
6131211 CCTTTTTAAGTCCACAATTCTGTGACACCTTTTTCTCTTC-AAAGCTCACAACTCTGTGGTACTT
1 CC--TTTAAGTCCACAACTCCATGGCACATTTTTCTCTTCAAAACCT-ACAACTCTGTGGCACTC
6131275 TTTTT
63 TTTTT
* * * * * * *
6131280 CCTTGTAAGTCTACAACTTCGTGGCACCTTTTTCTTTTCAAAAACC-ATAACTTTGTGGCACAT-
1 CCTT-TAAGTCCACAACTCCATGGCACATTTTTCTCTTC-AAAACCTACAACTCTGTGGCAC-TC
6131343 TTTTT
63 TTTTT
* *
6131348 CCTTCTAAGTTCACAACTTCATGGCAC
1 CCTT-TAAGTCCACAACTCCATGGCAC
6131375 CCTTTTAAGT
Statistics
Matches: 189, Mismatches: 34, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
67 16 0.08
68 162 0.86
69 7 0.04
70 4 0.02
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (67 bp):
CCTTTAAGTCCACAACTCCATGGCACATTTTTCTCTTCAAAACCTACAACTCTGTGGCACTCTTT
TT
Found at i:6131357 original size:136 final size:136
Alignment explanation
Indices: 6131104--6131363 Score: 339
Period size: 136 Copynumber: 1.9 Consensus size: 136
6131094 CCATGGCACA
*
6131104 TTTTTCTTTTCAAAGCCTACAACTCTGTGGCACTCTTTTTCCATTTAAGTCTACAACTCCATGGC
1 TTTTTCTCTTCAAAGCCTACAACTCTGTGGCACTCTTTTTCCATTTAAGTCTACAACTCCATGGC
* *
6131169 ACATTTTTCTCTTCAAAACCTACAATTTTGTGGCACCGTTTTCCTTTTTAAGTCCACAATTCTGT
66 ACATTTTTCTCTTCAAAACCTACAACTTTGTGGCACCGTTTTCCTTTCTAAGTCCACAATTCTGT
6131234 GACACC
131 GACACC
* * * *
6131240 TTTTTCTCTTCAAAG-CTCACAACTCTGTGGTACTTTTTTTCC-TTGTAAGTCTACAACTTCGTG
1 TTTTTCTCTTCAAAGCCT-ACAACTCTGTGGCACTCTTTTTCCATT-TAAGTCTACAACTCCATG
* * * ** *
6131303 GCACCTTTTTCTTTTCAAAAACC-ATAACTTTGTGGCACATTTTTTCC-TTCTAAGTTCACAA
64 GCACATTTTTCTCTTC-AAAACCTACAACTTTGTGGCAC-CGTTTTCCTTTCTAAGTCCACAA
6131364 CTTCATGGCA
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
135 4 0.04
136 91 0.85
137 12 0.11
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (136 bp):
TTTTTCTCTTCAAAGCCTACAACTCTGTGGCACTCTTTTTCCATTTAAGTCTACAACTCCATGGC
ACATTTTTCTCTTCAAAACCTACAACTTTGTGGCACCGTTTTCCTTTCTAAGTCCACAATTCTGT
GACACC
Found at i:6131401 original size:27 final size:27
Alignment explanation
Indices: 6131348--6131401 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6131338 CACATTTTTT
* *
6131348 CCTTCTAAGTTCACAACTTCATGGCAC
1 CCTTCTAAGTCCACAACTTCATAGCAC
* * *
6131375 CCTTTTAAGTCCATAACTTGATAGCAC
1 CCTTCTAAGTCCACAACTTCATAGCAC
6131402 TATTTCTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (27 bp):
CCTTCTAAGTCCACAACTTCATAGCAC
Found at i:6131484 original size:31 final size:32
Alignment explanation
Indices: 6131404--6131491 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 32
6131394 GATAGCACTA
* *
6131404 TTTCTAAAGCCTGCACAAGTTGGTGGTAACCC
1 TTTCTAAAGCCTACACAAGCTGGTGGTAACCC
6131436 TTT-TAAAGTCC-ACACAAGCTGGTGGTAA-CC
1 TTTCTAAAG-CCTACACAAGCTGGTGGTAACCC
* *
6131466 TTTCTAAAGCCTATACAAGCCGGTGG
1 TTTCTAAAGCCTACACAAGCTGGTGG
6131492 CCACCCCCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
30 7 0.14
31 37 0.76
32 5 0.10
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (32 bp):
TTTCTAAAGCCTACACAAGCTGGTGGTAACCC
Found at i:6131557 original size:32 final size:32
Alignment explanation
Indices: 6131487--6131557 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
6131477 TATACAAGCC
* *
6131487 GGTGGCCACCCCCTTCAAAAGCCACACAAGTT
1 GGTGGCAACCCCCTTCAAAAGCCACACAAATT
**
6131519 ACTGGCAACCCCCTT-AAAAGTCCACACAAATT
1 GGTGGCAACCCCCTTCAAAAG-CCACACAAATT
6131551 GGTGGCA
1 GGTGGCA
6131558 TATCTTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (32 bp):
GGTGGCAACCCCCTTCAAAAGCCACACAAATT
Found at i:6131639 original size:52 final size:52
Alignment explanation
Indices: 6131564--6132074 Score: 570
Period size: 52 Copynumber: 9.9 Consensus size: 52
6131554 GGCATATCTT
* * *
6131564 TTTAAGTCCAATATCCCTGGCCTTAAATCAGCATATTGGCACCTTTACCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* * * * *
6131616 TTTAAGTCCAATGTCGCTAGCCTTAAATTAGCACATTGGCA-CTTT-T--T-
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* *
6131663 TTTAAGT-CAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTACCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* * * * * * *
6131714 TTTAAGTCCAATGTCGTTGGCTTTGAATCAGCACATTGGCACTTTTTTC-TT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* ** * * *
6131765 TCTTAAGTCCAATATCGTTAACCTTGAATTAGCATATTGGCACATTTGTCATC
1 T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* * * * * **
6131818 TTTAAGTCCAATATCGTTAGCCTTGAATCAACACATTGGCACCTTCTTTTTTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCATC
* * * *
6131871 -TTAAGTCTAATATCGCTGGCCTTAAATCAGCATATTGGCACATTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* *
6131922 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* * * * *
6131974 TTTAAGTCCAATGTTGCTTGCCTTAAATCAGCATATTGGCACCTTTATCATT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
*
