Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 208 of 770
Found at i:62338442 original size:51 final size:51
Alignment explanation
Indices: 62338319--62338447 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 51
62338309 ATAATGGTGT
* *
62338319 ATAGCGTAAGACCATAAATGAAAGAGGCTATGGCAGTCTAGTATAAGGTAT
1 ATAGCGTAAGACCATAAATGAAAGATGCTATGGCAGTCTAGTATAAGGTAC
* * * *
62338370 ATGGCGTAAGACGAAAAATGAAAGATGCTATGGCAGTCTGGTATGAA-GTAC
1 ATAGCGTAAGACCATAAATGAAAGATGCTATGGCAGTCTAGTAT-AAGGTAC
* * * *
62338421 GTAGCCTAAGGCCATAGATGAAAGATG
1 ATAGCGTAAGACCATAAATGAAAGATG
62338448 ACATGACGGC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 62 0.97
52 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (51 bp):
ATAGCGTAAGACCATAAATGAAAGATGCTATGGCAGTCTAGTATAAGGTAC
Found at i:62345827 original size:20 final size:20
Alignment explanation
Indices: 62345804--62345872 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
62345794 AATGTAATGA
*
62345804 TAAATCCTTAGAAATATTGG
1 TAAATCATTAGAAATATTGG
62345824 TAAAT-ATTTAGAAATATTGG
1 TAAATCA-TTAGAAATATTGG
* * *
62345844 GAAATCATTAGACATATTGA
1 TAAATCATTAGAAATATTGG
*
62345864 TAAGTCATT
1 TAAATCATT
62345873 GGATATTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 40 0.98
21 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.36
Consensus pattern (20 bp):
TAAATCATTAGAAATATTGG
Found at i:62346006 original size:40 final size:40
Alignment explanation
Indices: 62345962--62346074 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
62345952 AAAATTTTAG
*
62345962 AAATTTTGGCAAATCGTTAGATATTTTAGTAAAACATTAA
1 AAATTTTGGTAAATCGTTAGATATTTTAGTAAAACATTAA
* * * *
62346002 AAATTTTGGTAAATCATTAGATGTTTCAGTAAAACCTTAA
1 AAATTTTGGTAAATCGTTAGATATTTTAGTAAAACATTAA
* * *
62346042 AAATTTTGGTAAACCGTTAGATATATTGGTAAA
1 AAATTTTGGTAAATCGTTAGATATTTTAGTAAA
62346075 TCGCCAAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (40 bp):
AAATTTTGGTAAATCGTTAGATATTTTAGTAAAACATTAA
Found at i:62346007 original size:20 final size:20
Alignment explanation
Indices: 62345984--62346054 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
62345974 ATCGTTAGAT
62345984 ATTTTAGTAAAACATTAAAA
1 ATTTTAGTAAAACATTAAAA
* * * *
62346004 ATTTTGGTAAATCATTAGAT
1 ATTTTAGTAAAACATTAAAA
* * *
62346024 GTTTCAGTAAAACCTTAAAA
1 ATTTTAGTAAAACATTAAAA
*
62346044 ATTTTGGTAAA
1 ATTTTAGTAAA
62346055 CCGTTAGATA
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (20 bp):
ATTTTAGTAAAACATTAAAA
Found at i:62346070 original size:20 final size:20
Alignment explanation
Indices: 62346047--62346253 Score: 123
Period size: 20 Copynumber: 10.3 Consensus size: 20
62346037 CTTAAAAATT
*
62346047 TTGGTAAACCGTTAGATATA
1 TTGGTAAATCGTTAGATATA
** * *
62346067 TTGGTAAATCGCCAAATATT
1 TTGGTAAATCGTTAGATATA
* *
62346087 TTAGTAAATTC-TTAGAAATA
1 TTGGTAAA-TCGTTAGATATA
* *
62346107 TTGGTAAA--GTTTCATAAATA
1 TTGGTAAATCG-TT-AGATATA
* * *
62346127 TTGGTAAATCGATAGAAATT
1 TTGGTAAATCGTTAGATATA
* * * *
62346147 TTGATATATTGTTAGATATT
1 TTGGTAAATCGTTAGATATA
* * *
62346167 TTGGTAAATCCTTGGAAATA
1 TTGGTAAATCGTTAGATATA
* *
62346187 TTGGTAAATTGTTAGACATA
1 TTGGTAAATCGTTAGATATA
* * * *
62346207 TTGGTAATTCCTTATATATT
1 TTGGTAAATCGTTAGATATA
* *
62346227 TTGGTAAATCCTTAGATATT
1 TTGGTAAATCGTTAGATATA
62346247 TTGGTAA
1 TTGGTAA
62346254 TTGTTAAGAC
Statistics
Matches: 141, Mismatches: 40, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
19 2 0.01
20 135 0.96
21 3 0.02
22 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (20 bp):
TTGGTAAATCGTTAGATATA
Found at i:62346186 original size:60 final size:60
Alignment explanation
Indices: 62346122--62346253 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
62346112 AAAGTTTCAT
* * *
62346122 AAATATTGGTAAATCGATAGAAATTTTGATATATT-GTTAGATATTTTGGTAAATCCTTGG
1 AAATATTGGTAAATCGATAGAAATATTGATA-ATTCCTTAGATATTTTGGTAAATCCTTAG
* * * * *
62346182 AAATATTGGTAAATTGTTAGACATATTGGTAATTCCTTATATATTTTGGTAAATCCTTAG
1 AAATATTGGTAAATCGATAGAAATATTGATAATTCCTTAGATATTTTGGTAAATCCTTAG
* *
62346242 ATATTTTGGTAA
1 AAATATTGGTAA
62346254 TTGTTAAGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
59 3 0.05
60 58 0.95
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (60 bp):
AAATATTGGTAAATCGATAGAAATATTGATAATTCCTTAGATATTTTGGTAAATCCTTAG
Found at i:62346332 original size:20 final size:20
Alignment explanation
Indices: 62346309--62346356 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
62346299 GAAGTCTCAT
62346309 AAATATTGATAAAAAGATAG
1 AAATATTGATAAAAAGATAG
* * *
62346329 AAATTTTGATAAATAGTTAG
1 AAATATTGATAAAAAGATAG
*
62346349 ATATATTG
1 AAATATTG
62346357 GTAAGTTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (20 bp):
AAATATTGATAAAAAGATAG
Found at i:62346350 original size:187 final size:187
Alignment explanation
Indices: 62346102--62346543 Score: 494
Period size: 187 Copynumber: 2.4 Consensus size: 187
62346092 AAATTCTTAG
* ** *
62346102 AAATATTGGTAAAGTTTCATAAATATTGGTAAATCGATAGAAATTTTGATATATTGTTAGATATT
1 AAATATTGGTAAAGTCTCATAAATATTGGTAAAAAGATAGAAATTTTGATAAATTGTTAGATATT
* *** * ** * * * *
62346167 TTGGTAAATCCTTGGAAATATTGGTAAATTGTTAGACATATTGGTAATTCCTTATATATTTTGGT
66 TTGGTAAATCCTTAGAAATATTGGTAAACCATTAGACACATTAATAAATCCTTAGAAATATTGGT
* * **
62346232 AAA-TCCT-TAGATATTTTGGTAATTGTTAAGACTTCACATGGTGTTTAGAAAATTTGA
131 AAAGT--TATAGAAATTTTGGTAATTGTTAAGACTTCACATAGAATTTAGAAAATTTGA
* * * *
62346289 AAATATTGGTGAAGTCTCATAAATATTGATAAAAAGATAGAAATTTTGATAAATAGTTAGATATA
1 AAATATTGGTAAAGTCTCATAAATATTGGTAAAAAGATAGAAATTTTGATAAATTGTTAGATATT
* * * *
62346354 TTGGTAAGTTCTTAGAAATATTGGTAAACCATTAGATACATTAATAAATGCTTAGAAATATTGGT
66 TTGGTAAATCCTTAGAAATATTGGTAAACCATTAGACACATTAATAAATCCTTAGAAATATTGGT
* ** *
62346419 AAAGTTATAGAAATTTTGGTAATTGTTAAGACTTGATGTAGAATTTAGAAAATTTGG
131 AAAGTTATAGAAATTTTGGTAATTGTTAAGACTTCACATAGAATTTAGAAAATTTGA
* * * * * *
62346476 AAATATTAGTAAAATCAT-AGAAAGTATTGGTAAAATGATAGAAAATTTGGTAAATTGTTAGATA
1 AAATATTGGTAAAGTC-TCATAAA-TATTGGTAAAAAGATAGAAATTTTGATAAATTGTTAGATA
62346540 TTTT
64 TTTT
62346544 AGAAAATGTA
Statistics
Matches: 210, Mismatches: 41, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
186 1 0.00
187 169 0.80
188 40 0.19
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (187 bp):
AAATATTGGTAAAGTCTCATAAATATTGGTAAAAAGATAGAAATTTTGATAAATTGTTAGATATT
TTGGTAAATCCTTAGAAATATTGGTAAACCATTAGACACATTAATAAATCCTTAGAAATATTGGT
AAAGTTATAGAAATTTTGGTAATTGTTAAGACTTCACATAGAATTTAGAAAATTTGA
Found at i:62346388 original size:20 final size:20
Alignment explanation
Indices: 62346326--62346421 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
62346316 GATAAAAAGA
* * **
62346326 TAGAAATTTTGATAAATAGT
1 TAGAAATATTGGTAAATCCT
* * *
62346346 TAGATATATTGGTAAGTTCT
1 TAGAAATATTGGTAAATCCT
62346366 TAGAAATATTGGTAAA-CCAT
1 TAGAAATATTGGTAAATCC-T
* * ** *
62346386 TAGATACATTAATAAATGCT
1 TAGAAATATTGGTAAATCCT
62346406 TAGAAATATTGGTAAA
1 TAGAAATATTGGTAAA
62346422 GTTATAGAAA
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
19 1 0.02
20 54 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (20 bp):
TAGAAATATTGGTAAATCCT
Found at i:62346527 original size:20 final size:21
Alignment explanation
Indices: 62346476--62346529 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
62346466 GAAAATTTGG
*
62346476 AAATATTAGTAAAATCATAGA
1 AAATATTGGTAAAATCATAGA
* *
62346497 AAGTATTGGTAAAATGATAGA
1 AAATATTGGTAAAATCATAGA
62346518 AAAT-TTGGTAAA
1 AAATATTGGTAAA
62346530 TTGTTAGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.30
Consensus pattern (21 bp):
AAATATTGGTAAAATCATAGA
Found at i:62348601 original size:2 final size:2
Alignment explanation
Indices: 62348594--62348623 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
62348584 ATGTACAAAA
*
62348594 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62348624 GTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:62348847 original size:22 final size:22
Alignment explanation
Indices: 62348752--62348864 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 22
62348742 AGTACTTGAG
*
62348752 AATATATACATAAGATGATATAA
1 AATATATACATAATAT-ATATAA
*
62348775 AATACATACATGGAATAGTATA-AGA
1 AATATATACAT--AATA-TATATA-A
*
62348800 AATATATA-ATAATGGCAT-TAAAAA
1 AATATATACATAAT---ATAT-ATAA
62348824 AATATATACATAATATATATAA
1 AATATATACATAATATATATAA
*
62348846 AATACAT--ATAATATATATA
1 AATATATACATAATATATATA
62348865 TACGTATTAG
Statistics
Matches: 74, Mismatches: 5, Indels: 25
0.71 0.05 0.24
Matches are distributed among these distances:
20 12 0.16
22 14 0.19
23 12 0.16
24 14 0.19
25 21 0.28
26 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (22 bp):
AATATATACATAATATATATAA
Found at i:62348849 original size:11 final size:11
Alignment explanation
Indices: 62348822--62348866 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
62348812 TGGCATTAAA
*
62348822 AAAATATATAC
1 AAAATATATAT
*
62348833 ATAATATATAT
1 AAAATATATAT
*
62348844 AAAATACATAT
1 AAAATATATAT
*
62348855 AATATATATAT
1 AAAATATATAT
62348866 A
1 A
62348867 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:62349551 original size:13 final size:12
Alignment explanation
Indices: 62349499--62349551 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
62349489 GGAAAAGGTA
62349499 ATTTTTTTTTAT
1 ATTTTTTTTTAT
62349511 ATTTGTTTTGTATAT
1 ATTT-TTTT-T-TAT
*
62349526 ATATATTTTTTAT
1 AT-TTTTTTTTAT
62349539 ATTTTTTTATTAT
1 ATTTTTTT-TTAT
62349552 GATGTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 9 0.26
13 13 0.38
14 2 0.06
15 9 0.26
16 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTAT
Found at i:62349633 original size:17 final size:16
Alignment explanation
Indices: 62349590--62349639 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
62349580 AAAAAGGGAA
*
62349590 AAAAATAAAATAAAAGT
1 AAAAATAAGATAAAA-T
62349607 AAAAATAAGAGTAAAAT
1 AAAAATAAGA-TAAAAT
62349624 AATAAA-AAGATAAAAT
1 AA-AAATAAGATAAAAT
62349640 CACCTTTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.20
17 16 0.53
18 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (16 bp):
AAAAATAAGATAAAAT
Found at i:62350722 original size:30 final size:30
Alignment explanation
Indices: 62350686--62350743 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
62350676 TTTTGAAAAA
62350686 CAGAAATT-AAAAGACTCAACTCAACTCTAG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTAG
*
62350716 CAGAAATTAAAAAGCTCAACTCACCTCT
1 CAGAAATTAAAAAGCTCAACTCAACTCT
62350744 CGCAATATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.21
