Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 58 of 310
Found at i:18213494 original size:176 final size:176
Alignment explanation
Indices: 18213200--18213872 Score: 1064
Period size: 176 Copynumber: 3.8 Consensus size: 176
18213190 TAGCGACATC
* *
18213200 GTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAAAA-TTACAGATCTTAT
1 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAAGTTACAGATCTTAT
* *
18213264 CTCCATGTATCGGCTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATAGA
65 CTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGA
* *
18213329 GCAGATTTTAGCCACTAACCTTATCTCTCTGAGTTTGTAGAGAGCAG
130 GCAGATTTTAGCCACTAACCTTATCTCTTTGAGTTTGAAGAGAGCAG
*
18213376 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTAAAAGTTACAGATCTTATC
1 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATC
*
18213441 TCCATGTATCGGTTATGGAGCAGATCA-AAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGA
66 TCCATGTATCGGCTATGGAGCAGATCAGAA-ATGGCGAGTCTTATCTCCATGTATCGGCTATGGA
* *
18213505 GCAAATTTTAGCCACTAACCTTATCTCTTTGAGTTTGCAGAGAGCAG
130 GCAGATTTTAGCCACTAACCTTATCTCTTTGAGTTTGAAGAGAGCAG
*
18213552 GTTGAAGATACAGGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATC
1 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATC
18213617 TCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
66 TCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
* * * * *
18213682 TAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAG
131 CAGATTTTAGCCACTAACCTTATCTCTTTGAGTTTG-AAGAGAGCAG
* * *
18213729 GTTGAAGATATAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAAAGTTACAGATCTTATC
1 GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATC
* * * *
18213794 TCCATGTATCGGCTATGGAACAGATC-GAAGATGGCGAGTCTTATCTCCATATATTGGCTATTGA
66 TCCATGTATCGGCTATGGAGCAGATCAGAA-ATGGCGAGTCTTATCTCCATGTATCGGCTATGGA
**
18213858 GTGGATTTTAGCCAC
130 GCAGATTTTAGCCAC
18213873 CGGCTTTGTC
Statistics
Matches: 464, Mismatches: 28, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
175 6 0.01
176 316 0.68
177 142 0.31
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (176 bp):
GTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATC
TCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
CAGATTTTAGCCACTAACCTTATCTCTTTGAGTTTGAAGAGAGCAG
Found at i:18215686 original size:45 final size:45
Alignment explanation
Indices: 18215597--18215701 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
18215587 TGGTGGCTTA
* * * **
18215597 AATCTGCTTCACTGCAACTTCAGGAAGGCAATATTCGCCTTCTTC
1 AATCTGCTCCACTACAACTTCAGGAAGGCAAGATTCGCAATCTTC
*
18215642 AATCTGCTCCACTACAACTTCAGGGAGGCAAGA-TCTGCAATCTTC
1 AATCTGCTCCACTACAACTTCAGGAAGGCAAGATTC-GCAATCTTC
** *
18215687 AGCCTACTCCACTAC
1 AATCTGCTCCACTAC
18215702 TGCTTAGGGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 2 0.04
45 48 0.96
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (45 bp):
AATCTGCTCCACTACAACTTCAGGAAGGCAAGATTCGCAATCTTC
Found at i:18215779 original size:132 final size:131
Alignment explanation
Indices: 18215528--18215842 Score: 405
Period size: 132 Copynumber: 2.4 Consensus size: 131
18215518 CTATTGCAAA
* * * * * * *
18215528 TTCAGGGAGACAAGATCTACAATCTTTAGCCTACTTCGCTACTACTTAGAGAGATAGGATGGTGG
1 TTCAGGGAGGCAAGATCTGCAATCTTCAGCCTAC-TCCCTACTGCTTAGGGAGATAGGAGGGTGG
* * * *
18215593 CTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAATATTCGCCTTCTTCAATCTGCTCCACTACA
65 CTAAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGCCGTATTCAATCTGCTCCACTACA
18215658 AC
130 AC
18215660 TTCAGGGAGGCAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGAGGGTGG
1 TTCAGGGAGGCAAGATCTGCAATCTTCAGCCTACTCC-CTACTGCTTAGGGAGATAGGAGGGTGG
* * * * **
18215725 CTAAAATCTGCTTCACTGTAACTTCAGGAAGGCAAGATTTGCCGTATTCGATCTGCTCTACTGTA
65 CTAAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGCCGTATTCAATCTGCTCCACTACA
18215790 AC
130 AC
* * * **
18215792 TTCAGGGAGGCAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGG
1 TTCAGGGAGGCAAGATCTGCAATCTTCAGCCTACT-CCCTACTGCTTAGGG
18215843 GGTTAAAGCC
Statistics
Matches: 159, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
131 2 0.01
132 155 0.97
133 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (131 bp):
TTCAGGGAGGCAAGATCTGCAATCTTCAGCCTACTCCCTACTGCTTAGGGAGATAGGAGGGTGGC
TAAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTCGCCGTATTCAATCTGCTCCACTACAA
C
Found at i:18215919 original size:87 final size:86
Alignment explanation
Indices: 18215803--18216623 Score: 731
Period size: 87 Copynumber: 9.5 Consensus size: 86
18215793 TCAGGGAGGC
* * * *
18215803 AAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCT
1 AAGATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCT
*
18215868 GTTTCCCTACTACTTAGGGGTTT
65 GTTTCCCTACTGCTTAGGGG-TT
* ** *
18215891 AAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATTGTCTTTGATCTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG
18215956 TTTCCCTACTGCTTAGGGGGTT
66 TTTCCCTACTGCTTA-GGGGTT
* * * ** *
18215978 AAGATCTAT-AATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCTCATCGCCTTTGATCTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG
* *
18216042 CTTCCCTACTGCTTAAGGGTT
66 TTTCCCTACTGCTTAGGGGTT
** ** * * * * ** *
18216063 AAGATCCATCACCTTC-GATCTGTTTCCTTACTGCTTAGGGGGTTAAGATCTATCATCTTCGATC
1 AAGATCTGT-AAATTCAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATC
**
18216127 TGTTTCCCTACTATTTAGGGGGTT
64 TGTTTCCCTACTGCTTA-GGGGTT
* * * * * * *
18216151 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCGTAGGGGTTTAAGGCTCTTAACCTTTGATCTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG
* **
18216216 -TTCCACCACTGCTTAGGGAGAC
66 TTTCC-CTACTGCTTAGGG-GTT
* * * * * * *
18216238 AAAATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCTTTATTTTCGATTTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG
* **
18216303 -CTCCACTACTGCTTAGGGAGAC
66 TTTCC-CTACTGCTTAGGG-GTT
* * * * * *
18216325 AAGATCTGTAAATTTAGCCTGTTATCGTACTACTTACGGGG-TTAAGGCCCTTCGTCTTCGATCT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTA-GGGGTTTAAGGCCCATCATCTTCGATCT
** * **
18216389 -ACTCCACTACTACTTAGGGAGAC
65 GTTTCC-CTACTGCTTAGGG-GTT
* * * ** *
18216412 AAGATCTGT-AATTCAGCCTGTTACCCTAATACTTAGGGGTTTAAGGTCTGTCACCTTCGATCTG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG
* * **
18216476 TTTCCCTATTACTTAGGGAGAC
66 TTTCCCTACTGCTTAGGG-GTT
* * * * * *
18216498 AAGATCTGTAAATTTAGCCTGTTACCTTACTGCTTAGAGGG-TTAAGGACCTTCGTCTTTGATCT
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTAAGGCCCATCATCTTCGATCT
18216562 GTTTCCCTACTGCTTAAGGGGTT
65 GTTTCCCTACTGCTT-AGGGGTT
* *
18216585 AAGATTTGTAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
18216624 AGATAAGGCT
Statistics
Matches: 610, Mismatches: 108, Indels: 32
0.81 0.14 0.04
Matches are distributed among these distances:
85 17 0.03
86 139 0.23
87 416 0.68
88 38 0.06
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (86 bp):
AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG
TTTCCCTACTGCTTAGGGGTT
Found at i:18216153 original size:44 final size:44
Alignment explanation
Indices: 18215821--18216157 Score: 285
Period size: 44 Copynumber: 7.8 Consensus size: 44
18215811 TAATTTTCAG
* * *
18215821 TCTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCATCTTCGA
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAGA-TCTATCATCTTCGA
* * * **
18215865 TCTGTTTCCCTACTACTTAGGGGTTTAAGATCTGT-AAATTC-A
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCATCTTCGA
* * * ** * ** *
18215907 GCTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATTGTCTTTGA
1 TC-TGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCATCTTCGA
*
18215952 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTAT-A-ATTC-A
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCATCTTCGA
* * * * * ** *
18215993 GCCTGTTACCCTACTGCTTAAGGGTTTAAG-GCTCATCGCCTTTGA
1 -TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-ATCATCTTCGA
* * * *
18216038 TCTGCTTCCCTACTGCTTA-AGGGTTAAGATCCATCACCTTCGA
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCATCTTCGA
*
18216081 TCTGTTTCCTTACTGCTTAGGGGGTTAAGATCTATCATCTTCGA
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCATCTTCGA
**
18216125 TCTGTTTCCCTACTATTTAGGGGGTTAAGATCT
1 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT
18216158 GTAAATTTAG
Statistics
Matches: 229, Mismatches: 53, Indels: 22
0.75 0.17 0.07
Matches are distributed among these distances:
41 3 0.01
42 31 0.14
43 64 0.28
44 127 0.55
45 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (44 bp):
TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCATCTTCGA
Found at i:18216189 original size:43 final size:43
Alignment explanation
Indices: 18215803--18216623 Score: 225
Period size: 44 Copynumber: 18.9 Consensus size: 43
18215793 TCAGGGAGGC
* *
18215803 AAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGGGTT
1 AAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * * * * * *
18215847 AA-AGC-CCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGTTT
1 AAGATCTGTA-AAT-TTAG-CCTGTTACCCTACTGCTTAGGGGGTT
* * *
18215891 AAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGTTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
* * *
18215934 AAGGCCCAT-TGT--CTTT-GATCTGTTTCCCTACTGCTTAGGGGGTT
1 AA-G---ATCTGTAAATTTAG-CCTGTTACCCTACTGCTTAGGGGGTT
* * * *
18215978 AAGATCTAT-AATTCAGCCTGTTACCCTACTGCTTAAGGGTTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
* ** * *
18216020 AAGGCTCATCG--CCTTT-GATCTGCTT-CCCTACTGCTTA-AGGGTT
1 AA-GATC-T-GTAAATTTAG-CCTG-TTACCCTACTGCTTAGGGGGTT
** * ** * * * *
18216063 AAGATCCATCACCTTCGATCTGTTTCCTTACTGCTTAGGGGGTT
1 AAGATCTGTAAATTTAG-CCTGTTACCCTACTGCTTAGGGGGTT
* * * * * **
18216107 AAGATCTAT-CATCTTCGATCTGTTTCCCTACTATTTAGGGGGTT
1 AAGATCTGTAAAT-TTAG-CCTGTTACCCTACTGCTTAGGGGGTT
* *
18216151 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCGTAGGGGTTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
* * * * * **
18216194 AAGGCTCT-TAACCTTT-GATCTGTT-CCACCACTGCTTAGGGAGAC
1 AA-GATCTGTAA-ATTTAG-CCTGTTACC-CTACTGCTTAGGGGGTT
* * *
18216238 AAAATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGAGTTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
** * * * ** * * **
18216281 AAGGCCCT-TTATTTTCGATTTGCT-CCACTACTGCTTAGGGAGAC
1 AA-GATCTGTAAATTTAG-CCTGTTACC-CTACTGCTTAGGGGGTT
* * * *
18216325 AAGATCTGTAAATTTAGCCTGTTATCGTACTACTTACGGGGTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
** ** * * ** * * **
18216368 AAGGCCCT-T-CGTCTTCGATCTACT-CCACTACTACTTAGGGAGAC
1 AA-GATCTGTAAAT-TTAG-CCTGTTACC-CTACTGCTTAGGGGGTT
* * * *
18216412 AAGATCTGT-AATTCAGCCTGTTACCCTAATACTTAGGGGTTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
* * ** * * * * * * **
18216454 AAGGTCTGTCACCTTCGATCTGTTTCCCTATTACTTAGGGAGAC
1 AAGATCTGTAAATTTAG-CCTGTTACCCTACTGCTTAGGGGGTT
* *
18216498 AAGATCTGTAAATTTAGCCTGTTACCTTACTGCTTAGAGGGTT
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
* * * * *
18216541 AAGGACCTTCGT--CTTT-GATCTGTTTCCCTACTGCTTAAGGGGTT
1 AA-GATC-T-GTAAATTTAG-CCTGTTACCCTACTGCTTAGGGGGTT
*
18216585 AAGATTTGTAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGG
18216624 AGATAAGGCT
Statistics
Matches: 547, Mismatches: 178, Indels: 105
0.66 0.21 0.13
Matches are distributed among these distances:
40 2 0.00
41 4 0.01
42 60 0.11
43 196 0.36
44 268 0.49
45 9 0.02
46 6 0.01
47 2 0.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (43 bp):
AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTT
Found at i:18216472 original size:347 final size:344
Alignment explanation
Indices: 18215790--18216622 Score: 915
Period size: 347 Copynumber: 2.4 Consensus size: 344
18215780 CTCTACTGTA
* * * * *
18215790 ACTTCAGGGAGGCAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCA
1 ACTT-AGGGAGACAAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTA-GGGGTT-AAGGCCT
* * * *
18215855 TCATCTTCGATCTGTTTCCCTACTACTTAGGGGTTTAAGATCTGTAAATTCAGCTTGTTACCCTA
62 TCATCTTTGATCTGTTTCCCTACTGCTTAGGGG-TTAAGATCTGTAAATTTAGCCTGTTACCCTA
* * * * **
18215920 CTGCTTAGGGGTTTAAGGCCCATTGTCTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT
126 CTGCTTAGGAGTTTAAGGCCCATTATCTTTGATCTGTCTCCCTACTGCTTAGGGAGACAAGATCT
* * * * *
18215985 ATAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCTCATCGCCTTTGATCTGCTTCCCTA
191 ATAATTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCCCATCGCCTTCGATCTACTTCCCTA
* ** * * * * * *
18216050 CTGCTTAAGGGTTAAGATCCATCACCTTCGATCTGTTTCCTTACTGCTTAGGGGGTTAAGATCTA
256 CTACTTAAGGGACAAGATCCATCACATTCGACCTGTTACCCTAATACTTAGGGGGTTAAGATCTA
*
18216115 TCATCTTCGATCTGTTTCCCTACT
321 TCACCTTCGATCTGTTTCCCTACT
* * ** * *
18216139 ATTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCGTAGGGGTTTAAGGCTCTTA
1 ACTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGC-CTTC
* * ** *
18216204 ACCTTTGATCTG-TTCCACCACTGCTTAGGGAGACAAAATCTGTAAATTTAGCCTGTTACCCTAC
64 ATCTTTGATCTGTTTCC-CTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGCCTGTTACCCTAC
* *
18216268 TGCTTAGGAGTTTAAGGCCCTTTAT-TTTCGATTTG-CTCCACTACTGCTTAGGGAGACAAGATC
127 TGCTTAGGAGTTTAAGGCCCATTATCTTT-GATCTGTCTCC-CTACTGCTTAGGGAGACAAGATC
* * * * * * *
18216331 TGTAAATTTAGCCTGTTATCGTACTACTTACGGGGTTAAGGCCCTTCGTCTTCGATCTAC-TCCA
190 TAT-AATTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCCCATCGCCTTCGATCTACTTCC-
* ** *
18216395 CTACTACTTAGGGAGACAAGATCTGT-A-ATTC-AGCCTGTTACCCTAATACTTAGGGGTTTAAG
253 CTACTACTTAAGG-GACAAGATCCATCACATTCGA-CCTGTTACCCTAATACTTAGGGGGTTAAG
* * *
18216457 GTCTGTCACCTTCGATCTGTTTCCCTATT
316 ATCTATCACCTTCGATCTGTTTCCCTACT
*
18216486 ACTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCTTACTGCTTAGAGGGTTAAGGACCTTC
1 ACTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAG-GGGTTAAGG-CCTTC
* *
18216551 GTCTTTGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATTTGTAAATTTAGCCTGTTACCCTACT
64 ATCTTTGATCTGTTTCCCTACTGCTT-AGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACT
18216616 GCTTAGG
128 GCTTAGG
18216623 GAGATAAGGC
Statistics
Matches: 400, Mismatches: 70, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
346 19 0.05
347 281 0.70
348 89 0.22
349 11 0.03
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (344 bp):
ACTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCCTTCAT
CTTTGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCT
TAGGAGTTTAAGGCCCATTATCTTTGATCTGTCTCCCTACTGCTTAGGGAGACAAGATCTATAAT
TCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCCCATCGCCTTCGATCTACTTCCCTACTACT
TAAGGGACAAGATCCATCACATTCGACCTGTTACCCTAATACTTAGGGGGTTAAGATCTATCACC
TTCGATCTGTTTCCCTACT
Found at i:18216522 original size:260 final size:255
Alignment explanation
Indices: 18215802--18216623 Score: 841
Period size: 260 Copynumber: 3.2 Consensus size: 255
18215792 TTCAGGGAGG
* * * *
18215802 CAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
1 CAAGATCTGTAAATTT-AGCCTGTTATCCTACTGCTTAGGGGGTT-AAGCCCTTCATCTTCGATC
*
18215867 TGTTTCCCTACTACTTAGGGGTTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGT
64 TGTTTCCCTACTACTTAGGGG-TTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGT
* ** * ** * *
18215932 TTAAGGCCCATT-GTCTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTAT-AATTCAGC
128 TTAAGG-TC-TTAACCTTTGATCTGTTTCCCTACTGCTTAGGGAGACAAGATCTGTAAATTTAGC
* * ** *
18215995 CTGTTACCCTACTGCTTAAGG-GTTTAAGGCTCATCGCCTTTGATCTGCTTCCCTACTGCTTAAG
191 CTGTTACCCTACTGCTT-AGGAGTTTAAGGCCCTTC-ATTTTGATCTGC-TCCCTACTGCTTAGG
18216059 GGT
253 GGT
* ** * ** * * **
18216062 TAAGATCCATCACCTTCGATCTGTT-TCCTTACTGCTTAGGGGGTTAAGATCTATCATCTTCGAT
1 CAAGATCTGTAAATTTAG-CCTGTTATCC-TACTGCTTAGGGGGTTAAGCCCT-TCATCTTCGAT
* * *
18216126 CTGTTTCCCTACTATTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCGTAGGGG
63 CTGTTTCCCTACTACTTA-GGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* *
18216191 TTTAAGGCTCTTAACCTTTGATCTG-TTCCACCACTGCTTAGGGAGACAAAATCTGTAAATTTAG
127 TTTAAGG-TCTTAACCTTTGATCTGTTTCC-CTACTGCTTAGGGAGACAAGATCTGTAAATTTAG
* *
18216255 CCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCTTTATTTTCGATTTGCTCCACTACTGCTTAGG
190 CCTGTTACCCTACTGCTTAGGAGTTTAAGGCCCTTCATTTT-GATCTGCTCC-CTACTGCTTAGG
*
18216320 GAGA
253 G-GT
* * * *
18216324 CAAGATCTGTAAATTTAGCCTGTTATCGTACTACTTACGGGGTTAAGGCCCTTCGTCTTCGATCT
1 CAAGATCTGTAAATTTAGCCTGTTATCCTACTGCTTAGGGGGTTAA-GCCCTTCATCTTCGATCT
** ** * *
18216389 -ACTCCACTACTACTTAGGGAGACAAGATCTGT-AATTCAGCCTGTTACCCTAATACTTAGGGGT
65 GTTTCC-CTACTACTTAGGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGT
* * * *
18216452 TTAAGGTCTGTCACCTTCGATCTGTTTCCCTATTACTTAGGGAGACAAGATCTGTAAATTTAGCC
128 TTAAGGTCT-TAACCTTTGATCTGTTTCCCTACTGCTTAGGGAGACAAGATCTGTAAATTTAGCC
* * * * *
18216517 TGTTACCTTACTGCTTA-GAGGGTTAAGGACCTTCGTCTTTGATCTGTTTCCCTACTGCTTAAGG
192 TGTTACCCTACTGCTTAGGA-GTTTAAGGCCCTTCAT-TTTGATCTG-CTCCCTACTGCTT-AGG
18216581 GGT
253 GGT
* * *
18216584 TAAGATTTGTAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 CAAGATCTGTAAATTTAGCCTGTTATCCTACTGCTTAGGG
18216624 AGATAAGGCT
Statistics
Matches: 465, Mismatches: 76, Indels: 42
0.80 0.13 0.07
Matches are distributed among these distances:
259 18 0.04
260 307 0.66
261 123 0.26
262 17 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (255 bp):
CAAGATCTGTAAATTTAGCCTGTTATCCTACTGCTTAGGGGGTTAAGCCCTTCATCTTCGATCTG
TTTCCCTACTACTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTA
AGGTCTTAACCTTTGATCTGTTTCCCTACTGCTTAGGGAGACAAGATCTGTAAATTTAGCCTGTT
ACCCTACTGCTTAGGAGTTTAAGGCCCTTCATTTTGATCTGCTCCCTACTGCTTAGGGGT
Found at i:18216811 original size:64 final size:64
Alignment explanation
Indices: 18216706--18216828 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
18216696 GTATCTATGT
*
18216706 TTATGCCAAATAATTAGGATGCTATGATTGAAATGGATCAAATGCTCCTAACTAAATGTAATGC
1 TTATGCCAAATAATTAGGATGCTATGATCGAAATGGATCAAATGCTCCTAACTAAATGTAATGC
* *
18216770 TTATGTCAAATAATTAGGATGCTATGATCGAAAT-GAGTCAAATGCTCCTAACTAGATGT
1 TTATGCCAAATAATTAGGATGCTATGATCGAAATGGA-TCAAATGCTCCTAACTAAATGT
18216829 GTAGAAATGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 2 0.04
64 53 0.96
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGATGCTATGATCGAAATGGATCAAATGCTCCTAACTAAATGTAATGC
Found at i:18221303 original size:9 final size:10
Alignment explanation
Indices: 18221290--18221335 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
18221280 GGGAAAGTCT
18221290 AATGCAAAT-
1 AATGCAAATG
18221299 AATGC-AATG
1 AATGCAAATG
18221308 CAATGCAAATG
1 -AATGCAAATG
*
18221319 CATG-AAATG
1 AATGCAAATG
18221328 AATGCAAA
1 AATGCAAA
18221336 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (10 bp):
AATGCAAATG
Found at i:18221314 original size:19 final size:19
Alignment explanation
Indices: 18221290--18221335 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18221280 GGGAAAGTCT
*
18221290 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
18221308 CAATGCAAATGCATGAAATG
1 -AATGCAAATGAATGAAATG
18221328 AATGCAAA
1 AATGCAAA
18221336 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:18223493 original size:15 final size:15
Alignment explanation
Indices: 18223475--18223506 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18223465 CGAGAATGAT
18223475 AATAATAATAATATA
1 AATAATAATAATATA
*
18223490 AATAATAATAGTATA
1 AATAATAATAATATA
18223505 AA
1 AA
18223507 ACGATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAATAATAATATA
Found at i:18226171 original size:6 final size:6
Alignment explanation
Indices: 18226144--18226171 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18226134 ATATTTATAT
18226144 TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATT
18226172 AAATGATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:18230077 original size:54 final size:54
Alignment explanation
Indices: 18230007--18230119 Score: 226
Period size: 54 Copynumber: 2.1 Consensus size: 54
18229997 AGTATCATAT
18230007 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
18230061 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
18230115 ATTAT
1 ATTAT
18230120 ATATTTTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
Found at i:18230139 original size:16 final size:16
Alignment explanation
Indices: 18230118--18230159 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18230108 TTATTAAATT
*
18230118 ATATATTTTAATTATA
1 ATATATTTTAATAATA
18230134 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
18230149 AT-TATGTTTAA
1 ATATAT-TTTAA
18230160 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:18230144 original size:15 final size:15
Alignment explanation
Indices: 18230109--18230150 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18230099 TTAAGAATTT
*
18230109 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18230123 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18230137 TATTTAATAATAAT
1 TATTTAATTATAAT
18230151 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:18230884 original size:24 final size:26
Alignment explanation
Indices: 18230842--18230897 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
18230832 CCCTGTTTCC
18230842 TTTTATTCTCTGTTCATTCTTTTCTT
1 TTTTATTCTCTGTTCATTCTTTTCTT
* *
18230868 TTTTATT-TCT-TTTATTCTTTTGTT
1 TTTTATTCTCTGTTCATTCTTTTCTT
18230892 TATTTA
1 T-TTTA
18230898 CTTTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 13 0.48
25 7 0.26
26 7 0.26
ACGTcount: A:0.11, C:0.12, G:0.04, T:0.73
Consensus pattern (26 bp):
TTTTATTCTCTGTTCATTCTTTTCTT
Found at i:18230916 original size:5 final size:5
Alignment explanation
Indices: 18230908--18231089 Score: 364
Period size: 5 Copynumber: 36.4 Consensus size: 5
18230898 CTTTATGTTT
18230908 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
18230958 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
18231008 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
18231058 TAATA TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TA
18231090 TTAACATAAT
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 177 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:18241025 original size:40 final size:40
Alignment explanation
Indices: 18240964--18241043 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
18240954 CTTCAATTGC
*
18240964 ACGTACTTTACCCGGGAAACTTATGTGCATGGATTCTTGT
1 ACGTACTTTACCCGGGAAACTTATGTGCATGAATTCTTGT
18241004 ACGTACTTTACCC-GGACAACTTATGTGCATGAATTCTTGT
