Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 94 of 322
Found at i:30469212 original size:555 final size:558
Alignment explanation
Indices: 30468189--30469506 Score: 1839
Period size: 555 Copynumber: 2.4 Consensus size: 558
30468179 GCCTTGTTGG
* * * * * **
30468189 ACAGCATTATGTAATTCCTTCAGAGATCTTGCCTCCACAACAGGTAATTTTGATTTGTTATCTGT
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
* * * * * *
30468254 GTCATCCTGTG--GTTCCACAATCATACTTGGAACAATTACTTCCTCAACA-TCAGCTCCTTCAT
66 ATGAT-CTG-GCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGA-CTCCTTCAT
*
30468316 GCAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACA
128 GAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACA
* * * * *
30468381 TTAATCTCAGTCTTCATATCTTTTGATGGTTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGC
193 TTAGTCTCAGTCATCATATCTGTTAATGATTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGC
* * * *
30468446 TGGATTAGATTTCGGAAGTTGTTGAATAGCTTTGTCTATGTCCTCCAGAGATCTTGCCTCGACAA
258 TGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAA
*
30468511 CAGGTAATTTTGATTTGTTATCTCCATGGTCTGGCAGTTTCTCAATCATACTCGGAACAATTACT
323 CAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACT
* * *
30468576 TCCTCAATGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAAATCAATATCTTCGGCTGGTCTTGC
388 TCCTCAACGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGC
**
30468641 TTCAAAAACTGGCAGCACCACATTAGTCTTGGTCTTCGCATCTTTTGATGATTCAATCCTTGAGC
453 TTCAAAAACTGGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAGC
* *
30468706 CTGAAGAA-T-AT-GCTGGATTAGATTTCACAAGTTGTTGA
518 CTGAAGAAGTGATAGCTGGATTAGATTCCACAAGTTGTCGA
* *
30468744 ATAGCTTTGTCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
* *
30468809 AAGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCGACATTGACTCCTTCATGAA
66 ATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGAA
* * *
30468874 GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGACCTTGTTTCAAGAACTGGAAGCACCACATTA
131 GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTA
* *
30468939 GTCTCAGT-ATCGTTATCTGTTAATGATTCATTCCTT-AAGCCTGAAGAATGTGGCGGCTCAGCT
196 GTCTCAGTCATC-ATATCTGTTAATGATTCATTCCTTGAA-CCTGAAGAATGTGGCAGCTCAGCT
*
30469002 GGATTAGA-TTCTGGAAGTTGTCGAACAGCTTTATGTATATCCTCCAGAGATCTTGCCTCGACAA
259 GGATTAGATTTC-GGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAA
* * *
30469066 TAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCGATCATACTTGGAACAATTACT
323 CAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACT
* *
30469131 TCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGG
388 TCCTCAACGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGC
* * * *
30469196 TTCAAGAA-TAGGCAGCACCACATTAGTCTCAGTTTTCGTATCTTTTGATGATTCATTCCTTGAG
453 TTCAAAAACT-GGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAG
* **
30469260 CCTGAAGAATGTGGCGGCTCAGCTGGATTAGATTCCGGAAGTTGTCGA
517 CCTGAAGAA-GT----GAT-AGCTGGATTAGATTCCACAAGTTGTCGA
* * * *
30469308 ACAGCTTTATGTATATCCTCCAGAGACCTTGCCTCGAA-AACAGGTAATTTTGATTTGTTACCTC
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTC-AACAACAGGTAATTTTGATTTGTTATCTC
** * * *
30469372 CATGATCTGGCAGTTTCTTGATCATACTCGGAACAGTTACTTCCTCAACGTCGACTCCTTCATGA
65 CATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGA
* * **
30469437 AGTTGCTTAAAAGTCAAATAAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACTGCATT
130 AGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATT
30469502 AGTCT
195 AGTCT
30469507 TCGCCTTCAT
Statistics
Matches: 673, Mismatches: 73, Indels: 25
0.87 0.09 0.03
Matches are distributed among these distances:
553 1 0.00
554 11 0.02
555 456 0.68
556 2 0.00
557 1 0.00
562 1 0.00
564 199 0.30
565 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (558 bp):
ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
ATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGAA
GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTA
GTCTCAGTCATCATATCTGTTAATGATTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGCTGG
ATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAACAG
GTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCC
TCAACGTCAACTCCTTCATAAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGCTTC
AAAAACTGGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAGCCTG
AAGAAGTGATAGCTGGATTAGATTCCACAAGTTGTCGA
Found at i:30478650 original size:46 final size:47
Alignment explanation
Indices: 30478578--30478716 Score: 147
Period size: 46 Copynumber: 3.0 Consensus size: 47
30478568 GACAGGACAG
* * *
30478578 GACAGAAATGAGCCATGTAAGTCCATATCAG-ATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGGA
*
30478624 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGA-ATATATGGCATTGGA
* * ** * * * *
30478672 GACAAGAATAATTCATGTAAGTCCATGTC-GAAGACATGGCATTGG
1 GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGG
30478717 CAGGATATTG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
46 40 0.51
47 2 0.03
48 36 0.46
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (47 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGAATATATGGCATTGGA
Found at i:30478689 original size:48 final size:46
Alignment explanation
Indices: 30478588--30478697 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 46
30478578 GACAGAAATG
* * *
30478588 AGCCATGTAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATG
1 AGCCATGTAAGTCCATATCAGATATATGGCATTGGAGACAAGAATA
* *
30478634 AGCCATGTAAGCCCATATTAGATATATATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATCAG--ATATATGGCATTGGAGACAAGAATA
**
30478682 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
30478698 GTCGAAGACA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
46 19 0.35
48 35 0.65
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (46 bp):
AGCCATGTAAGTCCATATCAGATATATGGCATTGGAGACAAGAATA
Found at i:30488948 original size:21 final size:21
Alignment explanation
Indices: 30488922--30488964 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
30488912 ATCTCAGAAT
*
30488922 ACTTCTGCGGCCAGTGTAGGG
1 ACTTCTGCAGCCAGTGTAGGG
30488943 ACTTCTGCAGCCAGTGTAGGG
1 ACTTCTGCAGCCAGTGTAGGG
30488964 A
1 A
30488965 ACTCGAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.35, T:0.23
Consensus pattern (21 bp):
ACTTCTGCAGCCAGTGTAGGG
Found at i:30498317 original size:45 final size:44
Alignment explanation
Indices: 30498252--30498336 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
30498242 CATCAAATAC
* * *
30498252 TATTAAAATAACTTACACTAATTAGAGTTTTAAGTGGGAAACTAA
1 TATTAAAATAACCTACACTAATCAGAG-TTTAAGTGAGAAACTAA
*
30498297 TATTAAAATAACCTATACTAATCAGAGTTTAAGTGAGAAA
1 TATTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAA
30498337 TTAGAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 12 0.33
45 24 0.67
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (44 bp):
TATTAAAATAACCTACACTAATCAGAGTTTAAGTGAGAAACTAA
Found at i:30510355 original size:32 final size:31
Alignment explanation
Indices: 30510310--30510373 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
30510300 AGTTATTAAT
*
30510310 ATTTTAAAATATATAGAATAAAAA-ATTATAA
1 ATTTTAAAATATATACAATAAAAATA-TATAA
*
30510341 ATTTATAAAATATATACAATTAAAATATATAA
1 ATTT-TAAAATATATACAATAAAAATATATAA
30510373 A
1 A
30510374 AATCCTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
32 24 0.83
33 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (31 bp):
ATTTTAAAATATATACAATAAAAATATATAA
Found at i:30510356 original size:9 final size:9
Alignment explanation
Indices: 30510314--30510425 Score: 51
Period size: 9 Copynumber: 12.8 Consensus size: 9
30510304 ATTAATATTT
30510314 TAAAATATA
1 TAAAATATA
*
30510323 TAGAATA-A
1 TAAAATATA
30510331 -AAAAT-TA
1 TAAAATATA
*
30510338 T-AAATTTA
1 TAAAATATA
30510346 TAAAATATA
1 TAAAATATA
*
30510355 T-ACA-AT-
1 TAAAATATA
30510361 TAAAATATA
1 TAAAATATA
*
30510370 TAAAA-ATCC
1 TAAAATAT-A
* *
30510379 TATAATATTT
1 TAAAATA-TA
30510389 TGAAAATATA
1 T-AAAATATA
*
30510399 TAAAATTTA
1 TAAAATATA
*
30510408 CAATAATATA
1 TAA-AATATA
30510418 TATAAATA
1 TA-AAATA
30510426 AAAACATTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 25
0.66 0.12 0.22
Matches are distributed among these distances:
6 1 0.01
7 13 0.17
8 10 0.13
9 31 0.41
10 14 0.18
11 7 0.09
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (9 bp):
TAAAATATA
Found at i:30515778 original size:71 final size:72
Alignment explanation
Indices: 30515661--30515802 Score: 252
Period size: 71 Copynumber: 2.0 Consensus size: 72
30515651 TTCGCCTTTG
*
30515661 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCGATTTAAA-TGGTACGTAAAATCA
1 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACT-GTACGTAAAATCA
30515725 TAAGAGGA
65 TAAGAGGA
30515733 AATTAAATATACTTTATTT-AAAATTGGATTTTGATCTCTCAATTTAAACTGTACGTAAAATCAT
1 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACTGTACGTAAAATCAT
30515797 AAGAGG
66 AAGAGG
30515803 CAACCATGTT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
71 48 0.71
72 20 0.29
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (72 bp):
AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACTGTACGTAAAATCAT
AAGAGGA
Found at i:30519358 original size:48 final size:48
Alignment explanation
Indices: 30519237--30519359 Score: 201
Period size: 48 Copynumber: 2.6 Consensus size: 48
30519227 ATGTGTGCTA
* *
30519237 GTATAAGACCATGTCCGAGACATGACATCGGCACTAACATGAAACCTC
1 GTATAAGACCATGTCCGAGACATGGCATCGACACTAACATGAAACCTC
*
30519285 GTATAAGACCATGTCCGGGACATGGCATCGACACTAACATGAAACCTC
1 GTATAAGACCATGTCCGAGACATGGCATCGACACTAACATGAAACCTC
* *
30519333 GTATAAGACCATATCCGAGATATGGCA
1 GTATAAGACCATGTCCGAGACATGGCA
30519360 ACGATATGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (48 bp):
GTATAAGACCATGTCCGAGACATGGCATCGACACTAACATGAAACCTC
Found at i:30520985 original size:94 final size:90
Alignment explanation
Indices: 30520867--30521081 Score: 315
Period size: 94 Copynumber: 2.3 Consensus size: 90
30520857 TTTGTGTGCC
* * *
30520867 AGTGTAAAACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGA-CATGTCTGG
30520932 GACATGGCATCGGC-ATTGAGATGAGGGCT
65 GACAT-GCATCGGCTA-TGAGAT--GGGCT
* *
30520961 AGTGTAAGACATGCCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
* *
30521026 ACATGCGTCGGCTATGAGATGTGCT
66 ACATGCATCGGCTATGAGATGGGCT
30521051 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
30521082 ATGATTACAT
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
