Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 104 of 175
Found at i:33171547 original size:389 final size:389
Alignment explanation
Indices: 33170823--33171795 Score: 1613
Period size: 389 Copynumber: 2.5 Consensus size: 389
33170813 ACTGGTGAAA
*
33170823 CACCAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * *
33170888 GCAGTAGTAGAGCAAATCGAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAC
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * * **
33170953 GCCACCAAGCCTTGTCTCCCTAAGCCGTAGCAAAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
* **
33171018 AAGCAGTAGTGGGGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
* *
33171083 AAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGTAGATCCTATCTCCCTAAGCA
261 AAGCCACAAAGCCTTGCCTCCCTGAGCAGCAGCGGAGTAGGTTGTAGATCCTATCTCCCTAAGCA
* * *
33171148 GTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTCAGC
326 GTAATGGAGCAAATCGAAGACGGCAAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTCAGC
* * *
33171212 CACCAAGCCTTGTTTCCCTGAGCAGCAGCAGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
33171277 GCAGTAGTGGAGTAGATTGAAGACGACAAATCTTATCTTTCCAAGATAGCGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
33171342 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
*
33171407 AAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
*
33171472 AAGCCACAAAGCCTTGCCTCCCTGAGCAGCAGCGGAGTAGGTTGTAGATCCTATCTTCCTAAGCA
261 AAGCCACAAAGCCTTGCCTCCCTGAGCAGCAGCGGAGTAGGTTGTAGATCCTATCTCCCTAAGCA
* *
33171537 GTAATGGAGCAAATTGAAGACGGCAAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTTAGC
326 GTAATGGAGCAAATCGAAGACGGCAAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTCAGC
*
33171601 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
33171666 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATTTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * * * *
33171731 GCCGCCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATGGCAAATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
33171796 GAAGTTGCAG
Statistics
Matches: 541, Mismatches: 43, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
389 541 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (389 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
AAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
AAGCCACAAAGCCTTGCCTCCCTGAGCAGCAGCGGAGTAGGTTGTAGATCCTATCTCCCTAAGCA
GTAATGGAGCAAATCGAAGACGGCAAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTCAGC
Found at i:33172040 original size:213 final size:214
Alignment explanation
Indices: 33171771--33172187 Score: 676
Period size: 213 Copynumber: 1.9 Consensus size: 214
33171761 CGGAGTAGGT
* *
33171771 TGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCT
1 TGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCT
* *
33171836 CCTTAAAGTTGCAGTGGAGCGGATTAAAACCTTGGATATTATCTCTCTAAAGTTGCAGAGAGCAG
66 CCCTAAAGTTGCAGTGGAGCGGATCAAAACCTTGGATATTATCTCTCTAAAGTTGCAGAGAGCAG
* *
33171901 ATCGCGTCTAGTCTTATCTCCCT-TTGCAGTGGAGCAAACTCAGCT-AGCAAGTCTTATCCTCCT
131 ATCGCGTCTAGTCTTATCTCCCTATTGCAGTGGAGCAAACTAAG-TAAACAAGTCTTATCCTCCT
33171964 GAAGTTGCAGTAAGGTAGAC
195 GAAGTTGCAGTAAGGTAGAC
* *
33171984 TGAAGATGGCAAATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCT
1 TGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCT
* * *
33172049 CCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
66 CCCTAAAGTTGCAGTGGAGCGGATCAAAACCTTGGATATTATCTCTCTAAAGTTGCAGAGAGCAG
*
33172114 ATCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTC
131 ATCGCGTCTAGTCTTATCTCCCT--A-TTGCAGTGGAGCAAACTAAGTAAACAAGTCTTATCCTC
33172179 CTGAAGTTG
193 CTGAAGTTG
33172188 TAGTGAGGCA
Statistics
Matches: 187, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
213 144 0.77
216 1 0.01
217 42 0.22
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (214 bp):
TGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCT
CCCTAAAGTTGCAGTGGAGCGGATCAAAACCTTGGATATTATCTCTCTAAAGTTGCAGAGAGCAG
ATCGCGTCTAGTCTTATCTCCCTATTGCAGTGGAGCAAACTAAGTAAACAAGTCTTATCCTCCTG
AAGTTGCAGTAAGGTAGAC
Found at i:33172058 original size:44 final size:42
Alignment explanation
Indices: 33171782--33172155 Score: 171
Period size: 44 Copynumber: 8.8 Consensus size: 42
33171772 GAAGATGGCA
* *
33171782 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCC--T
* * * * * *
33171826 AATCCTATCTCCTTAAAGTTGCAGTGGAGCGGATTAAAACCTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCC-T
* * * * * * * *
33171869 GGATATTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCGTCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCT
* * *
33171910 AGTCTTATCTCCCT----TTGCAGTGGAGCAAACTCAGCTAG-C-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAG--AGCCT
* * *
33171949 AAGTCTTATC-CTCCTGAAGTTGCAGTAAGGTAGACTGA--AGATGGCA
1 AA-TCTTATCTC-CCTGAAGTTGCAGT--GG-AG-CAGATTAGA-GCCT
* *
33171995 AATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCC--T
* * * * *
33172039 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCC-T
* * * * * *
33172082 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCGTCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCT
*
33172123 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
33172156 CTAAGTAAAC
Statistics
Matches: 245, Mismatches: 59, Indels: 55
0.68 0.16 0.15
Matches are distributed among these distances:
36 6 0.02
37 6 0.02
39 3 0.01
40 42 0.17
41 13 0.05
42 7 0.03
43 20 0.08
44 117 0.48
45 22 0.09
46 5 0.02
47 2 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (42 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCT
Found at i:33172182 original size:44 final size:44
Alignment explanation
Indices: 33172123--33172234 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
33172113 GATCGCGTCT
* *
33172123 AGTCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGAG-GCACACTAAATAAACA
*
33172167 AGTCTTATC-CTCCTGAAGTTGTAGTGAGGCACACTAAATAAACA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGAGGCACACTAAATAAACA
* * *
33172211 AATCCT-TCTCCCT-AAGTTGTAGTG
1 AGTCTTATCTCCCTGAAGTTGCAGTG
33172235 GAGTGGATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 11 0.18
43 6 0.10
44 42 0.70
45 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAGGCACACTAAATAAACA
Found at i:33172575 original size:19 final size:19
Alignment explanation
Indices: 33172547--33172610 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
33172537 AATTTTTGAG
*
33172547 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33172566 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33172585 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
33172606 GATAT
1 GATAT
33172611 ATACAATCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33172629 original size:19 final size:21
Alignment explanation
Indices: 33172548--33172623 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
33172538 ATTTTTGAGG
33172548 ATATACAATCTTAGATATG--
1 ATATACAATCTTAGATATGAT
*
33172567 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
33172588 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
33172609 ATATACAATCTTAGA
1 ATATACAATCTTAGA
33172624 AGATATGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:33172659 original size:21 final size:23
Alignment explanation
Indices: 33172615--33172659 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
33172605 TGATATATAC
*
33172615 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
33172638 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
33172659 A
1 A
33172660 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:33173090 original size:15 final size:15
Alignment explanation
Indices: 33173066--33173103 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
33173056 GGTTTTAGTC
33173066 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
33173080 TGTTATTATTATTTT
1 TATTATTATTAATTT
33173095 TATTATTAT
1 TATTATTAT
33173104 ATTATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:33173097 original size:12 final size:12
Alignment explanation
Indices: 33173068--33173118 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
33173058 TTTTAGTCTA
33173068 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
33173080 TGTTATTATTAT
1 TTTTATTATTAT
33173092 TTTTATTATTAT
1 TTTTATTATTAT
33173104 ATTATATATTATTAT
1 -TT-T-TATTATTAT
33173119 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 3 0.09
12 18 0.55
13 2 0.06
14 1 0.03
15 9 0.27
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:33173113 original size:15 final size:13
Alignment explanation
Indices: 33173082--33173119 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
33173072 ATTAATTTTG
33173082 TTATTATTAT-TT
1 TTATTATTATATT
33173094 TTATTATTATATT
1 TTATTATTATATT
33173107 ATATATTATTATA
1 -T-TATTATTATA
33173120 CCTACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATTATTATATT
Found at i:33176156 original size:16 final size:16
Alignment explanation
Indices: 33176137--33176170 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33176127 TGTGTTTTGC
* *
33176137 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
33176153 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
33176169 TT
1 TT
33176171 CATCATAAAA
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:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:33178431 original size:24 final size:24
Alignment explanation
Indices: 33178387--33178434 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33178377 GCCTTTTTTG
* *
33178387 CATTCATTTCATGCATTTGCATTA
1 CATTCATTACATGCATATGCATTA
33178411 CATTACATTACAT-CATATGCATTA
1 CATT-CATTACATGCATATGCATTA
33178435 AAGTCCACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (24 bp):
CATTCATTACATGCATATGCATTA
Found at i:33178599 original size:24 final size:24
Alignment explanation
Indices: 33178571--33178624 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33178561 AAGACTTGAA
* * *
33178571 CAACTTCAAAGGGAGATGCAAGAC
1 CAACTACAAAGGCAAATGCAAGAC
* *
33178595 CAACTACAAATGCAAATGCAAGAG
1 CAACTACAAAGGCAAATGCAAGAC
33178619 CAACTA
1 CAACTA
33178625 GCTAAGATCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (24 bp):
CAACTACAAAGGCAAATGCAAGAC
Found at i:33185806 original size:23 final size:23
Alignment explanation
Indices: 33185775--33185825 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
33185765 ACCTATTTTC
* *
33185775 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
33185798 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
33185821 TTACA
1 TTACA
33185826 CCTAGTCCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:33189358 original size:51 final size:50
Alignment explanation
Indices: 33189291--33189648 Score: 436
Period size: 51 Copynumber: 7.3 Consensus size: 50
33189281 GCAATTTTTT
* *
33189291 TTTCCCAGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTA
1 TTTCCCTGGCGTTGCAGTGGAA-AGATTAAAGCTGAAGGCAGCGAATCTTA
* * *
33189342 TTTCTCTGGCGTTGCAGT----AGATTAAAGCTGAAGGCAGCGAATTTTT
1 TTTCCCTGGCGTTGCAGTGGAAAGATTAAAGCTGAAGGCAGCGAATCTTA
* * *
33189388 TTTCCCTTAGCGTTGTAGTGGAATAGATTAAAGCTGAAGGTAGCGAATCTTA
1 TTTCCC-TGGCGTTGCAGTGGAA-AGATTAAAGCTGAAGGCAGCGAATCTTA
* *
33189440 TTTCCTTGGCGTTGCAATGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
1 TTTCCCTGGCGTTGCAGTGGAA-AGATTAAAGCTGAAGGCAGCGAATCTTA
*
33189491 TTTCCCTAGCGTTGCAGT---AA-ATTAAAGCTGAAGGCAGCGAATCTTA
1 TTTCCCTGGCGTTGCAGTGGAAAGATTAAAGCTGAAGGCAGCGAATCTTA
* *
33189537 TTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
1 TTTCCCTGGCGTTGCAGTGGAA-AGATTAAAGCTGAAGGCAGCGAATCTTA
* * *
33189588 TTTCCCTGGCGTTGCAGT----AGAATAAAGCTGAAGGCAGGGGATCTT-
1 TTTCCCTGGCGTTGCAGTGGAAAGATTAAAGCTGAAGGCAGCGAATCTTA
33189633 TTTCCCTGGCGTTGCA
1 TTTCCCTGGCGTTGCA
33189649 ACAGATTAAA
Statistics
Matches: 268, Mismatches: 28, Indels: 28
0.83 0.09 0.09
Matches are distributed among these distances:
45 16 0.06
46 95 0.35
47 11 0.04
48 1 0.00
49 1 0.00
50 1 0.00
51 113 0.42
52 30 0.11