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTAG
Found at i:62350841 original size:24 final size:24
Alignment explanation
Indices: 62350814--62350862 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
62350804 CCAAGGCTCA
62350814 ACTCACTTCTCGCAATATGAGTTG
1 ACTCACTTCTCGCAATATGAGTTG
62350838 ACTCACTTCTCGCAATATGAGTTG
1 ACTCACTTCTCGCAATATGAGTTG
62350862 A
1 A
62350863 TTTTTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (24 bp):
ACTCACTTCTCGCAATATGAGTTG
Found at i:62350888 original size:14 final size:14
Alignment explanation
Indices: 62350865--62350899 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
62350855 TGAGTTGATT
62350865 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
62350878 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
62350892 TTTGAAAA
1 TTTGAAAA
62350900 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:62351007 original size:79 final size:79
Alignment explanation
Indices: 62350910--62351445 Score: 267
Period size: 77 Copynumber: 6.6 Consensus size: 79
62350900 TACCTCGACA
* * *
62350910 TGTGATCCGAGGCTCAACTCACATCTCGCAATGT-ACGTTGATTTTTTTGAAAAATATAAATTGA
1 TGTGATCCGAAGCTCAACTCACATCTCGCAATATGA-GTTGATTTTTTTGAAAAATAGAAATTGA
62350974 AAAAATACCTCAGTG
65 AAAAATACCTCAGTG
* * *
62350989 TGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTG--
1 TGTGATCCGAAGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAA
* *
62351052 AAAATAGCTCAGCG
66 AAAATACCTCAGTG
* * * * * *
62351066 CGTGAGCC-AAGGTTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGA
1 TGTGATCCGAA-GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTG--A---A-AAATAG-
** * **
62351130 AAAACGAAATTGAAAATACCTCGGCA
58 AAATTG-AA---AAAATACCTCAGTG
* * * * * *
62351156 TGTGA-CCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTG-ACAACAGAAATTG
1 TGTGATCC-GAAGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTTTGAAAAATAGAAATTG
* *
62351219 --AAATTACCTCAGCG
64 AAAAAATACCTCAGTG
* * * * *
62351233 TGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTG
1 TGTGATCCGAAGCTCAACTCACATCTCGCAATATGAGTTGA--TTTTTTTG--A---A-AAATAG
* *
62351296 AAAATTGGAAATTGAAAATACCTCGGCG
58 -AAATT-G-AA---AAAATACCTCAGTG
* * * * * *
62351324 TGTGA-CCTGAGGCTTAACTCGCCTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTG-
1 TGTGATCC-GAAGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGA
* *
62351386 -AAATTACCTCAGCG
65 AAAAATACCTCAGTG
* * * * *
62351400 TGT-CT-TGAGGCTCAACTCACCTCTCGCACTATGAGTTGATTTTTTT
1 TGTGATCCGAAGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTT
62351446 TTTGAAAATA
Statistics
Matches: 361, Mismatches: 57, Indels: 83
0.72 0.11 0.17
Matches are distributed among these distances:
74 37 0.10
75 31 0.09
76 26 0.07
77 67 0.19
79 56 0.16
80 1 0.00
82 3 0.01
83 16 0.04
84 15 0.04
85 3 0.01
89 2 0.01
90 41 0.11
91 32 0.09
93 31 0.09
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (79 bp):
TGTGATCCGAAGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAA
AAAATACCTCAGTG
Found at i:62351099 original size:268 final size:271
Alignment explanation
Indices: 62350570--62351103 Score: 694
Period size: 276 Copynumber: 2.0 Consensus size: 271
62350560 CATGTGATCC
** *
62350570 TCTCGCAATATGAGTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTCGACAG
1 TCTCGCAATATGAGTTGATTTTTGAAACGAATCTTGAAAAACAGATTTTGAAAATACCTCGACAG
* *
62350635 GTGACTCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGA
66 GTGACTCGAGGCTCAACTCACATCTAGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGA
*
62350700 CTCAACTCAACTCTAGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
131 ATCAACTCAACTCTAGCAG-AATT-AAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
*
62350765 TGAAAAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAAT
194 TG--AAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAT
62350830 ATGAGTTGACTCACT
257 ATGAGTTGACTCACT
62350845 TCTCGCAATATGAGTTGATTTTTGAAAACAGAAT-TTGAAAAACAGATTTTGAAAATACCTCGAC
1 TCTCGCAATATGAGTTGATTTTTG-AAAC-GAATCTTGAAAAACAGATTTTGAAAATACCTCGAC
* * * * *
62350909 ATGTGA-TCCGAGGCTCAACTCACATCTCGCAATGT-ACGTTGATTTTTTTGAAAAATATAAATT
64 AGGTGACT-CGAGGCTCAACTCACATCTAGCAATATGA-GTTGA--TTTTTGAAAAACAGAAATT
* * * * *
62350972 GAAAA-AAT-ACCTC-AGTGT-G-TG-ATCT-GAAGCTCAACTCACCTCTCGCAATATGAGTTGA
125 -AAAAGAATCAACTCAACTCTAGCAGAAT-TAAAAGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
62351030 TTTTTTTG-AAAGATAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGTTCAACTCACCTCTCG
188 ATTTTTTGAAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCG
62351094 CAATATGAGT
253 CAATATGAGT
62351104 CGATTTTTTT
Statistics
Matches: 230, Mismatches: 21, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
268 62 0.27
271 39 0.17
272 2 0.01
273 1 0.00
274 1 0.00
275 27 0.12
276 69 0.30
277 6 0.03
278 19 0.08
279 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (271 bp):
TCTCGCAATATGAGTTGATTTTTGAAACGAATCTTGAAAAACAGATTTTGAAAATACCTCGACAG
GTGACTCGAGGCTCAACTCACATCTAGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGA
ATCAACTCAACTCTAGCAGAATTAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTG
AAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGA
GTTGACTCACT
Found at i:62351260 original size:75 final size:77
Alignment explanation
Indices: 62351135--62351300 Score: 230
Period size: 75 Copynumber: 2.2 Consensus size: 77
62351125 ATTGAAAAAC
* *
62351135 GAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TT
1 GAAATTGAAAATACCTCAGCA-GTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
62351199 TTTTTTGACAA-CA
65 TTTTTTGA-AAGCA
* * * *
62351212 GAAATTGAAATTACCTCAGC-GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
62351276 TTTTTGAAAGGCA
66 TTTTTGAAA-GCA
62351289 GAAATTGAAAAT
1 GAAATTGAAAAT
62351301 TGGAAATTGA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
75 38 0.48
76 10 0.13
77 31 0.39
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (77 bp):
GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TTTTTGAAAGCA
Found at i:62351446 original size:167 final size:166
Alignment explanation
Indices: 62350975--62351452 Score: 692
Period size: 167 Copynumber: 2.9 Consensus size: 166
62350965 ATAAATTGAA
* * * * * *
62350975 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGAC
* * * * ** *
62351040 AGATAGAAATTGAAAATAGCTCAGCGCGTGAGC-CAAGGTTCAACTCACCTCTCGCAATATGAGT
66 A-ACAGAAATTGAAATTACCTCA--GCGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
62351104 CGA--TTTTTTTGAAAGGCAGAAATTGAAAAACGAAATTG
127 TGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAATTG
* *
62351142 AAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTGA
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGA-TTTTTTTGA
62351207 CAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
65 CAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
**
62351272 TTTTTTTTTGAAAGGCAGAAATTGAAAATTGGAAATTG
130 TTTTTTTTTGAAAGGCAGAAATTGAAAA-ACGAAATTG
*
62351310 AAAATACCTCGGCGTGTGACCTGAGGCTTAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGAC
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGAC
*
62351375 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCACTATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
62351440 TTTTTTTTTGAAA
130 TTTTTTTTTGAAA
62351453 ATACCTCAGC
Statistics
Matches: 283, Mismatches: 22, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
164 1 0.00
165 35 0.12
167 165 0.58
168 82 0.29
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (166 bp):
AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGAC
AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTGAAAGGCAGAAATTGAAAAACGAAATTG
Found at i:62351484 original size:64 final size:64
Alignment explanation
Indices: 62351383--62351507 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
62351373 ACAACAGAAA
* * * *
62351383 TTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCACTATGAGTTGATTTTTTTT
1 TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
62351447 TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
62351508 GAAACATACG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (64 bp):
TTGAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
Found at i:62351564 original size:141 final size:139
Alignment explanation
Indices: 62351307--62351584 Score: 380
Period size: 141 Copynumber: 2.0 Consensus size: 139
62351297 AAATTGGAAA
* * * * **
62351307 TTGAAAATACCTCGGCGTGTGACCTGAGGCTTAACTCGCCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGCGT-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* * ** * *
62351372 GACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCACTATGAGTT
65 AACAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATT
*
62351437 GATTTTTTTT
130 GAATTTTTTT
62351447 TTGAAAATACCTCAGCGCGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
1 TTGAAAATACCTCAGCGCGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
62351511 ACATACGAAAAAATTGACAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
66 ACA-AC--AAAAATTGA-AATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
62351575 ATTGAATTTT
127 ATTGAATTTT
62351585 GAAATAAAAC
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
138 42 0.35
139 2 0.02
140 18 0.15
141 57 0.47
142 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (139 bp):
TTGAAAATACCTCAGCGCGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
ACAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTG
AATTTTTTT
Found at i:62363943 original size:2 final size:2
Alignment explanation
Indices: 62363894--62363924 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
62363884 GATATTTTAA
*
62363894 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62363925 ATAGTACTTG
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:62364033 original size:23 final size:23
Alignment explanation
Indices: 62363937--62364052 Score: 64
Period size: 25 Copynumber: 4.9 Consensus size: 23
62363927 AGTACTTGAG
*
62363937 AATATATACATAAGATGATAT-AA
1 AATATATACATAATAT-ATATAAA
* *
62363960 AATACATACATGGAATAGTATA-AGA
1 AATATATACAT--AATA-TATATAAA
*
62363985 AATATATA-ACTAATGGCAT-TAAAAA
1 AATATATACA-TAAT---ATATATAAA
62364010 AATATATACATAATATATATAAA
1 AATATATACATAATATATATAAA
*
62364033 ATACATATA-AT-ATATATATA
1 A-ATATATACATAATATATATA
62364053 CGTATTAGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 25
0.70 0.07 0.24
Matches are distributed among these distances:
22 11 0.15
23 21 0.28
24 9 0.12
25 30 0.41
26 3 0.04
