Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 56 of 198
Found at i:17018995 original size:45 final size:45
Alignment explanation
Indices: 17018940--17019030 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
17018930 TATGTGAACA
* * *
17018940 GGACACCATTGATTAGTAAGGTGGTTGCTGTGTGCTGATTCCACC
1 GGACACCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
*
17018985 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 GGACACCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
17019030 G
1 G
17019031 AGTATCTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (45 bp):
GGACACCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
Found at i:17020614 original size:18 final size:19
Alignment explanation
Indices: 17020573--17020614 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
17020563 ATTGTGGTAT
* *
17020573 TGAAATTTATATTGGATTG
1 TGAAATTGATATTGGATCG
*
17020592 AGAAATTGA-ATTGGATCG
1 TGAAATTGATATTGGATCG
17020610 TGAAA
1 TGAAA
17020615 ATGAGAATCG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (19 bp):
TGAAATTGATATTGGATCG
Found at i:17022915 original size:88 final size:87
Alignment explanation
Indices: 17022817--17023032 Score: 308
Period size: 88 Copynumber: 2.5 Consensus size: 87
17022807 TAAAAGCAAT
*
17022817 GGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACC
1 GGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACC
* * *
17022882 CAATCGAGTGCAAAAAAAGTAGG
66 CAAACGAGTG-AAAAAAAATAGA
* * *
17022905 GGCTTGATTGCTTCTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACC
1 GGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACC
17022970 CAAACGAGTGAAAAAAAATAGA
66 CAAACGAGTGAAAAAAAATAGA
* * * *
17022992 AGCTTAATTACTTTTTTCGAAAAAAATTTGAGGG-CTTTTTG
1 GGCTTAATTGCTTTTTTTG-AAAAAGTTTGAGGGTCTTTTTG
17023033 CACTCTTAAG
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
87 31 0.27
88 82 0.73
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.36
Consensus pattern (87 bp):
GGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACC
CAAACGAGTGAAAAAAAATAGA
Found at i:17024184 original size:66 final size:66
Alignment explanation
Indices: 17024108--17024233 Score: 146
Period size: 68 Copynumber: 1.9 Consensus size: 66
17024098 TCTTCATTAC
* * * * *
17024108 TTTCAATAAAAAGTTAATTTTAATCTCACA-ACTAGAGAATACTCTCATAGCTCACTTCATCACC
1 TTTCAATAAAAAGATAA-TTTAACCCCACATAATAGAAAATACTCTCATAGCTCACTTCATCACC
17024172 TT
65 TT
* * *
17024174 TTTCATTAAAATGATAATTTAACCCCACATTGAATAGAAAATACTCTTATAGCTCACTTC
1 TTTCAATAAAAAGATAATTTAACCCCACA-T-AATAGAAAATACTCTCATAGCTCACTTC
17024234 TTCATTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
65 10 0.20
66 14 0.29
68 25 0.51
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (66 bp):
TTTCAATAAAAAGATAATTTAACCCCACATAATAGAAAATACTCTCATAGCTCACTTCATCACCT
T
Found at i:17024395 original size:69 final size:69
Alignment explanation
Indices: 17024268--17024431 Score: 167
Period size: 69 Copynumber: 2.4 Consensus size: 69
17024258 ATAAGTATCA
* * * *
17024268 ATTTCTTCAT--TGTTTCTATTAAAAAAGTTAATTTGAATCTCATATTAAATAGAGAATACTCTC
1 ATTTCTTCATCAT-TTTC-ATT-AAAAAGCTAATTTGAATCACACATTAAATAGAGAATACTCCC
17024331 ATAGCTC
63 ATAGCTC
* *
17024338 ATTTCTTCATCATTTTCATTAAAAAGCTAATTTTAATCACACATTGAATA-AGGAATACTCCCAT
1 ATTTCTTCATCATTTTCATTAAAAAGCTAATTTGAATCACACATTAAATAGA-GAATACTCCCAT
*
17024402 AGGTC
65 AGCTC
*
17024407 ACTTTC-TCA-CTATTTACATTAAAAA
1 A-TTTCTTCATC-ATTTTCATTAAAAA
17024432 TAATTTAATC
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
68 2 0.02
69 57 0.70
70 17 0.21
71 4 0.05
72 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (69 bp):
ATTTCTTCATCATTTTCATTAAAAAGCTAATTTGAATCACACATTAAATAGAGAATACTCCCATA
GCTC
Found at i:17024618 original size:94 final size:94
Alignment explanation
Indices: 17024451--17024936 Score: 366
Period size: 94 Copynumber: 5.2 Consensus size: 94
17024441 CCCTTACAAT
* * * * * * * *
17024451 GTTAATTTTAATCCCATATTGGCTTGTGAACACTATCAT-GCTTACACTTACCTTGTAAATAAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
* *
17024515 GATAGTTTCTTTAATATTTTCATTAAAAA
66 GACAATTTCTTTAATATTTTCATTAAAAA
* * ** *
17024544 GTTAATTTTAATCCCTCTTTGACCGGAGAACACTC-CTATATCTCACATTTACCTTATAAATAAG
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTC-ATAGCTCACATTTACCTTATAAATAAG
*
17024608 TGACAATTTC-TTCATCATTTTCATTAAAAA
65 TGACAATTTCTTTAAT-ATTTTCATTAAAAA
* * * * * ** *
17024638 GTTTATTTTAATCCTACATTGACTAGACAATACTCCCATAGC-C-CATTT--CTTCACTATTTTC
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTT-A-TA-AATA
* * * ** * * * *
17024699 ATTAAAAATTAATTT--TA-ATCCCTTAATAA
63 AGTGACAATTTCTTTAATATTTTCATTAAAAA
* * * * * * *
17024728 GTTAATTTTAATCTCACATTGGCTAGAGAATACTCTCAT-GCTTACACTTACCCTATAAATTAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
* ** *
17024792 GTCAATTTCTTTACCATTTTCATTGAAAA
66 GACAATTTCTTTAATATTTTCATTAAAAA
* * * * *
17024821 GTTAATTTTAATCCCACATTGACTAAAAAACACTCTCATATCTTACATTTACCTTGTAAATAAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
* *
17024886 GACAATTTC-TTCATCATTTTCATTAAAAG
66 GACAATTTCTTTAAT-ATTTTCATTAAAAA
*
17024915 GTTAATTTTAATCCCATATTGA
1 GTTAATTTTAATCCCACATTGA
17024937 ATAGGGAATA
Statistics
Matches: 299, Mismatches: 77, Indels: 33
0.73 0.19 0.08
Matches are distributed among these distances:
89 2 0.01
90 54 0.18
91 8 0.03
92 11 0.04
93 87 0.29
94 136 0.45
95 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (94 bp):
GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
GACAATTTCTTTAATATTTTCATTAAAAA
Found at i:17024830 original size:277 final size:274
Alignment explanation
Indices: 17024338--17024939 Score: 800
Period size: 277 Copynumber: 2.2 Consensus size: 274
17024328 CTCATAGCTC
* *
17024338 ATTTCTTCATCATTTTCATTAAAAAGCTAATTTTAATCACACATTGAATAAGGAATACTCCCATA
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATC-CACATTGAATAAGCAATACTCCCATA
** * *
17024403 GGTCACTTTCTCACTATTTACATTAAAAATAATTTAATCCCTTACAATGTTAATTTTAATCCCAT
65 GCCCACTTTCTCACTATTTACATTAAAAATAATTTAATCCCTTACAAAGTTAATTTTAATCCCAC
* * * * * *
17024468 ATTGGCTTGTGAACACTATCATGCTTACACTTACCTTGTAAATAAGTGATAGTTTCTTTAATATT
130 ATTGGCTAGAGAACACTATCATGCTTACACTTACCCTATAAATAAGTGATAATTTCTTTAACATT
* * ** *
17024533 TTCATTAAAAAGTTAATTTTAATCCCTCTTTGACCGGAGAACACTC-CTATATCTCACATTTACC
195 TTCATTAAAAAGTTAATTTTAATCCCACATTGACCAAAAAACACTCTC-ATATCTCACATTTACC
17024597 TTATAAATAAGTGACA
259 TTATAAATAAGTGACA
* *
17024613 ATTTCTTCATCATTTTCATTAAAAAGTTTATTTTAATCCTACATTGACT-AGACAATACTCCCAT
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATCC-ACATTGAATAAG-CAATACTCCCAT
*
17024677 AGCCCA-TTTCTTCACTATTTTCATTAAAAATTAATTTTAATCCCTTA-ATAAGTTAATTTTAAT
64 AGCCCACTTTC-TCACTATTTACATTAAAAA-TAA-TTTAATCCCTTACA-AAGTTAATTTTAAT
* * * *
17024740 CTCACATTGGCTAGAGAATACTCTCATGCTTACACTTACCCTATAAATTAGTG-TCAATTTCTTT
125 CCCACATTGGCTAGAGAACACTATCATGCTTACACTTACCCTATAAATAAGTGAT-AATTTCTTT
* * * *
17024804 ACCATTTTCATTGAAAAGTTAATTTTAATCCCACATTGACTAAAAAACACTCTCATATCTTACAT
189 AACATTTTCATTAAAAAGTTAATTTTAATCCCACATTGACCAAAAAACACTCTCATATCTCACAT
*
17024869 TTACCTTGTAAATAAGTGACA
254 TTACCTTATAAATAAGTGACA
* *
17024890 ATTTCTTCATCATTTTCATTAAAAGGTTAATTTTAATCCCATATTGAATA
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAAT-CCACATTGAATA
17024940 GGGAATAAAG
Statistics
Matches: 284, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
274 7 0.02
275 77 0.27
276 5 0.02
277 192 0.68
278 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (274 bp):
ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATCCACATTGAATAAGCAATACTCCCATAG
CCCACTTTCTCACTATTTACATTAAAAATAATTTAATCCCTTACAAAGTTAATTTTAATCCCACA
TTGGCTAGAGAACACTATCATGCTTACACTTACCCTATAAATAAGTGATAATTTCTTTAACATTT
TCATTAAAAAGTTAATTTTAATCCCACATTGACCAAAAAACACTCTCATATCTCACATTTACCTT
ATAAATAAGTGACA
Found at i:17025660 original size:21 final size:21
Alignment explanation
Indices: 17025634--17025679 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
17025624 TCTTAGGTCT
*
17025634 AGTCTGATATACTATCGTTCC
1 AGTCTGATATACTATAGTTCC
*
17025655 AGTCTGATGTACTATAGTTCC
1 AGTCTGATATACTATAGTTCC
17025676 AGTC
1 AGTC
17025680 AGTCACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (21 bp):
AGTCTGATATACTATAGTTCC
Found at i:17030738 original size:22 final size:22
Alignment explanation
Indices: 17030713--17030754 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17030703 CTGCCACATG
17030713 AATTAAATTAATTATTAAATTA
1 AATTAAATTAATTATTAAATTA
* * *
17030735 AATTAATTTGATTGTTAAAT
1 AATTAAATTAATTATTAAAT
17030755 ATTAAATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
AATTAAATTAATTATTAAATTA
Found at i:17035015 original size:24 final size:24
Alignment explanation
Indices: 17034987--17035035 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
17034977 AAATTAAAAG
17034987 TAATCTAATTTGGGTAAGAATTAT
1 TAATCTAATTTGGGTAAGAATTAT
*
17035011 TAATCTAATTTGGGTAAGACTTAT
1 TAATCTAATTTGGGTAAGAATTAT
17035035 T
1 T
17035036 GAGCTTCCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (24 bp):
TAATCTAATTTGGGTAAGAATTAT
Found at i:17035680 original size:23 final size:23
Alignment explanation
Indices: 17035650--17035694 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
17035640 TAAATCCCAC
17035650 ATCACTTCTTATCACGATATTAA
1 ATCACTTCTTATCACGATATTAA
*
17035673 ATCACTTCTTATCACTATATTA
1 ATCACTTCTTATCACGATATTA
17035695 GACCTTACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.42
Consensus pattern (23 bp):
ATCACTTCTTATCACGATATTAA
Found at i:17049267 original size:23 final size:22
Alignment explanation
Indices: 17049214--17049272 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
17049204 TAAATATTAG
*
17049214 TTTATTAATATTTTAATTTGAT
1 TTTATTAATATATTAATTTGAT
* *
17049236 TTTTTTAATGATATT-ATTTTAT
1 TTTATTAAT-ATATTAATTTGAT
*
17049258 TGTTATTAATTTATT
1 T-TTATTAATATATT
17049273 TAGTATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTATTAATATATTAATTTGAT
Found at i:17054534 original size:31 final size:31
Alignment explanation
Indices: 17054499--17054586 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
17054489 CGCCAATCCA
* *
17054499 ATAAGTTCTATTTTGTGAACTGTGTTTGCAT
1 ATAAGTTCTATTTGGTGAACTATGTTTGCAT
* *
17054530 ATAAGTTGTGTTTGGTGAACTATGTTTGCAT
1 ATAAGTTCTATTTGGTGAACTATGTTTGCAT
* * * *
17054561 ATAAGCTGTGTTTGGTAAACTATGTT
1 ATAAGTTCTATTTGGTGAACTATGTT
17054587 CGCAAGTCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (31 bp):
ATAAGTTCTATTTGGTGAACTATGTTTGCAT
Found at i:17054574 original size:17 final size:17
Alignment explanation
