Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 179 of 211
Found at i:55562710 original size:10 final size:9
Alignment explanation
Indices: 55562694--55562791 Score: 85
Period size: 10 Copynumber: 10.7 Consensus size: 9
55562684 AATTCAGTTC
55562694 AAAAAAAAG
1 AAAAAAAAG
55562703 AGAAAAAAA-
1 A-AAAAAAAG
55562712 ACAAAAAAA-
1 A-AAAAAAAG
*
55562721 CAAAAAAA-
1 AAAAAAAAG
* *
55562729 CAAAAAAAC
1 AAAAAAAAG
*
55562738 AAAAAATAG
1 AAAAAAAAG
55562747 AAAAAAATAG
1 AAAAAAA-AG
55562757 AAAAAAAAG
1 AAAAAAAAG
55562766 AACAAAAAAG
1 AA-AAAAAAG
*
55562776 AACAAAAAAC
1 AA-AAAAAAG
55562786 AAAAAA
1 AAAAAA
55562792 CAAAAAGAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
8 15 0.19
9 29 0.37
10 34 0.44
ACGTcount: A:0.85, C:0.07, G:0.06, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:55562717 original size:8 final size:8
Alignment explanation
Indices: 55562706--55562808 Score: 97
Period size: 8 Copynumber: 12.8 Consensus size: 8
55562696 AAAAAAGAGA
55562706 AAAAAAAC
1 AAAAAAAC
55562714 AAAAAAAC
1 AAAAAAAC
55562722 AAAAAAAC
1 AAAAAAAC
55562730 AAAAAAAC
1 AAAAAAAC
*
55562738 AAAAAATAG
1 AAAAAA-AC
55562747 AAAAAAA-
1 AAAAAAAC
* *
55562754 TAGAAAA-
1 AAAAAAAC
*
55562761 AAAAGAAC
1 AAAAAAAC
55562769 AAAAAAGA-
1 AAAAAA-AC
55562777 ACAAAAAAC
1 A-AAAAAAC
55562786 -AAAAAAC
1 AAAAAAAC
55562793 AAAAAGAAAC
1 -AAAA-AAAC
55562803 AAAAAA
1 AAAAAA
55562809 CCTCTACCGG
Statistics
Matches: 80, Mismatches: 7, Indels: 16
0.78 0.07 0.16
Matches are distributed among these distances:
7 16 0.20
8 40 0.50
9 20 0.25
10 4 0.05
ACGTcount: A:0.84, C:0.09, G:0.05, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:55563314 original size:21 final size:22
Alignment explanation
Indices: 55563284--55563332 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
55563274 AGTCGCAAAA
55563284 AAAAAGATGAGAAA-TAAAAACG
1 AAAAAGATGA-AAAGTAAAAACG
* *
55563306 AAAAA-ATGAAAAGTGAAAATG
1 AAAAAGATGAAAAGTAAAAACG
55563327 AAAAAG
1 AAAAAG
55563333 TAAAGTGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.13
21 15 0.65
22 5 0.22
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.10
Consensus pattern (22 bp):
AAAAAGATGAAAAGTAAAAACG
Found at i:55564902 original size:87 final size:88
Alignment explanation
Indices: 55564811--55565164 Score: 221
Period size: 87 Copynumber: 4.1 Consensus size: 88
55564801 GAGCAGATCA
55564811 AAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCC
1 AAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCC
55564876 T-GGTCAGCAGTGGAATAGATTG
66 TAGGTCAGCAGTGGAATAGATTG
** * ** ** * ** * * * * *
55564898 AAGATTTCAGATCTTGTCTCCCTAAGCAG-T--AGTGGAGCAGATCAAGGATGGCG-GATTTTAC
1 AAGATGGCAGATTTTACCTCCCT--GTGGTTACAGTGGAG--TA-CATTGAAGCCGTAATTCTAT
* * *
55564959 CTCCCTGAGGTTA-CAGTGGAGTACATTG
61 CTCCCT-AGGTCAGCAGTGGAATAGATTG
** * * * * * * ***
55564987 AAG-CCGTA-ATTCTATCTCCC--TGGTCAGCAGTGGAATAGATTGAAGATTTCAGA-TCTTATC
1 AAGATGGCAGATTTTACCTCCCTGTGGTTA-CAGTGGAGTACATTGAAGCCGT-A-ATTC-TATC
** **
55565047 TCCCTAGG-CATTAGTGGAGCAGATTG
62 TCCCTAGGTCAGCAGTGGAATAGATTG
*
55565073 AAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTGTAATTCTATCTCCC
1 AAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCC
55565138 T-GGTCAGCAGTGGAATAGATTG
66 TAGGTCAGCAGTGGAATAGATTG
55565160 AAGAT
1 AAGAT
55565165 TTCAGATCTT
Statistics
Matches: 187, Mismatches: 58, Indels: 44
0.65 0.20 0.15
Matches are distributed among these distances:
83 1 0.01
84 4 0.02
85 2 0.01
86 28 0.15
87 73 0.39
88 27 0.14
89 43 0.23
90 9 0.05
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (88 bp):
AAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCC
TAGGTCAGCAGTGGAATAGATTG
Found at i:55564933 original size:131 final size:132
Alignment explanation
Indices: 55564629--55566119 Score: 2180
Period size: 131 Copynumber: 11.3 Consensus size: 132
55564619 GCAGTAGAGC
* * * *
55564629 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGG-TGAATTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTT
*
55564693 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCTCTGAG-CAGCAGT
65 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTG-GTCAGCAGT
55564756 GGAAT
128 GGAAT
* *
55564761 AGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCAAAGATGGCAGATTTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
55564826 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC-GTAATTCTATCTCCCTGGTCAGCAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
55564890 AT
131 AT
* * *
55564892 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCGGATTTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
*
55564957 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC-GTAATTCTATCTCCCTGGTCAGCAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
55565021 AT
131 AT
* * **
55565023 AGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATTGAAGATGGCAGATTTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
*
55565088 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAG-CTGTAATTCTATCTCCCTGGTCAGCAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
55565152 AT
131 AT
* *
55565154 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* *
55565219 ACCTCCTTGTGGTTATAGTGGAGTACATTGAAGCC-GTAATTCTATCTCCCTGGTCAGCAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
55565283 AT
131 AT
* * *
55565285 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCGGATTTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* * * *
55565350 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCACTGGGCTGCAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
55565415 AT
131 AT
* * * *
55565417 AGATTGAAGATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGCAGATCAAAGATGGCAGACTTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* * *
55565482 ACCTCCTTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGT-AGCAGCG
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCT-GGTCAGCAGTG
55565545 GAAT
129 GAAT
* * * * * * *
55565549 AGATTGAAGATTACAGATCTTATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGACAAATTTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* *
55565614 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
55565679 AT
131 AT
* * * * * * *
55565681 AGATTGAAGATTACAGATCTTATCTCCCTAGGCATTAGTGAAGTAGATCGAAGATGGTAGATTTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* * **
55565746 ACCTCCCTGAGGTTACAGTGGAGTACACTGAAGCC-GTAATTCTATCTCCCTGGTTGGCAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
55565810 AT
131 AT
* * *
55565812 AGATTGAAGATTTCAGATCTTATCTCCTTAAGCGGTAGTGGAGCAGATCGAAGATGG-AGAATTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTT
* * * **
55565876 TACCTCCTTGGGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGTTGGCAGTGG
65 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGG
55565941 AAT
130 AAT
* * **
55565944 AGATTGAAGATTTCAGATCTTATTTCCCTAAGCGGTAGTGGAGCAGATTTAAGATGGC-GAATTT
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTT
55566008 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTC-GACAGTG
65 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAG-CAGTG
55566072 GAAT
129 GAAT
* * **
55566076 CGATCGAAGAATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 AGATTGAAG-ATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
55566120 TAGACTGATG
Statistics
Matches: 1250, Mismatches: 94, Indels: 29
0.91 0.07 0.02
Matches are distributed among these distances:
130 4 0.00
131 608 0.49
132 604 0.48
133 34 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (132 bp):
AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
AT
Found at i:55565008 original size:43 final size:44
Alignment explanation
Indices: 55564959--55566061 Score: 146
Period size: 44 Copynumber: 25.2 Consensus size: 44
55564949 CGGATTTTAC
*
55564959 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCGTA-ATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTGTAGATTCTAT
* * * * *
55565002 CTCCCT--GGTCAGCAGTGGAATAGATTGAAGATTTCAGA-TCTTAT
1 CTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCTGT-AGATTC-TAT
* * * * * *
55565046 CTCCCT-AGGCATT--AGTGGAGCAGATTGAAGATGGCAGATTTTAC
1 CTCCCTGAGG--TTACAGTGGAGTACATTGAAGCT-GTAGATTCTAT
*
55565090 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCTGTA-ATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTGTAGATTCTAT
* * * * * *
55565133 CTCCCT--GGTCAGCAGTGGAATAGATTGAAGATTTCAGA-TCTTGT
1 CTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCTGT-AGATTC-TAT
* * * * * * * *
55565177 CTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGAG--GTTACAGTGGAGTACATTGAAGCT-GTAGATTCTAT
* * * *
55565221 CTCCTTGTGGTTATAGTGGAGTACATTGAAGCCGTA-ATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTGTAGATTCTAT
* * * * * *
55565264 CTCCCT--GGTCAGCAGTGGAATAGATTGAAGATTTCAGA-TCTTGT
1 CTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCTGT-AGATTC-TAT
* * * * * ** * *
55565308 CTCCCTAAGCAG-T--AGTGGAGCAGA-TCAAGGATGGCGGATTTTAC
1 CTCCCTGAG--GTTACAGTGGAGTACATTGAA-GCT-GTAGATTCTAT
*
55565352 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA-ATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAG-CTGTAGATTCTAT
* * * * * * *
55565396 CTCACTG-GGCTGCAGTGGAATAGATTGAAGAT-TACAGA-TCTTGT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTGT--AGATTC-TAT
* ** * * * ** * * *
55565440 CTCCCT-AAGCAATAGTGGAGCAGATCAAAGATGGCAGACTT-TAC
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCT-GTAGA-TTCTAT
* *
55565484 CT-CCTTATGGTTACAGTGGAGTACATTGAAGCCAGTA-ATTCTA-
1 CTCCCTGA-GGTTACAGTGGAGTACATTGAAG-CTGTAGATTCTAT
* * * *
55565527 CTTCCCTG-GG-TAGCAGCGGAATAGATTGAAGAT-TACAGA-TCTTAT
1 C-TCCCTGAGGTTA-CAGTGGAGTACATTGAAGCTGT--AGATTC-TAT
* * * * * * *
55565572 CTCCCT-AGGCATT--AGTGGAGTAGATCGAAGATGACAAATTTTAC
1 CTCCCTGAGG--TTACAGTGGAGTACATTGAAGCTG-TAGATTCTAT
*
55565616 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA-ATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAG-CTGTAGATTCTAT
* * * *
55565660 CTCCCTG-GG-CAGCAGTGGAATAGATTGAAGAT-TACAGA-TCTTAT
1 CTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCTGT--AGATTC-TAT
* * * * * *
55565704 CTCCCT-AGGCATT--AGTGAAGTAGATCGAAGATGGTAGATTTTAC
1 CTCCCTGAGG--TTACAGTGGAGTACATTGAAGCT-GTAGATTCTAT
* *
55565748 CTCCCTGAGGTTACAGTGGAGTACACTGAAGCCGTA-ATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTGTAGATTCTAT
* * * * *
55565791 CTCCCT--GGTTGGCAGTGGAATAGATTGAAGATTTCAGA-TCTTAT
1 CTCCCTGAGGTT-ACAGTGGAGTACATTGAAGCTGT-AGATTC-TAT
* * * * * * * * * *
55565835 CTCCTTAAGCGGT--AGTGGAGCAGATCGAAGATGGAGAATTTTAC
1 CTCCCTGAG-GTTACAGTGGAGTACATTGAAGCTGTAG-ATTCTAT
* * *
55565879 CTCCTTGGGGTTACAGTGGAGTACATTGAAGCCAGTA-ATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAG-CTGTAGATTCTAT
* * * * * *
55565923 CCCCCT--GGTTGGCAGTGGAATAGATTGAAGATTTCAGA-TCTTAT
1 CTCCCTGAGGTT-ACAGTGGAGTACATTGAAGCTGT-AGATTC-TAT
* * * * * * * ** * *
55565967 TTCCCTAAGCGGT--AGTGGAGCAGATTTAAGATGGCGAATTTTAC
1 CTCCCTGAG-GTTACAGTGGAGTACATTGAAGCTGTAG-ATTCTAT
* *
55566011 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA-ATTCTAT
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAG-CTGTAGATTCTAT
55566055 CTCCCTG
1 CTCCCTG
55566062 GTCGACAGTG
Statistics
Matches: 744, Mismatches: 204, Indels: 223
0.64 0.17 0.19
Matches are distributed among these distances:
41 19 0.03
42 77 0.10
43 156 0.21
44 335 0.45
45 136 0.18
46 13 0.02
47 6 0.01
48 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTGTAGATTCTAT
Found at i:55565020 original size:42 final size:43
Alignment explanation
Indices: 55564841--55565820 Score: 207
Period size: 44 Copynumber: 22.4 Consensus size: 43
55564831 CCTGTGGTTA
* *
55564841 CAGTGGAGTACATTGAAGCCGTA-ATTCTATCTCCCTGGTCAG
1 CAGTGGAGTAGATTGAAGCTGTAGATTCTATCTCCCTGGTCAG
* * * * *