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (23 bp):
AATATATACATAATATATATAAA
Found at i:62364035 original size:11 final size:11
Alignment explanation
Indices: 62364008--62364052 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
62363998 TGGCATTAAA
*
62364008 AAAATATATAC
1 AAAATATATAT
*
62364019 ATAATATATAT
1 AAAATATATAT
*
62364030 AAAATACATAT
1 AAAATATATAT
*
62364041 AATATATATAT
1 AAAATATATAT
62364052 A
1 A
62364053 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:62367558 original size:46 final size:46
Alignment explanation
Indices: 62367508--62367683 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62367498 TGGTTGAGCA
62367508 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62367554 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62367599 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62367647 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62367684 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62367664 original size:93 final size:93
Alignment explanation
Indices: 62367505--62367676 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62367495 GGATGGTTGA
* *
62367505 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62367570 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62367598 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62367663 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62367677 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62369223 original size:41 final size:41
Alignment explanation
Indices: 62369133--62369223 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
62369123 TGCCACATGG
* * * **
62369133 CCTGGTACACGACCGTGTGGTTCATACGGCCTACTACACGG
1 CCTGGCACACGACCGTGTGGTTCACACGGCCTACCACACAA
* * **
62369174 CTTAGCACACGATTGTGTGGTTCACACGGCCTACCACACAA
1 CCTGGCACACGACCGTGTGGTTCACACGGCCTACCACACAA
62369215 CCTGGCACA
1 CCTGGCACA
62369224 TGGCCATATG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.21
Consensus pattern (41 bp):
CCTGGCACACGACCGTGTGGTTCACACGGCCTACCACACAA
Found at i:62371503 original size:46 final size:45
Alignment explanation
Indices: 62371450--62371623 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
62371440 TATTTGGGCA
62371450 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
62371496 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGA--GATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
62371541 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
62371587 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62371624 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 32 0.29
46 69 0.62
47 4 0.04
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:62371559 original size:91 final size:91
Alignment explanation
Indices: 62371446--62371615 Score: 304
Period size: 91 Copynumber: 1.9 Consensus size: 91
62371436 GGGATATTTG
* *
62371446 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62371511 TTGAGTCCGAGTTCGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGATGTAACTA
* *
62371537 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62371602 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62371616 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (91 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGATGTAACTA
Found at i:62374558 original size:15 final size:15
Alignment explanation
Indices: 62374519--62374598 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
62374509 GTATCTTGGG
*
62374519 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
62374534 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
62374549 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
62374564 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
62374579 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
62374593 TTTCTT
1 TTTCTT
62374599 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:62374588 original size:30 final size:30
Alignment explanation
Indices: 62374510--62374597 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
62374500 CATAGTATCG
* * *
62374510 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
62374540 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
62374570 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
62374598 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:62376961 original size:46 final size:45
Alignment explanation
Indices: 62376911--62377086 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
62376901 TATTTGGGCA
62376911 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** *
62376957 TCCGAACTCGTTAAGTTGAGTCCGAGTTCGAGAGATGTGACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
62377004 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
62377050 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62377087 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:62377067 original size:93 final size:93
Alignment explanation
Indices: 62376907--62377078 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
62376897 TGGATATTTG
* *
62376907 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
62376972 TTGAGTCCGAGTTCGAGAGATGTGACTA
66 TTGAGTCCGAGTTCGAGAGATGTGACTA
* * *
62377000 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
62377065 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62377079 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
TTGAGTCCGAGTTCGAGAGATGTGACTA
Found at i:62378420 original size:20 final size:20
Alignment explanation
Indices: 62378392--62378506 Score: 124
Period size: 20 Copynumber: 5.8 Consensus size: 20
62378382 ACAAAAACGA
*
62378392 TAGAAATTTTCGTAAATCAT
1 TAGAAATTTTGGTAAATCAT
* *
62378412 TAGATATTTTGGTAAATCCT
1 TAGAAATTTTGGTAAATCAT
*
62378432 TAGAAATTTTGGTAAATCGT
1 TAGAAATTTTGGTAAATCAT
* * *
62378452 TAGATATTTTAGG-GAATCCT
1 TAGAAATTTT-GGTAAATCAT
* *
62378472 TAGAAATATTGGTAAATCCT
1 TAGAAATTTTGGTAAATCAT
*
62378492 TAGAAATATTGGTAA
1 TAGAAATTTTGGTAA
62378507 TTGTTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 2 0.02
20 78 0.95
21 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.39
Consensus pattern (20 bp):
TAGAAATTTTGGTAAATCAT
Found at i:62378447 original size:40 final size:40
Alignment explanation
Indices: 62378392--62378506 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
62378382 ACAAAAACGA
*
62378392 TAGAAATTTTCGTAAATCATTAGATATTTTGGTAAATCCT
1 TAGAAATTTTGGTAAATCATTAGATATTTTGGTAAATCCT
* *
62378432 TAGAAATTTTGGTAAATCGTTAGATATTTTAGG-GAATCCT
1 TAGAAATTTTGGTAAATCATTAGATATTTT-GGTAAATCCT
* * * *
62378472 TAGAAATATTGGTAAATCCTTAGAAATATTGGTAA
1 TAGAAATTTTGGTAAATCATTAGATATTTTGGTAA
62378507 TTGTTAATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
39 2 0.03
40 61 0.94
41 2 0.03
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
TAGAAATTTTGGTAAATCATTAGATATTTTGGTAAATCCT
Found at i:62378490 original size:60 final size:58
Alignment explanation
Indices: 62378406--62378518 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 58
62378396 AATTTTCGTA
* * *
62378406 AATCATTAGATATTTTGGTAAATCCTTAGAAATTTTGGTAAATCGTTAGATATTTTAGGG
1 AATCATTAGAAATATTGGTAAATCCTTAGAAATATTGGT-AATCGTTA-ATATTTTAGGG
* *
62378466 AATCCTTAGAAATATTGGTAAATCCTTAGAAATATTGGTAATTGTTAATATTT
1 AATCATTAGAAATATTGGTAAATCCTTAGAAATATTGGTAATCGTTAATATTT
62378519 AGTATAGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 6 0.12
59 7 0.15
60 35 0.73
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (58 bp):
AATCATTAGAAATATTGGTAAATCCTTAGAAATATTGGTAATCGTTAATATTTTAGGG
Found at i:62378648 original size:20 final size:20
Alignment explanation
Indices: 62378625--62378663 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62378615 AATAAAAAAT
*
62378625 TTGGTAAATCGTTAGATATA
1 TTGGTAAATCATTAGATATA
*
62378645 TTGGTAAATTATTAGATAT
1 TTGGTAAATCATTAGATAT
62378664 TTTGATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (20 bp):
TTGGTAAATCATTAGATATA
Found at i:62379520 original size:20 final size:20
Alignment explanation
Indices: 62379469--62379522 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
62379459 GAAAATTTGA
*
62379469 AAATATTGATAAAATCTTAT
1 AAATATTGGTAAAATCTTAT
* *
62379489 AAATTTTTGGTAAAGTCTTAT
1 AAA-TATTGGTAAAATCTTAT
62379510 AAATATTGGTAAA
1 AAATATTGGTAAA
62379523 TCGATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (20 bp):
AAATATTGGTAAAATCTTAT
Found at i:62385892 original size:6 final size:6
Alignment explanation
Indices: 62385883--62385908 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
62385873 ATGAAAACAT
62385883 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
62385909 ATCTCAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:62386545 original size:44 final size:44
Alignment explanation
Indices: 62386471--62386556 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
62386461 TGCAGCGCCT
* *
62386471 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCA
1 AAAAAACGCCACTAAAGAACAGGACCTTTAGCGGCGCTTTTCCA
* *
62386515 AAAAAACGCCACTAAAGAACATGACTTTTAGCGGCGCTTTTC
1 AAAAAACGCCACTAAAGAACAGGACCTTTAGCGGCGCTTTTC
62386557 TCACAAACGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (44 bp):
AAAAAACGCCACTAAAGAACAGGACCTTTAGCGGCGCTTTTCCA
Found at i:62386586 original size:44 final size:42
Alignment explanation
Indices: 62386471--62386586 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 42
62386461 TGCAGCGCCT
* * *
62386471 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCC
1 AAAAAACGCCGCTAAA-AACATGACTTTTAGCGGCGCTTTTCC
*
62386514 AAAAAAACGCCACTAAAGAACATGACTTTTAGCGGCGCTTTTCTC
1 -AAAAAACGCCGCTAAA-AACATGACTTTTAGCGGCGCTTTTC-C
*
62386559 -ACAAACGCCGCTAAAAATCATGAACTTT
1 AAAAAACGCCGCTAAAAA-CATG-ACTTT
62386587 AAAAAAATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 2 0.03
43 17 0.27
44 43 0.68
45 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAACATGACTTTTAGCGGCGCTTTTCC
Found at i:62388781 original size:29 final size:28
Alignment explanation
Indices: 62388749--62388819 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
62388739 TCAAGCCCGT
* *
62388749 ACACATAGTGCCATATAGTCCAAACTCGC
1 ACAC-TAGTGCCATACAGTACAAACTCGC
* *
62388778 ACACTTAGTGCCATACATTACAAGCTCGC
1 ACAC-TAGTGCCATACAGTACAAACTCGC
62388807 ACACTCAGTGCCA
1 ACACT-AGTGCCA
62388820 ATCTCGTCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.21
Consensus pattern (28 bp):
ACACTAGTGCCATACAGTACAAACTCGC
Found at i:62390878 original size:101 final size:101
Alignment explanation