Indices: 17054518--17054574 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
17054508 ATTTTGTGAA
17054518 CTGTGTTTGCATATAAG
1 CTGTGTTTGCATATAAG
* * *
17054535 TTGTGTTTG-GT-GAA-
1 CTGTGTTTGCATATAAG
*
17054549 CTATGTTTGCATATAAG
1 CTGTGTTTGCATATAAG
17054566 CTGTGTTTG
1 CTGTGTTTG
17054575 GTAAACTATG
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
14 7 0.24
15 3 0.10
16 3 0.10
17 16 0.55
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (17 bp):
CTGTGTTTGCATATAAG
Found at i:17064327 original size:24 final size:24
Alignment explanation
Indices: 17064300--17064366 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
17064290 TCATTTAACA
17064300 TAGAACACACTTACCTCATTCAAG
1 TAGAACACACTTACCTCATTCAAG
* *
17064324 TAGACCACAC--ATCTCATTCAAG
1 TAGAACACACTTACCTCATTCAAG
*
17064346 TAGCAACTCA-TATACCTCATT
1 TAG-AACACACT-TACCTCATT
17064367 TGTCATCATG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 14 0.41
23 4 0.12
24 9 0.26
25 7 0.21
ACGTcount: A:0.36, C:0.30, G:0.07, T:0.27
Consensus pattern (24 bp):
TAGAACACACTTACCTCATTCAAG
Found at i:17068093 original size:17 final size:17
Alignment explanation
Indices: 17068030--17068093 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
17068020 ATGGGAAAAC
*
17068030 GTACCAAAATCCAGGAT
1 GTACCAACATCCAGGAT
*
17068047 GTACCAACATCTGCATCAAGAT
1 GTACCAACA--T-C--CAGGAT
17068069 GTACCAACATCCAGGAT
1 GTACCAACATCCAGGAT
17068086 GTACCAAC
1 GTACCAAC
17068094 TATAGTGCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 21 0.54
19 2 0.05
20 2 0.05
22 14 0.36
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (17 bp):
GTACCAACATCCAGGAT
Found at i:17074002 original size:40 final size:40
Alignment explanation
Indices: 17073953--17074053 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
17073943 ACTGAGCTTC
* * *
17073953 TTCAATAGATTCATTAGGTATGGCTCAAAAGCACATACGT
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACAT
** *
17073993 TTCAGTAGATTCAGTAGGTATGGCTTGAAAGCGCATACAT
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACAT
*
17074033 TTCAGTAGATCCAGTAGGTAT
1 TTCAGTAGATTCAGTAGGTAT
17074054 CGCTAGTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (40 bp):
TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACAT
Found at i:17089939 original size:3 final size:3
Alignment explanation
Indices: 17089931--17089966 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
17089921 TTAGTATTCT
*
17089931 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17089967 ATGAAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:17097069 original size:48 final size:48
Alignment explanation
Indices: 17097013--17097110 Score: 171
Period size: 48 Copynumber: 2.0 Consensus size: 48
17097003 ATGTTTATGT
*
17097013 TAATGTATGAGATGTATGTTTTAAAATTACT-TTTTTACAGTAATGCTC
1 TAATGTATGAGATGTATGTTTTAAAATTA-TGTTTTTACAATAATGCTC
17097061 TAATGTATGAGATGTATGTTTTAAAATTATGTTTTTACAATAATGCTC
1 TAATGTATGAGATGTATGTTTTAAAATTATGTTTTTACAATAATGCTC
17097109 TA
1 TA
17097111 TAACCCTATG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (48 bp):
TAATGTATGAGATGTATGTTTTAAAATTATGTTTTTACAATAATGCTC
Found at i:17111151 original size:11 final size:11
Alignment explanation
Indices: 17111131--17111228 Score: 61
Period size: 11 Copynumber: 9.4 Consensus size: 11
17111121 TAAAAATTAA
17111131 AAAAAGTATTTT
1 AAAAA-TATTTT
17111143 AAAAATATTTT
1 AAAAATATTTT
17111154 --AAA-A--TT
1 AAAAATATTTT
*
17111160 AAAAGA-AATTT
1 AAAA-ATATTTT
17111171 AAAAAGTATTTT
1 AAAAA-TATTTT
*
17111183 TAAAATATTTT
1 AAAAATATTTT
**
17111194 --AAA-ATTAA
1 AAAAATATTTT
17111202 AAAAATTATTTT
1 AAAAA-TATTTT
17111214 AAAAATATTTT
1 AAAAATATTTT
17111225 AAAA
1 AAAA
17111229 TTAAGAAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
6 2 0.03
8 6 0.09
9 8 0.12
10 4 0.06
11 28 0.41
12 21 0.30
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17111161 original size:31 final size:31
Alignment explanation
Indices: 17111116--17111239 Score: 122
Period size: 31 Copynumber: 3.7 Consensus size: 31
17111106 ACCAAAAATT
*
17111116 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAATTATTTTAAAAA
**
17111148 TATTTTAAAATTAAAAGAAATTTAAAAAGTATTTTTAAA
1 TATTTTAAAATTAAAA-AAA-TT----A-T-TTTAAAAA
17111187 ATATTTTAAAATTAAAAAAATTATTTTAAAAA
1 -TATTTTAAAATTAAAAAAATTATTTTAAAAA
*
17111219 TATTTTAAAATTAAGAAAATT
1 TATTTTAAAATTAAAAAAATT
17111240 TAAAAAATAA
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
31 30 0.39
32 15 0.19
33 2 0.03
34 1 0.01
37 1 0.01
38 3 0.04
39 9 0.12
40 16 0.21
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (31 bp):
TATTTTAAAATTAAAAAAATTATTTTAAAAA
Found at i:17111182 original size:40 final size:42
Alignment explanation
Indices: 17111131--17111228 Score: 148
Period size: 40 Copynumber: 2.4 Consensus size: 42
17111121 TAAAAATTAA
*
17111131 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAGAA-A-TTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATATTTT
*
17111171 AAAAAGTATTTTTAAAATATTTTAAAATTAAAAAAATTATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA-TATTTT
17111214 AAAAA-TATTTTAAAA
1 AAAAAGTATTTTAAAA
17111229 TTAAGAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 34 0.65
42 10 0.19
43 8 0.15
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (42 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATATTTT
Found at i:17114555 original size:14 final size:15
Alignment explanation
Indices: 17114536--17114564 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17114526 AACATGCATA
17114536 AAATGACC-AATTTC
1 AAATGACCAAATTTC
17114550 AAATGACCAAATTTC
1 AAATGACCAAATTTC
17114565 CATTCAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATGACCAAATTTC
Found at i:17116264 original size:26 final size:27
Alignment explanation
Indices: 17116228--17116285 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 27
17116218 GTTCCAACTC
17116228 ACATTTTAAACATCATATATAAGTTA-
1 ACATTTTAAACATCATATATAAGTTAT
17116254 ACATTTTAAACATCATATATAAGTTAT
1 ACATTTTAAACATCATATATAAGTTAT
17116281 ACATT
1 ACATT
17116286 CATAAATCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (27 bp):
ACATTTTAAACATCATATATAAGTTAT
Found at i:17122416 original size:42 final size:42
Alignment explanation
Indices: 17122369--17122460 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
17122359 GTGTGACCAG
** *
17122369 GCCATGTGACTCATGCGGCCAAGAGACGCACCCATGTCTTAA
1 GCCATGTGACTCACACGGCCAAGAGACACACCCATGTCTTAA
* * *
17122411 GCCATGTGACTCACACGGCCAAGAGACACGCCCGTGTCTTAG
1 GCCATGTGACTCACACGGCCAAGAGACACACCCATGTCTTAA
*
17122453 GCCGTGTG
1 GCCATGTG
17122461 GACATTCGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (42 bp):
GCCATGTGACTCACACGGCCAAGAGACACACCCATGTCTTAA
Found at i:17123791 original size:24 final size:25
Alignment explanation
Indices: 17123739--17123791 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
17123729 GTACATGTAT
* *
17123739 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTCTGAAACGGTAA
* *
17123764 GCTCTTACGAGCTGT-AAACGGTAA
1 GCTCATACGAGCTCTGAAACGGTAA
17123788 GCTC
1 GCTC
17123792 CTCTGAGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTCTGAAACGGTAA
Found at i:17127880 original size:27 final size:28
Alignment explanation
Indices: 17127860--17127917 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
17127850 CTAATCCTTG
* *
17127860 AACCCCAAACTCG-AGCTCTAAACCTCA
1 AACCCAAAACTCGTAACTCTAAACCTCA
17127887 AACCCAAAACTCGTAACTCTAAACC-CA
1 AACCCAAAACTCGTAACTCTAAACCTCA
17127914 AACC
1 AACC
17127918 TTGAACCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.41, C:0.40, G:0.05, T:0.14
Consensus pattern (28 bp):
AACCCAAAACTCGTAACTCTAAACCTCA
Found at i:17127912 original size:21 final size:20
Alignment explanation
Indices: 17127880--17127936 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
17127870 TCGAGCTCTA
*
17127880 AACCTCAAACCCAAAACTCG
1 AACCTTAAACCCAAAACTCG
* *
17127900 TAA-CTCTAAACCCAAACCTTG
1 -AACCT-TAAACCCAAAACTCG
17127921 AACCTTAAACCCAAAA
1 AACCTTAAACCCAAAA
17127937 GCCAACTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.46, C:0.35, G:0.04, T:0.16
Consensus pattern (20 bp):
AACCTTAAACCCAAAACTCG
Found at i:17128645 original size:9 final size:9
Alignment explanation
Indices: 17128631--17128724 Score: 143
Period size: 9 Copynumber: 10.4 Consensus size: 9
17128621 GTAGTGATTC
17128631 AATTCGGTT
1 AATTCGGTT
*
17128640 AATTCGGGT
1 AATTCGGTT
* *
17128649 AATTTGGGT
1 AATTCGGTT
17128658 AATTCGGTT
1 AATTCGGTT
17128667 AATTCGGTT
1 AATTCGGTT
17128676 AATTCGGTT
1 AATTCGGTT
*
17128685 AATTCGGGT
1 AATTCGGTT
17128694 AATTCGGTT
1 AATTCGGTT
*
17128703 AATTTGGTT
1 AATTCGGTT
17128712 AATTCGGTT
1 AATTCGGTT
17128721 AATT
1 AATT
17128725 TTTAACCAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 77 1.00
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:17148514 original size:14 final size:14
Alignment explanation
Indices: 17148497--17148523 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17148487 ACTGAAACCT
17148497 ATTTTTGGAAAATA
1 ATTTTTGGAAAATA
17148511 ATTTTTGGAAAAT
1 ATTTTTGGAAAAT
17148524 GGTATGACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
ATTTTTGGAAAATA
Found at i:17152945 original size:6 final size:6
Alignment explanation
Indices: 17152934--17152965 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
17152924 TAGTGGAACA
*
17152934 AGTAGC AGTAGC AGTAGC AGTAGC AGCAGC AG
1 AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AG
17152966 GGCAGGCAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.12
Consensus pattern (6 bp):
AGTAGC
Found at i:17152975 original size:4 final size:4
Alignment explanation
Indices: 17152966--17152990 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17152956 GCAGCAGCAG
17152966 GGCA GGCA GGCA GGCA GGCA GGCA G
1 GGCA GGCA GGCA GGCA GGCA GGCA G
17152991 CAACAGTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.52, T:0.00
Consensus pattern (4 bp):
GGCA
Found at i:17154997 original size:21 final size:20
Alignment explanation
Indices: 17154973--17155018 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
17154963 ACTTCAATCG
17154973 ATTTAATT-AATTTAATTAAAA
1 ATTTAATTAAATTT--TTAAAA
17154994 ATTT-ATTAAATTTTTAAAA
1 ATTTAATTAAATTTTTAAAA
*
17155013 AGTTAA
1 ATTTAA
17155019 AAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 9 0.41
20 4 0.18
21 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTAATTAAATTTTTAAAA
Found at i:17155855 original size:15 final size:15
Alignment explanation