1 ACGTACTTTACCCGGGA-AACTTATGTGCATGAATTCTTGT
18241044 GTGCATGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 3 0.08
40 35 0.92
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (40 bp):
ACGTACTTTACCCGGGAAACTTATGTGCATGAATTCTTGT
Found at i:18246162 original size:13 final size:14
Alignment explanation
Indices: 18246136--18246164 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18246126 ACTAACGACG
18246136 AATTAAACCATTAT
1 AATTAAACCATTAT
18246150 AATTAAA-CATTAT
1 AATTAAACCATTAT
18246163 AA
1 AA
18246165 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:18251298 original size:9 final size:9
Alignment explanation
Indices: 18251277--18251510 Score: 67
Period size: 9 Copynumber: 26.0 Consensus size: 9
18251267 TATGTATTAC
*
18251277 GTAAGTTAA
1 GTAAGTTAT
18251286 GTAAGCTT-T
1 GTAAG-TTAT
18251295 GTAAGTTAT
1 GTAAGTTAT
18251304 GTAAGTTAT
1 GTAAGTTAT
* * *
18251313 ATTA-TGAT
1 GTAAGTTAT
* *
18251321 ATACATTTAT
1 GTA-AGTTAT
*
18251331 GTAAGGTAT
1 GTAAGTTAT
18251340 GTAAGTTAT
1 GTAAGTTAT
* *
18251349 GATATGATAT
1 G-TAAGTTAT
* *
18251359 AT-ATTTAT
1 GTAAGTTAT
18251367 GT-A-TTAT
1 GTAAGTTAT
*
18251374 GTAAGTTGT
1 GTAAGTTAT
18251383 GTAAGTTAT
1 GTAAGTTAT
*
18251392 GATAAGATAT
1 G-TAAGTTAT
* *
18251402 AT-ATTTAT
1 GTAAGTTAT
*
18251410 GATATATATTTAT
1 G---TA-AGTTAT
18251423 GT-A-TTAT
1 GTAAGTTAT
* *
18251430 GTTAGTTGT
1 GTAAGTTAT
18251439 GTAAGTTAT
1 GTAAGTTAT
* *
18251448 GATACGATAT
1 G-TAAGTTAT
* *
18251458 AT-ATTTAT
1 GTAAGTTAT
*
18251466 GATATATTTAT
1 G-TA-AGTTAT
*
18251477 GT-A-TTGT
1 GTAAGTTAT
*
18251484 GTAAGTTTT
1 GTAAGTTAT
18251493 GTAAGTTAT
1 GTAAGTTAT
18251502 GTAAGTTAT
1 GTAAGTTAT
18251511 TATATGATAT
Statistics
Matches: 167, Mismatches: 37, Indels: 42
0.68 0.15 0.17
Matches are distributed among these distances:
7 17 0.10
8 24 0.14
9 83 0.50
10 28 0.17
11 8 0.05
13 7 0.04
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:18251380 original size:34 final size:36
Alignment explanation
Indices: 18251294--18251380 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 36
18251284 AAGTAAGCTT
18251294 TGTAAGTTATGTAAGTTATATTATGATATACATTTA
1 TGTAAGTTATGTAAGTTATATTATGATATACATTTA
* *
18251330 TGTAAGGTATGTAAGTTATGA-TATGATATATATTTA
1 TGTAAGTTATGTAAGTTAT-ATTATGATATACATTTA
18251366 TGT-A-TTATGTAAGTT
1 TGTAAGTTATGTAAGTT
18251381 GTGTAAGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
34 10 0.21
35 1 0.02
36 35 0.74
37 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATATTATGATATACATTTA
Found at i:18251386 original size:43 final size:43
Alignment explanation
Indices: 18251327--18251410 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
18251317 TGATATACAT
*
18251327 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTATGTA
* *
18251370 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATG
1 TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTATG
18251411 ATATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (43 bp):
TTATGTAAGGTATGTAAGTTATGATAAGATATATATTTATGTA
Found at i:18251411 original size:56 final size:56
Alignment explanation
Indices: 18251351--18251523 Score: 259
Period size: 56 Copynumber: 3.2 Consensus size: 56
18251341 TAAGTTATGA
18251351 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
18251407 TATGATATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATACGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* * *
18251463 TATG--ATATATTTATGTATTGTGTAAGTTTTGTAAGTTATG-TAAG-T-TAT-TA
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
18251513 TATGATATATA
1 TATGATATATA
18251524 ATAAACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
50 5 0.05
51 3 0.03
52 6 0.06
53 3 0.03
54 33 0.31
56 58 0.54
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.50
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
Found at i:18251415 original size:13 final size:13
Alignment explanation
Indices: 18251397--18251423 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18251387 GTTATGATAA
18251397 GATATATATTTAT
1 GATATATATTTAT
18251410 GATATATATTTAT
1 GATATATATTTAT
18251423 G
1 G
18251424 TATTATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (13 bp):
GATATATATTTAT
Found at i:18251963 original size:26 final size:27
Alignment explanation
Indices: 18251909--18251963 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
18251899 ATTAATTGCT
**
18251909 AAATATTGAAATATTGAAATATATTTA
1 AAATATTGAAATATTGAAATATAAGTA
18251936 AAATATTGATAA-A-TGAAATATAAGTA
1 AAATATTGA-AATATTGAAATATAAGTA
18251962 AA
1 AA
18251964 TCATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.52
27 10 0.40
28 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATATTGAAATATTGAAATATAAGTA
Found at i:18255215 original size:114 final size:115
Alignment explanation
Indices: 18255060--18255392 Score: 363
Period size: 116 Copynumber: 2.9 Consensus size: 115
18255050 ATTTGCGGCA
** *
18255060 TTTTCTCCTAGCGCCGCTAAAGGCAAACCAATTGC-AGCGTTTTAACAT-AAACGCCACTAAAAA
1 TTTTCTCCTAGCGCCGCTAAAGGCAAGTCAATTGCGA-CGTTTTAACCTAAAACGCCACTAAAAA
* *
18255123 TCAAACAAAACGACGCCGTTTTGATATAAATAGAATAA-ACTTTAGTGGCGT
65 TCAAAAAAAACGACGCCGTTTTGATATAAACAGAATAATA-TTTAGTGGCGT
* * *
18255174 TTTTCCCCTAGCGCCGCTAAAGGCAAGTCAATTACGACG-TTTAAGCCTAAAACGCCACTAAAAG
1 TTTTCTCCTAGCGCCGCTAAAGGCAAGTCAATTGCGACGTTTTAA-CCTAAAACGCCACTAAAAA
* * *
18255238 TCCAAAAAAAACGATGGCGTTTTCATATAAACAGAATAATATTTAGTGGCGT
65 T-CAAAAAAAACGACGCCGTTTTGATATAAACAGAATAATATTTAGTGGCGT
* * * * * *
18255290 TTTATCTCCAAGCGCCGCTAAAGGCGAAAGT--ATTGTGGCGTTTTACCCTAAAATGCCACTAAG
1 TTT-TCTCCTAGCGCCGCTAAAGGC--AAGTCAATTGCGACGTTTTAACCTAAAACGCCACTAAA
* * * * *
18255353 AATCCAATAAAACTACACCGTTTTGATATAAACAAAATAA
63 AATCAAAAAAAACGACGCCGTTTTGATATAAACAGAATAA
18255393 CCATGTGGAG
Statistics
Matches: 182, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
113 5 0.03
114 35 0.19
115 16 0.09
116 75 0.41
117 43 0.24
118 4 0.02
119 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.26
Consensus pattern (115 bp):
TTTTCTCCTAGCGCCGCTAAAGGCAAGTCAATTGCGACGTTTTAACCTAAAACGCCACTAAAAAT
CAAAAAAAACGACGCCGTTTTGATATAAACAGAATAATATTTAGTGGCGT
Found at i:18255791 original size:16 final size:16
Alignment explanation
Indices: 18255772--18255823 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
18255762 ATCCTAAACC
18255772 ATTTAATATATATAAA
1 ATTTAATATATATAAA
* **
18255788 ATTT-ATCTATTATACC
1 ATTTAATATA-TATAAA
18255804 ATTTAATATATATAAA
1 ATTTAATATATATAAA
18255820 ATTT
1 ATTT
18255824 TTCTATTATC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 4 0.14
16 20 0.71
17 4 0.14
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAATATATATAAA
Found at i:18255810 original size:32 final size:32
Alignment explanation
Indices: 18255769--18255832 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
18255759 TAAATCCTAA
18255769 ACCATTTAATATATATAAAATTTATCTATTAT
1 ACCATTTAATATATATAAAATTTATCTATTAT
*
18255801 ACCATTTAATATATATAAAATTTTTCTATTAT
1 ACCATTTAATATATATAAAATTTATCTATTAT
18255833 CTCTTACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (32 bp):
ACCATTTAATATATATAAAATTTATCTATTAT
Found at i:18257124 original size:41 final size:41
Alignment explanation
Indices: 18257067--18257189 Score: 152
Period size: 41 Copynumber: 3.2 Consensus size: 41
18257057 GTTATATGAA
* *
18257067 TTTTAGCGACGTTTTACAGAAAGCGCCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
**
18257108 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
*
18257149 TTTTAGCGGCG---T-CA-AAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
18257183 TTTTAGC
1 TTTTAGC
18257190 TAAAACACCG
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
34 9 0.12
35 14 0.18
36 3 0.04
37 1 0.01
38 1 0.01
41 48 0.63
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
Found at i:18257204 original size:29 final size:29
Alignment explanation
Indices: 18257162--18257218 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
18257152 TAGCGGCGTC
*
18257162 AAAACGCCGCTATTGCTCTGTTTTTAGCT
1 AAAACACCGCTATTGCTCTGTTTTTAGCT
18257191 AAAACACCGCTATTGCTCTGTTTTTAGC
1 AAAACACCGCTATTGCTCTGTTTTTAGC
18257219 GGCATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (29 bp):
AAAACACCGCTATTGCTCTGTTTTTAGCT
Found at i:18262593 original size:29 final size:29
Alignment explanation
Indices: 18262511--18262609 Score: 162
Period size: 29 Copynumber: 3.4 Consensus size: 29
18262501 TGTGTGTACC
18262511 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
18262540 ATGTAAAAAGGGGATAGCTTCGGCTATCAA
1 ATGTGAAAA-GGGATAGCTTCGGCTATCGA
*
18262570 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
18262599 ATGTGAAAAGG
1 ATGTGAAAAGG
18262610 TTAGGTATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 37 0.58
30 27 0.42
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.24
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:18262649 original size:33 final size:33
Alignment explanation
Indices: 18262602--18262731 Score: 188
Period size: 33 Copynumber: 3.9 Consensus size: 33
18262592 CTATCGAATG
** *
18262602 TGAAAAGGTTAGGTATACTTTTTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
* *
18262635 TAAAAAGAAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
*
18262668 TGAAAAGGAAAGGTATACTTTGTGTGTACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
* *
18262701 TGAAAAGGAAATGTATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA
18262732 CTCAGAAAGA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:18269918 original size:38 final size:38
Alignment explanation
Indices: 18269876--18269951 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
18269866 TTCAGCAAAG
*
18269876 TTACTTTTCCCAGTTACCTTTGATTATTCCAAAAAAAA
1 TTACTTTTCCCAGTTAACTTTGATTATTCCAAAAAAAA
18269914 TTACTTTTCCCAGTTAACTTTGATTATTCCAAAAAAAA
1 TTACTTTTCCCAGTTAACTTTGATTATTCCAAAAAAAA
18269952 AATTAGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (38 bp):
TTACTTTTCCCAGTTAACTTTGATTATTCCAAAAAAAA
Found at i:18285393 original size:29 final size:29
Alignment explanation
Indices: 18285325--18285399 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
18285315 AGTTTATATC
* *
18285325 TTTATAATTTTTAAAAAATTAAATTAAAA
1 TTTATAATTTTTAAAAAACTAAAGTAAAA
*
18285354 TTATATCATTTTTAAAAAACTAAAGTAAAA
1 TT-TATAATTTTTAAAAAACTAAAGTAAAA
*
18285384 TTTAAAATTTTATAAA
1 TTTATAATTTT-TAAA
18285400 TTATAAAGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.23
30 30 0.77
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (29 bp):
TTTATAATTTTTAAAAAACTAAAGTAAAA
Found at i:18286814 original size:9 final size:9
Alignment explanation
Indices: 18286799--18286843 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
18286789 AAATTTAAAA
18286799 ATAAAAATT
1 ATAAAAATT
*
18286808 ATTAAAATT
1 ATAAAAATT
*
18286817 ATTAAAATGT
1 ATAAAAAT-T
18286827 ATAAAAATT
1 ATAAAAATT
18286836 ATAAAAAT
1 ATAAAAAT
18286844 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
ATAAAAATT
Found at i:18286833 original size:19 final size:18
Alignment explanation
Indices: 18286799--18286843 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
18286789 AAATTTAAAA
*
18286799 ATAAAAATTATTAAAATT