Indices: 62390703--62390904 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
62390693 AGGATTCAAA
62390703 ATGGTTACTAATATGCTATGAATGTACCATTTGATCCCTTTTATCACTTCTCTAAATAGGTTGAT
1 ATGGTTACTAATATGCTATGAATGTACCATTTGATCCCTTTTATCACTTCTCTAAATAGGTTGAT
62390768 GTTTACTTTATGTTAAAAAGTTAATTTGCATAAGAT
66 GTTTACTTTATGTTAAAAAGTTAATTTGCATAAGAT
62390804 ATGGTTACTAATATGCTATGAATGTACCATTTGATCCCTTTTATCACTTCTCTAAATAGGTTGAT
1 ATGGTTACTAATATGCTATGAATGTACCATTTGATCCCTTTTATCACTTCTCTAAATAGGTTGAT
62390869 GTTTACTTTATGTTAAAAAGTTAATTTGCATAAGAT
66 GTTTACTTTATGTTAAAAAGTTAATTTGCATAAGAT
62390905 TTGATCCATC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (101 bp):
ATGGTTACTAATATGCTATGAATGTACCATTTGATCCCTTTTATCACTTCTCTAAATAGGTTGAT
GTTTACTTTATGTTAAAAAGTTAATTTGCATAAGAT
Found at i:62393159 original size:22 final size:22
Alignment explanation
Indices: 62393131--62393202 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 22
62393121 TTGGATTGCA
62393131 TATTTAAATAATTAATAACAAC
1 TATTTAAATAATTAATAACAAC
* *
62393153 TATTTAAATAATCAA-ACCGAGAAC
1 TATTTAAATAATTAATA---ACAAC
62393177 TTATTTAAATAATTAATAACAAC
1 -TATTTAAATAATTAATAACAAC
62393200 TAT
1 TAT
62393203 GGCATTTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 1 0.02
22 17 0.41
23 4 0.10
24 4 0.10
25 14 0.34
26 1 0.02
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (22 bp):
TATTTAAATAATTAATAACAAC
Found at i:62394627 original size:15 final size:15
Alignment explanation
Indices: 62394601--62394637 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
62394591 GCCCTTAAAC
62394601 CATAAA-CCATAA-T
1 CATAAACCCATAATT
62394614 CACTAAACCCATAATT
1 CA-TAAACCCATAATT
62394630 CATAAACC
1 CATAAACC
62394638 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 4 0.19
15 12 0.57
16 3 0.14
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (15 bp):
CATAAACCCATAATT
Found at i:62394927 original size:15 final size:14
Alignment explanation
Indices: 62394903--62394935 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
62394893 CCCTAACCCT
62394903 TAAACCATAATCCA
1 TAAACCATAATCCA
62394917 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
62394932 TAAA
1 TAAA
62394936 AGTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:62395176 original size:24 final size:24
Alignment explanation
Indices: 62395133--62395197 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 24
62395123 AGGAGTTATA
62395133 GTTTAGG-GTTTAAGAT-TTTTTAAG
1 GTTTAGGAGTTT-AG-TGTTTTTAAG
62395157 GTTTAGGAGTTTAGTG-TTTTAAG
1 GTTTAGGAGTTTAGTGTTTTTAAG
* * *
62395180 GATTA-TAGATTAGTGTTT
1 GTTTAGGAGTTTAGTGTTT
62395198 ATGATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 8 0.23
23 14 0.40
24 9 0.26
25 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (24 bp):
GTTTAGGAGTTTAGTGTTTTTAAG
Found at i:62395296 original size:41 final size:41
Alignment explanation
Indices: 62395239--62395568 Score: 303
Period size: 41 Copynumber: 8.4 Consensus size: 41
62395229 GTTATATAAC
** * *
62395239 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCT-TCGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GGT
* *
62395280 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
** *
62395321 TTTTAGCGGCAATTTACCAAAAGCGCTGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
*
62395362 TTTTA---GC-----A-TAAAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* * * *
62395392 TTTTAGCAGCGTTTTACTAAAAACGCCACTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* *
62395432 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* * *
62395473 TTTTAGCGGCGTTTTACAAAAAGCGCCACTATTGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
* * ** * *
62395513 TTTTAGCTGCGTTTTAACAAAAAAAGACGCTATTGTTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCTGGT
*
62395554 TTTTAGCGACGTTTT
1 TTTTAGCGGCGTTTT
62395569 TGATAAAACG
Statistics
Matches: 244, Mismatches: 32, Indels: 26
0.81 0.11 0.09
Matches are distributed among these distances:
30 7 0.03
31 14 0.06
32 4 0.02
33 3 0.01
38 3 0.01
39 5 0.02
40 63 0.26
41 144 0.59
42 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGT
Found at i:62395394 original size:71 final size:71
Alignment explanation
Indices: 62395304--62395519 Score: 184
Period size: 81 Copynumber: 2.9 Consensus size: 71
62395294 TACCAAAAGT
* * **
62395304 GCCGCTAATGCTCTGGTTTTTAGCGGCAATTTACCAAAAGCGCTGCTATTGCTCTGGTTTTTAGC
1 GCCGCTAATGCTCTGGTTTTTAGCAGCAATTTACCAAAAACGCCACTATTGCTCT-GTTTTTAGC
62395369 ATAAAAC
65 ATAAAAC
* ** *
62395376 GCCGCTATTGCTCT-GTTTTTAGCAGCGTTTTACTAAAAACGCCACTATTGCTCTGTTTTTAGCG
1 GCCGCTAATGCTCTGGTTTTTAGCAGCAATTTACCAAAAACGCCACTATTGCTCTGTTTTTA---
*
62395440 GCGTTTTACCAAAAGC
63 GC-----A-TAAAA-C
* * ** *
62395456 GCCGCTAATGATCTGGTTTTTAGCGGCGTTTTA-CAAAAAGCGCCACTATTGCTCTATTTTTAGC
1 GCCGCTAATGCTCTGGTTTTTAGCAGCAATTTACCAAAAA-CGCCACTATTGCTCTGTTTTTAGC
62395520 TGCGTTTTAA
Statistics
Matches: 118, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
70 7 0.06
71 33 0.28
72 13 0.11
73 2 0.02
78 3 0.03
79 4 0.03
80 18 0.15
81 38 0.32
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (71 bp):
GCCGCTAATGCTCTGGTTTTTAGCAGCAATTTACCAAAAACGCCACTATTGCTCTGTTTTTAGCA
TAAAAC
Found at i:62395396 original size:30 final size:32
Alignment explanation
Indices: 62395339--62395399 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
62395329 GCAATTTACC
*
62395339 AAAAGCGCTGCTATTGCTCTGGTTTTTAGCAT
1 AAAAGCGCCGCTATTGCTCTGGTTTTTAGCAT
62395371 AAAA-CGCCGCTATTGCTCT-GTTTTTAGCA
1 AAAAGCGCCGCTATTGCTCTGGTTTTTAGCA
62395400 GCGTTTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 10 0.36
31 14 0.50
32 4 0.14
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (32 bp):
AAAAGCGCCGCTATTGCTCTGGTTTTTAGCAT
Found at i:62395417 original size:40 final size:40
Alignment explanation
Indices: 62395371--62395591 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
62395361 TTTTTAGCAT
*
62395371 AAAACGCCGCTATTGCTCTGTTTTTAGCAGCGTTTTACTA
1 AAAACGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTACTA
* *
62395411 AAAACGCCACTATTGCTCTGTTTTTAGCGGCGTTTTACCA
1 AAAACGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTACTA
* * *
62395451 AAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTAC-A
1 AAAACGCCGCTATTGCTCT-GTTTTTAGCGGCGTTTTACTA
* * * *
62395491 AAAAGCGCCACTATTGCTCTATTTTTAGCTGCGTTTTAACAA
1 AAAA-CGCCGCTATTGCTCTGTTTTTAGCGGCGTTTT-ACTA
* * * *
62395533 AAAAAGACGCTATTGTTCTGTTTTTAGCGACGTTTT--TGA
1 AAAACGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTACT-A
*
62395572 TAAAACGCCGCTATTACTCT
1 -AAAACGCCGCTATTGCTCT
62395592 ATGTTTTACA
Statistics
Matches: 150, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 86 0.57
41 58 0.39
42 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (40 bp):
AAAACGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTACTA
Found at i:62395460 original size:152 final size:152
Alignment explanation
Indices: 62395239--62395519 Score: 413
Period size: 152 Copynumber: 1.8 Consensus size: 152
62395229 GTTATATAAC
* * * * *
62395239 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTTCGATTTTTAGCGGCGTTTTACCAAAAGT
1 TTTTAGCAGCGTTTTACTAAAAACGCCACTAATGCTTCGATTTTTAGCGGCGTTTTACCAAAAGC
* * ** *
62395304 GCCGCTAATGCTCTGGTTTTTAGCGGCAATTTACCAAAAGCGCTGCTATTGCTCTGGTTTTTAGC
66 GCCGCTAATGATCTGGTTTTTAGCGGCAATTTACAAAAAGCGCCACTATTGCTCT-ATTTTTAGC
62395369 ATAAAACGCCGCTATTGCTCTGT
130 ATAAAACGCCGCTATTGCTCTGT
*
62395392 TTTTAGCAGCGTTTTACTAAAAACGCCACTATTGC-TCTG-TTTTTAGCGGCGTTTTACCAAAAG
1 TTTTAGCAGCGTTTTACTAAAAACGCCACTAATGCTTC-GATTTTTAGCGGCGTTTTACCAAAAG
**
62395455 CGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACAAAAAGCGCCACTATTGCTCTATTTTTAGC
65 CGCCGCTAATGATCTGGTTTTTAGCGGCAATTTACAAAAAGCGCCACTATTGCTCTATTTTTAGC
62395520 TGCGTTTTAA
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
151 8 0.07
152 75 0.66
153 31 0.27
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (152 bp):
TTTTAGCAGCGTTTTACTAAAAACGCCACTAATGCTTCGATTTTTAGCGGCGTTTTACCAAAAGC
GCCGCTAATGATCTGGTTTTTAGCGGCAATTTACAAAAAGCGCCACTATTGCTCTATTTTTAGCA
TAAAACGCCGCTATTGCTCTGT
Found at i:62395556 original size:81 final size:79
Alignment explanation
Indices: 62395378--62395599 Score: 255
Period size: 81 Copynumber: 2.7 Consensus size: 79
62395368 CATAAAACGC
* * *
62395378 CGCTATTGCTCTGTTTTTAGCAGCGTTTTACTAAAAACGCCACTATTGCTCTGTTTTTAGCGGCG
1 CGCTATTGATCTGTTTTTAGCGGCGTTTTAC-AAAAACGCCACTATTGCTCTATTTTTAGCGGCG
* ** *
62395443 TTTTACCAAAAGCGC
65 TTTTACAAAAAAAGA
* *
62395458 CGCTAATGATCTGGTTTTTAGCGGCGTTTTACAAAAAGCGCCACTATTGCTCTATTTTTAGCTGC
1 CGCTATTGATCT-GTTTTTAGCGGCGTTTTACAAAAA-CGCCACTATTGCTCTATTTTTAGCGGC
62395523 GTTTTAACAAAAAAAGA
64 GTTTT-ACAAAAAAAGA
* * ** * *
62395540 CGCTATTGTTCTGTTTTTAGCGACGTTTTTGATAAAACGCCGCTATTACTCTATGTTTTA
1 CGCTATTGATCTGTTTTTAGCGGCGTTTTACA-AAAACGCCACTATTGCTCTAT-TTTTA
62395600 CAATTTTTGT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
80 15 0.12
81 80 0.66
82 26 0.21
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (79 bp):
CGCTATTGATCTGTTTTTAGCGGCGTTTTACAAAAACGCCACTATTGCTCTATTTTTAGCGGCGT
TTTACAAAAAAAGA
Found at i:62395892 original size:42 final size:42
Alignment explanation
Indices: 62395846--62395925 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
62395836 AATCCAAGCA
62395846 CTGATTACAAGCCAAAGCCACAAGGAGAAGCAAAACCAATCC
1 CTGATTACAAGCCAAAGCCACAAGGAGAAGCAAAACCAATCC
* * *
62395888 CTGATTACAAGCCAAAGCCAGAAGGTGAAGTAAAACCA
1 CTGATTACAAGCCAAAGCCACAAGGAGAAGCAAAACCA
62395926 GTGTATGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.11
Consensus pattern (42 bp):
CTGATTACAAGCCAAAGCCACAAGGAGAAGCAAAACCAATCC
Found at i:62399228 original size:13 final size:14
Alignment explanation
Indices: 62399179--62399225 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
62399169 TCTATTTAAT
62399179 ATAATTAAATATTA
1 ATAATTAAATATTA
62399193 ATTAATTATAACTATT-
1 A-TAATTA-AA-TATTA
62399209 ATAATTAAATATTA
1 ATAATTAAATATTA
62399223 ATA
1 ATA
62399226 TTAGTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 12 0.41
16 3 0.10
17 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATTAAATATTA
Found at i:62402659 original size:12 final size:12
Alignment explanation
Indices: 62402642--62402675 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
62402632 AAGACTCTTA
62402642 TTTTATTGTATT
1 TTTTATTGTATT
*
62402654 TTTTATTTTATT
1 TTTTATTGTATT
62402666 TTTTATTGTA
1 TTTTATTGTA
62402676 ATTAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTATTGTATT
Found at i:62404405 original size:3 final size:3
Alignment explanation