6132026 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
6132075 GTTATTCTCA
Statistics
Matches: 382, Mismatches: 67, Indels: 20
0.81 0.14 0.04
Matches are distributed among these distances:
46 27 0.07
47 11 0.03
48 1 0.00
50 1 0.00
51 17 0.04
52 319 0.84
53 6 0.02
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (52 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
Found at i:6133103 original size:20 final size:20
Alignment explanation
Indices: 6133067--6133104 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6133057 TAGATCCAAA
*
6133067 TTAATTAGGCTTAATTTATT
1 TTAATTAGACTTAATTTATT
6133087 TTAATTTAGACTT-ATTTA
1 TTAA-TTAGACTTAATTTA
6133105 AAAAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (20 bp):
TTAATTAGACTTAATTTATT
Found at i:6138644 original size:27 final size:27
Alignment explanation
Indices: 6138614--6138688 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
6138604 CCTTCATAAG
6138614 GGATACTCTAACCCCATTTTTCCGAGA
1 GGATACTCTAACCCCATTTTTCCGAGA
* * **
6138641 GGATACTCCAACCTCATTTTTTTGAGA
1 GGATACTCTAACCCCATTTTTCCGAGA
*
6138668 AGATACTCTAACCCCATTTTT
1 GGATACTCTAACCCCATTTTT
6138689 AAAACTTAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (27 bp):
GGATACTCTAACCCCATTTTTCCGAGA
Found at i:6141336 original size:18 final size:18
Alignment explanation
Indices: 6141315--6141349 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6141305 TTGTTCTCTC
*
6141315 TTTTTTT-TTTTTATTTG
1 TTTTTTTGTTTTTTTTTG
6141332 TTTTTTTGTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTG
6141350 GAAGGGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.89
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTTTG
Found at i:6142877 original size:21 final size:21
Alignment explanation
Indices: 6142842--6142892 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
6142832 AAATCAAATC
*
6142842 AAAATCAAAAGTAATAATTACAA
1 AAAAT-AAAAGTAATAAATA-AA
6142865 AAAATAAAA-TAATAAATAAA
1 AAAATAAAAGTAATAAATAAA
*
6142885 AATATAAA
1 AAAATAAA
6142893 CAAAAGATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 8 0.31
22 4 0.15
23 5 0.19
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAATAAAAGTAATAAATAAA
Found at i:6143873 original size:10 final size:10
Alignment explanation
Indices: 6143835--6143879 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
6143825 GTTTCACCGA
*
6143835 ATGA-TTTTC
1 ATGATTTTTT
6143844 ATGATTTTTT
1 ATGATTTTTT
*
6143854 ATGTAGTTTTT
1 ATG-ATTTTTT
6143865 ATGATTTTTT
1 ATGATTTTTT
6143875 ATGAT
1 ATGAT
6143880 ATGTTTGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 4 0.13
10 18 0.58
11 9 0.29
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.62
Consensus pattern (10 bp):
ATGATTTTTT
Found at i:6152104 original size:14 final size:14
Alignment explanation
Indices: 6152087--6152136 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
6152077 TAAGATATAC
6152087 TTTATAAATATTAT
1 TTTATAAATATTAT
* *
6152101 TTTACATAT-TGTAT
1 TTTATAAATAT-TAT
6152115 TTTA-AAATATTAT
1 TTTATAAATATTAT
6152128 TTTAATAAA
1 TTT-ATAAA
6152137 ATTTATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 10 0.34
14 16 0.55
15 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTATAAATATTAT
Found at i:6152715 original size:18 final size:18
Alignment explanation
Indices: 6152688--6152727 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6152678 TATTAATAAA
* * *
6152688 TTAATTTTAATTTGTATT
1 TTAATGTTAATTAGCATT
6152706 TTAATGTTAATTAGCATT
1 TTAATGTTAATTAGCATT
6152724 TTAA
1 TTAA
6152728 ATCTTGATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (18 bp):
TTAATGTTAATTAGCATT
Found at i:6152972 original size:24 final size:24
Alignment explanation
Indices: 6152917--6152974 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
6152907 TAACTAATTT
*
6152917 AAATATAAATAGCAAAATTTTAAA
1 AAATAAAAATAGCAAAATTTTAAA
* * *
6152941 AAAAAAAAAGTAG-AAATTTTTAAG
1 AAATAAAAA-TAGCAAAATTTTAAA
6152965 AAATAAAAAT
1 AAATAAAAAT
6152975 GAATGAGGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.04
24 24 0.86
25 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (24 bp):
AAATAAAAATAGCAAAATTTTAAA
Found at i:6153705 original size:32 final size:33
Alignment explanation
Indices: 6153632--6153709 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
6153622 TTAATATTGA
6153632 TCATAAATTTGATAAATTATAATTAAATAATTAC
1 TCATAAATTTGATAAATTATAA-TAAATAATTAC
*
6153666 TCATAAATTTGATAAA-TATTAA-ATATAATTAC
1 TCATAAATTTGATAAATTA-TAATAAATAATTAC
**
6153698 TTGTAAATTTGA
1 TCATAAATTTGA
6153710 CAATCATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 19 0.47
33 2 0.05
34 19 0.47
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (33 bp):