55564883 CAGTGGAATAGATTGAAGATTTCAGA-TCTTGTCTCCCTAAG-CAG
1 CAGTGGAGTAGATTGAAGCTGT-AGATTC-TATCTCCCT-GGTCAG
* * * * ** * * *
55564927 TAGTGGAGCAGA-TCAAGGATGGCGGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GCT-GTAGATTCTATCTCCCT--GGTCAG
* *
55564972 CAGTGGAGTACATTGAAGCCGTA-ATTCTATCTCCCTGGTCAG
1 CAGTGGAGTAGATTGAAGCTGTAGATTCTATCTCCCTGGTCAG
* * * *
55565014 CAGTGGAATAGATTGAAGATTTCAGA-TCTTATCTCCCTAGG-CAT
1 CAGTGGAGTAGATTGAAGCTGT-AGATTC-TATCTCCCT-GGTCAG
* * * * * * *
55565058 TAGTGGAGCAGATTGAAGATGGCAGATTTTACCTCCCTGTGGTTA-
1 CAGTGGAGTAGATTGAAGCT-GTAGATTCTATCTCCC--TGGTCAG
*
55565103 CAGTGGAGTACATTGAAGCTGTA-ATTCTATCTCCCTGGTCAG
1 CAGTGGAGTAGATTGAAGCTGTAGATTCTATCTCCCTGGTCAG
* * * * *
55565145 CAGTGGAATAGATTGAAGATTTCAGA-TCTTGTCTCCCTAAG-CAG
1 CAGTGGAGTAGATTGAAGCTGT-AGATTC-TATCTCCCT-GGTCAG
* * * * * * * * *
55565189 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCTTGTGGTTA-
1 CAGTGGAGTAGATTGAAGCT-GTAGATTCTATCTCC--CTGGTCAG
* * *
55565234 TAGTGGAGTACATTGAAGCCGTA-ATTCTATCTCCCTGGTCAG
1 CAGTGGAGTAGATTGAAGCTGTAGATTCTATCTCCCTGGTCAG
* * * * *
55565276 CAGTGGAATAGATTGAAGATTTCAGA-TCTTGTCTCCCTAAG-CAG
1 CAGTGGAGTAGATTGAAGCTGT-AGATTC-TATCTCCCT-GGTCAG
* * * * ** * * *
55565320 TAGTGGAGCAGA-TCAAGGATGGCGGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GCT-GTAGATTCTATCTCCCT--GGTCAG
* * * * *
55565365 CAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCACTGGGCTG
1 CAGTGGAGTAGATTGAAG-CTGTAGATTCTATCTCCCTGGTCAG
* * * * *
55565408 CAGTGGAATAGATTGAAGAT-TACAGA-TCTTGTCTCCCTAAG-CAA
1 CAGTGGAGTAGATTGAAGCTGT--AGATTC-TATCTCCCT-GGTCAG
* * ** * * * * *
55565452 TAGTGGAGCAGATCAAAGATGGCAGACTT-TACCTCCTTATGGTTA-
1 CAGTGGAGTAGATTGAAGCT-GTAGA-TTCTATCTCC--CTGGTCAG
* *
55565497 CAGTGGAGTACATTGAAGCCAGTA-ATTCTA-CTTCCCTGGGT-AG
1 CAGTGGAGTAGATTGAAG-CTGTAGATTCTATC-TCCCT-GGTCAG
* * * *
55565540 CAGCGGAATAGATTGAAGAT-TACAGA-TCTTATCTCCCTAGG-CAT
1 CAGTGGAGTAGATTGAAGCTGT--AGATTC-TATCTCCCT-GGTCAG
* * * * * * * *
55565584 TAGTGGAGTAGATCGAAGATGACAAATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGCTG-TAGATTCTATCTCCCT--GGTCAG
* * *
55565629 CAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAG-CTGTAGATTCTATCTCCCTGGTCAG
* * *
55565672 CAGTGGAATAGATTGAAGAT-TACAGA-TCTTATCTCCCTAGG-CAT
1 CAGTGGAGTAGATTGAAGCTGT--AGATTC-TATCTCCCT-GGTCAG
* * * * * * *
55565716 TAGTGAAGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGCT-GTAGATTCTATCTCCCT--GGTCAG
* * * **
55565761 CAGTGGAGTACACTGAAGCCGTA-ATTCTATCTCCCTGGTTGG
1 CAGTGGAGTAGATTGAAGCTGTAGATTCTATCTCCCTGGTCAG
*
55565803 CAGTGGAATAGATTGAAG
1 CAGTGGAGTAGATTGAAG
55565821 ATTTCAGATC
Statistics
Matches: 660, Mismatches: 194, Indels: 168
0.65 0.19 0.16
Matches are distributed among these distances:
41 21 0.03
42 90 0.14
43 121 0.18
44 284 0.43
45 125 0.19
46 19 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
CAGTGGAGTAGATTGAAGCTGTAGATTCTATCTCCCTGGTCAG
Found at i:55565171 original size:87 final size:88
Alignment explanation
Indices: 55564811--55565961 Score: 266
Period size: 88 Copynumber: 13.1 Consensus size: 88
55564801 GAGCAGATCA
* **
55564811 AAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCC
1 AAGATGTCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGATGTAATTCTATCTCCC
55564876 T-GGTCAGCAGTGGAATAGATTG
66 TAGGTCAGCAGTGGAATAGATTG
* * ** ** * * * ** * *
55564898 AAGATTTCAGATCTTGTCTCCCTAAGCAG-T--AGTGGAGCAGA-TCAAGGATGGCGGATTTTAC
1 AAGATGTCAGATTTTACCTCCCT--GTGGTTACAGTGGAGTACATTGAA-GAT-G-TAATTCTAT
* * *
55564959 CTCCCTGAGGTTA-CAGTGGAGTACATTG
61 CTCCCT-AGGTCAGCAGTGGAATAGATTG
** * * * * * *
55564987 AAGCCGT-A-ATTCTATCTCCC--TGGTCAGCAGTGGAATAGATTGAAGATTTCAGA-TCTTATC
1 AAGATGTCAGATTTTACCTCCCTGTGGTTA-CAGTGGAGTACATTGAAGATGT-A-ATTC-TATC
** **
55565047 TCCCTAGG-CATTAGTGGAGCAGATTG
62 TCCCTAGGTCAGCAGTGGAATAGATTG
* *
55565073 AAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTGTAATTCTATCTCCC
1 AAGATGTCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGATGTAATTCTATCTCCC
55565138 T-GGTCAGCAGTGGAATAGATTG
66 TAGGTCAGCAGTGGAATAGATTG
* * ** ** * * * * * *
55565160 AAGATTTCAGATCTTGTCTCCCTAAGCAG-T--AGTGGAGCAGATCGAAGATGGCAGATTTTACC
1 AAGATGTCAGATTTTACCTCCCT--GTGGTTACAGTGGAGTACATTGAAGAT-GTA-ATTCTATC
* * * * * *
55565222 TCCTTGTGGTTA-TAGTGGAGTACATTG
62 TCCCT-AGGTCAGCAGTGGAATAGATTG
** * * * * * * *
55565249 AAGCCGT-A-ATTCTATCTCCC--TGGTCAGCAGTGGAATAGATTGAAGATTTCAGA-TCTTGTC
1 AAGATGTCAGATTTTACCTCCCTGTGGTTA-CAGTGGAGTACATTGAAGATGT-A-ATTC-TATC
* * ** *
55565309 TCCCTAAG-CAGTAGTGGAGCAGA-TC
62 TCCCTAGGTCAGCAGTGGAATAGATTG
* * *
55565334 AAGGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA-GTAATTCTATCT
1 AA-GATGTCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG--ATGTAATTCTATCT
* * *
55565398 CACT-GGGCTGCAGTGGAATAGATTG
63 CCCTAGGTCAGCAGTGGAATAGATTG
* ** ** ** * * * ** * *
55565423 AAGAT-TACAGATCTTGTCTCCCT-AAGCAATAGTGGAGCAGATCAAAGATGGCAGACTT-TACC
1 AAGATGT-CAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGAT-GTA-A-TTCTATC
* * * *
55565485 TCCTTATGGTTA-CAGTGGAGTACATTG
62 TCCCTA-GGTCAGCAGTGGAATAGATTG
* * * * * *
55565512 AAGCCA-GT-A-ATTCTACTTCCCTG-GG-TAGCAGCGGAATAGATTGAAGAT-TACAGATCTTA
1 AAG--ATGTCAGATTTTACCTCCCTGTGGTTA-CAGTGGAGTACATTGAAGATGTA-A-TTC-TA
** * *
55565571 TCTCCCTAGG-CATTAGTGGAGTAGATCG
60 TCTCCCTAGGTCAGCAGTGGAATAGATTG
* * *
55565599 AAGATGACAAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA-GTAATTCTATCTC
1 AAGATGTCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG--ATGTAATTCTATCTC
*
55565663 CCT-GGGCAGCAGTGGAATAGATTG
64 CCTAGGTCAGCAGTGGAATAGATTG
* * * * * * * *
55565687 AAGAT-TACAGATCTTATCTCCCTAG-GCATT--AGTGAAGTAGATCGAAGATGGTAGATTTTAC
1 AAGATGT-CAGATTTTACCTCCCT-GTG-GTTACAGTGGAGTACATTGAAGAT-GTA-ATTCTAT
* * * *
55565748 CTCCCTGAGGTTA-CAGTGGAGTACACTG
61 CTCCCT-AGGTCAGCAGTGGAATAGATTG
** * * * * * *
55565776 AAGCCGT-A-ATTCTATCTCCC--TGGTTGGCAGTGGAATAGATTGAAGATTTCAGA-TCTTATC
1 AAGATGTCAGATTTTACCTCCCTGTGGTT-ACAGTGGAGTACATTGAAGATGT-A-ATTC-TATC
* * * * ** *
55565836 TCCTTAAG-CGGTAGTGGAGCAGATCG
62 TCCCTAGGTCAGCAGTGGAATAGATTG
* * * *
55565862 AAGATG-GAGAATTTTACCTCCTTGGGGTTACAGTGGAGTACATTGAAGCCA-GTAATTCTATCC
1 AAGATGTCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG--ATGTAATTCTATCT
**
55565925 CCCT-GGTTGGCAGTGGAATAGATTG
63 CCCTAGGTCAGCAGTGGAATAGATTG
*
55565950 AAGATTTCAGAT
1 AAGATGTCAGAT
55565962 CTTATTTCCC
Statistics
Matches: 742, Mismatches: 227, Indels: 189
0.64 0.20 0.16
Matches are distributed among these distances:
83 2 0.00
84 2 0.00
85 12 0.02
86 85 0.11
87 222 0.30
88 226 0.30
89 154 0.21
90 32 0.04
91 7 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (88 bp):
AAGATGTCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGATGTAATTCTATCTCCC
TAGGTCAGCAGTGGAATAGATTG
Found at i:55565940 original size:263 final size:263
Alignment explanation
Indices: 55564629--55566119 Score: 2164
Period size: 263 Copynumber: 5.7 Consensus size: 263
55564619 GCAGTAGAGC
* * *
55564629 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGG-TGAATTT
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTT
* *
55564693 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCTCTGAG-CAGCAGT
65 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTG-GTCAGCAGT
* * *
55564756 GGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCAAAGATGGCAG
128 GGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-AG
*
55564821 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC-GTAATTCTATCTCCCTGGTCAGCA
192 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCA
55564885 GTGGAAT
257 GTGGAAT
* *
55564892 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCGGATTTT
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
55564957 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC-GTAATTCTATCTCCCTGGTCAGCAGTGGA
66 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
* * *
55565021 ATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATTGAAGATGGCAGATT
131 ATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-AGATT
* *
55565086 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG-CTGTAATTCTATCTCCCTGGTCAGCAGTG
195 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTG
55565150 GAAT
260 GAAT
*
55565154 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTT
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* * *
55565219 ACCTCCTTGTGGTTATAGTGGAGTACATTGAAGCC-GTAATTCTATCTCCCTGGTCAGCAGTGGA
66 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
* *
55565283 ATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGATGGCGGAT
131 ATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGG-AGAT
* * *
55565347 TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCACTGGGCTGCAGT
194 TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGT
55565412 GGAAT
259 GGAAT
* * *
55565417 AGATTGAAGATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGCAGATCAAAGATGGCAGACTTT
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* *
55565482 ACCT-CCTTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGT-AGCAGC
66 ACCTCCCTGA-GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCT-GGTCAGCAGT
* * * * * *
55565544 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGACAA
128 GGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG-GAG
*
55565609 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
192 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCA
55565674 GTGGAAT
257 GTGGAAT
* * * * * * * *
55565681 AGATTGAAGATTACAGATCTTATCTCCCTAGGCATTAGTGAAGTAGATCGAAGATGGTAGATTTT
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
* **
55565746 ACCTCCCTGAGGTTACAGTGGAGTACACTGAAGCC-GTAATTCTATCTCCCTGGTTGGCAGTGGA
66 ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
* *
55565810 ATAGATTGAAGATTTCAGATCTTATCTCCTTAAGCGGTAGTGGAGCAGATCGAAGATGGAGAATT
131 ATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAG-ATT
* * * **
55565875 TTACCTCCTTGGGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGTTGGCAGTG
195 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTG
55565940 GAAT
260 GAAT
* * * **
55565944 AGATTGAAGATTTCAGATCTTATTTCCCTAAGCGGTAGTGGAGCAGATTTAAGATGGC-GAATTT
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTT
*
55566008 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTC-GACAGTG
65 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAG-CAGTG
* * **
55566072 GAATCGATCGAAGAATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAG
129 GAATAGATTGAAG-ATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
55566120 TAGACTGATG
Statistics
Matches: 1120, Mismatches: 88, Indels: 38
0.90 0.07 0.03
Matches are distributed among these distances:
261 4 0.00
262 374 0.33
263 439 0.39
264 264 0.24
265 39 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (263 bp):
AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
ACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGGA
ATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTCAGCAGTGG
AAT
Found at i:55567534 original size:3 final size:3
Alignment explanation
Indices: 55567526--55567585 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
55567516 TATATATTAC
* *
55567526 ATT ATT ATT ACTGA ATT ATT ATT AGT -TT ATT ATT ATT A-T ATT ATAT
1 ATT ATT ATT A-T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
55567572 ATT TTT ATT ATT AT
1 ATT ATT ATT ATT AT
55567586 GCTTACCGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 5 0.11
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:55567567 original size:11 final size:10
Alignment explanation
Indices: 55567541--55567583 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
55567531 TATTACTGAA
55567541 TTATTATTAGT
1 TTATTATTA-T
55567552 TTATTATTAT
1 TTATTATTAT
55567562 TATATTATATAT
1 T-TATTAT-TAT
55567574 TT-TTATTAT