Indices: 17155830--17155867 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17155820 TAATATTAAA
17155830 TTATGAATTTATATATT
1 TTAT-AATTTATAT-TT
17155847 TT-TAATTTATATTT
1 TTATAATTTATATTT
17155861 TTATAAT
1 TTATAAT
17155868 ATTTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 1 0.05
17 2 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TTATAATTTATATTT
Found at i:17159515 original size:25 final size:25
Alignment explanation
Indices: 17159467--17159515 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17159457 CATAATTGAA
* * *
17159467 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
17159492 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
17159516 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:17160898 original size:25 final size:24
Alignment explanation
Indices: 17160860--17160969 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 24
17160850 TCATTAGGGA
*
17160860 TTACCGGTTCTCAGCTCATATGAGC
1 TTACCGATTCTCAGCTCATA-GAGC
*
17160885 TTTACCGATT-TCAGCTCGTGAGAGC
1 -TTACCGATTCTCAGCTCAT-AGAGC
17160910 TTACCGATTCTCAGCTCATACGAGC
1 TTACCGATTCTCAGCTCATA-GAGC
* * *
17160935 TTATCGATT-TACAGTTCGTAAGAGC
1 TTACCGATTCT-CAGCTCAT-AGAGC
*
17160960 ATACCGATTC
1 TTACCGATTC
17160970 ATAGCTCGCA
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
24 11 0.16
25 49 0.70
26 10 0.14
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (24 bp):
TTACCGATTCTCAGCTCATAGAGC
Found at i:17160935 original size:50 final size:50
Alignment explanation
Indices: 17160860--17160969 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 50
17160850 TCATTAGGGA
* * *
17160860 TTACCGGTTCTCAGCTCATATGAGCTTTACCGATTT-CAGCTCGTGAGAGC
1 TTACCGATTCTCAGCTCATACGAGC-TTACCGATTTACAGCTCGTAAGAGC
* *
17160910 TTACCGATTCTCAGCTCATACGAGCTTATCGATTTACAGTTCGTAAGAGC
1 TTACCGATTCTCAGCTCATACGAGCTTACCGATTTACAGCTCGTAAGAGC
*
17160960 ATACCGATTC
1 TTACCGATTC
17160970 ATAGCTCGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 9 0.17
50 44 0.83
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (50 bp):
TTACCGATTCTCAGCTCATACGAGCTTACCGATTTACAGCTCGTAAGAGC
Found at i:17162986 original size:15 final size:14
Alignment explanation
Indices: 17162955--17163031 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 14
17162945 ATGAGAAATG
*
17162955 AATATGAGATGATAA
1 AATATGAAATGA-AA
17162970 AATATTGAAATGAAA
1 AATA-TGAAATGAAA
17162985 AATATG--AT-AAA
1 AATATGAAATGAAA
* *
17162996 TGAATATGAGATAAGAA
1 --AATATGAAATGA-AA
17163013 AATATTGAAATGAAA
1 AATA-TGAAATGAAA
17163028 AATA
1 AATA
17163032 GGAGAAATGA
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
11 3 0.06
12 2 0.04
13 6 0.12
14 2 0.04
15 22 0.43
16 14 0.27
17 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (14 bp):
AATATGAAATGAAA
Found at i:17162997 original size:43 final size:43
Alignment explanation
Indices: 17162928--17163056 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 43
17162918 TATGTGATTG
* ** *
17162928 ATATTGAAATGACAACGATGAGAAATGAATATGAGATGATAAA
1 ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
* *
17162971 ATATTGAAATGAAAAATATGATAAATGAATATGAGATAAGAAA
1 ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
* * *
17163014 ATATTGAAATGAAAAATAGGAGAAATGATTACGAGATGAGAAA
1 ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
17163057 TGAGATATGA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.54, C:0.02, G:0.20, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:17164389 original size:49 final size:49
Alignment explanation
Indices: 17164307--17164403 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
17164297 TCTAGAAGGG
* * * *
17164307 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAATTTAGCAATGT
1 ATAAATACTGATAAGAGTGTAGACAATGAAAGACCAAATTTAGAAATGT
*
17164356 ATAAATACTGATAAGAGTGTAGACAAT-AGAAGACCAAGTTTAGAAATG
1 ATAAATACTGATAAGAGTGTAGACAATGA-AAGACCAAATTTAGAAATG
17164404 CATAGCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.02
49 41 0.98
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (49 bp):
ATAAATACTGATAAGAGTGTAGACAATGAAAGACCAAATTTAGAAATGT
Found at i:17171053 original size:18 final size:18
Alignment explanation
Indices: 17171030--17171070 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
17171020 GGATGAATGG
17171030 TTGTATTGAAACTCAATT
1 TTGTATTGAAACTCAATT
17171048 TTGTATTGAAACTCAATT
1 TTGTATTGAAACTCAATT
17171066 TTGTA
1 TTGTA
17171071 CTAGGAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (18 bp):
TTGTATTGAAACTCAATT
Found at i:17188654 original size:15 final size:14
Alignment explanation
Indices: 17188633--17188668 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
17188623 ACAATCCTTA
*
17188633 ATAATTATCTTAAT
1 ATAATTATCCTAAT
17188647 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
17188662 ATAATTA
1 ATAATTA
17188669 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:17189514 original size:21 final size:21
Alignment explanation
Indices: 17189488--17189538 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
17189478 AAGCACTCTA
17189488 AAGAGAAAAAGCACAAGAAGG
1 AAGAGAAAAAGCACAAGAAGG
*
17189509 AGGAGAAAAAGCACAAGAAGG
1 AAGAGAAAAAGCACAAGAAGG
17189530 AAGAGAAAA
1 AAGAGAAAA
17189539 GGAGAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.63, C:0.08, G:0.29, T:0.00
Consensus pattern (21 bp):
AAGAGAAAAAGCACAAGAAGG
Found at i:17200358 original size:18 final size:19
Alignment explanation
Indices: 17200324--17200362 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17200314 TACTAAACTA
*
17200324 AAAGGAAAAACATTTATCT
1 AAAGGAAAAACAATTATCT
17200343 AAAGGAAAAA-AATTATCT
1 AAAGGAAAAACAATTATCT
17200361 AA
1 AA
17200363 GAAAGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.23
Consensus pattern (19 bp):
AAAGGAAAAACAATTATCT
Found at i:17207142 original size:14 final size:15
Alignment explanation
Indices: 17207123--17207160 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
17207113 AATCGCAACG
17207123 AACC-ATTTTGCTAA
1 AACCAATTTTGCTAA
17207137 AACCATATTTTGCTAA
1 AACCA-ATTTTGCTAA
17207153 AACTCAAT
1 AAC-CAAT
17207161 ATTTCATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (15 bp):
AACCAATTTTGCTAA
Found at i:17208980 original size:20 final size:20
Alignment explanation
Indices: 17208950--17208999 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
17208940 AAATGAAGAG
17208950 GAAATAGAAGAGAAAGGAGGA
1 GAAA-AGAAGAGAAAGGAGGA
* *
17208971 GAAAAGAAGATAAATGAGGA
1 GAAAAGAAGAGAAAGGAGGA
17208991 GCAAAAGAA
1 G-AAAAGAA
17209000 TGGTGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.32, T:0.06
Consensus pattern (20 bp):
GAAAAGAAGAGAAAGGAGGA
Found at i:17212589 original size:14 final size:14
Alignment explanation
Indices: 17212572--17212600 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17212562 AGCCCTTCAA
17212572 TCCTAGACATAACC
1 TCCTAGACATAACC
17212586 TCCTAGACATAACC
1 TCCTAGACATAACC
17212600 T
1 T
17212601 TGATATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.24
Consensus pattern (14 bp):
TCCTAGACATAACC
Found at i:17217653 original size:175 final size:175
Alignment explanation
Indices: 17217362--17217714 Score: 697
Period size: 175 Copynumber: 2.0 Consensus size: 175
17217352 GAAATGCAAC
17217362 CATTAAAACCTACAGGGGACACACGACCGTGTGTCACACACAGCTAAGACACACACCCGTGTCTT
1 CATTAAAACCTACAGGGGACACACGACCGTGTGTCACACACAGCTAAGACACACACCCGTGTCTT
17217427 AGGCCGTGTGGACAAGAAATAGGCCAAATACAAGCCATTTCTTTTACCCAATTCAAGCATACCTA
66 AGGCCGTGTGGACAAGAAATAGGCCAAATACAAGCCATTTCTTTTACCCAATTCAAGCATACCTA
17217492 TACAAGCCATTCACACATATGACAAAGGTATTAAACATGTTCAAT
131 TACAAGCCATTCACACATATGACAAAGGTATTAAACATGTTCAAT
17217537 CATTAAAACCTACAGGGGACACACGACCGTGTGTCACACACAGCTAAGACACACACCCGTGTCTT
1 CATTAAAACCTACAGGGGACACACGACCGTGTGTCACACACAGCTAAGACACACACCCGTGTCTT
17217602 AGGCCGTGTGGACAAGAAATAGGCCAAATACAAGCCATTTCTTTTACCCAATTCAAGCATACCTA
66 AGGCCGTGTGGACAAGAAATAGGCCAAATACAAGCCATTTCTTTTACCCAATTCAAGCATACCTA
*
17217667 TACAAGCCATTCACAGATATGACAAAGGTATTAAACATGTTCAAT
131 TACAAGCCATTCACACATATGACAAAGGTATTAAACATGTTCAAT
17217712 CAT
1 CAT
17217715 GCATAAAACA
Statistics
Matches: 177, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 177 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (175 bp):
CATTAAAACCTACAGGGGACACACGACCGTGTGTCACACACAGCTAAGACACACACCCGTGTCTT
AGGCCGTGTGGACAAGAAATAGGCCAAATACAAGCCATTTCTTTTACCCAATTCAAGCATACCTA
TACAAGCCATTCACACATATGACAAAGGTATTAAACATGTTCAAT
Found at i:17219494 original size:29 final size:29
Alignment explanation
Indices: 17219390--17219616 Score: 187
Period size: 29 Copynumber: 7.8 Consensus size: 29
17219380 TGTGCTAAAT
*
17219390 GATGGTCGA-AACCATCCCTTTTCTTTAATT-
1 GATGGTC-ATAACCATCCCTTTTC-AT-ATTC
* * **
17219420 GATGGTCGA-AACCATCTCTTTTCTTTAACC
1 GATGGTC-ATAACCATCCCTTTTC-ATATTC
* *
17219450 GATGGTCGA-AATCATCCATTTTCATATTC
1 GATGGTC-ATAACCATCCCTTTTCATATTC
*
17219479 GATGTTCA-AAGCCATCCCTTTTCATATTC
1 GATGGTCATAA-CCATCCCTTTTCATATTC
*
17219508 GATGGTCATCACCATCCCTTTTCATATTC
1 GATGGTCATAACCATCCCTTTTCATATTC
* * * *
17219537 GATGGTCGTCACCTTCCCTTTTCATAGTC
1 GATGGTCATAACCATCCCTTTTCATATTC
* *
17219566 GATAGTCGA-AACCATCCCTTTTCATATTT
1 GATGGTC-ATAACCATCCCTTTTCATATTC
* *
17219595 GATGGTCAAAACAATCCCTTTT
1 GATGGTCATAACCATCCCTTTT
17219617 GTTTAATCGA
Statistics
Matches: 167, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
28 4 0.02
29 117 0.70
30 46 0.28
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
GATGGTCATAACCATCCCTTTTCATATTC
Found at i:17219524 original size:58 final size:57
Alignment explanation
Indices: 17219394--17219616 Score: 207
Period size: 58 Copynumber: 3.8 Consensus size: 57
17219384 CTAAATGATG
* * * ** *
17219394 GTCGAAACCATCCCTTTTCTTTAATT-GATGGTCGAAACCATCTCTTTTCTTTAACCGATG
1 GTCGAAACCATCCCTTTTC-AT-ATTCGATGGTC-AAACCATCCCTTTTC-ATAGTCGATA
* * * * *
17219454 GTCGAAATCATCCATTTTCATATTCGATGTTCAAAGCCATCCCTTTTCATATTCGATG
1 GTCGAAACCATCCCTTTTCATATTCGATGGTCAAA-CCATCCCTTTTCATAGTCGATA
* ** *
17219512 GTC-ATCACCATCCCTTTTCATATTCGATGGTCGTCACCTTCCCTTTTCATAGTCGATA
1 GTCGA-AACCATCCCTTTTCATATTCGATGGTC-AAACCATCCCTTTTCATAGTCGATA
* *
17219570 GTCGAAACCATCCCTTTTCATATTTGATGGTCAAAACAATCCCTTTT
1 GTCGAAACCATCCCTTTTCATATTCGATGGTC-AAACCATCCCTTTT
17219617 GTTTAATCGA
Statistics
Matches: 134, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
57 1 0.01
58 96 0.72
59 20 0.15
60 17 0.13
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (57 bp):
GTCGAAACCATCCCTTTTCATATTCGATGGTCAAACCATCCCTTTTCATAGTCGATA
Found at i:17236071 original size:7 final size:7