Indices: 62404384--62404548 Score: 122
Period size: 3 Copynumber: 54.7 Consensus size: 3
62404374 TACTTATTTG
* * * *
62404384 TAT TAC TAT TAT AAT TAT TAT TAT TAT TGT TAT TAT TAC TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** *
62404431 TAC TAT TAT TAT TTT TGC TAT T-T TCAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * *
62404476 TAT TTT TATT TAC TAC TAC TATT TAT TAT TAT TAT T-T T-T TAT TAT
1 TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* *
62404521 TAC TAT TAT TCT TAT TAAT GTAT TAT TA
1 TAT TAT TAT TAT TAT T-AT -TAT TAT TA
62404549 CTACTACCAC
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
2 8 0.06
3 109 0.84
4 11 0.09
5 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:62404640 original size:22 final size:23
Alignment explanation
Indices: 62404599--62404641 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
62404589 TTGTTATTAT
**
62404599 TATTATAGCTATTATTTTTATGG
1 TATTATAGCTATTACGTTTATGG
62404622 TATTATA-CTATTACGTTTAT
1 TATTATAGCTATTACGTTTAT
62404642 TAGTAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (23 bp):
TATTATAGCTATTACGTTTATGG
Found at i:62404695 original size:27 final size:26
Alignment explanation
Indices: 62404659--62404711 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
62404649 ATTAGCATTA
*
62404659 ACTATTATTATTACCATTATATTTATT
1 ACTATTATTAGTACCATTAT-TTTATT
*
62404686 ACTATTATTAGTATCATTATTTTATT
1 ACTATTATTAGTACCATTATTTTATT
62404712 TAGTACTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (26 bp):
ACTATTATTAGTACCATTATTTTATT
Found at i:62415805 original size:40 final size:40
Alignment explanation
Indices: 62415761--62415905 Score: 159
Period size: 40 Copynumber: 3.6 Consensus size: 40
62415751 ATAACCATAA
* * **** *
62415761 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTGACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
62415801 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
62415841 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
62415881 GCATAAATGCCTTCGGGACTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCC
62415906 GGGTATCATT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.02
40 87 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:62425590 original size:28 final size:28
Alignment explanation
Indices: 62425529--62425624 Score: 90
Period size: 26 Copynumber: 3.5 Consensus size: 28
62425519 TCACAAATTG
** * *
62425529 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
62425558 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
62425586 GCACTAA--GTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
62425612 GCACTAAGTGTGC
1 GCACTAAGTGTGC
62425625 GGGCTTATTG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.02
26 21 0.38
28 18 0.32
29 16 0.29
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:62433231 original size:28 final size:28
Alignment explanation
Indices: 62433170--62433267 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
62433160 TCACAAATTG
** * *
62433170 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
62433199 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
62433227 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
62433255 GCACTAAGTGTGC
1 GCACTAAGTGTGC
62433268 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:62434863 original size:27 final size:26
Alignment explanation
Indices: 62434833--62434910 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
62434823 GGGCATATTC
*
62434833 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TATAAGGGTATTACG
* *
62434860 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTA-CCTATAAGGG-TATTACG
*
62434887 GTCTTTTTACCTATTAAGGGTATT
1 GTCATTTTACCTA-TAAGGGTATT
62434911 GTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 5 0.12
27 33 0.80
28 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAAGGGTATTACG
Found at i:62435058 original size:55 final size:54
Alignment explanation
Indices: 62434936--62435115 Score: 177
Period size: 53 Copynumber: 3.3 Consensus size: 54
62434926 CTCAAGGGTG
* * * * *
62434936 TTTTGGTAAATCTACAAACCAAGGGTATTT-TAGTAATTTTGTAAACCAATAGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCTA-TAATTTTGTAAACCAGTGGTA
* * * *
62434990 TTTT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGGGGTA
1 TTTTGGTAA-TTTTACAAA-TCAAGGGTATTTCTATAATTTTGTAAACCAGTGGTA
** ** **
62435045 TTTTGGTAATTTTACAAATTGA-GGTATTTCGGTAATTTTACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCTATAATTTTGTAAACCAGTGGTA
62435098 TTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAA
62435116 CTAGGGGTAT
Statistics
Matches: 103, Mismatches: 19, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
53 46 0.45
54 12 0.12
55 40 0.39
56 5 0.05
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCTATAATTTTGTAAACCAGTGGTA
Found at i:62435063 original size:27 final size:27
Alignment explanation
Indices: 62434931--62435168 Score: 151
Period size: 27 Copynumber: 8.8 Consensus size: 27
62434921 CATTCCTCAA
* * * *
62434931 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
62434958 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** * * * *
62434985 TAGTATTTT-ATAATTTTTAGAAAGTCAA
1 GGGTATTTTGGTAA-TTTTACAAA-CCAG
* ** *
62435013 GGGTATTTCT-ATAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
**
62435040 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
62435066 AGGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
62435093 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
62435120 GGGTATTTTGGTAATTCTATCCTA-CAG
1 GGGTATTTTGGTAATTTTA-CAAACCAG
**
62435147 GGGTATTTCAGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
62435169 TCGAGGGTAA
Statistics
Matches: 166, Mismatches: 39, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
26 27 0.16
27 116 0.70
28 18 0.11
29 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:62435098 original size:53 final size:54
Alignment explanation
Indices: 62435014--62435168 Score: 161
Period size: 53 Copynumber: 2.9 Consensus size: 54
62435004 GAAAGTCAAG
** ** * *
62435014 GGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGA
1 GGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGA
* *
62435067 GGTATTTCGGTAATTTTACAAACCAGTGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGA
* * ** **
62435121 GGTATTTTGGTAATTCTATCCTA-CAGGGGTATTTCAGTAATTTTACAA
1 GGTATTTCGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTACAA
62435169 TCGAGGGTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
53 43 0.51
54 40 0.47
55 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGA
Found at i:62435197 original size:27 final size:27
Alignment explanation
Indices: 62435167--62435310 Score: 182
Period size: 27 Copynumber: 5.3 Consensus size: 27
62435157 GTAATTTTAC
* *
62435167 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
* *
62435194 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
* *
62435221 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
*
62435248 AATCGAGGGTGAAAC-AGTAATTCTATA
1 AATCGAGGGTAAAACGA-TAATTCTATA
* * *
62435275 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGATAATTCTATA
62435302 AATCGAGGG
1 AATCGAGGG
62435311 CATTTCAGTA
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTATA
Found at i:62435236 original size:54 final size:54
Alignment explanation
Indices: 62435155--62435310 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 54
62435145 AGGGGTATTT
*
62435155 CAGTAATT-T-TACAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTATA-AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA
** * *
62435208 TGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTGAAA
1 CAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA
* * **
62435262 CAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 CAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGG
62435311 CATTTCAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
53 6 0.07
54 83 0.91
55 2 0.02
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (54 bp):
CAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA
Found at i:62435322 original size:81 final size:80
Alignment explanation
Indices: 62435151--62435324 Score: 226
Period size: 81 Copynumber: 2.2 Consensus size: 80
62435141 CTACAGGGGT
* *
62435151 ATTTCAGTAATTTTACAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATT
1 ATTTCAGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATT
* *
62435216 CTATAAATCGAGGGT
66 CTACAAATCGAGGGC
*** * *
62435231 AAAACGGTAATTCTGTA-AATCGAGGGTGAAAC-AGTAATTCTATAAATCGAGGGTAAAATGGTA
1 ATTTCAGTAATT-T-TACAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAATGGTA
62435294 ATTCTACAAATCGAGGGC
63 ATTCTACAAATCGAGGGC
62435312 ATTTCAGTAATTT
1 ATTTCAGTAATTT
62435325 GGTACACTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
80 10 0.13
81 66 0.85
82 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (80 bp):
ATTTCAGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATT
CTACAAATCGAGGGC
Found at i:62436425 original size:24 final size:24
Alignment explanation
Indices: 62436395--62436445 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
62436385 GTAGCCTAAC
62436395 TTTCGGCTTTTCAACATTTCAGCT
1 TTTCGGCTTTTCAACATTTCAGCT
*
62436419 TTTCGGCTTTTCGACATTTCAGCT
1 TTTCGGCTTTTCAACATTTCAGCT
62436443 TTT
1 TTT
62436446 GCCAATTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.49
Consensus pattern (24 bp):
TTTCGGCTTTTCAACATTTCAGCT
Found at i:62443567 original size:49 final size:49
Alignment explanation
Indices: 62443506--62443627 Score: 149
Period size: 49 Copynumber: 2.5 Consensus size: 49
62443496 GTGTTGGTGC
* * * *
62443506 AAGACCTGTCTGGGACATGGTATTGGCAC-CAATAGATG-AGAGCCAGTGT
1 AAGACCTGTCTGGGACATGGCATCGGC-CTCAAGAGATGCA-AGCCAATGT
* *
62443555 AAGACCTATCTGGGACATGGCATCGGCCTCAAGATATGCAAGCCAATGT
1 AAGACCTGTCTGGGACATGGCATCGGCCTCAAGAGATGCAAGCCAATGT
*
62443604 AAGACCTGTCTGAGACATGGCATC
1 AAGACCTGTCTGGGACATGGCATC
62443628 AGTTTGAGGT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.02
49 61 0.97
50 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (49 bp):
AAGACCTGTCTGGGACATGGCATCGGCCTCAAGAGATGCAAGCCAATGT
Found at i:62459029 original size:30 final size:29
Alignment explanation
Indices: 62458986--62459047 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 29
62458976 TAAGTATCCG
62458986 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
62459015 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