TCATAAATTTGATAAATTATAATAAATAATTAC
Found at i:6153720 original size:32 final size:32
Alignment explanation
Indices: 6153632--6153709 Score: 95
Period size: 34 Copynumber: 2.4 Consensus size: 32
6153622 TTAATATTGA
*
6153632 TCATAAATTTGATAAAT-TATAATTAAATAATTAC
1 TCATAAATTTGATAAATAT-TAA--ATATAATTAC
6153666 TCATAAATTTGATAAATATTAAATATAATTAC
1 TCATAAATTTGATAAATATTAAATATAATTAC
**
6153698 TTGTAAATTTGA
1 TCATAAATTTGA
6153710 CAATCATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 19 0.47
34 20 0.50
35 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (32 bp):
TCATAAATTTGATAAATATTAAATATAATTAC
Found at i:6155304 original size:30 final size:30
Alignment explanation
Indices: 6155270--6155374 Score: 115
Period size: 30 Copynumber: 3.6 Consensus size: 30
6155260 AAAAAAATAG
**
6155270 TTTATTTAAATATAAATCAAATTATAAGAA
1 TTTATTTAAATATAAATCAAAGAATAAGAA
6155300 TTTATTTAAATATAAATCAAAGAATAAGAA
1 TTTATTTAAATATAAATCAAAGAATAAGAA
* * * * *
6155330 TTTATTAAAATGT-AATAAAAGCATAAAAA
1 TTTATTTAAATATAAATCAAAGAATAAGAA
* *
6155359 CTTATCTAAATA-AAAT
1 TTTATTTAAATATAAAT
6155375 AGTAAGATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 24 0.38
30 39 0.62
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (30 bp):
TTTATTTAAATATAAATCAAAGAATAAGAA
Found at i:6156530 original size:2 final size:2
Alignment explanation
Indices: 6156523--6156548 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6156513 ATTTTTATCC
6156523 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
6156549 GCGTTATATG
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:6157299 original size:18 final size:18
Alignment explanation
Indices: 6157231--6157299 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
6157221 ACATGATTTG
*
6157231 TTAAAGTAATATTATTACAT
1 TTAAATTAA-ATT-TTACAT
* * *
6157251 ATCAATTAAATTTTA-AA
1 TTAAATTAAATTTTACAT
*
6157268 TT-ATTTATAATTTTACAT
1 TTAAATTA-AATTTTACAT
6157286 TTAAATTAAATTTT
1 TTAAATTAAATTTT
6157300 TTAATATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
16 4 0.11
17 9 0.24
18 12 0.32
19 7 0.18
20 6 0.16
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (18 bp):
TTAAATTAAATTTTACAT
Found at i:6158698 original size:21 final size:21
Alignment explanation
Indices: 6158672--6158713 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6158662 TATTGAATAA
6158672 AATTTCTTATCAAGTAAGTAG
1 AATTTCTTATCAAGTAAGTAG
6158693 AATTTCTTATCAAGTAAGTAG
1 AATTTCTTATCAAGTAAGTAG
6158714 TATGTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
AATTTCTTATCAAGTAAGTAG
Found at i:6159987 original size:24 final size:25
Alignment explanation
Indices: 6159954--6160006 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
6159944 TTATCATCTT
* *
6159954 TATAATTTAA-TTAATAAATTATAA
1 TATAAGTTAATTTAATAAATAATAA
*
6159978 TATAAGTTAATTTTATAAATAATAA
1 TATAAGTTAATTTAATAAATAATAA
6160003 -ATAA
1 TATAA
6160007 TTTATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
TATAAGTTAATTTAATAAATAATAA
Found at i:6161121 original size:11 final size:11
Alignment explanation
Indices: 6161107--6161158 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
6161097 AAAATTATTT
6161107 TTTAATTTAAA
1 TTTAATTTAAA
*
6161118 TTTAAATTAAA
1 TTTAATTTAAA
*
6161129 -TTAAATTAAA
1 TTTAATTTAAA
**
6161139 AATAATTTAAA
1 TTTAATTTAAA
6161150 TTT-ATTTAA
1 TTTAATTTAA
6161159 TTATTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 16 0.46
11 19 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:6161127 original size:16 final size:16
Alignment explanation
Indices: 6161108--6161153 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
6161098 AAATTATTTT
6161108 TTAATTTAAATTTAAA
1 TTAATTTAAATTTAAA
* *
6161124 TTAAATTAAATTAAAA
1 TTAATTTAAATTTAAA
*
6161140 ATAATTTAAATTTA
1 TTAATTTAAATTTA
6161154 TTTAATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAATTTAAATTTAAA
Found at i:6161190 original size:28 final size:28
Alignment explanation
Indices: 6161128--6161195 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 28
6161118 TTTAAATTAA
* *
6161128 ATTAAATTAAAAATAATTTAAATTTATTT
1 ATTATATT-AAAATAATTTAAAATTATTT
6161157 AATTAT-TTAAAATAATATTAAAAATTATTT
1 -ATTATATTAAAATAAT-TT-AAAATTATTT
6161187 -TTATATTAA
1 ATTATATTAA
6161196 TATTTATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 12 0.36
29 8 0.24
30 13 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTATATTAAAATAATTTAAAATTATTT
Found at i:6161236 original size:35 final size:36
Alignment explanation
Indices: 6161196--6161290 Score: 97
Period size: 35 Copynumber: 2.7 Consensus size: 36
6161186 TTTATATTAA
6161196 TATTTATAATTAAATTTAAATA-AAAATATTTTTAT
1 TATTTATAATTAAATTTAAATATAAAATATTTTTAT