Alignment explanation
Indices: 17236059--17236084 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17236049 TATAATAATT
17236059 TTATATC
1 TTATATC
17236066 TTATATC
1 TTATATC
17236073 TTATATC
1 TTATATC
17236080 TTATA
1 TTATA
17236085 CTAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.58
Consensus pattern (7 bp):
TTATATC
Found at i:17236396 original size:18 final size:19
Alignment explanation
Indices: 17236373--17236410 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
17236363 CTATCAATAA
* *
17236373 AAAATTTAATTTAAT-TAT
1 AAAATTAAATATAATATAT
17236391 AAAATTAAATATAATATAT
1 AAAATTAAATATAATATAT
17236410 A
1 A
17236411 TTTATTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTAAATATAATATAT
Found at i:17245147 original size:13 final size:13
Alignment explanation
Indices: 17245131--17245160 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17245121 TTGAATTGCA
*
17245131 TGTTTGATTTTCT
1 TGTTTGATTTCCT
17245144 TGTTTGATTTCCT
1 TGTTTGATTTCCT
17245157 TGTT
1 TGTT
17245161 AACCCCTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.10, G:0.17, T:0.67
Consensus pattern (13 bp):
TGTTTGATTTCCT
Found at i:17245551 original size:37 final size:37
Alignment explanation
Indices: 17245509--17245592 Score: 150
Period size: 37 Copynumber: 2.2 Consensus size: 37
17245499 TTCCTATATA
17245509 TGGAAAAACTTGAAAACAAAATTGAATATACATGTGT
1 TGGAAAAACTTGAAAACAAAATTGAATATACATGTGT
*
17245546 TGGAAAAACTTGAAAATAAAATTGAATATACATGTGT
1 TGGAAAAACTTGAAAACAAAATTGAATATACATGTGT
17245583 TGGACAAAAC
1 TGGA-AAAAC
17245593 CATATCCAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 40 0.89
38 5 0.11
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (37 bp):
TGGAAAAACTTGAAAACAAAATTGAATATACATGTGT
Found at i:17247308 original size:24 final size:24
Alignment explanation
Indices: 17247270--17247316 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17247260 ATCTTTATTT
17247270 TAAACTTAAACAATATAAA-TTTAA
1 TAAACTTAAACAATA-AAAGTTTAA
17247294 TAAACTTAATA-AATAAAAGTTTA
1 TAAACTTAA-ACAATAAAAGTTTA
17247317 TTGGCTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 17 0.81
25 1 0.05
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAACTTAAACAATAAAAGTTTAA
Found at i:17247427 original size:49 final size:48
Alignment explanation
Indices: 17247370--17247462 Score: 150
Period size: 49 Copynumber: 1.9 Consensus size: 48
17247360 TCATGTGTTA
* * *
17247370 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAAATTAATTC
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATT-AAATTAATTC
17247419 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAATTA
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAATTA
17247463 TACTTAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 6 0.15
49 35 0.85
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (48 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAATTAATTC
Found at i:17252931 original size:225 final size:225
Alignment explanation
Indices: 17252540--17252990 Score: 893
Period size: 225 Copynumber: 2.0 Consensus size: 225
17252530 AAAACAAATC
17252540 ACTAGCTTATTGCAAAAGGTCATGTATAAATGTCCTAGTTAATCTTGTCAAATCTTGAAACGAAT
1 ACTAGCTTATTGCAAAAGGTCATGTATAAATGTCCTAGTTAATCTTGTCAAATCTTGAAACGAAT
17252605 AGTTAATTCGTGTGTAAATGTCATTTTTTACGGTTATTGCCCATTTCTTGTTAGTTTTTATTCTT
66 AGTTAATTCGTGTGTAAATGTCATTTTTTACGGTTATTGCCCATTTCTTGTTAGTTTTTATTCTT
17252670 GACCATATATATTTTATTGTGACTTTTATCCAATGTTGCTGAAAATAAAAAGAAAAGAAATGGAA
131 GACCATATATATTTTATTGTGACTTTTATCCAATGTTGCTGAAAATAAAAAGAAAAGAAATGGAA
17252735 GGAATGAGGTTCGAACTTAGGACTTTTAGG
196 GGAATGAGGTTCGAACTTAGGACTTTTAGG
17252765 ACTAGCTTATTGCAAAAGGTCATGTATAAATGTCCTAGTTAATCTTGTCAAATCTTGAAACGAAT
1 ACTAGCTTATTGCAAAAGGTCATGTATAAATGTCCTAGTTAATCTTGTCAAATCTTGAAACGAAT
17252830 AGTTAATTCGTGTGTAAATGTCATTTTTTACGGTTATTGCCCATTTCTTGTTAGTTTTTATTCTT
66 AGTTAATTCGTGTGTAAATGTCATTTTTTACGGTTATTGCCCATTTCTTGTTAGTTTTTATTCTT
*
17252895 GACCATATATATTTTATTGTGACTTTTATCCAATGTTGCTGAATATAAAAAGAAAAGAAATGGAA
131 GACCATATATATTTTATTGTGACTTTTATCCAATGTTGCTGAAAATAAAAAGAAAAGAAATGGAA
17252960 GGAATGAGGTTCGAACTTAGGACTTTTAGG
196 GGAATGAGGTTCGAACTTAGGACTTTTAGG
17252990 A
1 A
17252991 GAACTAACAC
Statistics
Matches: 225, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 225 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (225 bp):
ACTAGCTTATTGCAAAAGGTCATGTATAAATGTCCTAGTTAATCTTGTCAAATCTTGAAACGAAT
AGTTAATTCGTGTGTAAATGTCATTTTTTACGGTTATTGCCCATTTCTTGTTAGTTTTTATTCTT
GACCATATATATTTTATTGTGACTTTTATCCAATGTTGCTGAAAATAAAAAGAAAAGAAATGGAA
GGAATGAGGTTCGAACTTAGGACTTTTAGG
Found at i:17254008 original size:20 final size:20
Alignment explanation
Indices: 17253983--17254031 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
17253973 CATATCATAT
17253983 ATCATACATAGATCATA-TAA
1 ATCATACATAG-TCATACTAA
* *
17254003 ATCATACTTAGTTATACTAA
1 ATCATACATAGTCATACTAA
*
17254023 AACATACAT
1 ATCATACAT
17254032 TAACACACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (20 bp):
ATCATACATAGTCATACTAA
Found at i:17265846 original size:22 final size:21
Alignment explanation
Indices: 17265821--17265864 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
17265811 TGATAAACTT
17265821 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
17265843 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
17265864 T
1 T
17265865 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:17268769 original size:40 final size:40
Alignment explanation
Indices: 17268714--17268789 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
17268704 AGATATTGAT
*
17268714 TAATTTACTAAGTATGTATGAGCAGTAGTTAACAAATTAC
1 TAATTTAATAAGTATGTATGAGCAGTAGTTAACAAATTAC
*
17268754 TAATTTAATAAGTATGTATGAGCAGTAGTTAGCAAA
1 TAATTTAATAAGTATGTATGAGCAGTAGTTAACAAA
17268790 GTACCGAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (40 bp):
TAATTTAATAAGTATGTATGAGCAGTAGTTAACAAATTAC
Found at i:17277214 original size:21 final size:22
Alignment explanation
Indices: 17277190--17277232 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
17277180 CATGAGTTTT
*
17277190 GATGTTTGATGTTAGA-AAACA
1 GATGGTTGATGTTAGATAAACA
*
17277211 GATGGTTGTTGTTAGATAAACA
1 GATGGTTGATGTTAGATAAACA
17277233 ACTTTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (22 bp):
GATGGTTGATGTTAGATAAACA
Found at i:17281176 original size:17 final size:17
Alignment explanation
Indices: 17281154--17281186 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17281144 ATTCTTTGAG
17281154 AATTGCCATAGCATTTC
1 AATTGCCATAGCATTTC
*
17281171 AATTGCCCTAGCATTT
1 AATTGCCATAGCATTT
17281187 TTCATTCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (17 bp):
AATTGCCATAGCATTTC
Found at i:17282377 original size:69 final size:69
Alignment explanation
Indices: 17282253--17282391 Score: 190
Period size: 69 Copynumber: 2.0 Consensus size: 69
17282243 TTGAATTGTC
* *
17282253 CAAAACCTTAAATTCTTTTTTTCTAACAACGAAAAGACGATAAAGAAAGGAAAAAATTAGGAAAA
1 CAAAACCCTAAATTCTTTTTTTCTAACAACGAAAAGACGATAAAGAAAGGAAAAAATCAGGAAAA
17282318 TCAT
66 TCAT
** * *
17282322 CAAAACCCTAAATT-TTTTTCTTCTAACAGTGAAGAGACGATGAGAGAAAGGAAAAAAATCAGGA
1 CAAAACCCTAAATTCTTTTT-TTCTAACAACGAAAAGACGAT-AAAGAAAGG-AAAAAATCAGGA
17282386 AAATCA
63 AAATCA
17282392 AATCTTCAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 5 0.08
69 31 0.51
70 8 0.13
71 17 0.28
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (69 bp):
CAAAACCCTAAATTCTTTTTTTCTAACAACGAAAAGACGATAAAGAAAGGAAAAAATCAGGAAAA
TCAT
Found at i:17282782 original size:21 final size:19
Alignment explanation
Indices: 17282743--17282798 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
17282733 TGATTTTAAA
17282743 AATAATATT-TATATAATTACT
1 AATAATATTAT-TAT-ATTA-T
17282764 AATAATATATATTATATTAT
1 AATAATAT-TATTATATTAT
*
17282784 AATCA-ATTATTATAT
1 AATAATATTATTATAT
17282799 ATGGGCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 8 0.25
19 2 0.06
20 5 0.16
21 12 0.38
22 4 0.12
23 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATATTATTATATTAT
Found at i:17287271 original size:17 final size:16
Alignment explanation
Indices: 17287248--17287289 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
17287238 GGCATTCCAT
17287248 TTAAAAAAATTTAAAA
1 TTAAAAAAATTTAAAA
17287264 -TATAAAAAATTTAAAA
1 TTA-AAAAAATTTAAAA
17287280 TTAATAAAAA
1 TTAA-AAAAA
17287290 CATATATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.09
16 14 0.61
17 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:17287428 original size:33 final size:33
Alignment explanation
Indices: 17287391--17287457 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
17287381 TTTTTTGTTT
17287391 TTGAAGGAATGTTGATTTATTTTATAAATTATA
1 TTGAAGGAATGTTGATTTATTTTATAAATTATA
17287424 TTGAAGGAATGTTGATTTATTTTATAAATTATA
1 TTGAAGGAATGTTGATTTATTTTATAAATTATA
17287457 T
1 T
17287458 AAAAGATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (33 bp):
TTGAAGGAATGTTGATTTATTTTATAAATTATA
Found at i:17290258 original size:61 final size:61
Alignment explanation
Indices: 17290192--17290312 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
17290182 ATACTAAACA
* * * * *
17290192 TAAAAAAATCAACAAATTTAGCCCTCTATATTTACAAATTTTTTCATTTTAGTTCTAATTT
1 TAAAAAAATCAACAAATTTAGCCCTCAAAATTTACAAAATTTGTCAATTTAGTTCTAATTT
* * *
17290253 TAAAAAATTCAATAAATTTAGCTCTCAAAATTTACAAAATTTGTCAATTTAGTTCTAATT
1 TAAAAAAATCAACAAATTTAGCCCTCAAAATTTACAAAATTTGTCAATTTAGTTCTAATT
17290313 CTAAGAGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (61 bp):
TAAAAAAATCAACAAATTTAGCCCTCAAAATTTACAAAATTTGTCAATTTAGTTCTAATTT
Found at i:17293964 original size:63 final size:63
Alignment explanation
Indices: 17293896--17294020 Score: 214
Period size: 63 Copynumber: 2.0 Consensus size: 63
17293886 CGCATCCTTT
*
17293896 GTTGTTTACTTGTTCAGTTATATATTATTCATATAATCATTTTCATAATTGCCACTGCATTTA
1 GTTGTTTACTTGTTCAGTTACATATTATTCATATAATCATTTTCATAATTGCCACTGCATTTA
* * *
17293959 GTTGTTTACTTGTTCAGTTACATATTATTCATATACTCATTTTCTTAATTGCCATTGCATTT
1 GTTGTTTACTTGTTCAGTTACATATTATTCATATAATCATTTTCATAATTGCCACTGCATTT
17294021 TTACTCTTGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (63 bp):
GTTGTTTACTTGTTCAGTTACATATTATTCATATAATCATTTTCATAATTGCCACTGCATTTA
Found at i:17307598 original size:102 final size:102
Alignment explanation
Indices: 17307419--17307762 Score: 464
Period size: 102 Copynumber: 3.4 Consensus size: 102
17307409 GTACGATGAA
* * * * *
17307419 CACGTGTGTAGAACTGTGTGAAGGCTACTACGTGTATCAATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