62459045 AAG
1 AAG
62459048 TTTCCGATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:62470076 original size:40 final size:40
Alignment explanation
Indices: 62470032--62470152 Score: 147
Period size: 40 Copynumber: 3.0 Consensus size: 40
62470022 GTGCTAAGTG
* *
62470032 ACTAAATCCGGAATAAGATCCGACGGCATACGTGCGAGTT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
* * *
62470072 ACTAAATCC-GAACTAAGATCCGAAGGCTTTCGAGCGAGCT
1 ACTAAATCCGGAA-TAAGATCCGAAGGCATTCGTGCGAGTT
**
62470112 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTT
1 ACTAAATCCGGAATAAGAT-CCGAAGGCATTCGTGCGAGTT
62470152 A
1 A
62470153 TTGTAACCGG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.06
40 63 0.93
41 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (40 bp):
ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
Found at i:62474722 original size:39 final size:39
Alignment explanation
Indices: 62474668--62474811 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
62474658 GAATGTTCGA
62474668 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
62474707 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
62474746 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
62474785 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
62474812 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:62474758 original size:78 final size:79
Alignment explanation
Indices: 62474669--62474851 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
62474659 AATGTTCGAG
62474669 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
62474733 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
62474747 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
62474812 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
62474826 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
62474852 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:62482709 original size:39 final size:39
Alignment explanation
Indices: 62482655--62482798 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
62482645 GAATGTTCGA
62482655 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
62482694 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
62482733 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
62482772 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
62482799 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:62482745 original size:78 final size:79
Alignment explanation
Indices: 62482656--62482838 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
62482646 AATGTTCGAG
62482656 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
62482720 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
62482734 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
62482799 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
62482813 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
62482839 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:62489297 original size:40 final size:40
Alignment explanation
Indices: 62489253--62489372 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
62489243 GTGCTAAGTG
* *
62489253 ACTAAATCCGGAATAAGATCCGACGGCATACGTGCGAGTT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
* * * *
62489293 ACTAAATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCT
1 ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
**
62489333 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTT
1 ACTAAATCCGGAATAAGAT-CCGAAGGCATTCGTGCGAGTT
62489373 GCTGTAACCG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 67 0.99
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ACTAAATCCGGAATAAGATCCGAAGGCATTCGTGCGAGTT
Found at i:62489396 original size:80 final size:80
Alignment explanation
Indices: 62489218--62489405 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
62489208 TTCGAATGAT
* *
62489218 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
62489283 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
62489298 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* * *
62489359 CATTCGTGCGAGTTGCTGTA
62 CATACGTGCGAGTTACT-AA
*
62489379 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
62489406 ATGTGTAGCC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 2 0.02
80 78 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:62490162 original size:90 final size:90
Alignment explanation
Indices: 62490057--62490236 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 90
62490047 TGATCAGCCA
62490057 TTGGAATGGCTAAAAAAAAAATGATTAT-TGTGGACCTATGTATGACAAAACTTTAGTCGGTCCA
1 TTGGAATGGCT-AAAAAAAAATGATTATATGTGGACCTATGTATGACAAAACTTTAGTCGGTCCA
62490121 TAGAAACCACGAAATAGGTAAGGTTT
65 TAGAAACCACGAAATAGGTAAGGTTT
62490147 TTGGAATGGCTAAAAAAAAATGATTATATGTGGACCTATGTATGACAAAACTTTAGTCGGTCCAT
1 TTGGAATGGCTAAAAAAAAATGATTATATGTGGACCTATGTATGACAAAACTTTAGTCGGTCCAT
62490212 AGAAACCACGAAATAGGTAAGGTTT
66 AGAAACCACGAAATAGGTAAGGTTT
62490237 ACTGAAAAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
89 16 0.18
90 73 0.82
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (90 bp):
TTGGAATGGCTAAAAAAAAATGATTATATGTGGACCTATGTATGACAAAACTTTAGTCGGTCCAT
AGAAACCACGAAATAGGTAAGGTTT
Found at i:62491461 original size:27 final size:27
Alignment explanation
Indices: 62491406--62491825 Score: 192
Period size: 27 Copynumber: 15.7 Consensus size: 27
62491396 TTTAGATATC
* * * * *
62491406 AAATTACTAAAATGCCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
62491433 AAATTACCAAAGTACCCTCGATTTAT-
1 AAATTACCAAAATACCCTCGATTTATA
**** *
62491459 AAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***
62491486 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * ** * * *
62491513 GAATTA-CTATTTTCCCATTGATTTACA
1 AAATTACCAAAATACCC-TCGATTTATA
* **** *
62491540 GAATTA-CTGTTTACCCTCGATTTAAA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
62491566 AAATTACTAAAATACCATCGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *
62491593 AAATTACCAAAATACCCTAGA-TCAGTA
1 AAATTACCAAAATACCCTCGATTTA-TA
* * * *
62491620 AAATTACCGAAATACCCTAG-TCTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * * * *
62491646 AAATTGCTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
62491673 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
62491700 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
62491727 AAATTACCAAAATACCACTAG-TTTGTG
1 AAATTACCAAAATACC-CTCGATTTATA
** ** *
62491754 AAATTACTGAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
62491781 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTATA
*
62491808 AAGTTA-CAGAAATACCCT
1 AAATTACCA-AAATACCCT
62491826 TGACTTTCTA
Statistics
Matches: 308, Mismatches: 72, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
26 67 0.22
27 240 0.78
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:62491553 original size:53 final size:53
Alignment explanation
Indices: 62491445--62491601 Score: 167
Period size: 53 Copynumber: 2.9 Consensus size: 53
62491435 ATTACCAAAG
**
62491445 TACCCTCGATTTATAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
*
62491498 TACCCTCGATTTATAGAATTACTATTTT-CCCATTGATTTACAGAATTA-C-TGTT
1 TACCCTCGATTTATA-AATTACTATTTTACCC-TCGATTTACAGAATTACCAT-TT
* *** * * *
62491551 TACCCTCGATTTAAAAAATTACTAAAATACCATCGGTTTACAAAATTACCA
1 TACCCTCGATTT-ATAAATTACTATTTTACCCTCGATTTACAGAATTACCA
62491602 AAATACCCTA
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
52 1 0.01
53 55 0.64
54 30 0.35
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (53 bp):
TACCCTCGATTTATAAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:62491598 original size:80 final size:80
Alignment explanation
Indices: 62491452--62491599 Score: 172
Period size: 80 Copynumber: 1.9 Consensus size: 80
62491442 AAGTACCCTC
* * * *** * * *
62491452 GATTTATAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAAT
1 GATTTACAAATTACCGTTTTACCCTCGATTTAAAAAATTACCAAAATACCATCGATTTACAAAAT
62491517 TACTATTTTCCCATT
66 TACTATTTTCCCATT
* * *
62491532 GATTTACAGAATTACTG-TTTACCCTCGATTTAAAAAATTACTAAAATACCATCGGTTTACAAAA
1 GATTTACA-AATTACCGTTTTACCCTCGATTTAAAAAATTACCAAAATACCATCGATTTACAAAA
62491596 TTAC
65 TTAC
62491600 CAAAATACCC
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
80 48 0.87
81 7 0.13
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.39
Consensus pattern (80 bp):
GATTTACAAATTACCGTTTTACCCTCGATTTAAAAAATTACCAAAATACCATCGATTTACAAAAT
TACTATTTTCCCATT
Found at i:62491633 original size:54 final size:54
Alignment explanation
Indices: 62491551--62491881 Score: 206
Period size: 54 Copynumber: 6.1 Consensus size: 54
62491541 AATTACTGTT
* ** * *
62491551 TACCCTCGATTTAAAAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAA
1 TACCCTAGATTTGTAAAATTACCAAAATACCATCAGTTTACAAAATTACCAAAA
** * * * ** * *
62491605 TACCCTAGATCAGTAAAATTACCGAAATACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTAGATTTGTAAAATTACCAAAATACCATCAGTTTACAAAATTACCAAAA
* * * * * ** *
62491658 TACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCAAAA
1 TACCCTAGATTTGTAAAATTACCAAAATACCATCAGTTTACAAAATTACCAAAA
*** **
62491712 TACCCCTAG-TTTGTAAAATTACCAAAATACCA-CTAGTTTGTGAAATTACTGAAA
1 TA-CCCTAGATTTGTAAAATTACCAAAATACCATC-AGTTTACAAAATTACCAAAA
* * *
62491766 TACCCTTA-ATTTGTAAAATTACCAAAATACC-CCTGATTTACAAAGTTA-CAGAAA
1 TACCC-TAGATTTGTAAAATTACCAAAATACCATCAG-TTTACAAAATTACCA-AAA
* * *** ** **
62491820 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTAGA-TTTGT-AAAATTACCAAAATACCATCAGTTTACAAAATTACCAAAA
62491876 TACCCT
1 TACCCT
62491882 TGGTTTGTCT
Statistics
Matches: 215, Mismatches: 49, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
53 49 0.23
54 122 0.57
55 9 0.04
56 34 0.16
57 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTAGATTTGTAAAATTACCAAAATACCATCAGTTTACAAAATTACCAAAA
Found at i:62491758 original size:81 final size:80
Alignment explanation
Indices: 62491565--62491799 Score: 267
Period size: 81 Copynumber: 2.9 Consensus size: 80
62491555 CTCGATTTAA
* * ** ** * ** *
62491565 AAAATTACTAAAATACCATCGGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCGA
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTA-ATTTGTAAAATTACCAA
62491630 AATA-CCCTAGTCTGT
65 AATACCCCTAGTCTGT
* * * *
62491645 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCAA
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCT-AATTTGTAAAATTACCAA
*
62491710 AATACCCCTAGTTTGT
65 AATACCCCTAGTCTGT
* *
62491726 AAAATTACCAAAATACCAC-TAGTTTGTGAAATTACTGAAATACCCTTAATTTGTAAAATTACCA