* * * * *
6161231 TATTTAAAAATAAATTTAATTATTAAATTTTTTTAT
1 TATTTATAATTAAATTTAAATATAAAATATTTTTAT
* * *
6161267 AATTT-TAATTTAATATAAAT-TAAA
1 TATTTATAATTAAATTTAAATATAAA
6161291 TTCGTTCAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
34 3 0.06
35 29 0.62
36 15 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TATTTATAATTAAATTTAAATATAAAATATTTTTAT
Found at i:6161248 original size:19 final size:20
Alignment explanation
Indices: 6161216--6161254 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6161206 TAAATTTAAA
* *
6161216 TAAAAAT-ATTTTTATTATT
1 TAAAAATAAATTTAATTATT
6161235 TAAAAATAAATTTAATTATT
1 TAAAAATAAATTTAATTATT
6161255 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAAAATAAATTTAATTATT
Found at i:6161260 original size:25 final size:25
Alignment explanation
Indices: 6161194--6161260 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 25
6161184 TTTTTATATT
*
6161194 AATATTTATAATTAAATTTAAATAAA
1 AATA-TTATTATTAAATTTAAATAAA
*
6161220 AATATTTTTATT--ATTTAAA-AATA
1 AATATTATTATTAAATTTAAATAA-A
6161243 AAT-TTAATTATTAAATTT
1 AATATT-ATTATTAAATTT
6161261 TTTTATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 4 0.12
23 16 0.47
25 10 0.29
26 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATATTATTATTAAATTTAAATAAA
Found at i:6161456 original size:12 final size:13
Alignment explanation
Indices: 6161434--6161462 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6161424 AAACCGCGCG
6161434 TTTATTTTTTATT
1 TTTATTTTTTATT
6161447 TTTA-TTTTTATT
1 TTTATTTTTTATT
6161459 TTTA
1 TTTA
6161463 CTACGGAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:6161594 original size:20 final size:22
Alignment explanation
Indices: 6161558--6161597 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
6161548 TATATATTTC
6161558 TAAAAATTTATTAAATTTATTA
1 TAAAAATTTATTAAATTTATTA
6161580 TAAAAA-TTA-TAAATTTAT
1 TAAAAATTTATTAAATTTAT
6161598 GAATGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAAAATTTATTAAATTTATTA
Found at i:6161743 original size:18 final size:18
Alignment explanation
Indices: 6161720--6161756 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6161710 TATTAAAAAT
6161720 TTTTATTAA-ATAAATTTA
1 TTTTATTAATA-AAATTTA
6161738 TTTTATTAATAAAATTTA
1 TTTTATTAATAAAATTTA
6161756 T
1 T
6161757 CTATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTATTAATAAAATTTA
Found at i:6162232 original size:23 final size:24
Alignment explanation
Indices: 6162204--6162301 Score: 69
Period size: 23 Copynumber: 4.2 Consensus size: 24
6162194 ATTTTTAAAA
6162204 TTTAAATAATATTTTAT-TATTTT
1 TTTAAATAATATTTTATATATTTT
* * **
6162227 TTTAAATATTA-TTTATAAATTAC
1 TTTAAATAATATTTTATATATTTT
* * *
6162250 TTTAAATAAAAGTTAATATAGTTTT
1 TTTAAATAATATTTTATATA-TTTT
* *
6162275 TATTAATTAA-ATTTT-TTTATTTT
1 T-TTAAATAATATTTTATATATTTT
6162298 TTTA
1 TTTA
6162302 TTTTTTATTT
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
22 8 0.14
23 27 0.47
24 9 0.16
25 6 0.11
26 7 0.12
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTAAATAATATTTTATATATTTT
Found at i:6163742 original size:2 final size:2
Alignment explanation
Indices: 6163737--6163763 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6163727 TTTCTCATTT
6163737 TC 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 TC T
6163764 TATTACCCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6171018 original size:13 final size:13
Alignment explanation
Indices: 6171000--6171025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6170990 CAATTTTTTG
6171000 TGTATCGATACAT
1 TGTATCGATACAT
6171013 TGTATCGATACAT
1 TGTATCGATACAT
6171026 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6171022 original size:33 final size:33
Alignment explanation
Indices: 6170980--6171044 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
6170970 TACAAGCCAA
* *
6170980 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
6171013 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
6171045 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:6172216 original size:93 final size:93
Alignment explanation
Indices: 6172043--6172216 Score: 213
Period size: 93 Copynumber: 1.9 Consensus size: 93
6172033 AAAATTAATA
* * * *
6172043 AAATAAATAATTCTTCGATATATAATTTTTATAATTAACATGAAGTTATTACATCAATATTAATG
1 AAATAAATAATTCTTAGATATATAATTTTTAGAATTAACATAAAGTTATTACATCAATATTAAAG
*
6172108 ATACTTAATGCTAAATTGTATAATTTAT
66 ATACTTAATACTAAATTGTATAATTTAT
* * * * * * **
6172136 AAATAAATAATTTTTATATATTTAATTTTTAGACTTAATATAAAGTTATTATATTGATATTAAAG
1 AAATAAATAATTCTTAGATATATAATTTTTAGAATTAACATAAAGTTATTACATCAATATTAAAG
* *
6172201 ATATTTAATATTAAAT
66 ATACTTAATACTAAAT