90 33 0.30
92 13 0.12
93 15 0.14
94 50 0.45
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCTATGAGATGGGCT
Found at i:30521002 original size:46 final size:45
Alignment explanation
Indices: 30520864--30521081 Score: 235
Period size: 46 Copynumber: 4.8 Consensus size: 45
30520854 AGATTTGTGT
* * *
30520864 GCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGAGA
* *
30520910 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGATGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CAGATGAGA
* * *
30520958 GCTAGTGTAAGACATGCCTGGGACATGCATCAGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAG-ATGAGA
* * * *
30521004 GCCAGTGTAAGACATGTCTGGGACATGCGTCGGCTA-TGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA-GA
*
30521048 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
30521082 ATGATTACAT
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
43 2 0.01
44 34 0.23
45 3 0.02
46 53 0.36
47 31 0.21
48 22 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAGA
Found at i:30521103 original size:90 final size:89
Alignment explanation
Indices: 30520861--30521126 Score: 279
Period size: 90 Copynumber: 2.9 Consensus size: 89
30520851 ATAAGATTTG
* *
30520861 TGTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACATT-ATGATAGCCAGTGTAAGACCA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTAATG-T-GCCAGTGTAAGA-CA
30520925 TGTCTGGGACATGGCATCGGCATTGAGA
62 TGTCTGGGACATGGCATCGGCATTGAGA
* * * * *
30520953 TGAGGGCTAGTGTAAGACATGCCTGGGACATGCATCAGCCACAGT-ATGAGAGCCAGTGTAAGAC
1 T--GTGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCACATTAAT--GTGCCAGTGTAAGAC
*
30521017 ATGTCTGGGACAT-GCGTCGGC-TATGAGA
61 ATGTCTGGGACATGGCATCGGCAT-TGAGA
* * * *
30521045 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGATTACATGTGTCAATGTAAGACCTG
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-CATTA-ATGTGCCAGTGTAAGACATG
*
30521110 TCTGGGACACGGCATCG
64 TCTGGGACATGGCATCG
30521127 ACACAGATGG
Statistics
Matches: 145, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
89 3 0.02
90 56 0.39
91 6 0.04
92 16 0.11
93 14 0.10
94 48 0.33
95 1 0.01
96 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (89 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACATTAATGTGCCAGTGTAAGACATGTC
TGGGACATGGCATCGGCATTGAGA
Found at i:30521112 original size:46 final size:44
Alignment explanation
Indices: 30520869--30521118 Score: 148
Period size: 46 Copynumber: 5.5 Consensus size: 44
30520859 TGTGTGCCAG
* * * * * *
30520869 TGTAAAACATGTCTGGGACATGCATCGGCCA-CATTATGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTATGA-CATG-T-GCTAA
* * *
30520915 TGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGATGAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGACAT--GTGCTAA
* * * * * * * *
30520963 TGTAAGACATGCCTGGGACATGCATCAGCCA-CAGTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTATGA-CAT--GTGCTAA
* * *
30521009 TGTAAGACATGTCTGGGACATGCGTCGGCTATGAGATGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTATGACATGTGCTAA
*
30521053 TGTAAGACATGTCTGGGACATGCATCGGCATGATTACATGTG-TCAA
1 TGTAAGACATGTCTGGGACATGCATCGGC-T-ATGACATGTGCT-AA
*
30521099 TGTAAGACCTGTCTGGGACA
1 TGTAAGACATGTCTGGGACA
30521119 CGGCATCGAC
Statistics
Matches: 168, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
44 33 0.20
45 3 0.02
46 79 0.47
47 30 0.18
48 21 0.12
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTATGACATGTGCTAA
Found at i:30524495 original size:48 final size:48
Alignment explanation
Indices: 30524424--30524531 Score: 175
Period size: 48 Copynumber: 2.2 Consensus size: 48
30524414 ATGTGTGCTA
*
30524424 GTATAAGACCATGTTCGGGACATGGCATTGGA-ATTAACATGAAACCTC
1 GTATAAGACCATGTTCGGGACATGGCA-TGGACACTAACATGAAACCTC
30524472 GTATAAGACCATG-TCTGGGACATGGCATGGACACTAACATGAAACCTC
1 GTATAAGACCATGTTC-GGGACATGGCATGGACACTAACATGAAACCTC
30524520 GTATAAGACCAT
1 GTATAAGACCAT
30524532 ATCCGGGATA
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
47 6 0.11
48 51 0.89
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (48 bp):
GTATAAGACCATGTTCGGGACATGGCATGGACACTAACATGAAACCTC
Found at i:30527898 original size:27 final size:27
Alignment explanation
Indices: 30527868--30528045 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
30527858 ATATTGAGCC
* * *
30527868 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
30527895 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
30527922 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
30527950 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
30527977 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
30528004 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
30528031 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30528046 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:30527961 original size:55 final size:55
Alignment explanation
Indices: 30527868--30528045 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
30527858 ATATTGAGCC
* * *
30527868 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
30527922 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
30527977 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
30528031 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30528046 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:30528007 original size:82 final size:81
Alignment explanation
Indices: 30527889--30528044 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
30527879 TGCTATACAA
* * *
30527889 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
30527954 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
30527971 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
30528035 CACTTAGTGC
65 CACTTAGTGC
30528045 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30532528 original size:29 final size:28
Alignment explanation
Indices: 30532473--30532583 Score: 132
Period size: 29 Copynumber: 3.9 Consensus size: 28
30532463 GTAAGCATGA
* * *
30532473 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
30532501 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
30532530 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
30532559 ATATGAATATGATTGGGCATAATGG
1 ATATAAATGTGATTGGGCCTAATGG
30532584 ATCAGATACA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 23 0.32
29 49 0.68
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:30536960 original size:32 final size:32
Alignment explanation
Indices: 30536924--30536984 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
30536914 ATGAATCGGC
*
30536924 AAAAGCCAAAATGCTAAAATGCCGAAAAGTCG
1 AAAAGCCAAAATGCCAAAATGCCGAAAAGTCG
* *
30536956 AAAAGTCGAAATGCCAAAATGCCGAAAAG
1 AAAAGCCAAAATGCCAAAATGCCGAAAAG
30536985 CCAAAAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.11
Consensus pattern (32 bp):
AAAAGCCAAAATGCCAAAATGCCGAAAAGTCG
Found at i:30536981 original size:16 final size:15
Alignment explanation
Indices: 30536923--30536991 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 15
30536913 AATGAATCGG
30536923 CAAAAGCC-AAAATGC
1 CAAAAGCCGAAAA-GC
*
30536938 TAAAATGCCGAAAAGTC
1 CAAAA-GCCGAAAAG-C
* * *
30536955 GAAAAGTCGAAATGC
1 CAAAAGCCGAAAAGC
30536970 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
30536986 CAAAAG
1 CAAAAG
30536992 TTGGGCTACG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
15 10 0.23
16 24 0.56
17 9 0.21
ACGTcount: A:0.51, C:0.20, G:0.19, T:0.10
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:30537119 original size:19 final size:19
Alignment explanation
Indices: 30537097--30537152 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
30537087 AGAATTGGCC
* *
30537097 AAATGGGTCGGAATGGGCT
1 AAATGGGCCGAAATGGGCT
*
30537116 AAATAGGCCGAAATGGGCT
1 AAATGGGCCGAAATGGGCT
*
30537135 AAATGGGCC-AGATGGGCT
1 AAATGGGCCGAAATGGGCT
30537153 GTTGGGCCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 8 0.25
19 24 0.75
ACGTcount: A:0.30, C:0.14, G:0.38, T:0.18
Consensus pattern (19 bp):
AAATGGGCCGAAATGGGCT
Found at i:30537265 original size:29 final size:29
Alignment explanation
Indices: 30537233--30537339 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
30537223 ATAATATGAT
*
30537233 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * **
30537262 TTGGGCCTAGTGGGCCATAAGAATTTGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * *
30537291 CTGGGCC-AGATGGGCCATTTGAGTAAG-A
1 TTGGGCCTA-ATGGGCCATATGAATAAGAA
*
30537319 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
30537340 CATGTAAGTA
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 18 0.29
29 44 0.71
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATAAGAA
Found at i:30541351 original size:19 final size:18
Alignment explanation
Indices: 30541329--30541365 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
30541319 AGAATTGGTC
30541329 AAATGGGCCGGAATGGGCT
1 AAATGGGCC-GAATGGGCT
*
30541348 AAATGGGCCTAATGGGCT
1 AAATGGGCCGAATGGGCT
30541366 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.19
Consensus pattern (18 bp):
AAATGGGCCGAATGGGCT
Found at i:30577012 original size:28 final size:28
Alignment explanation
Indices: 30576972--30577026 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
30576962 TTGAGTCTGA
*
30576972 TGGGCCATATGAATGTGATTAGGCCTAC
1 TGGGCCATATGAATGAGATTAGGCCTAC
* *
30577000 TGGGCCATGTGAATGAGATTGGGCCTA
1 TGGGCCATATGAATGAGATTAGGCCTA
30577027 AAGGGGCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (28 bp):
TGGGCCATATGAATGAGATTAGGCCTAC
Found at i:30577042 original size:29 final size:28
Alignment explanation
Indices: 30576973--30577042 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
30576963 TGAGTCTGAT
* **
30576973 GGGCCATATGAATGTGATTAGGCCTACT
1 GGGCCATATGAATGAGATTAGGCCTAAG
* *
30577001 GGGCCATGTGAATGAGATTGGGCCTAAAG
1 GGGCCATATGAATGAGATTAGGCCT-AAG
*
30577030 GGGCCAAATGAAT
1 GGGCCATATGAAT
30577043 AAGTGTGGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 22 0.65
29 12 0.35
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.23
Consensus pattern (28 bp):
GGGCCATATGAATGAGATTAGGCCTAAG
Found at i:30577373 original size:27 final size:27
Alignment explanation
Indices: 30577343--30577816 Score: 279
Period size: 27 Copynumber: 17.6 Consensus size: 27
30577333 TAATAAAGTG
30577343 AAATTACCGAAATACCCCTAGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* *
30577370 AAATTACCGAAATACCCCCAATTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* * *