1 AAAATTACCAAAATACC-CTTAGTTTGTAAAATTACCGAAATACCC-TAATTTGTAAAATTACCA
62491790 AAATACCCCT
64 AAATACCCCT
62491800 GATTTACAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
80 57 0.43
81 75 0.56
82 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTAATTTGTAAAATTACCAAA
ATACCCCTAGTCTGT
Found at i:62491884 original size:27 final size:27
Alignment explanation
Indices: 62491551--62491887 Score: 162
Period size: 27 Copynumber: 12.4 Consensus size: 27
62491541 AATTACTGTT
* * * *
62491551 TACCCTCGATTTAAAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* * * **
62491578 TACCATCGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* * * *
62491605 TACCC-TAGATCAGTAAAATTACCGAAA
1 TACCCTTGGTTTA-TAAAATTACTGAAA
* * * * *
62491632 TACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* *
62491658 TACCCTTGGTTTGTAAAATTACCGAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
*** * *
62491685 TACCCTCAATTTGTAAAATTA-TCAAAA
1 TACCCTTGGTTTATAAAATTACT-GAAA
* * * **
62491712 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* * *
62491739 TACCAC-TAGTTTGTGAAATTACTGAAA
1 TACC-CTTGGTTTATAAAATTACTGAAA
** * **
62491766 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* * * * *
62491793 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* *
62491820 TACCCTTGACTTTCTAAAAATTA-TGGAAA
1 TACCCTTG-GTTTAT-AAAATTACT-GAAA
* *
62491849 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
62491876 TACCCTTGGTTT
1 TACCCTTGGTTT
62491888 GTCTATTTAC
Statistics
Matches: 243, Mismatches: 57, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
26 20 0.08
27 198 0.81
28 8 0.03
29 17 0.07
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACTGAAA
Found at i:62491968 original size:24 final size:25
Alignment explanation
Indices: 62491941--62491998 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
62491931 ACCCCTATTA
62491941 GGTAAAAAGACCG-TACCCCTGTAG
1 GGTAAAAAGACCGATACCCCTGTAG
** *
62491965 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAAAGACCG--ATACCCCTGTAG
62491992 GGTAAAA
1 GGTAAAA
62491999 TGACGAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 11 0.41
27 16 0.59
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
GGTAAAAAGACCGATACCCCTGTAG
Found at i:62492850 original size:25 final size:26
Alignment explanation
Indices: 62492797--62492918 Score: 196
Period size: 25 Copynumber: 4.8 Consensus size: 26
62492787 GAGGAAGTGC
*
62492797 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
62492823 AAAAGGGCTTATG-CCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
62492848 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
62492874 AAAAGGGCTT-TGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
62492899 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
62492919 ATTAAAGAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
25 57 0.63
26 33 0.37
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:62492873 original size:51 final size:51
Alignment explanation
Indices: 62492797--62492918 Score: 212
Period size: 51 Copynumber: 2.4 Consensus size: 51
62492787 GAGGAAGTGC
62492797 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG-CCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
62492848 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
62492899 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
62492919 ATTAAAGAGG
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
50 12 0.17
51 57 0.83
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:62493122 original size:42 final size:42
Alignment explanation
Indices: 62493063--62493154 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
62493053 TAGTCTCCCC
* ** *
62493063 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
62493105 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
62493147 AAATGGGC
1 AAATGGGC
62493155 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:62493213 original size:31 final size:31
Alignment explanation
Indices: 62493178--62493252 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
62493168 CGTTTACAGT
62493178 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
62493209 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
62493240 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
62493253 AGTAACCGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:62499381 original size:123 final size:123
Alignment explanation
Indices: 62499162--62499500 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
62499152 GAATTATGTG
*
62499162 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
62499227 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
62499285 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
62499350 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
62499408 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
62499473 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
62499501 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:62499666 original size:40 final size:40
Alignment explanation
Indices: 62499469--62499672 Score: 237
Period size: 40 Copynumber: 5.1 Consensus size: 40
62499459 TGAATGATAC
* * * * **
62499469 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
62499509 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
62499549 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
62499589 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * **
62499629 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
62499669 CCGG
1 CCGG
62499673 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
Found at i:62506760 original size:123 final size:123
Alignment explanation
Indices: 62506541--62506879 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
62506531 GAATTATGTG
*
62506541 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
62506606 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
62506664 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
62506729 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
62506787 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
62506852 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
62506880 AATTATATCG
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:62506983 original size:39 final size:40
Alignment explanation
Indices: 62506848--62507088 Score: 276
Period size: 40 Copynumber: 6.1 Consensus size: 40
62506838 TGAATGATAC
* * * **
62506848 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * *
62506888 -CGGGTTAAGACCC-AAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG-TTATAT
62506926 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
62506966 CC-GGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
62507005 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * ** *
62507045 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
62507085 CCGG
1 CCGG
62507089 TTGTATTCGA
Statistics
Matches: 175, Mismatches: 20, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
38 18 0.10
39 60 0.34
40 95 0.54
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:62507012 original size:79 final size:79
Alignment explanation
Indices: 62506848--62507088 Score: 281
Period size: 79 Copynumber: 3.1 Consensus size: 79
62506838 TGAATGATAC
* * * * * * *
62506848 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCGGGTTAAGACCC-AAGGCAATTG
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGCTAAGACCCGAAGGCATTTG
* *
62506911 TGCTAG-TGACTATAT
65 TGCAAGTTG-TTATAT
* *
62506926 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGCTAATACCCGAAGGCATTTGT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGCTAAGACCCGAAGGCATTTGT
62506991 GCAAGTTGTTATAT
66 GCAAGTTGTTATAT
* * *
62507005 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATATCCGGGCTAAGACCCGAGGGCATTCG
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCC-GGCTAAGACCCGAAGGCATTTG
** *
62507070 TGCGTGTGGTTATAT
65 TGCAAGTTGTTATAT
62507085 CCGG
1 CCGG
62507089 TTGTATTCGA
Statistics
Matches: 141, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
77 1 0.01
78 43 0.30
79 60 0.43
80 37 0.26
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (79 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGCTAAGACCCGAAGGCATTTGT
GCAAGTTGTTATAT
Found at i:62513918 original size:39 final size:39
Alignment explanation
Indices: 62513864--62513942 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
62513854 GTGGACAAAA
* *
62513864 ATAGGCTATTTGCAAAGTGAATTTACCACCTTAATTTTT
1 ATAGGCTATTTGCAAAGTGAATTTACCACCCTAAATTTT
*
62513903 ATAGGCTATTTGCAAAGTGAATTTGCCACCCTAAATTTT
1 ATAGGCTATTTGCAAAGTGAATTTACCACCCTAAATTTT
62513942 A
1 A
62513943 CATACCTGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (39 bp):
ATAGGCTATTTGCAAAGTGAATTTACCACCCTAAATTTT
Found at i:62514861 original size:23 final size:24
Alignment explanation
Indices: 62514829--62514886 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
62514819 AGCTGATGGA
** *
62514829 CAGTAAGCTCTATTGAGCTGTAA-
1 CAGTAAGCTCTAACGAGCTGAAAC
*
62514852 CGGTAAGCTCTAACGAGCTGAAAC
1 CAGTAAGCTCTAACGAGCTGAAAC
62514876 CAGTAAGCTCT
1 CAGTAAGCTCT
62514887 TATGAGTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (24 bp):
CAGTAAGCTCTAACGAGCTGAAAC
Found at i:62518507 original size:17 final size:17
Alignment explanation
Indices: 62518481--62518513 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62518471 TGTGCTAGCC
*
62518481 CGTGTGCCACACACGAG
1 CGTGTCCCACACACGAG
62518498 CGTGTCCCACACACGA
1 CGTGTCCCACACACGA
62518514 CCAGTAGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.12
Consensus pattern (17 bp):
CGTGTCCCACACACGAG
Found at i:62525722 original size:42 final size:42
Alignment explanation
Indices: 62525675--62525759 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
62525665 AATTTCATTC
62525675 ATTCACATTCAATAAGAACTTAAATTGAGCATACAAAGCCTA
1 ATTCACATTCAATAAGAACTTAAATTGAGCATACAAAGCCTA
62525717 ATTCACATTCAATAAGAACTTAAATTGAGCATACAAAGCCTA
1 ATTCACATTCAATAAGAACTTAAATTGAGCATACAAAGCCTA
62525759 A
1 A
62525760 CTCATGCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (42 bp):
ATTCACATTCAATAAGAACTTAAATTGAGCATACAAAGCCTA
Found at i:62526961 original size:42 final size:43
Alignment explanation
Indices: 62526859--62526964 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 43
62526849 CAATCCCGAC
* * * *
62526859 GTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAACATCGATGCCAAT
* * *
62526902 GTCCCAAACA-GGATCTTACACGAAATCAGATA-CGATGCCAAT