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TTTCCCTGGCGTTGCAGTGGAAAGATTAAAGCTGAAGGCAGCGAATCTTA
Found at i:33189387 original size:97 final size:93
Alignment explanation
Indices: 33189314--33189661 Score: 407
Period size: 97 Copynumber: 3.6 Consensus size: 93
33189304 GCAGTGGAAC
* *
33189314 AGATTAAAGCTGAAGGCAGTGAATCTTATTT-CTCTGGCGTTGCAGTAGATTAAAGCTGAAGGCA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCT-TGGCGTTGCAGCAGATTAAAGCTGAAGGCA
* * *
33189378 GCGAATTTTTTTTCCCTTAGCGTTGTAGTGGAA
65 GCGAATCTTATTTCCC-TAGCGTTGCAGT---A
*
33189411 TAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCTTGGCGTTGCAATGGAACAGATTAAAGCTGA
1 -AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGC-A--G--CAGATTAAAGCTGA
33189476 AGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTA
60 AGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTA
*
33189510 A-ATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCA---G--CAGATTAAAGCTGAA
*
33189574 GGCAGCGAATCTTATTTCCCTGGCGTTGCAGT-
61 GGCAGCGAATCTTATTTCCCTAGCGTTGCAGTA
* * * * *
33189606 AGAATAAAGCTGAAGGCAGGGGATCTT-TTTCCCTGGCGTTGCAACAGATTAAAGCT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGCAGATTAAAGCT
33189662 ACAGACAACA
Statistics
Matches: 227, Mismatches: 15, Indels: 23
0.86 0.06 0.09
Matches are distributed among these distances:
91 12 0.05
96 16 0.07
97 112 0.49
98 39 0.17
99 4 0.02
101 1 0.00
102 11 0.05
103 32 0.14
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (93 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGCAGATTAAAGCTGAAGGCAG
CGAATCTTATTTCCCTAGCGTTGCAGTA
Found at i:33189677 original size:45 final size:46
Alignment explanation
Indices: 33189311--33189661 Score: 353
Period size: 46 Copynumber: 7.3 Consensus size: 46
33189301 GTTGCAGTGG
* *
33189311 AACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCTCTGGCGTTGC
1 AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGC
** * * * *
33189357 AGTAGATTAAAGCTGAAGGCAGCGAATTTTTTTTCCCTTAGCGTTGTAGTGG
1 AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC-T-G-G-CGT--TGC
* * *
33189409 AATAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCTTGGCGTTGC
1 AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGC
*
33189455 AATGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGC
1 -----AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGC
** * * *
33189506 AGTAAATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCATTGC
1 AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGC
33189552 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGC
1 -----AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGC
** * * *
33189603 AGTAGAATAAAGCTGAAGGCAGGGGATCTT-TTTCCCTGGCGTTGC
1 AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGC
33189648 AACAGATTAAAGCT
1 AACAGATTAAAGCT
33189662 ACAGACAACA
Statistics
Matches: 251, Mismatches: 38, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
45 26 0.10
46 98 0.39
47 1 0.00
48 3 0.01
49 2 0.01
50 3 0.01
51 84 0.33
52 34 0.14
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (46 bp):
AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGC
Found at i:33190386 original size:21 final size:21
Alignment explanation
Indices: 33190362--33190410 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
33190352 GTAGAACTTA
33190362 TTTTTTTCTTGATTTCTTATT-
1 TTTTTTTCTTGATTT-TTATTC
* *
33190383 TTTTTTCCTTGATTTTTTTTC
1 TTTTTTTCTTGATTTTTATTC
33190404 TTTTTTT
1 TTTTTTT
33190411 AAAAGAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTGATTTTTATTC
Found at i:33190408 original size:20 final size:21
Alignment explanation
Indices: 33190358--33190397 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33190348 AGAGGTAGAA
33190358 CTTA-TTTTTTT-CTTGATTT
1 CTTATTTTTTTTCCTTGATTT
33190377 CTTATTTTTTTTCCTTGATTT
1 CTTATTTTTTTTCCTTGATTT
33190398 TTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.72
Consensus pattern (21 bp):
CTTATTTTTTTTCCTTGATTT
Found at i:33191481 original size:18 final size:19
Alignment explanation
Indices: 33191458--33191505 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
33191448 TGTTTTTTTA
33191458 TATTATTGTTTA-TACCGT
1 TATTATTGTTTAGTACCGT
**
33191476 TATTATTCATTAGTACCGT
1 TATTATTGTTTAGTACCGT
*
33191495 TGATTTTTGTT
1 T-ATTATTGTT
33191506 GTTTTTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 10 0.43
19 7 0.30
20 6 0.26
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.56
Consensus pattern (19 bp):
TATTATTGTTTAGTACCGT
Found at i:33198463 original size:15 final size:15
Alignment explanation
Indices: 33198443--33198488 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
33198433 ACAACATATT
33198443 AACGTAAATAATTAA
1 AACGTAAATAATTAA
*
33198458 AACGTAACAT--TTTA
1 AACGTAA-ATAATTAA
*
33198472 AACATAAATAATTAA
1 AACGTAAATAATTAA
33198487 AA
1 AA
33198489 TATAACTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (15 bp):
AACGTAAATAATTAA
Found at i:33198743 original size:5 final size:5
Alignment explanation
Indices: 33198730--33198761 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
33198720 GGTGTCGGAC
*
33198730 TTCAA TTCAT TTCAT TTCAT TTCAT TTCAT TT
1 TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TT
33198762 ATCTGCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (5 bp):
TTCAT
Found at i:33199037 original size:6 final size:6
Alignment explanation
Indices: 33199019--33199070 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
33199009 CCGGACTGAT
* *
33199019 TCCGCC TCGGCC TCTGCC TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC
1 TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC TCCGCC
33199067 TCCG
1 TCCG
33199071 GTCCTATTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.00, C:0.62, G:0.19, T:0.19
Consensus pattern (6 bp):
TCCGCC
Found at i:33203788 original size:47 final size:47
Alignment explanation
Indices: 33203712--33203923 Score: 309
Period size: 47 Copynumber: 4.5 Consensus size: 47
33203702 CTTCGGGACT
* * * * * *
33203712 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
33203759 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
33203805 TCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
33203853 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
33203900 TATCACATATATACACATTCACAT
1 TATCACATATATACACTTTCACAT
33203924 CACAATTATC
Statistics
Matches: 151, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
46 3 0.02
47 146 0.97
48 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:33209797 original size:33 final size:33
Alignment explanation
Indices: 33209746--33209808 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
33209736 ATTACAAATA
*
33209746 TTTAATAGTTATATTTAAATATTTA-AAATATAG
1 TTTAATAGTTATAATTAAAT-TTTATAAATATAG
33209779 TTTATATA-TTATAATTAAATTTTATAAATA
1 TTTA-ATAGTTATAATTAAATTTTATAAATA
33209809 ATTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 4 0.15
33 20 0.74
34 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (33 bp):
TTTAATAGTTATAATTAAATTTTATAAATATAG
Found at i:33209847 original size:30 final size:30
Alignment explanation
Indices: 33209808--33209864 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
33209798 TTTTATAAAT
33209808 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
33209838 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
33209865 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:33214847 original size:63 final size:63
Alignment explanation
Indices: 33214753--33214880 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
33214743 GAGAAAGAAA
33214753 ATATCATACCCAATACGTTAGGGCACGACATTCTATTTCCTCAAAAATGATTTAGTCCAAAAT
1 ATATCATACCCAATACGTTAGGGCACGACATTCTATTTCCTCAAAAATGATTTAGTCCAAAAT
33214816 ATATCATACCCAATACGTTAGGGCACGACATTCTATTTCCTCAAAAATGATTTAGTCCAAAAT
1 ATATCATACCCAATACGTTAGGGCACGACATTCTATTTCCTCAAAAATGATTTAGTCCAAAAT
33214879 AT
1 AT
33214881 TCTTATAACA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (63 bp):
ATATCATACCCAATACGTTAGGGCACGACATTCTATTTCCTCAAAAATGATTTAGTCCAAAAT
Found at i:33216301 original size:21 final size:19
Alignment explanation
Indices: 33216264--33216338 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
33216254 AATCATATCT
33216264 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
33216283 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
**
33216304 TTTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
33216323 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
33216339 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 34 0.67
21 17 0.33
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:33216787 original size:43 final size:43
Alignment explanation
Indices: 33216734--33216875 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
33216724 TGTCTTCGAT
*
33216734 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTAAC
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTAAC
**** * * * * * *
33216777 CTGCTCCGCTG-CAACCCAGGGAGACAAG-GCTGGTGTTTTCAAT
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTT-AAC
* *
33216820 CTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA--TTTAAC
33216865 CTGCTCCGCTG
1 CTGCTCCGCTG
33216876 CAACCCAGGG
Statistics
Matches: 69, Mismatches: 24, Indels: 10
0.67 0.23 0.10
Matches are distributed among these distances:
41 4 0.06
42 14 0.20
43 22 0.32
44 10 0.14
45 16 0.23
46 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.28
Consensus pattern (43 bp):
CTGCTCCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTAAC
Found at i:33216906 original size:88 final size:88
Alignment explanation
Indices: 33216700--33218178 Score: 1709
Period size: 88 Copynumber: 16.9 Consensus size: 88
33216690 CTTGATCTAT
* * * *
33216700 TGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
33216765 CTGCTA--TTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * ** *
33216786 TGCAACCCAGGGAGACAAGGCTGGTGTTTTCAATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
*
33216851 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* *
33216874 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
*
33216939 CTGCTATCTTTAACCTGCTCTGC
66 CTGCTATCTTTAACCTGCTCCGC
* ** * * * *
33216962 TGCCACTGAGGGAGGCAAGGCTAGTGTCTTCAATATGCTTCACTGTTAGTACAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
33217027 CTGCTATCTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * *
33217050 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
* *
33217115 CCGCTATCTTTAACCTGCTCTGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * *
33217138 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGTAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
*
33217203 CTGCTATCTTTAACCTGCTCTGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * * * * **
33217226 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACT-CCTGCT-TAGGGAGATAAGA
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAG-TACAGGAAGGCAAGA
*
33217289 TCTGCAAT-TTTCAACCTGCTCCGC
65 TCTGCTATCTTT-AACCTGCTCCGC
* * * *
33217313 TGTAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG-CCGATACAGGAAGACAAGA
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAG-TACAGGAAGGCAAGA
*
33217377 TCTGCTATTTTTAACCTGCTCCGC
65 TCTGCTATCTTTAACCTGCTCCGC
* * * *
33217401 TGCAACCCAGAGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAAGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
*
33217466 CTGCTATCTTTAACCTACTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * *
33217489 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTATAAGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
*
33217554 CTGCTATCATTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * ** * *
33217577 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
* * *
33217642 CTGTTATCTTTAACCCGCTCCAC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * * *
33217665 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAAGAAGACAATAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
* *
