Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 236 of 255
Found at i:77504784 original size:37 final size:37
Alignment explanation
Indices: 77504676--77504784 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
77504666 GGAAATATAT
*
77504676 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
77504713 TCAGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
77504750 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
77504785 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:77508116 original size:16 final size:17
Alignment explanation
Indices: 77508095--77508127 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
77508085 GATGTAGTTG
*
77508095 CCTTTATGT-TGTTTTT
1 CCTTTAGGTATGTTTTT
77508111 CCTTTAGGTATGTTTTT
1 CCTTTAGGTATGTTTTT
77508128 TAGTTAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.09, C:0.12, G:0.15, T:0.64
Consensus pattern (17 bp):
CCTTTAGGTATGTTTTT
Found at i:77508329 original size:12 final size:12
Alignment explanation
Indices: 77508312--77508345 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
77508302 CAAACTTATT
77508312 TCATTTCTTCTC
1 TCATTTCTTCTC
77508324 TCATTTCTTCTC
1 TCATTTCTTCTC
77508336 TCATTTCTTC
1 TCATTTCTTC
77508346 ATCTTTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.32, G:0.00, T:0.59
Consensus pattern (12 bp):
TCATTTCTTCTC
Found at i:77510837 original size:3 final size:3
Alignment explanation
Indices: 77510829--77510868 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
77510819 ATATGTTGTC
* * *
77510829 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAG CAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
77510869 GTAAATATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:77511004 original size:23 final size:23
Alignment explanation
Indices: 77510978--77511036 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
77510968 AAGTAAAAAA
*
77510978 AATAATAGTAATACATTAATAAG
1 AATAATAGTAATACATTAATAAC
* * *
77511001 AATAATAATAGTATATTAATAAC
1 AATAATAGTAATACATTAATAAC
*
77511024 AATAATAGAAATA
1 AATAATAGTAATA
77511037 ATGACGAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (23 bp):
AATAATAGTAATACATTAATAAC
Found at i:77511191 original size:13 final size:12
Alignment explanation
Indices: 77511138--77511218 Score: 53
Period size: 12 Copynumber: 6.7 Consensus size: 12
77511128 ACAATAACAG
77511138 AATAAAA-TAAT
1 AATAAAATTAAT
*
77511149 GATAATAA-TAAT
1 AATAA-AATTAAT
*
77511161 AATAGCAA-TAAT
1 AATA-AAATTAAT
77511173 AATAAAATTAAT
1 AATAAAATTAAT
77511185 AA-ATAAATATAATT
1 AATA-AAAT-TAA-T
* *
77511199 AATCAATTTAAT
1 AATAAAATTAAT
77511211 AATAAAAT
1 AATAAAAT
77511219 GGCAAATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
11 7 0.13
12 36 0.65
13 6 0.11
14 6 0.11
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (12 bp):
AATAAAATTAAT
Found at i:77511196 original size:25 final size:25
Alignment explanation
Indices: 77511168--77511216 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
77511158 AATAATAGCA
77511168 ATAA-TAATAAAATTAATAAATAAAT
1 ATAATTAATAAAATTAAT-AATAAAT
* *
77511193 ATAATTAATCAATTTAATAATAAA
1 ATAATTAATAAAATTAATAATAAA
77511217 ATGGCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATTAATAAAATTAATAATAAAT
Found at i:77511215 original size:3 final size:3
Alignment explanation
Indices: 77510947--77511186 Score: 65
Period size: 3 Copynumber: 81.7 Consensus size: 3
77510937 TGATGATAGC
* * * * *
77510947 AAT AGT AAT AAT -AT AAT AAT AA- AGT AAA AAA AAT AAT AGT AAT ACATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T
* * * *
77510995 AAT AAG AAT AAT AAT AGT -AT ATT AAT AAC AAT AAT AGA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * * * *
77511039 GAC GA- AAT AGT AAT AAT AAT AAT AA- ACT AA- AGAGT ACT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
* * * * * *
77511083 ACT AAC AAT AAT -AT AAAT AAT AAT GA- AAC AAC AAG AGA- AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * **
77511127 AAC AAT AA- CAG AAT AA- AAT AAT GAT AAT AAT AAT AAT AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
77511173 AAT AA- AATT AAT AA
1 AAT AAT AA-T AAT AA
77511187 ATAAATATAA
Statistics
Matches: 172, Mismatches: 44, Indels: 42
0.67 0.17 0.16
Matches are distributed among these distances:
2 17 0.10
3 144 0.84
4 8 0.05
5 3 0.02
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:77512001 original size:22 final size:22
Alignment explanation
Indices: 77511953--77512001 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
77511943 AAACGGTTCT
* * *
77511953 CCCCTAAAATACAATCGATTCT
1 CCCCCAAAATACAATCGATCCC
* *
77511975 TCCCCAAAATACCATCGATCCC
1 CCCCCAAAATACAATCGATCCC
77511997 CCCCC
1 CCCCC
77512002 GTTACAATGA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.45, G:0.04, T:0.20
Consensus pattern (22 bp):
CCCCCAAAATACAATCGATCCC
Found at i:77512851 original size:87 final size:86
Alignment explanation
Indices: 77512636--77513487 Score: 1044
Period size: 87 Copynumber: 9.9 Consensus size: 86
77512626 TAATTTTTAG
* * * ** * * * *
77512636 CCTGTTACCCTATTACTTTGGGGTTTAAGGCCCATCACCTTCGATTTATTTCCCTACTGCTTAGT
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGG
77512701 GGGTTAAGATCTTGTAAATTCA
66 GGGTTAAGATC-TGTAAATTCA
* * * *
77512723 GCATGTTACCCTACTGCTTTGGGGTTTAAGGTTCATTGCCTTCGATCTATTTCCCTACTGCTTAG
1 -CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAG
*
77512788 GGGGTTAAGATCTATAAATTCCA
65 GGGGTTAAGATCTGTAAATT-CA
* * * * *
77512811 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCACCGCCTTTGATCTGATTCCCTACTGCATAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGG
77512876 GGGTTAAGA-CTTGTAAATTCCA
66 GGGTTAAGATC-TGTAAATT-CA
*
77512898 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTTGATCTGTTTCCCTACTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGG
*
77512963 GGGTTAAGATCTGTAAATCTAA
66 GGGTTAAGATCTGTAAAT-TCA
* * *
77512985 CATGTTACCCTACTGCTTAGGGGTTTGAGGTTCATTGCCTTCGATCTGTTTCCCTACTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGG
77513050 GGGTTAAGATCTGTAAATTCCAA
66 GGGTTAAGATCTGTAAATT-C-A
* *
77513073 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCAATCTGTTTCCCTATTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGG
*
77513138 GGGTTAAGAGCTGT-AA---A
66 GGGTTAAGATCTGTAAATTCA
* *
77513155 CCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTATTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGG
* *
77513220 GGGTTAAGATCTGTGAATTTA
66 GGGTTAAGATCTGTAAATTCA
* * ** * * *
77513241 GCCTGTTACCCTACTACTTAGTGAG-TTAAGGCCCGTCGCTTTCGATCTGTTTCCCTACTGTTTA
1 -CCTGTTACCCTACTGCTTAG-GGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTA
* *
77513305 GGGGGTTAAGAGCTAT-AA---A
64 GGGGGTTAAGATCTGTAAATTCA
* * *
77513324 CCTATTACCATACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGCTTAGG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGG
*
77513389 GGGTTAAGATCTGTAAATTTA
66 GGGTTAAGATCTGTAAATTCA
* * * ** * *
77513410 GCCTGTTACCCTACTACTTAAGGAG-TTACGGCCCGTCGCTTTCGATCTGTTTCCCTACTGCTTA
1 -CCTGTTACCCTACTGCTT-AGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTA
*
77513474 GGGGGTCAA-ATCTG
64 GGGGGTTAAGATCTG
77513488 CTATCTTCAA
Statistics
Matches: 672, Mismatches: 73, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
81 2 0.00
82 141 0.21
83 5 0.01
86 11 0.02
87 362 0.54
88 151 0.22
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGG
GGGTTAAGATCTGTAAATTCA
Found at i:77513313 original size:44 final size:44
Alignment explanation
Indices: 77512726--77513479 Score: 312
Period size: 44 Copynumber: 17.5 Consensus size: 44
77512716 AAATTCAGCA
* * * * * * *
77512726 TGTTACCCTACTGCTTTGGGGTTTAAGGTTCATTGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * ** *** * *
77512770 TATTTCCCTACTGCTTAGGGGGTTAAGATCTAT-AAATTCCACC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * **
77512813 TGTTACCCTACTGCTTAGGGGTTTAAGGTCCACCGCCTTT-GATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCG-CTTTCGATC
* * * * *** * *
77512857 TGATTCCCTACTGCATAGGGGGTTAA-GACTTGT-AAATTCCACC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTC-CGTCGCTTTCGATC
* * * *
77512900 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTT-GATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCG-CTTTCGATC
* * *** * *
77512944 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT--AAATCTAAC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * * * * * *
77512986 ATGTTACCCTACTGCTTAGGGGTTTGAGGTTCATTGCCTTCGATC
1 -TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * *** * * *
77513031 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCCAACC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * * * * *
77513075 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCAATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* ** *
77513119 TGTTTCCCTATTGCTTAGGGGGTTAAGAG--C-T-G---TAAACC
1 TGTTTCCCTACTGCTTAGGGGGTTAAG-GTCCGTCGCTTTCGATC
* * * * * *
77513157 TATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * * * * *
77513201 TGTTTCCCTATTGCTTAGGGGGTTAAGATCTGT-GAATTTAG-CC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCG-CTTTCGATC
* * * * *
77513244 TGTTACCCTACTACTTAGTGAGTTAAGGCCCGTCGCTTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * * ** *
77513288 TGTTTCCCTACTGTTTAGGGGGTTAA-----G-AGCTATAAACC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * * * * * *
77513326 TATTACCATACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * * *** * *
77513370 TATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-CC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
* * * * * *
77513413 TGTTACCCTACTACTTAAGGAGTTACGGCCCGTCGCTTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
77513457 TGTTTCCCTACTGCTTAGGGGGT
1 TGTTTCCCTACTGCTTAGGGGGT
77513480 CAAATCTGCT
Statistics
Matches: 495, Mismatches: 186, Indels: 58
0.67 0.25 0.08
Matches are distributed among these distances:
37 1 0.00
38 54 0.11
39 2 0.00
40 1 0.00
41 3 0.01
42 5 0.01
43 146 0.29
44 274 0.55
45 9 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (44 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGGTCCGTCGCTTTCGATC
Found at i:77513348 original size:169 final size:169
Alignment explanation
Indices: 77512640--77513479 Score: 1051
Period size: 169 Copynumber: 4.9 Consensus size: 169
77512630 TTTTAGCCTG
* * * ** * * * *
77512640 TTACCCTATTACTTTGGGGTTTAAGGCCCATCACCTTCGATTTATTTCCCTACTGCTTAGTGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * *
77512705 TAAGATCTTGTAAATTCAGCATGTTACCCTACTGCTTTGGGGTTTAAGGTTCATTGCCTTCGATC
66 TAAGATC-TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCTTTCGATC
* * *
77512770 TATTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTCCACCTG
130 TGTTTCCCTACTGCTTAGGGGGTTAAGAGCTAT-AA----ACCTA
* * * * *
77512815 TTACCCTACTGCTTAGGGGTTTAAGGTCCACCGCCTTTGATCTGATTCCCTACTGCATAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
77512880 TAAGA-CTTGTAAATTCCA-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTT-GA
66 TAAGATC-TGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCG-CTTTCGA
* * *
77512942 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTAACATG
128 TCTGTTTCCCTACTGCTTAGGGGGTTAAGAGCTATAAA-C---C-TA
* *
77512989 TTACCCTACTGCTTAGGGGTTTGAGGTTCATTGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * *
77513054 TAAGATCTGTAAATTCCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCAATC
66 TAAGATCTGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCTTTCGATC
* *
77513119 TGTTTCCCTATTGCTTAGGGGGTTAAGAGCTGTAAACCTA
130 TGTTTCCCTACTGCTTAGGGGGTTAAGAGCTATAAACCTA
*
77513159 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTATTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * * ** *
77513224 TAAGATCTGTGAATTTAGCCTGTTACCCTACTACTTAGTGAG-TTAAGGCCCGTCGCTTTCGATC
66 TAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTAAGGTTCATCGCTTTCGATC
*
77513288 TGTTTCCCTACTGTTTAGGGGGTTAAGAGCTATAAACCTA
130 TGTTTCCCTACTGCTTAGGGGGTTAAGAGCTATAAACCTA
* *
77513328 TTACCATACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * * ** *
77513393 TAAGATCTGTAAATTTAGCCTGTTACCCTACTACTTAAGGAG-TTACGGCCCGTCGCTTTCGATC
66 TAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTT-AGGGGTTTAAGGTTCATCGCTTTCGATC
77513457 TGTTTCCCTACTGCTTAGGGGGT
130 TGTTTCCCTACTGCTTAGGGGGT
77513480 CAAATCTGCT
Statistics
Matches: 601, Mismatches: 52, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
169 218 0.36
170 82 0.14
171 1 0.00
173 3 0.00
174 159 0.26
175 138 0.23
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (169 bp):
TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
TAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCTTTCGATCT
GTTTCCCTACTGCTTAGGGGGTTAAGAGCTATAAACCTA
Found at i:77513623 original size:44 final size:44
Alignment explanation
Indices: 77513480--77513765 Score: 183
Period size: 44 Copynumber: 6.5 Consensus size: 44
77513470 CTTAGGGGGT
*
77513480 CAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAAGGATGC
1 CAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAAGGATGC
** * * * * * *
77513524 C--ATGCTGAAATCTTCAATCTGCTTCACTGTAAGCAC-AGTAATGT
1 CAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAAG-GATGC
* *
77513568 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAAGGATGC
1 CAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGC
* * * * *
77513612 CAAATATGCTATTTTC-AACTTGTTCCCTTTAAGCACAAGGATGC
1 CAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAAGGATGC
** ** * * *
77513656 C--ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCAC-AGGAATGT
1 CAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAAGG-ATGC
* * * * *
77513700 TAGATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGC
1 CAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGC
*
77513744 CAAATCTGCAATCTTCGATCTG
1 CAAATCTGCTATCTTCGATCTG
77513766 CTCTCCGCCG
Statistics
Matches: 179, Mismatches: 48, Indels: 30
0.70 0.19 0.12
Matches are distributed among these distances:
42 4 0.02
43 26 0.15
44 114 0.64
45 31 0.17
46 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGC
Found at i:77513717 original size:132 final size:132
Alignment explanation
Indices: 77513480--77513759 Score: 434
Period size: 132 Copynumber: 2.1 Consensus size: 132
77513470 CTTAGGGGGT
*
77513480 CAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAATCTTCAATCTG
1 CAAATATGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAATCTTCAATCTG
* * *
77513545 CTTCACTGTAAGCACAGTAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAAGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAAACACAAGGAT
77513610 GC
131 GC
* * * *
77513612 CAAATATGCTATTTTCAACTTGTTCCCTTTAAGCACAAGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATATGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAATCTTCAATCTG
* * * *
77513677 CTTTACTGTAAGCACAGGAATGTTAGATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAAACACAAGGAT
77513742 GC
131 GC
* *
77513744 CAAATCTGCAATCTTC
1 CAAATATGCTATCTTC
77513760 GATCTGCTCT
Statistics
Matches: 133, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (132 bp):
CAAATATGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAATCTTCAATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAAACACAAGGAT
GC
Found at i:77513887 original size:88 final size:88
Alignment explanation
Indices: 77513755--77513978 Score: 351
Period size: 88 Copynumber: 2.6 Consensus size: 88
77513745 AAATCTGCAA
* * * * * *
77513755 TCTTCGATCTGCTCTCCGCC-GCTACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTCCAACATAAAC
* *
77513819 ACGTGAAAGCCAAATGAGCTATG
66 ACATGAAAGCCAAATCAGCTATG
* *
77513842 TCTTCGATCTGCTCCCCGCCTGATGCAGAGATACCAAATCATCTTGGATCTGCTCCAACATAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTCCAACATAAAC
77513907 ACATGAAAGCCAAATCAGCTATG
66 ACATGAAAGCCAAATCAGCTATG
77513930 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGAT
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGAT
77513979 ATCTTCAGCT
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
87 19 0.15
88 105 0.85
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTCCAACATAAAC
ACATGAAAGCCAAATCAGCTATG
Found at i:77513966 original size:47 final size:47
Alignment explanation
Indices: 77513827--77513970 Score: 124
Period size: 47 Copynumber: 3.2 Consensus size: 47
77513817 ACACGTGAAA
* *
77513827 GCCAAATGAGCTATGTCTTCGATCTGCTCCCCGCCTGATGCAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
* * ** * * * *
77513874 ACCAAAT---C-A--TCTTGGATCTGCT-CCAACAT-AAACACATGAAA
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGA-G-AT
77513915 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
77513962 GCCAAATCA
1 GCCAAATCA
77513971 TCTTGGATAT
Statistics
Matches: 70, Mismatches: 17, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
39 4 0.06
40 5 0.07
41 19 0.27
43 1 0.01
44 2 0.03
45 1 0.01
47 28 0.40
48 5 0.07
49 5 0.07
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (47 bp):
GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
Found at i:77514205 original size:61 final size:64
Alignment explanation
Indices: 77514088--77514212 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 64
77514078 TCATGTATCC
77514088 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
77514152 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
77514213 TTATTATATG
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 31 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.34
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:77521904 original size:26 final size:26
Alignment explanation
Indices: 77521874--77521980 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
77521864 TGAAATTCCC
77521874 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77521900 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
77521926 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
77521952 ATCATGGAACATTTACCTAA-CTATT
1 ATCATGGAACATTTACCTAACCCATT
77521977 ATCA
1 ATCA
77521981 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 8 0.10
26 70 0.90
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77526672 original size:60 final size:60
Alignment explanation
Indices: 77526526--77526656 Score: 253
Period size: 60 Copynumber: 2.2 Consensus size: 60
77526516 GGGGAGACTA
*
77526526 CTCAACCCACCAACCACTACACTCCACCCGTACCAGCCTTACACTCCATGTAGGGAATAG
1 CTCAACCCACCAACCACTACACTCCACCCGTACCAGCCTTACACTCCATATAGGGAATAG
77526586 CTCAACCCACCAACCACTACACTCCACCCGTACCAGCCTTACACTCCATATAGGGAATAG
1 CTCAACCCACCAACCACTACACTCCACCCGTACCAGCCTTACACTCCATATAGGGAATAG
77526646 CTCAACCCACC
1 CTCAACCCACC
77526657 CAGCCCAACA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 70 1.00
ACGTcount: A:0.31, C:0.44, G:0.10, T:0.16
Consensus pattern (60 bp):
CTCAACCCACCAACCACTACACTCCACCCGTACCAGCCTTACACTCCATATAGGGAATAG
Found at i:77528468 original size:27 final size:26
Alignment explanation
Indices: 77528364--77528472 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
77528354 TGAAATTCCC
77528364 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77528390 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
77528416 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
77528442 ATCATGGAACATTTTACCTAACTCATT
1 ATCATGGAACA-TTTACCTAACCCATT
77528469 ATCA
1 ATCA
77528473 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
26 61 0.77
27 18 0.23
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77532315 original size:3 final size:3
Alignment explanation
Indices: 77532307--77532346 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
77532297 ATGTTATGTC
* * *
77532307 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAG CAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
77532347 GTAAATATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:77532483 original size:23 final size:23
Alignment explanation
Indices: 77532455--77532508 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
77532445 AAAGTAAAAA
*
77532455 AATAATAGTAATACATTAATAAG
1 AATAATAGTAATACATTAATAAC
* * *
77532478 AATAATAATAGTATATTAATAAC
1 AATAATAGTAATACATTAATAAC
77532501 AATAATAG
1 AATAATAG
77532509 AAAATAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
AATAATAGTAATACATTAATAAC
Found at i:77532677 original size:13 final size:11
Alignment explanation
Indices: 77532621--77532677 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 11
77532611 TAACAGAATA
*
77532621 AAAATAATGAT
1 AAAATAATAAT
77532632 AATAATAATAAT
1 AA-AATAATAAT
*
77532644 AGCAATAATAAT
1 A-AAATAATAAT
77532656 AAAATTAATAAAT
1 AAAA-TAAT-AAT
77532669 AAATATAAT
1 AAA-ATAAT
77532678 TAATCAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 4 0.11
12 23 0.61
13 10 0.26
14 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:77532696 original size:3 final size:3
Alignment explanation
Indices: 77532425--77532666 Score: 51
Period size: 3 Copynumber: 81.7 Consensus size: 3
77532415 TGATGATAGC
* * * * *
77532425 AAT AGT AAT AAT -GT AAT AAT AA- AGT AA- AAA AAT AAT AGT AAT ACATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T
* * * * *
77532472 AAT AAG AAT AAT AAT AGT -AT ATT AAT AAC AAT AAT AGAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * *
77532517 GAT GA- AAT AGT AAT AAT AAT AA- AA- AACT AA- AGAGT ACT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A-A-T AAT AAT AAT
* * * * * *
77532561 ACT AAC AAT AAT -AT AAAT AAT AAT GAA- AAC AAC AAG AGA- AGT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT
* * * * * **
77532606 AAC AAT AA- CAG AAT AAA AAT AAT GAT AAT AAT AAT AAT AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
77532653 AAT AA- AATT AAT AA
1 AAT AAT AA-T AAT AA
77532667 ATAAATATAA
Statistics
Matches: 171, Mismatches: 46, Indels: 44
0.66 0.18 0.17
Matches are distributed among these distances:
2 18 0.11
3 137 0.80
4 13 0.08
5 3 0.02
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:77533448 original size:22 final size:22
Alignment explanation
Indices: 77533423--77533466 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
77533413 GCCCCCTATT
*
77533423 TACAAACGGTTC-TCCCCTAAAA
1 TACAAACGATTCTTCCCC-AAAA
*
77533445 TACAATCGATTCTTCCCCAAAA
1 TACAAACGATTCTTCCCCAAAA
77533467 CACCATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.36, C:0.32, G:0.07, T:0.25
Consensus pattern (22 bp):
TACAAACGATTCTTCCCCAAAA
Found at i:77542726 original size:25 final size:25
Alignment explanation
Indices: 77542698--77542746 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
77542688 ATATATATCA
77542698 TAAA-ATAGCACATAAAAGAAATAAT
1 TAAACATAGCACATAAAA-AAATAAT
*
77542723 TAAACATAGCATATAAAAAAATAA
1 TAAACATAGCACATAAAAAAATAA
77542747 AACTATGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAACATAGCACATAAAAAAATAAT
Found at i:77543306 original size:17 final size:17
Alignment explanation
Indices: 77543284--77543317 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
77543274 ATATCATATC
77543284 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
77543301 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
77543318 GCATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:77543697 original size:44 final size:43
Alignment explanation
Indices: 77543647--77543729 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
77543637 CATGTTGATA
*
77543647 TCTTCGATCTGCTCTCTGTCGAACACAGAGACGCCAAATCTGCT
1 TCTTCGATCTGCTCTCTGAC-AACACAGAGACGCCAAATCTGCT
* * * * *
77543691 TCTTCGATTTGTTTTCTGACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCTGACAACACAGAGACGCCAAATC
77543730 ATCTTAGATC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 17 0.52
44 16 0.48
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCTGACAACACAGAGACGCCAAATCTGCT
Found at i:77544073 original size:261 final size:261
Alignment explanation
Indices: 77543609--77544096 Score: 739
Period size: 261 Copynumber: 1.9 Consensus size: 261
77543599 CATGGTCCTC
*
77543609 AATCTGCTTATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCTGTCGAACACA
1 AATCTGCTTATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACA
* *
77543674 GAGACGCCAAATCTGCTTCTTCGATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGAT
66 GAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
* ** * *
77543739 CTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCGATTTTCTCCTTGTGAACACA
131 CTGCTTCAGCGTAAACACGTGAAAACCAAATCAACTATGTCTTCAATTTTCTCCTTGTGAACACA
*
77543804 AGGATGCCAAATCATCTTGGATCTACTTCAGTAAAATCATCTGAAGGTCAGATTTGCTATGTCTT
196 AGGATGCCAAACCATCTTGGATCTACTTCAGTAAAATCATCTGAAGGTCAGATTTGCTATGTCTT
77543869 T
261 T
* * * * * *
77543870 AATCTGCTTCTTGTAAACTTATGACTGTCCTGTTGATATCTTCGATCTGCTCTCCG-CTGAATAC
1 AATCTGCTTATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTC-GAACAC
* *
77543934 AGAGACGCTAAATCTGTTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGA
65 AGAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGA
* **
77543999 TTTGCTTCAGCGTAAGTACGTGAAAACCAAATCAACTATGTCTTCAATTTGT-TCCTTGT-AAGC
130 TCTGCTTCAGCGTAAACACGTGAAAACCAAATCAACTATGTCTTCAATTT-TCTCCTTGTGAA-C
*
77544062 ACAAGGATGCCAAACCATCTTGGATCTGCTTCAGT
193 ACAAGGATGCCAAACCATCTTGGATCTACTTCAGT
77544097 CATCTGAAGG
Statistics
Matches: 203, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
260 3 0.01
261 199 0.98
262 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (261 bp):
AATCTGCTTATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACA
GAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
CTGCTTCAGCGTAAACACGTGAAAACCAAATCAACTATGTCTTCAATTTTCTCCTTGTGAACACA
AGGATGCCAAACCATCTTGGATCTACTTCAGTAAAATCATCTGAAGGTCAGATTTGCTATGTCTT
T
Found at i:77544445 original size:205 final size:205
Alignment explanation
Indices: 77543953--77544684 Score: 1237
Period size: 198 Copynumber: 3.6 Consensus size: 205
77543943 AAATCTGTTT
* *
77543953 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
77544018 GTGAAAACCAAATCAACTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
77544083 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTAACTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
77544143 AGATGCCAGA
196 AGATGCCAGA
* *
77544153 CTTTGATTTGTTCTCTG--AATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
77544216 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
77544281 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
77544346 AGATGCCAGA
196 AGATGCCAGA
* * *
77544356 CTTCAATTTGTTCTCTGATAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
77544421 GTGAAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGCACAATGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
77544486 GGATCTGCTTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAATAT
131 GGATCTGC-TTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAA-AT
* * *
77544551 AGAGACGCCAAA
194 GGAGATGCCAGA
*
77544563 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC-C
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
77544627 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
77544685 TCTGCTATCT
Statistics
Matches: 502, Mismatches: 21, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
198 119 0.24
200 16 0.03
203 70 0.14
205 117 0.23
206 110 0.22
207 70 0.14
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:77544723 original size:44 final size:43
Alignment explanation
Indices: 77544648--77545165 Score: 410
Period size: 44 Copynumber: 11.8 Consensus size: 43
77544638 ATCAGCTATG
* * * * *
77544648 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTA
** **
77544692 TCTTTAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
* * * * *
77544735 TCTTCGA-TCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTA
1 TCTTCGACT-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTA
* *
77544780 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATATGCTA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTA
* * **
77544824 TCTTCAACTTGTTCCCTATAAAAACAGGGATGCC-ATGCTGAAA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
* * * *
77544867 TCTTCGA-TCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGCTA
1 TCTTCGACT-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTA
* *
77544912 TCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTA
* * * **
77544956 TCTTCAACTTGTTCCCTATAAACACATGGATACC-ATGCTGAAA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
* **
77544999 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
* **
77545042 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
* * *
77545085 TCTGT-GA-TCTGCTTCGCC-GTAAGCACA-GGAGTGTCAGATCTGCTA
1 TCT-TCGACT-TG-TTC-CCTATAAACACAGGGA-TGCCA-ATCTGCTA
*
77545130 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAA
1 TCTTCGACTTGTTCCCTATAAACACAGGGATGCCAA
77545166 ATCTTGTTTC
Statistics
Matches: 389, Mismatches: 59, Indels: 53
0.78 0.12 0.11
Matches are distributed among these distances:
42 9 0.02
43 122 0.31
44 205 0.53
45 44 0.11
46 9 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TCTTCGACTTGTTCCCTATAAACACAGGGATGCCAATCTGCTA
Found at i:77544811 original size:132 final size:132
Alignment explanation
Indices: 77544648--77545076 Score: 632
Period size: 132 Copynumber: 3.3 Consensus size: 132
77544638 ATCAGCTATG
* * * * *
77544648 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTTAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
77544713 ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGC
77544778 TA
131 TA
*
77544780 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATATGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
*
77544845 AAACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGC
77544910 TA
131 TA
*
77544912 TCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * * * * *
77544977 ACACATGGATACCATGCTGAAATCTTC-AACTTG-TTCCCTATAAACACAGGGATG-C-CATGCT
66 ACACAGGGATGCCATGCTGAAATCTTCGATC-TGCTTCGCTATAAGCACAGGAATGTCAGAT-CT
**
77545038 GAAA
129 GCTA
* *
77545042 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
77545077 TGCTGAAATC
Statistics
Matches: 272, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
129 2 0.01
130 37 0.14
131 20 0.07
132 213 0.78
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (132 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGC
TA
Found at i:77546040 original size:8 final size:7
Alignment explanation
Indices: 77546023--77546081 Score: 61
Period size: 7 Copynumber: 8.7 Consensus size: 7
77546013 GGCCTCTCCA
77546023 TTTTTCT
1 TTTTTCT
*
77546030 TTTTTCG
1 TTTTTCT
77546037 TTTTTCT
1 TTTTTCT
77546044 CTTTTTC-
1 -TTTTTCT
*
77546051 TTTTTAT
1 TTTTTCT
77546058 TTTTT-T
1 TTTTTCT
*
77546064 TATTT-T
1 TTTTTCT
77546070 TTTTTCT
1 TTTTTCT
77546077 TTTTT
1 TTTTT
77546082 TCCTTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 15 0.34
7 23 0.52
8 6 0.14
ACGTcount: A:0.03, C:0.10, G:0.02, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:77546073 original size:19 final size:19
Alignment explanation
Indices: 77546046--77546093 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
77546036 GTTTTTCTCT
*
77546046 TTTTCTTTTTATTTTTTTTA
1 TTTT-TTTTTATTTTTTTCA
* *
77546066 TTTTTTTTTCTTTTTTTCC
1 TTTTTTTTTATTTTTTTCA
77546085 TTTTTTTTT
1 TTTTTTTTT
77546094 GAAATAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTATTTTTTTCA
Found at i:77546082 original size:8 final size:8
Alignment explanation
Indices: 77546023--77546091 Score: 63
Period size: 8 Copynumber: 8.6 Consensus size: 8
77546013 GGCCTCTCCA
77546023 TTTTTC-T
1 TTTTTCTT
*
77546030 TTTTTC-G
1 TTTTTCTT
*
77546037 TTTTTCTC
1 TTTTTCTT
77546045 TTTTTCTT
1 TTTTTCTT
77546053 TTTATT-TT
1 TTT-TTCTT
*
77546061 TTTTATTTT
1 TTTT-TCTT
77546070 TTTTTCTT
1 TTTTTCTT
77546078 TTTTTCCTT
1 TTTTT-CTT
77546087 TTTTT
1 TTTTT
77546092 TTGAAATAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.25
8 24 0.45
9 16 0.30
ACGTcount: A:0.03, C:0.12, G:0.01, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:77546089 original size:10 final size:9
Alignment explanation
Indices: 77546045--77546092 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
77546035 CGTTTTTCTC
77546045 TTTTTCTTT
1 TTTTTCTTT
*
77546054 TTATT-TTT
1 TTTTTCTTT
*
77546062 TTTAT-TTT
1 TTTTTCTTT
77546070 TTTTTCTTT
1 TTTTTCTTT
*
77546079 TTTTCCTTT
1 TTTTTCTTT