1 GTCCCAGACATGG-TCTTACACGAAATCAAACATCGATGCCAAT
62526944 GTCCCAGACATGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
62526965 ACAAAAACAG
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 28 0.53
43 25 0.47
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAACATCGATGCCAAT
Found at i:62533807 original size:31 final size:31
Alignment explanation
Indices: 62533765--62533825 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
62533755 AATGATTTCA
62533765 AGCCCCATTTTTAATGTTCTTTACATTTTTG
1 AGCCCCATTTTTAATGTTCTTTACATTTTTG
*
62533796 AGCCCCGTTTTTAATGTTCTTTACATTTTT
1 AGCCCCATTTTTAATGTTCTTTACATTTTT
62533826 AATGTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.10, T:0.52
Consensus pattern (31 bp):
AGCCCCATTTTTAATGTTCTTTACATTTTTG
Found at i:62533826 original size:18 final size:18
Alignment explanation
Indices: 62533803--62533839 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
62533793 TTGAGCCCCG
62533803 TTTTTAATGTTCTTTACA
1 TTTTTAATGTTCTTTACA
62533821 TTTTTAATGTTCTTTACA
1 TTTTTAATGTTCTTTACA
62533839 T
1 T
62533840 ATCTGTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTTAATGTTCTTTACA
Found at i:62546862 original size:19 final size:20
Alignment explanation
Indices: 62546826--62546863 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
62546816 CACTCTCAAT
* *
62546826 CATATAAACAGTACTTCATC
1 CATATAAACAATAATTCATC
62546846 CATAT-AACAATAATTCAT
1 CATATAAACAATAATTCAT
62546864 TTGTGTAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (20 bp):
CATATAAACAATAATTCATC
Found at i:62554172 original size:18 final size:17
Alignment explanation
Indices: 62554149--62554225 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 17
62554139 TCTTTATAAA
62554149 TTTTATTATACGTTATAT
1 TTTTATTATA-GTTATAT
*
62554167 TTTTATTATATTTATTATT
1 TTTTATTATAGTTA-TA-T
*
62554186 TATTCTATTATATTTATA-
1 T-TT-TATTATAGTTATAT
62554204 TTTTATTATATGTTATAT
1 TTTTATTATA-GTTATAT
62554222 TTTT
1 TTTT
62554226 TCCACATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
16 7 0.14
17 10 0.20
18 17 0.33
19 2 0.04
20 4 0.08
21 11 0.22
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTATTATAGTTATAT
Found at i:62554189 original size:16 final size:16
Alignment explanation
Indices: 62554150--62554223 Score: 59
Period size: 16 Copynumber: 4.8 Consensus size: 16
62554140 CTTTATAAAT
62554150 TTTATTATACGTTATATT-
1 TTTATTATA--TT-TATTA
62554168 TTTATTATATTTATTA
1 TTTATTATATTTATTA
*
62554184 TTTATTCTA-TTA-TA
1 TTTATTATATTTATTA
62554198 TTTA-TAT-TTTATTA
1 TTTATTATATTTATTA
* *
62554212 TATGTTATATTT
1 TTTATTATATTT
62554224 TTTCCACATA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
13 5 0.11
14 10 0.21
15 10 0.21
16 13 0.28
18 9 0.19
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTATTATATTTATTA
Found at i:62565596 original size:90 final size:90
Alignment explanation
Indices: 62565443--62565633 Score: 346
Period size: 90 Copynumber: 2.1 Consensus size: 90
62565433 CGAAGAAACA
*
62565443 GATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT
62565508 TTTCACATCGAAGTAGATCCAAGAT
66 TTTCACATCGAAGTAGATCCAAGAT
* * *
62565533 GATTTGGCATCTCTATATTCGATGGAGAGCAGATCGAAGACATAGTAGATCTAACCTTCGGATGT
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT
62565598 TTTCACATCGAAGTAGATCCAAGAT
66 TTTCACATCGAAGTAGATCCAAGAT
62565623 GATTTGGCATC
1 GATTTGGCATC
62565634 CTTGCGTTTA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 97 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (90 bp):
GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT
TTTCACATCGAAGTAGATCCAAGAT
Found at i:62565745 original size:87 final size:89
Alignment explanation
Indices: 62565443--62565748 Score: 320
Period size: 90 Copynumber: 3.4 Consensus size: 89
62565433 CGAAGAAACA
* * *
62565443 GATTTGGCATCTCCATATT-TGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATG
1 GATTTGGCATCTCTATATTGTTA--GAGAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATG
*
62565507 TTTTCACATCGAAGTAGATCCAAGAT
64 TTTACACATCGAAGTAGATCCAAGAT
* * * *
62565533 GATTTGGCATCTCTATATTCGATGGAGAGCAGATCGAAGACATAGTAGATCTAACCTTCGGATGT
1 GATTTGGCATCTCTATATT-GTTAGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGT
*
62565598 TTTCACATCGAAGTAGATCCAAGAT
65 TTACACATCGAAGTAGATCCAAGAT
** * * * *
62565623 GATTTGGCATC-CT-T-GCGTTTACAAGGAGCAGATCGAAGACATAGCAGATTTGACTTTCACG-
1 GATTTGGCATCTCTATATTG-TTA-GA-GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGA
* * *
62565684 TGTTTACGC-T-GAAGCAGATCTAAGAT
62 TGTTTACACATCGAAGTAGATCCAAGAT
* *
62565710 GATTTGGCATCTCTATATTGTTAGAGAACAAATCGAAGA
1 GATTTGGCATCTCTATATTGTTAGAGAGCAGATCGAAGA
62565749 AACAGATTTG
Statistics
Matches: 183, Mismatches: 24, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
86 1 0.01
87 38 0.21
88 6 0.03
89 42 0.23
90 96 0.52
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (89 bp):
GATTTGGCATCTCTATATTGTTAGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTT
TACACATCGAAGTAGATCCAAGAT
Found at i:62565922 original size:44 final size:44
Alignment explanation
Indices: 62565872--62566015 Score: 225
Period size: 44 Copynumber: 3.3 Consensus size: 44
62565862 TACAAGGAGT
*
62565872 AGATCGAAGATAGCATATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
* * * * * *
62565916 AAATCGAAGATAGCGGATTTGGCATCTCGGTATTGTCAGAGGGT
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
62565960 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
62566004 AGATCGAAGATA
1 AGATCGAAGATA
62566016 ATAGATCTGG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 87 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGC
Found at i:62567928 original size:39 final size:39
Alignment explanation
Indices: 62567840--62567961 Score: 145
Period size: 39 Copynumber: 3.1 Consensus size: 39
62567830 TCGAGTCCAA
* * * * *
62567840 TTTCTAGCACAAAGCCTGCGGGACTTTAAGCCCGGATATA
1 TTTCTAGCACATAGCCTGC-GGACCTCAAGTCCGGATATG
*
62567880 TTTCCAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
1 TTTCTAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
* * * *
62567919 TTTCTAGCACGTAGCCTACGGACCTCAAATCCAGATATG
1 TTTCTAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
62567958 TTTC
1 TTTC
62567962 CAAGTATCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 54 0.76
40 17 0.24
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
TTTCTAGCACATAGCCTGCGGACCTCAAGTCCGGATATG
Found at i:62570125 original size:23 final size:23
Alignment explanation
Indices: 62570095--62570148 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
62570085 TTCTAACCGC
*
62570095 CGTGTACGATGGCACGTGCAGCA
1 CGTGTACGACGGCACGTGCAGCA
*
62570118 CGTGTACGACGGCACGTGCAGCT
1 CGTGTACGACGGCACGTGCAGCA
62570141 CGTGTACG
1 CGTGTACG
62570149 CGTACGGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.19, C:0.28, G:0.35, T:0.19
Consensus pattern (23 bp):
CGTGTACGACGGCACGTGCAGCA
Found at i:62570789 original size:18 final size:18
Alignment explanation
Indices: 62570753--62570848 Score: 63
Period size: 21 Copynumber: 5.1 Consensus size: 18
62570743 TCTTTATAAA
*
62570753 TTTTATTATACAT-TATAT
1 TTTTATTATATATAT-TAT
62570771 TTTTATTATATATATTA-
1 TTTTATTATATATATTAT
* *
62570788 -TTTATTCTATTCTATTTAT
1 TTTTATTATA-TATA-TTAT
*
62570807 ATTTTATTATATGTTATATATT
1 -TTTTATTATAT-ATAT-TA-T
*
62570829 TTTTACTATATATATTAT
1 TTTTATTATATATATTAT
62570847 TT
1 TT
62570849 ATTTTACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
16 8 0.13
17 3 0.05
18 20 0.32
19 3 0.05
20 5 0.08
21 22 0.35
22 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTATTATATATATTAT
Found at i:62570798 original size:21 final size:19
Alignment explanation
Indices: 62570754--62570860 Score: 61
Period size: 21 Copynumber: 5.7 Consensus size: 19
62570744 CTTTATAAAT
*
62570754 TTTATTATAC-AT-TATATT
1 TTTATT-TACTATATATATA
62570772 TTTA-TTA-TATATAT-TA
1 TTTATTTACTATATATATA
*
62570788 TTTATTCTATTCTATTTATAT-
1 TTTATT-TA--CTATATATATA
*
62570809 TTTA-TTA-TATGTTATATA
1 TTTATTTACTAT-ATATATA
62570827 TTT-TTTACTATATATATTA
1 TTTATTTACTATATATA-TA
62570846 TTTATTTTACTATAT
1 TTTA-TTTACTATAT
62570861 TTTTATATGT
Statistics
Matches: 71, Mismatches: 3, Indels: 27
0.70 0.03 0.27
Matches are distributed among these distances:
16 12 0.17
17 11 0.15
18 16 0.23
19 10 0.14
20 1 0.01
21 20 0.28
22 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTATTTACTATATATATA
Found at i:62570851 original size:23 final size:22
Alignment explanation
Indices: 62570800--62570860 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
62570790 TATTCTATTC
*
62570800 TATTTATATTTTA-T-TATATGT
1 TATTTAT-TTTTACTATATATAT
*
62570821 TATATATTTTTTACTATATATAT
1 TATTTA-TTTTTACTATATATAT
62570844 TATTTA-TTTTACTATAT
1 TATTTATTTTTACTATAT
62570861 TTTTATATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 21 0.62
22 2 0.06
23 11 0.32
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTTATTTTTACTATATATAT
Found at i:62570915 original size:33 final size:33
Alignment explanation
Indices: 62570874--62570939 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
62570864 TATATGTAAA
* * *
62570874 ATTACTTATTATATTATTTTTATTATTTTATAT
1 ATTACTTATCATATTATTTATATTATTATATAT
* *
62570907 ATTACTTATCATGTTGTTTATATTATTATATAT
1 ATTACTTATCATATTATTTATATTATTATATAT
62570940 TTTGTTTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (33 bp):
ATTACTTATCATATTATTTATATTATTATATAT
Found at i:62570928 original size:21 final size:21
Alignment explanation
Indices: 62570904--62570949 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
62570894 TATTATTTTA
62570904 TATATTACTTAT-CATGTTGTT
1 TATATTA-TTATACATGTTGTT
* *
62570925 TATATTATTATATATTTTGTT
1 TATATTATTATACATGTTGTT
62570946 TATA
1 TATA
62570950 AAATTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (21 bp):
TATATTATTATACATGTTGTT
Found at i:62573965 original size:46 final size:45
Alignment explanation
Indices: 62573913--62574086 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
62573903 TGTAACCCGC
* *
62573913 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGTAT
*
62573959 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGTAT
* *** * * * * *
62574005 ACATCTCTCGAACTCGGA-TCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGTAT
*
62574051 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
62574087 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 1 0.01
45 11 0.11
46 78 0.75
47 12 0.12
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGTAT
Done.