17307484 TAAGTGAAGGCTACAATGTGTACC-AACAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAA-AAGCTTTGGT
* *
17307521 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
17307586 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * * * *
17307623 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACG-TGATCGCGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAT-AAATGATGGTCACATGTGTAGTA
* * * *
17307686 CTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
65 CTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
*
17307723 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
17307763 ATGATAAAAG
Statistics
Matches: 219, Mismatches: 19, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
100 41 0.19
101 39 0.18
102 137 0.63
103 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:17307689 original size:50 final size:49
Alignment explanation
Indices: 17307419--17307756 Score: 318
Period size: 51 Copynumber: 6.7 Consensus size: 49
17307409 GTACGATGAA
* * * * * ** *
17307419 CACGTGTGTAGAACTGTGTGAAGGCTACTACGTGTATCAATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAA-CGTGAT
* * * * * * *
17307470 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACC-AACAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAA-AA-C-GTGAT
* * * * *
17307521 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AAACG-TGAT
* * * * * *
17307572 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAA-C-GTGAT
17307623 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACGTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAACGTGAT
* *
17307673 CGCGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAACGTGAT
17307723 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
17307757 TATCGAATGA
Statistics
Matches: 241, Mismatches: 38, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
49 1 0.00
50 90 0.37
51 142 0.59
52 7 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAACGTGAT
Found at i:17309547 original size:18 final size:18
Alignment explanation
Indices: 17309524--17309558 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17309514 AGATCCCCCT
17309524 TTTTTCCTTCCTTCATTA
1 TTTTTCCTTCCTTCATTA
17309542 TTTTTCCTTCCTTCATT
1 TTTTTCCTTCCTTCATT
17309559 CTTTCTCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.29, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTCCTTCCTTCATTA
Found at i:17312968 original size:32 final size:32
Alignment explanation
Indices: 17312930--17312995 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
17312920 TAGATATTGG
* *
17312930 TTATGTTTTAAGCTTTTTAGATATTGAATTTA
1 TTATGTTTTAAGCTTGTTAGATATTGAAATTA
*
17312962 TTATGTTTTAAGCTTGTTGGATATTGAAATTA
1 TTATGTTTTAAGCTTGTTAGATATTGAAATTA
17312994 TT
1 TT
17312996 GACAATGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (32 bp):
TTATGTTTTAAGCTTGTTAGATATTGAAATTA
Found at i:17331317 original size:21 final size:20
Alignment explanation
Indices: 17331279--17331317 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17331269 TGCTGTTATT
* *
17331279 TTTCAGAAATTATGTATTTA
1 TTTCAGAAAATATCTATTTA
17331299 TTTCATGAAAATATCTATT
1 TTTCA-GAAAATATCTATT
17331318 GTTGACTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (20 bp):
TTTCAGAAAATATCTATTTA
Found at i:17331499 original size:56 final size:52
Alignment explanation
Indices: 17331420--17331610 Score: 210
Period size: 50 Copynumber: 3.7 Consensus size: 52
17331410 GAATGAGATT
*
17331420 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTAGGACATGGCATTGGCATC--T-AGA-TATGAGAGGTC
* *
17331476 CCATGTAAGACCATGTCTAGGACATGCCGTTGGCATCTAG--ATGAGAGGTC
1 CCATGTAAGACCATGTCTAGGACATGGCATTGGCATCTAGATATGAGAGGTC
** * * **
17331526 CCCCGTAAGACCATGTCTAGGACATGGCATGGGCA-C-CGATATGAGAACTC
1 CCATGTAAGACCATGTCTAGGACATGGCATTGGCATCTAGATATGAGAGGTC
* * *
17331576 CCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CCATGTAAGACCATGTCTAGGACATGGCATTGGCA
17331611 GTACAGAAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 77 0.66
53 2 0.02
54 1 0.01
56 34 0.29
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (52 bp):
CCATGTAAGACCATGTCTAGGACATGGCATTGGCATCTAGATATGAGAGGTC
Found at i:17331609 original size:100 final size:103
Alignment explanation
Indices: 17331424--17331610 Score: 236
Period size: 100 Copynumber: 1.8 Consensus size: 103
17331414 GAGATTCCAT
* * **
17331424 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTAGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACCA
* *
17331489 TGTCTAGGACATGCCGTTGGCATCTAGATGAGAGGTCCCCC
63 TATCTAGGACATGCCATTGGCATCTAGATGAGAGGTCCCCC
*
17331530 GTAAGACCATGTCTAGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAAGACCATAT
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
* * *
17331592 CTGGGATATGGCATTGGCA
66 CTAGGACATGCCATTGGCA
17331611 GTACAGAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 39 0.55
101 2 0.03
105 1 0.01
106 29 0.41
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (103 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
CTAGGACATGCCATTGGCATCTAGATGAGAGGTCCCCC
Found at i:17340950 original size:9 final size:9
Alignment explanation
Indices: 17340930--17340987 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
17340920 TGTATGATTC
*
17340930 AATTAGGTT
1 AATTCGGTT
*
17340939 AATTCGGGT
1 AATTCGGTT
**
17340948 AATTCAATT
1 AATTCGGTT
*
17340957 AATTCGATT
1 AATTCGGTT
*
17340966 AATTCGGGT
1 AATTCGGTT
17340975 AATTCGGTT
1 AATTCGGTT
17340984 AATT
1 AATT
17340988 TTTAACCAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:17347129 original size:27 final size:27
Alignment explanation
Indices: 17347076--17347129 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
17347066 CCCCGAGGCG
17347076 GAAAATAAATTGCCAAATTCAAAAAATT
1 GAAAATAAATTG-CAAATTCAAAAAATT
17347104 GAAACATAAATTG-AAATT-AAATAAAT
1 GAAA-ATAAATTGCAAATTCAAA-AAAT
17347130 AAATTACCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 3 0.12
27 9 0.38
28 4 0.17
29 8 0.33
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (27 bp):
GAAAATAAATTGCAAATTCAAAAAATT
Found at i:17354346 original size:37 final size:37
Alignment explanation
Indices: 17354284--17354390 Score: 207
Period size: 37 Copynumber: 2.9 Consensus size: 37
17354274 TGGTTGAATA
17354284 GTAAATTTAAGA-TTTTTATTAATGTAATTGGCATAG
1 GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
17354320 GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
1 GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
17354357 GTAAATTTAAGATTTTTTATTAATGTAATTGGCA
1 GTAAATTTAAGATTTTTTATTAATGTAATTGGCA
17354391 CATGTTGAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (37 bp):
GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
Found at i:17356468 original size:20 final size:20
Alignment explanation
Indices: 17356413--17356461 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
17356403 AATTTTCGTT
* *
17356413 ATTTTTTATTAAGTTAAATTA
1 ATTTTTT-TTAAATTAAAATA
17356434 ATTTTTTTTAAATTAAAATA
1 ATTTTTTTTAAATTAAAATA
17356454 ATTTTTTT
1 ATTTTTTT
17356462 GTCATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTTTTAAATTAAAATA
Found at i:17365101 original size:15 final size:15
Alignment explanation
Indices: 17365078--17365107 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17365068 AGCACCGCAA
*
17365078 AAAAGGTCGCTAACG
1 AAAACGTCGCTAACG
17365093 AAAACGTCGCTAACG
1 AAAACGTCGCTAACG
17365108 TTTGCAGCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (15 bp):
AAAACGTCGCTAACG
Found at i:17365329 original size:42 final size:42
Alignment explanation
Indices: 17365126--17365332 Score: 175
Period size: 42 Copynumber: 4.9 Consensus size: 42
17365116 GTTTACAAAC
* * * ** * *
17365126 AAAAACGCCACTAAAGAGCATGTTCTTTAGCGATGCTTAGAA
1 AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGTA
* ** * * * *
17365168 AAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTTTTC
1 AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGTA
** * * * *
17365210 CTAAGTCCCGCTAAAGAACATGATCTTTAGTGGCG-TTTGT-
1 AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGTA
* *
17365250 GAATATGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGTA
1 AAAAAT--GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGTA
*
17365294 AAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTT
1 AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTT
17365333 TATACAAAAA
Statistics
Matches: 131, Mismatches: 30, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
40 2 0.02
41 4 0.03
42 116 0.89
43 5 0.04
44 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (42 bp):
AAAAATGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTGTA
Found at i:17365759 original size:21 final size:21
Alignment explanation
Indices: 17365715--17365765 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
17365705 TTCTTTTGAA
* *
17365715 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTACAG
*
17365736 CCTCTGCTTCCCTCGCTACCG
1 CCTCTGCTTCCCTCGCTACAG
*
17365757 CCTTTGCTT
1 CCTCTGCTT
17365766 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.45, G:0.16, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTACAG
Found at i:17371370 original size:9 final size:9
Alignment explanation
Indices: 17371358--17371633 Score: 290
Period size: 9 Copynumber: 31.9 Consensus size: 9
17371348 TATGTATTAA
*
17371358 GTAAATTAT
1 GTAAGTTAT
17371367 GTAAGTTAT
1 GTAAGTTAT
*
17371376 GTACGTGTA-
1 GTAAGT-TAT
17371385 -TAAGTTAT
1 GTAAGTTAT
17371393 GTAAGTTAT
1 GTAAGTTAT
*
17371402 GT-A-TTAA
1 GTAAGTTAT
*
17371409 GTAAGCTAT
1 GTAAGTTAT
*
17371418 GTAAGTTCT
1 GTAAGTTAT
17371427 GT-A-TTAT
1 GTAAGTTAT
17371434 GTAAGTTAT
1 GTAAGTTAT
17371443 GTAAGTTAT
1 GTAAGTTAT
** *
17371452 CAAAGTAAT
1 GTAAGTTAT
*
17371461 GTATGTTAT
1 GTAAGTTAT
17371470 GTAAGTTAT
1 GTAAGTTAT
17371479 GTAAGTTAT
1 GTAAGTTAT
*
17371488 TTAAGTTAT
1 GTAAGTTAT
*
17371497 GTAAGTTCT
1 GTAAGTTAT
17371506 GT-A-TTAT
1 GTAAGTTAT
17371513 GTAAGTTAT
1 GTAAGTTAT
17371522 GTAAGTTAT
1 GTAAGTTAT
*
17371531 GTACGTTAT
1 GTAAGTTAT
*
17371540 TTAAGTTAT
1 GTAAGTTAT
*
17371549 GTAAGTTCT
1 GTAAGTTAT
17371558 GT-A-TTAT
1 GTAAGTTAT
17371565 GTAAGTTAT
1 GTAAGTTAT
17371574 GTAAGTTAT
1 GTAAGTTAT
*
17371583 TTAAGTTA-
1 GTAAGTTAT
17371591 GTTAAGTTAT
1 G-TAAGTTAT
*
17371601 GTAAGTTCT
1 GTAAGTTAT
*
17371610 AT-A-TTAT
1 GTAAGTTAT
17371617 GTAAGTTAT
1 GTAAGTTAT
17371626 GTAAGTTA
1 GTAAGTTA
17371634 ATATGTAAGT
Statistics
Matches: 219, Mismatches: 33, Indels: 30
0.78 0.12 0.11