1 TTATTATTAT
55567583 T
1 T
55567584 ATGCTTACCG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.13
10 6 0.20
11 16 0.53
12 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTATTAT
Found at i:55567569 original size:14 final size:14
Alignment explanation
Indices: 55567540--55567585 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
55567530 TTATTACTGA
55567540 ATTATTATTAGT-TT
1 ATTATTATTA-TATT
55567554 ATTATTATTATATT
1 ATTATTATTATATT
55567568 ATATATT-TT-TATT
1 AT-TATTATTATATT
55567581 ATTAT
1 ATTAT
55567586 GCTTACCGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 7 0.23
14 16 0.53
15 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:55569184 original size:111 final size:107
Alignment explanation
Indices: 55568976--55569264 Score: 355
Period size: 111 Copynumber: 2.7 Consensus size: 107
55568966 AAGGAAAATT
* * * * *
55568976 TTTCTAAATGAGGCAATATTTGGCATTTGGAAATATGAGAAAACGTGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGAATTTGGAAAT-TGAGAAAACGTGCCCTAAGGTGCTGGGTGT
* *
55569041 CGATTTTTCTCATTCAACCAAATGGTTTAATATCCTTTTAAAAAAA
65 CGATTTTTCTCATTCAACCAAATGGATAAATATCCTTTT---AAAA
* * *
55569087 TTTCAAAATATGGCAATGTTTTGAATTTGGAAATTCGAGAAAACATGCCCTGAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGAATTTGGAAATT-GAGAAAACGTGCCCTAAGGTGCTGGGTGT
* * *
55569152 CGATTTTTCTCGTTCAACGAAATGGATAAATATTCTTTTAAAA
65 CGATTTTTCTCATTCAACCAAATGGATAAATATCCTTTTAAAA
** * * *
55569195 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTACCCTAAGGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGAATTTGGAAA-TTGAGAAAACGTGCCCTAAGGTGCTGGGTGT
55569259 CGATTT
65 CGATTT
55569265 CTCATTTAAC
Statistics
Matches: 155, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
107 26 0.17
108 37 0.24
109 2 0.01
110 1 0.01
111 89 0.57
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (107 bp):
TTTCAAAATAAGGCAATGTTTTGAATTTGGAAATTGAGAAAACGTGCCCTAAGGTGCTGGGTGTC
GATTTTTCTCATTCAACCAAATGGATAAATATCCTTTTAAAA
Found at i:55570558 original size:9 final size:9
Alignment explanation
Indices: 55570544--55570655 Score: 152
Period size: 9 Copynumber: 12.4 Consensus size: 9
55570534 TTTGGTTAAA
55570544 AATTAACCG
1 AATTAACCG
*
55570553 AATTAACTG
1 AATTAACCG
55570562 AATTAACCG
1 AATTAACCG
55570571 AATTAACCG
1 AATTAACCG
*
55570580 AATTACCCG
1 AATTAACCG
*
55570589 AATTAACTG
1 AATTAACCG
**
55570598 AATTGCCCG
1 AATTAACCG
*
55570607 AATTACCCG
1 AATTAACCG
55570616 AATTAACCG
1 AATTAACCG
*
55570625 AATTACCCG
1 AATTAACCG
55570634 AATTAACCG
1 AATTAACCG
*
55570643 AATTAACCA
1 AATTAACCG
55570652 AATT
1 AATT
55570656 GAATCACTAC
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 90 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:55570802 original size:18 final size:18
Alignment explanation
Indices: 55570762--55570805 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
55570752 TAATTTTATG
**
55570762 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
55570780 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
55570798 CTTGGGTT
1 ATTGGGTT
55570806 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:55598220 original size:29 final size:30
Alignment explanation
Indices: 55598174--55598231 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
55598164 ATTCAATGTA
55598174 GTACAATGTCATAAATG-AATTTTGATTTT
1 GTACAATGTCATAAATGAAATTTTGATTTT
* * * *
55598203 GTACAATTTTATACATGAAATTTTTATTT
1 GTACAATGTCATAAATGAAATTTTGATTT
55598232 GATTCAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (30 bp):
GTACAATGTCATAAATGAAATTTTGATTTT
Found at i:55598755 original size:22 final size:22
Alignment explanation
Indices: 55598715--55598785 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
55598705 TTTCTCCAAT
*
55598715 GTTAGGACTTTTTATTTTTTTAGG
1 GTTAGGA-TTTTT-GTTTTTTAGG
55598739 GTTAGGATTTTTGTTTTATTA-G
1 GTTAGGATTTTTGTTTT-TTAGG
*
55598761 GTTAAGG-TTTATAG-TTTTTAGG
1 GTT-AGGATTT-TTGTTTTTTAGG
55598783 GTT
1 GTT
55598786 TAGGGTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
21 3 0.07
22 18 0.44
23 13 0.32
24 7 0.17
ACGTcount: A:0.18, C:0.01, G:0.24, T:0.56
Consensus pattern (22 bp):
GTTAGGATTTTTGTTTTTTAGG
Found at i:55598755 original size:23 final size:24
Alignment explanation
Indices: 55598715--55598761 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
55598705 TTTCTCCAAT
*
55598715 GTTAGGACTTTTTATTTTTTTAGG
1 GTTAGGACTTTTTATTTTATTAGG
*
55598739 GTTAGGA-TTTTTGTTTTATTAGG
1 GTTAGGACTTTTTATTTTATTAGG
55598762 TTAAGGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.57
Consensus pattern (24 bp):
GTTAGGACTTTTTATTTTATTAGG
Found at i:55601500 original size:9 final size:9
Alignment explanation
Indices: 55601486--55601529 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
55601476 ATAATCAAAA
55601486 TGAGAGAGT
1 TGAGAGAGT
*
55601495 TGAGAGACT
1 TGAGAGAGT
*
55601504 TGAGAGGGTT
1 TGAGAGAG-T
55601514 TGAGAGAGT
1 TGAGAGAGT
*
55601523 TGGGAGA
1 TGAGAGA
55601530 AGCATGTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.30, C:0.02, G:0.45, T:0.23
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:55607012 original size:23 final size:23
Alignment explanation
Indices: 55606985--55607029 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
55606975 AAAAGAGTAG
*
55606985 TAAAAAAGAACAAACAAAGAAAA
1 TAAAAAAAAACAAACAAAGAAAA
* *
55607008 TAAAAAAAAAGAAAGAAAGAAA
1 TAAAAAAAAACAAACAAAGAAA
55607030 CGCAAGAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (23 bp):
TAAAAAAAAACAAACAAAGAAAA
Found at i:55607363 original size:13 final size:14
Alignment explanation
Indices: 55607345--55607377 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
55607335 GGTGTTGGGC
55607345 TGTTTGGGTT-TTT
1 TGTTTGGGTTATTT
55607358 TGTTTGGGTTATTT
1 TGTTTGGGTTATTT
55607372 T-TTTGG
1 TGTTTGG
55607378 TTTCTGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.67
Consensus pattern (14 bp):
TGTTTGGGTTATTT
Found at i:55607582 original size:28 final size:28
Alignment explanation
Indices: 55607541--55607594 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
55607531 CCTCATTCCC
** * *
55607541 CTCCACTGGGTCTTGTTGCTTTGATCGA
1 CTCCACTGCCTCTTGTCGCTTCGATCGA
55607569 CTCCACTGCCTCTTGTCGCTTCGATC
1 CTCCACTGCCTCTTGTCGCTTCGATC
55607595 CACTTTATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.09, C:0.33, G:0.20, T:0.37
Consensus pattern (28 bp):
CTCCACTGCCTCTTGTCGCTTCGATCGA
Found at i:55613184 original size:18 final size:18
Alignment explanation
Indices: 55613161--55613197 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55613151 CCAAAGCGGT
55613161 CTTGTTTGTCCATTAATC
1 CTTGTTTGTCCATTAATC
55613179 CTTGTTTGTCCATTAATC
1 CTTGTTTGTCCATTAATC
55613197 C
1 C
55613198 GGGTATCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.11, T:0.49
Consensus pattern (18 bp):
CTTGTTTGTCCATTAATC
Found at i:55624160 original size:96 final size:96
Alignment explanation
Indices: 55623916--55624167 Score: 434
Period size: 97 Copynumber: 2.6 Consensus size: 96
55623906 ATTTAATTTT
* *
55623916 AACCCCAATCTAATTTTTT-AAATTTATAATTAATTTACTCAAGTAACCCTAAATCCTAATTTAT
1 AACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTAT
*
55623980 TTGATTTTTTCCTTAAAAACCCTAAACACTA
66 TTGATTTTTTCCTTAAAAACCATAAACACTA
55624011 AACCCTAATCTAATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTA
1 AACCCTAATCTAATTTTTT-AAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTA
55624076 TTTGATTTTTTCCTTAAAAACCATAAACACTA
65 TTTGATTTTTTCCTTAAAAACCATAAACACTA
* * *
55624108 AACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATTAAGAAACCCTAAACCCTAA
1 AACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAA
55624168 ACCCTTATTT
Statistics
Matches: 149, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
95 18 0.12
96 38 0.26
97 93 0.62
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.39
Consensus pattern (96 bp):
AACCCTAATCTAATTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTAT
TTGATTTTTTCCTTAAAAACCATAAACACTA
Found at i:55631911 original size:17 final size:16
Alignment explanation
Indices: 55631889--55631920 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
55631879 TCATATATTA
55631889 TTGGAAGCTCGATCAGT
1 TTGGAAGCTC-ATCAGT
55631906 TTGGAAGCTCATCAG
1 TTGGAAGCTCATCAG
55631921 AGATCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCATCAGT
Found at i:55643203 original size:20 final size:20
Alignment explanation
Indices: 55643178--55643274 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
55643168 TGAAAAAATC
*
55643178 CCCCTGTTTGCACATCAGTG
1 CCCCTGTTTGCACATCAGTA
* * * **
55643198 CCCCTGATTGTACTTTGGTA
1 CCCCTGTTTGCACATCAGTA
*
55643218 CCCTTGTTTGCACATCAGTA
1 CCCCTGTTTGCACATCAGTA
* * **
55643238 CCCCTATTT-CTACTTTGGTA
1 CCCCTGTTTGC-ACATCAGTA
*
55643258 CCCCTATTTGCACATCA
1 CCCCTGTTTGCACATCA
55643275 ATGCCCCTAA
Statistics
Matches: 55, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
19 1 0.02
20 53 0.96
21 1 0.02
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGCACATCAGTA
Found at i:55643242 original size:40 final size:39
Alignment explanation
Indices: 55643182--55643430 Score: 214
Period size: 40 Copynumber: 6.2 Consensus size: 39
55643172 AAAATCCCCC
*
55643182 TGTTTGCACATCAGTGCCCCTGATTGTACTTTGGTACCCT
1 TGTTTGCACATCAGTGCCCCT-ATTGTACTTTGGTACCCA
* * *
55643222 TGTTTGCACATCAGTACCCCTATTTCTACTTTGGTACCCC
1 TGTTTGCACATCAGTGCCCCTA-TTGTACTTTGGTACCCA
* * **
55643262 TATTTGCACATCAATGCCCCTAATTGTACTTTGGTAGACA
1 TGTTTGCACATCAGTGCCCCT-ATTGTACTTTGGTACCCA
* *
55643302 TGTTTGCACATCAGTGCCCCTTCTTGTACTTTGGTACCCC
1 TGTTTGCACATCAGTGCCCC-TATTGTACTTTGGTACCCA
** * * *
55643342 TGAATGCACATCTA-TGCCCCTATTTTCACTTTGGTGCCCC
1 TGTTTGCACATC-AGTGCCCCTATTGT-ACTTTGGTACCCA
* * * * * *
55643382 TGATCGCACATTC-GTGCTCCTGATTGCACTTTGGTTCCCC
1 TGTTTGCACA-TCAGTGCCCCT-ATTGTACTTTGGTACCCA
55643422 TGTTATGCA
1 TGTT-TGCA
55643431 TCTATGATGC
Statistics
Matches: 171, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
39 5 0.03
40 155 0.91
41 11 0.06
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (39 bp):
TGTTTGCACATCAGTGCCCCTATTGTACTTTGGTACCCA
Found at i:55643311 original size:80 final size:79
Alignment explanation
Indices: 55643178--55643376 Score: 249
Period size: 80 Copynumber: 2.5 Consensus size: 79
55643168 TGAAAAAATC
* * * *
55643178 CCCCTGTTTGCACATCAGTGCCCCTGATTGTACTTTGGTACCCTTGTTTGCACATCAGTACCCCT
1 CCCCTATTTGCACATCAATGCCCCT-ATTGTACTTTGGTACACATGTTTGCACATCAGTACCCCT
55643243 AT-TTCTACTTTGGTA
65 -TCTTCTACTTTGGTA
* *
55643258 CCCCTATTTGCACATCAATGCCCCTAATTGTACTTTGGTAGACATGTTTGCACATCAGTGCCCCT
1 CCCCTATTTGCACATCAATGCCCCT-ATTGTACTTTGGTACACATGTTTGCACATCAGTACCCCT
*
55643323 TCTTGTACTTTGGTA
65 TCTTCTACTTTGGTA
* * *
55643338 CCCCTGA-ATGCACATCTATGCCCCTATTTTCACTTTGGT
1 CCCCT-ATTTGCACATCAATGCCCCTATTGT-ACTTTGGT
55643377 GCCCCTGATC
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 5 0.05
80 99 0.94
81 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.37
Consensus pattern (79 bp):
CCCCTATTTGCACATCAATGCCCCTATTGTACTTTGGTACACATGTTTGCACATCAGTACCCCTT
CTTCTACTTTGGTA
Found at i:55643413 original size:120 final size:120
Alignment explanation
Indices: 55643182--55643416 Score: 298
Period size: 120 Copynumber: 2.0 Consensus size: 120
55643172 AAAATCCCCC
* **
55643182 TGTTTGCACATCAGTGCCCCTGATTGTACTTTGGTACCCTTGTTTGCACATCAGTACCCCTATTT
1 TGTTTGCACATCAGTGCCCCTGATTGTACTTTGGTACCCCTGAATGCACATCAGTACCCCTATTT
* *
55643247 CTACTTTGGTACCCCTATTTGCACATCAATGCCCCTAATTGTACTTTGGTAGACA
66 CTACTTTGGTACCCCTATTCGCACATCAATGCCCCTAATTGCACTTTGGTAGACA
** *
55643302 TGTTTGCACATCAGTGCCCCTTCTTGTACTTTGGTACCCCTGAATGCACATCTA-TGCCCCTATT
1 TGTTTGCACATCAGTGCCCCTGATTGTACTTTGGTACCCCTGAATGCACATC-AGTACCCCTATT
* * * *
55643366 T-TCACTTTGGTGCCCCTGA-TCGCACATTC-GTGCTCCTGATTGCACTTTGGT
65 TCT-ACTTTGGTACCCCT-ATTCGCACA-TCAATGCCCCTAATTGCACTTTGGT