6172217 ATAGCATATT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (93 bp):
AAATAAATAATTCTTAGATATATAATTTTTAGAATTAACATAAAGTTATTACATCAATATTAAAG
ATACTTAATACTAAATTGTATAATTTAT
Found at i:6173048 original size:23 final size:24
Alignment explanation
Indices: 6172998--6173048 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
6172988 ACTTTTTTTA
*
6172998 AAAATTTTCTTTAAAAACAATTAT
1 AAAATTTTCTTTAAAAACAATTAG
** *
6173022 AAAATTTT-TTTAATTATAATTAG
1 AAAATTTTCTTTAAAAACAATTAG
6173045 AAAA
1 AAAA
6173049 GTAAATAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAATTTTCTTTAAAAACAATTAG
Found at i:6173954 original size:95 final size:95
Alignment explanation
Indices: 6173791--6173978 Score: 304
Period size: 95 Copynumber: 2.0 Consensus size: 95
6173781 CTTTTCTTGG
* * *
6173791 TAATCACTTTAGTAACTTCTTAAGGAAGTTATAAATACAAATTGTAAAGCTTCATTGGAGATCAT
1 TAATCACTTTAGTAACTTCTTAAAGAAGTTATAAATACAAATTGTAAAGCTACATTCGAGATCAT
*
6173856 TTGAAAATTTAACTAACTTTTAGTTTTTGA
66 TTGAAAATCTAACTAACTTTTAGTTTTTGA
* *
6173886 TAATCACTTTAGTAACTTCTTAAAGAAGTTATAAATACAGATTGTAAAGCTACATTCGAGATTAT
1 TAATCACTTTAGTAACTTCTTAAAGAAGTTATAAATACAAATTGTAAAGCTACATTCGAGATCAT
* *
6173951 TTGAAAATCTAATTAACTTTTGGTTTTT
66 TTGAAAATCTAACTAACTTTTAGTTTTT
6173979 TAGAATTTTC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (95 bp):
TAATCACTTTAGTAACTTCTTAAAGAAGTTATAAATACAAATTGTAAAGCTACATTCGAGATCAT
TTGAAAATCTAACTAACTTTTAGTTTTTGA
Found at i:6180452 original size:22 final size:22
Alignment explanation
Indices: 6180427--6180468 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6180417 GTTATATAAA
6180427 CAAAATTCTTTACTGCATGGAG
1 CAAAATTCTTTACTGCATGGAG
6180449 CAAAATTCTTTACTGCATGG
1 CAAAATTCTTTACTGCATGG
6180469 TTTTAGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (22 bp):
CAAAATTCTTTACTGCATGGAG
Found at i:6182307 original size:15 final size:15
Alignment explanation
Indices: 6182287--6182325 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
6182277 TAAGTTGAAT
6182287 TTAACTTGAAACATA
1 TTAACTTGAAACATA
6182302 TTAACTAT-AAACATA
1 TTAACT-TGAAACATA
6182317 TTAACTTGA
1 TTAACTTGA
6182326 TTTCATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (15 bp):
TTAACTTGAAACATA
Found at i:6182536 original size:12 final size:13
Alignment explanation
Indices: 6182507--6182537 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
6182497 ATTAACACCT
6182507 TTTTTATTTCTAA
1 TTTTTATTTCTAA
6182520 TTTTTATTTCTAA
1 TTTTTATTTCTAA
6182533 TTTTT
1 TTTTT
6182538 TAATAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTATTTCTAA
Found at i:6182555 original size:15 final size:15
Alignment explanation
Indices: 6182537--6182566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6182527 TTCTAATTTT
*
6182537 TTAATAATAAATAAA
1 TTAATAAGAAATAAA
6182552 TTAATAAGAAATAAA
1 TTAATAAGAAATAAA
6182567 AAAACATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
TTAATAAGAAATAAA
Found at i:6182659 original size:22 final size:23
Alignment explanation
Indices: 6182616--6182662 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6182606 CGGAGACCCC
6182616 AAATAAAAATTTCAGTCTTTTTA
1 AAATAAAAATTTCAGTCTTTTTA
6182639 AAATAAAAATTTCAGTCTTTTTA
1 AAATAAAAATTTCAGTCTTTTTA
6182662 A
1 A
6182663 CTAATTAAGG
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:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
AAATAAAAATTTCAGTCTTTTTA
Found at i:6183199 original size:18 final size:18
Alignment explanation
Indices: 6183152--6183212 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
6183142 ATCATGAGTG
*
6183152 AAAATATTATCAAATAATTA
1 AAAATATTA--AAATAAATA
6183172 AAAGA-A-TAAAATAAATA
1 AAA-ATATTAAAATAAATA
*
6183189 AAAATATTAAAAAAAATA
1 AAAATATTAAAATAAATA
6183207 AAAATA
1 AAAATA
6183213 AAACTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 1 0.03
17 12 0.33
18 16 0.44
19 2 0.06
20 4 0.11
21 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAATATTAAAATAAATA
Found at i:6187072 original size:14 final size:15
Alignment explanation
Indices: 6187053--6187092 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 15
6187043 GTTATTAGTG
6187053 AGAAAAAAAGAAG-A
1 AGAAAAAAAGAAGAA
6187067 AG-AAAAAAGAAAGAA
1 AGAAAAAAAG-AAGAA
6187082 AGAAAAAAAGA
1 AGAAAAAAAGA
6187093 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 4 0.17
16 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAGAAGAA
Found at i:6187084 original size:15 final size:13
Alignment explanation
Indices: 6187056--6187089 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
6187046 ATTAGTGAGA
6187056 AAAAAAGAAGAAG
1 AAAAAAGAAGAAG
6187069 AAAAAAGAAAGAAAG
1 AAAAAAG-AAG-AAG
6187084 AAAAAA
1 AAAAAA
6187090 AGATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 3 0.16