Matches are distributed among these distances:
7 26 0.12
8 14 0.06
9 176 0.80
10 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17371515 original size:52 final size:52
Alignment explanation
Indices: 17371350--17371633 Score: 360
Period size: 52 Copynumber: 5.5 Consensus size: 52
17371340 TATATATTTA
* * * *
17371350 TGTATTAAGTAAATTATGTAAGTTATGTACGTGTA--TAAGTTATGTAAGTTA
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGT-TATTTAAGTTATGTAAGTTC
* * * * *
17371401 TGTATTAAGTAAGCTATGTAAGTTCTGT-A-TTATGTAAGTTATGTAAGTTA
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTC
** * *
17371451 TCAAAGTAATGTATGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTC
1 T-GTA-TTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTC
*
17371505 TGTATTATGTAAGTTATGTAAGTTATGTACGTTATTTAAGTTATGTAAGTTC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTC
* *
17371557 TGTATTATGTAAGTTATGTAAGTTATTTAAGTTAGTTAAGTTATGTAAGTTC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTC
*
17371609 TATATTATGTAAGTTATGTAAGTTA
1 TGTATTATGTAAGTTATGTAAGTTA
17371634 ATATGTAAGT
Statistics
Matches: 205, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
48 2 0.01
49 1 0.00
50 17 0.08
51 26 0.13
52 137 0.67
53 2 0.01
54 20 0.10
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (52 bp):
TGTATTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTC
Found at i:17371527 original size:43 final size:45
Alignment explanation
Indices: 17371358--17371633 Score: 290
Period size: 43 Copynumber: 6.4 Consensus size: 45
17371348 TATGTATTAA
* *
17371358 GTAAATTATGTAAGTTATGTACGTGTA--TAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGT-TATGTAAGTTATGTAAGTTAT
* * *
17371402 GT-A-TTAAGTAAGCTATGTAAGTTCTGT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
** * *
17371443 GTAAGTTATCAAAGTAATGTATGTTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* *
17371488 TTAAGTTATGTAAGTTCTGT-A-TTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* * *
17371531 GTACGTTATTTAAGTTATGTAAGTTCTGT-A-TTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
* * *
17371574 GTAAGTTATTTAAGTTA-GTTAAGTTATGTAAGTTCTAT-A-TTAT
1 GTAAGTTATGTAAGTTATG-TAAGTTATGTAAGTTATGTAAGTTAT
17371617 GTAAGTTATGTAAGTTA
1 GTAAGTTATGTAAGTTA
17371634 ATATGTAAGT
Statistics
Matches: 194, Mismatches: 27, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
41 16 0.08
42 19 0.10
43 115 0.59
44 7 0.04
45 37 0.19
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (45 bp):
GTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTAT
Found at i:17371640 original size:12 final size:12
Alignment explanation
Indices: 17371623--17371655 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
17371613 TTATGTAAGT
17371623 TATGTAAGTTAA
1 TATGTAAGTTAA
17371635 TATGTAAGTTAA
1 TATGTAAGTTAA
17371647 TATGTAAGT
1 TATGTAAGT
17371656 AATGTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (12 bp):
TATGTAAGTTAA
Found at i:17373975 original size:114 final size:114
Alignment explanation
Indices: 17373774--17374064 Score: 295
Period size: 114 Copynumber: 2.6 Consensus size: 114
17373764 AGATAAATAT
* * * * * *
17373774 GACACCGTCTAGCAAACATTTAAAACATAATTGCGGTGTTTACCAAAAAAACGCCACTAAAAA-T
1 GACAGCGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTATC-AAAAAACGCCACTAAAAACT
** * * *
17373838 ACCTATTGTGGCGTTTAACG-AAAAATGCCACTAAAAACGCAAACAAAAAC
65 AAATATTGCGGCGTATAACGAAAAAACGCCACT-AAAACGCAAACAAAAAC
* **
17373888 GACTGCGTTTAGCGCAGACTTAAAACATAATTGCGGCGTTTATCATAAAAACGCCAC-AAAAACC
1 GACAGCGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTATCA-AAAAACGCCACTAAAAA-C
* ***
17373952 TAAATTTTGCGGC-TCATAA-GAAAAAACGCCACTAAAACGCAATTTAAAAC
64 TAAATATTGCGGCGT-ATAACGAAAAAACGCCACTAAAACGCAAACAAAAAC
* * * * *
17374002 GACAGTGTTTAGCAAAGAGTTAAAACATAATTGTGGCGTTTATGAAGAAACGCCACTAAAAAC
1 GACAGCGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTATCAAAAAACGCCACTAAAAAC
17374065 AGAAATTAAA
Statistics
Matches: 145, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
113 17 0.12
114 105 0.72
115 23 0.16
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (114 bp):
GACAGCGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTATCAAAAAACGCCACTAAAAACTA
AATATTGCGGCGTATAACGAAAAAACGCCACTAAAACGCAAACAAAAAC
Found at i:17374388 original size:49 final size:49
Alignment explanation
Indices: 17374327--17374491 Score: 122
Period size: 49 Copynumber: 3.3 Consensus size: 49
17374317 AATATAAAAT
17374327 TTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATGCTCATA
1 TTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATGCTCATA
* * * * * * *
17374376 TTAATCCCTAAACTC-TAAGCTACACC-C-TAAACCTTAAACCCTAAAAT-ATAAAA
1 TTAAACCCTAAAC-CAT-A--TAC-CCTCTTAACCCATATACCCT---ATGCTCATA
* * *
17374429 TTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATGCCCGTA
1 -TTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATGCTCATA
*
17374479 TTAATCCCTAAAC
1 TTAAACCCTAAAC
17374492 TCTAAGCTAC
Statistics
Matches: 85, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
49 27 0.32
50 5 0.06
51 15 0.18
52 16 0.19
53 7 0.08
54 15 0.18
ACGTcount: A:0.37, C:0.33, G:0.03, T:0.27
Consensus pattern (49 bp):
TTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATGCTCATA
Found at i:17374509 original size:103 final size:103
Alignment explanation
Indices: 17374305--17374517 Score: 365
Period size: 103 Copynumber: 2.1 Consensus size: 103
17374295 TTACCATAAT
17374305 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATG
1 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATG
*
17374370 CTCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
66 CCCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
* *
17374408 CTTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATG
* *
17374473 CCCGTATTAATCCCTAAACTCTAAGCTACTA-GCTAAAC
66 CCCATATTAATCCCTAAACTCTAAGCTAC-ACCCTAAAC
17374511 CCTAAAC
1 CCTAAAC
17374518 AATAAACAAT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 102 0.99
104 1 0.01
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.26
Consensus pattern (103 bp):
CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATG
CCCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
Found at i:17374515 original size:7 final size:7
Alignment explanation
Indices: 17374505--17374774 Score: 111
Period size: 7 Copynumber: 38.3 Consensus size: 7
17374495 AAGCTACTAG
17374505 CTAAACC
1 CTAAACC
*
17374512 CTAAACA
1 CTAAACC
* *
17374519 ATAAACA
1 CTAAACC
* *
17374526 ATAAACA
1 CTAAACC
17374533 CTAAACC
1 CTAAACC
*
17374540 ATAAACC
1 CTAAACC
*
17374547 C-ACACC
1 CTAAACC
* *
17374553 CTACAGC
1 CTAAACC
17374560 CTAAACC
1 CTAAACC
* *
17374567 ATAAACA
1 CTAAACC
*
17374574 CTAAATC
1 CTAAACC
* *
17374581 ATAAACTG
1 CTAAAC-C
* *
17374589 C-ATACT
1 CTAAACC
*
17374595 TTAAACC
1 CTAAACC
*
17374602 ATAAA-C
1 CTAAACC
*
17374608 CTACACC
1 CTAAACC
17374615 CTAAACC
1 CTAAACC
* *
17374622 GTAAACA
1 CTAAACC
*
17374629 CTAAACT
1 CTAAACC
*
17374636 ATAAA-C
1 CTAAACC
*
17374642 CAATAACC
1 CTA-AACC
17374650 CTTAAACC
1 C-TAAACC
*
17374658 CT-AAGC
1 CTAAACC
*
17374664 CGATAA-C
1 CTA-AACC
17374671 CTAAACCC
1 CTAAA-CC
17374679 CTAAACC
1 CTAAACC
*
17374686 TTAAACC
1 CTAAACC
17374693 CTAAACC
1 CTAAACC
*
17374700 CTAAATC
1 CTAAACC
17374707 CTAAACC
1 CTAAACC
*
17374714 ATAAACC
1 CTAAACC
* *
17374721 ATAAATC
1 CTAAACC
*
17374728 ATAAACC
1 CTAAACC
*
17374735 TTAAACC
1 CTAAACC
*
17374742 TCTAAAGC
1 -CTAAACC
*
17374750 ATAAACC
1 CTAAACC
17374757 CTTAAATCC
1 C-TAAA-CC
17374766 CTAAACC
1 CTAAACC
17374773 CT
1 CT
17374775 TAAATCATAA
Statistics
Matches: 196, Mismatches: 53, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
6 16 0.08
7 148 0.76
8 28 0.14
9 4 0.02
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:17374545 original size:103 final size:103
Alignment explanation
Indices: 17374305--17374546 Score: 328
Period size: 103 Copynumber: 2.3 Consensus size: 103
17374295 TTACCATAAT
** *
17374305 CCTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATG
1 CCTAAACAATAAAATATAAAATCTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATG
*
17374370 CTCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
66 CCCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
* ** * *
17374408 CTTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATG
1 CCTAAACAATAAAATATAAAATCTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATG
* *
17374473 CCCGTATTAATCCCTAAACTCTAAGCTACTA-GCTAAAC
66 CCCATATTAATCCCTAAACTCTAAGCTAC-ACCCTAAAC
*
17374511 CCTAAACAATAAACA-ATAAACA-CTAAACCATAAACC
1 CCTAAACAATAAA-ATATAAA-ATCTAAACCCTAAACC
17374547 CACACCCTAC
Statistics
Matches: 126, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
103 123 0.98
104 3 0.02
ACGTcount: A:0.42, C:0.31, G:0.03, T:0.25
Consensus pattern (103 bp):
CCTAAACAATAAAATATAAAATCTAAACCCTAAACCATATACCCTCTTAACCCATATACCCTATG
CCCATATTAATCCCTAAACTCTAAGCTACACCCTAAAC
Found at i:17374555 original size:41 final size:41
Alignment explanation
Indices: 17374509--17374586 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
17374499 TACTAGCTAA
17374509 ACCCTA-AACAATAAACAATAAACACTAAACCATAAACCCAC
1 ACCCTACAAC-ATAAACAATAAACACTAAACCATAAACCCAC
* * * *
17374550 ACCCTACAGCCTAAACCATAAACACTAAATCATAAAC
1 ACCCTACAACATAAACAATAAACACTAAACCATAAAC
17374587 TGCATACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.94
42 2 0.06
ACGTcount: A:0.53, C:0.32, G:0.01, T:0.14
Consensus pattern (41 bp):
ACCCTACAACATAAACAATAAACACTAAACCATAAACCCAC
Found at i:17374586 original size:21 final size:21
Alignment explanation
Indices: 17374506--17374786 Score: 157
Period size: 21 Copynumber: 13.2 Consensus size: 21
17374496 AGCTACTAGC
* *
17374506 TAAACCCTAAACAATAAACAA
1 TAAACCCTAAACCATAAACCA
*
17374527 TAAACACTAAACCATAAACC-
1 TAAACCCTAAACCATAAACCA
* * *
17374547 CACACCCTACAGCC-TAAACCA
1 TAAACCCTA-AACCATAAACCA
* *
17374568 TAAACACTAAATCATAAACTGCA
1 TAAACCCTAAACCATAAAC--CA
**
17374591 T--ACTTTAAACCATAAACC-
1 TAAACCCTAAACCATAAACCA
* *
17374609 TACACCCTAAACCGTAAA-CA
1 TAAACCCTAAACCATAAACCA
** * *
17374629 CTAAACTATAAACCAATAACCCT
1 -TAAACCCTAAACC-ATAAACCA
*
17374652 TAAACCCTAAGCCGAT-AACC-
1 TAAACCCTAAACC-ATAAACCA
* *
17374672 TAAACCCCTAAACCTTAAACCC
1 TAAA-CCCTAAACCATAAACCA
17374694 TAAACCCTAAATCC-TAAACCA
1 TAAACCCTAAA-CCATAAACCA
* * *
17374715 TAAACCATAAATCATAAACCT
1 TAAACCCTAAACCATAAACCA
* *
17374736 TAAACCTCTAAAGCATAAACCCT
1 TAAACC-CTAAACCATAAA-CCA
* *
17374759 TAAATCCCTAAACCCTTAAATCA
1 TAAA-CCCTAAA-CCATAAACCA