33217730 CTGTTATCTTTAACCTGCTCTGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * * * * * **
33217753 TGCCACCGAGGGAGGCAAGGTTAGTGTCTTCGATCTACTCCACT-ACTGCT-TAGGGAGATAAGA
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAG-TACAGGAAGGCAAGA
* * *
33217816 TTTG-TAAT-TTTCAACCTGCACTGC
65 TCTGCT-ATCTTT-AACCTGCTCCGC
* * * * *
33217840 TGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCGGTATAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
* *
33217905 TTGCTATTTTTAACCTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* *
33217928 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
* *
33217993 CTGCTATTTTTAACTTGCTCCGC
66 CTGCTATCTTTAACCTGCTCCGC
* * * ** * *
33218016 TGCAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGCTGTTGGTGCAGGAAGACAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
* *
33218081 CTGCTATTTTTAACCTGCTCCAC
66 CTGCTATCTTTAACCTGCTCCGC
* * * * * * *
33218104 TACAACTCAGGGAGGCAAGGTTGGTGCCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
*
33218169 CTGTTATCTT
66 CTGCTATCTT
33218179 CACTGATCTG
Statistics
Matches: 1237, Mismatches: 141, Indels: 28
0.88 0.10 0.02
Matches are distributed among these distances:
86 73 0.06
87 133 0.11
88 1023 0.83
89 8 0.01
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (88 bp):
TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAT
CTGCTATCTTTAACCTGCTCCGC
Found at i:33217505 original size:44 final size:43
Alignment explanation
Indices: 33217457--33217771 Score: 136
Period size: 44 Copynumber: 7.2 Consensus size: 43
33217447 TAGTACAAGA
* *
33217457 AGGCAAGATCTGCTATCTTTAACCTACTCCGCTGCCACCGAGGG
1 AGGCAAGATCTG-TATCTTTAACCTGCTCCACTGCCACCGAGGG
* * * * * ** *** * *
33217501 AGGCAAG-GCTAGTGTCTTCAATCTGCTTCACTGTTAGTATAAGA
1 AGGCAAGATCT-GTATCTTTAACCTGCTCCACTGCCA-CCGAGGG
* *
33217545 AGGCAAGATCTGCTATCATTAACCTGCTCCGCTGCCACCGAGGG
1 AGGCAAGATCTG-TATCTTTAACCTGCTCCACTGCCACCGAGGG
* * * * * * *
33217589 AGGCAAG-GCTAGTGTCTTTAATCTGCTTCACTGTCAGTAC-AGGA
1 AGGCAAGATCT-GTATCTTTAACCTGCTCCACTGCCA--CCGAGGG
* *
33217633 AGACAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGAGGG
1 AGGCAAGATCTG-TATCTTTAACCTGCTCCACTGCCACCGAGGG
* * * * * ** * * *
33217677 AGGCAAG-GCTAGTGTCTTCAATCTGCTTCACTATCAGTAC-AAGA
1 AGGCAAGATCT-GTATCTTTAACCTGCTCCACTGCCA--CCGAGGG
* * **
33217721 AGACAATATCTGTTATCTTTAACCTGCTCTGCTGCCACCGAGGG
1 AGGCAAGATCTG-TATCTTTAACCTGCTCCACTGCCACCGAGGG
33217765 AGGCAAG
1 AGGCAAG
33217772 GTTAGTGTCT
Statistics
Matches: 181, Mismatches: 74, Indels: 32
0.63 0.26 0.11
Matches are distributed among these distances:
43 59 0.33
44 63 0.35
45 59 0.33
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (43 bp):
AGGCAAGATCTGTATCTTTAACCTGCTCCACTGCCACCGAGGG
Found at i:33217654 original size:45 final size:45
Alignment explanation
Indices: 33217603--33217748 Score: 120
Period size: 45 Copynumber: 3.3 Consensus size: 45
33217593 AAGGCTAGTG
*
33217603 TCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTA
1 TCTTTAACCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTA
* * * * * * * *
33217648 TCTTTAACCCGCTCCACTGCCA--CCGAGGGAGGCAAG-GCTAG-TG
1 TCTTTAACCTGCTTCACTGTCAGTAC-AGGAAGACAAGATCT-GTTA
* * * * *
33217691 TCTTCAATCTGCTTCACTATCAGTACAAGAAGACAATATCTGTTA
1 TCTTTAACCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTA
33217736 TCTTTAACCTGCT
1 TCTTTAACCTGCT
33217749 CTGCTGCCAC
Statistics
Matches: 71, Mismatches: 24, Indels: 12
0.66 0.22 0.11
Matches are distributed among these distances:
43 20 0.28
44 18 0.25
45 33 0.46
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
TCTTTAACCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTA
Found at i:33217767 original size:527 final size:527
Alignment explanation
Indices: 33216760--33218178 Score: 2187
Period size: 527 Copynumber: 2.7 Consensus size: 527
33216750 GCAGGAAGGC
* * * *
33216760 AAGATCTGCTA-TTT-AACCTGCTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTTTTCAATCTG
1 AAGATCTGCAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
** *
33216823 CTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
66 CTTCGCTGCCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
* ** *
33216888 GCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
131 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
* * *
33216953 CTGCTCTGCTGCCACTGAGGGAGGCAAGGCTAGTGTCTTCAATATGCTTCACTGTTAGTACAGGA
196 CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
33217018 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAA
261 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAA
* * * **
33217083 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCCGCTATCTTTAACCTGCTCTGCTGCCACCGAG
326 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGAG
* * * **
33217148 GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGTAAGATCTGCTATCTT
391 GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAAGAAGACAAGATCTGCTATCTT
*
33217213 TAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTCCTGCTTA
456 TAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACTGCTTA
33217278 GGGAGAT
521 GGGAGAT
*
33217285 AAGATCTGCAATTTTCAACCTGCTCCGCTGTAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
1 AAGATCTGCAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * *
33217350 CTTCGCTGCCGATACAGGAAGACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGAGAG
66 CTTCGCTGCCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
*
33217415 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAAC
131 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
* * *
33217480 CTACTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTATAAGA
196 CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
* *
33217545 AGGCAAGATCTGCTATCATTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTTAA
261 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAA
*
33217610 TCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGAG
326 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGAG
* *
33217675 GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAAGAAGACAATATCTGTTATCTT
391 GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAAGAAGACAAGATCTGCTATCTT
*
33217740 TAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGTTAGTGTCTTCGATCTACTCCACTACTGCTTA
456 TAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACTGCTTA
33217805 GGGAGAT
521 GGGAGAT
* * * * *
33217812 AAGATTTGTAATTTTCAACCTGCACTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTG
1 AAGATCTGCAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* *
33217877 CTTCGCTGCCGGTATAGGAAGGCAAGATTTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
66 CTTCGCTGCCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
*
33217942 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATTTTTAAC
131 GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
* * * * * * * * * *
33218007 TTGCTCCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGCTGTTGGTGCAGGA
196 CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
* * * * * * * * *
33218072 AGACAAGATCTGCTATTTTTAACCTGCTCCACTACAACTC-AGGGAGGCAAGGTTGGTGCCTTCG
261 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCAC-CGAGGGAGGCAAGGCTAGTGTCTTCA
* * *
33218136 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATCTT
325 ATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGTTATCTT
33218179 CACTGATCTG
Statistics
Matches: 811, Mismatches: 80, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
525 10 0.01
526 3 0.00
527 797 0.98
528 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (527 bp):
AAGATCTGCAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
CTTCGCTGCCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
GCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
CTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGA
AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAA
TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGTTATCTTTAACCCGCTCCACTGCCACCGAG
GGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTATCAGTACAAGAAGACAAGATCTGCTATCTT
TAACCTGCTCTGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACTGCTTA
GGGAGAT
Found at i:33217944 original size:44 final size:44
Alignment explanation
Indices: 33217896--33218034 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 44
33217886 CGGTATAGGA
33217896 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
** * * * ** * * * * *** *
33217940 AGGCAAGGCTAG-TGTCTTCGATCTGCTTCGTTGTTAGTACAGGA
1 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTG-CAACCCAGGG
* *
33217984 AGGCAAGATCTGCTATTTTTAACTTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
33218028 AGGCAAG
1 AGGCAAG
33218035 GTTGGTGTCT
Statistics
Matches: 61, Mismatches: 32, Indels: 4
0.63 0.33 0.04
Matches are distributed among these distances:
43 14 0.23
44 34 0.56
45 13 0.21
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (44 bp):
AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
Found at i:33225078 original size:19 final size:19
Alignment explanation
Indices: 33225054--33225122 Score: 120
Period size: 19 Copynumber: 3.5 Consensus size: 19
33225044 ATCTTCCAAT
33225054 ATTGCATATCATATCTAAG
1 ATTGCATATCATATCTAAG
33225073 ATTGCATATATCATATCTAAG
1 ATTGC--ATATCATATCTAAG
33225094 ATTGCATATCATATCTAAG
1 ATTGCATATCATATCTAAG
33225113 ATTGCATATC
1 ATTGCATATC
33225123 CTTGAAGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
19 29 0.60
21 19 0.40
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTGCATATCATATCTAAG
Found at i:33225085 original size:21 final size:21
Alignment explanation
Indices: 33225059--33225121 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
33225049 CCAATATTGC
33225059 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
33225080 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
33225099 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
33225120 AT
1 AT
33225122 CCTTGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:33225633 original size:88 final size:88
Alignment explanation
Indices: 33225484--33226313 Score: 989
Period size: 88 Copynumber: 9.4 Consensus size: 88
33225474 CTTGATCTGT
* * * * * * * *
33225484 TGCAACTCAAGGAGGCAAGGCTGGTGTATTCGATCTGCTTCACAGTTTGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
33225549 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATTTTTAACCTGCTCCGC
* * * * * * *
33225572 TGCAACCCAGGGAGGTATGGCTGGTGTCTTCAATCTACTTCGCTGTTGGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
33225637 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATTTTTAACCTGCTCCGC
* * * * *
33225660 TGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTACTTCGCTGTTGGTGCAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
33225725 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATTTTTAACCTGCTCCGC
** * *
33225748 TGCAACCCAATGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTTAGTACAGGAAGGAAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
* *
33225813 CTGCTATCTTTAACCTGCTCCAC
66 CTGCTATTTTTAACCTGCTCCGC
* * * * *
33225836 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCAGTGTCAGTACAGGAAGGTAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
*
33225901 CTGCTATCTTTAACCTGCTCCGC
66 CTGCTATTTTTAACCTGCTCCGC
* * * *
33225924 TTCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
* * *
33225989 ATGCTATCTTTAACCTGCTCTGC
66 CTGCTATTTTTAACCTGCTCCGC
* * * * *
33226012 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGGTTCACTGTCAGTACAGGAAGGCAAGAA
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
* * *
33226077 CTGCTATCTTTAACTTGCTTCGC
66 CTGCTATTTTTAACCTGCTCCGC
* * * * * ** * * **
33226100 TGCCACCGAGGGAGGCAAGGCTAGTGTCTTCGATCTACTCCACTACT-GCT-TAGGGAGATAAGA
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAG-TACAGGAAGGCAAGA
* * * *
33226163 TATGCAATTTTCAACCTGCTCTGC
65 TCTGCTATTTTTAACCTGCTCCGC
* * ** * * ** *
33226187 TGTAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGTTTCGCTGTCGGTACAGGAAGACAAGAT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