15 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAGAAG
Found at i:6190112 original size:43 final size:43
Alignment explanation
Indices: 6190051--6190138 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
6190041 GGGAGAAGAT
6190051 AGGGTGGCTAGAATTAATGCTTGGTAGCCTTGGCATCCATGGC
1 AGGGTGGCTAGAATTAATGCTTGGTAGCCTTGGCATCCATGGC
6190094 AGGGTGGCTAGAATTAATGCTTGGTAGCCTTGGCATCCATGGC
1 AGGGTGGCTAGAATTAATGCTTGGTAGCCTTGGCATCCATGGC
6190137 AG
1 AG
6190139 CCAATGAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (43 bp):
AGGGTGGCTAGAATTAATGCTTGGTAGCCTTGGCATCCATGGC
Found at i:6190395 original size:13 final size:13
Alignment explanation
Indices: 6190377--6190403 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6190367 AGGGTAGCTT
6190377 TGTATCGATACAA
1 TGTATCGATACAA
6190390 TGTATCGATACAA
1 TGTATCGATACAA
6190403 T
1 T
6190404 ACTTATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6190413 original size:19 final size:20
Alignment explanation
Indices: 6190389--6190442 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
6190379 TATCGATACA
6190389 ATGTATCGATACAATACT-T
1 ATGTATCGATACAATACTGT
*
6190408 ATGTATCGATACATTTACTGT
1 ATGTATCGATACA-ATACTGT
*
6190429 TTGTATCGATACAA
1 ATGTATCGATACAA
6190443 ATTGTTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATACTGT
Found at i:6190505 original size:21 final size:20
Alignment explanation
Indices: 6190479--6190517 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
6190469 GTTGGGACCT
6190479 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
6190500 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
6190518 CAAAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:6191410 original size:48 final size:47
Alignment explanation
Indices: 6191242--6191696 Score: 365
Period size: 48 Copynumber: 9.8 Consensus size: 47
6191232 TGAAGAAGAA
* ** * * *
6191242 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA--AA-G--AAAGG
* * ** *
6191294 TGCTAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA--AAGG
* *
6191343 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-AAGG
*
6191391 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT------A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAAAGG
* * * *
6191430 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-AAGG
* * *
6191478 TGCCAGTATGCTGATTCAAGGCCAACGATATTGGGCTT--------G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAAAGG
* *
6191517 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-AAGG
* * *
6191565 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTCAAGATTGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAA-A--G-AAAGG
* *
6191616 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT----AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAAAGG
* * *
6191659 TGCCAATGTGCTGATTCAAGGCTAGCAATATTGGTCTT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT
6191697 TGTTAGGATC
Statistics
Matches: 332, Mismatches: 47, Indels: 57
0.76 0.11 0.13
Matches are distributed among these distances:
39 68 0.20
41 1 0.00
43 38 0.11
46 1 0.00
47 1 0.00
48 107 0.32
49 41 0.12
50 2 0.01
51 42 0.13
52 31 0.09
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (47 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAAAGG
Found at i:6191445 original size:39 final size:39
Alignment explanation
Indices: 6191391--6191555 Score: 159
Period size: 39 Copynumber: 4.0 Consensus size: 39
6191381 AAAGACAAGG
*
6191391 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
* * *
6191430 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT-------A
* * * *
6191476 GGTGCCAGTATGCTGATTCAAGGCCAACGATATTGGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
* *
6191517 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
6191556 AAGACAAGGT
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
39 67 0.67
46 1 0.01
48 32 0.32
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTA
Found at i:6191489 original size:87 final size:87
Alignment explanation
Indices: 6191343--6191596 Score: 463
Period size: 87 Copynumber: 2.9 Consensus size: 87
6191333 AAGATGAAGG
6191343 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
6191408 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * *
6191430 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAGTATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
6191495 AAGGCCAACGATATTGGGCTTG
66 AAGGCCAGCGATATTGGGCTTA
6191517 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
6191582 AAGGCCAGCGATATT
66 AAGGCCAGCGATATT
6191597 AGACTCAAGA
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:6191631 original size:51 final size:48