17374782 TAAAC
1 TAAAC
17374787 TCTTGATTAA
Statistics
Matches: 199, Mismatches: 41, Indels: 39
0.71 0.15 0.14
Matches are distributed among these distances:
18 1 0.01
19 2 0.01
20 32 0.16
21 104 0.52
22 32 0.16
23 21 0.11
24 7 0.04
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.19
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACCA
Found at i:17374834 original size:22 final size:21
Alignment explanation
Indices: 17374808--17374864 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
17374798 CCCTAAACTA
*
17374808 TAAGCCACTAACCCATAGACCC
1 TAAGCC-CTAACCCATAAACCC
*
17374830 TAAGCCCATAACCCCTAAACCC
1 TAAGCCC-TAACCCATAAACCC
17374852 TAAGCTCCTAACC
1 TAAGC-CCTAACC
17374865 TTACACACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.35, C:0.42, G:0.07, T:0.16
Consensus pattern (21 bp):
TAAGCCCTAACCCATAAACCC
Found at i:17375292 original size:114 final size:113
Alignment explanation
Indices: 17375070--17375528 Score: 632
Period size: 114 Copynumber: 4.0 Consensus size: 113
17375060 ACAACTATTT
* * *
17375070 GAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAGGCTCA-AAAACCGGCATCGT
1 GAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAAT-CCCCAAAGCTCAGAAAA-CGGCGTCGT
* * * * *
17375134 TGGGCTTAGATTTTTTTGCGGTGCTTTCTCAAAAACGCCGCTAAAAGCCCC
64 CGGTCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCT-AAAGCCCC
* * * *
17375185 GAGCATTAGCGGCGCTTTCTTAAAAATGCAGCTAAATCCCCAAAGCTCAGAAAACGGCGCCGTCG
1 GAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTCG
* *
17375250 GTCTTAGGTTTTTTTGCAGCGCTTTCTCAAAAACGCCGCTAAAGCCCC
66 GTCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
* *
17375298 GAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACAGCGTCGTC
1 GAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAATCC-CCAAAGCTCAGAAAACGGCGTCGTC
*
17375363 GGTCTTAGGTTTATTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
65 GGTCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
* * *
17375412 GAGCATTAGTGGCGCTCTCTGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTC
1 GAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAATCCCC-AAAGCTCAGAAAACGGCGTCGTC
* * * * *
17375477 AGTCTTAGGTTTTTTTTACGGCGCTTCCTAAAAAATGCCGCTAAATCCCC
65 GGTCTTAGG-TTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
17375527 GA
1 GA
17375529 AAGCTCGAAA
Statistics
Matches: 310, Mismatches: 30, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
113 45 0.15
114 189 0.61
115 76 0.25
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (113 bp):
GAGCATTAGCGGCGCTCTCTTAAAAACGCCGCTAAATCCCCAAAGCTCAGAAAACGGCGTCGTCG
GTCTTAGGTTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
Found at i:17375575 original size:73 final size:74
Alignment explanation
Indices: 17375433--17375594 Score: 211
Period size: 74 Copynumber: 2.2 Consensus size: 74
17375423 GCGCTCTCTG
* *
17375433 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTCAGTCTTAGGTTTTTTTTACGG
1 AAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTCAGGCTTAGGTTTTTTTTACGG
17375498 CGCTTCCTA
66 CGCTTCCTA
* * ** *
17375507 AAAAATGCCGCTAAATCCCCGAAAGCTC-GAAAAATGGCGTCGTTGGGCTTAGG-TTTTTTTGCG
1 AAAAATGCCGCTAAATCCCCGAAAGCTCAG-AAAACGACGTCGTCAGGCTTAGGTTTTTTTTACG
* *
17375570 GCGCTTTCTC
65 GCGCTTCCTA
*
17375580 AAAAATGTCGCTAAA
1 AAAAATGCCGCTAAA
17375595 GCCCTGAGCA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
73 32 0.42
74 45 0.58
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (74 bp):
AAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTCAGGCTTAGGTTTTTTTTACGG
CGCTTCCTA
Found at i:17375633 original size:188 final size:188
Alignment explanation
Indices: 17375319--17375678 Score: 535
Period size: 188 Copynumber: 1.9 Consensus size: 188
17375309 GCGCTCTCTT
* *
17375319 AAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACAGCGTCGTCGGTCTTAGGTTTATTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTCGGGCTTAGGTTTATTTGCGGC
17375384 GCTTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGCTCTCTGAAAAACGCCGCTAAAT
66 GCTTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGCTCTCTGAAAAACGCCGCTAAAT
*
17375449 CCCCGAAAGCTCAGAAAACGACGTCGTCAGTCTTAGGTTTTTTTTACGGCGCTTCCTA
131 CCCCGAAAGCTCAGAAAACGACATCGTCAGTCTTAGGTTTTTTTTACGGCGCTTCCTA
* * *
17375507 AAAAATGCCGCTAAATCCCCGAAAGCTC-GAAAA-ATGGCGTCGTTGGGCTTAGGTTTTTTTGCG
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACA--GCGTCGTCGGGCTTAGGTTTATTTGCG
* * * * * *
17375570 GCGCTTTCTCAAAAATGTCGCTAAAGCCCTGAGCATTAGTGGCGCTCTCTTAAAAATGCCGCTAA
64 GCGCTTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGCTCTCTGAAAAACGCCGCTAA
* * * **
17375635 ATCCCTGAAAGCTCCGAAAACGGCATCGTTGGTCTTAGGTTTTT
129 ATCCCCGAAAGCTCAGAAAACGACATCGTCAGTCTTAGGTTTTT
17375679 GCGGCGCGTT
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
186 1 0.01
187 5 0.03
188 147 0.96
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (188 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTCGGGCTTAGGTTTATTTGCGGC
GCTTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGTGGCGCTCTCTGAAAAACGCCGCTAAAT
CCCCGAAAGCTCAGAAAACGACATCGTCAGTCTTAGGTTTTTTTTACGGCGCTTCCTA
Found at i:17389938 original size:13 final size:13
Alignment explanation
Indices: 17389920--17389945 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17389910 ATTTTTCAAG
17389920 TCATTTTCATTTT
1 TCATTTTCATTTT
17389933 TCATTTTCATTTT
1 TCATTTTCATTTT
17389946 GGAGAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:17389987 original size:50 final size:52
Alignment explanation
Indices: 17389929--17390032 Score: 158
Period size: 50 Copynumber: 2.0 Consensus size: 52
17389919 GTCATTTTCA
*
17389929 TTTTTCATTTTCATTTTGGAGAAAACAACATTCATTT-CAAATGATT-CCAT
1 TTTTTCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCCAT
* * *
17389979 TTTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCCAT
1 TTTTTCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCCAT
17390031 TT
1 TT
17390033 CTCTATTTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 34 0.71
51 8 0.17
52 6 0.12
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (52 bp):
TTTTTCATTTTCATTTTGGAGAAAACAACAATCATTTCCAAATGATTCCCAT
Found at i:17391780 original size:17 final size:18
Alignment explanation
Indices: 17391758--17391792 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17391748 CTCAAACACA
17391758 TACATC-AACCAATTCAT
1 TACATCAAACCAATTCAT
*
17391775 TACATCAAACCGATTCAT
1 TACATCAAACCAATTCAT
17391793 ATATTAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (18 bp):
TACATCAAACCAATTCAT
Found at i:17397768 original size:9 final size:9
Alignment explanation
Indices: 17397754--17398264 Score: 436
Period size: 9 Copynumber: 58.2 Consensus size: 9
17397744 TTTTTATGTA
17397754 TTATGTAAG
1 TTATGTAAG
17397763 TTATGTACTAAG
1 TTATG---TAAG
17397775 TTATGT-A-
1 TTATGTAAG
17397782 TTATGTAAG
1 TTATGTAAG
17397791 TTATGTAAG
1 TTATGTAAG
*
17397800 TTGTGT-A-
1 TTATGTAAG
*
17397807 TTATGTGAG
1 TTATGTAAG
*
17397816 TTATGTAGG
1 TTATGTAAG
*
17397825 TTGTGT-A-
1 TTATGTAAG
17397832 TTATGTAAG
1 TTATGTAAG
*
17397841 TTA-GGAAGG
1 TTATGTAA-G
*
17397850 TTATG-CA-
1 TTATGTAAG
17397857 TTATGTAAG
1 TTATGTAAG
*
17397866 TTATTTAAG
1 TTATGTAAG
17397875 TTATGTAAG
1 TTATGTAAG
17397884 TTATGTAAG
1 TTATGTAAG
* *
17397893 TTATTTAAT
1 TTATGTAAG
17397902 TTATGTAAG
1 TTATGTAAG
17397911 TTATGTAAG
1 TTATGTAAG
17397920 TTATGTAAG
1 TTATGTAAG
* * *
17397929 TTGTTTAAT
1 TTATGTAAG
17397938 TTATGTAAG
1 TTATGTAAG
17397947 TTATGTAAG
1 TTATGTAAG
* *
17397956 TTATTTAAT
1 TTATGTAAG
17397965 TTATGTAAG
1 TTATGTAAG
*
17397974 TTATTTAAG
1 TTATGTAAG
*
17397983 TTATGTAGG
1 TTATGTAAG
*
17397992 CTATGT-A-
1 TTATGTAAG
*
17397999 TTATGTAAA
1 TTATGTAAG
*
17398008 TAATGTAAG
1 TTATGTAAG
*
17398017 TTA-GGAAGG
1 TTATGTAA-G
17398026 TTATGT-A-
1 TTATGTAAG
17398033 TTATGTAAG
1 TTATGTAAG
*
17398042 TTATTTAAG
1 TTATGTAAG
17398051 TTATGTAAG
1 TTATGTAAG
* *
17398060 TTATTTAAT
1 TTATGTAAG
*
17398069 TTATATAAG
1 TTATGTAAG
17398078 TTATGTAAG
1 TTATGTAAG
17398087 TTATGTAAG
1 TTATGTAAG
* *
17398096 TTATTTAAT
1 TTATGTAAG
17398105 TTATGTAAG
1 TTATGTAAG
*
17398114 TTAT-TTAG
1 TTATGTAAG
*** *
17398122 --AAAAAAA
1 TTATGTAAG
17398129 TTATGTAAG
1 TTATGTAAG
17398138 TTATGTACTAAG
1 TTATG---TAAG
17398150 TTATGT-A-
1 TTATGTAAG
* *
17398157 TTATTTAAA
1 TTATGTAAG
*
17398166 TAATGTAAG
1 TTATGTAAG
*
17398175 TTA-GGAAGG
1 TTATGTAA-G
17398184 TTATGT-A-
1 TTATGTAAG
17398191 TTATGTAAG
1 TTATGTAAG
*
17398200 TTATTTAAG
1 TTATGTAAG
17398209 TTATGTAAG
1 TTATGTAAG
* *
17398218 TTATTTAAT
1 TTATGTAAG
17398227 TTATGTAAG
1 TTATGTAAG
17398236 TTATGTAAG
1 TTATGTAAG
17398245 TTATGTAAG
1 TTATGTAAG
*
17398254 TTATGCAAG
1 TTATGTAAG
17398263 TT
1 TT
17398265 TCTATATATG
Statistics
Matches: 400, Mismatches: 71, Indels: 62
0.75 0.13 0.12
Matches are distributed among these distances:
6 1 0.00
7 44 0.11
8 23 0.06
9 311 0.78
10 3 0.01
12 18 0.05
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:17398052 original size:158 final size:156
Alignment explanation
Indices: 17397875--17398264 Score: 541
Period size: 158 Copynumber: 2.5 Consensus size: 156
17397865 GTTATTTAAG
* * * * * * * *
17397875 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTTGTTTAATTT
1 TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTT
** * * *
17397940 ATGTAAGTTATGTAAGTTATTTA-ATTTATGTAAGTTATTTAAGTTATG-TAGGCTATGTATTAT
66 ATGTAAGTTATGTAAGTTATTTAGA---A-AAAAATTATGTAAGTTATGATAAGCTATGTATTAT
17398003 GTAAATAATGTAAGTTAGGAAGGTTATGTA
127 GTAAATAATGTAAGTTAGGAAGGTTATGTA
*
17398033 TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATATAAGTTATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTT
* * * *
17398098 ATTTAATTTATGTAAGTTATTTAGAAAAAAATTATGTAAGTTATGTACTAAGTTATGTATTATTT
66 ATGTAAGTTATGTAAGTTATTTAGAAAAAAATTATGTAAGTTATG-A-TAAGCTATGTATTATGT
17398163 AAATAATGTAAGTTAGGAAGGTTATGTA
129 AAATAATGTAAGTTAGGAAGGTTATGTA
17398191 TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTT
*
17398256 ATGCAAGTT
66 ATGTAAGTT
17398265 TCTATATATG
Statistics
Matches: 206, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
155 15 0.07
156 1 0.00
158 189 0.92
159 1 0.00
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (156 bp):
TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTT
ATGTAAGTTATGTAAGTTATTTAGAAAAAAATTATGTAAGTTATGATAAGCTATGTATTATGTAA
ATAATGTAAGTTAGGAAGGTTATGTA
Found at i:17398279 original size:16 final size:16
Alignment explanation
Indices: 17398255--17398318 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