33226252 CTGCTATTTTTAACCTGCTCCGC
66 CTGCTATTTTTAACCTGCTCCGC
*
33226275 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT
1 TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCT
33226314 AATTTTTAAC
Statistics
Matches: 653, Mismatches: 86, Indels: 6
0.88 0.12 0.01
Matches are distributed among these distances:
87 62 0.09
88 591 0.91
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (88 bp):
TGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGAT
CTGCTATTTTTAACCTGCTCCGC
Found at i:33225678 original size:44 final size:44
Alignment explanation
Indices: 33225535--33225756 Score: 142
Period size: 44 Copynumber: 5.0 Consensus size: 44
33225525 ACAGTTTGTG
33225535 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * * * * * * * *****
33225579 CAGGGAGGTATG-GCTGGTGTCTTCAATCTACTTCGCTGTTGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
33225623 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * * * * * *****
33225667 CAGGGAGGCAAG-GCTGGTGTCTTCAATCTACTTCGCTGTTGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
33225711 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
33225755 CA
1 CA
33225757 ATGAGGCAAG
Statistics
Matches: 114, Mismatches: 60, Indels: 8
0.63 0.33 0.04
Matches are distributed among these distances:
43 36 0.32
44 42 0.37
45 36 0.32
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
Found at i:33225764 original size:44 final size:44
Alignment explanation
Indices: 33225540--33225766 Score: 111
Period size: 43 Copynumber: 5.2 Consensus size: 44
33225530 TTGTGCAGGA
*
33225540 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
* * * * * * * * * * *****
33225584 AGGTATG-GCTGGTGTCTTCAATCTACTTCGCTGTTGGTGC-AGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAAGG
*
33225627 AAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
1 -AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
* * * * * * * * *****
33225672 AGGCAAG-GCTGGTGTCTTCAATCTACTTCGCTGTTGGTGC-AGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAAGG
*
33225715 AAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAATG
1 -AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
33225760 AGGCAAG
1 AGGCAAG
33225767 GCTAGTGTCT
Statistics
Matches: 115, Mismatches: 60, Indels: 16
0.60 0.31 0.08
Matches are distributed among these distances:
43 40 0.35
44 35 0.30
45 40 0.35
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
Found at i:33226116 original size:44 final size:44
Alignment explanation
Indices: 33225896--33226118 Score: 106
Period size: 44 Copynumber: 5.1 Consensus size: 44
33225886 ACAGGAAGGT
* * * *
33225896 AAGATCTGCTATCTTTAACCTGCTCCGCTTCCACCGAGGGAGGC
1 AAGAACTGCTATCTTTAACTTGCTTCGCTGCCACCGAGGGAGGC
* * * * * * *
33225940 AAG-GCTAG-TGTCTTCAA-TCTGCTTCACTGTCAGTAC-AGGAAGGC
1 AAGAACT-GCTATCTTTAACT-TGCTTCGCTGCCA--CCGAGGGAGGC
*
33225984 AAGATA-TGCTATCTTTAACCTGC-TCTGCTGCCACCGAGGGAGGC
1 AAGA-ACTGCTATCTTTAACTTGCTTC-GCTGCCACCGAGGGAGGC
* * * * * * * *
33226028 AAG-GCTAG-TGTCTTCAA-TCTGGTTCACTGTCAGTAC-AGGAAGGC
1 AAGAACT-GCTATCTTTAACT-TGCTTCGCTGCCA--CCGAGGGAGGC
33226072 AAGAACTGCTATCTTTAACTTGCTTCGCTGCCACCGAGGGAGGC
1 AAGAACTGCTATCTTTAACTTGCTTCGCTGCCACCGAGGGAGGC
33226116 AAG
1 AAG
33226119 GCTAGTGTCT
Statistics
Matches: 124, Mismatches: 35, Indels: 40
0.62 0.18 0.20
Matches are distributed among these distances:
43 35 0.28
44 51 0.41
45 37 0.30
46 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (44 bp):
AAGAACTGCTATCTTTAACTTGCTTCGCTGCCACCGAGGGAGGC
Found at i:33227926 original size:21 final size:21
Alignment explanation
Indices: 33227889--33227945 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
33227879 AATCATATCT
33227889 TCCAAGATTGC--ATATCATA
1 TCCAAGATTGCATATATCATA
33227908 TCCAAGATTGCATATATCATA
1 TCCAAGATTGCATATATCATA
*
33227929 TCTAAGATTGCATATAT
1 TCCAAGATTGCATATAT
33227946 TTGAAGATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 11 0.31
21 24 0.69
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
TCCAAGATTGCATATATCATA
Found at i:33232012 original size:22 final size:22
Alignment explanation
Indices: 33231977--33232025 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
33231967 TTTTCAATCA
*
33231977 CTTCCTCGCCCATTAGTATGAT
1 CTTCCTCGCCCATTAGTATGAC
* *
33231999 CTTCCTTGCTCATTAGTATGAC
1 CTTCCTCGCCCATTAGTATGAC
33232021 CTTCC
1 CTTCC
33232026 ATGTCCATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.33, G:0.12, T:0.39
Consensus pattern (22 bp):
CTTCCTCGCCCATTAGTATGAC
Found at i:33234101 original size:9 final size:9
Alignment explanation
Indices: 33234078--33234312 Score: 62
Period size: 9 Copynumber: 24.6 Consensus size: 9
33234068 ATTTTTCTCA
*
33234078 TAAAATTAT
1 TAAAAATAT
33234087 TAAAAAATAT
1 T-AAAAATAT
33234097 T-AAAA-AT
1 TAAAAATAT
33234104 TAGAAAACT-T
1 TA-AAAA-TAT
33234114 ATAAATAATAT
1 -TAAA-AATAT
33234125 TAAAAATAT
1 TAAAAATAT
33234134 TAAAATTGATAT
1 TAAAA---ATAT
**
33234146 T-AACTTAT
1 TAAAAATAT
*
33234154 TAAAATTA-
1 TAAAAATAT
*
33234162 TAAAAAAACT
1 TAAAAATA-T
33234172 TATAAAA-AT
1 TA-AAAATAT
33234181 CTAATAAAT-T
1 -TAA-AAATAT
33234191 ATAATAAATTAT
1 -TAA-AAA-TAT
33234203 AATAAAAATA-
1 --TAAAAATAT
*
33234213 TAAAATTAT
1 TAAAAATAT
*
33234222 TTAAAATAT
1 TAAAAATAT
33234231 T--AAA-AT
1 TAAAAATAT
33234237 TAAAAATGTAT
1 TAAAAA--TAT
* *
33234248 TAGAATTAT
1 TAAAAATAT
33234257 TAAAAAATAAT
1 T-AAAAAT-AT
33234268 TATAAAAT-T
1 TA-AAAATAT
33234277 GTAAATAATTAT
1 -TAAA-AA-TAT
*
33234289 AAAAAAATAT
1 -TAAAAATAT
33234299 TAAAAATAT
1 TAAAAATAT
33234308 TAAAA
1 TAAAA
33234313 TTGATATAAA
Statistics
Matches: 175, Mismatches: 17, Indels: 68
0.67 0.07 0.26
Matches are distributed among these distances:
6 3 0.02
7 6 0.03
8 24 0.14
9 50 0.29
10 44 0.25
11 31 0.18
12 13 0.07
13 4 0.02
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAAAATAT
Found at i:33234138 original size:28 final size:28
Alignment explanation
Indices: 33234077--33234314 Score: 106
Period size: 28 Copynumber: 8.3 Consensus size: 28
33234067 TATTTTTCTC
33234077 ATAAAATTATTAAAAAATATTAAAAATT
1 ATAAAATTATTAAAAAATATTAAAAATT
* *
33234105 AGAAAACTTA-TAAATAATATTAAAAA-T
1 ATAAAA-TTATTAAAAAATATTAAAAATT
* **
33234132 ATTAAAATTGA-TATTAACTTATT-AAAATT
1 A-TAAAATT-ATTA-AAAAATATTAAAAATT
** *
33234161 ATAAAAAAACTTATAAAAAT-CTAATAAATT
1 ATAAAATTA-TTA-AAAAATATTAA-AAATT
*
33234191 ATAATAAATTATAATAAAAATA-T-AAAATT
1 AT-A-AAATTATTA-AAAAATATTAAAAATT
33234220 ATTTAAAA-TATT---AAA-ATTAAAAATGT
1 A--TAAAATTATTAAAAAATATTAAAAAT-T
*
33234246 ATTAGAATTATTAAAAAATAATTATAAAATT
1 A-TAAAATTATTAAAAAAT-ATTA-AAAATT
* *
33234277 GTAAATAATTATAAAAAAATATTAAAAA-T
1 AT-AA-AATTATTAAAAAATATTAAAAATT
33234306 ATTAAAATT
1 A-TAAAATT
33234315 GATATAAACT
Statistics
Matches: 161, Mismatches: 22, Indels: 54
0.68 0.09 0.23
Matches are distributed among these distances:
23 1 0.01
24 4 0.02
25 10 0.06
26 6 0.04
27 5 0.03
28 44 0.27
29 32 0.20
30 15 0.09
31 22 0.14
32 22 0.14
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
ATAAAATTATTAAAAAATATTAAAAATT
Found at i:33234195 original size:10 final size:10
Alignment explanation
Indices: 33234156--33234208 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
33234146 TAACTTATTA
*
33234156 AAATTATAAAA
1 AAATTAT-AAT
33234167 AAACTTATAA-
1 AAA-TTATAAT
*
33234177 AAA-TCTAAT
1 AAATTATAAT
33234186 AAATTATAAT
1 AAATTATAAT
33234196 AAATTATAAT
1 AAATTATAAT
33234206 AAA
1 AAA
33234209 AATATAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 21 0.57
11 5 0.14
12 4 0.11
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTATAAT
Found at i:33234242 original size:25 final size:27
Alignment explanation
Indices: 33234205--33234266 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
33234195 TAAATTATAA
33234205 TAAAAATATAAAAT-TATTTA-AAATAT
1 TAAAAATATAAAATGTA-TTAGAAATAT
* *
33234231 TAAAATTA-AAAATGTATTAGAATTAT
1 TAAAAATATAAAATGTATTAGAAATAT
33234257 TAAAAA-ATAA
1 TAAAAATATAA
33234267 TTATAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (27 bp):
TAAAAATATAAAATGTATTAGAAATAT
Found at i:33234303 original size:10 final size:10
Alignment explanation
Indices: 33234254--33234312 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 10
33234244 GTATTAGAAT
33234254 TATTAAAAAA
1 TATTAAAAAA
*
33234264 TAATTATAAAA
1 T-ATTAAAAAA
*
33234275 T-TGTAAATAAT
1 TAT-TAAA-AAA
*
33234286 TATAAAAAAA
1 TATTAAAAAA
33234296 TATT-AAAAA
1 TATTAAAAAA
33234305 TATTAAAA
1 TATTAAAA
33234313 TTGATATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
9 10 0.26
10 12 0.32
11 15 0.39
12 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
TATTAAAAAA
Found at i:33234333 original size:96 final size:94
Alignment explanation
Indices: 33234151--33234322 Score: 215
Period size: 96 Copynumber: 1.8 Consensus size: 94
33234141 GATATTAACT
* *
33234151 TATTAAAATTATAAAAAAACTTATAAAAATCTAATAAATTATAATAAATTATAATAAAAATATAA
1 TATTAAAATTATAAAAAAAATTATAAAAATCTAATAAATTATAATAAATAATAATAAAAATATAA
*
33234216 AATTATTTAAAATATTAAAATTAAAAATG
66 AATTATATAAAATATTAAAATTAAAAATG
* * * *
33234245 TATTAGAATTATTAAAAAATAATTATAAAATTGTAA-ATAATTATAA-AAA-AATATTAAAAATA
1 TATTAAAATTA-TAAAAAA-AATTATAAAAATCTAATA-AATTATAATAAATAATAATAAAAATA
33234307 TTAAAATTGATATAAA
63 -TAAAATT-ATATAAA
33234323 CTTATAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
94 21 0.32
95 18 0.27
96 27 0.41
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (94 bp):
TATTAAAATTATAAAAAAAATTATAAAAATCTAATAAATTATAATAAATAATAATAAAAATATAA
AATTATATAAAATATTAAAATTAAAAATG
Found at i:33234627 original size:19 final size:19
Alignment explanation
Indices: 33234605--33234652 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
33234595 CTTTTAGTAA
*
33234605 TTTTATAATTTT-TTATGAT
1 TTTTATAATTTTAATATG-T
33234624 TTTTATAGAATTTTAATATGT
1 TTTTAT--AATTTTAATATGT
33234645 TTTTATAA
1 TTTTATAA
33234653 AATTTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTAATATGT
Found at i:33234664 original size:22 final size:22
Alignment explanation
Indices: 33234618--33234660 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
33234608 TATAATTTTT
*
33234618 TATGATTTTTATAGAATTTTAA
1 TATGATTTTTATAAAATTTTAA
33234640 TATG-TTTTTATAAAATTTTAA
1 TATGATTTTTATAAAATTTTAA
33234661 ATATTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TATGATTTTTATAAAATTTTAA
Found at i:33237201 original size:20 final size:20
Alignment explanation
Indices: 33237173--33237222 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
33237163 TATCAATCCA
33237173 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCTTAAG
*
33237193 GTATTGATATATTTCTTAAG
1 GTATCGATATATTTCTTAAG
*
33237213 GTATCAATAT
1 GTATCGATAT
33237223 TCCTTCTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (20 bp):
GTATCGATATATTTCTTAAG
Found at i:33246426 original size:22 final size:21
Alignment explanation
Indices: 33246378--33246431 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
33246368 ATACATTAAA
* *
33246378 TTTAAAAAAATAACTCTTAAT
1 TTTAAAAAAATAACGCGTAAT
33246399 TTTAAAAAAATAA-GCGTAAT
1 TTTAAAAAAATAACGCGTAAT
33246419 TATCTAAAAAAAT
1 T-T-TAAAAAAAT
33246432 TAACCCAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 14 0.48
22 9 0.31
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (21 bp):
TTTAAAAAAATAACGCGTAAT
Found at i:33258626 original size:11 final size:11
Alignment explanation
Indices: 33258598--33258634 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
33258588 ACAAAGAACA
*
33258598 AACTAACAGAT
1 AACTAACAGCT
33258609 CAACTAACAGCT
1 -AACTAACAGCT
33258621 AACTAACAGCT
1 AACTAACAGCT
33258632 AAC
1 AAC
33258635 AGATTAACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.49, C:0.27, G:0.08, T:0.16
Consensus pattern (11 bp):
AACTAACAGCT
Found at i:33260919 original size:15 final size:15
Alignment explanation
Indices: 33260899--33260929 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33260889 CACATCTATC
33260899 AGCCATAGGGAAGAT