30577397 AAATTATCGAAGTACCCCCAGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* * * **
30577424 AAACTATCGAAATGCCCCCGGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
** * **
30577451 AAATTACTAAAATA-CCCTCGATTTAAA
1 AAATTACCGAAATACCCCTAG-TTTGTA
* * *
30577478 AAATTACTGAAATA-CCTTTGATTTGTA
1 AAATTACCGAAATACCCCTAG-TTTGTA
** **
30577505 AAATTACCGAAGCACCCCCGGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* *
30577532 AAATTACTGAAATACCCC-CGATTTGTA
1 AAATTACCGAAATACCCCTAG-TTTGTA
* *
30577559 AAATTACCGAAGTACCCCCAGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* *
30577586 AAATTACCGAAATA-CCTTCAATTTGTA
1 AAATTACCGAAATACCCCT-AGTTTGTA
* * * *
30577613 AAATTATCGAAATA-CTCTCGATTTGCA
1 AAATTACCGAAATACCCCTAG-TTTGTA
* * *
30577640 AAATTACTGAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* * * *
30577667 AAATTATCGAAATA-CCCTCGATGGTA
1 AAATTACCGAAATACCCCTAGTTTGTA
* ** *
30577693 GAATTATTGAAATA-CCCTCAATTTGTA
1 AAATTACCGAAATACCCCT-AGTTTGTA
** *
30577720 AAATTA-TTAAA-ACACCCTCGATTTGTA
1 AAATTACCGAAATAC-CCCTAG-TTTGTA
** * *
30577747 AAATTATTGAAACACCCC-CGATTTGTA
1 AAATTACCGAAATACCCCTAG-TTTGTA
* * *
30577774 AAATTATC-AATATA-CCCTTGTAGTGTA
1 AAATTACCGAA-ATACCCCTAGT-TTGTA
*
30577801 AAATTACTGAAATACC
1 AAATTACCGAAATACC
30577817 TTTGTAGTGT
Statistics
Matches: 352, Mismatches: 77, Indels: 35
0.76 0.17 0.08
Matches are distributed among these distances:
25 1 0.00
26 40 0.11
27 293 0.83
28 16 0.05
29 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTAGTTTGTA
Found at i:30577425 original size:54 final size:53
Alignment explanation
Indices: 30577343--30577816 Score: 414
Period size: 54 Copynumber: 8.8 Consensus size: 53
30577333 TAATAAAGTG
* * *
30577343 AAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCCAATTTGTA
1 AAATTATCGAAATACCCC-CGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * **
30577397 AAATTATCGAAGTACCCCCAGTTTGTAAAACTA-TCGAAATGCCCCCGGTTTGTA
1 AAATTATCGAAATACCCCC-GTTTGTAAAATTACT-GAAATACCCCCAATTTGTA
* * ** ****
30577451 AAATTA-CTAAAATACCCTCGATTTAAAAAATTACTGAAATACCTTTGATTTGTA
1 AAATTATC-GAAATACCCCCG-TTTGTAAAATTACTGAAATACCCCCAATTTGTA
* ** *
30577505 AAATTACCGAAGCACCCCCGGTTTGTAAAATTACTGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCCC-GTTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * **
30577559 AAATTACCGAAGTACCCCCAGTTTGTAAAATTACCGAAATACCTTCAATTTGTA
1 AAATTATCGAAATACCCCC-GTTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * **
30577613 AAATTATCGAAATACTCTCGATTTGCAAAATTACTGAAATACCCTTAATTTGTA
1 AAATTATCGAAATACCCCCG-TTTGTAAAATTACTGAAATACCCCCAATTTGTA
* * * * * *
30577667 AAATTATCGAAATACCCTCGATGGTAGAATTATTGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCCCGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
** * * * * *
30577720 AAATTATTAAAACACCCTCGATTTGTAAAATTATTGAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCCCG-TTTGTAAAATTACTGAAATACCCCCAATTTGTA
** *
30577774 AAATTATC-AATATACCCTTGTAGTGTAAAATTACTGAAATACC
1 AAATTATCGAA-ATACCCCCGT-TTGTAAAATTACTGAAATACC
30577817 TTTGTAGTGT
Statistics
Matches: 345, Mismatches: 64, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
53 50 0.14
54 292 0.85
55 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
AAATTATCGAAATACCCCCGTTTGTAAAATTACTGAAATACCCCCAATTTGTA
Found at i:30577503 original size:81 final size:80
Alignment explanation
Indices: 30577343--30577816 Score: 409
Period size: 81 Copynumber: 5.9 Consensus size: 80
30577333 TAATAAAGTG
* ** * * *
30577343 AAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTA-TCGA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACT-GA
* **
30577407 AGTACCC-CCAGTTTGTA
64 AATACCCTTGA-TTTGTA
* * * **
30577424 AAACTATCGAAATGCCCCCGGTTTGTAAAATTACTAAAATACCCTCGATTTAAAAAATTACTGAA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACTGAA
*
30577489 ATACCTTTGATTTGTA
65 ATACCCTTGATTTGTA
* ** * *
30577505 AAATTACCGAAGCACCCCCGGTTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATTACCGAA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACTGAA
* **
30577570 GTACCC-CCAGTTTGTA
65 ATACCCTTGA-TTTGTA
* ** ** * *
30577586 AAATTACCGAAATACCTTCAATTTGTAAAATTATCGAAATACTCTCGATTTGCAAAATTACTGAA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTAT-GAAATACCCTCGATTTGTAAAATTACTGAA
*
30577651 ATACCCTTAATTTGTA
65 ATACCCTTGATTTGTA
* * * * * * *
30577667 AAATTATCGAAATACCCTC-GATGGTAGAATTATTGAAATACCCTCAATTTGTAAAATTATTAAA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTA-TGAAATACCCTCGATTTGTAAAATTACTGAA
* *
30577731 ACACCCTCGATTTGTA
65 ATACCCTTGATTTGTA
* * * * * *
30577747 AAATTATTGAAACACCCCCGATTTGTAAAATTATCAATATACCCTTG-TAGTGTAAAATTACTGA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTATGAA-ATACCCTCGAT-TTGTAAAATTACTGA
30577811 AATACC
64 AATACC
30577817 TTTGTAGTGT
Statistics
Matches: 314, Mismatches: 70, Indels: 18
0.78 0.17 0.04
Matches are distributed among these distances:
80 69 0.22
81 242 0.77
82 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (80 bp):
AAATTATCGAAATACCCCCGGTTTGTAAAATTATGAAATACCCTCGATTTGTAAAATTACTGAAA
TACCCTTGATTTGTA
Found at i:30577821 original size:27 final size:27
Alignment explanation
Indices: 30577770--30577831 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
30577760 ACCCCCGATT
30577770 TGTAAAATTATCAATATACCCTTGTAG
1 TGTAAAATTATCAATATACCCTTGTAG
* *
30577797 TGTAAAATTACTGAA-ATACCTTTGTAG
1 TGTAAAATTA-TCAATATACCCTTGTAG
30577824 TGTAAAAT
1 TGTAAAAT
30577832 GACCGACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (27 bp):
TGTAAAATTATCAATATACCCTTGTAG
Found at i:30577842 original size:27 final size:27
Alignment explanation
Indices: 30577785--30577861 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
30577775 AATTATCAAT
* *
30577785 ATACCCTTGTAGTGTAAAATTACTGAA
1 ATACCCTTGTAGTGTAAAATGACCGAA
* *
30577812 ATACCTTTGTAGTGTAAAATGACCGAC
1 ATACCCTTGTAGTGTAAAATGACCGAA
* * *
30577839 ATACCCCTGCAGGGTAAAATGAC
1 ATACCCTTGTAGTGTAAAATGAC
30577862 TGTTTTGCCC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
ATACCCTTGTAGTGTAAAATGACCGAA
Found at i:30578049 original size:120 final size:120
Alignment explanation
Indices: 30577836--30578196 Score: 713
Period size: 120 Copynumber: 3.0 Consensus size: 120
30577826 TAAAATGACC
30577836 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
1 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
30577901 AATTTGACTGATTTGATTATGAATGTATGACTACGTTTTAATTGACTTGACTGTG
66 AATTTGACTGATTTGATTATGAATGTATGACTACGTTTTAATTGACTTGACTGTG
30577956 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
1 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
30578021 AATTTGACTGATTTGATTATGAATGTATGACTACGTTTTAATTGACTTGACTGTG
66 AATTTGACTGATTTGATTATGAATGTATGACTACGTTTTAATTGACTTGACTGTG
30578076 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
1 GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
*
30578141 AATTTGACTGATTTGATTATGAATATATGACTACGTTTTAATTGACTTGACTGTG
66 AATTTGACTGATTTGATTATGAATGTATGACTACGTTTTAATTGACTTGACTGTG
30578196 G
1 G
30578197 TTGTATGACT
Statistics
Matches: 240, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 240 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (120 bp):
GACATACCCCTGCAGGGTAAAATGACTGTTTTGCCCTTGAGGGTAAATGAACGACTTACACTTCG
AATTTGACTGATTTGATTATGAATGTATGACTACGTTTTAATTGACTTGACTGTG
Found at i:30580004 original size:32 final size:32
Alignment explanation
Indices: 30579963--30580028 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
30579953 TTCCTAAGGT
30579963 TCAACAGGGATTTCACATTTGACGAATCATCG
1 TCAACAGGGATTTCACATTTGACGAATCATCG
30579995 TCAACAGGGATTTCACATTTGACGAATCATCG
1 TCAACAGGGATTTCACATTTGACGAATCATCG
30580027 TC
1 TC
30580029 GAATGTATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (32 bp):
TCAACAGGGATTTCACATTTGACGAATCATCG
Found at i:30583225 original size:44 final size:42
Alignment explanation
Indices: 30583099--30583251 Score: 141
Period size: 44 Copynumber: 3.6 Consensus size: 42
30583089 GTATCAGATG
* * *
30583099 TGGTCTTACA-TGTAATCACATATCGATGCCACTATCCTAGACA
1 TGGTCTTACACT-AAATCACATATCGATGCCAC-GTCCCAGACA
* * * *
30583142 GGGTCTTACAC-AAA-CTCATATACGATGCTGATGTCCCAGACA
1 TGGTCTTACACTAAATCACATAT-CGATGC-CACGTCCCAGACA
* *
30583184 TGGTCTTACACGTAAATCACAAATCGATGCCAACGTCCCAGACG
1 TGGTCTTACAC-TAAATCACATATCGATGCC-ACGTCCCAGACA
*
30583228 TGGTCTTACACAAAATCACATATC
1 TGGTCTTACACTAAATCACATATC
30583252 AAAATCCTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
41 6 0.07
42 26 0.30
43 21 0.24
44 30 0.34
45 5 0.06
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
TGGTCTTACACTAAATCACATATCGATGCCACGTCCCAGACA
Found at i:30586543 original size:40 final size:40
Alignment explanation
Indices: 30586467--30586543 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
30586457 AATTACTCCC
* * * ** *
30586467 TGAATTGTACATACGTGCTCCTATTTGTACTTCGGTACCT
1 TGAATTGCACATAAGTGCCCCTATTTACACTCCGGTACCT
*
30586507 TGAATTGCACATAAGTGCCCCTGTTTACACTCCGGTA
1 TGAATTGCACATAAGTGCCCCTATTTACACTCCGGTA
30586544 ACTTTAACTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
TGAATTGCACATAAGTGCCCCTATTTACACTCCGGTACCT
Found at i:30588045 original size:37 final size:37
Alignment explanation
Indices: 30587995--30588071 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
30587985 ACAAATACAG
*
30587995 AGGAGCATTCTTACGCACTAATGAATAGAGAGCACTA
1 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
30588032 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
1 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
30588069 AGG
1 AGG
30588072 TGTTATACTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (37 bp):
AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
Found at i:30588087 original size:22 final size:22
Alignment explanation
Indices: 30588059--30588121 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
30588049 CTAATGAACA
* * *
30588059 GAGAGCACTAAGGTGTTATACT
1 GAGAGCACTAAGGTGCTAAACG
*
30588081 GAGAGCA-TGAATGTGCTAAACG
1 GAGAGCACT-AAGGTGCTAAACG
*
30588103 GAGAGCACTAATGTGCTAA
1 GAGAGCACTAAGGTGCTAA
30588122 CAATCGAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (22 bp):
GAGAGCACTAAGGTGCTAAACG
Found at i:30589457 original size:28 final size:29
Alignment explanation
Indices: 30589417--30589529 Score: 104
Period size: 29 Copynumber: 4.0 Consensus size: 29
30589407 CATGTATCTA
* * *
30589417 GCCCATTAAGCCC-AATCATATTCATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