77546088 TTTTT
1 TTTTT
77546093 TGAAATAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 13 0.41
9 19 0.59
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:77551766 original size:19 final size:19
Alignment explanation
Indices: 77551724--77551784 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
77551714 CATATCATAT
*
77551724 CATATCATATCTAAGGTT-
1 CATATCATATCTAAGATTG
77551742 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
77551760 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
77551779 CATATC
1 CATATC
77551785 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 16 0.40
19 24 0.60
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:77551918 original size:1 final size:1
Alignment explanation
Indices: 77551914--77551955 Score: 75
Period size: 1 Copynumber: 42.0 Consensus size: 1
77551904 TTTTTTTGGG
*
77551914 TTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
77551956 CTGGTATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.02, T:0.98
Consensus pattern (1 bp):
T
Found at i:77552842 original size:28 final size:28
Alignment explanation
Indices: 77552802--77552857 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
77552792 TCATTTGGAA
*
77552802 ATCATACCAACAAATTCTAATATTCTTT
1 ATCATACCAACAAACTCTAATATTCTTT
77552830 ATCATACCAACAAACTCTAATATTCTTT
1 ATCATACCAACAAACTCTAATATTCTTT
77552858 CTTTCCTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (28 bp):
ATCATACCAACAAACTCTAATATTCTTT
Found at i:77553359 original size:54 final size:53
Alignment explanation
Indices: 77553249--77553360 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 53
77553239 AAGTGAATGT
*
77553249 GATATGTGAAGATAGTGAAAGATTACAAATTTTTATAAGTGGATTAAATGATAA
1 GATATGTGAAGATAGTAAAAGATTACAAATTTTTATAAGTGGATTAAATGA-AA
* * *
77553303 GATATGTGAAGATGATGGTAAAAGATTATAAA-TTTTATAAGTTGATTAAGTG-AA
1 GATATGTGAAGAT-A--GTAAAAGATTACAAATTTTTATAAGTGGATTAAATGAAA
77553357 GATA
1 GATA
77553361 GTAATAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
54 19 0.37
55 1 0.02
56 18 0.35
57 13 0.25
ACGTcount: A:0.44, C:0.01, G:0.21, T:0.34
Consensus pattern (53 bp):
GATATGTGAAGATAGTAAAAGATTACAAATTTTTATAAGTGGATTAAATGAAA
Found at i:77553694 original size:17 final size:17
Alignment explanation
Indices: 77553672--77553733 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
77553662 AAATTGTTAT
77553672 GTGAAGTGAATAAGTTC
1 GTGAAGTGAATAAGTTC
* *
77553689 GTGAAGTGAAGTAGGCAT-
1 GTGAAGTGAA-TAAG-TTC
77553707 GTGAAGTGAATAAGTTC
1 GTGAAGTGAATAAGTTC
77553724 GTGAAGTGAA
1 GTGAAGTGAA
77553734 GTAGGCATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 23 0.61
18 13 0.34
19 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.34, T:0.26
Consensus pattern (17 bp):
GTGAAGTGAATAAGTTC
Found at i:77553709 original size:35 final size:35
Alignment explanation
Indices: 77553670--77553752 Score: 166
Period size: 35 Copynumber: 2.4 Consensus size: 35
77553660 TAAAATTGTT
77553670 ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
1 ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
77553705 ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
1 ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
77553740 ATGTGAAGTGAAT
1 ATGTGAAGTGAAT
77553753 TAAATATGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.35, C:0.05, G:0.34, T:0.27
Consensus pattern (35 bp):
ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
Found at i:77553712 original size:18 final size:18
Alignment explanation
Indices: 77553689--77553751 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
77553679 GAATAAGTTC
77553689 GTGAAGTGAAGTAGGCAT
1 GTGAAGTGAAGTAGGCAT
* *
77553707 GTGAAGTGAA-TAAG-TT
1 GTGAAGTGAAGTAGGCAT
77553723 CGTGAAGTGAAGTAGGCAT
1 -GTGAAGTGAAGTAGGCAT
77553742 GTGAAGTGAA
1 GTGAAGTGAA
77553752 TTAAATATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 13 0.34
18 23 0.61
19 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.37, T:0.24
Consensus pattern (18 bp):
GTGAAGTGAAGTAGGCAT
Found at i:77553761 original size:18 final size:17
Alignment explanation
Indices: 77553669--77553762 Score: 84
Period size: 18 Copynumber: 5.4 Consensus size: 17
77553659 GTAAAATTGT
77553669 TATGTGAAGTGAATAAG
1 TATGTGAAGTGAATAAG
*
77553686 T-TCGTGAAGTGAAGTAGG
1 TAT-GTGAAGTGAA-TAAG
*
77553704 CATGTGAAGTGAATAAG
1 TATGTGAAGTGAATAAG
*
77553721 T-TCGTGAAGTGAAGTAGG
1 TAT-GTGAAGTGAA-TAAG
* *
77553739 CATGTGAAGTGAATTAAA
1 TATGTGAAGTGAA-TAAG
77553757 TATGTG
1 TATGTG
77553763 TAATTCTTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
16 2 0.03
17 24 0.39
18 33 0.54
19 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.32, T:0.29
Consensus pattern (17 bp):
TATGTGAAGTGAATAAG
Found at i:77557014 original size:18 final size:18
Alignment explanation
Indices: 77556979--77557017 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
77556969 TAAAAAATCT
* **
77556979 AAAATCTATAAATTTATA
1 AAAATATATAAACATATA
77556997 AAAATATATAAACATATA
1 AAAATATATAAACATATA
77557015 AAA
1 AAA
77557018 GAACTAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATATAAACATATA
Found at i:77557015 original size:26 final size:25
Alignment explanation
Indices: 77556942--77557016 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
77556932 TTAGAAAACG
* *
77556942 TATAAAAATTTATAATATATAAATT
1 TATAAAAATATATAAAATATAAATT
* *
77556967 AATAAAAA-ATCTAAAATCTATAAATT
1 TATAAAAATATATAAAA--TATAAATT
77556993 TATAAAAATATATAAACATATAAA
1 TATAAAAATATATAAA-ATATAAA
77557017 AGAACTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
24 5 0.12
25 7 0.17
26 21 0.52
27 6 0.15
28 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TATAAAAATATATAAAATATAAATT
Found at i:77557052 original size:2 final size:2
Alignment explanation
Indices: 77557045--77557085 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
77557035 ATTTACAGAA
* * *
77557045 AT AT AT AT AT AT AT AT AG AT AT AT AT AG AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77557086 AAAGAACTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (2 bp):
AT
Found at i:77557068 original size:16 final size:16
Alignment explanation
Indices: 77557047--77557085 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
77557037 TTACAGAAAT
*
77557047 ATATATATATATATAG
1 ATATATATAGATATAG
77557063 ATATATATAGATATAG
1 ATATATATAGATATAG
77557079 ATATATA
1 ATATATA
77557086 AAAGAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (16 bp):
ATATATATAGATATAG
Found at i:77557416 original size:43 final size:43
Alignment explanation
Indices: 77557355--77557440 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
77557345 TCGAAATCTC
*
77557355 ATTTTCGTAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
1 ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
77557398 ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
1 ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
77557441 CAGAGTTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (43 bp):
ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
Found at i:77574543 original size:25 final size:28
Alignment explanation
Indices: 77574506--77574559 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
77574496 AAACTAATGC
77574506 AAAAATAAGATAAAT-G-ACATATACAA
1 AAAAATAAGATAAATAGAACATATACAA
* *
77574532 AAAAATGA-ATAAATAGAACATTTACAA
1 AAAAATAAGATAAATAGAACATATACAA
77574559 A
1 A
77574560 TTATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 8 0.33
27 10 0.42
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.20
Consensus pattern (28 bp):
AAAAATAAGATAAATAGAACATATACAA
Found at i:77575073 original size:19 final size:19
Alignment explanation
Indices: 77575031--77575091 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
77575021 CATATCATAT
*
77575031 CATATCATATCTAAGGTT-
1 CATATCATATCTAAGATTG
77575049 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
77575067 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
77575086 CATATC
1 CATATC
77575092 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 16 0.40
19 24 0.60
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:77576978 original size:29 final size:29
Alignment explanation
Indices: 77576945--77577006 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
77576935 CTGCCGACGT
* *
77576945 CACACGATAC-TGTGCCAGGCCGTGTGAGC
1 CACACG-TACATGTCCCAGGCCATGTGAGC
* *
77576974 CACACGTCCATGTCCCAGGCTATGTGAGC
1 CACACGTACATGTCCCAGGCCATGTGAGC
77577003 CACA
1 CACA
77577007 TGAGCTGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.18
Consensus pattern (29 bp):
CACACGTACATGTCCCAGGCCATGTGAGC
Found at i:77579000 original size:23 final size:22
Alignment explanation
Indices: 77578968--77579010 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
77578958 GGATAGGAAG
77578968 GTTTTTGAAAA-ATATGCATTTT
1 GTTTTTGAAAACAT-TGCATTTT
77578990 GTTTTCTGAAAACATTGCATT
1 GTTTT-TGAAAACATTGCATT
77579011 CACATAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (22 bp):
GTTTTTGAAAACATTGCATTTT
Found at i:77579001 original size:22 final size:23
Alignment explanation
Indices: 77578968--77579010 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
77578958 GGATAGGAAG
*
77578968 GTTTTTGAAAAATA-TGCATTTT
1 GTTTTTGAAAAACATTGCATTTT
77578990 GTTTTCTG-AAAACATTGCATT
1 GTTTT-TGAAAAACATTGCATT
77579011 CACATAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (23 bp):
GTTTTTGAAAAACATTGCATTTT
Found at i:77588826 original size:21 final size:21
Alignment explanation
Indices: 77588782--77588828 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
77588772 ATATAGTTAT
*
77588782 TAAAATATATACATACTATAA
1 TAAAATATATACATAATATAA
*
77588803 TAAAATATATGA-ATAATATGA
1 TAAAATATAT-ACATAATATAA
77588824 TAAAA
1 TAAAA
77588829 AAATATGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
TAAAATATATACATAATATAA
Found at i:77589071 original size:3 final size:3
Alignment explanation
Indices: 77589065--77589133 Score: 68
Period size: 3 Copynumber: 22.0 Consensus size: 3
77589055 ACTACTACAT
*
77589065 ATA ATA A-A TATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
77589110 CAGA GATT ATA ATTA ATA ATA ATA
1 -ATA -ATA ATA A-TA ATA ATA ATA
77589134 GTAAATAACA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
2 1 0.02
3 47 0.85
4 7 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:77589615 original size:11 final size:11
Alignment explanation
Indices: 77589599--77589639 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
77589589 TTTGTGAGGG
77589599 GAAAAAAGAAA
1 GAAAAAAGAAA
77589610 GAAAAAAGAAA
1 GAAAAAAGAAA
* *
77589621 GAGAAGAAGAGA
1 GA-AAAAAGAAA
77589633 GAAAAAA
1 GAAAAAA
77589640 AAGAGAGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:77589642 original size:21 final size:20