1 AGCCATAGGGAAGAT
*
33260914 AGCCATAGGGAGGAT
1 AGCCATAGGGAAGAT
33260929 A
1 A
33260930 CCGAGATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.35, T:0.13
Consensus pattern (15 bp):
AGCCATAGGGAAGAT
Found at i:33267193 original size:18 final size:18
Alignment explanation
Indices: 33267155--33267190 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33267145 TTATTATTTT
*
33267155 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
33267173 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
33267191 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:33278345 original size:27 final size:30
Alignment explanation
Indices: 33278313--33278376 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
33278303 TCAAATTTTG
33278313 AAATAACATATA-AAAA-A-AATTTAAACT
1 AAATAACATATATAAAAGATAATTTAAACT
*
33278340 AAATAATATATATTAAAAGATAATTTAAACT
1 AAATAACATATA-TAAAAGATAATTTAAACT
33278371 AAATAA
1 AAATAA
33278377 TGTATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 11 0.34
29 4 0.12
30 1 0.03
31 16 0.50
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (30 bp):
AAATAACATATATAAAAGATAATTTAAACT
Found at i:33280110 original size:25 final size:25
Alignment explanation
Indices: 33280082--33280184 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
33280072 ATATAATAGA
33280082 AAGCTCATGTGAGCCATATAACGGG
1 AAGCTCATGTGAGCCATATAACGGG
* * **
33280107 AAGCTTAT-TCGGGCTGTATAACGGG
1 AAGCTCATGT-GAGCCATATAACGGG
**
33280132 AAGCTCATAAGAGCCATCAT--CGGG
1 AAGCTCATGTGAGCCAT-ATAACGGG
*
33280156 AAGCTCATGCGAGCCA-ATAACGGG
1 AAGCTCATGTGAGCCATATAACGGG
*
33280180 TAGCT
1 AAGCT
33280185 TCGAAGAGCC
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
22 2 0.03
24 27 0.44
25 30 0.49
26 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (25 bp):
AAGCTCATGTGAGCCATATAACGGG
Found at i:33283207 original size:16 final size:18
Alignment explanation
Indices: 33283176--33283208 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33283166 GAGAGTGTGA
33283176 GGATGAGATGTGAATGAG
1 GGATGAGATGTGAATGAG
33283194 GGATGAG-T-TGAATGA
1 GGATGAGATGTGAATGA
33283209 TCAGCAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.42, T:0.24
Consensus pattern (18 bp):
GGATGAGATGTGAATGAG
Found at i:33297102 original size:12 final size:12
Alignment explanation
Indices: 33297085--33297114 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
33297075 TCGTGGGCAC
33297085 GACTTTTTCCAT
1 GACTTTTTCCAT
33297097 GACTTTTTCCAT
1 GACTTTTTCCAT
33297109 GACTTT
1 GACTTT
33297115 CGACACGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.10, T:0.50
Consensus pattern (12 bp):
GACTTTTTCCAT
Found at i:33312020 original size:92 final size:88
Alignment explanation
Indices: 33311839--33312048 Score: 255
Period size: 92 Copynumber: 2.3 Consensus size: 88
33311829 GCAAAAAATT
* *
33311839 CTCAAACTTTTTA-AAAAAACAATTAAG--TCTTTTTTTTTTTGCACTCATTTGGGTACTTGAAC
1 CTCAAACTTTTTAGAAAAAACAATTAAGCCTCTTTTTTTTTTTGCACTCAATTGGATACTTGAAC
* * *
33311901 TTTCAAAATGCATGAAAAAGGCC
66 TTTCAAAATACATCAAAAAGACC
* *
33311924 CTCAATGCTTTTTAGAAAAAAGCAATTAAGCCTCTGCTTTTTTTTTTGCACTCAATTGGATGCTT
1 CTCAA-ACTTTTTAGAAAAAA-CAATTAAGCCTCT--TTTTTTTTTTGCACTCAATTGGATACTT
* *
33311989 GAACTTTCAAAATACATCAAAAATACT
62 GAACTTTCAAAATACATCAAAAAGACC
33312016 CTCAAACTTTTTCAAAGAAAAAACAATTAAGCC
1 CTCAAACTTTTT---AGAAAAAACAATTAAGCC
33312049 CATGTTTTTA
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
85 5 0.05
86 7 0.07
87 6 0.06
88 8 0.08
90 3 0.03
91 6 0.06
92 52 0.50
93 10 0.10
94 8 0.08
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (88 bp):
CTCAAACTTTTTAGAAAAAACAATTAAGCCTCTTTTTTTTTTTGCACTCAATTGGATACTTGAAC
TTTCAAAATACATCAAAAAGACC
Found at i:33312481 original size:37 final size:37
Alignment explanation
Indices: 33312412--33312486 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
33312402 GGGGTTGTTA
* **
33312412 ATTTTTTTAATATTTTTATAAAATTTTACAAATTTTT
1 ATTTTTTTAAGATTTTTATAAAAAATTACAAATTTTT
*
33312449 ATTTTTTTACGATTTTTATAAAAAAATT-CAAATTTTT
1 ATTTTTTTAAGATTTTTAT-AAAAAATTACAAATTTTT
33312486 A
1 A
33312487 ATAAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 27 0.82
38 6 0.18
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (37 bp):
ATTTTTTTAAGATTTTTATAAAAAATTACAAATTTTT
Found at i:33312727 original size:86 final size:85
Alignment explanation
Indices: 33312615--33312774 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 85
33312605 TTTTGAGGGT
* **
33312615 CTTTTTGTTACATTTTGAAAGTTCAAGTACCCAATTGAGTG-AAAAAAACAGGTGCGTAATTGCT
1 CTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAA-A-AAGCGTAATTGCT
33312679 TTTCTTGAAAATGCTTGAAAGC
64 TTTCTTGAAAATGCTTGAAAGC
* * * *
33312701 CTTTTTGATGCATTTTGAAAGTTCAAGTGCTCAATTGAGTGCAAAAAAAAAAGCTTAATTGCTTT
1 CTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAGCGTAATTGCTTT
*
33312766 TTTTGAAAA
66 TCTTGAAAA
33312775 AAAGTTTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
85 20 0.31
86 38 0.58
87 7 0.11
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (85 bp):
CTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAGCGTAATTGCTTT
TCTTGAAAATGCTTGAAAGC
Found at i:33312791 original size:86 final size:85
Alignment explanation
Indices: 33312606--33312792 Score: 198
Period size: 86 Copynumber: 2.2 Consensus size: 85
33312596 TTTAAAAACT
* * **
33312606 TTTGAGGGTCTTTTTGTTACATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAACAGGTGCG
1 TTTGA-GGACTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAACAGAAGCG
*
33312671 TAATTGCTTTTCTTGAAAATG
65 TAATTGCTTTTCTTGAAAAAG
* * * * * *
33312692 CTTGAAAGCCTTTTTGATGCATTTTGAAAGTTCAAGTGCTCAATTGAGTGCAAAAAAA-A-AAGC
1 TTTG-AGGACTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTG-AAAAAAACAGAAGC
* *
33312755 TTAATTGCTTTTTTTGAAAAAAAG
64 GTAATTGCTTTTCTTG--AAAAAG
33312779 TTTGAGGACTTTTT
1 TTTGAGGACTTTTT
33312793 ACACCTTTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
85 16 0.20
86 50 0.61
87 16 0.20
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.37
Consensus pattern (85 bp):
TTTGAGGACTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAACAGAAGCGT
AATTGCTTTTCTTGAAAAAG
Found at i:33318146 original size:21 final size:21
Alignment explanation
Indices: 33318108--33318148 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33318098 AGACGAGCAA
* *
33318108 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
*
33318129 TACTCCAAAACAGTTGGAGT
1 TACTCCAAAACAGGTGGAGT
33318149 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:33323122 original size:27 final size:29
Alignment explanation
Indices: 33323087--33323141 Score: 87
Period size: 27 Copynumber: 1.9 Consensus size: 29
33323077 TCCTGTGTTA
33323087 GGGTCAGGGTTTTGGA-TTTTGGGTTTAG
1 GGGTCAGGGTTTTGGAGTTTTGGGTTTAG
33323115 GGGT-AGGGTTTTGGAGTTTTTGGGTTT
1 GGGTCAGGGTTTTGGAG-TTTTGGGTTT
33323142 TTGGGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 11 0.44
28 4 0.16
29 10 0.40
ACGTcount: A:0.09, C:0.02, G:0.44, T:0.45
Consensus pattern (29 bp):
GGGTCAGGGTTTTGGAGTTTTGGGTTTAG
Found at i:33323370 original size:96 final size:97
Alignment explanation
Indices: 33323200--33323431 Score: 333
Period size: 96 Copynumber: 2.4 Consensus size: 97
33323190 TTCTTAATTG
* * * *
33323200 AATTAATTATAAATTTTT-CAAAATTAGATTAGGGTTTCGTGTTTATGATTTTTAAGGAAAAAAT
1 AATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTAAGGATTTTTAAGGAAAAAAT
* *
33323264 CAATTAAATTAGAGTTTAAGGTTACTTGAGTA
66 AAAATAAATTAGAGTTTAAGGTTACTTGAGTA
* * * *
33323296 ATTTAATTATAAATTTTTAAAAAATCATATTAGGGTTTAGTGTTAAGGGTTTTTAAGG-AAAAAT
1 AATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTAAGGATTTTTAAGGAAAAAAT
* *
33323360 AAAATAAATTAGGGTTTAGGGTTACTTGAGTA
66 AAAATAAATTAGAGTTTAAGGTTACTTGAGTA
*
33323392 AATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAG
1 AATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
33323432 GGTTTAGAGT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
96 87 0.73
97 32 0.27
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (97 bp):
AATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTAAGGATTTTTAAGGAAAAAAT
AAAATAAATTAGAGTTTAAGGTTACTTGAGTA
Found at i:33323751 original size:126 final size:126
Alignment explanation
Indices: 33323519--33323810 Score: 480
Period size: 126 Copynumber: 2.3 Consensus size: 126
33323509 TTGTTAATTT
33323519 AAAAAAGCTCCCACGTGGACT-CTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGA
1 AAAAAAGCTCCCACGTGGA-TGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGA
* *
33323583 CGTTTCTGAGCAAATAGTTTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTA
65 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTA
* *
33323645 AAAAAAGCTCCCACGTAGATGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAC
1 AAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGAC
* *
33323710 GTTTCTGAGGAAATAGTGTCAAAAACGCTTTAAG-AAGGATGCTTTGTCAGCAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAA-GATGCTTTGTCAGCAAAAGTACTA
* *
33323771 AAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
1 AAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTT
33323811 GCTATTTGGC
Statistics
Matches: 155, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
125 3 0.02
126 152 0.98
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (126 bp):
AAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTACTA
Found at i:33327440 original size:50 final size:50
Alignment explanation
Indices: 33327312--33327598 Score: 364
Period size: 50 Copynumber: 5.8 Consensus size: 50
33327302 GATAATAACA
* * *
33327312 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGCT-TCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCT-CGG
* * * * * ** *
33327361 TACCAATGCCATATCCAAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
33327411 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
33327461 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
33327511 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
33327561 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
33327599 TTCTTTACCC
Statistics
Matches: 209, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
48 3 0.01
49 37 0.18
50 169 0.81
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:33335439 original size:11 final size:11
Alignment explanation
Indices: 33335425--33335492 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 11
33335415 GAGATTTAAT
33335425 AGGAATTTGAG
1 AGGAATTTGAG
33335436 AGGAATTTGAG
1 AGGAATTTGAG
*
33335447 -GGAAATATGAG
1 AGG-AATTTGAG
33335458 A-GAATATTGGAG
1 AGGAAT-TT-GAG
** *
33335470 AAAAATATGAG
1 AGGAATTTGAG
33335481 A-GAATTTGAG
1 AGGAATTTGAG
33335491 AG
1 AG
33335493 AAATGATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
10 13 0.29
11 24 0.53
12 5 0.11
13 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:33335462 original size:21 final size:21
Alignment explanation
Indices: 33335432--33335496 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 21
33335422 AATAGGAATT
*
33335432 TGAGAGGAATTTGAGGGAAATA
1 TGAGA-GAATTTGAGAGAAATA
*
33335454 TGAGAGAATATTGGAGAAAAATA
1 TGAGAGAAT-TT-GAGAGAAATA
33335477 TGAGAGAATTTGAGAGAAAT
1 TGAGAGAATTTGAGAGAAAT
33335497 GATTTAAGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 12 0.32
22 9 0.24
23 17 0.45
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (21 bp):
TGAGAGAATTTGAGAGAAATA
Found at i:33336080 original size:11 final size:11
Alignment explanation
Indices: 33336066--33336133 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 11
33336056 GAGATTTAAT
33336066 AGGAATTTGAG
1 AGGAATTTGAG
33336077 AGGAATTTGAG
1 AGGAATTTGAG
* *
33336088 GGGAATATGAG
1 AGGAATTTGAG
* *
33336099 AGCATATTGGAG
1 AGGA-ATTTGAG
** *
33336111 AAAAATATGAG
1 AGGAATTTGAG
33336122 A-GAATTTGAG
1 AGGAATTTGAG
33336132 AG
1 AG
33336134 AAATGATTTA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
10 8 0.19
11 28 0.65
12 7 0.16
ACGTcount: A:0.41, C:0.01, G:0.34, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:33336119 original size:23 final size:23