55643417 TCCCCTGTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
119 1 0.01
120 94 0.95
121 4 0.04
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (120 bp):
TGTTTGCACATCAGTGCCCCTGATTGTACTTTGGTACCCCTGAATGCACATCAGTACCCCTATTT
CTACTTTGGTACCCCTATTCGCACATCAATGCCCCTAATTGCACTTTGGTAGACA
Found at i:55643423 original size:20 final size:20
Alignment explanation
Indices: 55643368--55643423 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
55643358 CCCCTATTTT
55643368 CACTTTGGTGCCCCTGATCG
1 CACTTTGGTGCCCCTGATCG
* * * *
55643388 CACATTCGTGCTCCTGATTG
1 CACTTTGGTGCCCCTGATCG
*
55643408 CACTTTGGTTCCCCTG
1 CACTTTGGTGCCCCTG
55643424 TTATGCATCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.11, C:0.34, G:0.21, T:0.34
Consensus pattern (20 bp):
CACTTTGGTGCCCCTGATCG
Found at i:55648314 original size:39 final size:39
Alignment explanation
Indices: 55648255--55648404 Score: 228
Period size: 39 Copynumber: 3.8 Consensus size: 39
55648245 ACCAATACAA
* * * *
55648255 AGCCTGCTGGGCACAGAGCCCGAATAAACATCGGCACAC
1 AGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAC
* *
55648294 AGCCTGCTAGGCACATAGCCCGAAGAATCACCGACACAC
1 AGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAC
*
55648333 AGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAT
1 AGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAC
*
55648372 AGCCTGCTAGGCACATAGCCTGAATAATCACCG
1 AGCCTGCTAGGCACATAGCCCGAATAATCACCG
55648405 CATTTCTACG
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.13
Consensus pattern (39 bp):
AGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAC
Found at i:55648604 original size:19 final size:19
Alignment explanation
Indices: 55648582--55648621 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
55648572 TGAACGAGTC
55648582 TGTCAAGTATAAGTCTGCA
1 TGTCAAGTATAAGTCTGCA
55648601 TGTCAAGTATAAGTCTGCA
1 TGTCAAGTATAAGTCTGCA
55648620 TG
1 TG
55648622 AAGTGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (19 bp):
TGTCAAGTATAAGTCTGCA
Found at i:55648928 original size:29 final size:29
Alignment explanation
Indices: 55648877--55649105 Score: 148
Period size: 29 Copynumber: 7.9 Consensus size: 29
55648867 CTTTATGGCA
** *
55648877 ATCTCTGTTAAATGGAAATCTTTGTAGTG
1 ATCTCTGTTAAATGGAAGCCTTTGTGGTG
* *
55648906 ATCTCTGTTAAATGGAAGCCTTTGAGGCG
1 ATCTCTGTTAAATGGAAGCCTTTGTGGTG
* *
55648935 ATCTCTGTTTTAA-GGAAGCCTTTGTGGCG
1 ATCTCTG-TTAAATGGAAGCCTTTGTGGTG
* * *
55648964 ATCACTGTTATA-GGAAAGGCTTTGTGGTG
1 ATCTCTGTTAAATGG-AAGCCTTTGTGGTG
* * * **
55648993 ATTTCTGTTAAAAGGATGTGTTTGTGGCT-
1 ATCTCTGTTAAATGGAAGCCTTTGTGG-TG
* *
55649022 ATCT-TAGTTAAAT-GAATGTCTTTGTCGAT-
1 ATCTCT-GTTAAATGGAA-GCCTTTGT-GGTG
* *
55649051 ATCTTTGTTAAAT-GAATGCCTTTGTGGTC
1 ATCTCTGTTAAATGGAA-GCCTTTGTGGTG
* * *
55649080 ATCTCTGTTAAAAGGATGTCTTTGTG
1 ATCTCTGTTAAATGGAAGCCTTTGTG
55649106 CCCATCTCTA
Statistics
Matches: 161, Mismatches: 29, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
28 10 0.06
29 140 0.87
30 11 0.07
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.40
Consensus pattern (29 bp):
ATCTCTGTTAAATGGAAGCCTTTGTGGTG
Found at i:55649045 original size:87 final size:86
Alignment explanation
Indices: 55648867--55649135 Score: 202
Period size: 87 Copynumber: 3.1 Consensus size: 86
55648857 ATAAGTGAGC
* * * * * * * * * *
55648867 CTTTATGGCAATCTCTGTTAAATGGAAA-TCTTTGTAGTGATCTCTGTTAAATGGAAGCCTTTGA
1 CTTTGTGGCGATCACTGTTAAA-GGAAAGCCTTTGTGGTCATCTCTGTTAAAAGGATGTCTTTGT
* * * *
55648931 GGCGATCTCTGTTTTAAGGAA-G
65 GCCCATCTCT-ATTAAAGGAATG
* * * * *
55648953 CCTTTGTGGCGATCACTGTTATAGGAAAGGCTTTGTGGTGATTTCTGTTAAAAGGATGTGTTTGT
1 -CTTTGTGGCGATCACTGTTAAAGGAAAGCCTTTGTGGTCATCTCTGTTAAAAGGATGTCTTTGT
* * *
55649018 GGCTATCT-TAGTTAAATGAATG
65 GCCCATCTCTA-TTAAAGGAATG
* ** ** * *
55649040 TCTTTGTCGATATCTTTGTTAAATGAATGCCTTTGTGGTCATCTCTGTTAAAAGGATGTCTTTGT
1 -CTTTGTGGCGATCACTGTTAAAGGAAAGCCTTTGTGGTCATCTCTGTTAAAAGGATGTCTTTGT
55649105 GCCCATCTCTATTAAAGGAATG
65 GCCCATCTCTATTAAAGGAATG
*
55649127 CCTTGTGGC
1 CTTTGTGGC
55649136 AAACTTTGTT
Statistics
Matches: 143, Mismatches: 35, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
86 19 0.13
87 122 0.85
88 2 0.01
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (86 bp):
CTTTGTGGCGATCACTGTTAAAGGAAAGCCTTTGTGGTCATCTCTGTTAAAAGGATGTCTTTGTG
CCCATCTCTATTAAAGGAATG
Found at i:55649111 original size:29 final size:29
Alignment explanation
Indices: 55648996--55649152 Score: 95
Period size: 29 Copynumber: 5.4 Consensus size: 29
55648986 TGTGGTGATT
* * * *
55648996 TCTGTTAAAAGGATGTGTTTGTGGCTATC
1 TCTGTTAAAAGAATGTCTTTGTGCCCATC
* **
55649025 T-TAGTTAAATGAATGTCTTTGT-CGATATC
1 TCT-GTTAAAAGAATGTCTTTGTGC-CCATC
* * * **
55649054 TTTGTTAAATGAATGCCTTTGTGGTCATC
1 TCTGTTAAAAGAATGTCTTTGTGCCCATC
*
55649083 TCTGTTAAAAGGATGTCTTTGTGCCCATC
1 TCTGTTAAAAGAATGTCTTTGTGCCCATC
* * * * * *
55649112 TCTATTAAAGGAATG-CCTTGTGGCAAAC
1 TCTGTTAAAAGAATGTCTTTGTGCCCATC
*
55649140 TTTGTTAAAAGAA
1 TCTGTTAAAAGAA
55649153 CGCATTCGTG
Statistics
Matches: 99, Mismatches: 25, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
28 20 0.20
29 78 0.79
30 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (29 bp):
TCTGTTAAAAGAATGTCTTTGTGCCCATC
Found at i:55650552 original size:14 final size:14
Alignment explanation
Indices: 55650533--55650572 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
55650523 TTGAGTGGCA
55650533 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
55650547 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
55650561 GGAAAATGTTTT
1 GTAAAATGTTTT
55650573 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:55650585 original size:34 final size:35
Alignment explanation
Indices: 55650541--55650607 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
55650531 CAGTAAAATG
* * *
55650541 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
*
55650575 TTTTCTGTAAAATGACTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTT
55650608 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
Found at i:55650594 original size:20 final size:20
Alignment explanation
Indices: 55650556--55650595 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55650546 CGTAAAATGA
**
55650556 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
55650576 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
55650596 AGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:55651980 original size:27 final size:27
Alignment explanation
Indices: 55651950--55652019 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
55651940 AATAATCAAT
*
55651950 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
55651977 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
55652005 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
55652020 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:55654745 original size:14 final size:14
Alignment explanation
Indices: 55654726--55654753 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55654716 TCTTTAAAAA
55654726 GAATTAACTTATTT
1 GAATTAACTTATTT
55654740 GAATTAACTTATTT
1 GAATTAACTTATTT
55654754 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:55658553 original size:13 final size:13
Alignment explanation
Indices: 55658535--55658561 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55658525 ATAATTTTAA
55658535 TATTTTAATAATT
1 TATTTTAATAATT
55658548 TATTTTAATAATT
1 TATTTTAATAATT
55658561 T
1 T
55658562 TTAAACGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTTAATAATT
Found at i:55658594 original size:30 final size:29
Alignment explanation
Indices: 55658549--55658625 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
55658539 TTAATAATTT
* * *
55658549 ATTTTAATAATTTTTAAACGATTAAATTATT
1 ATTTT-ATTATTTTTAAA-GATTAAAATATA
* *
55658580 TTTTTATTATTTTTAGAAGGTTAAAATATA
1 ATTTTATTATTTTTA-AAGATTAAAATATA
*
55658610 ATTTTATTATTATTAA
1 ATTTTATTATTTTTAA
55658626 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 1 0.03
30 31 0.82
31 6 0.16
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (29 bp):
ATTTTATTATTTTTAAAGATTAAAATATA
Found at i:55658625 original size:22 final size:23
Alignment explanation
Indices: 55658600--55658652 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
55658590 TTTTAGAAGG
*
55658600 TTAAAATATAATTTTAT-TATTA
1 TTAAAATATAATTTTATAAATTA
** *
55658622 TTAATTTAAAATTTTATAAATTA
1 TTAAAATATAATTTTATAAATTA
55658645 -TAAAATAT
1 TTAAAATAT
55658653 TTAAATGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATAATTTTATAAATTA
Found at i:55658643 original size:16 final size:18
Alignment explanation
Indices: 55658619--55658655 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
55658609 AATTTTATTA
*
55658619 TTATTAATT-TAAAAT-T
1 TTATAAATTATAAAATAT
55658635 TTATAAATTATAAAATAT
1 TTATAAATTATAAAATAT
55658653 TTA
1 TTA
55658656 AATGAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATAAATTATAAAATAT
Found at i:55658657 original size:16 final size:16
Alignment explanation
Indices: 55658617--55658658 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
55658607 ATAATTTTAT
*
55658617 TATTATTAATTTAAAA
1 TATTATAAATTTAAAA
*
55658633 TTTTATAAATTATAAAA
1 TATTATAAATT-TAAAA
55658650 TATT-TAAAT
1 TATTATAAAT
55658659 GAAAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTATAAATTTAAAA
Found at i:55660726 original size:9 final size:9
Alignment explanation
Indices: 55660714--55660755 Score: 75
Period size: 9 Copynumber: 4.7 Consensus size: 9
55660704 TTCAATTTGA
55660714 TTAATTCGG
1 TTAATTCGG
*
55660723 TTAATTCAG
1 TTAATTCGG
55660732 TTAATTCGG
1 TTAATTCGG
55660741 TTAATTCGG
1 TTAATTCGG
55660750 TTAATT
1 TTAATT
55660756 TTTAACCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.48
Consensus pattern (9 bp):
TTAATTCGG
Found at i:55662436 original size:12 final size:11
Alignment explanation
Indices: 55662415--55662462 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
55662405 TTTTATCTTA
55662415 ATTCTTTATTT
1 ATTCTTTATTT
55662426 ATTCATTTATTT
1 ATTC-TTTATTT
55662438 ATT-TGCTTATTT
1 ATTCT--TTATTT
55662450 ATATCTTTATTT
1 AT-TCTTTATTT
55662462 A
1 A
55662463 AAACTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 25 0.78
13 1 0.03
14 1 0.03
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTCTTTATTT
Found at i:55662652 original size:28 final size:28
Alignment explanation
Indices: 55662609--55662706 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 28
55662599 CTTTTTTTGT
55662609 ATATACTT-TATA-ATTTTAAAATATAC
1 ATATACTTATATATATTTTAAAATATAC
* *
55662635 ATATACTTATATACATTTT-ATA-ATAC
1 ATATACTTATATATATTTTAAAATATAC
* * * *
55662661 ATATA-TGTACATATATTTTATAATTTAT
1 ATATACT-TATATATATTTTAAAATATAC
*
55662689 ATATACATATATATATTT
1 ATATACTTATATATATTT
55662707 GTTATATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
25 1 0.02
26 27 0.47
27 7 0.12
28 22 0.39
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (28 bp):
ATATACTTATATATATTTTAAAATATAC
Found at i:55664859 original size:48 final size:48
Alignment explanation
Indices: 55664754--55664852 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
55664744 AATTTTCAAA
55664754 ACAAGTTCTCCACGCCTCACTCAATTTAAGCAAGGTGATGTAATTTAC
1 ACAAGTTCTCCACGCCTCACTCAATTTAAGCAAGGTGATGTAATTTAC
*
55664802 ACAAGTTCTCGACGCCTCACTCAATTTAAGCAAGGTGATGTAATTTAC
1 ACAAGTTCTCCACGCCTCACTCAATTTAAGCAAGGTGATGTAATTTAC
55664850 ACA
1 ACA
55664853 GCTTCTCAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (48 bp):
ACAAGTTCTCCACGCCTCACTCAATTTAAGCAAGGTGATGTAATTTAC
Found at i:55666424 original size:24 final size:24
Alignment explanation
Indices: 55666374--55666425 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
55666364 AATCAAAGTC
** *
55666374 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