Alignment explanation
Indices: 77589604--77589645 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
77589594 GAGGGGAAAA
77589604 AAGAAAGAAAAAAGAAAGAG
1 AAGAAAGAAAAAAGAAAGAG
77589624 AAGAAGAGAGAAAAA-AAAGAG
1 AAGAA-AGA-AAAAAGAAAGAG
77589645 A
1 A
77589646 GGAGGGATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAAAAAGAAAGAG
Found at i:77590870 original size:44 final size:44
Alignment explanation
Indices: 77590812--77590927 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 44
77590802 TCCTCGATCA
* * *
77590812 GCTCCACTGTAACTTCAGGGGGACAAAACTTGCAACTTTGACCT
1 GCTCCACAGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
* * * *
77590856 GCTCCGCAGCAACTTCAGGGAGACAAGACTTGTAACTTTGGCCT
1 GCTCCACAGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
* *
77590900 GCTCCACTGCAACTTCAGGGAAACAAAA
1 GCTCCACAGCAACTTCAGGGAGACAAAA
77590928 TCTGGTGTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (44 bp):
GCTCCACAGCAACTTCAGGGAGACAAAACTTGCAACTTTGACCT
Found at i:77591313 original size:13 final size:13
Alignment explanation
Indices: 77591285--77591319 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
77591275 TAAGTTAATT
77591285 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
77591298 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
77591312 TTTGAAAA
1 TTTGAAAA
77591320 TATCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:77591336 original size:181 final size:182
Alignment explanation
Indices: 77591033--77591375 Score: 503
Period size: 181 Copynumber: 1.9 Consensus size: 182
77591023 ACGACATTAA
* * * *
77591033 AAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAATTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTT
** ** **
77591098 GGTCTTTTTGAAACTTAATTTGAAAAGTTGATTTTTGAAAATACCTCGACATGTGACCCGAGGCT
66 -GAATTTTTGAAACAGAATTTGAAAAGCAGATTTTTGAAAATACCTCGACATGTGACCCGAGGCT
*
77591163 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTAAAAATGTAAATTGAAG
130 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAATGTAAATTGAAG
* * *
77591216 AAACAGGAATTTAAAATACCTCAGCGTGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAACAGAAATTGAAAATACCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTT
*
77591281 -AATTTTTGAAAACAGAATTTGCAAAA-CAGA-TTTTGAAAATATCTCGACATGTGACCCGAGGC
66 GAATTTTTG-AAACAGAATTTG-AAAAGCAGATTTTTGAAAATACCTCGACATGTGACCCGAGGC
77591343 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
129 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
77591376 GAAGAGTAGA
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
181 69 0.48
182 12 0.08
183 62 0.43
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (182 bp):
AAACAGAAATTGAAAATACCTCAGCGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATAAGTT
GAATTTTTGAAACAGAATTTGAAAAGCAGATTTTTGAAAATACCTCGACATGTGACCCGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAATGTAAATTGAAG
Found at i:77591348 original size:88 final size:88
Alignment explanation
Indices: 77590995--77591378 Score: 320
Period size: 88 Copynumber: 4.3 Consensus size: 88
77590985 TCAACTTATT
* * * ** *
77590995 TCTCGCAATATG-GATTGACTCTTTGAAAAC-GACA-TTAAAAACAGAAATTGAAAATAGCTC-A
1 TCTCGCAATATGAG-TTGAATTTTTGAAAACAGA-ATTTGAAAACAGATTTTGAAAATACCTCGA
** * * *
77591056 GCGCGTGAGCCAAGGCTCAATTCACC
64 -CATGTGACCCGAGGCTCAACTCACC
** ** **
77591082 TCTCGCAATATGAGTTGGTCTTTTTG-AAACTTAATTTGAAAAGTTGATTTTTGAAAATACCTCG
1 TCTCGCAATATGAGTT-GAATTTTTGAAAACAGAATTTGAAAA-CAGA-TTTTGAAAATACCTCG
77591146 ACATGTGACCCGAGGCTCAACTCACC
63 ACATGTGACCCGAGGCTCAACTCACC
* * * * *
77591172 TCTCGCATTATGAGTTGATTTTTTTTTAAAA-ATGTAAATTGAAGAAACAGGAATTT-AAAATAC
1 TCTCGCAATATGAGTTGA--ATTTTTGAAAACA-G-AATTTG-A-AAACA-GATTTTGAAAATAC
* * *
77591235 CTC-AGCGTGTGAACCAAGGCTCAACTCACC
59 CTCGA-CATGTGACCCGAGGCTCAACTCACC
* *
77591265 TCTCGCAATATAAGTT-AATTTTTGAAAACAGAATTTGCAAAACAGATTTTGAAAATATCTCGAC
1 TCTCGCAATATGAGTTGAATTTTTGAAAACAGAATTTG-AAAACAGATTTTGAAAATACCTCGAC
77591329 ATGTGACCCGAGGCTCAACTCACC
65 ATGTGACCCGAGGCTCAACTCACC
77591353 TCTCGCAATATGAGTTG-ATTTTTGAA
1 TCTCGCAATATGAGTTGAATTTTTGAA
77591379 GAGTAGAAAT
Statistics
Matches: 238, Mismatches: 39, Indels: 39
0.75 0.12 0.12
Matches are distributed among these distances:
87 24 0.10
88 75 0.32
89 10 0.04
90 57 0.24
91 7 0.03
92 5 0.02
93 51 0.21
94 4 0.02
95 5 0.02
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (88 bp):
TCTCGCAATATGAGTTGAATTTTTGAAAACAGAATTTGAAAACAGATTTTGAAAATACCTCGACA
TGTGACCCGAGGCTCAACTCACC
Found at i:77591489 original size:100 final size:98
Alignment explanation
Indices: 77591290--77591576 Score: 314
Period size: 100 Copynumber: 3.0 Consensus size: 98
77591280 TAATTTTTGA
* * * *
77591290 AAACAGAATTTGCAAAACAGATTTTGAAAATATCTCGACATGTGACCCGAGGCTCAACTCACCTC
1 AAACAGAATTCG-AAAA-AGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTC
77591355 TCGCAATATGAGTTGA--TTTTTGAAGA-GTAGAAATT
64 TCGCAATATGAGTTGATTTTTTTGAA-ACGT--AAATT
*
77591390 AAACAGAATTCGAAAAATAGAATTTGAAAATACCTCGGCATGTGACCCGAGGTTCAACTCACCTC
1 AAACAGAATTCG-AAAA-AGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTC
*
77591455 TCACAATATGAGTTGATTTTTTTGAAACGTAAATT
64 TCGCAATATGAGTTGATTTTTTTGAAACGTAAATT
* * * *
77591490 -AA-AGAA--C---AAA-AA-TTGAACATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTC
1 AAACAGAATTCGAAAAAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
77591544 GCAATATGAGTTGATTTTTTTGAAACATAAATT
66 GCAATATGAGTTGATTTTTTTGAAACGTAAATT
77591577 GAAAATACCT
Statistics
Matches: 169, Mismatches: 15, Indels: 19
0.83 0.07 0.09
Matches are distributed among these distances:
87 54 0.32
89 14 0.08
90 2 0.01
91 1 0.01
92 2 0.01
96 1 0.01
98 4 0.02
99 2 0.01
100 78 0.46
101 1 0.01
102 10 0.06
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (98 bp):
AAACAGAATTCGAAAAAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTTTGAAACGTAAATT
Found at i:77591689 original size:73 final size:73
Alignment explanation
Indices: 77591494--77591804 Score: 417
Period size: 73 Copynumber: 4.2 Consensus size: 73
77591484 TAAATTAAAG
* * *
77591494 AACAAAAATTGAACATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
***
77591559 TTTTTTGA
66 TTTTGAAA
* * * *
77591567 AACATAAATTGAAAATACCTCGGCATGTGACCC-GAGGCTCAATTCACCTCTAGCAATATGAATT
1 AACATAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
77591631 GATTTTTGAAA
63 GATTTTTGAAA
** ** * *
77591642 AACATATGTTGAAAATACCTCAGTATGCCCTGAGGCTCAACTCACCTCCCGCAATGTGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
77591707 TTTTGAAA
66 TTTTGAAA
77591715 AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
77591780 TTTTTTGAAA
65 -TTTTTGAAA
*
77591790 AGCATAAATTGAAAA
1 AACATAAATTGAAAA
77591805 AAAAACAGAA
Statistics
Matches: 205, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
72 3 0.01
73 118 0.58
75 82 0.40
76 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (73 bp):
AACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAA
Found at i:77591785 original size:148 final size:147
Alignment explanation
Indices: 77591494--77591804 Score: 419
Period size: 148 Copynumber: 2.1 Consensus size: 147
77591484 TAAATTAAAG
* * * * *
77591494 AACAAAAATTGAACATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
*** * *
77591559 TTTTTTGAAACATAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAATTCACCTCTAGCAAT
66 TTTTGAAAAACATAAATTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTAGCAAT
77591624 ATGAATTGATTTTTGAAA
130 ATGAATTGATTTTTGAAA
** * *
77591642 AACATATGTTGAAAATACCTCAGTATGCCCTGAGGCTCAACTCACCTCCCGCAATGTGAGTTGAT
1 AACATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
*
77591707 TTTTGAAAAACATAAATTGAAAATACCTCAGC-GTG-CCCTGAGGCTCAACTCACCTCTCGCAAT
66 TTTTGAAAAACATAAATTGAAAATACCTCAGCAGTGACCC-GAGGCTCAACTCACCTCTAGCAAT
*
77591770 ATGAGTTGATTTTTTTGAAA
130 ATGAATTGA--TTTTTGAAA
*
77591790 AGCATAAATTGAAAA
1 AACATAAATTGAAAA
77591805 AAAAACAGAA
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
145 3 0.02
146 33 0.23
148 105 0.74
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (147 bp):
AACATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGAT
TTTTGAAAAACATAAATTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATA
TGAATTGATTTTTGAAA
Found at i:77591871 original size:93 final size:90
Alignment explanation
Indices: 77591712--77591888 Score: 275
Period size: 93 Copynumber: 1.9 Consensus size: 90
77591702 TTGATTTTTG
* * *
77591712 AAAAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAAGAGTT
77591777 GATTTTTTTGAAAAGCATAAATTGAAAA
66 GA-TTTTTTG-AAA-CATAAATTGAAAA
*
77591805 AAAAACAGAAATCGAAAATACCTCAGCGTGTTCC-GAGGCTCAACTCACCTCTCGCAATAAGAGT
1 AAAAACAGAAATCGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATAAGAGT
77591869 TGATTTTTTGAAACATAAAT
65 TGATTTTTTGAAACATAAAT
77591889 AAAAAACATC
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
90 7 0.09
91 3 0.04
92 7 0.09
93 60 0.76
94 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (90 bp):
AAAAACAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAAGAGTT
GATTTTTTGAAACATAAATTGAAAA
Found at i:77592732 original size:44 final size:40
Alignment explanation
Indices: 77592661--77592767 Score: 110
Period size: 44 Copynumber: 2.6 Consensus size: 40
77592651 GCTTCATTAG
* *
77592661 GACGCCC-TTTCAGATTTTCATCCTAATCTTTTGTGTTAATCAA
1 GACGCCCTTTTCGGGTTTTCATCCTAATCTTTT-T-TT--TCAA
*
77592704 GACGCCCTTTTCGGGTTTTCA-CCTTAATCTTTTTTTTTAA
1 GACGCCCTTTTCGGGTTTTCATCC-TAATCTTTTTTTTCAA
*
77592744 GATGCCCTTTTTCGGGTTTTCATC
1 GACGCCC-TTTTCGGGTTTTCATC
77592768 TTGATTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
40 9 0.16
41 14 0.25
42 3 0.05
43 10 0.18
44 20 0.36
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (40 bp):
GACGCCCTTTTCGGGTTTTCATCCTAATCTTTTTTTTCAA
Found at i:77592778 original size:41 final size:40
Alignment explanation
Indices: 77592702--77592778 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
77592692 TGTGTTAATC
77592702 AAGACGCCCTTTTCGGGTTTTCACCTTAATCTTTTTTTTT
1 AAGACGCCCTTTTCGGGTTTTCACCTTAATCTTTTTTTTT
* * *
77592742 AAGATGCCCTTTTTCGGGTTTTCATCTTGAT-TTTTTT
1 AAGACGCCC-TTTTCGGGTTTTCACCTTAATCTTTTTT
77592779 CAAGCATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 14 0.42
41 19 0.58
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (40 bp):
AAGACGCCCTTTTCGGGTTTTCACCTTAATCTTTTTTTTT
Found at i:77604021 original size:21 final size:22
Alignment explanation
Indices: 77603997--77604040 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
77603987 TTTTATGGAT
77603997 TTTTGAAAA-TTATTTA-ATAAA
1 TTTT-AAAAGTTATTTACATAAA
*
77604018 TTTTAAAAGTTTTTTACATAAA
1 TTTTAAAAGTTATTTACATAAA
77604040 T
1 T
77604041 ATTTCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
TTTTAAAAGTTATTTACATAAA
Found at i:77605516 original size:25 final size:27