Alignment explanation
Indices: 33336091--33336136 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
33336081 ATTTGAGGGG
*
33336091 AATATGAGAGCATATTG-GAGAAA
1 AATATGAGAGAAT-TTGAGAGAAA
33336114 AATATGAGAGAATTTGAGAGAAA
1 AATATGAGAGAATTTGAGAGAAA
33336137 TGATTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.50, C:0.02, G:0.26, T:0.22
Consensus pattern (23 bp):
AATATGAGAGAATTTGAGAGAAA
Found at i:33336609 original size:641 final size:641
Alignment explanation
Indices: 33335376--33336647 Score: 2460
Period size: 644 Copynumber: 2.0 Consensus size: 641
33335366 AAAATTTCAA
33335376 AAAAAATAAAATTAGAGCTTTTTTAAAAATAATTAAAGAGAGATTTAATAGGAATTTGAGAGGAA
1 AAAAAATAAAATTAGAGCTTTTTTAAAAATAATTAAAGAGAGATTTAATAGGAATTTGAGAGGAA
33335441 TTTGAGGGAAATATGAGAGAATATTGGAGAAAAATATGAGAGAATTTGAGAGAAATGATTTAAGT
66 TTTGAGGGAAATATGAGAGAATATTGGAGAAAAATATGAGAGAATTTGAGAGAAATGATTTAAGT
33335506 GTGAAAAAAAGAAAGGGGGTTTATAGTTTTTTTTACCGTTTGGGGGTACCAACGGCTATTTTTTT
131 GTGAAAAAAAGAAAGGGGGTTTATAGTTTTTTTTACCGTTTGGGGGTACCAACGGCTATTTTTTT
33335571 GACCGTTAGTACTGTAGTGACACAGGGAAAACGCGATGACGTGGAAGCACTTTGTCCACGTGGAC
196 GACCGTTAGTACTGTAGTGACACAGGGAAAACGCGATGACGTGGAAGCACTTTGTCCACGTGGAC
33335636 ACAAAGCGCGCCCTCAAGGACGCGTTTTCATTCCACGTGGACAAAGCGCTTCCTTGAGGAAGCAT
261 ACAAAGCGCGCCCTCAAGGACGCGTTTTCATTCCACGTGGACAAAGCGCTTCCTTGAGGAAGCAT
*
33335701 TTTCCTACTTTGTCACCTGACAACGCGCTGACGTGGATGCATTTTTTGGGAATTGGGCCATTCCG
326 TTTCCTACTTTGTCACCTGACAAAGCGCTGACGTGGATGCATTTTTTGGGAATTGGGCCATTCCG
33335766 ATAATTAAATTTTTACCGGGCCTATTTTCAGTAATTTTAAAAAAAAGGGCTTTTATTGGTATTTT
391 ATAATTAAATTTTTACCGGGCCTATTTTCAGTAATTTTAAAAAAAAGGGCTTTTATTGGTATTTT
33335831 GCCCAATATAAAATATGATTTAAATTAATTAAAAGAAAAGAAAAAAAAGAAATAAATAAATTAGA
456 GCCCAATATAAAATATGATTTAAATTAATTAAAAGAAAAGAAAAAAAAGAAATAAATAAATTAGA
33335896 ATTTTATATTATTATCAAGTTAGTGGGGAAGGAATGATATTATCTTCTTCCCCACTCACCCGAAG
521 ATTTTATATTATTATCAAGTTAGTGGGGAAGGAATGATATTATCTTCTTCCCCACTCACCCGAAG
33335961 CAAATAGAAACAAAAGAAGGTTAACGTTATTTAGGGTTTTGGAAGCAAATAGAAAC
586 CAAATAGAAACAAAAGAAGGTTAACGTTATTTAGGGTTTTGGAAGCAAATAGAAAC
33336017 AAAAAATAAAATTAGAGCTTTTTTAAAAATAATTAAAGAGAGATTTAATAGGAATTTGAGAGGAA
1 AAAAAATAAAATTAGAGCTTTTTTAAAAATAATTAAAGAGAGATTTAATAGGAATTTGAGAGGAA
* *
33336082 TTTGAGGGGAATATGAGAGCATATTGGAGAAAAATATGAGAGAATTTGAGAGAAATGATTTAAGT
66 TTTGAGGGAAATATGAGAGAATATTGGAGAAAAATATGAGAGAATTTGAGAGAAATGATTTAAGT
*
33336147 GTGAAAAAAAAGAAATGGGGTTTTATAGTTTTTTTTTACCGTTTGGGGGTACCAACGGCTATTTT
131 GTG-AAAAAAAGAAA-GGGGGTTTATAG-TTTTTTTTACCGTTTGGGGGTACCAACGGCTATTTT
33336212 TTTGACCGTTAGTACTGTAGTGACACAGGGAAAACGCGATGACGTGGAAGCACTTTGTCCACGTG
193 TTTGACCGTTAGTACTGTAGTGACACAGGGAAAACGCGATGACGTGGAAGCACTTTGTCCACGTG
33336277 GACACAAAGCGCGCCCTCAAGGACGCGTTTTCATTCCACGTGGACAAAGCGCTTCCTTGAGGAAG
258 GACACAAAGCGCGCCCTCAAGGACGCGTTTTCATTCCACGTGGACAAAGCGCTTCCTTGAGGAAG
33336342 CATTTTCCTACTTTGTCACCTGACAAAGCGCTGACGTGGATGCATTTTTTGGGAATTGGGCCATT
323 CATTTTCCTACTTTGTCACCTGACAAAGCGCTGACGTGGATGCATTTTTTGGGAATTGGGCCATT
33336407 CCGATAATTAAATTTTTACCGGGCCTATTTTCAGTAATTTT-AAAAAAAGGGCTTTTATTGGTAT
388 CCGATAATTAAATTTTTACCGGGCCTATTTTCAGTAATTTTAAAAAAAAGGGCTTTTATTGGTAT
33336471 TTTGCCCAATAT-AAATATGATTTAAATTAATTAAAAGAAAAG-AAAAAAAGAAATAAATAAATT
453 TTTGCCCAATATAAAATATGATTTAAATTAATTAAAAGAAAAGAAAAAAAAGAAATAAATAAATT
33336534 AGAATTTTATATTATTATCAAGTTAGTGGGGAAGGAATGATATTATCTTCTTCCCCACTCACCCG
518 AGAATTTTATATTATTATCAAGTTAGTGGGGAAGGAATGATATTATCTTCTTCCCCACTCACCCG
33336599 AAGCAAATAGAAACAAAAGAAGGTTAACGTTATTTAGGGTTTTGGAAGC
583 AAGCAAATAGAAACAAAAGAAGGTTAACGTTATTTAGGGTTTTGGAAGC
33336648 TTTAACCTTA
Statistics
Matches: 624, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
641 266 0.43
642 41 0.07
643 46 0.07
644 271 0.43
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (641 bp):
AAAAAATAAAATTAGAGCTTTTTTAAAAATAATTAAAGAGAGATTTAATAGGAATTTGAGAGGAA
TTTGAGGGAAATATGAGAGAATATTGGAGAAAAATATGAGAGAATTTGAGAGAAATGATTTAAGT
GTGAAAAAAAGAAAGGGGGTTTATAGTTTTTTTTACCGTTTGGGGGTACCAACGGCTATTTTTTT
GACCGTTAGTACTGTAGTGACACAGGGAAAACGCGATGACGTGGAAGCACTTTGTCCACGTGGAC
ACAAAGCGCGCCCTCAAGGACGCGTTTTCATTCCACGTGGACAAAGCGCTTCCTTGAGGAAGCAT
TTTCCTACTTTGTCACCTGACAAAGCGCTGACGTGGATGCATTTTTTGGGAATTGGGCCATTCCG
ATAATTAAATTTTTACCGGGCCTATTTTCAGTAATTTTAAAAAAAAGGGCTTTTATTGGTATTTT
GCCCAATATAAAATATGATTTAAATTAATTAAAAGAAAAGAAAAAAAAGAAATAAATAAATTAGA
ATTTTATATTATTATCAAGTTAGTGGGGAAGGAATGATATTATCTTCTTCCCCACTCACCCGAAG
CAAATAGAAACAAAAGAAGGTTAACGTTATTTAGGGTTTTGGAAGCAAATAGAAAC
Found at i:33337718 original size:37 final size:37
Alignment explanation
Indices: 33337673--33337783 Score: 123
Period size: 37 Copynumber: 3.0 Consensus size: 37
33337663 TATGTAAAGT
* *
33337673 AATAACAAACAATTTCACATGTCAATCAATTCAATAC
1 AATAACAAACAATTTCGCATATCAATCAATTCAATAC
* * ** * * *
33337710 AATGACAAACAATTTTGCATATCAATTTATTTAACAT
1 AATAACAAACAATTTCGCATATCAATCAATTCAATAC
**
33337747 AATAACAAACGGTTTCGCATATCAATCAATTCAATAC
1 AATAACAAACAATTTCGCATATCAATCAATTCAATAC
33337784 GGTCAAATGG
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (37 bp):
AATAACAAACAATTTCGCATATCAATCAATTCAATAC
Found at i:33338842 original size:29 final size:29
Alignment explanation
Indices: 33338805--33338939 Score: 135
Period size: 29 Copynumber: 4.6 Consensus size: 29
33338795 GAAAATTTTG
*
33338805 GGCAAAATTGTAAAATTTTGAAAAATAGT
1 GGCAAAATTGTAAAATTTGGAAAAATAGT
* * *
33338834 GGTAGAATTGTAAAATCTGGAAAAATAGT
1 GGCAAAATTGTAAAATTTGGAAAAATAGT
* * **
33338863 GGCAAAACTATAAAATTTGGAAAACCAGT
1 GGCAAAATTGTAAAATTTGGAAAAATAGT
* ** *
33338892 GGCAAAATTGTAAAATCTAAAAAAACCAGT
1 GGCAAAATTGTAAAATTTGGAAAAA-TAGT
* *
33338922 GGCAAAACTATAAAATTT
1 GGCAAAATTGTAAAATTT
33338940 TTAAAAGGGT
Statistics
Matches: 85, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
29 66 0.78
30 19 0.22
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.25
Consensus pattern (29 bp):
GGCAAAATTGTAAAATTTGGAAAAATAGT
Found at i:33338867 original size:58 final size:59
Alignment explanation
Indices: 33338805--33338945 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 59
33338795 GAAAATTTTG
* * * * * ** *
33338805 GGCAAAATTGTAAAATTTTGAAAAATAGTGGTAGAATTGTAAAATCTGGAAAAA-TAGT
1 GGCAAAACTATAAAATTTTGAAAAACAGTGGCAAAATTGTAAAATCTAAAAAAACCAGT
* *
33338863 GGCAAAACTATAAAATTTGGAAAACCAGTGGCAAAATTGTAAAATCTAAAAAAACCAGT
1 GGCAAAACTATAAAATTTTGAAAAACAGTGGCAAAATTGTAAAATCTAAAAAAACCAGT
*
33338922 GGCAAAACTATAAAATTTTTAAAA
1 GGCAAAACTATAAAATTTTGAAAA
33338946 GGGTGGTGCA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
58 45 0.64
59 25 0.36
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.26
Consensus pattern (59 bp):
GGCAAAACTATAAAATTTTGAAAAACAGTGGCAAAATTGTAAAATCTAAAAAAACCAGT
Found at i:33345320 original size:57 final size:58
Alignment explanation
Indices: 33345231--33345350 Score: 181
Period size: 57 Copynumber: 2.1 Consensus size: 58
33345221 ACAAAAATGG
*
33345231 TGAAATGGAGAAATAGAAAACATTTGGAAATGATTAAGGTTTTCTCCAAAATG-AAAA
1 TGAAATGGAGAAATAGAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAAA
* **
33345288 TGAACATGGAGAAAT-GAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAAA
1 TGAA-ATGGAGAAATAGAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAAA
33345346 TGAAA
1 TGAAA
33345351 ATGACCTGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
57 39 0.68
58 18 0.32
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (58 bp):
TGAAATGGAGAAATAGAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAAA
Found at i:33348133 original size:41 final size:41
Alignment explanation
Indices: 33348077--33348421 Score: 428
Period size: 41 Copynumber: 8.4 Consensus size: 41
33348067 AAGATGATTT
*
33348077 AGACTTTACGTCTAGCAGACTTGATG-CAGGTGAAATGTTAT-
1 AGACTTTACGTCTAGCAGGCTTGATGCCA-GTGAAATGTT-TC
* * *
33348118 AGACTTTACATCTAGCAGGCTTGATGCCAATGAAATATTTC
1 AGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
* *
33348159 -GAACTTTATGTCTAGCAGGCTTGATGCTAGTGAAATGTTTC
1 AG-ACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
* * * *
33348200 AGACTTTACATCTAGCAGGCTTGATGTCGGTGAAATATTT-
1 AGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
* * * ** *
33348240 TGAACTTTATGTCTAGCAAGCTTGATGCTGGAGAAATGTTTC
1 AG-ACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
33348282 AGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
1 AGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
* *
33348323 AGACTTTACATCTAGCAAGCTTGATGCCAGTGAAATGTTTC
1 AGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
* *
33348364 AGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATATTTC
1 AGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
* *
33348405 GGACTTTAAGTCTAGCA
1 AGACTTTACGTCTAGCA
33348422 AGCCACAAGC
Statistics
Matches: 261, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.01
41 254 0.97
42 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
AGACTTTACGTCTAGCAGGCTTGATGCCAGTGAAATGTTTC
Found at i:33348216 original size:82 final size:82
Alignment explanation
Indices: 33348079--33348424 Score: 475
Period size: 82 Copynumber: 4.2 Consensus size: 82
33348069 GATGATTTAG
33348079 ACTTTACGTCTAGC-AGACTTGATGC-AGGTGAAATGTTAT-AGACTTTACATCTAGCAGGCTTG
1 ACTTTACGTCTAGCAAG-CTTGATGCTA-GTGAAATGTT-TCAGACTTTACATCTAGCAGGCTTG
*
33348141 ATGCCAATGAAATATTTCGA
63 ATGCCAGTGAAATATTTCGA
* *
33348161 ACTTTATGTCTAGCAGGCTTGATGCTAGTGAAATGTTTCAGACTTTACATCTAGCAGGCTTGATG
1 ACTTTACGTCTAGCAAGCTTGATGCTAGTGAAATGTTTCAGACTTTACATCTAGCAGGCTTGATG
* * *
33348226 TCGGTGAAATATTTTGA
66 CCAGTGAAATATTTCGA
* * * *
33348243 ACTTTATGTCTAGCAAGCTTGATGCTGGAGAAATGTTTCAGACTTTACGTCTAGCAGGCTTGATG
1 ACTTTACGTCTAGCAAGCTTGATGCTAGTGAAATGTTTCAGACTTTACATCTAGCAGGCTTGATG
*
33348308 CCAGTGAAATGTTTC-A
66 CCAGTGAAATATTTCGA
* * *
33348324 GACTTTACATCTAGCAAGCTTGATGCCAGTGAAATGTTTCAGACTTTACGTCTAGCAGGCTTGAT
1 -ACTTTACGTCTAGCAAGCTTGATGCTAGTGAAATGTTTCAGACTTTACATCTAGCAGGCTTGAT
* *
33348389 GCCGGTGAAATATTTCGG
65 GCCAGTGAAATATTTCGA
*
33348407 ACTTTAAGTCTAGCAAGC
1 ACTTTACGTCTAGCAAGC
33348425 CACAAGCCGG
Statistics
Matches: 235, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
81 2 0.01
82 231 0.98
83 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (82 bp):
ACTTTACGTCTAGCAAGCTTGATGCTAGTGAAATGTTTCAGACTTTACATCTAGCAGGCTTGATG
CCAGTGAAATATTTCGA
Found at i:33354689 original size:38 final size:38
Alignment explanation
Indices: 33354647--33354723 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
33354637 GCGTGGTGGG
*
33354647 GGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
1 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGGGATT
33354685 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGGGATT
1 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGGGATT
33354723 G
1 G
33354724 TGGAGTTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.01, G:0.40, T:0.30
Consensus pattern (38 bp):
GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGGGATT
Found at i:33361858 original size:44 final size:44
Alignment explanation
Indices: 33361810--33361897 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
33361800 TTTTGAAAGG
* *
33361810 AAATTCTAATTATTTTTAAATGTGCAATTATCACAACTTCTATT
1 AAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTATT
* *
33361854 AAATTATAATTATTTTTAGATGTATAATTATCACAACTTCTATT
1 AAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTATT
33361898 TTTTAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (44 bp):
AAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTATT
Found at i:33362853 original size:36 final size:36
Alignment explanation
Indices: 33362793--33362863 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
33362783 TTGCAGGAAC
* *
33362793 CGTTTTCAGCTGACATATTGGAAAACACTTTCTACG
1 CGTTCTCAGCTGACATATTAGAAAACACTTTCTACG
* *
33362829 CGTTCTCAGTTGACATGTTAGAAAACACTTTCTAC
1 CGTTCTCAGCTGACATATTAGAAAACACTTTCTAC
33362864 AAAACACGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (36 bp):
CGTTCTCAGCTGACATATTAGAAAACACTTTCTACG
Found at i:33363070 original size:19 final size:18