1 ATAAAAATTATAAAAATT
*
18286817 ATTAAAATGTATAAAAATT
1 ATAAAAAT-TATAAAAATT
18286836 ATAAAAAT
1 ATAAAAAT
18286844 ATTTTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAAAATTATAAAAATT
Found at i:18287324 original size:16 final size:16
Alignment explanation
Indices: 18287303--18287354 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
18287293 TTTGGTTCGC
18287303 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
18287319 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
*
18287335 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
18287351 TGTA
1 TGTA
18287355 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18287605 original size:16 final size:17
Alignment explanation
Indices: 18287568--18287605 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
18287558 ATTTAATCAT
18287568 ATTTAAACATAATTATA
1 ATTTAAACATAATTATA
*
18287585 A-TTAAATAT-ATTATA
1 ATTTAAACATAATTATA
18287600 ATTTAA
1 ATTTAA
18287606 TAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAACATAATTATA
Found at i:18287641 original size:22 final size:21
Alignment explanation
Indices: 18287551--18287716 Score: 91
Period size: 22 Copynumber: 8.0 Consensus size: 21
18287541 ATTATCAATA
* *
18287551 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
18287571 -TAAACATAATTATAATTAAA-T
1 AT-AATATAATT-TAATAAAATT
*
18287592 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
18287613 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
18287635 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
18287652 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
18287676 ATTAAATATAATTTAATAAAA--
1 A-T-AATATAATTTAATAAAATT
18287697 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
18287717 CTTAATAATC
Statistics
Matches: 111, Mismatches: 18, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
17 7 0.06
18 23 0.21
19 1 0.01
20 11 0.10
21 20 0.18
22 29 0.26
23 3 0.03
24 7 0.06
26 10 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:18287675 original size:13 final size:12
Alignment explanation
Indices: 18287651--18287691 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
18287641 TATAATAGTA
18287651 TAAAATATAATT
1 TAAAATATAATT
18287663 TAAAATAATAATT
1 TAAAAT-ATAATT
*
18287676 ATTAAATATAATT
1 -TAAAATATAATT
18287689 TAA
1 TAA
18287692 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:18287700 original size:18 final size:18
Alignment explanation
Indices: 18287679--18287714 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18287669 AATAATTATT
18287679 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
18287697 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
18287715 TTCTTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:18289748 original size:13 final size:13
Alignment explanation
Indices: 18289730--18289780 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
18289720 TTTTAAACCA
18289730 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
**
18289743 ACTTTTTC-ACGGC
1 AC-TTTTCAAAAGC
*
18289756 ACTTTTCATAAGC
1 ACTTTTCAAAAGC
*
18289769 ACTTTTTAAAAG
1 ACTTTTCAAAAG
18289781 TATTGCCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 5 0.17
13 19 0.66
14 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:18294525 original size:50 final size:50
Alignment explanation
Indices: 18294447--18294550 Score: 172
Period size: 50 Copynumber: 2.1 Consensus size: 50
18294437 GAAGATGAGG
* *
18294447 GAGTCGTTCTAGAATCTGAAGGACCGGATAAAGAAGAAAATTGACAATTA
1 GAGTCGTTCCAGAATCTAAAGGACCGGATAAAGAAGAAAATTGACAATTA
* *
18294497 GAGTCGTTCCAGAATCTAAAGGATCGGATAAAGAAGAAAATTGACAATTG
1 GAGTCGTTCCAGAATCTAAAGGACCGGATAAAGAAGAAAATTGACAATTA
18294547 GAGT
1 GAGT
18294551 ACTAGGCACC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (50 bp):
GAGTCGTTCCAGAATCTAAAGGACCGGATAAAGAAGAAAATTGACAATTA
Found at i:18305819 original size:76 final size:76
Alignment explanation
Indices: 18305734--18305900 Score: 334
Period size: 76 Copynumber: 2.2 Consensus size: 76
18305724 TTTCATTCAA
18305734 CTACCACTTAAAACTAAATTTAACTCTCTAATTTTCACCATAAATCCCTAATTTCGAATTTTTTT
1 CTACCACTTAAAACTAAATTTAACTCTCTAATTTTCACCATAAATCCCTAATTTCGAATTTTTTT
18305799 CAATTTAATCC
66 CAATTTAATCC
18305810 CTACCACTTAAAACTAAATTTAACTCTCTAATTTTCACCATAAATCCCTAATTTCGAATTTTTTT
1 CTACCACTTAAAACTAAATTTAACTCTCTAATTTTCACCATAAATCCCTAATTTCGAATTTTTTT
18305875 CAATTTAATCC
66 CAATTTAATCC
18305886 CTACCACTTAAAACT
1 CTACCACTTAAAACT
18305901 TATGATTTAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 91 1.00
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.40
Consensus pattern (76 bp):
CTACCACTTAAAACTAAATTTAACTCTCTAATTTTCACCATAAATCCCTAATTTCGAATTTTTTT
CAATTTAATCC
Found at i:18308523 original size:46 final size:47
Alignment explanation
Indices: 18308423--18308593 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 47
18308413 ATTGTGAGCT
* * * * * *
18308423 AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGA-AGCC
18308471 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-AAGCC
* *
18308517 AGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTACGAGATG-GGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGAAGCC
18308561 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
18308594 ATCCTACCCC
Statistics
Matches: 109, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 12 0.11
45 15 0.14
46 59 0.54
47 14 0.13
48 9 0.08
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAAGCC
Found at i:18319119 original size:21 final size:22
Alignment explanation
Indices: 18319093--18319155 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
18319083 AAAATAAGTT
*
18319093 TTATTTTAT-AATTTTTTAATA
1 TTATTTTATAAATTTTTTAAGA
* * *
18319114 TTATTTGATAAAATTTTTAAGG
1 TTATTTTATAAATTTTTTAAGA
18319136 TT-TTTTATAAATATTTTTAA
1 TTATTTTATAAAT-TTTTTAA
18319156 AAATTATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TTATTTTATAAATTTTTTAAGA
Found at i:18319242 original size:27 final size:26
Alignment explanation
Indices: 18319175--18319268 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
18319165 ATTTTTCAAA
*
18319175 AAAATTTAAATTATTTTTACTATT-T-T
1 AAAATTAAAATTA-TTTTA-TATTATAT
*
18319201 AAATATAAAATATTATCTTTATATTATAT
1 AAA-ATTAAA-ATTAT-TTTATATTATAT
* *
18319230 AAAATTAAAATTAATTATATATTAAAT
1 AAAATTAAAATT-ATTTTATATTATAT
*
18319257 AAAAATAAAATT
1 AAAATTAAAATT
18319269 CAGTTCAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.05
27 33 0.59
28 16 0.29
29 4 0.07
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
AAAATTAAAATTATTTTATATTATAT
Found at i:18338138 original size:31 final size:30
Alignment explanation
Indices: 18338101--18338170 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 30
18338091 TGGGTCCAAT
18338101 TTGGTACTCAAACTTGACACTTTTTCTTAA
1 TTGGTACTCAAACTTGACACTTTTTCTTAA
*
18338131 TTGGGTACTCAAACTTGACATTTTTTCTTAA
1 TT-GGTACTCAAACTTGACACTTTTTCTTAA
18338162 GTTGGTACT
1 -TTGGTACT
18338171 TAATCTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 2 0.05
31 33 0.89
32 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (30 bp):
TTGGTACTCAAACTTGACACTTTTTCTTAA
Found at i:18338419 original size:32 final size:32
Alignment explanation
Indices: 18338378--18338454 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
18338368 TTAATATAAC
* * *
18338378 ATTTGGTACCTGAATTTGACACTTTTTTCTTA
1 ATTTGGTACCTAAACTTGACACTTTTTTCCTA
* *
18338410 ATTTGGTACCTAAACTTGGCATTTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTTCCTA
*
18338442 ATTTGGTAGCTAA
1 ATTTGGTACCTAA
18338455 GCTTTTTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (32 bp):
ATTTGGTACCTAAACTTGACACTTTTTTCCTA
Found at i:18338900 original size:60 final size:60
Alignment explanation
Indices: 18338836--18338949 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
18338826 AACCGAATAA
* *
18338836 AAAAAAAGATTAGGTACCAAATTAGAAAAAAGAGTCAAGTTT-AGGTACCAAATTAAACAT
1 AAAAAAAGATTAAGTACCAAATTAAAAAAAAGAGTCAAGTTTGA-GTACCAAATTAAACAT
* * * **
18338896 AAAAAATGATTAAGTACTAACTTAAAAAAAATTGTCAAGTTTGAGTACCAAATT
1 AAAAAAAGATTAAGTACCAAATTAAAAAAAAGAGTCAAGTTTGAGTACCAAATT
18338950 GTGTCATTCC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 45 0.98
61 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (60 bp):
AAAAAAAGATTAAGTACCAAATTAAAAAAAAGAGTCAAGTTTGAGTACCAAATTAAACAT
Found at i:18346080 original size:21 final size:21
Alignment explanation
Indices: 18346054--18346094 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18346044 ATCTGCTCAA
* *
18346054 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18346075 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18346095 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:18349985 original size:17 final size:17
Alignment explanation
Indices: 18349958--18350012 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
18349948 TAACATGAAT
*
18349958 TTTTAATTAAAATAATAA
1 TTTT-ATTAAAAAAATAA
18349976 TTTTATTAAAAAAATAA
1 TTTTATTAAAAAAATAA
*
18349993 TATTA-TAAATAAAATAA
1 TTTTATTAAA-AAAATAA
18350010 TTT
1 TTT
18350013 AAGGGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.12
17 25 0.76
18 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTATTAAAAAAATAA
Found at i:18352038 original size:12 final size:12
Alignment explanation
Indices: 18352021--18352051 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18352011 CTCAATAAGC
18352021 TTTAATTCAATA
1 TTTAATTCAATA
18352033 TTTAATTCAATA
1 TTTAATTCAATA
*
18352045 TCTAATT
1 TTTAATT
18352052 AAATTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATTCAATA
Found at i:18352188 original size:37 final size:37
Alignment explanation
Indices: 18352138--18352213 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
18352128 CTCTTCCAAG
18352138 GTTCTTTGCACTATCTTTCATTCAATCACACATAATT
1 GTTCTTTGCACTATCTTTCATTCAATCACACATAATT
18352175 GTTCTTTGCACTATCTTTCATTCAATCACACATAATT
1 GTTCTTTGCACTATCTTTCATTCAATCACACATAATT
18352212 GT
1 GT
18352214 CATACTTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (37 bp):
GTTCTTTGCACTATCTTTCATTCAATCACACATAATT
Found at i:18353390 original size:23 final size:23
Alignment explanation
Indices: 18353336--18353390 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
18353326 TTAAAATAAA
*
18353336 TTTCATTGATTCAATAATCATTC
1 TTTCATTTATTCAATAATCATTC
* *
18353359 TTACTTTTATTCAAATAATCATT-
1 TTTCATTTATTC-AATAATCATTC
18353382 TTTCATTTA
1 TTTCATTTA
18353391 ATCCACAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.31, C:0.15, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTCATTTATTCAATAATCATTC
Found at i:18357152 original size:22 final size:22
Alignment explanation
Indices: 18357135--18357180 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
18357125 GGGAGGGGGG
18357135 ATCGATGGTATTTTGAGGAAGA
1 ATCGATGGTATTTTGAGGAAGA
* *
18357157 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGA-AGA
18357180 A
1 A
18357181 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (22 bp):
ATCGATGGTATTTTGAGGAAGA
Found at i:18357186 original size:23 final size:22
Alignment explanation
Indices: 18357142--18357191 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