Alignment explanation
Indices: 77605479--77605531 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
77605469 TCAAACATGC
77605479 ATTTAGGTCAATTTAACT-CTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
77605505 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
77605531 A
1 A
77605532 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:77607044 original size:26 final size:26
Alignment explanation
Indices: 77607014--77607095 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
77607004 TGAAATTCCC
77607014 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
77607040 ATCATGAAACATTTACCTAACCCCTT
1 ATCATGGAACATTTACCTAACCCATT
*
77607066 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77607092 ATCA
1 ATCA
77607096 ATTTGTATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77612313 original size:18 final size:20
Alignment explanation
Indices: 77612272--77612312 Score: 61
Period size: 17 Copynumber: 2.2 Consensus size: 20
77612262 CTCTCTTCTC
77612272 TTTTCGTTTCTTTCCTTTTT
1 TTTTCGTTTCTTTCCTTTTT
77612292 TTTTC-TTT-TTT-CTTTTT
1 TTTTCGTTTCTTTCCTTTTT
77612309 TTTT
1 TTTT
77612313 TTGAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.48
18 3 0.14
19 3 0.14
20 5 0.24
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTCGTTTCTTTCCTTTTT
Found at i:77616187 original size:21 final size:21
Alignment explanation
Indices: 77616143--77616189 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
77616133 ATATAGTTAT
*
77616143 TAAAATATATACATACTATAA
1 TAAAATATATACATAATATAA
*
77616164 TAAAATATATGA-ATAATATGA
1 TAAAATATAT-ACATAATATAA
77616185 TAAAA
1 TAAAA
77616190 AAAATATGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
TAAAATATATACATAATATAA
Found at i:77616506 original size:33 final size:30
Alignment explanation
Indices: 77616440--77616506 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
77616430 ACTACTACAT
* *
77616440 ATAA-TAATAATAATAATAATACAGAGATT
1 ATAATTAATAATAATAATAATACAGAAATA
*
77616469 ATAATTAATAATAATAGTAAATATCAGAAAATA
1 ATAATTAATAATAATAAT-AATA-CAG-AAATA
77616502 ATAAT
1 ATAAT
77616507 GAGTAATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 4 0.13
30 12 0.39
31 4 0.13
32 3 0.10
33 8 0.26
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (30 bp):
ATAATTAATAATAATAATAATACAGAAATA
Found at i:77628598 original size:3 final size:3
Alignment explanation
Indices: 77628523--77628589 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
77628513 GTACTTTTGC
* *
77628523 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
77628571 CT-T TAC TAT TAT TAG TAT T
1 -TAT TAT TAT TAT TAT TAT T
77628590 GGTATTATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.98
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:77629045 original size:15 final size:16
Alignment explanation
Indices: 77629025--77629057 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
77629015 CACCTATATA
77629025 TATATATA-CATATTT
1 TATATATAGCATATTT
77629040 TATATATATGCATATTT
1 TATATATA-GCATATTT
77629057 T
1 T
77629058 TCTTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATAGCATATTT
Found at i:77629045 original size:17 final size:17
Alignment explanation
Indices: 77629023--77629057 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
77629013 TACACCTATA
77629023 TATATATATACATATTT
1 TATATATATACATATTT
*
77629040 TATATATATGCATATTT
1 TATATATATACATATTT
77629057 T
1 T
77629058 TCTTCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (17 bp):
TATATATATACATATTT
Found at i:77630287 original size:15 final size:16
Alignment explanation
Indices: 77630267--77630296 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77630257 ACGTTTACAT
77630267 ATTTTTA-TCATTTTG
1 ATTTTTATTCATTTTG
77630282 ATTTTTATTCATTTT
1 ATTTTTATTCATTTT
77630297 TTGTGCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (16 bp):
ATTTTTATTCATTTTG
Found at i:77633656 original size:96 final size:96
Alignment explanation
Indices: 77633496--77633688 Score: 368
Period size: 96 Copynumber: 2.0 Consensus size: 96
77633486 TCTTTTAAAA
* *
77633496 TATTTACAATAACAATAGTATCAATCATGATACGATTTAATAGAGGTAAAAGTAATTTGGAGGCC
1 TATTTACAATAACAATAGTATCAATCATAATACGATTTAATAGAGGTAAAAGTAATTTGAAGGCC
77633561 TCTGTATTAAGAGTTGGATTGCATTTTACCT
66 TCTGTATTAAGAGTTGGATTGCATTTTACCT
77633592 TATTTACAATAACAATAGTATCAATCATAATACGATTTAATAGAGGTAAAAGTAATTTGAAGGCC
1 TATTTACAATAACAATAGTATCAATCATAATACGATTTAATAGAGGTAAAAGTAATTTGAAGGCC
77633657 TCTGTATTAAGAGTTGGATTGCATTTTACCT
66 TCTGTATTAAGAGTTGGATTGCATTTTACCT
77633688 T
1 T
77633689 CTCTATTAAA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (96 bp):
TATTTACAATAACAATAGTATCAATCATAATACGATTTAATAGAGGTAAAAGTAATTTGAAGGCC
TCTGTATTAAGAGTTGGATTGCATTTTACCT
Found at i:77635935 original size:14 final size:14
Alignment explanation
Indices: 77635896--77635941 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
77635886 TTGTCAAAAT
* *
77635896 AAATCTAAAAATTTA
1 AAATC-AAAAAATAA
77635911 AAATCAAAAAATAA
1 AAATCAAAAAATAA
*
77635925 AAATGAAAAAATAA
1 AAATCAAAAAATAA
77635939 AAA
1 AAA
77635942 ACTGAACCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 23 0.82
15 5 0.18
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATCAAAAAATAA
Found at i:77643497 original size:25 final size:25
Alignment explanation
Indices: 77643467--77643515 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
77643457 TTTAGCTTGA
*
77643467 TTAATATTGATATTATTTTTAGTGC
1 TTAATATTGATATTATTATTAGTGC
77643492 TTAATATTGATATTATTATTAGTG
1 TTAATATTGATATTATTATTAGTG
77643516 TAAGAGATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (25 bp):
TTAATATTGATATTATTATTAGTGC
Found at i:77643525 original size:25 final size:25
Alignment explanation
Indices: 77643472--77643531 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
77643462 CTTGATTAAT
* * *
77643472 ATTGATATTATTTTTAGTGCTTAAT
1 ATTGATATTATTATTAGTGCTAAAG
77643497 ATTGATATTATTATTAGTG-TAAGAG
1 ATTGATATTATTATTAGTGCTAA-AG
77643522 ATTGTATATT
1 ATTG-ATATT
77643532 TAAGTGTGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.07
25 23 0.77
26 5 0.17
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.52
Consensus pattern (25 bp):
ATTGATATTATTATTAGTGCTAAAG
Found at i:77644074 original size:17 final size:16
Alignment explanation
Indices: 77644054--77644087 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
77644044 AAATATCCTC
77644054 ATTTGATAAATAAAAAT
1 ATTTGA-AAATAAAAAT
*
77644071 ATTTTAAAATAAAAAT
1 ATTTGAAAATAAAAAT
77644087 A
1 A
77644088 GAGTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTGAAAATAAAAAT
Found at i:77644217 original size:23 final size:24
Alignment explanation
Indices: 77644186--77644235 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
77644176 TATTCATTTT
*
77644186 TTTATAAATCTATTATA-ATTAATA
1 TTTATAAATATA-TATAGATTAATA
77644210 TTTA-AAATATATATAGATTAATA
1 TTTATAAATATATATAGATTAATA
77644233 TTT
1 TTT
77644236 GAAACTGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 16 0.67
24 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTATAAATATATATAGATTAATA
Found at i:77646892 original size:21 final size:21
Alignment explanation
Indices: 77646868--77646907 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
77646858 ACGCGTCTGA
**
77646868 CACCAGCTGCCACCGCCCAAG
1 CACCAGCCACCACCGCCCAAG
*
77646889 CACCTGCCACCACCGCCCA
1 CACCAGCCACCACCGCCCA
77646908 TGCCCACTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.57, G:0.15, T:0.05
Consensus pattern (21 bp):
CACCAGCCACCACCGCCCAAG
Found at i:77647863 original size:3 final size:3
Alignment explanation
Indices: 77647850--77647888 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
77647840 TTTTGCAATG
* * *
77647850 TTA TCA TTA TTA TTA TTA TTA TTA TTT TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
77647889 GTTTATGCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:77648657 original size:38 final size:36
Alignment explanation
Indices: 77648574--77648676 Score: 95
Period size: 38 Copynumber: 2.8 Consensus size: 36
77648564 TATACGTACT
77648574 TATACATACTTAAATATATTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTCATATTT-ATAATTC
* *
77648611 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-T-CATATTTATA-ATTC
* *
77648647 ATATACATACTTATATATATTCTTTATATT
1 -TATACATACTTAAATATATT-TTCATATT
77648677 CTTAAAAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
36 21 0.38
37 9 0.16
38 24 0.44
39 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.01, T:0.50
Consensus pattern (36 bp):
TATACATACTTAAATATATTTTCATATTTATAATTC
Found at i:77659474 original size:81 final size:80
Alignment explanation
Indices: 77659355--77659732 Score: 607
Period size: 81 Copynumber: 4.7 Consensus size: 80
77659345 CTCCCAAAGC
*
77659355 TGAGATGTGTTTTAATTTTATTTTTTAAATTTTTAAATATTAATTAGAATATTTGTCAGGTTTTA
1 TGAGATGTGTTTTAATTTTATTTTTT-ATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTA
77659420 AATTCCTCGAAAAAAA
65 AATTCCTCGAAAAAAA
*
77659436 TGAGATGTGTTTTAATTTTAATTTTTTATTTTTTAAATATTAATTATAATATTTGTCAGGTTTTA
1 TGAGATGTGTTTTAATTTT-ATTTTTTATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTA
77659501 AATTCCTCGAAAAAAA
65 AATTCCTCGAAAAAAA
77659517 TGAGATGTGTTTTAATTTTATTTTTATATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTA
1 TGAGATGTGTTTTAATTTTATTTTT-TATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTA
*
77659582 AATTCCTTGAAAAAAA
65 AATTCCTCGAAAAAAA
* *
77659598 TGAGATGTGCTTTAATTTT-TTTTTTATTTTTTAAATATTAATTAGAATATTTGTCGGGTTTTAA
1 TGAGATGTGTTTTAATTTTATTTTTTATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTAA
* *
77659662 ATTCCTCCAAGAAAA
66 ATTCCTCGAAAAAAA
** *
77659677 TGAGATGTG-TTTAATTTTATTTTTTAAAAATTTTAAACATTAATTAGAATATTTGT
1 TGAGATGTGTTTTAATTTTATTTTTT--ATTTTTTAAATATTAATTAGAATATTTGT
77659733 TCCGTTTAAA
Statistics
Matches: 280, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
78 9 0.03
79 66 0.24
80 11 0.04
81 187 0.67
82 7 0.03
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (80 bp):
TGAGATGTGTTTTAATTTTATTTTTTATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTAA
ATTCCTCGAAAAAAA
Found at i:77659713 original size:160 final size:162
Alignment explanation
Indices: 77659355--77659732 Score: 629
Period size: 160 Copynumber: 2.4 Consensus size: 162
77659345 CTCCCAAAGC
77659355 TGAGATGTGTTTTAATTTTATTTTTT-AAATTTTTAAATATTAATTAGAATATTTGTCAGGTTTT
1 TGAGATGTGTTTTAATTTTATTTTTTAAAATTTTTAAATATTAATTAGAATATTTGTCAGGTTTT
* *
77659419 AAATTCCTCGAAAAAAATGAGATGTGTTTTAATTTTAATTTTTTATTTTTTAAATATTAATTATA
66 AAATTCCTCGAAAAAAATGAGATGTGCTTTAATTTT-ATTTTTTATTTTTTAAATATTAATTAGA
*
77659484 ATATTTGTCAGGTTTTAAATTCCTCGAAAAAAA
130 ATATTTGTCAGGTTTTAAATTCCTCCAAAAAAA
* *