17398245 TTATGTAAGT
* *
17398255 TATGCAAGTTTCTATA
1 TATGTAAGTTTATATA
17398271 TATGTAAG-TTATATA
1 TATGTAAGTTTATATA
* *
17398286 T-TGTATG-TTATGTA
1 TATGTAAGTTTATATA
17398300 TTATGTAAGTTTATATA
1 -TATGTAAGTTTATATA
17398317 TA
1 TA
17398319 AGTTATGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 11 0.28
15 8 0.21
16 14 0.36
17 6 0.15
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (16 bp):
TATGTAAGTTTATATA
Found at i:17398295 original size:14 final size:14
Alignment explanation
Indices: 17398267--17398329 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
17398257 TGCAAGTTTC
17398267 TATATA-TGTAAGT
1 TATATATTGTAAGT
*
17398280 TATATATTGTATGT
1 TATATATTGTAAGT
*
17398294 TATGTATTATGTAAGT
1 TATATA-T-TGTAAGT
*
17398310 T-TATA-TATAAGT
1 TATATATTGTAAGT
17398322 TATGATAT
1 TAT-ATAT
17398330 ATATTATTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 7 0.18
13 7 0.18
14 14 0.36
15 4 0.10
16 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (14 bp):
TATATATTGTAAGT
Found at i:17398335 original size:33 final size:30
Alignment explanation
Indices: 17398267--17398336 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 30
17398257 TGCAAGTTTC
* *
17398267 TATA-TATGTAAGTTATATATTGTATGTTA
1 TATATTATGTAAGTTATATATAGTATGATA
*
17398296 TGTATTATGTAAGTTTATATATAAGTTATGATA
1 TATATTATGTAAG-TTATATAT-AG-TATGATA
17398329 TATATTAT
1 TATATTAT
17398337 TGATAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 8 0.24
31 8 0.24
32 1 0.03
33 13 0.39
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (30 bp):
TATATTATGTAAGTTATATATAGTATGATA
Found at i:17398409 original size:17 final size:18
Alignment explanation
Indices: 17398377--17398410 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17398367 TGATTGATAA
17398377 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
17398395 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
17398411 TATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:17398425 original size:15 final size:15
Alignment explanation
Indices: 17398385--17398427 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
17398375 AAATTTTGAA
* *
17398385 AAAAATATAGATTTT
1 AAAAATATATATATT
17398400 AAAAATATATATATT
1 AAAAATATATATATT
*
17398415 AAAAATGTATATA
1 AAAAATATATATA
17398428 AATATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
AAAAATATATATATT
Found at i:17401426 original size:39 final size:40
Alignment explanation
Indices: 17401343--17401428 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 40
17401333 GCCATATTCA
* * * * *
17401343 TTAAACCCTGAATCATAGAACATATATAAACCCTAAATCC
1 TTAAACCTTAAATCATAAAACATATATAAAACATAAATCC
*
17401383 -TAAACCTTAAATCATAAAACATATATAAAATATAAA-CC
1 TTAAACCTTAAATCATAAAACATATATAAAACATAAATCC
17401421 TTAAACCT
1 TTAAACCT
17401429 CAACCCTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 2 0.05
39 37 0.95
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (40 bp):
TTAAACCTTAAATCATAAAACATATATAAAACATAAATCC
Found at i:17401782 original size:116 final size:114
Alignment explanation
Indices: 17401519--17401839 Score: 298
Period size: 116 Copynumber: 2.8 Consensus size: 114
17401509 AAAAAATTGT
*
17401519 TTTGCTTAACAA--TTTGCGGCGCTTTTAA-AA-AAGCGCCACTAATGCTTGAATTTTGCGGCGT
1 TTTGCTTAAAAATTTTTGCGGCGC--TTAACAAGAAGCGCCACTAATGCTTGAATTTTGCGGCGT
* * * *
17401580 TTCTACAAAGCACCACTAATTTCTCTAAACCTCCACAAATAAACAACGCCG
64 TTTTACAAAGCACCACTAATTACTCTAAACCTCAACAAAAAAACAACGCCG
* * * * *
17401631 TTTGCTTAAATATTTTTGCGGTGCTTAACAGGAAGCGCCGCTAATGCTTGAATTCTGCGGCGTTT
1 TTTGCTTAAAAATTTTTGCGGCGCTTAACAAGAAGCGCCACTAATGCTTGAATTTTGCGGCGTTT
* * * * **
17401696 TTA-AAGTTGCGCCGCTAATGTAC-CTAAACCTTAACAAAAAAAACATTGCCG
66 TTACAA--AGCACCACTAAT-TACTCTAAACCTCAAC-AAAAAAACAACGCCG
* ** **
17401747 TTTGCTTAAAAATTTTTGCGGCGC-TACCATAGAAGCGCCACTAATTATTGAATTTTATGGCGTT
1 TTTGCTTAAAAATTTTTGCGGCGCTTAACA-AGAAGCGCCACTAATGCTTGAATTTTGCGGCGTT
* *
17401811 TTTAGCAGAGCGCCACTAA-TATCTCTAAA
65 TTTA-CAAAGCACCACTAATTA-CTCTAAA
17401840 TCTGAAAAAG
Statistics
Matches: 167, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
112 14 0.08
113 3 0.02
114 44 0.26
115 24 0.14
116 81 0.49
118 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (114 bp):
TTTGCTTAAAAATTTTTGCGGCGCTTAACAAGAAGCGCCACTAATGCTTGAATTTTGCGGCGTTT
TTACAAAGCACCACTAATTACTCTAAACCTCAACAAAAAAACAACGCCG
Found at i:17413644 original size:11 final size:12
Alignment explanation
Indices: 17413629--17413659 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
17413619 TAAATGATAT
17413629 TTTATTATTTTA
1 TTTATTATTTTA
17413641 -TTATTATTTTA
1 TTTATTATTTTA
17413652 TTTATTAT
1 TTTATTAT
17413660 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:17417793 original size:41 final size:41
Alignment explanation
Indices: 17417737--17417840 Score: 124
Period size: 41 Copynumber: 2.5 Consensus size: 41
17417727 TGATTCGGTA
* *
17417737 CACCGGCTTTTAGCCTGCTAGACT-TATAGTCCG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGA-TGTATAGTCCGAATAAT-T-T
*
17417778 CACCGGCATTAAGCCTGCTAGATGTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGATGTATAGTCCGAATAATTT
*
17417819 CACCGGCATCAAGCCTGCTAGA
1 CACCGGCATTAAGCCTGCTAGA
17417841 AATAAAGTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
40 1 0.02
41 50 0.89
42 2 0.04
43 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGATGTATAGTCCGAATAATTT
Found at i:17417850 original size:41 final size:41
Alignment explanation
Indices: 17417777--17417862 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
17417767 CCGAAATGTA
* ** *
17417777 TCACCGGCATTAAGCCTGCTAGATGTATAGTCTGAATAATT
1 TCACCGGCATCAAGCCTGCTAGAAATAAAGTCTGAATAATT
*
17417818 TCACCGGCATCAAGCCTGCTAGAAATAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGAAATAAAGTCTGAATAATT
17417859 TCAC
1 TCAC
17417863 TGACAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTGCTAGAAATAAAGTCTGAATAATT
Found at i:17420426 original size:15 final size:15
Alignment explanation
Indices: 17420406--17420437 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17420396 CATTTCACTA
*
17420406 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
17420421 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
17420436 TT
1 TT
17420438 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:17422154 original size:37 final size:33
Alignment explanation
Indices: 17422067--17422156 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 33
17422057 TTTTAATACT
17422067 TTAATATTAAATTTAATTTAATACTTATATTAC
1 TTAATATTAAATTTAATTTAATACTTATATTAC
* **
17422100 -TAGTATTTTA-TTAATTTAATA-TTAAAATGATTATC
1 TTAATATTAAATTTAATTTAATACTT---AT-ATTA-C
17422135 TTAATATTAAATTTAATTTAAT
1 TTAATATTAAATTTAATTTAAT
17422157 GTTTATCTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
30 2 0.05
31 11 0.25
32 7 0.16
33 2 0.05
34 4 0.09
35 1 0.02
36 7 0.16
37 10 0.23
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (33 bp):
TTAATATTAAATTTAATTTAATACTTATATTAC
Found at i:17423780 original size:50 final size:50
Alignment explanation
Indices: 17423638--17423832 Score: 158
Period size: 50 Copynumber: 3.9 Consensus size: 50
17423628 GACAATAACA
* * ** * * * *
17423638 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
* * * * * * * * **
17423687 TGCAAATGTCGTATCCCAGATATGGTCTTACATGAGAGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
* * * * * *
17423737 TGCCTATGCCATGTCGCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
*
17423787 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
17423833 ACCTCAATAA
Statistics
Matches: 112, Mismatches: 33, Indels: 1
0.77 0.23 0.01
Matches are distributed among these distances:
49 35 0.31
50 77 0.69
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
Found at i:17426759 original size:23 final size:24
Alignment explanation
Indices: 17426729--17426786 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
17426719 TGTCACAAGT
* *
17426729 GAATTAATTCACAAACGA-GTTTA
1 GAATTAATTCAAAAAAGAGGTTTA
*
17426752 GAATTAATTCAAAAAATAGGTTTA
1 GAATTAATTCAAAAAAGAGGTTTA
17426776 GAATTAATTCA
1 GAATTAATTCA
17426787 TCTTGGGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.33
Consensus pattern (24 bp):
GAATTAATTCAAAAAAGAGGTTTA
Found at i:17428650 original size:31 final size:32
Alignment explanation
Indices: 17428614--17428679 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
17428604 TTTTATAGCT
* * *
17428614 AAATTTGGCCATCAATCTTT-TAAAAAGAGTC
1 AAATTTGACCATCAACCTTTCGAAAAAGAGTC
**
17428645 AAATTTGACCATTGACCTTTCGAAAAAGAGTC
1 AAATTTGACCATCAACCTTTCGAAAAAGAGTC
17428677 AAA
1 AAA
17428680 ATGAATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (32 bp):
AAATTTGACCATCAACCTTTCGAAAAAGAGTC
Found at i:17435444 original size:67 final size:67
Alignment explanation
Indices: 17435313--17435440 Score: 154
Period size: 67 Copynumber: 1.9 Consensus size: 67
17435303 GCGGGCTCCT
* ** * *
17435313 TGTTTATTGTCCTAATGGAATCTGTATGTTGCCATAGCCAGGCTATGGTCTTACACAATTAACCC
1 TGTTTATTGTCCTAATCGAATCCATATGTTGCCATAGCCAGGCTATGGCCGTACACAATTAACCC
17435378 TA
66 TA
* *
17435380 TGTTTATTGTCCTAA-CGAACTCCATATTTTGCCATAGTC-GAGCTATGGCCGTACAC-ATTAA
1 TGTTTATTGTCCTAATCGAA-TCCATATGTTGCCATAGCCAG-GCTATGGCCGTACACAATTAA
17435441 ACCCCTTTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
66 9 0.17
67 43 0.83
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (67 bp):
TGTTTATTGTCCTAATCGAATCCATATGTTGCCATAGCCAGGCTATGGCCGTACACAATTAACCC
TA
Found at i:17437758 original size:31 final size:31
Alignment explanation
Indices: 17437717--17437775 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
17437707 CTGAAGGCAG
*
17437717 AAAATTTATTTTATTATTATTTTATGGTCAA
1 AAAAATTATTTTATTATTATTTTATGGTCAA
*
17437748 AAAAATTATTTTATTTTTATTTTATGGT
1 AAAAATTATTTTATTATTATTTTATGGT
17437776 TTACGGCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.58
Consensus pattern (31 bp):
AAAAATTATTTTATTATTATTTTATGGTCAA
Found at i:17438479 original size:25 final size:25
Alignment explanation
Indices: 17438451--17438523 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
17438441 TTATCGATAC
*
17438451 TCAGTTCACATGAGCTTACCGTTAT
1 TCAGTTCAGATGAGCTTACCGTTAT
* * *
17438476 TCAGCTCGGAGGAGCTTACCGTTAT
1 TCAGTTCAGATGAGCTTACCGTTAT
*
17438501 TCTACTT-AGATGAGCTTACCGTT
1 TC-AGTTCAGATGAGCTTACCGTT
17438524 TACAGCTCGT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 37 0.95
26 2 0.05
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (25 bp):
TCAGTTCAGATGAGCTTACCGTTAT
Done.