18357132 GGGATCGATG
**
18357142 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
18357164 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
18357187 GTATT
1 GTATT
18357192 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:18361855 original size:15 final size:15
Alignment explanation
Indices: 18361835--18361865 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18361825 TTTACTTTCT
18361835 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
18361850 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
18361865 A
1 A
18361866 AAACCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:18370121 original size:205 final size:203
Alignment explanation
Indices: 18369741--18370526 Score: 1157
Period size: 205 Copynumber: 3.8 Consensus size: 203
18369731 TAGGCCGCAG
* *
18369741 CATAACAGATCTGGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
1 CATAGCAGATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
*
18369806 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATCT
65 TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATCT
** *
18369870 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGAAGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
18369935 AGAGCAGACA
194 AGAGCAGACA
18369945 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
18370010 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* *
18370075 AAGATGATTTGAAGTTTCTGTATCGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGAAGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
*
18370140 AGAGCAGATA
194 AGAGCAGACA
* * * *
18370150 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGTAGATCCAAGATGGCTTGACATTCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
18370215 TTTACAAGGAACAAATCGAAGACATAACTGATTTGGCTTTTACGTGATTACGAGAAAGCAAATCT
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* * *
18370280 AAGATGATTTGTCA-TCTCTGTATCGTCAGAGAACAAATTGAAGTTTGGCATCTTCACTTTGATG
129 AAGATGATTTG-AAGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
18370344 GAGAGCAGACA
193 GAGAGCAGACA
* * * *
18370355 CATAGCAGATCTCACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTATG
1 CATAGCAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * * **
18370420 CTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCT
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* * * *
18370484 AAGATGATTTGGCA-TCTCTGTATTGTCAGGGAACAAATCGAAG
129 AAGATGATTT-GAAGTCTCTGTATCGTCAGAGAACGAATCGAAG
18370527 AAATAGATTT
Statistics
Matches: 534, Mismatches: 41, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
203 1 0.00
204 102 0.19
205 430 0.81
206 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (203 bp):
CATAGCAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAA
GATGATTTGAAGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAG
AGCAGACA
Found at i:18370733 original size:133 final size:133
Alignment explanation
Indices: 18370596--18370968 Score: 631
Period size: 133 Copynumber: 2.8 Consensus size: 133
18370586 TTCTTGAGTT
*
18370596 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCACCCCTGTGCTTATAGGGAACAAGTTGAAAAAC
1 ACAGTAAAGCAGATCGAAGATTTCAGCATGGCACCCCTGTGCTTATAGGGAACAAGTTGAAAAAC
* *
18370661 AGCAGATTTGGCATCCCTATGCTTATAGGGAATAGATCGAAGATAGCAGATCTGAAATTCCTGTG
66 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGAAATTCCTGTG
18370726 CTC
131 CTC
*
18370729 ACAGTAAAGCAGATCAAAGATTTCAGCATGGCACCCCTGTGCTTATAGGGAACAAGTTGAAAAAC
1 ACAGTAAAGCAGATCGAAGATTTCAGCATGGCACCCCTGTGCTTATAGGGAACAAGTTGAAAAAC
*
18370794 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTG
66 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGAAATTCCTGTG
*
18370859 CTT
131 CTC
* * * * *
18370862 ACAGTAAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTG-AAGAT
1 ACAGTAAAGCAGATCGAAGATTTCAGCATGGCACCCCTGTGCTTATAGGGAACAAGTTGAAAAAC
*
18370926 AGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGA
66 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGA
18370969 ACTTAAAACT
Statistics
Matches: 227, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
132 45 0.20
133 182 0.80
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (133 bp):
ACAGTAAAGCAGATCGAAGATTTCAGCATGGCACCCCTGTGCTTATAGGGAACAAGTTGAAAAAC
AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGAAATTCCTGTG
CTC
Found at i:18370857 original size:44 final size:44
Alignment explanation
Indices: 18370624--18370968 Score: 254
Period size: 44 Copynumber: 7.8 Consensus size: 44
18370614 GATTTCAGCA
* * * * *
18370624 TGGCACCCCTGTGCTTATAGGGAACA-AGTTGAAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCG-AAGATAGCAGATC
* *
18370669 TGGCATCCCTATGCTTATAGGGAATAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
** * * * ** * **
18370713 TGAAATTCCTGTGCTCACAGTAAAGCAGATCAAAGATTTCAG--C
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAGATC
* * * * *
18370756 ATGGCACCCCTGTGCTTATAGGGAACA-AGTTGAAAAACAGCAGATT
1 -TGGCATCCCTGTGCTTATAGGGAACAGA-TCG-AAGATAGCAGATC
18370802 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
* * * ** ***
18370846 TGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTTAG--C
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAGATC
* * *
18370889 ATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATT
1 -TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATC
*
18370934 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGA
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGA
18370969 ACTTAAAACT
Statistics
Matches: 227, Mismatches: 59, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
42 2 0.01
43 16 0.07
44 127 0.56
45 80 0.35
46 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
Found at i:18371409 original size:22 final size:22
Alignment explanation
Indices: 18371392--18371448 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
18371382 GGGAGGGGGG
18371392 ATCGATGGTATTTTGAGGAAGA
1 ATCGATGGTATTTTGAGGAAGA
* *
18371414 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGA-AGA
* *
18371437 ATAGATTGTATT
1 ATCGATGGTATT
18371449 AGAGGGGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (22 bp):
ATCGATGGTATTTTGAGGAAGA
Found at i:18371443 original size:23 final size:22
Alignment explanation
Indices: 18371399--18371448 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
18371389 GGGATCGATG
*
18371399 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAATAGATT
*
18371421 GTATTTTGGGGAGAGAATAGATT
1 GTATTTTGAGGA-AGAATAGATT
18371444 GTATT
1 GTATT
18371449 AGAGGGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (22 bp):
GTATTTTGAGGAAGAATAGATT
Found at i:18372173 original size:39 final size:40
Alignment explanation
Indices: 18372058--18372211 Score: 240
Period size: 39 Copynumber: 3.9 Consensus size: 40
18372048 ATAAAGTATG
*
18372058 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
18372098 GTTTTAATTAATAATAAAAATAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
18372138 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* * *
18372177 ATTTTAATTAATAAT-AAAACAAAGTAGCATGGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGG
18372212 GAGTGGAATC
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 54 0.50
40 53 0.50
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:18372213 original size:79 final size:80
Alignment explanation
Indices: 18372058--18372211 Score: 240
Period size: 79 Copynumber: 1.9 Consensus size: 80
18372048 ATAAAGTATG
** *
18372058 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGGTTTTAATTAATAATAAAAATAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAATTTTAATTAATAATAAAAACAAAA
*
18372123 TAGTATGGGGGAATA
66 TAGCATGGGGGAATA
* *
18372138 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTAATTTTAATTAATAAT-AAAACAAAG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAATTTTAATTAATAATAAAAACAAAA
18372201 TAGCATGGGGG
66 TAGCATGGGGG
18372212 GAGTGGAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 17 0.25
79 36 0.53
80 15 0.22
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (80 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAATTTTAATTAATAATAAAAACAAAA
TAGCATGGGGGAATA
Found at i:18373024 original size:17 final size:17
Alignment explanation
Indices: 18373002--18373034 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18372992 ATATTTCTAA
*
18373002 TACTATTACGTTATTAC
1 TACTATTACATTATTAC
18373019 TACTATTACATTATTA
1 TACTATTACATTATTA
18373035 TTATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TACTATTACATTATTAC
Found at i:18379071 original size:26 final size:26
Alignment explanation
Indices: 18379033--18379082 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
18379023 CATGAAATTC
18379033 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
18379059 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
18379083 TATTGTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:18380639 original size:19 final size:19
Alignment explanation
Indices: 18380615--18380656 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
18380605 CAATCAAAGT
*
18380615 CCAATAGCTAAACCTAGAC
1 CCAATAACTAAACCTAGAC
18380634 CCAATAACTAAACCTAGAC
1 CCAATAACTAAACCTAGAC
18380653 CCAA
1 CCAA
18380657 AGTTACGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.33, G:0.07, T:0.14
Consensus pattern (19 bp):
CCAATAACTAAACCTAGAC
Found at i:18383261 original size:131 final size:132
Alignment explanation
Indices: 18383019--18383270 Score: 326
Period size: 131 Copynumber: 1.9 Consensus size: 132
18383009 ATTATTCATT
* ** *** *
18383019 TAAAAATTCTTTAAAACGAAGGTGGTGTTCGATATTTGGCAATTCGCGGGATCGTGCCCTAACGT
1 TAAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
* * *
18383084 GCTGGGTTGCAATTTTTCGTTTACTCAAAATAATCGAATGTCCCTTTAGAATTTCATTCATGTTT
66 GCTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCATTCATGTTT
18383149 TC
131 TC
* * *
18383151 TAAAAATTCTTTAAAACGAAAGTAATACACGATGTTTGGCAATTCG-GGAATTGTGCCCTATCGT
1 TAAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
** ** * *
18383215 GCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCA
66 GCTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCA
18383271 CCCTTCTCTT
Statistics
Matches: 101, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
131 62 0.61
132 39 0.39
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (132 bp):
TAAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
GCTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCATTCATGTTT
TC
Found at i:18383287 original size:131 final size:132
Alignment explanation
Indices: 18383020--18383298 Score: 299
Period size: 131 Copynumber: 2.1 Consensus size: 132
18383010 TTATTCATTT
* ** *** *
18383020 AAAAATTCTTTAAAACGAAGGTGGTGTTCGATATTTGGCAATTCGCGGGATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
* * * ** *
18383085 CTGGGTTGCAATTTTTCGTTTACTCAAAATAATCGAATGTCCCTTTAGAATTTCATTCATGTTTT
66 CTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATCTTTT
*
18383150 CT
131 CA
* * *
18383152 AAAAATTCTTTAAAACGAAAGTAATACACGATGTTTGGCAATTCG-GGAATTGTGCCCTATCGTG
1 AAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