* * *
30589445 GCCCGTTAGGCCCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
* *
30589474 GTCAATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATTTATATG
** * *
30589503 GCCTGTTAGGCCC-AGTCATATTTATAT
1 GCCCATTAGGCCCAAATCACATTTATAT
30589530 TCATGCTCAC
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 23 0.34
29 45 0.66
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTTATATG
Found at i:30589753 original size:8 final size:8
Alignment explanation
Indices: 30589740--30589782 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
30589730 GTAGCCAAAC
30589740 TTTCGGCT
1 TTTCGGCT
*
30589748 TTTCGGCA
1 TTTCGGCT
*
30589756 TTTCAGCT
1 TTTCGGCT
*
30589764 TTTCGGCA
1 TTTCGGCT
30589772 TTTCGGCT
1 TTTCGGCT
30589780 TTT
1 TTT
30589783 ACCGATTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.07, C:0.23, G:0.21, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:30589764 original size:16 final size:16
Alignment explanation
Indices: 30589740--30589782 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
30589730 GTAGCCAAAC
30589740 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
30589756 TTTCAGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
30589772 TTTCGGCTTTT
1 TTTCGGCTTTT
30589783 ACCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.23, G:0.21, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:30593980 original size:29 final size:29
Alignment explanation
Indices: 30593894--30594003 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 29
30593884 AAATTAACAT
* * *
30593894 ACATGTATCTAGCCCATTAAGCCC-AATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
* **
30593922 ATATCCATATGGCCCATT-GGCCCAAATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
*
30593950 ACCTGTATATGGCCCATTAGGCCCAAATC
1 ACATGTATATGGCCCATTAGGCCCAAATC
* *
30593979 ACATTTATATGGCCCGTTAGGCCCA
1 ACATGTATATGGCCCATTAGGCCCA
30594004 GTCACATTCA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
27 4 0.06
28 31 0.46
29 32 0.48
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATGTATATGGCCCATTAGGCCCAAATC
Found at i:30594259 original size:16 final size:16
Alignment explanation
Indices: 30594240--30594284 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
30594230 AGCTTTTCAA
30594240 CATTTCGACTTTTCGG
1 CATTTCGACTTTTCGG
*
30594256 CATTTC-AGTTTTTCGG
1 CATTTCGA-CTTTTCGG
*
30594272 CATTTCGGCTTTT
1 CATTTCGACTTTT
30594285 ACCGATTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.11, C:0.22, G:0.18, T:0.49
Consensus pattern (16 bp):
CATTTCGACTTTTCGG
Found at i:30599306 original size:25 final size:25
Alignment explanation
Indices: 30599275--30599358 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 25
30599265 TTTCTCATCG
*
30599275 AAATTTTGCTCCAATAAAATTTTGA
1 AAATTTTACTCCAATAAAATTTTGA
** * *
30599300 TGATTTTACCCCCGATAAAATTTTGA
1 AAATTTTA-CTCCAATAAAATTTTGA
30599326 AAATTTTACTCCAAGTAAAATTTTGA
1 AAATTTTACTCCAA-TAAAATTTTGA
30599352 GAAATTT
1 -AAATTT
30599359 CATTCAATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
25 9 0.19
26 32 0.68
27 6 0.13
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (25 bp):
AAATTTTACTCCAATAAAATTTTGA
Found at i:30599518 original size:18 final size:18
Alignment explanation
Indices: 30599492--30599527 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30599482 GGATTGCAAG
*
30599492 TTTCAATTTTCATTTTCA
1 TTTCAATTTCCATTTTCA
*
30599510 TTTCCATTTCCATTTTCA
1 TTTCAATTTCCATTTTCA
30599528 ATTTTGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCAATTTCCATTTTCA
Found at i:30603299 original size:8 final size:10
Alignment explanation
Indices: 30603232--30603310 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
30603222 CCCAGTTCTA
*
30603232 AAAAATAAAT
1 AAAAATATAT
30603242 AAATAAATATAT
1 -AA-AAATATAT
* *
30603254 GAAAATACAT
1 AAAAATATAT
*
30603264 AAATAT-TAT
1 AAAAATATAT
30603273 ACAAAATATAAT
1 A-AAAATAT-AT
30603285 AATAAAT-T-T
1 AA-AAATATAT
30603294 AAAAATATAT
1 AAAAATATAT
30603304 AAAAATA
1 AAAAATA
30603311 AAATTTGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
8 4 0.07
9 7 0.13
10 23 0.43
11 6 0.11
12 14 0.26
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:30603642 original size:27 final size:24
Alignment explanation
Indices: 30603572--30603644 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 24
30603562 ATATAAAATT
30603572 AAATTTTATTATTATCT-TTTTTTA
1 AAATTTTATTATTAT-TATTTTTTA
* *
30603596 AAATAGTTATGTATTTTTATATATTTTA
1 AAAT-TTTAT-TATTATTAT-T-TTTTA
30603624 AAATTTTATATATTATTATTT
1 AAATTTTAT-TATTATTATTT
30603645 CTTGTCAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
24 4 0.10
25 6 0.15
26 7 0.18
27 13 0.33
28 9 0.23
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (24 bp):
AAATTTTATTATTATTATTTTTTA
Found at i:30604747 original size:37 final size:36
Alignment explanation
Indices: 30604696--30604771 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
30604686 ATTCCAAAAA
*
30604696 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
30604732 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
30604769 TAA
1 TAA
30604772 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:30605718 original size:19 final size:19
Alignment explanation
Indices: 30605696--30605734 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30605686 ATCTATATGT
*
30605696 TTTATAATTAT-TTATAATA
1 TTTAT-ATTATGTAATAATA
30605715 TTTATATTATGTAATAATA
1 TTTATATTATGTAATAATA
30605734 T
1 T
30605735 AATTATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTATATTATGTAATAATA
Found at i:30612524 original size:11 final size:11
Alignment explanation
Indices: 30612449--30612524 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
30612439 ATTCTAAAAA
*
30612449 TAATATTATTT
1 TAATATTAATT
30612460 TAATAGTTTAATAT
1 TAATA--TTAAT-T
30612474 TAA-ATTAAATT
1 TAATATT-AATT
*
30612485 TAATATTTATCT
1 TAATATTAAT-T
*
30612497 TAATAGT-ATT
1 TAATATTAATT
30612507 T--TATTAATT
1 TAATATTAATT
30612516 TAATATTAA
1 TAATATTAA
30612525 AGTAATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 5 0.10
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:30612585 original size:68 final size:68
Alignment explanation
Indices: 30612467--30612593 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
30612457 TTTTAATAGT
** * *
30612467 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTAATT
1 TTAATATTAAATTAAATTTAATATAGATCTTAATAGTATTTAATAAATTTAATATTAAAGTAATT
30612532 ATC
66 ATC
* *
30612535 TTAATATTAAATTAAATTTAATATAGA-CATT-CTATTATTTAATAAGATTTAATATTAAA
1 TTAATATTAAATTAAATTTAATATAGATC-TTAATAGTATTTAATAA-ATTTAATATTAAA
30612594 TTTAATCTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
67 11 0.22
68 40 0.78
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (68 bp):
TTAATATTAAATTAAATTTAATATAGATCTTAATAGTATTTAATAAATTTAATATTAAAGTAATT
ATC
Found at i:30613749 original size:22 final size:22
Alignment explanation
Indices: 30613724--30613810 Score: 111
Period size: 22 Copynumber: 4.0 Consensus size: 22
30613714 CACTAAGTCA
* *
30613724 ACAGGGCGGCTCAACACCGTAG
1 ACAGGACGGCTCAACGCCGTAG
*
30613746 ACAGGACGGCTCAACGCCATAG
1 ACAGGACGGCTCAACGCCGTAG
*
30613768 ACAGGACGGCTCAACGCTGTAG
1 ACAGGACGGCTCAACGCCGTAG
* * *
30613790 ACAGGATGGCTAAAGGCCGTA
1 ACAGGACGGCTCAACGCCGTA
30613811 AATATCGCAG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.30, C:0.28, G:0.31, T:0.11
Consensus pattern (22 bp):
ACAGGACGGCTCAACGCCGTAG
Found at i:30615885 original size:14 final size:14
Alignment explanation
Indices: 30615868--30615895 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30615858 AAGTTAAAAT
30615868 GTTTTTCATGCTCA
1 GTTTTTCATGCTCA
30615882 GTTTTTCATGCTCA
1 GTTTTTCATGCTCA
30615896 AAGTGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTTTTTCATGCTCA
Found at i:30619612 original size:6 final size:6
Alignment explanation
Indices: 30619594--30619643 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
30619584 TGCAAATGAA
* * * *
30619594 TCATTT CTCATTT TCATTT TCATTT CCATTT CCATTT CCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
30619643 T
1 T
30619644 TTGGGAAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (6 bp):
TCATTT
Found at i:30619618 original size:12 final size:12
Alignment explanation
Indices: 30619594--30619643 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
30619584 TGCAAATGAA
30619594 TCATTTCTCATTT
1 TCATTTC-CATTT
*
30619607 TCATTTTCATTT
1 TCATTTCCATTT
*
30619619 CCATTTCCATTT
1 TCATTTCCATTT
*
30619631 CCATTTCCATTT
1 TCATTTCCATTT
30619643 T
1 T
30619644 TTGGGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
12 27 0.82
13 6 0.18
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:30619629 original size:18 final size:18
Alignment explanation
Indices: 30619594--30619642 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
30619584 TGCAAATGAA
*
30619594 TCATTTCTCATTTTCATTT
1 TCATTTC-CATTTCCATTT
30619613 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
*
30619631 CCATTTCCATTT
1 TCATTTCCATTT
30619643 TTTGGGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:30621549 original size:45 final size:46
Alignment explanation
Indices: 30621473--30621568 Score: 133
Period size: 45 Copynumber: 2.1 Consensus size: 46
30621463 TATGTTGAGC
*
30621473 TACTAAATAGTTAATTAAATTACATAGTATTTATTA-TTACTTATTTA
1 TACTAAATA-TTAACTAAATTACATAGTATTTATTATTTA-TTATTTA
* *
30621520 TACTAAAT-TTAACTAATTTACATATTATTTATTATTTATTATTTA
1 TACTAAATATTAACTAAATTACATAGTATTTATTATTTATTATTTA
30621565 TACT
1 TACT
30621569 TGGTCAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
45 34 0.76
46 3 0.07
47 8 0.18
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (46 bp):
TACTAAATATTAACTAAATTACATAGTATTTATTATTTATTATTTA
Found at i:30622011 original size:31 final size:31
Alignment explanation
Indices: 30621976--30622036 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
30621966 TTACTACCTT
30621976 AGTAATTATATTACTATCCACTCACTCTGTA
1 AGTAATTATATTACTATCCACTCACTCTGTA
30622007 AGTAATTATATTACTATCCACTCACTCTGT
1 AGTAATTATATTACTATCCACTCACTCTGT
30622037 GGTGCCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (31 bp):
AGTAATTATATTACTATCCACTCACTCTGTA
Found at i:30622901 original size:16 final size:16
Alignment explanation
Indices: 30622880--30622913 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30622870 CTCTGAATAT