77659517 TGAGATGTGTTTTAATTTTA-TTTTTATATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTT
1 TGAGATGTGTTTTAATTTTATTTTTTAAAATTTTTAAATATTAATTAGAATATTTGTCAGGTTTT
*
77659581 AAATTCCTTGAAAAAAATGAGATGTGCTTTAATTTT-TTTTTTATTTTTTAAATATTAATTAGAA
66 AAATTCCTCGAAAAAAATGAGATGTGCTTTAATTTTATTTTTTATTTTTTAAATATTAATTAGAA
* *
77659645 TATTTGTCGGGTTTTAAATTCCTCCAAGAAAA
131 TATTTGTCAGGTTTTAAATTCCTCCAAAAAAA
* *
77659677 TGAGATGTG-TTTAATTTTATTTTTTAAAAATTTTAAACATTAATTAGAATATTTGT
1 TGAGATGTGTTTTAATTTTATTTTTTAAAATTTTTAAATATTAATTAGAATATTTGT
77659733 TCCGTTTAAA
Statistics
Matches: 202, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
159 10 0.05
160 97 0.48
161 5 0.02
162 90 0.45
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (162 bp):
TGAGATGTGTTTTAATTTTATTTTTTAAAATTTTTAAATATTAATTAGAATATTTGTCAGGTTTT
AAATTCCTCGAAAAAAATGAGATGTGCTTTAATTTTATTTTTTATTTTTTAAATATTAATTAGAA
TATTTGTCAGGTTTTAAATTCCTCCAAAAAAA
Found at i:77660591 original size:21 final size:19
Alignment explanation
Indices: 77660557--77660596 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 19
77660547 ACACAAATAT
77660557 TTTTTTTAAATTTTTATAA
1 TTTTTTTAAATTTTTATAA
77660576 TTTTTTTAATATTTTTTATAA
1 TTTTTTTAA-A-TTTTTATAA
77660597 AGTACATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTTAAATTTTTATAA
Found at i:77666966 original size:29 final size:29
Alignment explanation
Indices: 77666932--77666988 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
77666922 ACGTTTACTG
*
77666932 TTCAAAATAGG-TCATTTACATATATAATT
1 TTCAAAAT-GGATCATTTACATAAATAATT
* *
77666961 TTCAAAGTGGATCATTTTCATAAATAAT
1 TTCAAAATGGATCATTTACATAAATAAT
77666989 GTAAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (29 bp):
TTCAAAATGGATCATTTACATAAATAATT
Found at i:77668918 original size:14 final size:14
Alignment explanation
Indices: 77668899--77668925 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77668889 ATATTGTGTT
77668899 TGTATATATATATA
1 TGTATATATATATA
77668913 TGTATATATATAT
1 TGTATATATATAT
77668926 TGTTTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TGTATATATATATA
Found at i:77685023 original size:184 final size:188
Alignment explanation
Indices: 77684719--77685083 Score: 447
Period size: 186 Copynumber: 2.0 Consensus size: 188
77684709 ACACGAAAAT
* * ** *
77684719 GGAAAATTATTGACCTAATAAGATGTTATCGATTTAATTCTTTGCCCAACCGAGATCAGTTTGGG
1 GGAAAATTAATGACCTAATAAAATGTTATCGATCGAATTCTCTGCCCAACCGAGATCAGTTTGGG
*
77684784 TTATAAAATCCAATATCAGTGTTGAGTACATACTCATTTATCCCTTCATAATAATTAATCCTTTC
66 TTATAAAATCCAATATCAGTGTTGAGTACATACTCATTTAGCCCTTCATAATAATTAATCCTTTC
*
77684849 AGAAG-TCAT-AAT-TATTATATACAATTATATTATTTTTAAAATTTAAACTGATAAAC
131 AG-AGTTCATGAATATATTATATACAATTATATTATTTCTAAAATTTAAACTGATAAAC
** **
77684905 GGAAAATTAATGAGTTAATAAAATGTTATCGATCGAA-TCTCTGCCCAATTGAGAT-AGGTTTGG
1 GGAAAATTAATGACCTAATAAAATGTTATCGATCGAATTCTCTGCCCAACCGAGATCA-GTTTGG
* * * * * * * *
77684968 G-TATAAAATCCAATATTAGTTTTGGGTACGTGC-CTGTTTAGCCTTTCATAATAATTAATTCTT
65 GTTATAAAATCCAATATCAGTGTTGAGTACATACTC-ATTTAGCCCTTCATAATAATTAATCCTT
* * * *
77685031 TTAGAGTTCATGATTATATTATATATACTTATATTATTTCTAAAATTTAAACT
129 TCAGAGTTCATGAATATATTATATACAATTATATTATTTCTAAAATTTAAACT
77685084 TGAATCTGTT
Statistics
Matches: 151, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
183 3 0.02
184 59 0.39
185 24 0.16
186 65 0.43
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (188 bp):
GGAAAATTAATGACCTAATAAAATGTTATCGATCGAATTCTCTGCCCAACCGAGATCAGTTTGGG
TTATAAAATCCAATATCAGTGTTGAGTACATACTCATTTAGCCCTTCATAATAATTAATCCTTTC
AGAGTTCATGAATATATTATATACAATTATATTATTTCTAAAATTTAAACTGATAAAC
Found at i:77685536 original size:20 final size:19
Alignment explanation
Indices: 77685511--77685555 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
77685501 GTACAATAAT
77685511 TTTTATAATTATTTTACGAA
1 TTTTATAATTATTTTA-GAA
* * *
77685531 TTTTATATTTTTTTTATAA
1 TTTTATAATTATTTTAGAA
77685550 TTTTAT
1 TTTTAT
77685556 TATGACTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAATTATTTTAGAA
Found at i:77685620 original size:27 final size:29
Alignment explanation
Indices: 77685568--77685640 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
77685558 TGACTTTATA
* *
77685568 AAATTTTATATTTTTTCTGTATTTC-TA-T
1 AAATTTTATATTTTTT-TCTAATTCTTAGT
*
77685596 ATATTTTATATTTTTTTCTAATTCTTAGT
1 AAATTTTATATTTTTTTCTAATTCTTAGT
77685625 AAATTTTA-ATTTTTTT
1 AAATTTTATATTTTTTT
77685641 TATATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 6 0.15
28 25 0.64
29 8 0.21
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (29 bp):
AAATTTTATATTTTTTTCTAATTCTTAGT
Found at i:77685641 original size:29 final size:27
Alignment explanation
Indices: 77685568--77685641 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
77685558 TGACTTTATA
* * *
77685568 AAATTTTATATTTTTTCTGTATTTCTAT
1 AAATTTTA-ATTTTTTTTCTAATTCTAT
*
77685596 ATATTTT-ATATTTTTTTCTAATTCTTAGT
1 AAATTTTAAT-TTTTTTTCTAATTC-TA-T
77685625 AAATTTTAATTTTTTTT
1 AAATTTTAATTTTTTTT
77685642 ATATTTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.05
27 11 0.30
28 8 0.22
29 14 0.38
30 2 0.05
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (27 bp):
AAATTTTAATTTTTTTTCTAATTCTAT
Found at i:77687226 original size:23 final size:23
Alignment explanation
Indices: 77687181--77687240 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 23
77687171 AAAATCAAAA
77687181 AATATATTTTAT-ATT-AATATT
1 AATATATTTTATAATTAAATATT
77687202 AATATATTTTTATAATTAAAT-TT
1 AATATA-TTTTATAATTAAATATT
77687225 AA-ATAATTTT-TAATTA
1 AATAT-ATTTTATAATTA
77687241 TTTAATTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 12 0.34
22 12 0.34
23 8 0.23
24 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATATTTTATAATTAAATATT
Found at i:77687247 original size:24 final size:23
Alignment explanation
Indices: 77687181--77687248 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
77687171 AAAATCAAAA
77687181 AATATA-TTTTA-TA-TTAATATT
1 AATATATTTTTATTATTTAAT-TT
* *
77687202 AATATATTTTTATAATTAAATTT
1 AATATATTTTTATTATTTAATTT
77687225 AA-ATAATTTTTAATTATTTAATTT
1 AATAT-ATTTTT-ATTATTTAATTT
77687249 GAATTGAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.16
22 7 0.18
23 11 0.29
24 14 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATATATTTTTATTATTTAATTT
Found at i:77687897 original size:15 final size:17
Alignment explanation
Indices: 77687871--77687904 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
77687861 TTTAGTTTTC
77687871 AAAATTTCAAAAA-AAA
1 AAAATTTCAAAAATAAA
77687887 AAAATTT-AAAAATAAA
1 AAAATTTCAAAAATAAA
77687903 AA
1 AA
77687905 TTGCATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATTTCAAAAATAAA
Found at i:77687936 original size:30 final size:30
Alignment explanation
Indices: 77687902--77688003 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
77687892 TTAAAAATAA
*
77687902 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCCTAAACTTTCT-CT
* *
77687932 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTCT
* * *
77687962 AAATTTCACTTAGACCCCTAAACATTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTC-TCT
77687992 AAATTTCATTTT
1 AAATTTCATTTT
77688004 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
30 59 0.97
31 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTCT
Found at i:77688272 original size:10 final size:10
Alignment explanation
Indices: 77688253--77688302 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
77688243 TTTTTCGAAG
*
77688253 GAAAAAAGAA
1 GAAAAGAGAA
77688263 GAAAAGAGAA
1 GAAAAGAGAA
77688273 GAAAAGAGAA
1 GAAAAGAGAA
* *
77688283 -AGAGGAGAA
1 GAAAAGAGAA
77688292 GAAAAGA-AA
1 GAAAAGAGAA
77688301 GA
1 GA
77688303 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:77688303 original size:17 final size:19
Alignment explanation
Indices: 77688256--77688298 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
77688246 TTCGAAGGAA
77688256 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
77688274 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
77688293 AAAAGA
1 AAAAGA
77688299 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:77688374 original size:3 final size:3
Alignment explanation
Indices: 77688368--77688418 Score: 84
Period size: 3 Copynumber: 16.3 Consensus size: 3
77688358 GTGTAGGAGG
77688368 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGAA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AG-A AGA AGA
77688415 AGA A
1 AGA A
77688419 AGAAAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:77688571 original size:30 final size:29
Alignment explanation
Indices: 77688536--77688601 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
77688526 AATTAATTAA
*
77688536 AAAAAACAACACAAA-AAAAACAAATCAGCCC
1 AAAAAA-AAC-CAAACAAAAA-AAAGCAGCCC
77688567 AAAAAAAACCAAAGCAAAAAAAAGCAGCCC
1 AAAAAAAACCAAA-CAAAAAAAAGCAGCCC
77688597 AAAAA
1 AAAAA
77688602 GAAAAGGCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.12
30 17 0.53
31 11 0.34
ACGTcount: A:0.70, C:0.23, G:0.06, T:0.02
Consensus pattern (29 bp):
AAAAAAAACCAAACAAAAAAAAGCAGCCC
Found at i:77688599 original size:15 final size:15
Alignment explanation
Indices: 77688551--77688620 Score: 54
Period size: 15 Copynumber: 4.6 Consensus size: 15
77688541 ACAACACAAA
*
77688551 AAAAACAAATCAGCCC
1 AAAAA-AAAGCAGCCC
* ***
77688567 AAAAAAAACCAAAGC
1 AAAAAAAAGCAGCCC
77688582 AAAAAAAAGCAGCCC
1 AAAAAAAAGCAGCCC
77688597 AAAAAGAAA--AGGCCC
1 AAAAA-AAAGCA-GCCC
77688612 AAAAAAAAG
1 AAAAAAAAG
77688621 AAAAAATAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
14 4 0.09
15 31 0.72
16 8 0.19
ACGTcount: A:0.66, C:0.21, G:0.11, T:0.01
Consensus pattern (15 bp):
AAAAAAAAGCAGCCC
Found at i:77688753 original size:15 final size:15
Alignment explanation
Indices: 77688733--77688826 Score: 98
Period size: 15 Copynumber: 6.0 Consensus size: 15
77688723 AGCAGGCCAG
* *
77688733 GAAAAAAGAGAGAAA
1 GAAAAAAGAAAAAAA
77688748 GAAAAAAGAAAAAAA
1 GAAAAAAGAAAAAAA
*
77688763 GAAAGAAGAAAAAAA
1 GAAAAAAGAAAAAAA
* * *
77688778 GAAAAGATAAAAAAG
1 GAAAAAAGAAAAAAA
77688793 GAAAAAAGGAAAAAGGAA
1 GAAAAAA-GAAAAA--AA
77688811 GAAAAAAAGAAAAAAA
1 G-AAAAAAGAAAAAAA
77688827 AGAGTTTCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
15 44 0.68
16 7 0.11
18 8 0.12
19 6 0.09
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (15 bp):
GAAAAAAGAAAAAAA
Found at i:77688760 original size:8 final size:8
Alignment explanation
Indices: 77688734--77688826 Score: 84
Period size: 8 Copynumber: 11.8 Consensus size: 8
77688724 GCAGGCCAGG
77688734 AAAAAAGA
1 AAAAAAGA
* *
77688742 GAGAAAG-
1 AAAAAAGA
77688749 AAAAAAGA
1 AAAAAAGA
77688757 AAAAAAG-
1 AAAAAAGA
*
77688764 AAAGAAGA
1 AAAAAAGA
77688772 AAAAAAG-
1 AAAAAAGA
* *
77688779 AAAAGATA
1 AAAAAAGA
*
77688787 AAAAAGGA
1 AAAAAAGA
*