** ** * * *
18383216 CTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACCCTTCTCTT
66 CTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATCT-TT
*
18383281 TAAA
130 T-CA
*
18383285 AAAAATTCTCTAAA
1 AAAAATTCTTTAAA
18383299 TAAGGCAATG
Statistics
Matches: 119, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
131 65 0.55
132 41 0.34
133 13 0.11
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (132 bp):
AAAAATTCTTTAAAACGAAAGTAATACACGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
CTGGGTTGCAATTTCTCGTTTACTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATCTTTT
CA
Found at i:18384595 original size:18 final size:18
Alignment explanation
Indices: 18384572--18384610 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18384562 AAGAAAAATG
* *
18384572 TAAAAAATATAATATTTA
1 TAAAAAATAAAAAATTTA
*
18384590 TAAAAATTAAAAAATTTA
1 TAAAAAATAAAAAATTTA
18384608 TAA
1 TAA
18384611 TTATTTCCGA
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:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAAATAAAAAATTTA
Found at i:18399000 original size:20 final size:20
Alignment explanation
Indices: 18398960--18399070 Score: 93
Period size: 20 Copynumber: 5.3 Consensus size: 20
18398950 TCTCTTTGAA
*
18398960 TAAAAATTATAAAAATGATTTT
1 TAAAAATT-T-AAAATAATTTT
*
18398982 TAAAAATTTAAAATAATTTA
1 TAAAAATTTAAAATAATTTT
*
18399002 T-AAAATTTAAAAT-ATTTA
1 TAAAAATTTAAAATAATTTT
18399020 TAAAAATTCTAAAATTTATATTTTT
1 TAAAAATT-TAAAA--TA-A-TTTT
*
18399045 TAAAAA-TTATAATAATTTTT
1 TAAAAATTTAAAATAA-TTTT
18399065 TAAAAA
1 TAAAAA
18399071 ATTCTAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
18 6 0.08
19 18 0.23
20 27 0.35
21 3 0.04
22 9 0.12
23 4 0.05
24 2 0.03
25 9 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (20 bp):
TAAAAATTTAAAATAATTTT
Found at i:18399010 original size:9 final size:9
Alignment explanation
Indices: 18398980--18399039 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
18398970 AAAAATGATT
18398980 TTTA-AAAA
1 TTTATAAAA
*
18398988 TTTAAAATAA
1 TTTATAA-AA
18398998 TTTATAAAA
1 TTTATAAAA
18399007 TTTA-AAATA
1 TTTATAAA-A
18399016 TTTATAAAA
1 TTTATAAAA
* *
18399025 ATTCTAAAA
1 TTTATAAAA
18399034 TTTATA
1 TTTATA
18399040 TTTTTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.16
9 25 0.58
10 11 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTATAAAA
Found at i:18399018 original size:18 final size:19
Alignment explanation
Indices: 18398980--18399034 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
18398970 AAAAATGATT
18398980 TTTA-AAAATTTAAAATAA
1 TTTATAAAATTTAAAATAA
18398998 TTTATAAAATTTAAAAT-A
1 TTTATAAAATTTAAAATAA
18399016 TTTATAAAAATTCTAAAAT
1 TTTAT-AAAATT-TAAAAT
18399035 TTATATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.29
19 18 0.53
20 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTATAAAATTTAAAATAA
Found at i:18403431 original size:15 final size:14
Alignment explanation
Indices: 18403398--18403433 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
18403388 TAATTTCTAT
18403398 ATATATATTCTAAA
1 ATATATATTCTAAA
18403412 A-ATATATTCATAAA
1 ATATATATTC-TAAA
18403426 ATATATAT
1 ATATATAT
18403434 AGTACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATTCTAAA
Found at i:18405836 original size:41 final size:42
Alignment explanation
Indices: 18405769--18405849 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
18405759 AATTATGTTA
* *
18405769 ATATGTTTTGATCACTCAAAAATGATTCAATGATTAGTAAGT
1 ATATATTTTGATCACTCAAAAATGATTCAATGATCAGTAAGT
**
18405811 ATATATTTTGATCA-TTTAAAATGATTCAATGATCAGTAA
1 ATATATTTTGATCACTCAAAAATGATTCAATGATCAGTAA
18405850 AATAAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (42 bp):
ATATATTTTGATCACTCAAAAATGATTCAATGATCAGTAAGT
Found at i:18408628 original size:19 final size:19
Alignment explanation
Indices: 18408604--18408642 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18408594 AGCGAATCCT
18408604 AACAACAGCCTGAACATGA
1 AACAACAGCCTGAACATGA
18408623 AACAACAGCCTGAACATGA
1 AACAACAGCCTGAACATGA
18408642 A
1 A
18408643 CATATAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.15, T:0.10
Consensus pattern (19 bp):
AACAACAGCCTGAACATGA
Found at i:18410987 original size:28 final size:27
Alignment explanation
Indices: 18410943--18411019 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 27
18410933 AATTTATATT
*
18410943 TTATATTAAATTATTTAAATATAATTTA
1 TTATATTTAATT-TTTAAATATAATTTA
*
18410971 TTATATTTAAGTTTTTAAA-ATATTTTA
1 TTATATTTAA-TTTTTAAATATAATTTA
18410998 TGTAT-TATTAATTTTATAAATA
1 T-TATAT-TTAATTTT-TAAATA
18411020 ATTTATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
27 13 0.31
28 26 0.62
29 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (27 bp):
TTATATTTAATTTTTAAATATAATTTA
Found at i:18411006 original size:29 final size:26
Alignment explanation
Indices: 18410956--18411035 Score: 65
Period size: 28 Copynumber: 2.8 Consensus size: 26
18410946 TATTAAATTA
*
18410956 TTTAAATATAATTTATTA-TATTTAAGTT
1 TTTAAA-ATATTTTATTATTATTTAA--T
18410984 TTTAAAATATTTTATGTATTA-TTAAT
1 TTTAAAATATTTTAT-TATTATTTAAT
18411010 TTTATAAATAATTTATATTTATTATT
1 TTTA-AAAT-ATTT-TA-TTATTATT
18411036 CAAAGTATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
26 5 0.11
27 12 0.27
28 16 0.36
29 9 0.20
30 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTAAAATATTTTATTATTATTTAAT
Found at i:18411012 original size:26 final size:29
Alignment explanation
Indices: 18410983--18411035 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
18410973 ATATTTAAGT
18410983 TTTTA-AAAT-ATTT-TATGTATTATTAA
1 TTTTATAAATAATTTATATGTATTATTAA
*
18411009 TTTTATAAATAATTTATATTTATTATT
1 TTTTATAAATAATTTATATGTATTATT
18411036 CAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 4 0.17
28 4 0.17
29 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTATAAATAATTTATATGTATTATTAA
Found at i:18416302 original size:2 final size:2
Alignment explanation
Indices: 18416297--18416321 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18416287 TCCCGAGAAA
18416297 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
18416322 AGAGAGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:18416326 original size:2 final size:2
Alignment explanation
Indices: 18416321--18416385 Score: 62
Period size: 2 Copynumber: 32.5 Consensus size: 2
18416311 GTGTGTGTGT
* * *
18416321 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA TGA CA TGG GA CA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA -GA GA GA GA
*
18416365 GA GA -A G- GA GA GA GA GA TA GA G
1 GA GA GA GA GA GA GA GA GA GA GA G
18416386 CTCGAAAGCG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
1 2 0.04
2 47 0.92
3 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.46, T:0.05
Consensus pattern (2 bp):
GA
Found at i:18421305 original size:3 final size:3
Alignment explanation
Indices: 18421299--18421345 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
18421289 ATTTGCAGCC
18421299 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18421346 AGACATCTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18421866 original size:3 final size:3
Alignment explanation
Indices: 18421858--18421918 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
18421848 CTGCCAAATG
* *
18421858 TAT TAT TAT TAT TAT T-T T-T TGAC AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
*
18421902 TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
18421919 AGAAGAGGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:18425743 original size:43 final size:43
Alignment explanation
Indices: 18425695--18425781 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
18425685 TCTCAAATCT
*
18425695 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAATCTTTTTTA
1 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
*
18425738 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTGACCTTTTTTA
1 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
18425781 T
1 T
18425782 CTCTCCTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.51
Consensus pattern (43 bp):
TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
Found at i:18426574 original size:26 final size:26
Alignment explanation
Indices: 18426538--18426933 Score: 765
Period size: 26 Copynumber: 15.2 Consensus size: 26
18426528 TGACACAAAT
18426538 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426564 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
18426590 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426616 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426642 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426668 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426694 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426720 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426746 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426772 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426798 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426824 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426850 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426876 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18426902 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18426928 TGATAA
1 TGATAA
18426934 GAATTTCATG
Statistics
Matches: 366, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 366 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:18428629 original size:27 final size:26
Alignment explanation
Indices: 18428550--18428665 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
18428540 TGGAGGAAGC
* * *
18428550 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCA-TATTATCT
* * *
18428577 GATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCATAT-TATCT
18428604 GTTCTGGTGGCTCTGCCATGATTATCT
1 GTTCTGGTGGCTCTGCCAT-ATTATCT
* *
18428631 GTATCTGGTGACTCTGTCATATTATCT
1 GT-TCTGGTGGCTCTGCCATATTATCT
18428658 GTTCTGGT
1 GTTCTGGT
18428666 AGCCATGCTG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCATATTATCT
Found at i:18428657 original size:54 final size:54
Alignment explanation
Indices: 18428550--18428665 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
18428540 TGGAGGAAGC
*
18428550 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
* ** * * * *
18428604 GTTCTGGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCATAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCT
18428658 GTTCTGGT
1 GTTCTGGT
18428666 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCT
Found at i:18428750 original size:19 final size:22
Alignment explanation
Indices: 18428726--18428765 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
18428716 TTCCCCACAC
18428726 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
18428745 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
18428766 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:18435562 original size:4 final size:4
Alignment explanation
Indices: 18435549--18436499 Score: 1884
Period size: 4 Copynumber: 237.8 Consensus size: 4
18435539 AATCAATTAA
*