Alignment explanation
Indices: 6191516--6191690 Score: 191
Period size: 51 Copynumber: 3.7 Consensus size: 48
6191506 TATTGGGCTT
* * * * *
6191516 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTCAAAGACAAG
6191564 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTCAAGATTGTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTCAA-A--G-ACAAG
*
6191615 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACT----TA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTCAAAGACAAG
* * *
6191658 GTGCCAATGTGCTGATTCAAGGCTAGCAATATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT
6191691 GGTCTTTGTT
Statistics
Matches: 114, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
43 34 0.30
48 36 0.32
49 1 0.01
51 42 0.37
52 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTCAAAGACAAG
Found at i:6192149 original size:32 final size:33
Alignment explanation
Indices: 6192113--6192180 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
6192103 CTTTAACTGT
*
6192113 TTGTATCGATACA-CCCAATATGTATCGATACA
1 TTGTATCGATACATCCCAAAATGTATCGATACA
6192145 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACATCCCAAAATGTATCGATACA
6192178 TTG
1 TTG
6192181 GCTTGTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCCCAAAATGTATCGATACA
Found at i:6192151 original size:13 final size:13
Alignment explanation
Indices: 6192133--6192158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6192123 ACACCCAATA
6192133 TGTATCGATACAT
1 TGTATCGATACAT
6192146 TGTATCGATACAT
1 TGTATCGATACAT
6192159 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6194862 original size:34 final size:34
Alignment explanation
Indices: 6194819--6194886 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
6194809 GATCTTTGTG
6194819 TTTATAGGAGGTGGAGCATTGCTACAAGGCAAGA
1 TTTATAGGAGGTGGAGCATTGCTACAAGGCAAGA
6194853 TTTATAGGAGGTGGAGCATTGCTACAAGGCAAGA
1 TTTATAGGAGGTGGAGCATTGCTACAAGGCAAGA
6194887 GAATCAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (34 bp):
TTTATAGGAGGTGGAGCATTGCTACAAGGCAAGA
Found at i:6198345 original size:13 final size:13
Alignment explanation
Indices: 6198327--6198364 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
6198317 CAGGATTCTC
*
6198327 TGTATCGATACAT
1 TGTATCGATACAG
6198340 TGTATCGATACAG
1 TGTATCGATACAG
6198353 TGTATCGATACA
1 TGTATCGATACA
6198365 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:6200274 original size:61 final size:61
Alignment explanation
Indices: 6200209--6200331 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
6200199 AATATGTGTT
6200209 TATGATTAAGGGGGAGAATGCAAATTTGTTAAATTGCCTTATTAAGGGGGAGAAATTTTGA
1 TATGATTAAGGGGGAGAATGCAAATTTGTTAAATTGCCTTATTAAGGGGGAGAAATTTTGA
*
6200270 TATGATTAAGGGGGAGAATGCGAATTTGTTAAATTGCCTTATTAAGGGGGAGAAATTTTGA
1 TATGATTAAGGGGGAGAATGCAAATTTGTTAAATTGCCTTATTAAGGGGGAGAAATTTTGA
6200331 T
1 T
6200332 TAAGGGGGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (61 bp):
TATGATTAAGGGGGAGAATGCAAATTTGTTAAATTGCCTTATTAAGGGGGAGAAATTTTGA
Found at i:6201045 original size:20 final size:20
Alignment explanation
Indices: 6201004--6201055 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
6200994 CTTAACTGTT
*
6201004 TGTATCGATACA-CCCAATA
1 TGTATCGATACATCCCAAAA
6201023 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCCCAAAA
6201043 TGTATCGATACAT
1 TGTATCGATACAT
6201056 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCCCAAAA
Found at i:6201854 original size:49 final size:48
Alignment explanation
Indices: 6201797--6202227 Score: 364
Period size: 49 Copynumber: 9.2 Consensus size: 48
6201787 TGAGCTTTCA
* * *
6201797 GTCTTAAAGATAAACGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
1 GTCTTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * *
6201846 GTCTTAAAGATGGAGATGCCAATGTGCTGATTCAAGGCCGGTGACATTG
1 GTCTTAAAGATGAAG-TGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * * * *
6201895 GACTTAAAGATGGTTAAGGTGTCAATGTACTGATTCAAGGCCAACGACATTG
1 GTCTTAAAGAT-G--AA-GTGCCAATATGCTGATTCAAGGCCAGCGACATTG
*
6201947 GTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCCA-CGATATTG
1 GTCTTAAAGATGAA-GTGCCAATATGCTGATTCAAGG-CCAGCGACATTG
* *
6201996 GGC-T-----T---GTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GTCTTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* * *
6202035 GTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAACGACATCG
1 GTCTTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* *
6202083 GTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG
1 GTCTTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* *
6202132 GGC-T-----T---GTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GTCTTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