30622880 TAAAAAAACAAAATTA
1 TAAAAAAACAAAATTA
**
30622896 TAAAAAAATTAAATTA
1 TAAAAAAACAAAATTA
30622912 TA
1 TA
30622914 TAATGCGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAAACAAAATTA
Found at i:30626802 original size:22 final size:22
Alignment explanation
Indices: 30626774--30626818 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
30626764 TTGCTTCCTG
30626774 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
30626796 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
30626818 T
1 T
30626819 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:30630582 original size:22 final size:22
Alignment explanation
Indices: 30630554--30630598 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
30630544 AGGGGGAGTG
30630554 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
30630576 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
30630598 T
1 T
30630599 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:30640676 original size:10 final size:10
Alignment explanation
Indices: 30640649--30640718 Score: 106
Period size: 10 Copynumber: 7.0 Consensus size: 10
30640639 TTAAATTTTA
30640649 AAAGATAAAT
1 AAAGATAAAT
*
30640659 GCAA-ATAAAT
1 -AAAGATAAAT
30640669 AAAGATAAAT
1 AAAGATAAAT
30640679 AAAGATAAAT
1 AAAGATAAAT
30640689 AAAGATAAAT
1 AAAGATAAAT
30640699 AAAGATAAAT
1 AAAGATAAAT
*
30640709 AAAAATAAAT
1 AAAGATAAAT
30640719 CCTAAAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
9 2 0.04
10 51 0.93
11 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:30640754 original size:13 final size:14
Alignment explanation
Indices: 30640738--30640770 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30640728 TAAATCTAAG
*
30640738 TAATTATCCTTA-A
1 TAATTATCCTAATA
30640751 TAATTATCCTAATA
1 TAATTATCCTAATA
30640765 TAATTA
1 TAATTA
30640771 AACATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTATCCTAATA
Found at i:30642146 original size:21 final size:20
Alignment explanation
Indices: 30642121--30642159 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
30642111 AAACTTGTAT
30642121 ATCTATCAAAAAACATTCATA
1 ATCTATCAAAAAAC-TTCATA
*
30642142 ATCTATCAAGAAACTTCA
1 ATCTATCAAAAAACTTCA
30642160 AAAACATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAAAAAACTTCATA
Found at i:30647409 original size:23 final size:23
Alignment explanation
Indices: 30647379--30647424 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30647369 ATCGGGAGAA
30647379 AACGAAAGTTGTCGACTAGTAGC
1 AACGAAAGTTGTCGACTAGTAGC
30647402 AACGAAAGTTGTCGACTAGTAGC
1 AACGAAAGTTGTCGACTAGTAGC
30647425 CCCGTCCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (23 bp):
AACGAAAGTTGTCGACTAGTAGC
Found at i:30669076 original size:40 final size:40
Alignment explanation
Indices: 30669024--30669147 Score: 178
Period size: 40 Copynumber: 3.1 Consensus size: 40
30669014 TGTATCTGGG
* *
30669024 CTTAAAGACCCGCAGGCTATATGTTGGAATTATATCCGGG
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
*
30669064 CTTAAAGACCCGCAGGCTATATGCTGGAATTATACCCGGA
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
** * *
30669104 CTT-AAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGA
1 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
30669143 CTTAA
1 CTTAA
30669148 GGTCCGCAGG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 35 0.46
40 41 0.54
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGA
Found at i:30669128 original size:39 final size:39
Alignment explanation
Indices: 30669033--30669157 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
30669023 GCTTAAAGAC
* * * **
30669033 CCGCAGGCTATATGTTGGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
*
30669073 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
30669112 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
30669151 CCGCAGG
1 CCGCAGG
30669158 ATACGCGCTG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 47 0.60
40 31 0.40
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:30669168 original size:39 final size:39
Alignment explanation
Indices: 30669086--30669170 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
30669076 CAGGCTATAT
* * * *
30669086 GCTGGAATTATACCCGGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
30669125 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
30669164 GCTGGAA
1 GCTGGAA
30669171 ATATGTCCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGATACGC
Found at i:30677880 original size:51 final size:51
Alignment explanation
Indices: 30677804--30677901 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
30677794 GATTGGATTG
30677804 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
1 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
* *
30677855 TTATGGTTCATAAATCTAAGTTTAGCCCTTTGTAAGAGTATTTGAAA
1 TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAA
30677902 TCGATTCTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (51 bp):
TTATGGTTCATAAATCTAAGTTTAGCACTTTGTAAGAGTATCTGAAAATTT
Found at i:30685781 original size:64 final size:64
Alignment explanation
Indices: 30685707--30685899 Score: 386
Period size: 64 Copynumber: 3.0 Consensus size: 64
30685697 TATTGAAATG
30685707 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
1 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
30685771 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
1 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
30685835 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
1 TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
30685899 T
1 T
30685900 CTTTTTCTAC
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 129 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (64 bp):
TGATGAAGTAAATAATAGTATGAAAATCAGGAGATGATGGCTTGAATTGACACTTTCAAAACAA
Found at i:30687523 original size:15 final size:15
Alignment explanation
Indices: 30687499--30687542 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
30687489 TGGATCCTAC
30687499 CCTCCACAAGGATAT
1 CCTCCACAAGGATAT
*
30687514 CCTCCTCAAGGATAT
1 CCTCCACAAGGATAT
*
30687529 CCCCCACAAGGATA
1 CCTCCACAAGGATA
30687543 CCCACCGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (15 bp):
CCTCCACAAGGATAT
Found at i:30687599 original size:33 final size:33
Alignment explanation
Indices: 30687562--30687629 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
30687552 TGGATATCCT
*
30687562 CCACCAGC-GGGATATCCTCCACATGGCGGATAC
1 CCACCAGCAGGG-TATCCTCCACATGGAGGATAC
* *
30687595 CCACCTGCAGGGTATCCTCCTCATGGAGGATAC
1 CCACCAGCAGGGTATCCTCCACATGGAGGATAC
30687628 CC
1 CC
30687630 TCATCCACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.22, C:0.37, G:0.24, T:0.18
Consensus pattern (33 bp):
CCACCAGCAGGGTATCCTCCACATGGAGGATAC
Found at i:30687875 original size:21 final size:21
Alignment explanation
Indices: 30687838--30687878 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30687828 TCTTTACGGG
30687838 GCTCACCATTTGTCACATGGA
1 GCTCACCATTTGTCACATGGA
*
30687859 GCTCATCATCTTG-CACATGG
1 GCTCACCAT-TTGTCACATGG
30687879 GGGATACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
GCTCACCATTTGTCACATGGA
Found at i:30687924 original size:15 final size:15
Alignment explanation
Indices: 30687898--30687939 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
30687888 TGGCCATGGT
*
30687898 CACGGAAAATTTAAA
1 CACGGGAAATTTAAA
* *
30687913 CATGGGAAATTTAAG
1 CACGGGAAATTTAAA
30687928 CACGGGAAATTT
1 CACGGGAAATTT
30687940 GGGAAGCGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (15 bp):
CACGGGAAATTTAAA
Found at i:30689887 original size:21 final size:21
Alignment explanation
Indices: 30689843--30689887 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30689833 AAAATTTTTA
*
30689843 AAATATGTATTATATTCTAAT
1 AAATATGTATTATATCCTAAT
*
30689864 AAAT-TGTATTATACTCCTATT
1 AAATATGTATTATA-TCCTAAT
30689885 AAA
1 AAA
30689888 GATCCGAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (21 bp):
AAATATGTATTATATCCTAAT
Found at i:30690739 original size:23 final size:21
Alignment explanation
Indices: 30690706--30690755 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
30690696 GACCAATAAG
*
30690706 TTTCAAATCATTTTAAA-ACCA
1 TTTCAAATCA-TTTAAACACAA
30690727 TTTCAAAGCTCATTTAAACACAA
1 TTTCAAA--TCATTTAAACACAA
30690750 TTTCAA
1 TTTCAA
30690756 TCCATACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 6 0.24
23 12 0.48
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (21 bp):
TTTCAAATCATTTAAACACAA
Found at i:30691411 original size:23 final size:23
Alignment explanation
Indices: 30691385--30691431 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
30691375 AATAAAGTAT
30691385 ATGCTATTTTAATATCAAAATTA
1 ATGCTATTTTAATATCAAAATTA
30691408 ATGCTATTTTAATATCAAAATTA
1 ATGCTATTTTAATATCAAAATTA
30691431 A
1 A
30691432 GTTAAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
ATGCTATTTTAATATCAAAATTA
Found at i:30693780 original size:26 final size:26
Alignment explanation
Indices: 30693732--30693782 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
30693722 GAGGACATTT
* * **
30693732 CCGTGTTTATTGTCCCAGTGGACTAC
1 CCGTGTTTACTATCCCAACGGACTAC
30693758 CCGTGTTTACTATCCCAACGGACTA
1 CCGTGTTTACTATCCCAACGGACTA
30693783 TACTAGTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (26 bp):
CCGTGTTTACTATCCCAACGGACTAC
Found at i:30698905 original size:49 final size:51
Alignment explanation
Indices: 30698845--30698942 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 51
30698835 ACACACTTGG
* *
30698845 GCACTAAGTGCCAAGCCCGTAGGC-TAACATCC-CTCCGAAACACACCTCC
1 GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCTCC
* * * *
30698894 GCACTGAGTGCCAAGTCCGAAGGCTTTACATCCACCCCGAACCACACCT
1 GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCT
30698943 GAATCACTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 21 0.51
50 7 0.17
51 13 0.32
ACGTcount: A:0.28, C:0.40, G:0.17, T:0.15
Consensus pattern (51 bp):
GCACTAAGTGCCAAGCCCGAAGGCTTAACATCCACCCCGAAACACACCTCC
Found at i:30708123 original size:18 final size:18
Alignment explanation
Indices: 30708102--30708143 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
30708092 TAATTTAAAG
30708102 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
30708120 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
*
30708138 TGTAAA
1 TATAAA
30708144 AACAACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAAATTTATTAATATA
Found at i:30716560 original size:33 final size:33