77688795 AAAAAGGA
1 AAAAAAGA
77688803 AAAAGGAAGA
1 AAAA--AAGA
77688813 AAAAAAGA
1 AAAAAAGA
77688821 AAAAAA
1 AAAAAA
77688827 AGAGTTTCAA
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
7 16 0.24
8 45 0.66
10 7 0.10
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (8 bp):
AAAAAAGA
Found at i:77688763 original size:23 final size:22
Alignment explanation
Indices: 77688734--77688829 Score: 76
Period size: 23 Copynumber: 4.4 Consensus size: 22
77688724 GCAGGCCAGG
77688734 AAAAAAGAGAGAAAGAAAAAAGA
1 AAAAAAGA-AGAAAGAAAAAAGA
77688757 AAAAAAGAA-AGAAGAAAAAAAGA
1 AAAAAAGAAGA-AAG-AAAAAAGA
* *
77688780 AAAGATAA-AA-AAGGAAAAAAGG
1 AAA-A-AAGAAGAAAGAAAAAAGA
* *
77688802 AAAAAGGAAGAAA-AAAAGA-A
1 AAAAAAGAAGAAAGAAAAAAGA
77688822 AAAAAAGA
1 AAAAAAGA
77688830 GTTTCAATTC
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
20 8 0.13
21 9 0.15
22 16 0.27
23 21 0.35
24 4 0.07
25 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (22 bp):
AAAAAAGAAGAAAGAAAAAAGA
Found at i:77689439 original size:17 final size:17
Alignment explanation
Indices: 77689402--77689558 Score: 165
Period size: 17 Copynumber: 9.1 Consensus size: 17
77689392 AAAAAAATCC
*
77689402 ATTTTAGTGTCTTCTAAAA
1 ATTTTCGTGT-TTC-AAAA
*
77689421 ATTTTTGTGTTTCAAAA
1 ATTTTCGTGTTTCAAAA
77689438 ATTTTCGT-TTTCAAAA
1 ATTTTCGTGTTTCAAAA
*
77689454 ATTTCCGTGTTTCAAAA
1 ATTTTCGTGTTTCAAAA
77689471 ATTTTCGTGTTTTCAAAA
1 ATTTTCGTG-TTTCAAAA
* *
77689489 TTTTTCGTATTTCAAAA
1 ATTTTCGTGTTTCAAAA
** *
77689506 ATCCTCTTGTTTCAAAA
1 ATTTTCGTGTTTCAAAA
**
77689523 A-TTTCGGTGTTTTGAAA
1 ATTTTC-GTGTTTCAAAA
77689540 ATTTTCGTGTTTTCAAAA
1 ATTTTCGTG-TTTCAAAA
77689558 A
1 A
77689559 AAAATCTCGT
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
16 17 0.15
17 60 0.52
18 29 0.25
19 9 0.08
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (17 bp):
ATTTTCGTGTTTCAAAA
Found at i:77689502 original size:35 final size:35
Alignment explanation
Indices: 77689418--77689557 Score: 155
Period size: 35 Copynumber: 4.1 Consensus size: 35
77689408 GTGTCTTCTA
77689418 AAAATTTTT-GTGTTTCAAAAATTTTC--GTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* *
77689450 AAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* ** *
77689485 AAAATTTTTCGTATTTCAAAAATCCTCTTG-TTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* **
77689519 AAAA-ATTTCGGTGTTTTGAAAATTTTCGTGTTTTC
1 AAAATTTTTC-GTGTTTCAAAAATTTTCGTGTTTTC
77689554 AAAA
1 AAAA
77689558 AAAAATCTCG
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
32 7 0.08
33 21 0.24
34 22 0.25
35 38 0.43
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (35 bp):
AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
Found at i:77689524 original size:52 final size:50
Alignment explanation
Indices: 77689408--77689558 Score: 164
Period size: 52 Copynumber: 2.9 Consensus size: 50
77689398 ATCCATTTTA
* *
77689408 GTGTCTTCTAAAAATTTTTGTG-TTTCAAAAATTTTCGTTTTCAAAAATTTCC
1 GTGT-TTC-AAAAATTTTCGTGTTTTC-AAAATTTTCGTTTTCAAAAATCTCC
77689460 GTGTTTCAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTTCAAAAATC-CTC
1 GTGTTTCAAAAATTTTCGTGTTTTCAAAA-TTTTCGT-TTTCAAAAATCTC-C
* *
77689512 TTGTTTCAAAAA-TTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAAA
1 GTGTTTCAAAAATTTTC-GTGTTTTCAAAATTTTC--GTTTTCAAAAA
77689559 AAAATCTCGT
Statistics
Matches: 88, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
50 16 0.18
51 24 0.27
52 46 0.52
53 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (50 bp):
GTGTTTCAAAAATTTTCGTGTTTTCAAAATTTTCGTTTTCAAAAATCTCC
Found at i:77689571 original size:38 final size:37
Alignment explanation
Indices: 77689519--77689645 Score: 111
Period size: 38 Copynumber: 3.4 Consensus size: 37
77689509 CTCTTGTTTC
*
77689519 AAAAATTTCGGTGTTTTGAAAATTTTCGTGTTTTCAAAA
1 AAAAATCTC-GTGTTTT-AAAATTTTCGTGTTTTCAAAA
*
77689558 AAAAATCTCGTGTTTCATAAATTTT-G-GTTTT-AAAA
1 AAAAATCTCGTGTTTTA-AAATTTTCGTGTTTTCAAAA
* * * *
77689593 AAATAT-T-ATGTCTTAAAATTCTCGTGTTTTCAAAA
1 AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAA
77689628 CAAGAAATTCTCGTGTTT
1 -AA-AAA-TCTCGTGTTT
77689646 CAATCGGATC
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
32 6 0.09
33 6 0.09
34 6 0.09
35 13 0.19
36 7 0.10
37 4 0.06
38 14 0.20
39 9 0.13
40 4 0.06
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (37 bp):
AAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAA
Found at i:77694972 original size:52 final size:51
Alignment explanation
Indices: 77694901--77695109 Score: 266
Period size: 52 Copynumber: 4.1 Consensus size: 51
77694891 ATCAAGTGAC
* *
77694901 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
77694953 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
77694999 AAAGTGACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
77695050 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
77695103 ATAAGTG
1 A-AAGTG
77695110 GCTACACTTA
Statistics
Matches: 137, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
46 43 0.31
52 84 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:77695011 original size:98 final size:98
Alignment explanation
Indices: 77694887--77695110 Score: 358
Period size: 98 Copynumber: 2.3 Consensus size: 98
77694877 TTTGAGTACT
*
77694887 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
77694952 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
* * *
77694985 TCTGATCAAGTGACAAAGTGACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
77695050 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
*
77695083 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
77695111 CTACACTTAT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 114 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
Found at i:77695117 original size:37 final size:37
Alignment explanation
Indices: 77695073--77695218 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
77695063 GATAGCTTTA
*
77695073 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
77695110 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
77695147 GCTACACTTATCTGATTAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
77695184 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
77695219 ATTATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:77704735 original size:122 final size:121
Alignment explanation
Indices: 77704525--77704750 Score: 294
Period size: 122 Copynumber: 1.9 Consensus size: 121
77704515 AATTTTTTAA
* ** * *
77704525 AAAATCAACTATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATG
1 AAAATCAACTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTATG
** ** *
77704590 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
**
77704646 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTT-
1 AAAATCAACT-ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT-AATTTA
*
77704710 T-TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
64 TGTT-AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
77704751 CGGGGCACGC
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
121 12 0.13
122 73 0.82
123 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (121 bp):
AAAATCAACTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTATG
TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:77704859 original size:191 final size:191
Alignment explanation
Indices: 77704264--77705066 Score: 1518
Period size: 190 Copynumber: 4.2 Consensus size: 191
77704254 CTTTCCAAGG
77704264 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
77704329 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
77704394 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
77704456 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
77704521 TTAAAAAATCAACT-ATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
66 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
77704585 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
77704646 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
77704711 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
66 TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
77704776 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
77704837 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
** *
77704902 AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 -TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
77704967 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
77705029 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
77705067 GGCTCACATG
Statistics
Matches: 602, Mismatches: 6, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
190 190 0.32
191 188 0.31
192 190 0.32
193 34 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (191 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:77705273 original size:87 final size:90
Alignment explanation
Indices: 77705024--77705273 Score: 316
Period size: 91 Copynumber: 2.8 Consensus size: 90
77705014 TAATTTTTGT
*
77705024 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* * **
77705088 TCAATTTATGTTTTTTTCAATCTATAC
64 TCAATTTCTGCTTTACTCAATCTATAC
* *
77705115 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
*
77705177 TCAATTTCTGCTTTACT-AAT-TCTAC
64 TCAATTTCTGCTTTACTCAATCTATAC
* *
77705202 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
77705266 AAATTCTG
66 AATTTCTG
77705274 TTTTTAATTT
Statistics
Matches: 141, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.23
88 3 0.02
89 27 0.19
91 41 0.29
93 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (90 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGCTTTACTCAATCTATAC
Found at i:77705464 original size:54 final size:55
Alignment explanation
Indices: 77705380--77705597 Score: 308
Period size: 54 Copynumber: 4.1 Consensus size: 55
77705370 TCAATTTCTA
*
77705380 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
* *
77705435 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
*
77705489 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
*
77705540 CTTTTGCAAATTCTA-TTTTCAAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGC
77705595 CTT
1 CTT
77705598 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 6, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
50 12 0.08
51 35 0.23
52 2 0.01
53 2 0.01
54 47 0.32
55 40 0.27
56 6 0.04
57 5 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
Found at i:77705858 original size:14 final size:15
Alignment explanation
Indices: 77705839--77705873 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
77705829 TTTAATTTTC
77705839 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
*
77705853 AAAATTTTAAAAATA
1 AAAATTTCAAAAATA
77705868 AAAATT
1 AAAATT
77705874 ACATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Done.