* ** * *
6202171 GTTTTAAA-AACAAGTTGCCAATATACTGATTCAAGGCCAGCGATATTG
1 GTCTTAAAGATGAAG-TGCCAATATGCTGATTCAAGGCCAGCGACATTG
*
6202219 GACTTAAAG
1 GTCTTAAAG
6202228 GTGCCACGGA
Statistics
Matches: 313, Mismatches: 41, Indels: 56
0.76 0.10 0.14
Matches are distributed among these distances:
38 3 0.01
39 62 0.20
40 2 0.01
43 2 0.01
47 1 0.00
48 80 0.26
49 118 0.38
50 4 0.01
51 1 0.00
52 39 0.12
53 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
GTCTTAAAGATGAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
Found at i:6202016 original size:39 final size:40
Alignment explanation
Indices: 6201962--6202171 Score: 163
Period size: 39 Copynumber: 4.9 Consensus size: 40
6201952 AAAGATGAAG
* *
6201962 GTGCCAATATGCTGATTCAAGGCCCACGATATTGGGCTT-
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTA
* * *
6202001 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTT-------A
* *
6202048 GGTGCCAATATGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAA
1 -GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGC-T-----T--A
*
6202097 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-
1 -GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTA
* *
6202137 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGG
6202172 TTTTAAAAAC
Statistics
Matches: 141, Mismatches: 15, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
39 66 0.47
43 1 0.01
48 35 0.25
49 38 0.27
54 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTA
Found at i:6202072 original size:48 final size:48
Alignment explanation
Indices: 6202001--6202227 Score: 256
Period size: 48 Copynumber: 4.9 Consensus size: 48
6201991 TATTGGGCTT
*
6202001 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
6202049 GTGCCAATATGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* * *
6202098 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
6202137 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAAACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
6202185 TTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
6202228 GTGCCACGGA
Statistics
Matches: 150, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
39 34 0.23
48 77 0.51
49 39 0.26
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
Found at i:6202110 original size:136 final size:136
Alignment explanation
Indices: 6201862--6202227 Score: 561
Period size: 136 Copynumber: 2.7 Consensus size: 136
6201852 AAGATGGAGA
* * * * * *
6201862 TGCCAATGTGCTGATTCAAGGCCGGTGACATTGGACTTAAAGATGGTTAAGGTGTCAATGTACTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA----CAAGGTGCCAATATACTG
*
6201927 ATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCCACGAT
62 ATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGAT
6201992 ATTGGGCTTG
127 ATTGGGCTTG
*
6202002 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATACTGATTC
*
6202067 AAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG
66 AAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG
6202132 GGCTTG
131 GGCTTG
* * *
6202138 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAAACAAGTTGCCAATATACTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATACTGATTC
* * *
6202203 AAGGCCAGCGATATTGGACTTAAAG
66 AAGGCCAACGACATTGGTCTTAAAG
6202228 GTGCCACGGA
Statistics
Matches: 209, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
136 169 0.81
140 40 0.19
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (136 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATACTGATTC
AAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG
GGCTTG
Found at i:6202301 original size:34 final size:34
Alignment explanation
Indices: 6202226--6202305 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
6202216 TTGGACTTAA
* *
6202226 AGGTGCCACGGAGTTGTGGGCTTACAGGAAAACG
1 AGGTGCCACGGAGGTGTGGGCTTAAAGGAAAACG
*
6202260 AGATGCCACGGAGGTGTGGGCTTGAAAGGGAAAA-G
1 AGGTGCCACGGAGGTGTGGGCTT-AAA-GGAAAACG
6202295 -GGTGCCACGGA
1 AGGTGCCACGGA
6202306 ATCGTAGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
34 31 0.77
35 3 0.08
36 6 0.15
ACGTcount: A:0.28, C:0.16, G:0.41, T:0.15
Consensus pattern (34 bp):
AGGTGCCACGGAGGTGTGGGCTTAAAGGAAAACG
Found at i:6202399 original size:27 final size:26
Alignment explanation
Indices: 6202358--6202413 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
6202348 TAAAAGGAAC
*
6202358 AAGGTGCCACGGAGTTGTAGACTTAA
1 AAGGTGCCACAGAGTTGTAGACTTAA
*
6202384 AAGGATGCCACAGAGTTGTGGACTTAA
1 AAGG-TGCCACAGAGTTGTAGACTTAA
6202411 AAG
1 AAG
6202414 AGAAAAGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.21
Consensus pattern (26 bp):
AAGGTGCCACAGAGTTGTAGACTTAA
Done.