55666398 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATACT
55666422 AAAT
1 AAAT
55666426 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:55667372 original size:195 final size:195
Alignment explanation
Indices: 55666961--55667539 Score: 908
Period size: 195 Copynumber: 3.0 Consensus size: 195
55666951 CATCTGGTTA
* * *
55666961 TGGAGACAAAGCCGATGAAATTCTAAAATGGGCTGCTAAAGGAGTACTAACAGGGTTAGCACTCT
1 TGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTGCTAAAGGAGTACTAACAGGCTTAGCACTCT
* * *
55667026 GCATATTGAACATGCAAAGAACTTTCTCAATGTACCCATTCTGACTTGGGTACAATTTACTTACT
66 GCATATTGAAC-TGCAAAGAACTTTCTCAATGTACCCATTCTAACTTAGGTACAATTTACTTGCT
* *
55667091 TTTCTATCTCTGAGAATCTCCATACCAAGTATCTTCTTTACTGGTCCCAAATCTTTCATCTGATT
130 TTTCTATCTCTGAGAATCTCCATACCAAGTATCTTATTTACTGGTCCCAAATCTTTCATCTGATC
*
55667156 T
195 G
*
55667157 TGGAGACAAAGCCGATGAAAGTCTGAAATGGGTTGCTAAAGGAGTACTAACAGGCTTAGCACTCT
1 TGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTGCTAAAGGAGTACTAACAGGCTTAGCACTCT
* * *
55667222 ACATATTGAATCTGCAAAGAACTTTCTCAATGTACCCCTTCTAACTTAGGTA-AATTTATTTGCT
66 GCATATTGAA-CTGCAAAGAACTTTCTCAATGTACCCATTCTAACTTAGGTACAATTTACTTGCT
* *
55667286 TTTCTATCTCTAAGAATCTCCATACCAAGTATCTTATTTGCTGGTCCCAAATCTTTCATCTGATC
130 TTTCTATCTCTGAGAATCTCCATACCAAGTATCTTATTTACTGGTCCCAAATCTTTCATCTGATC
55667351 G
195 G
* * * *
55667352 TGGAGACAAAACCAATGAAAGTTTGAAATGGGCTGCTAAAGGAATACTAACAGGCTTAGCACTCT
1 TGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTGCTAAAGGAGTACTAACAGGCTTAGCACTCT
* * *
55667417 GCATATTGAACCTGCAAAGAACTTTCTCAATGTACCCTTTCTTACTTAGATACAATTTACTTGCT
66 GCATATTGAA-CTGCAAAGAACTTTCTCAATGTACCCATTCTAACTTAGGTACAATTTACTTGCT
* *
55667482 TTTCTATCTCTGAGAATCTCCATATCAAGTATCTTATTTACTGGTCTCAAATCTTTCA
130 TTTCTATCTCTGAGAATCTCCATACCAAGTATCTTATTTACTGGTCCCAAATCTTTCA
55667540 GCTCAAATTC
Statistics
Matches: 351, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
195 178 0.51
196 172 0.49
197 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (195 bp):
TGGAGACAAAGCCGATGAAAGTCTGAAATGGGCTGCTAAAGGAGTACTAACAGGCTTAGCACTCT
GCATATTGAACTGCAAAGAACTTTCTCAATGTACCCATTCTAACTTAGGTACAATTTACTTGCTT
TTCTATCTCTGAGAATCTCCATACCAAGTATCTTATTTACTGGTCCCAAATCTTTCATCTGATCG
Found at i:55670890 original size:24 final size:24
Alignment explanation
Indices: 55670874--55670925 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
55670864 AATCAAAGTC
55670874 AAATATATTATGTTAATAAATGCT
1 AAATATATTATGTTAATAAATGCT
** *
55670898 AAATATATTATACTAATAAATACT
1 AAATATATTATGTTAATAAATGCT
55670922 AAAT
1 AAAT
55670926 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATGTTAATAAATGCT
Found at i:55671647 original size:17 final size:17
Alignment explanation
Indices: 55671598--55671651 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
55671588 ATATTACTTG
*
55671598 AATAGTTATATCTACTT
1 AATAGTTATATCTATTT
*
55671615 AAGAG--ATAT-TACTTT
1 AATAGTTATATCTA-TTT
55671630 AATAGTTATATCTATTT
1 AATAGTTATATCTATTT
55671647 AATAG
1 AATAG
55671652 ATTTAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.07
15 10 0.33
17 16 0.53
18 2 0.07
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (17 bp):
AATAGTTATATCTATTT
Found at i:55671836 original size:39 final size:42
Alignment explanation
Indices: 55671760--55671840 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
55671750 TTCTACAAAG
*
55671760 ATAAAGAATTATTGTAGAGCTTTTTTTTAAACAAAATTGATT
1 ATAAAGAATTATTATAGAGCTTTTTTTTAAACAAAATTGATT
55671802 ATAAAGAATTATTATAGAG-TTTTTTTT-AA-AAAATTGATT
1 ATAAAGAATTATTATAGAGCTTTTTTTTAAACAAAATTGATT
55671841 TTCTTGTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 10 0.26
40 2 0.05
41 8 0.21
42 18 0.47
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (42 bp):
ATAAAGAATTATTATAGAGCTTTTTTTTAAACAAAATTGATT
Found at i:55672697 original size:19 final size:19
Alignment explanation
Indices: 55672661--55672698 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
55672651 AGCATGAGTC
* *
55672661 ATCATTAATTTGAGTACCA
1 ATCATTAATTTCAATACCA
55672680 ATCATTAATTTCAATACCA
1 ATCATTAATTTCAATACCA
55672699 TTCAATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (19 bp):
ATCATTAATTTCAATACCA
Found at i:55692777 original size:27 final size:27
Alignment explanation
Indices: 55692738--55692796 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
55692728 ACCCTCTAAA
* *
55692738 GGGTCAAGTTCTAAGTCTTTTTCCAAT
1 GGGTCAAGTTCTAAGGCTTTCTCCAAT
*
55692765 TGGTCAAGTTCTAAGGCTTTCTCCAAT
1 GGGTCAAGTTCTAAGGCTTTCTCCAAT
55692792 GGGTC
1 GGGTC
55692797 TTCTTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTCAAGTTCTAAGGCTTTCTCCAAT
Found at i:55700278 original size:30 final size:30
Alignment explanation
Indices: 55700205--55700285 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
55700195 AGTTTCAACT
* *
55700205 ATCGAACTATGAAAATGAATGGTGACAAAC
1 ATCGAACTATGAAAACGGATGGTGACAAAC
* * * * *
55700235 AT-TAACAATGAAAAGGGATGGTGACGACC
1 ATCGAACTATGAAAACGGATGGTGACAAAC
55700264 ATCGAACTATGAAAACGGATGG
1 ATCGAACTATGAAAACGGATGG
55700286 CTTCGGCTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.19
Consensus pattern (30 bp):
ATCGAACTATGAAAACGGATGGTGACAAAC
Found at i:55700336 original size:30 final size:30
Alignment explanation
Indices: 55700264--55700360 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
55700254 GGTGACGACC
* * *
55700264 ATCGAACTATGAAAACGGATGGCTTCGGCT
1 ATCGAATTATGAAAACAGATGGCTTCAGCT
* * **
55700294 GTCAAACAATGAAAACAGATGGCTTCAGCT
1 ATCGAATTATGAAAACAGATGGCTTCAGCT
* * *
55700324 ATTGAATTATGAAAAGAGATGGCTTCGGCT
1 ATCGAATTATGAAAACAGATGGCTTCAGCT
55700354 ATCGAAT
1 ATCGAAT
55700361 CATAGAAAGG
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (30 bp):
ATCGAATTATGAAAACAGATGGCTTCAGCT
Found at i:55707018 original size:43 final size:42
Alignment explanation
Indices: 55706952--55707033 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
55706942 CTCCGATTTG
*
55706952 TGTTTTCGTGTAAGACTACGTCTGAGACATTGGCATCGAATTA
1 TGTTTTCGTGTAAGACTA-GTCTGAGACAGTGGCATCGAATTA
* *
55706995 TGTTTTCGTGTAAGAACCT-GTCTGGGATAGTGGCATCGA
1 TGTTTTCGTGTAAG-A-CTAGTCTGAGACAGTGGCATCGA
55707034 TCTGTGATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 31 0.91
44 1 0.03
45 2 0.06
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (42 bp):
TGTTTTCGTGTAAGACTAGTCTGAGACAGTGGCATCGAATTA
Found at i:55707072 original size:43 final size:43
Alignment explanation
Indices: 55706960--55707073 Score: 99
Period size: 43 Copynumber: 2.7 Consensus size: 43
55706950 TGTGTTTTCG
* * * * * *
55706960 TGTAAGACTACGTCTGAGACATTGGCATCGAATTATGTTTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAATTATGATTACA
* * *
55707003 TGTAAGAACC-TGTCTGGGATAG-TGGCATCG-ATCTGTGATTACA
1 TGTAAG-ACCACGTCTGGGA-CGTTGGCATCGAAT-TATGATTACA
55707046 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
55707074 TGTACGAGCC
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
42 6 0.11
43 47 0.85
44 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGAATTATGATTACA
Found at i:55708757 original size:17 final size:17
Alignment explanation
Indices: 55708735--55708771 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
55708725 TTGAAAAACC
55708735 CTTCTTGAGATTTCAAA
1 CTTCTTGAGATTTCAAA
**
55708752 CTTCTTGCTATTTCAAA
1 CTTCTTGAGATTTCAAA
55708769 CTT
1 CTT
55708772 GTACAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (17 bp):
CTTCTTGAGATTTCAAA
Found at i:55709588 original size:22 final size:22
Alignment explanation
Indices: 55709558--55709609 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
55709548 AATGGCTAAG
* * *
55709558 AGCCGTAAACAGGATAGCTATA
1 AGCCATAAACAGAATAGCTACA
* *
55709580 AGCTATAAACAGAATGGCTACA
1 AGCCATAAACAGAATAGCTACA
55709602 AGCCATAA
1 AGCCATAA
55709610 GTACAGTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAGCTACA
Found at i:55709672 original size:32 final size:32
Alignment explanation
Indices: 55709601--55709710 Score: 96
Period size: 32 Copynumber: 3.5 Consensus size: 32
55709591 GAATGGCTAC
* * ** *
55709601 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATAAGACCGACACA
* * *
55709632 AAGTCATCAGTAGCAGTGATATGACCGACACA
1 AAGCCATCAGTAGCAGTAATAAGACCGACACA
* * * * *
55709664 CAGCCATCAGTAACGGTAATAAGATCGGCACA
1 AAGCCATCAGTAGCAGTAATAAGACCGACACA
55709696 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
55709711 TCGTAGCAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
31 10 0.16
32 51 0.84
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATAAGACCGACACA
Found at i:55709775 original size:27 final size:27
Alignment explanation
Indices: 55709751--55709807 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
55709741 AACAAAGCTG
*
55709751 CCAGTAATAGT-ATATGTGGCCAAGCCA
1 CCAGTAACAGTGAT-TGTGGCCAAGCCA
55709778 CCAGTAACAGTGATTGTGG-CAGAGCCA
1 CCAGTAACAGTGATTGTGGCCA-AGCCA
55709805 CCA
1 CCA
55709808 ATACAATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.85
28 2 0.07
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCCAAGCCA
Found at i:55709911 original size:24 final size:24
Alignment explanation
Indices: 55709882--55709951 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
55709872 TGCTCAGAAC
55709882 CAGTCATACAAATCACAGACAAAT
1 CAGTCATACAAATCACAGACAAAT
* * *
55709906 CCGTCATACCATTCACAGACAAAT
1 CAGTCATACAAATCACAGACAAAT
**
55709930 CAGTCATTTAAATCACAGACAA
1 CAGTCATACAAATCACAGACAA
55709952 TTAGTAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.20
Consensus pattern (24 bp):
CAGTCATACAAATCACAGACAAAT
Found at i:55709967 original size:23 final size:23
Alignment explanation
Indices: 55709918--55709974 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
55709908 GTCATACCAT
*
55709918 TCACAGACAAATCAGTCATTTAAA
1 TCACAGAC-AATCAGTAATTTAAA
* *
55709942 TCACAGACAATTAGTAATTTACA
1 TCACAGACAATCAGTAATTTAAA
*
55709965 TCACGGACAA
1 TCACAGACAA
55709975 ATCAATCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.25
Consensus pattern (23 bp):
TCACAGACAATCAGTAATTTAAA
Found at i:55710217 original size:81 final size:79
Alignment explanation
Indices: 55710031--55710287 Score: 286
Period size: 81 Copynumber: 3.2 Consensus size: 79
55710021 GGGCATTACG
* * *
55710031 GTCATTTTACCTTAT-AGAGGTATTTCT-TTCATTTAACCCTATGGGGGTATTACAGTCATTTTT
1 GTCATTTTACCTTATGA-AGGTATTT-TGGTCATTTTACCCTAT-GGGGTATTTCAGTCA-TTTT
* *
55710094 TTCCTATGAGAGTATTTC
62 ATCCTATGAGGGTATTTC
* *
55710112 GGTCATTTTACCTTATGAGGGTATTTTGGTCATTTTACCCTATGGGAGTATTTTAGTCATTTTAT
1 -GTCATTTTACCTTATGAAGGTATTTTGGTCATTTTACCCTATGGG-GTATTTCAGTCATTTTAT
*
55710177 CCTATGGGGGTATTTC
64 CCTATGAGGGTATTTC
* * * *
55710193 AGTCATTTTACCTTATGAAGGTATTTTGGTCATTCTACCTTATGAGGGTATTTCGGTCATTCTA-
1 -GTCATTTTACCTTATGAAGGTATTTTGGTCATTTTACCCTATG-GGGTATTTCAGTCATTTTAT
55710257 CCTTATGAGGGTATTTC
64 CC-TATGAGGGTATTTC
*
55710274 GATAATTTTACCTT
1 G-TCATTTTACCTT
55710288 TCAAGGGTAT
Statistics
Matches: 152, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
80 3 0.02
81 101 0.66
82 47 0.31
83 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (79 bp):
GTCATTTTACCTTATGAAGGTATTTTGGTCATTTTACCCTATGGGGTATTTCAGTCATTTTATCC
TATGAGGGTATTTC
Found at i:55710286 original size:54 final size:54
Alignment explanation
Indices: 55710029--55710308 Score: 248
Period size: 54 Copynumber: 5.2 Consensus size: 54
55710019 AGGGGCATTA
** * * * *
55710029 CGGTCATTTTACCTTAT-AGAGGTATTTCTTTCATTTAACCCTATGGGGGTATTA
1 CGGTCATTTTACCTTATGAG-GGTATTTCGATCATTTTACCTTATGAGGGTATTT
* * * *
55710083 CAGTCATTTTTTTCC-TATGAGAGTATTTCGGTCATTTTACCTTATGAGGGTATTT
1 CGGTCA--TTTTACCTTATGAGGGTATTTCGATCATTTTACCTTATGAGGGTATTT
* * * *
55710138 TGGTCATTTTACCCTATG-GGAGTATTT-TAGTCATTTTATCC-TATGGGGGTATTT
1 CGGTCATTTTACCTTATGAGG-GTATTTCGA-TCATTTTA-CCTTATGAGGGTATTT
* * * * *
55710192 CAGTCATTTTACCTTATGAAGGTATTTTGGTCATTCTACCTTATGAGGGTATTT