Alignment explanation
Indices: 30716509--30716584 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 33
30716499 TATGACATTC
30716509 AATATCAAGTTCATTTCGTATCAAAATTCATTTAA
1 AATATC-A-TTCATTTCGTATCAAAATTCATTTAA
**
30716544 AATATCATTCATTTCGTATTGAAATTCATTTAA
1 AATATCATTCATTTCGTATCAAAATTCATTTAA
*
30716577 GATATCAT
1 AATATCAT
30716585 CCGAACCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 31 0.82
34 1 0.03
35 6 0.16
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (33 bp):
AATATCATTCATTTCGTATCAAAATTCATTTAA
Found at i:30717577 original size:620 final size:620
Alignment explanation
Indices: 30716565--30717691 Score: 1522
Period size: 620 Copynumber: 1.8 Consensus size: 620
30716555 TTTCGTATTG
* * *
30716565 AAATTCATTTAAGATATCATCCGAACCTCTTTCTAGAGTCTATTGACTCATTCGTATTCATTTTG
1 AAATCCATTTAACATATCATCCGAACCTCTTTCTAGAGTCTATTGACTCATTCATATTCATTTTG
* * * **
30716630 GTACTATATTATATTATCTATTTCATTTTGTAAATTTTTACAATTTCGAATATAATGTTACGCTT
66 GCACTATATTATATTATCTATTTCATTTTGTAAAGTTTTACAATTTCAAATATAATGTTACGCCC
* *
30716695 GATGAAACCCTAGTAAAATAGACTCGGATATATGGGTAAACTACACCATACCAGATAGCTTTTAA
131 GATAAAACCCTAGTAAAATAGACTCGGATACATGGGTAAACTACACCA-ACCAGA-A----TTAA
*
30716760 GAGCTTTAACTACACCACACTAGAGCATCAAAGTGCAAAGCTCATAGGCATCAAATGCATTCTCA
190 GAGCTTTAACTACACCACACTAGAGCATCAAAGTGCAAAGCCCATAGGCATCAAATGCATTCTCA
* * * *
30716825 TATGCATATAAATCCCTCCACTACACAAAGATCCTCGTGGAGACATATAATACTTGATGATTCGC
255 TATGAATATAAATCCCTCCACTACACAAAGATCCTCGTAGAGACATATAATACTCGATGATTCAC
* ** * *
30716890 AACAAATGCTAGATCCTGACATAGCCTGTAATGATCCCCTTATAACCACATATCTCGTACAAGTG
320 AACAAATGCTAGATCCTGACATAACCTGTAACAATCCCCATATAACCACATATCCCGTACAAGTG
* **
30716955 CACATAAAAACCTATTGGCATGACAGTCATATTCTAACCTTTTACTATGTTTACAC-ATGCATCT
385 CACATAAAAACCTATTGGCATGACAGTCATATCCTAACCTTTTACTATGTTTACACGA-GCATAA
** *
30717019 ATTATATATATAAGCATTTCCACACTTGATATCATCTTACTCGCATATTCATAAATTGTACTACA
449 ATTATATATATAAAAATTTCCACACTTGATATCATCTTACTCGCATATACATAAATTGTACTACA
30717084 TATACCAAAACCTATCCTAAAGCCTTTAGCTATCAATACCAATAAAAAATTTAAAATATTTATAA
514 TATACCAAAACCTATCCTAAAGCCTTTAGCTATCAATACCAATAAAAAATTTAAAATATTTATAA
30717149 TCCATTCATTATGACATTCAATATCAAGTCCATTTCATATCA
579 TCCATTCATTATGACATTCAATATCAAGTCCATTTCATATCA
*
30717191 AAATCCATTTAACATATCATCCGAACCTCTTTCTGGAGTCTATTGACTCATTCATATTCATTTTG
1 AAATCCATTTAACATATCATCCGAACCTCTTTCTAGAGTCTATTGACTCATTCATATTCATTTTG
* * *
30717256 GCACTATATTTTATTATTAATCTATTTCATTATCTTTTTTAAGTTTTCCAATTTCAAATATAATG
66 GCACTATA--TTA-TATT-ATCTATTTC---AT-TTTGTAAAGTTTTACAATTTCAAATATAATG
* * * * *
30717321 TTATGCCCGATAAAACCCTAGTAAAATGGGCTTGGATACATGGGTAAA-T-TA-C-A-C-G-A-T
123 TTACGCCCGATAAAACCCTAGTAAAATAGACTCGGATACATGGGTAAACTACACCAACCAGAATT
* * * *
30717378 AAGAGCTTTAACTACATCACACTAGAGCA-CTGAAGTGCAAAGCCCGTAGGCGTCAAATGCATTC
188 AAGAGCTTTAACTACACCACACTAGAGCATC-AAAGTGCAAAGCCCATAGGCATCAAATGCATTC
* * * *
30717442 TCATGTGAATATACATCCCTCCACTACACCAAGGT-CTCTGTAGAGACATATAATACTCGATGAT
252 TCATATGAATATAAATCCCTCCACTACACAAAGATCCTC-GTAGAGACATATAATACTCGATGAT
* * * ** * *
30717506 TCACAACAAATGTTAGAT-CTCGATATAACTTGTAACAATCTTCATATAATCACATCTCCCGTAC
316 TCACAACAAATGCTAGATCCT-GACATAACCTGTAACAATCCCCATATAACCACATATCCCGTAC
* *
30717570 AAGTGCACATAAAACCCTATTGGCATGCCAGTCATATCCTAACCTTTTACTATGTTTACACGAGC
380 AAGTGCACATAAAAACCTATTGGCATGACAGTCATATCCTAACCTTTTACTATGTTTACACGAGC
**
30717635 ATAAATTATATATATAAAAATTTCCTTACTTGATATCATCTTACTCGCATATACATA
445 ATAAATTATATATATAAAAATTTCCACACTTGATATCATCTTACTCGCATATACATA
30717692 CCCTGTATTT
Statistics
Matches: 435, Mismatches: 54, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
619 6 0.01
620 269 0.62
621 1 0.00
625 1 0.00
626 68 0.16
627 1 0.00
628 4 0.01
629 5 0.01
630 9 0.02
631 1 0.00
632 1 0.00
633 3 0.01
634 66 0.15
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (620 bp):
AAATCCATTTAACATATCATCCGAACCTCTTTCTAGAGTCTATTGACTCATTCATATTCATTTTG
GCACTATATTATATTATCTATTTCATTTTGTAAAGTTTTACAATTTCAAATATAATGTTACGCCC
GATAAAACCCTAGTAAAATAGACTCGGATACATGGGTAAACTACACCAACCAGAATTAAGAGCTT
TAACTACACCACACTAGAGCATCAAAGTGCAAAGCCCATAGGCATCAAATGCATTCTCATATGAA
TATAAATCCCTCCACTACACAAAGATCCTCGTAGAGACATATAATACTCGATGATTCACAACAAA
TGCTAGATCCTGACATAACCTGTAACAATCCCCATATAACCACATATCCCGTACAAGTGCACATA
AAAACCTATTGGCATGACAGTCATATCCTAACCTTTTACTATGTTTACACGAGCATAAATTATAT
ATATAAAAATTTCCACACTTGATATCATCTTACTCGCATATACATAAATTGTACTACATATACCA
AAACCTATCCTAAAGCCTTTAGCTATCAATACCAATAAAAAATTTAAAATATTTATAATCCATTC
ATTATGACATTCAATATCAAGTCCATTTCATATCA
Found at i:30720124 original size:12 final size:14
Alignment explanation
Indices: 30720091--30720134 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
30720081 AGAAAAAGAA
30720091 AATAAATT-AAATT
1 AATAAATTAAAATT
30720104 AATAAATTAAAATT
1 AATAAATTAAAATT
30720118 -A-AAATTAAAA-T
1 AATAAATTAAAATT
30720129 AATAAA
1 AATAAA
30720135 AAGAATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 10 0.36
13 12 0.43
14 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAATTAAAATT
Found at i:30725564 original size:29 final size:29
Alignment explanation
Indices: 30725532--30725609 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
30725522 GGCCTTGTGC
30725532 TGGATCGTGTGAGACACACGAGC-ATATGT
1 TGGATCGTGTGAGACACACGA-CTATATGT
* * *
30725561 TGGATCATGTGAGACACACGACTGTGTGT
1 TGGATCGTGTGAGACACACGACTATATGT
*
30725590 TGGACCGTGTGAGACACACG
1 TGGATCGTGTGAGACACACG
30725610 GTCTGGGCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 1 0.02
29 42 0.98
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (29 bp):
TGGATCGTGTGAGACACACGACTATATGT
Found at i:30729967 original size:53 final size:54
Alignment explanation
Indices: 30729910--30730220 Score: 362
Period size: 55 Copynumber: 5.8 Consensus size: 54
30729900 AACTTACCAT
* *
30729910 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCA-CTAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATC-AA
* * *
30729963 TGCCATGCCTTGGCATGGTCTTACATGGGA-CTTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGCCTTATAG-AACTCATCAA
* * *
30730018 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAATTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* *
30730071 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAA
** * * * *
30730126 TGCCATGTTTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* * * *
30730180 TGCCATGCCTTGGCATGGTCTTGCATGATATCCTTGTCTTA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
30730221 CCAAATGCCA
Statistics
Matches: 218, Mismatches: 31, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.01
53 79 0.36
54 46 0.21
55 86 0.39
56 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
Found at i:30730099 original size:108 final size:108
Alignment explanation
Indices: 30729910--30730206 Score: 479
Period size: 108 Copynumber: 2.7 Consensus size: 108
30729900 AACTTACCAT
* * *
30729910 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACTAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAATTCACCAATGCCATGCCTTG
*
30729975 GCATGGTCTTACATGGGACTTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
30730018 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAATTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAATTCACCAATGCCATGCCTTG
30730083 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
* * * * *
30730126 TGCCATGTTTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTT-ATCAATGCCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA-TTCACCAATGCCATGCCT
*
30730190 TGGCATGGTCTTGCATG
64 TGGCATGGTCTTACATG
30730207 ATATCCTTGT
Statistics
Matches: 177, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
108 142 0.80
109 33 0.19
110 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAATTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
Found at i:30730264 original size:47 final size:47
Alignment explanation
Indices: 30730197--30730314 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
30730187 CCTTGGCATG
* *
30730197 GTCTTGCATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
1 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
* * * *
30730244 GTCTTACATGGTATCATTGTCTTTCCAAATGCCATGTTTCAAACATG
1 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
30730291 GTCTTACATGGTATCCTTGTCTTA
1 GTCTTACATGGTATCCTTGTCTTA
30730315 GTGCGAATGC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATA
Found at i:30734932 original size:27 final size:28
Alignment explanation
Indices: 30734848--30734945 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
30734838 CATGAGATTG
* * *
30734848 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
30734877 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
30734905 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30734932 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
30734946 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:30734959 original size:29 final size:27
Alignment explanation
Indices: 30734876--30734960 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
30734866 TAAATTGTTC
* *
30734876 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
30734904 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
30734931 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
30734960 A
1 A
30734961 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:30740051 original size:29 final size:29
Alignment explanation
Indices: 30740017--30740090 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
30740007 TAATCAACCG
*
30740017 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
30740046 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
30740075 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
30740091 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:30744201 original size:27 final size:27
Alignment explanation
Indices: 30744153--30744310 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
30744143 GTGAGGCTGC
* *
30744153 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
30744180 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
30744206 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
30744233 -AGATAATCGTGGCATAGCCACCGGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
30744259 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
30744286 CAGATAATTATGGCAGAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
30744311 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
26 28 0.25
27 81 0.72