18435549 ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435597 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435645 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435693 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435741 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435789 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435837 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435885 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435933 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18435981 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436029 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436077 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436125 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436173 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436221 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436269 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436317 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436365 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18436413 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
18436461 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
18436500 CATTTTTCAT
Statistics
Matches: 943, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 943 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:18438695 original size:7 final size:7
Alignment explanation
Indices: 18438679--18438716 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
18438669 TAGAATAATA
18438679 AAATTCT
1 AAATTCT
*
18438686 AAATTTT
1 AAATTCT
18438693 AAATTCT
1 AAATTCT
18438700 AAATTCT
1 AAATTCT
18438707 AAATTCT
1 AAATTCT
18438714 AAA
1 AAA
18438717 CCCACTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTCT
Found at i:18440835 original size:17 final size:17
Alignment explanation
Indices: 18440802--18440837 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18440792 CCATCAATTT
**
18440802 TTGTTTCTTTTTTCAAA
1 TTGTTTCTTTTAACAAA
18440819 TTGTTTCTTTTAACAAA
1 TTGTTTCTTTTAACAAA
18440836 TT
1 TT
18440838 TGATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (17 bp):
TTGTTTCTTTTAACAAA
Found at i:18441046 original size:19 final size:18
Alignment explanation
Indices: 18441023--18441073 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
18441013 TTTTTTTAGA
18441023 TAATTACATTTATTTTTT
1 TAATTACATTTATTTTTT
* *
18441041 TAAATTAGGATTTAATTTTT
1 T-AATTA-CATTTATTTTTT
*
18441061 TAATTTCATTTAT
1 TAATTACATTTAT
18441074 GATTTATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 6 0.23
19 9 0.35
20 11 0.42
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (18 bp):
TAATTACATTTATTTTTT
Found at i:18454483 original size:43 final size:43
Alignment explanation
Indices: 18454436--18454519 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
18454426 AAGCAAACAT
18454436 GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAACGA
1 GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAACGA
18454479 GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAAC
1 GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAAC
18454520 AATCGTGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
GGGGTTAATCCTTGGATTCTTACAAAGAGCGCAATTCTAACGA
Found at i:18458159 original size:14 final size:14
Alignment explanation
Indices: 18458140--18458166 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18458130 TAATTAATAA
18458140 TTAAAATGAAAGTG
1 TTAAAATGAAAGTG
18458154 TTAAAATGAAAGT
1 TTAAAATGAAAGT
18458167 CAGGATGAAC
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:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (14 bp):
TTAAAATGAAAGTG
Found at i:18459109 original size:98 final size:99
Alignment explanation
Indices: 18458926--18459122 Score: 247
Period size: 98 Copynumber: 2.0 Consensus size: 99
18458916 TATTTATTGA
* *
18458926 TTAACTCCGATTGCGTCATTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAG
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
*
18458991 ATTGGAGTATTGATTAATTACTTTATAATTCAAT
66 ATCGGAGTATTGATTAATTACTTTATAATTCAAT
* * * * * * * *
18459025 TTAATTCCGATTGCGTCACTGTTTTGGTTCAGTT-AGAAAATGTGAGAGTT-TGGATTTCTTTAA
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGG-TTACTTTAA
*
18459088 CATCGGA-TCATTTATTAATTACTTTATAATTCAAT
65 CATCGGAGT-ATTGATTAATTACTTTATAATTCAAT
18459123 AGGTATTTGA
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
97 3 0.04
98 51 0.61
99 30 0.36
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (99 bp):
TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
ATCGGAGTATTGATTAATTACTTTATAATTCAAT
Found at i:18485886 original size:51 final size:51
Alignment explanation
Indices: 18485810--18485924 Score: 221
Period size: 51 Copynumber: 2.3 Consensus size: 51
18485800 CGGATCTCAT
*
18485810 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTGAGGCTACCAC
18485861 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTGAGGCTACCAC
18485912 TTATCACTTGTCA
1 TTATCACTTGTCA
18485925 TTGATCAGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAATGTAGCTGAGGCTACCAC
Found at i:18488514 original size:16 final size:17
Alignment explanation
Indices: 18488483--18488515 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18488473 TTCATAAGTA
18488483 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
18488500 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
18488516 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:18488861 original size:46 final size:46
Alignment explanation
Indices: 18488796--18488974 Score: 227
Period size: 46 Copynumber: 3.9 Consensus size: 46
18488786 TTATCTTTGA
* * * * *
18488796 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGT
** * *
18488842 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGT
*
18488888 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGT
*
18488934 CA-GATTGCCATGGTATCTTTCAAACATGGTCTTACACATTT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
18488975 CATATCAGAG
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
45 4 0.03
46 111 0.95
47 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGT
Found at i:18489082 original size:54 final size:54
Alignment explanation
Indices: 18489018--18489214 Score: 254
Period size: 54 Copynumber: 3.6 Consensus size: 54
18489008 CTTGCAGTGA
18489018 GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGG
1 GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGG
* * * * *
18489072 GATTACCAGTCTAGGCTAAATCCCCTGCAACGACAATCACTC-TAATGAGCT-TGGATCTG
1 GATTACCAGTCCAGGCTAAATCCCCTGCAA-TATAA--ACTCAT-A-GAG-TAT-TATCGG
*
18489131 AATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGG
1 GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGG
*
18489185 GATTACCAGTCTAGGCTAAATCCCCTGCAA
1 GATTACCAGTCCAGGCTAAATCCCCTGCAA
18489215 CGACAATCAC
Statistics
Matches: 121, Mismatches: 13, Indels: 18
0.80 0.09 0.12
Matches are distributed among these distances:
54 62 0.51
55 7 0.06
56 6 0.05
57 6 0.05
58 7 0.06
59 33 0.27
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (54 bp):
GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGG
Found at i:18489150 original size:59 final size:59
Alignment explanation
Indices: 18489073--18489264 Score: 254
Period size: 59 Copynumber: 3.3 Consensus size: 59
18489063 TATTATCGGG
*
18489073 ATTACCAGTCTAGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
* * * * *
18489132 ATTACCAGTCCAGGCTAAATCCCCTGCAA-TATAA--ACTC--ATAGAG-TAT-TATCGGG
1 ATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATCACTCTAAT-GAGCT-TGGATCTGA
*
18489186 ATTACCAGTCTAGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
18489245 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
18489265 TCAGACCCGA
Statistics
Matches: 111, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
54 35 0.32
55 7 0.06
56 4 0.04
57 4 0.04
58 7 0.06
59 54 0.49
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (59 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
Found at i:18489217 original size:113 final size:113
Alignment explanation
Indices: 18489019--18489264 Score: 492
Period size: 113 Copynumber: 2.2 Consensus size: 113
18489009 TTGCAGTGAG
18489019 ATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGGGATTACCAGTCT
1 ATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGGGATTACCAGTCT
18489084 AGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
66 AGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
18489132 ATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGGGATTACCAGTCT
1 ATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGGGATTACCAGTCT
18489197 AGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
66 AGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
18489245 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
18489265 TCAGACCCGA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 133 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (113 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTATCGGGATTACCAGTCT
AGGCTAAATCCCCTGCAACGACAATCACTCTAATGAGCTTGGATCTGA
Found at i:18506023 original size:42 final size:42
Alignment explanation
Indices: 18505917--18506023 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
18505907 GATAAAATGC
* * *
18505917 CACGGCCGTGCGACATGGCCGTGGTCGAACTTGCCAAATTAA
1 CACGGGCGTGCGACATGGCCGTGGGCAAACTTGCCAAATTAA
* * **
18505959 CACGAGCGTGCGGCCGGGCCGTGGGCAAA-TCTGCCAAATTAA
1 CACGGGCGTGCGACATGGCCGTGGGCAAACT-TGCCAAATTAA
* *
18506001 CACGGGCGTGCAACATGTCCGTG
1 CACGGGCGTGCGACATGGCCGTG
18506024 TCTAGCACCT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.22, C:0.29, G:0.32, T:0.17
Consensus pattern (42 bp):
CACGGGCGTGCGACATGGCCGTGGGCAAACTTGCCAAATTAA
Found at i:18511655 original size:43 final size:43
Alignment explanation
Indices: 18511607--18511763 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
18511597 GCCTGAATTC
*
18511607 GTGTAAGACCATGTCCGGGACATTGGCATTGATATGAGATTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTAT
* *
18511650 GTGTAAGACCATGTCTGGGACATTAGCA-TCATAT-ATGATT-T
1 GTGTAAGACCATGTCTGGGACATTGGCATTGATATGA-GATTAT
* ** * * *
18511691 GTGTAAGACCCTGTCTGGGACAGAGGCATTGATATGTGATAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTAT
* * *
18511734 ATGTAAGACCATATCTGGGATA-TGGCATTG
1 GTGTAAGACCATGTCTGGGACATTGGCATTG
18511764 TATTTGATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 26 0.28
42 24 0.26
43 44 0.47
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTAT
Found at i:18522001 original size:47 final size:47
Alignment explanation
Indices: 18521889--18522160 Score: 233
Period size: 47 Copynumber: 5.8 Consensus size: 47
18521879 AGTTGTTTCT
*
18521889 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATT---ATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGG---CATTGAGACGA
* * *
18521935 GAGCTAGTTTAAGACCATGTTTGGGACATGGCATCGGCATTGAAACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGACGA
* * * *
18521983 GAGCTAGTGTATGA-CATGTCTGGGACATGCATCGACCTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGACG-A
* * * *
18522030 -AGCCAGTGTAAGA-CATGTCTGGGACATGTATCGGC-TACGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAGACGA
* * * *
18522075 TAG-TCAGTGTAAGACCGTGTCTGGGACATGGCATCGAC-TTGAGA-TA
1 GAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGACGA
18522121 TGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCA
1 -GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
18522161 CCTTACCCAT
Statistics
Matches: 187, Mismatches: 25, Indels: 26
0.79 0.11 0.11
Matches are distributed among these distances:
45 6 0.03
46 75 0.40
47 76 0.41
48 30 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGACGA
Found at i:18522146 original size:140 final size:141
Alignment explanation
Indices: 18521894--18522157 Score: 358
Period size: 140 Copynumber: 1.9 Consensus size: 141
18521884 TTTCTGAGCT
* * *
18521894 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTTTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
* *
18521959 GACATGGCATCGGCATTGAAACGAGAGCTAGTGTATGACATGTCTGGGACAT-GCATCGACCTCG
66 GACATGGCATCGACATTGAAACGAGAGCTAGTGTAAGACATGTCTGGGACATAGCATCGACCTCG
18522023 AGACGTAAGCC
131 AGACGTAAGCC
* * * *
18522034 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGA-GATGATAG-TCAGTGTAAGACCGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCT-AGTGTAAGACCATGTCT
* *
18522097 GGGACATGGCATCGAC-TTGAGA-TATGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCG
64 GGGACATGGCATCGACATTGAAACGA-GAGCTAGTGTAAGA-CATGTCTGGGACATAGCATCG
18522158 GCACCTTACC
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 81 0.75
141 7 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAAACGAGAGCTAGTGTAAGACATGTCTGGGACATAGCATCGACCTCG
AGACGTAAGCC
Found at i:18529634 original size:48 final size:48
Alignment explanation
Indices: 18529579--18529810 Score: 260
Period size: 47 Copynumber: 4.9 Consensus size: 48
18529569 CGACCACATT
* *
18529579 ATGAGAGCCAATGTAAGACCATCTCTGGGACATGGCATCAGCATTGAG
1 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCATCGAG
* * *
18529627 ACGAGAGCTAATGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAG
1 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCATCGAG
*
18529673 ATGTA-AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGC-TACGAG
1 ATG-AGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCAT-CGAG
* * * * *
18529721 ATGATAGTCAGTGTAAGACCGTGTCTGGGACATGGCATC-G-ACTTGAG
1 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCA-TCGAG
* * * *
18529768 ATGTGAGCCAGTGTAAGGCCGTGTCTGGGACATGGCATCAGCA
1 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCA
18529811 CCTTACCCAC
Statistics
Matches: 159, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
46 26 0.16
47 69 0.43
48 63 0.40
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCATCGAG
Found at i:18529700 original size:94 final size:94
Alignment explanation
Indices: 18529537--18529810 Score: 306
Period size: 94 Copynumber: 2.9 Consensus size: 94
18529527 ATTTGTTTGT
* * *
18529537 GAGCTAGTGTAATACATGTCTGGGACATGCATCGACCAC-ATTATG-AGAGCCAATGTAAGACCA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG-CCTCGA-GATGTA-AGCCAATGTAAGACCA
* *
18529600 TCTCTGGGACATGGCATCAGCAT-TGAGACGA
63 TGTCTGGGACATGGCATCAGCATACGAGACGA
*
18529631 GAGCTAATGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAATGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGATGTAAGCCAATGTAAGACCATG
* *
18529696 TCTGGGACATGGCATCGGC-TACGAGATGA
65 TCTGGGACATGGCATCAGCATACGAGACGA
* * * * * * * *
18529725 TAG-TCAGTGTAAGACCGTGTCTGGGACATGGCATCGACTTGAGATGTGAGCCAGTGTAAGGCCG
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCTCGAGATGTAAGCCAATGTAAGACCA
18529789 TGTCTGGGACATGGCATCAGCA
63 TGTCTGGGACATGGCATCAGCA
18529811 CCTTACCCAC
Statistics
Matches: 154, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
93 2 0.01
94 88 0.57
95 59 0.38
96 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGATGTAAGCCAATGTAAGACCATGT
CTGGGACATGGCATCAGCATACGAGACGA
Found at i:18529790 original size:47 final size:47
Alignment explanation
Indices: 18529534--18529806 Score: 245
Period size: 47 Copynumber: 5.8 Consensus size: 47
18529524 GTCATTTGTT
* * * * *
18529534 TGTGAGCTAGTGTAATA-CATGTCTGGGACAT-GCATCGAC-CACATTA
1 TGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACTC-GA-GA
* * *
18529580 TGAGAGCCAATGTAAGACCATCTCTGGGACATGGCATC-AGCATTGAGA
1 TGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGA-C-TCGAGA
* * * *
18529628 CGAGAGCTAATGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGA
1 TGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGA
* *
18529674 TGTAAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGA
1 TGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGA
* * * *
18529722 TGAT-AGTCAGTGTAAGACCGTGTCTGGGACATGGCATCGACTTGAGA
1 TG-TGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACTCGAGA
* * *
18529769 TGTGAGCCAGTGTAAGGCCGTGTCTGGGACATGGCATC
1 TGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATC
18529807 AGCACCTTAC
Statistics
Matches: 190, Mismatches: 25, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
46 37 0.19
47 83 0.44
48 68 0.36
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
TGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACTCGAGA
Found at i:18530572 original size:53 final size:53
Alignment explanation
Indices: 18530492--18530597 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 53
18530482 CCACACGGGT
18530492 AGACACAAGGGAGTGTGTCTAGACCGTGTG-TGACACACGGTCTGCCCCATGGG
1 AGACACAAGGGAGTGTGTCTAGACCGTGTGTTG-CACACGGTCTGCCCCATGGG
* * * *
18530545 AGACACACGGGCGTGTGTCTAGGCCGTGTGTTGCACACGGTCTGCCCTATGGG
1 AGACACAAGGGAGTGTGTCTAGACCGTGTGTTGCACACGGTCTGCCCCATGGG
18530598 CGTGTAGTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 46 0.96
54 2 0.04
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (53 bp):
AGACACAAGGGAGTGTGTCTAGACCGTGTGTTGCACACGGTCTGCCCCATGGG
Found at i:18547262 original size:176 final size:176
Alignment explanation
Indices: 18546968--18547321 Score: 708
Period size: 176 Copynumber: 2.0 Consensus size: 176
18546958 TCCGAGGTAA
18546968 GTTGTACGTAAATAATACAACTACTTTGATAATATATGTGCTTGAATTGTATTGAAATTATTATA
1 GTTGTACGTAAATAATACAACTACTTTGATAATATATGTGCTTGAATTGTATTGAAATTATTATA
18547033 GCATAAATTTCTTGATTTGTGGAAATGAGAAAATGTGATGAGAGTAGAGATAGTAAAATTCCCGT
66 GCATAAATTTCTTGATTTGTGGAAATGAGAAAATGTGATGAGAGTAGAGATAGTAAAATTCCCGT
18547098 TGGAACCTTAGGGAAATAAATCGGATATTCATGCCATAACGATGGG
131 TGGAACCTTAGGGAAATAAATCGGATATTCATGCCATAACGATGGG
18547144 GTTGTACGTAAATAATACAACTACTTTGATAATATATGTGCTTGAATTGTATTGAAATTATTATA
1 GTTGTACGTAAATAATACAACTACTTTGATAATATATGTGCTTGAATTGTATTGAAATTATTATA
18547209 GCATAAATTTCTTGATTTGTGGAAATGAGAAAATGTGATGAGAGTAGAGATAGTAAAATTCCCGT
66 GCATAAATTTCTTGATTTGTGGAAATGAGAAAATGTGATGAGAGTAGAGATAGTAAAATTCCCGT
18547274 TGGAACCTTAGGGAAATAAATCGGATATTCATGCCATAACGATGGG
131 TGGAACCTTAGGGAAATAAATCGGATATTCATGCCATAACGATGGG
18547320 GT
1 GT
18547322 CATTTGTGAG
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 178 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (176 bp):
GTTGTACGTAAATAATACAACTACTTTGATAATATATGTGCTTGAATTGTATTGAAATTATTATA
GCATAAATTTCTTGATTTGTGGAAATGAGAAAATGTGATGAGAGTAGAGATAGTAAAATTCCCGT
TGGAACCTTAGGGAAATAAATCGGATATTCATGCCATAACGATGGG
Found at i:18555257 original size:15 final size:15
Alignment explanation
Indices: 18555237--18555267 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18555227 TTGCGTGAAA
*
18555237 GAGAGCAATTATTCT
1 GAGAGCAAGTATTCT
18555252 GAGAGCAAGTATTCT
1 GAGAGCAAGTATTCT
18555267 G
1 G
18555268 CCAACTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (15 bp):
GAGAGCAAGTATTCT
Found at i:18576981 original size:29 final size:30
Alignment explanation
Indices: 18576925--18576983 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18576915 AATGATAAAA
18576925 TAATTTAATTTATTAAAAATAATAAAAATT
1 TAATTTAATTTATTAAAAATAATAAAAATT
*
18576955 TAATTTGA-TTATTTAAAAA-ATATAAAAAT
1 TAATTTAATTTA-TTAAAAATA-ATAAAAAT
18576984 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (30 bp):
TAATTTAATTTATTAAAAATAATAAAAATT
Found at i:18577198 original size:19 final size:19
Alignment explanation
Indices: 18577174--18577217 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18577164 AGTTTTGGGT
*
18577174 TTTTTAAATTTGTTTCATA
1 TTTTTAAATTTATTTCATA
*
18577193 TTTTTAAATTTATTTTATA
1 TTTTTAAATTTATTTCATA
*
18577212 TATTTA
1 TTTTTA
18577218 TAATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTAAATTTATTTCATA
Found at i:18578342 original size:28 final size:27
Alignment explanation
Indices: 18578302--18578355 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
18578292 ATGTGAGTGA
18578302 AAAATATTATATAATAAA-TATATTAATT
1 AAAATATTATATAA-AAACTA-ATTAATT
18578330 AAAAT-TTCATATAAAAACTAATTAAT
1 AAAATATT-ATATAAAAACTAATTAAT
18578356 GGTTTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATATTATATAAAAACTAATTAATT
Found at i:18580751 original size:36 final size:33
Alignment explanation
Indices: 18580689--18580762 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
18580679 AAGCATATTT
*
18580689 TTATTATTGTATTACTATTAAATATTATAAGTA
1 TTATTATTGTATGACTATTAAATATTATAAGTA
* * *
18580722 TTATTATTGTATGATTATTAAATATTATTATTA
1 TTATTATTGTATGACTATTAAATATTATAAGTA
18580755 TTATTATT
1 TTATTATT
18580763 AAAGAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.57
Consensus pattern (33 bp):
TTATTATTGTATGACTATTAAATATTATAAGTA
Found at i:18590982 original size:12 final size:12
Alignment explanation
Indices: 18590965--18590992 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18590955 AGCTTCGGTC
18590965 GCCGTCCGTCGT
1 GCCGTCCGTCGT
18590977 GCCGTCCGTCGT
1 GCCGTCCGTCGT
18590989 GCCG
1 GCCG
18590993 GCGTTGCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.36, T:0.21
Consensus pattern (12 bp):
GCCGTCCGTCGT
Found at i:18591375 original size:68 final size:69
Alignment explanation
Indices: 18591268--18591401 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 69
18591258 GTACCCCCGA
18591268 AAAAAAAAACCCCCCTAGAGAGTTATATGCTTGGCTTTTTATAGCCGATATTAATTCCTATTTTT
1 AAAAAAAAACCCCCCTAGAGAGTTATATGCTTGGCTTTTTATAGCCGATATTAATTCCTATTTTT
18591333 TCCG
66 TCCG
18591337 AAAAAAAAA-CCCCCTAGAGAGTTATATGCTTGGCTTTTTATAGCCGATATTAATTCCTATTTTT
1 AAAAAAAAACCCCCCTAGAGAGTTATATGCTTGGCTTTTTATAGCCGATATTAATTCCTATTTTT
18591401 T
66 T
18591402 GTTTTTTTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
68 56 0.86
69 9 0.14
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (69 bp):
AAAAAAAAACCCCCCTAGAGAGTTATATGCTTGGCTTTTTATAGCCGATATTAATTCCTATTTTT
TCCG
Found at i:18599788 original size:27 final size:27
Alignment explanation
Indices: 18599757--18599925 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
18599747 TAAATTGTAC
18599757 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18599784 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18599810 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18599838 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18599866 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18599893 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
18599920 AGCACT
1 AGCACT
18599926 GNNNNNNNNN
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.