1 CGGTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCTTATGAGGGTATTT
* * * *
55710246 CGGTCATTCTACCTTATGAGGGTATTTCGATAATTTTACCTT-TCAAGGGTATAT
1 CGGTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCTTAT-GAGGGTATTT
55710300 CGGTCATTT
1 CGGTCATTT
55710309 AACAACCTTT
Statistics
Matches: 181, Mismatches: 34, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
53 10 0.06
54 126 0.70
55 37 0.20
56 8 0.04
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.44
Consensus pattern (54 bp):
CGGTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCTTATGAGGGTATTT
Found at i:55710308 original size:27 final size:27
Alignment explanation
Indices: 55710029--55710308 Score: 203
Period size: 27 Copynumber: 10.3 Consensus size: 27
55710019 AGGGGCATTA
55710029 CGGTCATTTTACCTTAT-AGAGGTATTT
1 CGGTCATTTTACCTTATAAG-GGTATTT
** * * ** *
55710056 CTTTCATTTAACCCTATGGGGGTATTA
1 CGGTCATTTTACCTTATAAGGGTATTT
* * * *
55710083 CAGTCATTTTTTTCC-TATGAGAGTATTT
1 CGGTCA--TTTTACCTTATAAGGGTATTT
*
55710111 CGGTCATTTTACCTTATGAGGGTATTT
1 CGGTCATTTTACCTTATAAGGGTATTT
* * *
55710138 TGGTCATTTTACCCTAT-GGGAGTATTT
1 CGGTCATTTTACCTTATAAGG-GTATTT
** **
55710165 TAGTCATTTTATCC-TATGGGGGTATTT
1 CGGTCATTTTA-CCTTATAAGGGTATTT
*
55710192 CAGTCATTTTACCTTATGAA-GGTATTT
1 CGGTCATTTTACCTTAT-AAGGGTATTT
* * *
55710219 TGGTCATTCTACCTTATGAGGGTATTT
1 CGGTCATTTTACCTTATAAGGGTATTT
* *
55710246 CGGTCATTCTACCTTATGAGGGTATTT
1 CGGTCATTTTACCTTATAAGGGTATTT
* * *
55710273 CGATAATTTTACCTT-TCAAGGGTATAT
1 CGGTCATTTTACCTTAT-AAGGGTATTT
55710300 CGGTCATTT
1 CGGTCATTT
55710309 AACAACCTTT
Statistics
Matches: 207, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
26 12 0.06
27 169 0.82
28 21 0.10
29 5 0.02
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.44
Consensus pattern (27 bp):
CGGTCATTTTACCTTATAAGGGTATTT
Found at i:55720180 original size:42 final size:42
Alignment explanation
Indices: 55720125--55720211 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
55720115 CAATGTCATT
* * * * *
55720125 TGTGTTAGGGAATAAATTTTGTTTCAAATTTG-TATTAGTGTG
1 TGTGTCAGGGAATAAATTCTCTTACAAATTTGCTA-TAATGTG
55720167 TGTGTCAGGGAATAAATTCTCTTACAAATTTGCTATAATGTG
1 TGTGTCAGGGAATAAATTCTCTTACAAATTTGCTATAATGTG
55720209 TGT
1 TGT
55720212 CAAGGAATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.44
Consensus pattern (42 bp):
TGTGTCAGGGAATAAATTCTCTTACAAATTTGCTATAATGTG
Found at i:55733313 original size:29 final size:29
Alignment explanation
Indices: 55733271--55733458 Score: 170
Period size: 29 Copynumber: 6.4 Consensus size: 29
55733261 TCATTAACAA
55733271 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
55733300 ATGAAAAGGGATAGC-TCTGGCTATCGATT
1 ATGAAAAGGGATAGCTTC-GGCTATCGAAT
* * *
55733329 ATGAAAAGGGATAGTTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
55733358 ATGAAAAGGGAT-G-TGAT-GACCATCGAACT
1 ATGAAAAGGGATAGCT--TCGGCTATCGAA-T
* *
55733387 ATGAAAAGGGATGGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
** **
55733416 CATGAAAACAGATAGC-TCTGGCTATAAAATT
1 -ATGAAAAGGGATAGCTTC-GGCTATCGAA-T
55733447 ATGAAAAGGGAT
1 ATGAAAAGGGAT
55733459 GGTGACGACC
Statistics
Matches: 134, Mismatches: 14, Indels: 21
0.79 0.08 0.12
Matches are distributed among these distances:
27 1 0.01
28 11 0.08
29 79 0.59
30 41 0.31
31 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:55733341 original size:58 final size:58
Alignment explanation
Indices: 55733271--55733458 Score: 209
Period size: 58 Copynumber: 3.2 Consensus size: 58
55733261 TCATTAACAA
55733271 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTCTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTCTGGCTATCGATT
* * * * * * *
55733329 ATGAAAAGGGATAGTTTCGACTATCGATTATGAAAAGGGAT-G-TGATGACCATCGAACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCT-CTGGCTATCG-ATT
* * ** **
55733387 ATGAAAAGGGATGGCTTCGGCTATCAAATCATGAAAACAGATAGCTCTGGCTATAAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT-ATGAAAAGGGATAGCTCTGGCTAT-CGATT
55733447 ATGAAAAGGGAT
1 ATGAAAAGGGAT
55733459 GGTGACGACC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
56 1 0.01
57 8 0.08
58 64 0.62
59 10 0.10
60 20 0.19
61 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.25
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTCTGGCTATCGATT
Found at i:55733542 original size:30 final size:31
Alignment explanation
Indices: 55733448--55733544 Score: 123
Period size: 29 Copynumber: 3.3 Consensus size: 31
55733438 TATAAAATTA
*
55733448 TGAAAAGGGATGGTGACGACCATCAACAATG
1 TGAAAAGGGTTGGTGACGACCATCAACAATG
* *
55733479 -G-AAAGGGTTGGTGACAATCATCAACAA--
1 TGAAAAGGGTTGGTGACGACCATCAACAATG
*
55733506 TGAAAAGGGTTGGTGATGACCATCAA-AATG
1 TGAAAAGGGTTGGTGACGACCATCAACAATG
55733536 TGAAAAGGG
1 TGAAAAGGG
55733545 GTAGCTTCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.05
29 43 0.77
30 10 0.18
ACGTcount: A:0.39, C:0.12, G:0.30, T:0.19
Consensus pattern (31 bp):
TGAAAAGGGTTGGTGACGACCATCAACAATG
Found at i:55738141 original size:15 final size:15
Alignment explanation
Indices: 55738116--55738150 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
55738106 GACTCTATTT
*
55738116 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
55738130 TAATTAATATTAAGA
1 TAATTAATATTAAGA
55738145 TAATTA
1 TAATTA
55738151 TTAATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:55743094 original size:14 final size:15
Alignment explanation
Indices: 55743069--55743100 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
55743059 TTTTTTAACC
55743069 AAAATAAAAATAAAT
1 AAAATAAAAATAAAT
55743084 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
55743098 AAA
1 AAA
55743101 TGTAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAAATAAAT
Found at i:55746755 original size:35 final size:35
Alignment explanation
Indices: 55746709--55746794 Score: 118
Period size: 35 Copynumber: 2.5 Consensus size: 35
55746699 GTTGATGTTC
55746709 TGATTCACATGTTAAGTATGTCATATTTCTGATTA
1 TGATTCACATGTTAAGTATGTCATATTTCTGATTA
* * * * *
55746744 TGATTCGCATGTTAAATATGTCATATTTTTTATTC
1 TGATTCACATGTTAAGTATGTCATATTTCTGATTA
*
55746779 TAATTCACATGTTAAG
1 TGATTCACATGTTAAG
55746795 CATGCCTACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (35 bp):
TGATTCACATGTTAAGTATGTCATATTTCTGATTA
Found at i:55748264 original size:96 final size:96
Alignment explanation
Indices: 55748100--55748290 Score: 373
Period size: 96 Copynumber: 2.0 Consensus size: 96
55748090 GGAATAAGAA
55748100 AGTTTACACTCAGAACTTAGAGTAGGGGTTTAGGCTACTCCTAAGCTCCCATTTAACACTATGAA
1 AGTTTACACTCAGAACTTAGAGTAGGGGTTTAGGCTACTCCTAAGCTCCCATTTAACACTATGAA
55748165 TCGTGACTACAAGCAGTGATTCTAAACACTC
66 TCGTGACTACAAGCAGTGATTCTAAACACTC
*
55748196 AGTTTACACTCAGAACTTAGAGTAGGGGTTTAGGCTACTCCTAAGCTTCCATTTAACACTATGAA
1 AGTTTACACTCAGAACTTAGAGTAGGGGTTTAGGCTACTCCTAAGCTCCCATTTAACACTATGAA
55748261 TCGTGACTACAAGCAGTGATTCTAAACACT
66 TCGTGACTACAAGCAGTGATTCTAAACACT
55748291 TACCGTTCAC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (96 bp):
AGTTTACACTCAGAACTTAGAGTAGGGGTTTAGGCTACTCCTAAGCTCCCATTTAACACTATGAA
TCGTGACTACAAGCAGTGATTCTAAACACTC
Found at i:55750875 original size:58 final size:58
Alignment explanation
Indices: 55750784--55750902 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 58
55750774 TTACCCTTGT
*
55750784 TTTTGAGCGTGGAAGTAGTAATGTTTTATTTTTTTACTTAAGGGTAATATAGGCCTTC
1 TTTTGAGCATGGAAGTAGTAATGTTTTATTTTTTTACTTAAGGGTAATATAGGCCTTC
55750842 TTTTGAGCATGGAAGTAGTAATGTTTTTATTTTTTTTACTTAAGGGTAATATAGGCCTTC
1 TTTTGAGCATGGAAGTAGTAATG-TTTTA-TTTTTTTACTTAAGGGTAATATAGGCCTTC
55750902 T
1 T
55750903 AATATAAGGC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 22 0.38
59 5 0.09
60 31 0.53
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.46
Consensus pattern (58 bp):
TTTTGAGCATGGAAGTAGTAATGTTTTATTTTTTTACTTAAGGGTAATATAGGCCTTC
Found at i:55764313 original size:25 final size:24
Alignment explanation
Indices: 55764272--55764332 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
55764262 AGCTCATGCT
55764272 AGCTAAATATC-AGTAAGCTCAT-ACG
1 AGCTAAA-ATCGA-TAAGCTC-TCACG
55764297 AGCTAAGAATCGATAAGCTCTCACG
1 AGCTAA-AATCGATAAGCTCTCACG
55764322 AGCTAAAATCG
1 AGCTAAAATCG
55764333 GTAACCCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
24 6 0.18
25 25 0.76
26 2 0.06
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (24 bp):
AGCTAAAATCGATAAGCTCTCACG
Found at i:55764326 original size:50 final size:48
Alignment explanation
Indices: 55764219--55764336 Score: 121
Period size: 50 Copynumber: 2.4 Consensus size: 48
55764209 GGTATACTCT
* * * * *
55764219 TACGAGCTATAATCAGTAAGCTCTTGCGAGCTGAGTAAT-GATCAGCTC
1 TACGAGCTAAAATCAGTAAGCTCATACGAGCTAAG-AATCGATAAGCTC
* *
55764267 ATGCTAGCTAAATATCAGTAAGCTCATACGAGCTAAGAATCGATAAGCTC
1 -TACGAGCTAAA-ATCAGTAAGCTCATACGAGCTAAGAATCGATAAGCTC
*
55764317 TCACGAGCTAAAATCGGTAA
1 T-ACGAGCTAAAATCAGTAA
55764337 CCCTAATAAC
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
49 19 0.34
50 37 0.66
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (48 bp):
TACGAGCTAAAATCAGTAAGCTCATACGAGCTAAGAATCGATAAGCTC
Found at i:55772740 original size:57 final size:57
Alignment explanation
Indices: 55772625--55772740 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
55772615 TTTACGTCCT
* * * * *
55772625 GTATCACGTGGCCCGGCTCAAGGAGTTTCGGAGAAAACGAGCGGGATTTGGGCCGGC
1 GTATCACGTGGCCCGACTCAAGGAGTATCAGAGAAAACGAACGGGATTAGGGCCGGC
*
55772682 GTATCACGTGGCCCGACTCAAGGAGTATCAGAGAAAACGAACAGGG-TTAGGGCTGGC
1 GTATCACGTGGCCCGACTCAAGGAGTATCAGAGAAAACGAAC-GGGATTAGGGCCGGC
55772739 GT
1 GT
55772741 CCCCTGGAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 49 0.94
58 3 0.06
ACGTcount: A:0.25, C:0.22, G:0.36, T:0.17
Consensus pattern (57 bp):
GTATCACGTGGCCCGACTCAAGGAGTATCAGAGAAAACGAACGGGATTAGGGCCGGC
Found at i:55781849 original size:38 final size:36
Alignment explanation
Indices: 55781807--55781949 Score: 190
Period size: 38 Copynumber: 4.0 Consensus size: 36
55781797 CACTATTTTG
55781807 TATGAGTCATAAAAGTAAGTTTGTTTGTTATGTAAA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTATGTAAA
55781843 TCTATGAGTCATAAAAGTAAGTTTGTTTGTTATGTGAAA
1 --TATGAGTCATAAAAGTAAGTTTGTTTGTTATGT-AAA
*
55781882 GTATGAGTCAAAAAAGTAAGTTTGTTTG---T-T--A
1 -TATGAGTCATAAAAGTAAGTTTGTTTGTTATGTAAA
*
55781913 TATGAGTCATAAAAGTAAGTTTGTTTATTATGTAAA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTATGTAAA
55781949 T
1 T
55781950 GAGATTCCTC
Statistics
Matches: 94, Mismatches: 4, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
30 25 0.27
31 1 0.01
33 1 0.01
34 2 0.02
35 1 0.01
36 2 0.02
38 59 0.63
39 3 0.03
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (36 bp):
TATGAGTCATAAAAGTAAGTTTGTTTGTTATGTAAA
Found at i:55781919 original size:30 final size:30
Alignment explanation
Indices: 55781883--55781943 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
55781873 TATGTGAAAG
*
55781883 TATGAGTCAAAAAAGTAAGTTTGTTTGTTA
1 TATGAGTCAAAAAAGTAAGTTTGTTTATTA
*
55781913 TATGAGTCATAAAAGTAAGTTTGTTTATTA
1 TATGAGTCAAAAAAGTAAGTTTGTTTATTA
55781943 T
1 T
55781944 GTAAATGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (30 bp):
TATGAGTCAAAAAAGTAAGTTTGTTTATTA
Found at i:55782718 original size:25 final size:27
Alignment explanation
Indices: 55782684--55782734 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
55782674 ATATTATTAA
55782684 TATAATATA-TAA-ATGTTATAATAAG
1 TATAATATATTAATATGTTATAATAAG
55782709 TATAATATATTAATATGTTATAATAA
1 TATAATATATTAATATGTTATAATAA
55782735 ACATTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAATATATTAATATGTTATAATAAG
Found at i:55790832 original size:25 final size:27
Alignment explanation
Indices: 55790798--55790848 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
55790788 ATATTATTAA
55790798 TATAATATA-TAA-ATGTTATAATAAG
1 TATAATATATTAATATGTTATAATAAG