28 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:30744245 original size:53 final size:54
Alignment explanation
Indices: 30744171--30744310 Score: 212
Period size: 53 Copynumber: 2.6 Consensus size: 54
30744161 GTGACGAAGT
*
30744171 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
30744225 CACCAGAT-AGATAATCGTGGCATAGCCACCGGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
*
30744278 CACCAGATCAGATAATTATGGCAGAGCCACCAG
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAG
30744311 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
52 4 0.05
53 44 0.58
54 28 0.37
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:30744746 original size:16 final size:15
Alignment explanation
Indices: 30744725--30744756 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
30744715 CCAAAATACC
30744725 GACTTTTCGGCATTTT
1 GACTTTTCGGC-TTTT
30744741 GACTTTTCGGCTTTT
1 GACTTTTCGGCTTTT
30744756 G
1 G
30744757 CCAATCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.09, C:0.19, G:0.22, T:0.50
Consensus pattern (15 bp):
GACTTTTCGGCTTTT
Found at i:30745963 original size:26 final size:26
Alignment explanation
Indices: 30745920--30746027 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
30745910 TGAAATGTCA
*
30745920 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30745946 ATAATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30745972 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
30745998 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30746024 ATCA
1 ATCA
30746028 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30752913 original size:43 final size:44
Alignment explanation
Indices: 30752864--30753016 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 44
30752854 CCCAGATGTA
* * *
30752864 GTCTTACATGTAATCAAATATCGATGAC-ACTGTCCCAGACAGG
1 GTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAGG
* *
30752907 GTCTTACACGAAATCAAATAT-GATGCCGA-TGTCCCAGACATG
1 GTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAGG
* *
30752949 GTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCATAC-GTG
1 GTCTTACACG-AAATC-AAATATCGATGCCAACTGTCCCAGACAG-G
*
30752993 GTCTTACTCGAAATCAAATATCGA
1 GTCTTACACGAAATCAAATATCGA
30753017 AAATCCTATG
Statistics
Matches: 93, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
42 29 0.31
43 37 0.40
44 27 0.29
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
GTCTTACACGAAATCAAATATCGATGCCAACTGTCCCAGACAGG
Found at i:30752953 original size:42 final size:41
Alignment explanation
Indices: 30752864--30753013 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 41
30752854 CCCAGATGTA
* * * *
30752864 GTCTTACATGTAATCAAATATCGATGACACTGTCCCAGACAGG
1 GTCTTACACGAAATCAAATAT-GATGCCA-TGTCCCAGACATG
30752907 GTCTTACACGAAATCAAATATGATGCCGATGTCCCAGACATG
1 GTCTTACACGAAATCAAATATGATGCC-ATGTCCCAGACATG
* * * *
30752949 GTCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCCATACGTG
1 GTCTTACACG-AAA--TCAAATATGATGCC-ATGTCCCAGACATG
*
30752993 GTCTTACTCGAAATCAAATAT
1 GTCTTACACGAAATCAAATAT
30753014 CGAAAATCCT
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
41 6 0.07
42 27 0.30
43 26 0.29
44 26 0.29
45 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
GTCTTACACGAAATCAAATATGATGCCATGTCCCAGACATG
Found at i:30755992 original size:38 final size:37
Alignment explanation
Indices: 30755912--30756002 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 37
30755902 TCCCCATTTA
* *
30755912 TGGTGTGTAGGGTGGATGGGCTTATTATGGTCCTATG
1 TGGTGTGTAGGGTGGTTGGGCTTATCATGGTCCTATG
*
30755949 TGGTGTGCAGGGTGGTTGGGTCTT-TCATGG-CTCTATTG
1 TGGTGTGTAGGGTGGTTGGG-CTTATCATGGTC-CTA-TG
30755987 TGGTGTGTAGGGTGGT
1 TGGTGTGTAGGGTGGT
30756003 CGAAGTGGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
36 1 0.02
37 26 0.55
38 20 0.43
ACGTcount: A:0.10, C:0.09, G:0.43, T:0.38
Consensus pattern (37 bp):
TGGTGTGTAGGGTGGTTGGGCTTATCATGGTCCTATG
Found at i:30763171 original size:27 final size:27
Alignment explanation
Indices: 30763141--30763198 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
30763131 AAAACATCAT
30763141 GAAA-CAAAAATATGAAGGGA-GCTTTAA
1 GAAACCAAAAA-ATGAA-GGATGCTTTAA
* *
30763168 GAAACCCAAAAATGGAGGATGCTTTAA
1 GAAACCAAAAAATGAAGGATGCTTTAA
30763195 GAAA
1 GAAA
30763199 ATCATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 19 0.70
28 5 0.19
ACGTcount: A:0.50, C:0.10, G:0.22, T:0.17
Consensus pattern (27 bp):
GAAACCAAAAAATGAAGGATGCTTTAA
Found at i:30763415 original size:39 final size:40
Alignment explanation
Indices: 30763360--30763441 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 40
30763350 TAATAAACCC
* *
30763360 AAACATAGAGAAACTTCTACGAAATCCAAATATGTAGATT
1 AAACACAGAGAAACTTCTAAGAAATCCAAATATGTAGATT
*
30763400 AAACACAGA-AAACTTCTAAGAAATCCAAATATGTAGTTT
1 AAACACAGAGAAACTTCTAAGAAATCCAAATATGTAGATT
30763439 AAA
1 AAA
30763442 AATAGAAGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (40 bp):
AAACACAGAGAAACTTCTAAGAAATCCAAATATGTAGATT
Found at i:30768743 original size:70 final size:71
Alignment explanation
Indices: 30768660--30768799 Score: 255
Period size: 70 Copynumber: 2.0 Consensus size: 71
30768650 GGGCCATGAT
*
30768660 TTATTGTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGC-TTGTGCTAA
1 TTATTGTTAAATGTGCATGGTTATTCGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAA
30768724 GTGACA
66 GTGACA
*
30768730 TTATTGTTAAATGTGTATGGTTATTCGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAA
1 TTATTGTTAAATGTGCATGGTTATTCGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAA
30768795 GTGAC
66 GTGAC
30768800 CATATCCGGA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 53 0.79
71 14 0.21
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (71 bp):
TTATTGTTAAATGTGCATGGTTATTCGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAA
GTGACA
Found at i:30768900 original size:79 final size:81
Alignment explanation
Indices: 30768764--30768948 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
30768754 TCGAATGATG
*
30768764 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
30768828 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
30768843 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
30768905 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
30768923 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30768949 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:30768962 original size:40 final size:39
Alignment explanation
Indices: 30768765--30768948 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
30768755 CGAATGATGT
* * *
30768765 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
30768805 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
30768845 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
30768883 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
30768924 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30768949 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:30768970 original size:79 final size:79
Alignment explanation
Indices: 30768765--30768981 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
30768755 CGAATGATGT
** * * * **
30768765 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
30768828 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
30768845 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
30768910 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
30768924 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
30768982 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:30771034 original size:5 final size:5
Alignment explanation
Indices: 30771024--30771089 Score: 87
Period size: 5 Copynumber: 12.4 Consensus size: 5
30771014 TTATTAAAAA
*
30771024 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATTCAG TATAAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-T-AT TAT-AT
30771077 TATAT TAATAT TA
1 TATAT T-ATAT TA
30771090 ATTGTAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
5 41 0.75
6 11 0.20
7 3 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:30771566 original size:22 final size:22
Alignment explanation
Indices: 30771541--30771594 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
30771531 CATATACAAA
* *
30771541 AGTTCACATAAAGCATTTGTAG
1 AGTTCGCATAAAGCATTTATAG
* *
30771563 AGTTCGCACATAGCATTTATAG
1 AGTTCGCATAAAGCATTTATAG
*
30771585 GGTTCGCATA
1 AGTTCGCATA
30771595 GTTAAATATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (22 bp):
AGTTCGCATAAAGCATTTATAG
Found at i:30772342 original size:16 final size:17
Alignment explanation
Indices: 30772321--30772352 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30772311 GATTTGACAA
30772321 AAAAAATAGAA-AAATT
1 AAAAAATAGAATAAATT
30772337 AAAAAATAGAATAAAT
1 AAAAAATAGAATAAAT
30772353 AATTTCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAAAATAGAATAAATT
Found at i:30772490 original size:3 final size:3
Alignment explanation
Indices: 30772482--30772561 Score: 60
Period size: 3 Copynumber: 27.3 Consensus size: 3
30772472 TGATCACCTA
* **
30772482 ATT ATT ATT ATT ATT ATT ATT ACT GCT -TT ATT ATT ATT -TCT -TCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T
* * *
30772526 ATT ATT ATT ACT ACT -TT ATT ATC ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
30772562 CTATCGCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
2 3 0.05
3 62 0.94
4 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:30772519 original size:26 final size:26
Alignment explanation
Indices: 30772483--30772564 Score: 92
Period size: 26 Copynumber: 2.9 Consensus size: 26
30772473 GATCACCTAA
*
30772483 TTATTATTATTATTATTATTACTGCT
1 TTATTATTATTATTATTATTACTACT
30772509 TTATTATTATTTCTTCTATTATTATTACTACT
1 TTATTATTA-----T-TATTATTATTACTACT
*
30772541 TTATTATCATTATTATTATTACTA
1 TTATTATTATTATTATTATTACTA
30772565 TCGCAATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
26 23 0.48
27 1 0.02
31 1 0.02
32 23 0.48
ACGTcount: A:0.28, C:0.10, G:0.01, T:0.61
Consensus pattern (26 bp):
TTATTATTATTATTATTATTACTACT
Found at i:30772561 original size:32 final size:32
Alignment explanation
Indices: 30772485--30772561 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
30772475 TCACCTAATT
* *
30772485 ATTATTATTATTATTATTACTGCTTTATTATT
1 ATTATTATTATTATTATTACTACTTTATTATC
30772517 ATT-TCT-TCTATTATTATTACTACTTTATTATC
1 ATTAT-TAT-TATTATTATTACTACTTTATTATC
30772549 ATTATTATTATTA
1 ATTATTATTATTA