Alignment explanation
Indices: 33363034--33363077 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
33363024 TCAATAAGTA
* *
33363034 TATTGTTTTCATTTTTAATT
1 TATT-TTTTAATTATTAA-T
33363054 TATTTTTTAATTATTAAT
1 TATTTTTTAATTATTAAT
33363072 TATTTT
1 TATTTT
33363078 ATTTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TATTTTTTAATTATTAAT
Found at i:33363132 original size:20 final size:22
Alignment explanation
Indices: 33363092--33363134 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
33363082 ATATAAATAA
*
33363092 AATAATAAATATGTAATTATAT
1 AATAATAAATATATAATTATAT
33363114 AATAA-AAATATAT-ATTATAT
1 AATAATAAATATATAATTATAT
33363134 A
1 A
33363135 CGATTATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:33363392 original size:23 final size:22
Alignment explanation
Indices: 33363339--33363392 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
33363329 GAAGATATAA
*
33363339 AATTTTTATTCATGTGATGTGG
1 AATTTTTATTCATGTGAAGTGG
* * *
33363361 TATTATTTATTGATGTTAAGTGAG
1 AATT-TTTATTCATGTGAAGTG-G
33363385 AATTTTTA
1 AATTTTTA
33363393 AAATGAGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.12
23 18 0.72
24 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.52
Consensus pattern (22 bp):
AATTTTTATTCATGTGAAGTGG
Found at i:33365383 original size:5 final size:6
Alignment explanation
Indices: 33365368--33365393 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33365358 ACTATGATAA
33365368 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
33365394 TGAGAACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:33365875 original size:21 final size:21
Alignment explanation
Indices: 33365849--33365919 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
33365839 TACAAATTTA
33365849 TTAAAAATTATAAACCATTAT
1 TTAAAAATTATAAACCATTAT
* ** **
33365870 TTAAAAACTGCAAATAATTA-
1 TTAAAAATTATAAACCATTAT
*
33365890 TTAAAAATTATAAACCACTAT
1 TTAAAAATTATAAACCATTAT
33365911 TTAAAAATT
1 TTAAAAATT
33365920 GTGAACTAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (21 bp):
TTAAAAATTATAAACCATTAT
Found at i:33366142 original size:10 final size:10
Alignment explanation
Indices: 33366127--33366164 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
33366117 GAAGAACTCG
33366127 AATTTTTAAT
1 AATTTTTAAT
*
33366137 AATTTTTTAT
1 AATTTTTAAT
*
33366147 -AGTTTTAAT
1 AATTTTTAAT
33366156 AATTTTTAA
1 AATTTTTAA
33366165 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:33371037 original size:18 final size:18
Alignment explanation
Indices: 33371014--33371088 Score: 50
Period size: 18 Copynumber: 4.3 Consensus size: 18
33371004 ATGGTAATCG
33371014 ATTTTATAATTTTATATT
1 ATTTTATAATTTTATATT
*
33371032 ATTTTAATAA-ATTATA--
1 ATTTT-ATAATTTTATATT
* * *
33371048 ATATTATAATATTTTTCTT
1 ATTTTATAAT-TTTATATT
* *
33371067 -TTTTATAATTTTTTAAT
1 ATTTTATAATTTTATATT
33371084 ATTTT
1 ATTTT
33371089 TCATTTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
15 4 0.09
16 4 0.09
17 9 0.21
18 22 0.51
19 4 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTATAATTTTATATT
Found at i:33371072 original size:26 final size:26
Alignment explanation
Indices: 33371043--33371095 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
33371033 TTTTAATAAA
*
33371043 TTATAATATTATAATATTTTTCTTTT
1 TTATAATATTATAATATTTTTCATTT
* *
33371069 TTATAATTTTTTAATATTTTTCATTT
1 TTATAATATTATAATATTTTTCATTT
33371095 T
1 T
33371096 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (26 bp):
TTATAATATTATAATATTTTTCATTT
Found at i:33372375 original size:23 final size:23
Alignment explanation
Indices: 33372332--33372376 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33372322 TAATTTAATA
* *
33372332 TTTTCTCATAAAATTATAAATTT
1 TTTTATCATAAAATTAAAAATTT
33372355 TTTTATCAT-AAATATAAAAATT
1 TTTTATCATAAAAT-TAAAAATT
33372377 ATTAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTATCATAAAATTAAAAATTT
Found at i:33372520 original size:22 final size:22
Alignment explanation
Indices: 33372491--33372535 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
33372481 AAATTATTTT
*
33372491 TAAAAAAAAGTA-TAAATTTGA
1 TAAAAAAAAGTATTAAAATTGA
33372512 TAAAAAAAAGTATTAAAATTGA
1 TAAAAAAAAGTATTAAAATTGA
33372534 TA
1 TA
33372536 TAAAGTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (22 bp):
TAAAAAAAAGTATTAAAATTGA
Found at i:33372974 original size:9 final size:9
Alignment explanation
Indices: 33372957--33373164 Score: 50
Period size: 10 Copynumber: 21.4 Consensus size: 9
33372947 TTTATGATTT
33372957 TTTTATATAA
1 TTTT-TATAA
33372967 TTTTTATAA
1 TTTTTATAA
*
33372976 GTTTATATCAA
1 -TTTTTAT-AA
*
33372987 TTTTAAT-A
1 TTTTTATAA
*
33372995 TTTTTAATACT
1 TTTTT-ATA-A
33373006 TTTTTATAAA
1 TTTTTAT-AA
33373016 TTTTTTTATAA
1 --TTTTTATAA
*
33373027 TATTTTAAGAA
1 T-TTTT-ATAA
* *
33373038 TTCTAATAA
1 TTTTTATAA
*
33373047 GTTTTTTTAAA
1 -TTTTTAT-AA
* *
33373058 ATTTTAAAGA
1 TTTTTATA-A
*
33373068 TTTTAAATAA
1 TTTT-TATAA
*
33373078 GTTTTATTAA
1 TTTTTA-TAA
33373088 --TTTAT-A
1 TTTTTATAA
33373094 TTTTTATAA
1 TTTTTATAA
**
33373103 TTTATTGGAA
1 TTT-TTATAA
33373113 TTTATTAT-A
1 TTT-TTATAA
33373122 -TTTTATAA
1 TTTTTATAA
*
33373130 TATTTATAA
1 TTTTTATAA
33373139 GTTTTTTTTATAA
1 ----TTTTTATAA
*
33373152 TTTTAATAA
1 TTTTTATAA
33373161 TTTT
1 TTTT
33373165 ACATCAATTA
Statistics
Matches: 145, Mismatches: 28, Indels: 51
0.65 0.12 0.23
Matches are distributed among these distances:
6 1 0.01
7 5 0.03
8 17 0.12
9 37 0.26
10 52 0.36
11 18 0.12
12 7 0.05
13 8 0.06
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:33373024 original size:12 final size:13
Alignment explanation
Indices: 33372995--33373032 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
33372985 AATTTTAATA
*
33372995 TTTT-TAATACTT
1 TTTTATAATATTT
33373007 TTTTATAA-ATTT
1 TTTTATAATATTT
33373019 TTTTATAATATTT
1 TTTTATAATATTT
33373032 T
1 T
33373033 AAGAATTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATAATATTT
Found at i:33373062 original size:30 final size:32
Alignment explanation
Indices: 33373011--33373087 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 32
33373001 ATACTTTTTT
*
33373011 ATAAATTTTTTTATAATATTTT-AAGAATTCT-A
1 ATAAGTTTTTTTA-AATATTTTAAAG-ATTCTAA
*
33373043 ATAAGTTTTTTTAAA-ATTTTAAAGATTTTAA
1 ATAAGTTTTTTTAAATATTTTAAAGATTCTAA
*
33373074 ATAAGTTTTATTAA
1 ATAAGTTTTTTTAA
33373088 TTTATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 9 0.22
31 19 0.47
32 12 0.30
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (32 bp):
ATAAGTTTTTTTAAATATTTTAAAGATTCTAA
Found at i:33373150 original size:22 final size:21
Alignment explanation
Indices: 33373122--33373164 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
33373112 ATTTATTATA
33373122 TTTTATAATATTT-ATAAGTTTT
1 TTTTATAAT-TTTAATAA-TTTT
33373144 TTTTATAATTTTAATAATTTT
1 TTTTATAATTTTAATAATTTT
33373165 ACATCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTATAATTTTAATAATTTT
Found at i:33374055 original size:22 final size:22
Alignment explanation
Indices: 33374002--33374071 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
33373992 TCCAAACAAT
* *
33374002 AACAATAAAATAGTAGCAATAT
1 AACAATAAAATAGTAGCAAAAC
* **
33374024 AATAGCAAAATAGTAGCAAAAC
1 AACAATAAAATAGTAGCAAAAC
* * *
33374046 AACATTAAAACAATAGC-AAAC
1 AACAATAAAATAGTAGCAAAAC
33374067 AACAA
1 AACAA
33374072 AACAACAGTA
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
21 8 0.22
22 29 0.78
ACGTcount: A:0.61, C:0.14, G:0.09, T:0.16
Consensus pattern (22 bp):
AACAATAAAATAGTAGCAAAAC
Found at i:33374073 original size:18 final size:18
Alignment explanation
Indices: 33374052--33374089 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33374042 AAACAACATT
*
33374052 AAAACAATAGCAAACAAC
1 AAAACAACAGCAAACAAC
*
33374070 AAAACAACAGTAAACAAC
1 AAAACAACAGCAAACAAC
33374088 AA
1 AA
33374090 TGAAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.21, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAACAACAGCAAACAAC
Found at i:33377904 original size:405 final size:406
Alignment explanation
Indices: 33377062--33378281 Score: 2124
Period size: 406 Copynumber: 3.0 Consensus size: 406
33377052 TGGCCTATCA
*
33377062 GAACTA-AACCTTCTAGAACTAGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCAC
1 GAACTAGAA-CTTCTAGAACTGGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCAC
*
33377126 -ATGAACCTCATTCAATAAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGA
65 AAT-AACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGA
* *
33377190 GCTGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGGAGGT
129 GCTGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGGAAGC
33377255 TGCAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGAC-GGAAA
194 TGCAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACAGG-AA
33377319 ATATAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAA
258 ATATAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAA
* *
33377384 TGTGCATGGAGTTGACCTATACTGTAGTTTTAAAGTATTGTATAGTCGAAGGTTCGGAAAGCATA
323 TGTGCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATA
33377449 AGCAGCCAAATACTCTAAG
388 AGCAGCCAAATACTCTAAG
* *
33377468 GAACTAGAACTTCTAAAACTGGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGTACA
1 GAACTAGAACTTCTAGAACTGGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCACA
* *
33377533 ATAACCTCATTCAATGAATTAATACTAGTAACCATCGGAACATTAACTACTGGAGTACCCTGAGC
66 ATAACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGAGC
* *
33377598 TGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGAGTGCGAAGTAGAAGGTATGAAAGCTG
131 TGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGGAAGCTG
* *
33377663 CAGATTTGGGGCGGAGAGTGTTAAATGGAAATTCATTTTCATG-AATGTAACATGACAGGAAATA
196 CAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACAGGAAATA
* *
33377727 TAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATAACATGGTGAATACCCCAAAAATGT
261 TAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAATGT
33377792 GCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATAAGC
326 GCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATAAGC
*
33377857 AGCTAAATACTCTAAG
391 AGCCAAATACTCTAAG
33377873 GAACTAGAACTTCTAGAACTGGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCACA
1 GAACTAGAACTTCTAGAACTGGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCACA
* * *
33377938 AGAACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTATTGGAGTACCCTGAGT
66 ATAACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGAGC
* *
33378003 TGTATGAACTGATGTCATAATAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGGAAGCTG
131 TGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGGAAGCTG
* *
33378068 CAGACTTAGGGTGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACAGGAAATA
196 CAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACAGGAAATA
* *
33378133 TAGACCCTTCCATCAGCAACCTAACAATGATACCCTTTATGACATGGTGAATACCCTAAAAATGT
261 TAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAATGT
* *
33378198 GCATAGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCAGAAAGCATAAGC
326 GCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATAAGC
*
33378263 AGCCAAATACTCTATG
391 AGCCAAATACTCTAAG
33378279 GAA
1 GAA
33378282 TGAATAAGTT
Statistics
Matches: 770, Mismatches: 40, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
405 382 0.50
406 384 0.50
407 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (406 bp):
GAACTAGAACTTCTAGAACTGGAACTTACATAAGGGGACTGTGTGGAGTATCAACACTGAGCACA
ATAACCTCATTCAATGAATTAACACTAGTAACCATTGGAACATTAACTACTGGAGTACCCTGAGC
TGTATGAACTGGTGTCATAACAAGAAGTTTAGAACTAGACTGCGAAGTAGAAGGTATGGAAGCTG
CAGACTTGGGGCGGAGAGTTTTAAATGGAAATTCATTTTCATGAAATGTAACATGACAGGAAATA
TAGACCCTTCCATCAGCAGCCTGACAATGATACCCTTTATGACATGGTGAATACCCTAAAAATGT
GCATGGAGTTGACCTATACTGTAGTTTTCAAGTATTGTATGGTCGAAGGTTCGGAAAGCATAAGC
AGCCAAATACTCTAAG
Found at i:33382305 original size:16 final size:16
Alignment explanation
Indices: 33382266--33382312 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