55790823 TATAATATATTAATATGTTATAATAA
1 TATAATATATTAATATGTTATAATAA
55790849 ACATTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAATATATTAATATGTTATAATAAG
Found at i:55791204 original size:27 final size:27
Alignment explanation
Indices: 55791174--55791225 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
55791164 ATTTGACTAA
*
55791174 TTAGGG-CTAAATTGAAAAAATAAATTT
1 TTAGGGACTAAAATG-AAAAATAAATTT
*
55791201 TTAGGGACTAAAATGCAAAATAAAT
1 TTAGGGACTAAAATGAAAAATAAAT
55791226 GAAATGCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (27 bp):
TTAGGGACTAAAATGAAAAATAAATTT
Found at i:55793951 original size:23 final size:24
Alignment explanation
Indices: 55793925--55793972 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
55793915 CCACATGGAA
* *
55793925 ATTAAATTTTTTTTA-AAAAATAT
1 ATTAAATTTTATTGATAAAAATAT
55793948 ATTAAATTTTATTGATAAAAATAT
1 ATTAAATTTTATTGATAAAAATAT
55793972 A
1 A
55793973 AAAATATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTAAATTTTATTGATAAAAATAT
Found at i:55794385 original size:18 final size:17
Alignment explanation
Indices: 55794346--55794392 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
55794336 AATTTTATTT
*
55794346 TTATA-ATTTTTTATAA
1 TTATATATTTTTTCTAA
55794362 TT-TATATTTTTTCTAGA
1 TTATATATTTTTTCTA-A
*
55794379 TTATATATATTTTC
1 TTATATATTTTTTC
55794393 CGAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 2 0.08
16 11 0.42
17 3 0.12
18 10 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATATATTTTTTCTAA
Found at i:55794808 original size:23 final size:23
Alignment explanation
Indices: 55794782--55794826 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
55794772 GTACCTGAAC
55794782 TCTTTATAAATTTT-AGAATTCAG
1 TCTTT-TAAATTTTCAGAATTCAG
* *
55794805 TCTTTTAATTTTTCAGATTTCA
1 TCTTTTAAATTTTCAGAATTCA
55794827 ATTAACATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (23 bp):
TCTTTTAAATTTTCAGAATTCAG
Found at i:55795040 original size:29 final size:28
Alignment explanation
Indices: 55794985--55795041 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
55794975 ATTTTATTAA
55794985 TTTAAAAGAAAAATAAAGAGATTAAATT
1 TTTAAAAGAAAAATAAAGAGATTAAATT
*
55795013 TTTAAAAGTAAAGATATAAG-GATTAAATT
1 TTTAAAAG-AAAAATA-AAGAGATTAAATT
55795042 GTAAATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.31
29 15 0.58
30 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (28 bp):
TTTAAAAGAAAAATAAAGAGATTAAATT
Found at i:55795046 original size:28 final size:26
Alignment explanation
Indices: 55794983--55795046 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 26
55794973 AAATTTTATT
55794983 AATTTAAAAGAAAAATAAAGAGATTA
1 AATTTAAAAGAAAAATAAAGAGATTA
*
55795009 AATTTTTAAAAGTAAAGATATAAG-GATTA
1 AA--TTTAAAAG-AAAAATA-AAGAGATTA
55795038 AATTGTAAA
1 AATT-TAAA
55795047 TTTGTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 2 0.06
27 2 0.06
28 12 0.38
29 13 0.41
30 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (26 bp):
AATTTAAAAGAAAAATAAAGAGATTA
Found at i:55795552 original size:3 final size:3
Alignment explanation
Indices: 55795544--55795577 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
55795534 CGTTTCATCA
55795544 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
55795578 GGTACTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:55797099 original size:45 final size:45
Alignment explanation
Indices: 55797048--55797133 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
55797038 TTCATCATCT
*
55797048 GAAATTGTGAACACGTCAATGGGATTCGGATTTGGGGTACCTTCA
1 GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACCTTCA
* *
55797093 GAAATTGTGACCGCGTCAATGGGATTCGGATTTAGGGTACC
1 GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACC
55797134 CAAAGCTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (45 bp):
GAAATTGTGAACACGTCAATGGGATTCGGATTTAGGGTACCTTCA
Found at i:55798687 original size:24 final size:23
Alignment explanation
Indices: 55798605--55798687 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
55798595 TTAACTGCTT
* *
55798605 ATTAATATATTCTTAAAAAATTTA
1 ATTAA-ATATTATTAATAAATTTA
* * *
55798629 TTTAAATAATTA-TCATAAAATTA
1 ATTAAAT-ATTATTAATAAATTTA
*
55798652 ATT-TATATTTATTAATAAATTTTA
1 ATTAAATA-TTATTAATAAA-TTTA
55798676 ATTAAATATTAT
1 ATTAAATATTAT
55798688 ATAAGTTGAT
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
21 1 0.02
22 5 0.11
23 18 0.41
24 17 0.39
25 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTAAATATTATTAATAAATTTA
Found at i:55803120 original size:5 final size:6
Alignment explanation
Indices: 55803104--55803139 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
55803094 TAATTTAGTC
* *
55803104 ATTTTT ATTTTT ATTTTT ATTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
55803140 GCATTCTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:55808716 original size:5 final size:5
Alignment explanation
Indices: 55808706--55808769 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
55808696 ATGAGGATCA
* *
55808706 TTTAT TTTAT TTGT-T TTCT-T TTTAGT TTTCT TTTAT TTTAT TTTCT
1 TTTAT TTTAT TT-TAT TT-TAT TTTA-T TTTAT TTTAT TTTAT TTTAT
*
55808752 TTTGT TTTAT GTTTAT TT
1 TTTAT TTTAT -TTTAT TT
55808770 CTCTTCTTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
4 1 0.02
5 38 0.78
6 10 0.20
ACGTcount: A:0.11, C:0.05, G:0.06, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:55808751 original size:15 final size:15
Alignment explanation
Indices: 55808706--55808761 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
55808696 ATGAGGATCA
55808706 TTTATTTTATTTGT-T
1 TTTATTTTATTT-TCT
55808721 TTCT-TTTTAGTTTTCT
1 TT-TATTTTA-TTTTCT
55808737 TTTATTTTATTTTCT
1 TTTATTTTATTTTCT
*
55808752 TTTGTTTTAT
1 TTTATTTTAT
55808762 GTTTATTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 24 0.67
16 12 0.33
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (15 bp):
TTTATTTTATTTTCT
Found at i:55808759 original size:20 final size:22
Alignment explanation
Indices: 55808731--55808774 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
55808721 TTCTTTTTAG
55808731 TTTTCTTTTAT-TTTATTT-TC
1 TTTTCTTTTATGTTTATTTCTC
*
55808751 TTTTGTTTTATGTTTATTTCTC
1 TTTTCTTTTATGTTTATTTCTC
55808773 TT
1 TT
55808775 CTTAGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 7 0.33
22 4 0.19
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTCTTTTATGTTTATTTCTC
Found at i:55808760 original size:31 final size:32
Alignment explanation
Indices: 55808706--55808765 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
55808696 ATGAGGATCA
55808706 TTTATTTTATTTGTTTTCTTTTTA-GTTTTCT
1 TTTATTTTATTTGTTTTCTTTTTATGTTTTCT
55808737 TTTATTTTATTT-TCTTT-TGTTTTATGTTT
1 TTTATTTTATTTGT-TTTCT-TTTTATGTTT
55808766 ATTTCTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 2 0.08
31 20 0.77
32 4 0.15
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (32 bp):
TTTATTTTATTTGTTTTCTTTTTATGTTTTCT
Found at i:55808814 original size:37 final size:37
Alignment explanation
Indices: 55808715--55808814 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 37
55808705 ATTTATTTTA
* *
55808715 TTTGTTTTCTTTTTAGTTTTCTTTTA-TT-TTATTTTCT
1 TTTGTTTTATTTTTA-TTTTC-TTTACTTCTTATGTTCT
* *
55808752 TTTGTTTTATGTTTA-TTTC--T-CTTCTTA-GTTGT
1 TTTGTTTTATTTTTATTTTCTTTACTTCTTATGTTCT
55808784 TTTGTTTTATTTTTATTTTCTTGTACTTCTT
1 TTTGTTTTATTTTTATTTTCTT-TACTTCTT
55808815 TTAATTATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
32 20 0.39
33 7 0.14
35 4 0.08
36 1 0.02
37 19 0.37
ACGTcount: A:0.09, C:0.09, G:0.08, T:0.74
Consensus pattern (37 bp):
TTTGTTTTATTTTTATTTTCTTTACTTCTTATGTTCT
Found at i:55819117 original size:7 final size:7
Alignment explanation
Indices: 55819105--55819137 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
55819095 TTTGGTGGTG
55819105 CTCATCA
1 CTCATCA
55819112 CTCATCA
1 CTCATCA
55819119 CTCATCA
1 CTCATCA
55819126 CTCATCA
1 CTCATCA
55819133 CTCAT
1 CTCAT
55819138 TCTTTTACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.30
Consensus pattern (7 bp):
CTCATCA
Found at i:55822846 original size:96 final size:94
Alignment explanation
Indices: 55822734--55823043 Score: 406
Period size: 96 Copynumber: 3.2 Consensus size: 94
55822724 GTTTTTAGAT
* * * * * * *
55822734 TTTAGGGTTTTAAGGAAAATTTTAAACAAATAAGGGTTTAGAGTTTCTTAATTAAATTAATTATA
1 TTTAGGTTTTTAAGGAAAA-ATTAAA-AAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
*
55822799 AATTTT-AAAAAATTAGATTAGGGTTTAGTG
64 AATTTTAAAAAAATTAGATTAGGGTTTAGTA
*
55822829 TTTATGTTTTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTA-GGTTTTTAAGG-AAAAATTAAA-AAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
*
55822894 AATTTTTTTAAAAAAATTAGATTAGGGTTTAGTA
63 AA--ATTTTAAAAAAATTAGATTAGGGTTTAGTA
* * *
55822928 TTTAGGGTTTTAAGGAAAAAATAAAAAATTAGGGTTTAGGGTTGCTTGAGTAAATTAATTATAAA
1 TTTAGGTTTTTAAGGAAAAATTAAAAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA
*
55822993 TTTTAAAAAAATTAGATTGGGGTTTAGTA
66 TTTTAAAAAAATTAGATTAGGGTTTAGTA
*
55823022 TTTAGGGTTTTTAAGAAAAAAT
1 TTTA-GGTTTTTAAGGAAAAAT
55823044 CAAATAAAAC
Statistics
Matches: 189, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
94 32 0.17
95 18 0.10
96 86 0.46
97 13 0.07
98 13 0.07
99 27 0.14
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.41
Consensus pattern (94 bp):
TTTAGGTTTTTAAGGAAAAATTAAAAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA
TTTTAAAAAAATTAGATTAGGGTTTAGTA
Found at i:55827317 original size:41 final size:41
Alignment explanation
Indices: 55827245--55827522 Score: 316
Period size: 41 Copynumber: 6.8 Consensus size: 41
55827235 CTTTCGGGGT
* * **
55827245 TTTAGCAGCGTTTTTTGAGAAAGCG-CGCTAATGCTCAGGGC
1 TTTAGCGGCG-TTTTTGGGAAAGCGCCGCTAATAATCAGGGC
* *
55827286 TTTAGCGGCGTTTTTGGGAAAGCGCCTCTAATGATCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATAATCAGGGC
*
55827327 TTTAGTGGCGTTTTTGGGAAAGCGCCGCTAATAATCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATAATCAGGGC
* *
55827368 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATAATCAGGGC
* *
55827409 TTTAGCGGCGTTTTT--GAAGTAGCGCCGCTAATACTCATGGC
1 TTTAGCGGCGTTTTTGGGAA--AGCGCCGCTAATAATCAGGGC
* * * **
55827450 TTTAGCGGCGTTTTT-GAAGAAGCGCCGCTAATACTTACAGC
1 TTTAGCGGCGTTTTTGGGA-AAGCGCCGCTAATAATCAGGGC
55827491 TTTAGCGGCGTTTTT--GAATTAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGAA--AGCGCCGCTAAT
55827523 TCTCTATTTT
Statistics
Matches: 211, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
39 4 0.02
40 14 0.07
41 191 0.91
42 1 0.00
43 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATAATCAGGGC
Found at i:55827546 original size:82 final size:80
Alignment explanation
Indices: 55827266--55827562 Score: 219
Period size: 82 Copynumber: 3.6 Consensus size: 80
55827256 TTTTTGAGAA
* * ** * * **
55827266 AGCG-CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCTCTAATGA-TCAGGGCTT
1 AGCGCCGCTAATACTCA-TGCTTTAGCGGCGTTTTT-AAAAAGCGCCACTAAT-ACTTACAGCTT
*
55827329 TAGTGGCGTTTTTGGGAA--
63 TAGCGGCGTTTTT--GAAGT
* * ** * * ** *
55827347 AGCGCCGCTAATAATCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGA-TCAGGGATT
1 AGCGCCGCTAATACTCA-TGCTTTAGCGGCGTTTTT-AAAAAGCGCCACTAAT-ACTTACAGCTT
55827411 TAGCGGCGTTTTTGAAGT
63 TAGCGGCGTTTTTGAAGT
* *
55827429 AGCGCCGCTAATACTCATGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATACTTACAGCTTT
1 AGCGCCGCTAATACTCAT-GCTTTAGCGGCGTTTTT-AAAAAGCGCCACTAATACTTACAGCTTT
*
55827494 AGCGGCGTTTTTGAATT
64 AGCGGCGTTTTTGAAGT
* * * *
55827511 AGCGCCGCTAATTCTCTAT-TTTTAGTGGCATTTTTTAAAAAGCGCCACTAAT
1 AGCGCCGCTAATACTC-ATGCTTTAGCGGC-GTTTTTAAAAAGCGCCACTAAT
55827563 GCTCAGGAAT
Statistics
Matches: 188, Mismatches: 21, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
80 3 0.02
81 27 0.14
82 156 0.83
83 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (80 bp):