30772562 CTATCGCAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 2 0.05
32 35 0.90
33 2 0.05
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (32 bp):
ATTATTATTATTATTATTACTACTTTATTATC
Found at i:30779849 original size:23 final size:23
Alignment explanation
Indices: 30779823--30779868 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30779813 TGAGGAAACT
*
30779823 TCATACCCATGATTTTACCATGC
1 TCATACCCATGATATTACCATGC
* * *
30779846 TCATTCTCATGATATTCCCATGC
1 TCATACCCATGATATTACCATGC
30779869 CAATATCTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.30, G:0.09, T:0.37
Consensus pattern (23 bp):
TCATACCCATGATATTACCATGC
Found at i:30789018 original size:16 final size:16
Alignment explanation
Indices: 30788997--30789035 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
30788987 AGCATGGTTG
30788997 AATGGGAGGGAGATCA
1 AATGGGAGGGAGATCA
30789013 AATGGGAGGGAGATCA
1 AATGGGAGGGAGATCA
30789029 AATGGGA
1 AATGGGA
30789036 ACCAATGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.44, T:0.13
Consensus pattern (16 bp):
AATGGGAGGGAGATCA
Found at i:30794098 original size:44 final size:44
Alignment explanation
Indices: 30793960--30794334 Score: 230
Period size: 44 Copynumber: 8.5 Consensus size: 44
30793950 CACGGCGGAT
* * * * * **
30793960 CTTATCTCCCTAAAGTTACAGTGGAACATG-TTAAAGTTGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAGCTACAAAC
* * * * *** * * *
30794004 CTTATCTCCCTCAAGTTGTAGTAGAGTAGACCGAAGATGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
*
30794048 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * * * * * **
30794092 CATATCTTCCTGAAGTTACAGTGGAGTAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * * * *
30794136 CTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAAC
** * * * **
30794181 CTTATCTTTCTGAATTTGCAATAGAGCAGATTAAAGCTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * * * *
30794225 CTCATCTTCCTAAAGTTGCAGCGGAGCAGACTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * * **
30794269 CTTATCTCCTTGAAGTTGCAGTGGAGTAGGTTAAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * *
30794313 CTTATCTTCCTGAGGTTACAGT
1 CTTATCTCCCTGAAGTTGCAGT
30794335 TAGTTAGAAT
Statistics
Matches: 249, Mismatches: 80, Indels: 4
0.75 0.24 0.01
Matches are distributed among these distances:
43 1 0.00
44 216 0.87
45 32 0.13
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
Found at i:30794152 original size:132 final size:133
Alignment explanation
Indices: 30793962--30794222 Score: 362
Period size: 132 Copynumber: 2.0 Consensus size: 133
30793952 CGGCGGATCT
* *
30793962 TATCTCCCTAAAGTTACAGTGGAACATGTTAAAGTTGCAAGTCTTATCTCCCTCAAGTTGTAGTA
1 TATCTCCCTAAAGTTACAGTGGAACAGGTTAAAGTTACAAGTCTTATCTCCCTCAAGTTGTAGTA
* * *
30794027 GAGTAGACCGAAGAT-GCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAA
66 GAGCAGACCGAAGATAGCAAAACTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCTACAAA
30794091 CCA
131 CCA
* * ** * * * *
30794094 TATCTTCCTGAAGTTACAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCTTGAAGTTGTAGTG
1 TATCTCCCTAAAGTTACAGTGGAACAGGTTAAAGTTACAAGTCTTATCTCCCTCAAGTTGTAGTA
* ** *
30794159 GAGCAGACTGAAGATAGCAAAACTTATCTTTCTGAATTTGCAATAGAGCAGATTAAAGCTACAA
66 GAGCAGACCGAAGATAGCAAAACTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCTACAA
30794223 GTCTCATCTT
Statistics
Matches: 111, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
132 68 0.61
133 43 0.39
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (133 bp):
TATCTCCCTAAAGTTACAGTGGAACAGGTTAAAGTTACAAGTCTTATCTCCCTCAAGTTGTAGTA
GAGCAGACCGAAGATAGCAAAACTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCTACAAA
CCA
Found at i:30794232 original size:133 final size:132
Alignment explanation
Indices: 30793962--30794294 Score: 389
Period size: 133 Copynumber: 2.5 Consensus size: 132
30793952 CGGCGGATCT
* * * * * * *
30793962 TATCTCCCTAAAGTTACAGTGGAACATGTTAAAGTTGCAAGTCTTATCTCCCTCAAGTTGTAGTA
1 TATCTTCCTAAAGTTACAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCTTGAAGTTGTAGTG
* * *
30794027 GAGTAGACCGAAGATGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAAC
66 GAGCAGACCGAAGATGCAAAACTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCTACAAAC
30794092 CA
131 CA
* * *
30794094 TATCTTCCTGAAGTTACAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCTTGAAGTTGTAGTG
1 TATCTTCCTAAAGTTACAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCTTGAAGTTGTAGTG
* ** * *
30794159 GAGCAGACTGAAGATAGCAAAACTTATCTTTCTGAATTTGCAATAGAGCAGATTAAAGCTACAAG
66 GAGCAGACCGAAGAT-GCAAAACTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCTACAAA
*
30794224 TC-
130 CCA
* * ** ** ** *
30794226 TCATCTTCCTAAAGTTGCAGCGGAGCAGACTAAAGCCACAAACCTTATCTCCTTGAAGTTGCAGT
1 T-ATCTTCCTAAAGTTACAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCTTGAAGTTGTAGT
30794291 GGAG
65 GGAG
30794295 TAGGTTAAAG
Statistics
Matches: 168, Mismatches: 31, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
132 69 0.41
133 99 0.59
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (132 bp):
TATCTTCCTAAAGTTACAGTGGAGCAGGTTAAAGTTACAAGTCTTATCTCCTTGAAGTTGTAGTG
GAGCAGACCGAAGATGCAAAACTTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCTACAAAC
CA
Found at i:30801972 original size:49 final size:49
Alignment explanation
Indices: 30801884--30802005 Score: 118
Period size: 49 Copynumber: 2.5 Consensus size: 49
30801874 TGTTGTGTGT
* * * *
30801884 CAATGTAAGACCTGTCTGGGACATGGCATCGACAGCGATAGATGAGAGC
1 CAATGTAAGACCTGTCTGGGACACGACATCGACAGCGATAGATAAAAGC
* * * * ** * *
30801933 CAGTGTAAGACCTGTCTGGGATACGACATTGGCCTCGATATATAAAAGT
1 CAATGTAAGACCTGTCTGGGACACGACATCGACAGCGATAGATAAAAGC
*
30801982 CAATGTAAGACCATGTCTGAGACA
1 CAATGTAAGACC-TGTCTGGGACA
30802006 TGGCGTCAGC
Statistics
Matches: 57, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
49 48 0.84
50 9 0.16
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (49 bp):
CAATGTAAGACCTGTCTGGGACACGACATCGACAGCGATAGATAAAAGC
Found at i:30810716 original size:29 final size:29
Alignment explanation
Indices: 30810653--30810720 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
30810643 TAATCAACCG
30810653 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
30810682 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
30810711 CGCACACTTA
1 CGCACACTTA
30810721 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:30810833 original size:174 final size:174
Alignment explanation
Indices: 30810542--30810869 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
30810532 AACTCAAGGT
* *
30810542 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
30810607 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
30810672 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
30810716 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGTACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
30810781 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
30810846 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
30810870 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:30810861 original size:29 final size:30
Alignment explanation
Indices: 30810822--30810900 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30810812 CTTAATAATC
30810822 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30810852 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30810881 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30810901 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30823591 original size:64 final size:64
Alignment explanation
Indices: 30823511--30823631 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
30823501 CATTAGTTAT
* *
30823511 ATATGTACTTACCATACATGCAATATTAAAGCCTTTAAAATATG-GTACATATTGCATAATTTGC
1 ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATA-GAGTACATATTGCATAATTTGC
*
30823575 ATATGAACTTACCATACATGCAATATTTAAGCATTTAAAATAGAGTACATATTGCAT
1 ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATAGAGTACATATTGCAT
30823632 TACTCGCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
63 1 0.02
64 52 0.98
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (64 bp):
ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATAGAGTACATATTGCATAATTTGC
Found at i:30823641 original size:64 final size:64
Alignment explanation
Indices: 30823511--30823651 Score: 194
Period size: 64 Copynumber: 2.2 Consensus size: 64
30823501 CATTAGTTAT
* * * *
30823511 ATATGTACTTACCATACATGCAATATTAAAGCCTTTAAAATATGGTACATATTGCATAATTTGC
1 ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATATGGTACATATTGCATAACTCGC
* *
30823575 ATATGAACTTACCATACATGCAATATTTAAGCATTTAAAATA-GAGTACATATTGCATTACTCGC
1 ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATATG-GTACATATTGCATAACTCGC
* *
30823639 ATACGAGCTTACC
1 ATATGAACTTACC
30823652 TCGATACCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 1 0.01
64 67 0.99
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (64 bp):
ATATGAACTTACCATACATGCAATATTAAAGCATTTAAAATATGGTACATATTGCATAACTCGC
Found at i:30825635 original size:43 final size:43
Alignment explanation
Indices: 30825587--30825701 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 43
30825577 ATGTGATTAA
* *
30825587 ATGTAAGACCATGTCTAGGACATTGGTATCGTTATTCAAT-TT
1 ATGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATCTT
* *
30825629 CGTGTAAGACCATGTCTGGGACATTGGCATCGTTATTCGATCTT
1 -ATGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATCTT
* *
30825673 ATGTAAGACCTTGTCTGGGACAGTGGCAT
1 ATGTAAGACCATGTCTGGGACATTGGCAT
30825702 TGATATGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 62 0.97
44 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATCTT
Found at i:30825720 original size:43 final size:42
Alignment explanation
Indices: 30825587--30825735 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 42
30825577 ATGTGATTAA
* * * * * *
30825587 ATGTAAGACCATGTCTAGGACATTGGTATCGTTATTCAATTT
1 ATGTAAGACCATGTCTGGGACAGTGGCATCGATATTCGATCT
* * *
30825629 CGTGTAAGACCATGTCTGGGACATTGGCATCGTTATTCGATCTT
1 -ATGTAAGACCATGTCTGGGACAGTGGCATCGATATTCGATC-T
* *
30825673 ATGTAAGACCTTGTCTGGGACAGTGGCATTGATATGTGACGA-C-
1 ATGTAAGACCATGTCTGGGACAGTGGCATCGATAT-T--CGATCT
*
30825716 ATGTAAGACCATATCTGGGA
1 ATGTAAGACCATGTCTGGGA
30825736 TATGACTTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
43 84 0.93
44 2 0.02
45 1 0.01
46 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
ATGTAAGACCATGTCTGGGACAGTGGCATCGATATTCGATCT
Done.