33382256 TTTTTGATCA
*
33382266 ATTTTTGCTTTGCTTTG
1 ATTTTT-CTTTGCTTCG
* *
33382283 CTCTTTCTTTGCTTCG
1 ATTTTTCTTTGCTTCG
33382299 ATTTTTC-TTGCTTC
1 ATTTTTCTTTGCTTC
33382313 AGTCCTGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.04, C:0.21, G:0.13, T:0.62
Consensus pattern (16 bp):
ATTTTTCTTTGCTTCG
Found at i:33386864 original size:16 final size:16
Alignment explanation
Indices: 33386825--33386871 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
33386815 TTTTTGATCA
*
33386825 ATTTTTGCTTTGCTTTG
1 ATTTTT-CTTTGCTTCG
* *
33386842 CTCTTTCTTTGCTTCG
1 ATTTTTCTTTGCTTCG
33386858 ATTTTTC-TTGCTTC
1 ATTTTTCTTTGCTTC
33386872 AGTCCTGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.04, C:0.21, G:0.13, T:0.62
Consensus pattern (16 bp):
ATTTTTCTTTGCTTCG
Found at i:33404123 original size:20 final size:18
Alignment explanation
Indices: 33404076--33404125 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
33404066 TAATATAAAC
33404076 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
33404093 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
33404113 ATTAAATTAATAT
1 ATTAAATTAATAT
33404126 AATACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 3 0.11
20 15 0.54
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:33404127 original size:25 final size:26
Alignment explanation
Indices: 33404088--33404136 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
33404078 TAAATTAAAT
33404088 TTAATATTAAGATAATCACT-TTAATA
1 TTAATATTAAGATAAT-ACTATTAATA
*
33404114 TTAA-ATTAATATAATACTATTAA
1 TTAATATTAAGATAATACTATTAA
33404137 GATAAGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAATATTAAGATAATACTATTAATA
Found at i:33404170 original size:37 final size:38
Alignment explanation
Indices: 33404076--33404170 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 38
33404066 TAATATAAAC
** *
33404076 ATTAAATTAA-ATTTAA-TATTAAGATAATCACTTTAAT
1 ATTAAATTAATATAAAACTATTAAGATAAGCAC-TTAAT
*
33404113 ATTAAATTAATATAATACTATTAAGATAAGCA-TTAA-
1 ATTAAATTAATATAAAACTATTAAGATAAGCACTTAAT
33404149 ATTAAATTTAATATAAAACTAT
1 ATTAAA-TTAATATAAAACTAT
33404171 AAAAATAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
36 6 0.12
37 28 0.56
38 3 0.06
39 13 0.26
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (38 bp):
ATTAAATTAATATAAAACTATTAAGATAAGCACTTAAT
Found at i:33423311 original size:30 final size:31
Alignment explanation
Indices: 33423267--33423325 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
33423257 CCCGAGATTT
33423267 GGGGCAAAAGTGTAAATATG-TAAAATTTTA
1 GGGGCAAAAGTGTAAATATGCTAAAATTTTA
* * * *
33423297 GGGGTAAAATTGTAATTTTGCTAAAATTT
1 GGGGCAAAAGTGTAAATATGCTAAAATTT
33423326 GAATTAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (31 bp):
GGGGCAAAAGTGTAAATATGCTAAAATTTTA
Found at i:33423796 original size:46 final size:44
Alignment explanation
Indices: 33423744--33423918 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 44
33423734 TGGTTGAGCA
33423744 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATG
* * * *
33423790 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAA-T--G
* * **
33423835 CATCCGAACTTGTTGAGTTGATTCCGAGTTCACTTATGGATGTGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATG
* *
33423883 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
33423919 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 16, Indels: 19
0.75 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 58 0.56
47 26 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGGAATG
Found at i:33423900 original size:93 final size:93
Alignment explanation
Indices: 33423741--33423911 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
33423731 GGATGGTTGA
****
33423741 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCGTTGAGT
33423806 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
33423834 GCATCCGAACTTGTTGAGTTGATTCCGAGTTCACTTATGGATGTGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCGTTGAGT
33423899 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33423912 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33433329 original size:34 final size:34
Alignment explanation
Indices: 33433286--33433374 Score: 144
Period size: 34 Copynumber: 2.6 Consensus size: 34
33433276 TCAAATGGGT
*
33433286 GTAGGATCAATCAACTAATTGTAAAGTCACCATA
1 GTAGGATCAATCAACTAATTGGAAAGTCACCATA
*
33433320 GTAGGATCAATTAACTAATTGGAAAGTCACCATA
1 GTAGGATCAATCAACTAATTGGAAAGTCACCATA
33433354 GTAGGATCAATCAGA-TAATTG
1 GTAGGATCAATCA-ACTAATTG
33433375 CTTTCTCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
34 50 0.98
35 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (34 bp):
GTAGGATCAATCAACTAATTGGAAAGTCACCATA
Found at i:33434582 original size:27 final size:27
Alignment explanation
Indices: 33434534--33434692 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
33434524 GCGAGGCTGC
* *
33434534 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
33434561 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
33434587 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
33434614 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
33434641 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
33434668 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
33434693 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:33434627 original size:54 final size:54
Alignment explanation
Indices: 33434552--33434692 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
33434542 GTGACGAAGT
*
33434552 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
33434606 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
33434660 CACCAGATTAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
33434693 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:33436271 original size:26 final size:26
Alignment explanation
Indices: 33436241--33436348 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
33436231 TGAGATTCCC
33436241 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33436267 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33436293 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33436319 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33436345 ATCA
1 ATCA
33436349 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33444237 original size:27 final size:27
Alignment explanation
Indices: 33444199--33444252 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
33444189 CAAAAAGTAC
*
33444199 ACTCATTACTTATGTTAATTAATATAT
1 ACTCATTACTTATGCTAATTAATATAT
33444226 ACTCATTACTTATGCTAATTAATATAT
1 ACTCATTACTTATGCTAATTAATATAT
33444253 CTAAAATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (27 bp):
ACTCATTACTTATGCTAATTAATATAT
Found at i:33445931 original size:43 final size:41
Alignment explanation
Indices: 33445859--33445961 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 41
33445849 TGTAAGACCG
*
33445859 TGTCTGGGACATAGGCCTCGATTGAGATTTACGTATAAAACCA
1 TGTCTGGGACATAGGCATCGATT-AGATTT-CGTATAAAACCA
* * * *
33445902 TGTCTGGGACATTGGCATCGTATCT-GATTTCGTGTAAGACCC
1 TGTCTGGGACATAGGCATCG-AT-TAGATTTCGTATAAAACCA
*
33445944 TGTCTGGGACAGAGGCAT
1 TGTCTGGGACATAGGCAT
33445962 GGATATTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 25 0.49
43 23 0.45
44 2 0.04
45 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
TGTCTGGGACATAGGCATCGATTAGATTTCGTATAAAACCA
Found at i:33445961 original size:42 final size:41
Alignment explanation
Indices: 33445846--33445992 Score: 143
Period size: 43 Copynumber: 3.5 Consensus size: 41
33445836 GTTTGAGACA
* *
33445846 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCG-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGTATT--GATT
* * *
33445888 TACGTATAAAACCATGTCTGGGACATTGGCATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACATAGGCATCGTAT-TGATT
* * *
33445931 TCGTGTAAGACCCTGTCTGGGACAGAGGCATGGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCG-TATTG-ATT
* *
33445974 ACATGTAAGACCATGTCTG
1 TCGTGTAAGACCATGTCTG
33445993 AGATGCCGGC
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.34
43 54 0.63
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACATAGGCATCGTATTGATT
Found at i:33448801 original size:34 final size:34
Alignment explanation
Indices: 33448750--33448849 Score: 84
Period size: 34 Copynumber: 3.0 Consensus size: 34
33448740 CAGTGTTGGA
*
33448750 CAGTTTGGG-CTTAAGCCCATATCAGTAGCAATAT
1 CAGTGTGGGCCTT-AGCCCATATCAGTAGCAATAT
* *
33448784 CAGTGTGGGCCTTAGCCCAT-TACATTAGCAGTAAT
1 CAGTGTGGGCCTTAGCCCATAT-CAGTAGCAAT-AT
**
33448819 -AGTGTAAGCCTTAGCCCA-ATTCAGTA-CAATA
1 CAGTGTGGGCCTTAGCCCATA-TCAGTAGCAATA
33448850 CCAGATATCC
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
32 1 0.02
33 4 0.07
34 43 0.80
35 6 0.11
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (34 bp):
CAGTGTGGGCCTTAGCCCATATCAGTAGCAATAT
Found at i:33450245 original size:17 final size:17
Alignment explanation
Indices: 33450225--33450257 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33450215 GCTTTAGAAA
33450225 CAAATGA-AAAGAAACCC
1 CAAATGACAAA-AAACCC
33450242 CAAATGACAAAAAACC
1 CAAATGACAAAAAACC
33450258 AAAAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.24, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAATGACAAAAAACCC
Found at i:33458914 original size:55 final size:56
Alignment explanation
Indices: 33458752--33458923 Score: 256
Period size: 56 Copynumber: 3.1 Consensus size: 56
33458742 TAGGGTCTTA
* * * *
33458752 ATCGTAATCACATATCAATGCCAATGTATTGAACATGGTCTTACTCGCACACATAT
1 ATCGAAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATAT
**
33458808 ATCGAAATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATAT
1 ATCGAAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATAT
* * *
33458864 ATCGAAATTACATATCGATG-CAACGTATTAAACATGGTCTTACTCACACACATTT
1 ATCGAAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATAT
33458919 ATCGA
1 ATCGA
33458924 TGCCATGGTC
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 36 0.34
56 69 0.66
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.30
Consensus pattern (56 bp):
ATCGAAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATAT
Found at i:33472002 original size:40 final size:39
Alignment explanation
Indices: 33471919--33472102 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
33471909 TTGAATGATG
* * * *
33471919 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33471958 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33471998 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
33472037 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
** *
33472078 -CCGGGCTGTGTCCCAAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
33472103 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 44 0.36
40 69 0.57
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33472054 original size:79 final size:79
Alignment explanation
Indices: 33471919--33472074 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
33471909 TTGAATGATG
* * *
33471919 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
33471984 TGCGAGATACTAAT
66 TGCGAGATACTAAT
* * * **
33471998 TCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
33472061 TGTGCGAGTTACTA
64 TGTGCGAGATACTA
33472075 TAACCGGGCT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.02
79 59 0.89
80 6 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:33472124 original size:79 final size:79
Alignment explanation
Indices: 33471971--33472135 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
33471961 GGACTAAGAT
* * **
33471971 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
33472036 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* ** *
33472050 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTGTGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
33472113 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33472129 CCGAAGG
1 CCGAAGG
33472136 TATGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Done.