AGCGCCGCTAATACTCATGCTTTAGCGGCGTTTTTAAAAAGCGCCACTAATACTTACAGCTTTAG
CGGCGTTTTTGAAGT
Found at i:55828551 original size:14 final size:14
Alignment explanation
Indices: 55828534--55828581 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
55828524 GGATTATGAA
55828534 TTAAGGTTTGGGGT
1 TTAAGGTTTGGGGT
*
55828548 TTAAGGGTTGGGGT
1 TTAAGGTTTGGGGT
55828562 TTAAGGTTTAGGGG-
1 TTAAGGTTT-GGGGT
55828576 TTAAGG
1 TTAAGG
55828582 GTTTATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
TTAAGGTTTGGGGT
Found at i:55829108 original size:20 final size:19
Alignment explanation
Indices: 55829080--55829148 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 19
55829070 TTCTTACATA
*
55829080 AAAAATTATATAAAAATTTT
1 AAAATTTAT-TAAAAATTTT
***
55829100 AAAATTTATCTAATTCTTTT
1 AAAATTTAT-TAAAAATTTT
55829120 -AAATATTACTT-AAAATTTT
1 AAAAT-TTA-TTAAAAATTTT
55829139 AAAATTTATT
1 AAAATTTATT
55829149 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.05
19 12 0.32
20 23 0.61
21 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATTTATTAAAAATTTT
Found at i:55833744 original size:43 final size:43
Alignment explanation
Indices: 55833683--55833881 Score: 224
Period size: 43 Copynumber: 4.6 Consensus size: 43
55833673 GAAGTGTCGT
* * *
55833683 TAAAGGTCATGAG-CTTTAGCGGCGATTGTGGCAAAAGCACCGC
1 TAAAGGTCTTG-GTCTTTAGCGGCGTTTGTGGGAAAAGCACCGC
* *
55833726 TAAAGTTACTT-GTCTTTAGCGGCGCTTGTGGGAAAAG-AGCCGC
1 TAAAGGT-CTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCA-CCGC
* * *
55833769 TAAAGGTCCTGGTATTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCGC
* ** **
55833812 TAAAAGTCTTGGTCTTTAGTAGCGTTTGTGGGAAAAGTGCCGC
1 TAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCGC
*
55833855 TAAAGGTCTTGGCCTTTAGCGGCGTTT
1 TAAAGGTCTTGGTCTTTAGCGGCGTTT
55833882 TTACAAAAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
42 4 0.03
43 126 0.95
44 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (43 bp):
TAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCGC
Found at i:55833879 original size:86 final size:85
Alignment explanation
Indices: 55833674--55833881 Score: 249
Period size: 86 Copynumber: 2.4 Consensus size: 85
55833664 TTTTTAATAG
* * *
55833674 AAGTGTCGTTAAAGGTCATGAGCTTTAGCGGCGATTGTGGCAAAAGCACCGCTAAAGTTACTTGT
1 AAGTGCCGCTAAAGGTCATG-GCTTTAGCGGCGTTTGTGGCAAAAGCACCGCTAAAGTTACTTGT
*
55833739 CTTTAGCGGCGCTTGTGGGAA
65 CTTTAGCAGCGCTTGTGGGAA
* * * * *
55833760 AAGAGCCGCTAAAGGTCCTGGTATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAG-T-CTTG
1 AAGTGCCGCTAAAGGTCATGG-CTTTAGCGGCGTTTGTGGCAAAAGCACCGCT-AAAGTTACTT-
* *
55833823 GTCTTTAGTAGCGTTTGTGGGAA
63 GTCTTTAGCAGCGCTTGTGGGAA
*
55833846 AAGTGCCGCTAAAGGTCTTGGCCTTTAGCGGCGTTT
1 AAGTGCCGCTAAAGGTCATGG-CTTTAGCGGCGTTT
55833882 TTACAAAAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
85 4 0.04
86 96 0.92
87 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (85 bp):
AAGTGCCGCTAAAGGTCATGGCTTTAGCGGCGTTTGTGGCAAAAGCACCGCTAAAGTTACTTGTC
TTTAGCAGCGCTTGTGGGAA
Found at i:55833904 original size:86 final size:85
Alignment explanation
Indices: 55833683--55833904 Score: 223
Period size: 86 Copynumber: 2.6 Consensus size: 85
55833673 GAAGTGTCGT
* * *** * *
55833683 TAAAGGTCATGAGC-TTTAGCGGCGATTGTGGCAAAAGCACCGCTAAAGTTACTTGTCTTTAGCG
1 TAAAGGTCCTG-GCATTTAGCGGCGTTTGTCAAAAAAGCGCCGCTAAAG-TACTTGTCTTTAGCA
55833747 GCGCTTGTGGGAAAAGAGCCGC
64 GCGCTTGTGGGAAAAGAGCCGC
* *** *
55833769 TAAAGGTCCTGGTATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGT-CTTGGTCTTTAGTA
1 TAAAGGTCCTGGCATTTAGCGGCGTTTGTCAAAAAAGCGCCGCT-AAAGTACTT-GTCTTTAGCA
* *
55833833 GCGTTTGTGGGAAAAGTGCCGC
64 GCGCTTGTGGGAAAAGAGCCGC
* * * *
55833855 TAAAGGTCTTGGCCTTTAGCGGCGTTTTTACAAAAAATCGCCGCTAAAGT
1 TAAAGGTCCTGGCATTTAGCGGCGTTTGT-CAAAAAAGCGCCGCTAAAGT
55833905 TAGCGACGCG
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
85 4 0.03
86 96 0.83
87 15 0.13
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (85 bp):
TAAAGGTCCTGGCATTTAGCGGCGTTTGTCAAAAAAGCGCCGCTAAAGTACTTGTCTTTAGCAGC
GCTTGTGGGAAAAGAGCCGC
Found at i:55835896 original size:21 final size:21
Alignment explanation
Indices: 55835870--55835909 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55835860 CAAAACAACG
*
55835870 TAGTTTTGCCTTTTAACTTAA
1 TAGTTTTGACTTTTAACTTAA
55835891 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
55835910 TAGAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:55836027 original size:31 final size:31
Alignment explanation
Indices: 55835992--55836050 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
55835982 GTGTAATTCA
*
55835992 TATTCGAGGTAAACCAAAAAACTTAATTTTT
1 TATTCAAGGTAAACCAAAAAACTTAATTTTT
* * * *
55836023 TATTCAAGTTGATCCAAATAACTTAATT
1 TATTCAAGGTAAACCAAAAAACTTAATT
55836051 AACTCAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (31 bp):
TATTCAAGGTAAACCAAAAAACTTAATTTTT
Found at i:55839988 original size:24 final size:24
Alignment explanation
Indices: 55839961--55840008 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
55839951 CATATAATCA
*
55839961 CATATATACACATAAATTAAATTC
1 CATAAATACACATAAATTAAATTC
55839985 CATAAATACACATAAATTAAATTC
1 CATAAATACACATAAATTAAATTC
55840009 AATCTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (24 bp):
CATAAATACACATAAATTAAATTC
Found at i:55841146 original size:41 final size:41
Alignment explanation
Indices: 55841100--55841179 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
55841090 CTTTCAATCC
*
55841100 AAGTAAATTCGCTTACCCGAAACCTAATTAACTACACAAAT
1 AAGTAAATTCGCTTAACCGAAACCTAATTAACTACACAAAT
55841141 AAGTAAATTCGCTTAACCGAAACCTAATTAACTACACAA
1 AAGTAAATTCGCTTAACCGAAACCTAATTAACTACACAA
55841180 CTAACTTCGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (41 bp):
AAGTAAATTCGCTTAACCGAAACCTAATTAACTACACAAAT
Found at i:55856038 original size:40 final size:40
Alignment explanation
Indices: 55855994--55856416 Score: 457
Period size: 40 Copynumber: 10.3 Consensus size: 40
55855984 ACCACAAATT
* *
55855994 TTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTCAAGTC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGACTCAAGTC
55856034 TTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAC-CACAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATC-G-ACTCA-AG-TC
**
55856076 TTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAACACAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATC-GACTCA-AG-TC
**
55856118 TTATCTCCCTAAATAGTAGTGGAGCAGATCG-CTTCAAGTC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAC-TCAAGTC
*
55856158 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGACTCAAGTC
* ** *
55856198 TTATCTCCCTAAGTAACAGTGGAGCAGA-CAGAATCATAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATC-GACTCA-AG-TC
* *
55856240 TTATCTCCCTAAGCAGTAGTAGAGCAGATCGCCTCAAGTC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGACTCAAGTC
* * * *
55856280 TTATCTCCCTAAGTAATGGTGGAGCAGA-CAGAATCATAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATC-GACTCA-AG-TC
55856322 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGACTCAAGTC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGACTCAAGTC
* *
55856362 TTATCTCCCGAAGCAGTAGTGGAACAGA-CAGAAC-CACAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATC-G-ACTCA-AG-TC
55856404 TTATCTCCCTAAG
1 TTATCTCCCTAAG
55856417 AAGTTGCAGT
Statistics
Matches: 330, Mismatches: 33, Indels: 38
0.82 0.08 0.09
Matches are distributed among these distances:
39 4 0.01
40 158 0.48
41 19 0.06
42 146 0.44
43 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGATCGACTCAAGTC
Found at i:55856085 original size:82 final size:82
Alignment explanation
Indices: 55855981--55856416 Score: 592
Period size: 82 Copynumber: 5.3 Consensus size: 82
55855971 GGGATGGATT
* * *
55855981 AGAACCACAAATTTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAA
1 AGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAA
*
55856046 GCAGTAGTGGAGCAGAC
66 GTAGTAGTGGAGCAGAC
***
55856063 AGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAACACAGATCTTATCTCCC
1 AGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCCTCA-AG-TCTTATCTCCC
*
55856127 TAAATAGTAGTGGAGCAGATC
63 TAAGTAGTAGTGGAGCAGA-C
***
55856148 -GCTTCA-AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAA
1 AGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAA
**
55856210 GTAACAGTGGAGCAGAC
66 GTAGTAGTGGAGCAGAC
* * *
55856227 AGAATCATAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCCTCAAGTCTTATCTCCCTAA
1 AGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAA
* *
55856292 GTAATGGTGGAGCAGAC
66 GTAGTAGTGGAGCAGAC
* * * *
55856309 AGAATCATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGACTCAAGTCTTATCTCCCGAA
1 AGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAA
* *
55856374 GCAGTAGTGGAACAGAC
66 GTAGTAGTGGAGCAGAC
55856391 AGAACCACAGATCTTATCTCCCTAAG
1 AGAACCACAGATCTTATCTCCCTAAG
55856417 AAGTTGCAGT
Statistics
Matches: 315, Mismatches: 31, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.00
80 31 0.10
81 5 0.02
82 241 0.77
83 5 0.02
84 31 0.10
85 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (82 bp):
AGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAA
GTAGTAGTGGAGCAGAC
Found at i:55863110 original size:43 final size:43
Alignment explanation
Indices: 55863016--55863111 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
55863006 AGAAATAAAC
* *
55863016 AACCTTTAGCGGCGCTTCTCCCACAAACGCCACTACAGATCAT
1 AACCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACCAT
* * * * * *
55863059 GACTTTTAGCGGTGCTT-TACCTACAAACGCCGCTAAAGGCCAT
1 AACCTTTAGCGGCGCTTCT-CCCACAAACGCCACTAAAGACCAT
55863102 AACCTTTAGC
1 AACCTTTAGC
55863112 ACCGTTTTAC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (43 bp):
AACCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACCAT
Found at i:55865715 original size:20 final size:20
Alignment explanation
Indices: 55865690--55865727 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55865680 AGTGTATGAA
*
55865690 TATATATATTATAAAAAATG
1 TATATATATTAGAAAAAATG
55865710 TATATATATTAGAAAAAA
1 TATATATATTAGAAAAAA
55865728 ATATGCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
TATATATATTAGAAAAAATG
Found at i:55865753 original size:3 final size:3
Alignment explanation
Indices: 55865745--55865771 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
55865735 TGCCTATAGA
55865745 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
55865772 GATGATGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:55870550 original size:13 final size:12
Alignment explanation
Indices: 55870523--55870595 Score: 56
Period size: 14 Copynumber: 5.4 Consensus size: 12
55870513 ATTTTATTGT
55870523 TTTATATTTTTA
1 TTTATATTTTTA
*
55870535 TTTATCTTTATTA
1 TTTATATTT-TTA
55870548 TTTATTATTTTATA
1 TTTA-TATTTT-TA
*
55870562 TTGTTATCATTATTA
1 -T-TTAT-ATTTTTA
55870577 TTTTATTATTTTTA
1 -TTTA-TATTTTTA
55870591 TTTAT
1 TTTAT
55870596 TTATTCTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
12 9 0.18
13 12 0.24
14 15 0.30
15 7 0.14
16 7 0.14
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (12 bp):
TTTATATTTTTA
Found at i:55870553 original size:17 final size:17
Alignment explanation
Indices: 55870527--55870600 Score: 54
Period size: 17 Copynumber: 4.6 Consensus size: 17
55870517 TATTGTTTTA
55870527 TATT-TTTATTTATCTT
1 TATTATTTATTTATCTT
55870543 TATTATTTA-TTAT-TT
1 TATTATTTATTTATCTT
* *
55870558 TA-TA-TT-GTTATCAT
1 TATTATTTATTTATCTT
*
55870572 TATTATTT-TATTATTTT
1 TATTATTTAT-TTATCTT
55870589 TATTTATTTATT
1 TA-TTATTTATT
55870601 CTCATTATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
13 6 0.13
14 5 0.11
15 6 0.13
16 10 0.22
17 11 0.24
18 7 0.15
19 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (17 bp):
TATTATTTATTTATCTT
Done.